Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold601
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1259944
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.29
Warning! 136746 characters in sequence are not A, C, G, or T
File 4 of 5
Found at i:562720 original size:437 final size:438
Alignment explanation
Indices: 561946--562942 Score: 1631
Period size: 437 Copynumber: 2.3 Consensus size: 438
561936 TTTACAAACT
*
561946 TATATTGTTACGATCAACAACTTTG-TATCTATAATGCATTACAAAATTTTGATAGTTTTTAAGT
1 TATATTGTTACGATCAACAACTTTGCT-TCTATAATGCATTACAAAATCTTGATAGTTTTTAAGT
*
562010 TATTTGTAATAGAGTTTTCGAGTGTCTTGACCCCTAATTTAAGGGGCCAGCCCC-TTTTTCTTGA
65 TATTTGTAATAGAGTTTACGAGTGTCTTGACCCCTAATTTAAGGGGCCAGCCCCTTTTTTCTTGA
*
562074 GTTCCTTCGAAAAGTCTAACTAATACTAACAATTTTTGTTCTTACACTTATGTAGAATTGTTGTT
130 GTTCATTCGAAAAGTCTAACTAATACTAACAATTTTTGTTCTTACACTTATGTAGAATTGTTGTT
*
562139 CATATTTTAGATACAAATGATTGGATATTTAAGGGGCCAGCCCTCTAGATCCTTAATGAAAACAG
195 CATATTTTAGATACAAATGATTGAATATTTAAGGGGCCAGCCCTCTAGATCCTTAATGAAAACAG
* * * *
562204 ACTTTGGTGATTTGATTAATGGAATTGGTTAGAATCATCAATGCAAACATTTTCTCTTCTACAAT
260 ACATTGGTGATTTGATAAATGGAACTGATTAGAATCATCAATGCAAACATTTTCTCTTCTACAAT
* * *
562269 ACTTAACAAAATATGTCTCCTTTTCTAGATATATTGCGTCAATGTTTAAGTACTTTGGCCCCTAA
325 ACTTAACAAAATATGTCTCCTTTTCTAAATATATTGCGTCAAAGTTTAAGAACTTTGGCCCCTAA
562334 AAATCCCTAATTACGTAATAAATGGGCGTGGCAATGATTTTACCTGATA
390 AAATCCCTAATTACGTAATAAATGGGCGTGGCAATGATTTTACCTGATA
* *
562383 TATATTGTTACGATCAACAACGTTGCTTCTATAATGCATTACAAAATCTTGATAGTTTTTAAGGT
1 TATATTGTTACGATCAACAACTTTGCTTCTATAATGCATTACAAAATCTTGATAGTTTTTAAGTT
562448 ATTTGTAATAGAGTTTACGAGTGTCTTGACCCCTAATTTAAGGGGCCAGCCCCTTTTTTCTTGAG
66 ATTTGTAATAGAGTTTACGAGTGTCTTGACCCCTAATTTAAGGGGCCAGCCCCTTTTTTCTTGAG
* * *
562513 TTCATTCGAAAGGTTTCACTAATACTAACAATTTTTGTTCTTACACTTATGTAGAATTGTTGTTC
131 TTCATTCGAAAAGTCTAACTAATACTAACAATTTTTGTTCTTACACTTATGTAGAATTGTTGTTC
* ***
562578 ATATTTTAGATACAAATGATTGAATATTTAAGGGGCCAG-CTTCTAGATCCTTAATGGGGACAGA
196 ATATTTTAGATACAAATGATTGAATATTTAAGGGGCCAGCCCTCTAGATCCTTAATGAAAACAGA
* * *
562642 CATTGGTGTTTTGATAAATGGAACTGATTAGAATCATCAATGCAAACATTTTCTCTTCTATAATG
261 CATTGGTGATTTGATAAATGGAACTGATTAGAATCATCAATGCAAACATTTTCTCTTCTACAATA
*
562707 CTTTACAAAATATGTCTCCTTTTCTAAATATATTGCGTCAAAGTTTAAGAACTTTGGCCCCTAAA
326 CTTAACAAAATATGTCTCCTTTTCTAAATATATTGCGTCAAAGTTTAAGAACTTTGGCCCCTAAA
* *
562772 ACTCCCTAATTACGTGATAAATGGGCGTGGCAATGATTTTACCTGATA
391 AATCCCTAATTACGTAATAAATGGGCGTGGCAATGATTTTACCTGATA
* * *
562820 TATATTGTTACGATCAACAACTTTGCTTCTATAATGCATTACAAAATCTTTATCGTCTTTAAGTT
1 TATATTGTTACGATCAACAACTTTGCTTCTATAATGCATTACAAAATCTTGATAGTTTTTAAGTT
* * * * * ***
562885 ATTTGTATTATAGTTTACAAGTGTCTTGGCCCTTAAAGAAAGGGGCCAGCCCCTTTTT
66 ATTTGTAATAGAGTTTACGAGTGTCTTGACCCCTAATTTAAGGGGCCAGCCCCTTTTT
562943 GTTGAATTTG
Statistics
Matches: 519, Mismatches: 39, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
437 408 0.79
438 111 0.21
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (438 bp):
TATATTGTTACGATCAACAACTTTGCTTCTATAATGCATTACAAAATCTTGATAGTTTTTAAGTT
ATTTGTAATAGAGTTTACGAGTGTCTTGACCCCTAATTTAAGGGGCCAGCCCCTTTTTTCTTGAG
TTCATTCGAAAAGTCTAACTAATACTAACAATTTTTGTTCTTACACTTATGTAGAATTGTTGTTC
ATATTTTAGATACAAATGATTGAATATTTAAGGGGCCAGCCCTCTAGATCCTTAATGAAAACAGA
CATTGGTGATTTGATAAATGGAACTGATTAGAATCATCAATGCAAACATTTTCTCTTCTACAATA
CTTAACAAAATATGTCTCCTTTTCTAAATATATTGCGTCAAAGTTTAAGAACTTTGGCCCCTAAA
AATCCCTAATTACGTAATAAATGGGCGTGGCAATGATTTTACCTGATA
Found at i:565538 original size:437 final size:438
Alignment explanation
Indices: 564676--565963 Score: 1996
Period size: 437 Copynumber: 2.9 Consensus size: 438
564666 GTGTAAGAGC
* * *
564676 TTTGTTCAACAAGTGTTTAGAAATTCGTCACCGTTCTTGAGATATCTCAGAAAGAATATTTTAGG
1 TTTGTTCAACAAGTGTTCAGAAATTCGTTACCATTCTTGAGATATCTCAGAAAGAATATTTTAGG
* ** * * * *
564741 GGCCGG-ACCTTATCTCCTTATTGGGGCCGCTGAAAAAAAATTGTAAGGTTGCATGTTATTACAT
66 GGCCGGTCCCTTATCTCCTTATTGGGGCCGCTGAACCAAATTTTTTAGGTTGCATGTTGTT--A-
* * * *
564805 GTAGGTACATTATTTTGAGCATCTTTTCCTTTATACTGCATTTCAAAATATTTTTTCTTTTTGAG
128 --AGGTACATCATTTTGAGCATCTTTTCTTTTATACTGCATTTCAAAATATTTTTCCGTTTTGAG
** * * * * * *
564870 ATATAGGTTATTACATTTTTGGACTTTTGACCCCTAAAAATCCTTAATTACGTAACACATGAGAA
191 ATATAGGTGGTCAAAGTTTTGGACTTCTGACCCCTAAAAATCCCTAATTACGTAACATATGAG-A
* * * * *
564935 AAATCATTATAATG-TTAGGCTACACAACTGTTAGATAAACATATTTGCTTCTAT-ATTCTATTA
255 AAATCGTTATACTGCTT-GGCTTCATAACTGTAAGATAAACATATTTGCTTCTATAATT-TATTA
* * *
564998 CGAAATACCCCTCGGTAAAGAACTATAGGAAAAAGACTTTAGAGCCCTCTAGGTCCCTAATATTA
318 CAAAATATCCCTCGGTAAAGAACTATAGTAAAAAGACTTTAGAGCCCTCTAGGTCCCTAATATTA
* * * *
565063 GGGGCTAGCCCCTTTTTCATGGTATCAAATGAAAGGTCATTTGATTATAAAGATAT
383 GGGGCCAGCCCCTTTTTCTTGGTATCAAATGAAAGGTCATTTAATTATAAAGACAT
* *
565119 TTTGTTCAACAAGTGTTCAGAAATCCGTTACCATTCTTCAGATATCTCAGAAAGAATATTTTAGG
1 TTTGTTCAACAAGTGTTCAGAAATTCGTTACCATTCTTGAGATATCTCAGAAAGAATATTTTAGG
*
565184 GGCCGGTCCCTTATCTCCTTATTGGGGCCGCTGAACCAAATTTTTTAGGCTGCATGTTGTTAAGG
66 GGCCGGTCCCTTATCTCCTTATTGGGGCCGCTGAACCAAATTTTTTAGGTTGCATGTTGTTAAGG
565249 -ACATCATTTTGAGCATCTTTTCTTTTATACTGCATTTCAAAATATTTTTCCGTTTTGAGATATA
131 TACATCATTTTGAGCATCTTTTCTTTTATACTGCATTTCAAAATATTTTTCCGTTTTGAGATATA
565313 GGTGGTCAAAGTTTTGGACTTCTGACCCCTAAAAATCCCTAATTACGTAACATATGAGAAAATCG
196 GGTGGTCAAAGTTTTGGACTTCTGACCCCTAAAAATCCCTAATTACGTAACATATGAGAAAATCG
565378 TTATACTGCTTGGCTTCATAACTGTAAGATAAACATATTTGCTTCTATAATTTATTACAAAATAT
261 TTATACTGCTTGGCTTCATAACTGTAAGATAAACATATTTGCTTCTATAATTTATTACAAAATAT
*
565443 CCCTCAGTAAAGAACTATAGTAAAAAGACTTTAGAGCCCTCTAGGTCCCTAATATTAGGGGCCAG
326 CCCTCGGTAAAGAACTATAGTAAAAAGACTTTAGAGCCCTCTAGGTCCCTAATATTAGGGGCCAG
*
565508 CCCCTTGTTCTTGGTATCAAATGAAAGGTCATTTAATTATAAAGACAT
391 CCCCTTTTTCTTGGTATCAAATGAAAGGTCATTTAATTATAAAGACAT
*
565556 TTTGTTCAACAAGTGTTCAGAAATTCGTTACCATTCTTGAGATATCTCAGAAAGAATGTTTTAGG
1 TTTGTTCAACAAGTGTTCAGAAATTCGTTACCATTCTTGAGATATCTCAGAAAGAATATTTTAGG
*
565621 GGCCGGTCCCTTATCTCCTTATTGGGGCCGCTGAACCAAATTTTTTAGGTTGCATGGTGTT-AGG
66 GGCCGGTCCCTTATCTCCTTATTGGGGCCGCTGAACCAAATTTTTTAGGTTGCATGTTGTTAAGG
565685 TACATCATTTTGAGCATCTTTTCTTTTATACTGCATTTCAAAATATTTTTCCGTTTTGAGATATA
131 TACATCATTTTGAGCATCTTTTCTTTTATACTGCATTTCAAAATATTTTTCCGTTTTGAGATATA
565750 GGTGGTCAAAGTTTTGGACTTCTGACCCCTAAAAATCCCTAATTACGTAACATATGAGAAAATCG
196 GGTGGTCAAAGTTTTGGACTTCTGACCCCTAAAAATCCCTAATTACGTAACATATGAGAAAATCG
* *
565815 TTATACTGCTTGGCTTCATATCTGTAAGATAAACATATTTGCTTATATAATTTATTACAAAATAT
261 TTATACTGCTTGGCTTCATAACTGTAAGATAAACATATTTGCTTCTATAATTTATTACAAAATAT
* ** * *
565880 CACTCGGTAAAGAGTTATGGGTAAAAA-ACTTTAGAGCCCTCTAGGTCCCTTAT-TTGAGGGGCC
326 CCCTCGGTAAAGAACTAT-AGTAAAAAGACTTTAGAGCCCTCTAGGTCCCTAATATT-AGGGGCC
*
565943 AGCCCCTTTTTCTTGATATCA
389 AGCCCCTTTTTCTTGGTATCA
565964 GCAGAAAGGT
Statistics
Matches: 785, Mismatches: 54, Indels: 18
0.92 0.06 0.02
Matches are distributed among these distances:
436 5 0.01
437 542 0.69
438 122 0.16
439 3 0.00
442 1 0.00
443 66 0.08
444 46 0.06
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.36
Consensus pattern (438 bp):
TTTGTTCAACAAGTGTTCAGAAATTCGTTACCATTCTTGAGATATCTCAGAAAGAATATTTTAGG
GGCCGGTCCCTTATCTCCTTATTGGGGCCGCTGAACCAAATTTTTTAGGTTGCATGTTGTTAAGG
TACATCATTTTGAGCATCTTTTCTTTTATACTGCATTTCAAAATATTTTTCCGTTTTGAGATATA
GGTGGTCAAAGTTTTGGACTTCTGACCCCTAAAAATCCCTAATTACGTAACATATGAGAAAATCG
TTATACTGCTTGGCTTCATAACTGTAAGATAAACATATTTGCTTCTATAATTTATTACAAAATAT
CCCTCGGTAAAGAACTATAGTAAAAAGACTTTAGAGCCCTCTAGGTCCCTAATATTAGGGGCCAG
CCCCTTTTTCTTGGTATCAAATGAAAGGTCATTTAATTATAAAGACAT
Found at i:567470 original size:437 final size:436
Alignment explanation
Indices: 566715--567724 Score: 1673
Period size: 437 Copynumber: 2.3 Consensus size: 436
566705 AATAAATGTG
* *
566715 AGATGAACATTATTGCTTCCTAAACATATTACAAAATAATTT-TCAGTAAAGTGCTATGGAAGAA
1 AGATGAACATT-TTGCTTCTTAAACATATTACAAAAT-ATTTCTCAGTAAAGTGCTATAGAAGAA
* *
566779 AGACTTTAGAGCCCTTTTGGTCCCTAAATTGAAGGGCCAGCCCCTTTTTCTTGGCATCATACGAA
64 AGACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGACCAGCCCCTTTTTCTTGGCATCATACGAA
*
566844 AGTTCTTTTGATATTAAAAATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGACGTTTAAGAGC
129 AGTTCTTTTGATATCAAAAATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGACGTTTAAGAGC
* *
566909 TATCTGGGATAGGACGTTTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGATAACAAATCT
194 TATCTGGGATAGGACATTTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGAAAACAAATCT
* * *
566974 TTTATGATTGAATATTGTTTAAAACATTATTCTAAGCATCTTTTATTCTATATTGCTTTTCAAAA
259 TTTATGATTGAATATTGTTTAAAACATCATTCTAAGCATATTTTACTCTATATTGCTTTTCAAAA
* *
567039 TATTTGTCCTTTTTGAGATATATTCGATCGAAGTTTTGGACTTCTGGCCCCTTGAAACCCCTTAT
324 TATTTGTCCTTTTTGAGATATATTCGATCGAAGTTTTGGACTTCTGGCCCCTTAAAACCCCTAAT
*
567104 TACGTAACGCATTATAAAAATTTTATAATGTATAATTTTATTAGTGAA
389 TACGTAACGCATAATAAAAATTTTATAATGTATAATTTTATTAGTGAA
*
567152 AGATGAACATGTTTGCTTCTTAAACTTATTACAAAATATTTCTCAGTAAAGTGCTATAGAAGAAA
1 AGATGAACAT-TTTGCTTCTTAAACATATTACAAAATATTTCTCAGTAAAGTGCTATAGAAGAAA
* *
567217 GACTTTAGAGCCCTTTTAGCCCCTAAATTGAAGGCCCAGCCCCTTTTTCTTGGCATCATACGAAA
65 GACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGACCAGCCCCTTTTTCTTGGCATCATACGAAA
* * * * *
567282 GTTCTTTTGATATCAAACATATTTTGTTCATCAAGTGTTTAGAAATTCTTTGCCGTTTTAGGGCT
130 GTTCTTTTGATATCAAAAATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGACGTTTAAGAGCT
* *
567347 ATCTGGGATATGACATTTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGAAAATGAAAT-T
195 ATCTGGGATAGGACATTTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGAAAA-CAAATCT
567411 TTTATGATTGAATATTGTTTAAAACATCATTCTAAGCATATTTTACTCTATATTGCTTTTCAAAA
259 TTTATGATTGAATATTGTTTAAAACATCATTCTAAGCATATTTTACTCTATATTGCTTTTCAAAA
567476 TATTTGTCCTTTTTGAGATATATTCGATCGAAGTTTTGGACTTCTGGCCCCTTAAAACCCCTAAT
324 TATTTGTCCTTTTTGAGATATATTCGATCGAAGTTTTGGACTTCTGGCCCCTTAAAACCCCTAAT
*
567541 TACGTAACGCATAATAAAAATTTTATAATGTATAGTTTTATTAGTGAA
389 TACGTAACGCATAATAAAAATTTTATAATGTATAATTTTATTAGTGAA
567589 AGATGAACATCTTTGCTTCTTAAACATATTACAAAATATTTCTCAGTAAAGTGCTATAGAAGAAA
1 AGATGAACAT-TTTGCTTCTTAAACATATTACAAAATATTTCTCAGTAAAGTGCTATAGAAGAAA
* * * * ** *
567654 GACTTTAAAGCCCTTTTGGCCCTTAATTTGAGGGACCAGCCCCTTTTTCTTGTTATCAAACGAAA
65 GACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGACCAGCCCCTTTTTCTTGGCATCATACGAAA
*
567719 GCTCTT
130 GTTCTT
567725 GTAAATATTA
Statistics
Matches: 535, Mismatches: 35, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
436 4 0.01
437 526 0.98
438 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (436 bp):
AGATGAACATTTTGCTTCTTAAACATATTACAAAATATTTCTCAGTAAAGTGCTATAGAAGAAAG
ACTTTAGAGCCCTTTTGGCCCCTAAATTGAAGGACCAGCCCCTTTTTCTTGGCATCATACGAAAG
TTCTTTTGATATCAAAAATATTTTGTTCAACAAGTGTTTAGAAATTCTTTGACGTTTAAGAGCTA
TCTGGGATAGGACATTTTAGGGGCCGACCCCTAATCTCCTTATTGGGGCCAGAAAACAAATCTTT
TATGATTGAATATTGTTTAAAACATCATTCTAAGCATATTTTACTCTATATTGCTTTTCAAAATA
TTTGTCCTTTTTGAGATATATTCGATCGAAGTTTTGGACTTCTGGCCCCTTAAAACCCCTAATTA
CGTAACGCATAATAAAAATTTTATAATGTATAATTTTATTAGTGAA
Found at i:570180 original size:437 final size:437
Alignment explanation
Indices: 568530--570522 Score: 2799
Period size: 437 Copynumber: 4.6 Consensus size: 437
568520 CGGAATTGTC
* * * * *
568530 CTCCATTTTGAGATATAGAGGATC-AAGTTTTGGACTTCTGGTCCCTTAAAATCCCAAATTACGT
1 CTCCATTTAGAGATATTGAGCATCAAAGTTTTGGACTTCTGGCCCCTTAAAATCCCTAATTACGT
** * ** ** * * * *
568594 AACGTAGGAGTAAAAGATTGCCATGTATTGGCAAATATCGTTAGTATAAACATAATTGCCTCTAC
66 AATATAGGAGTAAATGATTGCCATGTAGAGGTGAATAACGTTAGAATAAACATAATTGCTTCTAT
* * * * * * *** *
568659 AACGGATCAAAAAATATTTCACAGTAAATATTTATCATGAAAAGTCTTTAGAGCCCCCTCAGCCC
131 AACGTATCACAAAATATTTCACAGTAAAAAGTTATCATCAAAAGACTTTAGAGCCTTATCGGCCC
* * * * * * * * *
568724 CTTATATGAAGGACCAGCCCCTTTTTCATGATCTCATACATGTAAGAATGTGTTTGTCAACTCAA
196 CTAATTTGAAGGGCCAGCCCCTTTTTCTTGATCT--TAAATGAAAG-CT-CG--TGTCAATTCAA
* * **
568789 ACACATTTTGTTTAACAAGTGTTT-GAAATTCTGTACCGTACTGGAGATATCTGGTA-AGATTCG
255 ACACATTTTGTTCAACAAGTGTTTAGAAATTCTGTACCGTTCTGGAGATATCTGG-AGAGGGTCG
* * * * * * * *
568852 TTTTAGGGGCCGACCCTGTTACTCCTTTTAAGGACCGTATCACACAGAGAA-TATGGTTACATAC
319 TTTTAGGGGCCGACCCTGTAACTCCTTTCAGGGACCGCATAACAAAGA-AATTATTG-T---TGC
* * * * * * * * *
568916 TAGTATTGTTAAGCTTAATTTTTTTAGCTTCTTTTGTTCAAAATTGTTTTTC-ATA-GTTAT
379 -AG-ATTGATAAGCTCAATATTTTGAGCATCTTTTGTTCAATATTGCTTATCAAAATGTT-T
* * ** *
568976 CCTCCATTTTGAGATATTGAGGATCAAAGTGATGGACTTCTGGTCCCTTAAAATCCCTAATTACG
1 -CTCCATTTAGAGATATTGAGCATCAAAGTTTTGGACTTCTGGCCCCTTAAAATCCCTAATTACG
* *
569041 TAATATAGGAGTAAATGATTGCCATGTAGAGGTGAATAACGTTAGAATAAACATAATTGTTTTTA
65 TAATATAGGAGTAAATGATTGCCATGTAGAGGTGAATAACGTTAGAATAAACATAATTGCTTCTA
* * * *** *
569106 TAAGGTATCACAAAATATTTCACAGTGAAATGTTATCATCAAAAGACTTTAGAGCCCCCTCAGCC
130 TAACGTATCACAAAATATTTCACAGTAAAAAGTTATCATCAAAAGACTTTAGAGCCTTATCGGCC
* * * *
569171 CCTTATTTGAAGGGCCAGTCCCTTTTTCTTGATCTCAAATGAAAGCTCTTGTCAATT------CA
195 CCTAATTTGAAGGGCCAGCCCCTTTTTCTTGATCTTAAATGAAAGCTCGTGTCAATTCAAACACA
569230 TTTTGTTCAACAAGTGTTTAGAAATTCTGTACCGTTCTGGAGATATCTGGAGAGGGTCGTTTTAG
260 TTTTGTTCAACAAGTGTTTAGAAATTCTGTACCGTTCTGGAGATATCTGGAGAGGGTCGTTTTAG
**
569295 GGGCCGACCCTGTATTTCCTTTCAGGGACCGCATAACAAAGAAATTATTGTTGCAGATTGATAAG
325 GGGCCGACCCTGTAACTCCTTTCAGGGACCGCATAACAAAGAAATTATTGTTGCAGATTGATAAG
*
569360 CTTAATATTTTGAGCATCTTTTGTTCAATATTGCTTATCAAAATGTTT
390 CTCAATATTTTGAGCATCTTTTGTTCAATATTGCTTATCAAAATGTTT
*
569408 CTCCATTTAGAGATATTAAGCATCAAAGTTTTGGACTTCTGGCCCCTTAAAATCCCTAATTACGT
1 CTCCATTTAGAGATATTGAGCATCAAAGTTTTGGACTTCTGGCCCCTTAAAATCCCTAATTACGT
*
569473 AATATAGGAGTAAATGATTGCCATGTACAGGTGAATAACGTTAGAAT-AACATAATTGCTTCTAT
66 AATATAGGAGTAAATGATTGCCATGTAGAGGTGAATAACGTTAGAATAAACATAATTGCTTCTAT
* *
569537 GACGTATCACAAAATATTTCACAGTAAAAAGTTATCATCAAGAGACTTTAGAGCCTTATCGGCCC
131 AACGTATCACAAAATATTTCACAGTAAAAAGTTATCATCAAAAGACTTTAGAGCCTTATCGGCCC
569602 CTAATTTGAAGGGCCAGCCCCTTTTTCTTGATCTTAAATGAAAGCTCGTGTCAATTCAAACACAT
196 CTAATTTGAAGGGCCAGCCCCTTTTTCTTGATCTTAAATGAAAGCTCGTGTCAATTCAAACACAT
* * *
569667 TTTGTTCAACAAGTGTTGAGAAATTGTGTACCGTTCTGGAGATATCTTGAGAGGGTCGTTTTAGG
261 TTTGTTCAACAAGTGTTTAGAAATTCTGTACCGTTCTGGAGATATCTGGAGAGGGTCGTTTTAGG
* * *
569732 GGCCGACCCTGTAACTCCTTTCAGCGACTGCATAACAAAGAAATAATTGTTGCAGATTGATAAGC
326 GGCCGACCCTGTAACTCCTTTCAGGGACCGCATAACAAAGAAATTATTGTTGCAGATTGATAAGC
569797 TCAATATTTTGAGCATCTTTTGTTCAATATTGCTTATCAAAATGTTT
391 TCAATATTTTGAGCATCTTTTGTTCAATATTGCTTATCAAAATGTTT
569844 CTCCATTTAGAGATATTGAGCATCAAAGTTTTGGACTTCTGGCCCCTTAAAATCCCTAATTACGT
1 CTCCATTTAGAGATATTGAGCATCAAAGTTTTGGACTTCTGGCCCCTTAAAATCCCTAATTACGT
* **
569909 AATATAGGAGTAAATGATTGACATGTTTAGGTGAATAACGTTAGAATAAACATAATTGCTTCTAT
66 AATATAGGAGTAAATGATTGCCATGTAGAGGTGAATAACGTTAGAATAAACATAATTGCTTCTAT
* *
569974 GACGTATCACAAAATATTTTACAGTAAAAAGTGT-TCATCAAAAGACTTTAGAGCCTTATCGGCC
131 AACGTATCACAAAATATTTCACAGTAAAAAGT-TATCATCAAAAGACTTTAGAGCCTTATCGGCC
570038 CCTAATTTGAAGGGCCAGCCCCTTTTTCTTGATCTTAAATGAAAGCTCGTGTCAATTCAAACACA
195 CCTAATTTGAAGGGCCAGCCCCTTTTTCTTGATCTTAAATGAAAGCTCGTGTCAATTCAAACACA
* * *
570103 TTCTGTCCAACAAGTGTTTAGAAATTCTGTACCGTTCTGAAGATATCTGGAGAGGGTCGTTTTAG
260 TTTTGTTCAACAAGTGTTTAGAAATTCTGTACCGTTCTGGAGATATCTGGAGAGGGTCGTTTTAG
* *
570168 GGGCCGACCCTGTAACTCCTTTCAGGGACCGCATTACAAAGAAATTATTGTTGCAGTTTGATAAG
325 GGGCCGACCCTGTAACTCCTTTCAGGGACCGCATAACAAAGAAATTATTGTTGCAGATTGATAAG
570233 CTCAATATTTTGAGCATCTTTTGTTCAATATTGCTTATCAAAATGTTT
390 CTCAATATTTTGAGCATCTTTTGTTCAATATTGCTTATCAAAATGTTT
570281 CTCCATTTAGAGATATTGAGCATCAAAGTTTTGGACTTCTGGCCCCTTAAAATCCCTAATTACGT
1 CTCCATTTAGAGATATTGAGCATCAAAGTTTTGGACTTCTGGCCCCTTAAAATCCCTAATTACGT
* *
570346 AATATAGGAGTAAATGATTGCCATGTAGAGGTGAATAACGTTAGAATAAACATAATTGTTTTTAT
66 AATATAGGAGTAAATGATTGCCATGTAGAGGTGAATAACGTTAGAATAAACATAATTGCTTCTAT
* * * *
570411 AAGGTATCACAAAATATTTCACATTTAAAAGTTATTATCAAAAGACTTTAGAGCCTTATCGGCCC
131 AACGTATCACAAAATATTTCACAGTAAAAAGTTATCATCAAAAGACTTTAGAGCCTTATCGGCCC
*
570476 CTAATTTGAAGGGCCAGCCCCTTTTTCTTGATCTCAAATGAAAGCTC
196 CTAATTTGAAGGGCCAGCCCCTTTTTCTTGATCTTAAATGAAAGCTC
570523 TTGTAAAAAT
Statistics
Matches: 1412, Mismatches: 119, Indels: 40
0.90 0.08 0.03
Matches are distributed among these distances:
430 123 0.09
431 146 0.10
432 5 0.00
433 5 0.00
436 304 0.22
437 615 0.44
438 1 0.00
442 7 0.00
445 1 0.00
446 7 0.00
447 23 0.02
448 175 0.12
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (437 bp):
CTCCATTTAGAGATATTGAGCATCAAAGTTTTGGACTTCTGGCCCCTTAAAATCCCTAATTACGT
AATATAGGAGTAAATGATTGCCATGTAGAGGTGAATAACGTTAGAATAAACATAATTGCTTCTAT
AACGTATCACAAAATATTTCACAGTAAAAAGTTATCATCAAAAGACTTTAGAGCCTTATCGGCCC
CTAATTTGAAGGGCCAGCCCCTTTTTCTTGATCTTAAATGAAAGCTCGTGTCAATTCAAACACAT
TTTGTTCAACAAGTGTTTAGAAATTCTGTACCGTTCTGGAGATATCTGGAGAGGGTCGTTTTAGG
GGCCGACCCTGTAACTCCTTTCAGGGACCGCATAACAAAGAAATTATTGTTGCAGATTGATAAGC
TCAATATTTTGAGCATCTTTTGTTCAATATTGCTTATCAAAATGTTT
Found at i:572002 original size:437 final size:437
Alignment explanation
Indices: 571254--573107 Score: 2596
Period size: 437 Copynumber: 4.2 Consensus size: 437
571244 CTAATCTAGC
* * * * *
571254 CTTA-ATAACCTTTCACAAAAT-TGCTCTCATTAAAGGGCTATAGATAAAAGA-TTTAAGAGCTC
1 CTTATATAACATTTCACAAAATAT-CTCTCAGTAAAGGGCTACAGATTAAAGACTTT-AGAGCCC
* * * * *
571316 TTTGATCCCCTAATTTAAGGGGCCAGTCCCTTTTTCTTGATATCAAATGAAAAGAT-ATTTAATT
64 TTTGGTCCCCTTATTTGAGGGGCCAGCCCCTTTTTCTTGATATCAAAT-AAAAGGTCATTTAATT
* * * * * * * * *
571380 CTGAACACATTTTG-TCAACAAGTGTTGAGAAAATCGTTACTGTTCTGGAGATATATGAGATAGA
128 TTAAACACATGTTGTTCAACAAGTCTTTAGAAATTCGTTACCGTTTTGGAGATATATGAGAAAGA
*
571444 AGGTTTTAGGGGCCGATCCCTTATCTCTTATCCCTTATAGGGGCCGTTTAGCGAAATTTTGAAGG
193 AGGTTTTAGGGGCCGATCCCTTA--TC-T-T--CTTTTAGGGGCCGTTTAGCGAAATTTTGAAGG
* *
571509 TTGAATATTGTTAAGAACATTAATTTGAACAACTTTTATTCTGTATTGCATTTCAAATTATTTTT
252 TTGAATATTGTTAAGAACATTAATTTGAACAACTTTTCTTCTGTATTGCATTTCAAAATATTTTT
* * *
571574 TCTTTCTGAGATATGGGTTATTGAAATTTTGGACTTTAGGCCCCTAAAAACCCTTAATTACGTAA
317 CCTTTCTGAGATATGGGTTATTGAAATTTTGGACTTTTGGCCCCTAATAACCCTTAATTACGTAA
*
571639 CACATAATAAAATCATTACATTGCTTGGATACATATCTGTGAGATAAACATATTTG
382 CACATAATAAAATCACTACATTGCTTGGATACATATCTGTGAGATAAACATATTTG
* * *
571695 CTTATATAACATTTCAAAAAATATCTCTCAGTAAAGGGCTACATATTTAAGACTTTAGAGCCCTT
1 CTTATATAACATTTCACAAAATATCTCTCAGTAAAGGGCTACAGATTAAAGACTTTAGAGCCCTT
* * * *
571760 TGGTCCCCTTATTTGAGGTGCCAGCCCCTTTTTCTTGATATTAAATGAAAGGTCATTCAATTTTA
66 TGGTCCCCTTATTTGAGGGGCCAGCCCCTTTTTCTTGATATCAAATAAAAGGTCATTTAATTTTA
* *
571825 AACAAAT-TCTGTTCAACAAGTCTTTAGAAATTCGTTACCGTTTTGGAGATATATGAGATAGAAG
131 AACACATGT-TGTTCAACAAGTCTTTAGAAATTCGTTACCGTTTTGGAGATATATGAGAAAGAAG
571889 GTTTTAGGGGCCGATCCCTTATCTTCTTTTAGGGGCCGTTTAGCGAAATTTTGAAGGTTGAATAT
195 GTTTTAGGGGCCGATCCCTTATCTTCTTTTAGGGGCCGTTTAGCGAAATTTTGAAGGTTGAATAT
571954 TGTTAAGAACATTAATTTGAACAACTTTTCTTCTGTATTGCATTTCAAAATATTTTTCCTTTCTG
260 TGTTAAGAACATTAATTTGAACAACTTTTCTTCTGTATTGCATTTCAAAATATTTTTCCTTTCTG
572019 AGATATGGGTTATTGAAATTTTGGACTTTTGGCCCCTAATAACCCTTAATTACGTAACACATAAT
325 AGATATGGGTTATTGAAATTTTGGACTTTTGGCCCCTAATAACCCTTAATTACGTAACACATAAT
*
572084 AAAATCACTACATTGCTTGGATACATAACTGTGAGATAAACATATTTG
390 AAAATCACTACATTGCTTGGATACATATCTGTGAGATAAACATATTTG
*
572132 CTTCTATAACATTTCACAAAATATCTCTCAG-ATAAGGGCTACAGATTAAAGACTTTAGAGCCCT
1 CTTATATAACATTTCACAAAATATCTCTCAGTA-AAGGGCTACAGATTAAAGACTTTAGAGCCCT
572196 TTGGTCCCCTTATTTGAGGGGCCAGCCCCTTTTTCTTGATATCAAATAAAAGGTCATTTAATTTT
65 TTGGTCCCCTTATTTGAGGGGCCAGCCCCTTTTTCTTGATATCAAATAAAAGGTCATTTAATTTT
* *
572261 GAACCCATGTTGTTCAACAAGTCTTTAGAAATTCGTTACCGTTTTGGAGATATATGAGAAAGAAG
130 AAACACATGTTGTTCAACAAGTCTTTAGAAATTCGTTACCGTTTTGGAGATATATGAGAAAGAAG
* *
572326 GTTTTAGGGGCTGGTCCCTTATCTTCTTTTAGGGGCCGTTTAGCGAAATTTTGAAGGTTGAATAT
195 GTTTTAGGGGCCGATCCCTTATCTTCTTTTAGGGGCCGTTTAGCGAAATTTTGAAGGTTGAATAT
572391 TGTTAAGAACATTAATTTGAACAACTTTTCTTCTGTATTGCATTTCAAAATATTTTTCCTTTCTG
260 TGTTAAGAACATTAATTTGAACAACTTTTCTTCTGTATTGCATTTCAAAATATTTTTCCTTTCTG
572456 AGATATGGGTTATTGAAATTTTGGACTTTTGGCCCCTAATAACCCTTAATTACGTAACACATAAT
325 AGATATGGGTTATTGAAATTTTGGACTTTTGGCCCCTAATAACCCTTAATTACGTAACACATAAT
572521 AAAATCACTACATTGCTTGGATACAT-TACTGTGAGATAAACATATTTG
390 AAAATCACTACATTGCTTGGATACATAT-CTGTGAGATAAACATATTTG
*
572569 CTTCTATAACATTTCACAAAATATCTCTCAGTAAAGGGCTACAGATTAAAGACTTTAGAGCCCTT
1 CTTATATAACATTTCACAAAATATCTCTCAGTAAAGGGCTACAGATTAAAGACTTTAGAGCCCTT
572634 TGGTCCCCTTATTTGAGGGGCCAGCCCCTTTTTCTTGATATCAAATAAAAGGTCATTTAATTTTA
66 TGGTCCCCTTATTTGAGGGGCCAGCCCCTTTTTCTTGATATCAAATAAAAGGTCATTTAATTTTA
572699 AACACATGTTGTTCAACAAGTCTTTAGAAATTCGTTACCGTTTTGGAGATATATGAGAAAGAAGG
131 AACACATGTTGTTCAACAAGTCTTTAGAAATTCGTTACCGTTTTGGAGATATATGAGAAAGAAGG
* *
572764 TTTTAGGGGCCGGTCCCTTATCTTCTTTTAGGGGCCGTTTAACGAAATTTTG-AGAGTTGAATAT
196 TTTTAGGGGCCGATCCCTTATCTTCTTTTAGGGGCCGTTTAGCGAAATTTTGAAG-GTTGAATAT
* * * * * ** * * *
572828 TGTTGAA-AAC-GTCATTCTAAACACCTTTTCTTTTACACTGC-TTATCAAAATATTTTTCATTA
260 TGTT-AAGAACATTAATT-TGAACAACTTTTCTTCTGTATTGCATT-TCAAAATATTTTTCCTTT
** * * * * * * * * *
572890 AGGAGATATAGATGA-TCAAAGTTTTGAACTTCTGACCCCTAAAAATCCC-TAATTACGTAACAT
322 CTGAGATATGGGTTATTGAAA-TTTTGGACTTTTGGCCCCTAATAA-CCCTTAATTACGTAACAC
* * * ** * * * *
572953 ATGA-GAAATACATTTTATTG-TATGGGTACATAACAGTAAGATAAACA-ATTTTG
385 ATAATAAAAT-CACTACATTGCT-TGGATACATATCTGTGAGATAAACATA-TTTG
* * * * * * * *
573006 CTTCTATGA-TTTATAACAAAATAACTCTCAGTAAAGAGCTACAAATCAAAGACTTTAGA-CCCA
1 CTTATATAACATT-TCACAAAATATCTCTCAGTAAAGGGCTACAGATTAAAGACTTTAGAGCCC-
* *
573069 TTTGGGT-CCCTAATTTTAGGGGCCAGCCCCTTTTTCTTG
64 TTT-GGTCCCCTTATTTGAGGGGCCAGCCCCTTTTTCTTG
573108 GTATTAAACG
Statistics
Matches: 1299, Mismatches: 91, Indels: 50
0.90 0.06 0.03
Matches are distributed among these distances:
436 24 0.02
437 1077 0.83
438 10 0.01
439 1 0.00
440 1 0.00
441 12 0.01
442 102 0.08
443 72 0.06
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (437 bp):
CTTATATAACATTTCACAAAATATCTCTCAGTAAAGGGCTACAGATTAAAGACTTTAGAGCCCTT
TGGTCCCCTTATTTGAGGGGCCAGCCCCTTTTTCTTGATATCAAATAAAAGGTCATTTAATTTTA
AACACATGTTGTTCAACAAGTCTTTAGAAATTCGTTACCGTTTTGGAGATATATGAGAAAGAAGG
TTTTAGGGGCCGATCCCTTATCTTCTTTTAGGGGCCGTTTAGCGAAATTTTGAAGGTTGAATATT
GTTAAGAACATTAATTTGAACAACTTTTCTTCTGTATTGCATTTCAAAATATTTTTCCTTTCTGA
GATATGGGTTATTGAAATTTTGGACTTTTGGCCCCTAATAACCCTTAATTACGTAACACATAATA
AAATCACTACATTGCTTGGATACATATCTGTGAGATAAACATATTTG
Found at i:573648 original size:63 final size:63
Alignment explanation
Indices: 573549--573680 Score: 246
Period size: 63 Copynumber: 2.1 Consensus size: 63
573539 AAAAAAAAAA
*
573549 TAATAATAGGGAAAAAGAAACAAAGCAAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
1 TAATAAAAGGGAAAAAGAAACAAAGCAAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
*
573612 TAATAAAAGGGAAAAAGAAACAAAGCAATAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
1 TAATAAAAGGGAAAAAGAAACAAAGCAAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
573675 TAATAA
1 TAATAA
573681 TAAGAAAAGT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.50, C:0.14, G:0.20, T:0.17
Consensus pattern (63 bp):
TAATAAAAGGGAAAAAGAAACAAAGCAAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCT
Found at i:573709 original size:63 final size:62
Alignment explanation
Indices: 573558--573711 Score: 195
Period size: 63 Copynumber: 2.5 Consensus size: 62
573548 ATAATAATAG
* * *
573558 GGAAAAAGAAACAAAGCAAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATAAAA
1 GGAAAAAGAAAAAAAACAATAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATAAAA
* *
573620 GGGAAAAAGAAACAAAGCAATAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATAATAA
1 -GGAAAAAGAAAAAAAACAATAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATAA-AA
* *
573684 -GAAAAGTGAAAAAGAAAC-ATTACAATAA
1 GGAAAA-AGAAAAA-AAACAATAACAATAA
573712 TAGAAGGGTC
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
62 5 0.06
63 73 0.88
64 5 0.06
ACGTcount: A:0.53, C:0.13, G:0.19, T:0.16
Consensus pattern (62 bp):
GGAAAAAGAAAAAAAACAATAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATAAAA
Found at i:576068 original size:22 final size:22
Alignment explanation
Indices: 576040--576086 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
576030 TACATCAAAG
576040 CAAAGTACCAGTAGTTAGATTA
1 CAAAGTACCAGTAGTTAGATTA
*
576062 CAAAGTACCAGTAGTTAGTTTA
1 CAAAGTACCAGTAGTTAGATTA
576084 CAA
1 CAA
576087 TGTAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (22 bp):
CAAAGTACCAGTAGTTAGATTA
Found at i:580657 original size:21 final size:21
Alignment explanation
Indices: 580631--580678 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
580621 GGCGTGCGGC
580631 CAGTAAACACATATTGTGTTA
1 CAGTAAACACATATTGTGTTA
580652 CAGTAAACACATATTGTGTTA
1 CAGTAAACACATATTGTGTTA
580673 CAGTAA
1 CAGTAA
580679 CTAGCTAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (21 bp):
CAGTAAACACATATTGTGTTA
Found at i:583149 original size:26 final size:26
Alignment explanation
Indices: 583120--583173 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
583110 AAGATTCGTT
583120 AAAAAATACTCTGTAACACCTTGACC
1 AAAAAATACTCTGTAACACCTTGACC
583146 AAAAAATACTCTGTAACACCTTGACC
1 AAAAAATACTCTGTAACACCTTGACC
583172 AA
1 AA
583174 TATTTGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.22
Consensus pattern (26 bp):
AAAAAATACTCTGTAACACCTTGACC
Found at i:594856 original size:14 final size:14
Alignment explanation
Indices: 594837--594866 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
594827 CTGCTATCAC
594837 CGACAGCCCATACA
1 CGACAGCCCATACA
594851 CGACAGCCCATACA
1 CGACAGCCCATACA
594865 CG
1 CG
594867 TAAGTTTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.43, G:0.17, T:0.07
Consensus pattern (14 bp):
CGACAGCCCATACA
Found at i:599913 original size:161 final size:161
Alignment explanation
Indices: 599508--600170 Score: 956
Period size: 161 Copynumber: 4.1 Consensus size: 161
599498 AACATCCACA
* * ** ** ** *
599508 AAGAAAATGAACGTAAACTGCAAATAACTGGAATTTCACTATGTCCAAGGGGTATAACTCTGTTG
1 AAGAAAATGAGCGGAAACTGCAAATAACTGGAATTTTTCTACATCCAAGGGCCATAACTCTGTCG
* * *
599573 AAAATTGCTCGATCGTACCCAATATCGAACTTGACCTA-AATATTATCATGATAAACATGTACAC
66 AAAATTGCTCGATCGTACCCAATATCAAACTTGACCTAGAA-ATTATCATGATAAACCTGTATAC
**
599637 AAAATTTCATTCCAATATGTAGATCCTCTGCG
130 AAAATTTCATTCCAATATGTTCATCCTCTGCG
*
599669 AAG-AAATGAGCGGAAACTGCAAATAACTGGAATTTTTCTACATCCAAGGGCCATAACTCTGTTG
1 AAGAAAATGAGCGGAAACTGCAAATAACTGGAATTTTTCTACATCCAAGGGCCATAACTCTGTCG
* * * * *
599733 AAAATTGCTCGAACGTACCCAGTATCGAACTTGATCTAGAAATTATCATGATTAACCTGTATACA
66 AAAATTGCTCGATCGTACCCAATATCAAACTTGACCTAGAAATTATCATGATAAACCTGTATACA
*
599798 AAATTTCATTCCAATATGTTGATCCTCTGCG
131 AAATTTCATTCCAATATGTTCATCCTCTGCG
* **
599829 AAGAAAATGAGCGGAAACTGCAAATAACTTGAATTTTTCTAGGTCCAAGGGCCATAACTCTGTCG
1 AAGAAAATGAGCGGAAACTGCAAATAACTGGAATTTTTCTACATCCAAGGGCCATAACTCTGTCG
* * *
599894 AAAATTGCTCGATCGTACCCAATATCAAACTTGACCTAGATATTATCATGATAAAGCTGTATACC
66 AAAATTGCTCGATCGTACCCAATATCAAACTTGACCTAGAAATTATCATGATAAACCTGTATACA
599959 AAATTTCATTCCTAA-ATGTTCATCCTCTGCG
131 AAATTTCATTCC-AATATGTTCATCCTCTGCG
* * *
599990 AAGAAAATGAGCGGAAACTGCAAATAACTCGAATTTTTCAACATCCAAGGGCCATAACTCTGTCA
1 AAGAAAATGAGCGGAAACTGCAAATAACTGGAATTTTTCTACATCCAAGGGCCATAACTCTGTCG
* * *
600055 AAAATTGCTCGATCGTACCCAATATCAAACTTGACCTAGATATTATCATGATAAATCTGTATACC
66 AAAATTGCTCGATCGTACCCAATATCAAACTTGACCTAGAAATTATCATGATAAACCTGTATACA
600120 AAATTTCA-TCTCAATATGTTCATCCTCTGCG
131 AAATTTCATTC-CAATATGTTCATCCTCTGCG
**
600151 AAGAAAATGAATGGAAACTG
1 AAGAAAATGAGCGGAAACTG
600171 TTAGTGGACC
Statistics
Matches: 461, Mismatches: 36, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
160 146 0.32
161 313 0.68
162 2 0.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (161 bp):
AAGAAAATGAGCGGAAACTGCAAATAACTGGAATTTTTCTACATCCAAGGGCCATAACTCTGTCG
AAAATTGCTCGATCGTACCCAATATCAAACTTGACCTAGAAATTATCATGATAAACCTGTATACA
AAATTTCATTCCAATATGTTCATCCTCTGCG
Found at i:600194 original size:8 final size:8
Alignment explanation
Indices: 600181--600215 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
600171 TTAGTGGACC
600181 GACCGACA
1 GACCGACA
*
600189 GACCGACC
1 GACCGACA
*
600197 GACCGACC
1 GACCGACA
600205 GACCGACA
1 GACCGACA
600213 GAC
1 GAC
600216 AGCAGCAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.31, C:0.43, G:0.26, T:0.00
Consensus pattern (8 bp):
GACCGACA
Found at i:600194 original size:12 final size:12
Alignment explanation
Indices: 600177--600215 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
600167 ACTGTTAGTG
600177 GACCGACCGACA
1 GACCGACCGACA
*
600189 GACCGACCGACC
1 GACCGACCGACA
600201 GACCGACCGACA
1 GACCGACCGACA
600213 GAC
1 GAC
600216 AGCAGCAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.31, C:0.44, G:0.26, T:0.00
Consensus pattern (12 bp):
GACCGACCGACA
Found at i:600217 original size:4 final size:4
Alignment explanation
Indices: 600177--600211 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
600167 ACTGTTAGTG
*
600177 GACC GACC GACA GACC GACC GACC GACC GACC GAC
1 GACC GACC GACC GACC GACC GACC GACC GACC GAC
600212 AGACAGCAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.29, C:0.46, G:0.26, T:0.00
Consensus pattern (4 bp):
GACC
Found at i:603230 original size:40 final size:40
Alignment explanation
Indices: 603181--603258 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 40
603171 CGATTATATA
*
603181 TTAAAACTGAACAG-TTTTTAAAAATGAACTACATGTACT
1 TTAAAACTGAACAGTTTTTTAAAAATGAAATACATGTACT
603220 TTAAAGACTGAACAGTTTTTTAAAAATGAAATACATGTA
1 TTAAA-ACTGAACAGTTTTTTAAAAATGAAATACATGTA
603259 ATGGTATGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 5 0.14
40 9 0.25
41 22 0.61
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (40 bp):
TTAAAACTGAACAGTTTTTTAAAAATGAAATACATGTACT
Found at i:612663 original size:79 final size:79
Alignment explanation
Indices: 612532--612688 Score: 278
Period size: 79 Copynumber: 2.0 Consensus size: 79
612522 ATGATTTGTG
*
612532 CTTAGGTCCAAACAATGTTTCACTTCCGGTTTGCCCGAGTAACTGCATAGGAGAGTTGATAAAAA
1 CTTAGGTCCAAACAATGTTTCACTTCCGGTTTGCCCGAGTAACTGCATAGGAGAGCTGATAAAAA
612597 TCAACTCCCAAAAC
66 TCAACTCCCAAAAC
* * *
612611 CTTAGGTCCAAACACTGTTTCACTTCCGGTTTGCCCGAGTAACTGCATAGGAGAGCTGTTTAAAA
1 CTTAGGTCCAAACAATGTTTCACTTCCGGTTTGCCCGAGTAACTGCATAGGAGAGCTGATAAAAA
612676 TCAACTCCCAAAA
66 TCAACTCCCAAAA
612689 ACCAATTGAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (79 bp):
CTTAGGTCCAAACAATGTTTCACTTCCGGTTTGCCCGAGTAACTGCATAGGAGAGCTGATAAAAA
TCAACTCCCAAAAC
Found at i:618310 original size:49 final size:50
Alignment explanation
Indices: 618216--618312 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 50
618206 AGCACTGTGG
** * * *
618216 CAACACACTTTGAAAAACTTTTTCAAATTGCTTTAACTTTGGGACCAAAT
1 CAACACACTTTGAAAAACAATTTCAAAGTGCGTTAAATTTGGGACCAAAT
*
618266 CAACACACTTTGAAAAA-AATTTCATAGTGCGTTAAATTTGGGACCAA
1 CAACACACTTTGAAAAACAATTTCAAAGTGCGTTAAATTTGGGACCAA
618313 GTTATAACCC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
49 24 0.59
50 17 0.41
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (50 bp):
CAACACACTTTGAAAAACAATTTCAAAGTGCGTTAAATTTGGGACCAAAT
Found at i:628882 original size:4 final size:4
Alignment explanation
Indices: 628867--628921 Score: 92
Period size: 4 Copynumber: 13.8 Consensus size: 4
628857 TTTTGTTATA
* *
628867 AAAT ATAT AAAT AAAT AAAT AAAT AGAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
628915 AAAT AAA
1 AAAT AAA
628922 CCATGAAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:630393 original size:19 final size:19
Alignment explanation
Indices: 630366--630405 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
630356 TGTATTGATA
* *
630366 TATTGAATGCTTGTGTGTT
1 TATTCAATGATTGTGTGTT
630385 TATTCAATGATTGTGTGTT
1 TATTCAATGATTGTGTGTT
630404 TA
1 TA
630406 AGTTTTACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.23, T:0.53
Consensus pattern (19 bp):
TATTCAATGATTGTGTGTT
Found at i:636245 original size:261 final size:260
Alignment explanation
Indices: 635781--636301 Score: 1024
Period size: 261 Copynumber: 2.0 Consensus size: 260
635771 TAACATCCAC
635781 ATTGTCTGATAGTCCTCATGGTTTCATAAACAGATCAAGAAATTGTGTGAGAATCTGCCATCCTG
1 ATTGTCTGATAGTCCTCATGGTTTCATAAACAGATCAAGAAATTGTGTGAGAATCTGCCATCCTG
635846 CTGCATACAGAGGATTGTTGACTGATTTTTACAAAATCTTCACTCATTTTAGACCATGAAGGACG
66 CTGCATACAGAGGATTGTTGACTGATTTTTACAAAATCTTCACTCATTTTAGACCATGAAGGACG
635911 TGCAGTTTTATCGCTTACTTAAATGTATATTATTTCAGTCAGAAACGTTTAGTTGCATCGTTTAC
131 TGCAGTTTTATCGCTTACTTAAATGTATATTATTTCAGTCAGAAACGTTTAGTTGCATCGTTTAC
635976 ACGTATATTGTTATAGTCAGATTTAAATAAAAATGTGTGTTTAGTTTTTTAGGTTGAAAAAAAAA
196 ACGTATATTGTTATAGTCAGATTTAAATAAAAATGTGTGTTTAGTTTTTTAGGTTGAAAAAAAAA
636041 NATTGTCTGATAGTCCTCATGGTTTCATAAACAGATCAAGAAATTGTGTGAGAATCTGCCATCCT
1 -ATTGTCTGATAGTCCTCATGGTTTCATAAACAGATCAAGAAATTGTGTGAGAATCTGCCATCCT
*
636106 GCTGCATACAGGGGATTGTTGACTGATTTTTACAAAATCTTCACTCATTTTAGACCATGAAGGAC
65 GCTGCATACAGAGGATTGTTGACTGATTTTTACAAAATCTTCACTCATTTTAGACCATGAAGGAC
636171 GTGCAGTTTTATCGCTTACTTAAATGTATATTATTTCAGTCAGAAACGTTTAGTTGCATCGTTTA
130 GTGCAGTTTTATCGCTTACTTAAATGTATATTATTTCAGTCAGAAACGTTTAGTTGCATCGTTTA
636236 CACGTATATTGTTATAGTCAGATTTAAATAAAAATGTGTGTTTAGTTTTTTAGGTTGAAAAAAAA
195 CACGTATATTGTTATAGTCAGATTTAAATAAAAATGTGTGTTTAGTTTTTTAGGTTGAAAAAAAA
636301 A
260 A
636302 TTGAATTTCA
Statistics
Matches: 259, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
261 259 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (260 bp):
ATTGTCTGATAGTCCTCATGGTTTCATAAACAGATCAAGAAATTGTGTGAGAATCTGCCATCCTG
CTGCATACAGAGGATTGTTGACTGATTTTTACAAAATCTTCACTCATTTTAGACCATGAAGGACG
TGCAGTTTTATCGCTTACTTAAATGTATATTATTTCAGTCAGAAACGTTTAGTTGCATCGTTTAC
ACGTATATTGTTATAGTCAGATTTAAATAAAAATGTGTGTTTAGTTTTTTAGGTTGAAAAAAAAA
Found at i:637141 original size:2 final size:2
Alignment explanation
Indices: 637134--637165 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
637124 TAATTAACCT
637134 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
637166 TTTCAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:637739 original size:15 final size:17
Alignment explanation
Indices: 637719--637751 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
637709 GCCATGATTT
637719 TATATC-TAAA-AATTA
1 TATATCTTAAATAATTA
637734 TATATCTTAAATAATTA
1 TATATCTTAAATAATTA
637751 T
1 T
637752 TGTCCTCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 4 0.25
17 6 0.38
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (17 bp):
TATATCTTAAATAATTA
Found at i:648942 original size:2 final size:2
Alignment explanation
Indices: 648935--648966 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
648925 CAAACAAGTC
648935 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
648967 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:648971 original size:2 final size:2
Alignment explanation
Indices: 648966--649007 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
648956 TATATATATA
648966 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
649008 CGAGAATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:659361 original size:44 final size:43
Alignment explanation
Indices: 659296--659384 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 43
659286 GGAAAAGTAG
*
659296 CACGCTGGGTTGACCGTAATCGTGCTACGGACACAATTCAACA
1 CACGCTGGGTTGACCGCAATCGTGCTACGGACACAATTCAACA
659339 CNACGCTGGGTTGACCGCAATCGTGCTACGGACACAATTCAACA
1 C-ACGCTGGGTTGACCGCAATCGTGCTACGGACACAATTCAACA
659383 CA
1 CA
659385 AAATTTGATA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 2 0.05
44 42 0.95
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.19
Consensus pattern (43 bp):
CACGCTGGGTTGACCGCAATCGTGCTACGGACACAATTCAACA
Found at i:666309 original size:3 final size:3
Alignment explanation
Indices: 666237--666290 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
666227 AATAAACAAA
* * * *
666237 AAT AAT AAT AAT AAT GAT AAT AAT GAT AAT CAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
666285 AAT AAT
1 AAT AAT
666291 TTAAATAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:686788 original size:30 final size:31
Alignment explanation
Indices: 686729--686788 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
686719 TGATTACCGT
*
686729 TCCATCAAGTTTGGGAATGGATTGATTTTAA
1 TCCATCAAGTTTGGGAATGCATTGATTTTAA
* *
686760 TCCATCAAG-TTGGGAATTCATTGGTTTTA
1 TCCATCAAGTTTGGGAATGCATTGATTTTA
686789 TTTAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.40
Consensus pattern (31 bp):
TCCATCAAGTTTGGGAATGCATTGATTTTAA
Found at i:698897 original size:16 final size:16
Alignment explanation
Indices: 698876--698906 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
698866 AAATTACTTG
*
698876 ACTACTTCTAAAAAAA
1 ACTACTACTAAAAAAA
698892 ACTACTACTAAAAAA
1 ACTACTACTAAAAAA
698907 CGATATTAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (16 bp):
ACTACTACTAAAAAAA
Found at i:700975 original size:4 final size:4
Alignment explanation
Indices: 700945--700996 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
700935 GCTGCTTTGC
* * * * *
700945 GTGT GTAT GTAT GTAT GTAT GTAT GTGT GTGT GTGT GTGT GTGT GTGT
1 GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT
700993 GTGT
1 GTGT
700997 CCATGGTCAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.10, C:0.00, G:0.40, T:0.50
Consensus pattern (4 bp):
GTGT
Found at i:714194 original size:134 final size:134
Alignment explanation
Indices: 713954--714201 Score: 487
Period size: 134 Copynumber: 1.9 Consensus size: 134
713944 TAAATTATCG
713954 GAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAGAACAAC
1 GAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAGAACAAC
*
714019 TTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCCTATATGCAACAATAA
66 TTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCCTATATGCAACAATAA
714084 ATCA
131 ATCA
714088 GAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAGAACAAC
1 GAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAGAACAAC
714153 TTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACC
66 TTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACC
714202 ATTTTGGCAG
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 113 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (134 bp):
GAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAGAACAAC
TTCCTATCTTGAAAACTGTAGGAGGAGTTATCCGTACAATGAGGGTACCCTATATGCAACAATAA
ATCA
Found at i:720445 original size:21 final size:21
Alignment explanation
Indices: 720393--720473 Score: 119
Period size: 21 Copynumber: 3.9 Consensus size: 21
720383 TCATGCTACA
* *
720393 TGTATGCTATGGTATGCGATT
1 TGTATGCTATGCTATGAGATT
*
720414 T-TAATGATATGCTATGAGATT
1 TGT-ATGCTATGCTATGAGATT
720435 TGTATGCTATGCTATGAGATT
1 TGTATGCTATGCTATGAGATT
720456 TGTATGCTATGCTATGAG
1 TGTATGCTATGCTATGAG
720474 GAATTGAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
20 1 0.02
21 52 0.96
22 1 0.02
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.42
Consensus pattern (21 bp):
TGTATGCTATGCTATGAGATT
Found at i:720697 original size:10 final size:10
Alignment explanation
Indices: 720678--720717 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
720668 AAATAATGTT
720678 GTATGCTATG
1 GTATGCTATG
* *
720688 CTATGGTATG
1 GTATGCTATG
720698 GTATGCTATG
1 GTATGCTATG
*
720708 GTATGATATG
1 GTATGCTATG
720718 ACGAATGCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (10 bp):
GTATGCTATG
Found at i:720702 original size:15 final size:15
Alignment explanation
Indices: 720678--720717 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
720668 AAATAATGTT
*
720678 GTATGCTATGCTATG
1 GTATGATATGCTATG
*
720693 GTATGGTATGCTATG
1 GTATGATATGCTATG
720708 GTATGATATG
1 GTATGATATG
720718 ACGAATGCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (15 bp):
GTATGATATGCTATG
Found at i:720768 original size:21 final size:21
Alignment explanation
Indices: 720742--720817 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
720732 ATGAGATTGT
*
720742 ATGCTATGGTATGAGATTCCA
1 ATGCTATGCTATGAGATTCCA
*
720763 ATGCTATGGTATGAGATTCCA
1 ATGCTATGCTATGAGATTCCA
* * *
720784 ATACTATGCTATGATATTTCA
1 ATGCTATGCTATGAGATTCCA
720805 ATGCTATGCTATG
1 ATGCTATGCTATG
720818 CTATGGTGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (21 bp):
ATGCTATGCTATGAGATTCCA
Found at i:744060 original size:21 final size:21
Alignment explanation
Indices: 744016--744114 Score: 141
Period size: 21 Copynumber: 4.9 Consensus size: 21
744006 AGTTCCAACG
*
744016 ACTACCACTACGACA--A-CG
1 ACTACCACTACGACACCACCA
744034 ACTACCACTACGACACCACCA
1 ACTACCACTACGACACCACCA
744055 ACTACCACTACGACACCACCA
1 ACTACCACTACGACACCACCA
* * *
744076 ACTACCACCACGACACCAACT
1 ACTACCACTACGACACCACCA
744097 ACTACCACTACGACACCA
1 ACTACCACTACGACACCA
744115 ACTAAACCTC
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
18 15 0.21
20 1 0.01
21 57 0.78
ACGTcount: A:0.38, C:0.45, G:0.06, T:0.10
Consensus pattern (21 bp):
ACTACCACTACGACACCACCA
Found at i:750707 original size:1 final size:1
Alignment explanation
Indices: 750703--750825 Score: 129
Period size: 1 Copynumber: 123.0 Consensus size: 1
750693 AAAAAAATGC
** ** **
750703 AAAAAAAAAACCAAAAAAAAAAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGCAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *** *
750768 AAAAAAAAAAAAAATAAATAAAATAAAAATGCAAAAAAAAAAATAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
750826 TAATGCAATC
Statistics
Matches: 103, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 103 1.00
ACGTcount: A:0.89, C:0.05, G:0.02, T:0.04
Consensus pattern (1 bp):
A
Found at i:750743 original size:36 final size:35
Alignment explanation
Indices: 750703--750825 Score: 165
Period size: 36 Copynumber: 3.5 Consensus size: 35
750693 AAAAAAATGC
** *
750703 AAAAAAAAAACCAAAAAAAAAAACCAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAGC-AAAAAAAAAA
750739 AAAAAAAAAAAAAAAAAAAAAAAGCAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAGCAAAAAAAAAA
* * *
750774 AAAAAAAATAAATAAAATAAAAATGCAAAAAAAAAA
1 AAAAAAAA-AAAAAAAAAAAAAAAGCAAAAAAAAAA
*
750810 ATAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAA
750826 TAATGCAATC
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
35 25 0.32
36 53 0.68
ACGTcount: A:0.89, C:0.05, G:0.02, T:0.04
Consensus pattern (35 bp):
AAAAAAAAAAAAAAAAAAAAAAAGCAAAAAAAAAA
Found at i:752122 original size:11 final size:11
Alignment explanation
Indices: 752106--752185 Score: 87
Period size: 11 Copynumber: 7.6 Consensus size: 11
752096 TTATTATTTT
752106 TTTTTTTTGCA
1 TTTTTTTTGCA
752117 TTTTTTTTGCA
1 TTTTTTTTGCA
752128 TTTTTTTTGCA
1 TTTTTTTTGCA
* **
752139 TTTTTATTGTT
1 TTTTTTTTGCA
**
752150 TTTTTTTTTTA
1 TTTTTTTTGCA
752161 -TTTTTTT---
1 TTTTTTTTGCA
752168 TTTTTTTTGCA
1 TTTTTTTTGCA
752179 TTTTTTT
1 TTTTTTT
752186 GTTAAGTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
8 7 0.12
10 7 0.12
11 45 0.76
ACGTcount: A:0.07, C:0.05, G:0.06, T:0.81
Consensus pattern (11 bp):
TTTTTTTTGCA
Found at i:752134 original size:22 final size:20
Alignment explanation
Indices: 752102--752185 Score: 91
Period size: 20 Copynumber: 4.2 Consensus size: 20
752092 ATTATTATTA
752102 TTTT-TTTTTTTTGCATTTT
1 TTTTGTTTTTTTTGCATTTT
752121 TTTTGCATTTTTTTTGCATTTT
1 TTTTG--TTTTTTTTGCATTTT
* **
752143 TATTGTTTTTTTT-TTTTATT
1 TTTTGTTTTTTTTGCATT-TT
*
752163 TTTTTTTTTTTTTGCATTTT
1 TTTTGTTTTTTTTGCATTTT
752183 TTT
1 TTT
752186 GTTAAGTTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
19 6 0.11
20 26 0.49
21 2 0.04
22 19 0.36
ACGTcount: A:0.07, C:0.05, G:0.06, T:0.82
Consensus pattern (20 bp):
TTTTGTTTTTTTTGCATTTT
Found at i:752166 original size:15 final size:16
Alignment explanation
Indices: 752139--752174 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
752129 TTTTTTTGCA
752139 TTTTTATTGTTTTTTT
1 TTTTTATTGTTTTTTT
752155 TTTTTATT-TTTTTTT
1 TTTTTATTGTTTTTTT
752170 TTTTT
1 TTTTT
752175 TGCATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.92
Consensus pattern (16 bp):
TTTTTATTGTTTTTTT
Found at i:753692 original size:21 final size:21
Alignment explanation
Indices: 753654--753694 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
753644 CCAAGACGCT
*
753654 ACTTATTCATGTCGACATGCA
1 ACTTATTCATGTCAACATGCA
* *
753675 ACTTATTTATGTTAACATGC
1 ACTTATTCATGTCAACATGC
753695 GAGATAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (21 bp):
ACTTATTCATGTCAACATGCA
Found at i:753839 original size:63 final size:63
Alignment explanation
Indices: 753742--753872 Score: 163
Period size: 63 Copynumber: 2.1 Consensus size: 63
753732 TGTCAATATC
* * * * * *
753742 CAACTTGTTTATGTTCACATGCAAGATAAATATGTTGACATGCAACATATTTATGTTGACATG
1 CAACTTATTTATATTAACATGCAACATAAATATGTCGACATGCAACATAATTATGTTGACATG
** * * *
753805 CAACTTATTTATATTAACATGCAACATATCTATGTCGACATGCAACTTAATTGTGTTTACATG
1 CAACTTATTTATATTAACATGCAACATAAATATGTCGACATGCAACATAATTATGTTGACATG
753868 CAACT
1 CAACT
753873 GAATTACAAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.37
Consensus pattern (63 bp):
CAACTTATTTATATTAACATGCAACATAAATATGTCGACATGCAACATAATTATGTTGACATG
Found at i:753851 original size:42 final size:42
Alignment explanation
Indices: 753779--753871 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
753769 AAATATGTTG
* * *
753779 ACATGCAACATATTTATGTTGACATGCAACTTATTTATATTA
1 ACATGCAACATATCTATGTCGACATGCAACTTAATTATATTA
* * *
753821 ACATGCAACATATCTATGTCGACATGCAACTTAATTGTGTTT
1 ACATGCAACATATCTATGTCGACATGCAACTTAATTATATTA
753863 ACATGCAAC
1 ACATGCAAC
753872 TGAATTACAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (42 bp):
ACATGCAACATATCTATGTCGACATGCAACTTAATTATATTA
Found at i:753872 original size:21 final size:21
Alignment explanation
Indices: 753750--753878 Score: 116
Period size: 21 Copynumber: 6.1 Consensus size: 21
753740 TCCAACTTGT
* **
753750 TTATGTTCACATGCAAGATAA
1 TTATGTTGACATGCAACTTAA
* * *
753771 ATATGTTGACATGCAACATAT
1 TTATGTTGACATGCAACTTAA
*
753792 TTATGTTGACATGCAACTTAT
1 TTATGTTGACATGCAACTTAA
* * *
753813 TTATATTAACATGCAACAT-A
1 TTATGTTGACATGCAACTTAA
*
753833 TCTATGTCGACATGCAACTTAA
1 T-TATGTTGACATGCAACTTAA
* * *
753855 TTGTGTTTACATGCAACTGAA
1 TTATGTTGACATGCAACTTAA
753876 TTA
1 TTA
753879 CAACGGTATA
Statistics
Matches: 87, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
20 1 0.01
21 84 0.97
22 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (21 bp):
TTATGTTGACATGCAACTTAA
Found at i:755982 original size:16 final size:16
Alignment explanation
Indices: 755963--756014 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
755953 GCGTCCGTCA
755963 GTCCGTCCGTCTGTCC
1 GTCCGTCCGTCTGTCC
755979 GTCCGTCCGTCTGTCC
1 GTCCGTCCGTCTGTCC
* *
755995 GTCCGTCCGTATGTCT
1 GTCCGTCCGTCTGTCC
756011 GTCC
1 GTCC
756015 CACTTCAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.02, C:0.40, G:0.25, T:0.33
Consensus pattern (16 bp):
GTCCGTCCGTCTGTCC
Found at i:756013 original size:4 final size:4
Alignment explanation
Indices: 755954--756004 Score: 75
Period size: 4 Copynumber: 12.8 Consensus size: 4
755944 CTTTCCTCTG
* * *
755954 CGTC CGTC AGTC CGTC CGTC TGTC CGTC CGTC CGTC TGTC CGTC CGTC
1 CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC
756002 CGT
1 CGT
756005 ATGTCTGTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.02, C:0.43, G:0.25, T:0.29
Consensus pattern (4 bp):
CGTC
Found at i:758931 original size:22 final size:21
Alignment explanation
Indices: 758869--758931 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
758859 TAATTATTAT
*
758869 ATTCATTCATAAATTTAAAACA
1 ATTCATTC-TAAATTTTAAACA
758891 ATTC-TT-TAAATTACCTTAAACA
1 ATTCATTCTAAATT---TTAAACA
758913 ATTCATTCTAGAATTTTAA
1 ATTCATTCTA-AATTTTAA
758932 TTTGGGCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
19 6 0.18
21 2 0.06
22 18 0.53
23 2 0.06
24 2 0.06
25 4 0.12
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTCATTCTAAATTTTAAACA
Found at i:761105 original size:42 final size:42
Alignment explanation
Indices: 761058--761140 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
761048 CAAATGAACC
* *
761058 CCGATAAAACCAAATAGTACTACATTTAAACCAGATGATACT
1 CCGATAAAACCAAATAGTACTACAGTAAAACCAGATGATACT
* * * *
761100 CCGATAAAATCAAATGGTACTCCAGTAAAACCCGATGATAC
1 CCGATAAAACCAAATAGTACTACAGTAAAACCAGATGATAC
761141 CCCTTAAACC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.43, C:0.23, G:0.12, T:0.22
Consensus pattern (42 bp):
CCGATAAAACCAAATAGTACTACAGTAAAACCAGATGATACT
Found at i:768980 original size:2 final size:2
Alignment explanation
Indices: 768973--768999 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
768963 ACAGTCATGA
768973 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
769000 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:775022 original size:21 final size:21
Alignment explanation
Indices: 774998--775461 Score: 287
Period size: 21 Copynumber: 22.2 Consensus size: 21
774988 ACCATCATCA
* *
774998 ACACCACGAACTGCAACAACG
1 ACACCACGAACTACCACAACG
* **
775019 ACACCGCGAACTACCAGGACG
1 ACACCACGAACTACCACAACG
*
775040 ACACCACCAACTACCACAACG
1 ACACCACGAACTACCACAACG
** * *
775061 ACACTGCCAACTACCACTACG
1 ACACCACGAACTACCACAACG
* *
775082 ACACCACCAACTACCACTACG
1 ACACCACGAACTACCACAACG
*
775103 ACACCTAC-AACTACCACTACG
1 ACACC-ACGAACTACCACAACG
* * *
775124 ACACCGCCAACTACCACTACG
1 ACACCACGAACTACCACAACG
* **
775145 ACCCCTAC-AACTACCACTTCG
1 ACACC-ACGAACTACCACAACG
* **
775166 ACACCGCGAACTACCAGGACG
1 ACACCACGAACTACCACAACG
* * * *
775187 ACCCCCCCAACTCCCACAACG
1 ACACCACGAACTACCACAACG
** * *
775208 ACACTGCCAACTACCACTACG
1 ACACCACGAACTACCACAACG
*
775229 ACACCTAC-AACTACCACTACG
1 ACACC-ACGAACTACCACAACG
* **
775250 ACACCGCGAACTACCAGGACG
1 ACACCACGAACTACCACAACG
* * *
775271 ACACCGCCAACTACCACTACG
1 ACACCACGAACTACCACAACG
* * *
775292 ACACCGCTAACTACCACTACG
1 ACACCACGAACTACCACAACG
* * * * *
775313 GCACC-TGCAACAACCACTACT
1 ACACCACG-AACTACCACAACG
*
775334 ACA-C-CG-ACTACCACTACG
1 ACACCACGAACTACCACAACG
*
775352 AAACCAAC-AACTACCACAACG
1 ACACC-ACGAACTACCACAACG
* * *
775373 ACACCACCAACAACCACTACG
1 ACACCACGAACTACCACAACG
* * *
775394 ACACCACCAACAACCACTACG
1 ACACCACGAACTACCACAACG
* *
775415 ACACCACCAACTACCACTACG
1 ACACCACGAACTACCACAACG
* * * * *
775436 ATATCACCAAGTACCACTACG
1 ACACCACGAACTACCACAACG
775457 ACACC
1 ACACC
775462 GGCAACTTCA
Statistics
Matches: 368, Mismatches: 63, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
18 12 0.03
19 1 0.00
20 7 0.02
21 344 0.93
22 4 0.01
ACGTcount: A:0.37, C:0.44, G:0.09, T:0.10
Consensus pattern (21 bp):
ACACCACGAACTACCACAACG
Found at i:775097 original size:63 final size:63
Alignment explanation
Indices: 775016--775549 Score: 472
Period size: 63 Copynumber: 8.5 Consensus size: 63
775006 AACTGCAACA
* * ** * *
775016 ACGACACCGCGAACTACCAGGACGACACCACCAACTACCACAACGACACTGCCAACTACCACT
1 ACGACACCACCAACTACCACTACGACACCACCAACTACCACTACGACACCGCCAACTACCACT
775079 ACGACACCACCAACTACCACTACGACACCTA-CAACTACCACTACGACACCGCCAACTACCACT
1 ACGACACCACCAACTACCACTACGACACC-ACCAACTACCACTACGACACCGCCAACTACCACT
* * * * ** * * * *
775142 ACGACCCCTA-CAACTACCACTTCGACACCGCGAACTACCAGGACGACCCCCCCAACTCCCACA
1 ACGACACC-ACCAACTACCACTACGACACCACCAACTACCACTACGACACCGCCAACTACCACT
** * **
775205 ACGACACTGCCAACTACCACTACGACACCTA-CAACTACCACTACGACACCGCGAACTACCAGG
1 ACGACACCACCAACTACCACTACGACACC-ACCAACTACCACTACGACACCGCCAACTACCACT
* * * * *
775268 ACGACACCGCCAACTACCACTACGACACCGCTAACTACCACTACGGCACCTG-CAACAACCACT
1 ACGACACCACCAACTACCACTACGACACCACCAACTACCACTACGACACC-GCCAACTACCACT
* * * * * * *
775331 AC--TA-CACCGACTACCACTACGAAACCAACAACTACCACAACGACACCACCAACAACCACT
1 ACGACACCACCAACTACCACTACGACACCACCAACTACCACTACGACACCGCCAACTACCACT
* * * * *
775391 ACGACACCACCAACAACCACTACGACACCACCAACTACCACTACGATATCACCAAGTACCACT
1 ACGACACCACCAACTACCACTACGACACCACCAACTACCACTACGACACCGCCAACTACCACT
** * * * * * * * * * * * *
775454 ACGACACCGGCAACTTCAATTACGACACTACTAACCATCA-AACCAACACCACAAACTATCACT
1 ACGACACCACCAACTACCACTACGACACCACCAACTACCACTA-CGACACCGCCAACTACCACT
* * *
775517 ACGACACAACTAACTACTACTACGACACCACCA
1 ACGACACCACCAACTACCACTACGACACCACCA
775550 CCAACCACCA
Statistics
Matches: 375, Mismatches: 84, Indels: 24
0.78 0.17 0.05
Matches are distributed among these distances:
60 48 0.13
61 1 0.00
62 2 0.01
63 321 0.86
64 3 0.01
ACGTcount: A:0.37, C:0.43, G:0.09, T:0.11
Consensus pattern (63 bp):
ACGACACCACCAACTACCACTACGACACCACCAACTACCACTACGACACCGCCAACTACCACT
Found at i:775523 original size:21 final size:21
Alignment explanation
Indices: 775499--775549 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
775489 CATCAAACCA
* *
775499 ACACCACAAACTATCACTACG
1 ACACCACCAACTACCACTACG
* * *
775520 ACACAACTAACTACTACTACG
1 ACACCACCAACTACCACTACG
775541 ACACCACCA
1 ACACCACCA
775550 CCAACCACCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.39, G:0.04, T:0.14
Consensus pattern (21 bp):
ACACCACCAACTACCACTACG
Found at i:775545 original size:42 final size:42
Alignment explanation
Indices: 775027--775549 Score: 434
Period size: 42 Copynumber: 12.5 Consensus size: 42
775017 CGACACCGCG
** * *
775027 AACTACCAGGACGACACCACCAACTACCACAACGACACTGCC
1 AACTACCACTACGACACCACCAACTACCACTACGACACTACC
775069 AACTACCACTACGACACCACCAACTACCACTACGACACCTA-C
1 AACTACCACTACGACACCACCAACTACCACTACGACA-CTACC
* *
775111 AACTACCACTACGACACCGCCAACTACCACTACGACCCCTA-C
1 AACTACCACTACGACACCACCAACTACCACTACGA-CACTACC
* * * ** * **
775153 AACTACCACTTCGACACCGCGAACTACCAGGACGACCCCCCC
1 AACTACCACTACGACACCACCAACTACCACTACGACACTACC
* * **
775195 AACTCCCACAACGACACTGCCAACTACCACTACGACACCTA-C
1 AACTACCACTACGACACCACCAACTACCACTACGACA-CTACC
* * ** **
775237 AACTACCACTACGACACCGCGAACTACCAGGACGACACCGCC
1 AACTACCACTACGACACCACCAACTACCACTACGACACTACC
* * * *
775279 AACTACCACTACGACACCGCTAACTACCACTACGGCACCT-GC
1 AACTACCACTACGACACCACCAACTACCACTACGACA-CTACC
* * * * * *
775321 AACAACCACTAC--TA-CACCGACTACCACTACGAAACCAAC
1 AACTACCACTACGACACCACCAACTACCACTACGACACTACC
* * *
775360 AACTACCACAACGACACCACCAACAACCACTACGACACCACC
1 AACTACCACTACGACACCACCAACTACCACTACGACACTACC
* *
775402 AACAACCACTACGACACCACCAACTACCACTACGATA-TCACC
1 AACTACCACTACGACACCACCAACTACCACTACGACACT-ACC
* ** * * * *
775444 AAGTACCACTACGACACCGGCAACTTCAATTACGACACTACT
1 AACTACCACTACGACACCACCAACTACCACTACGACACTACC
* * * * * * * *
775486 AACCATCA-AACCAACACCACAAACTATCACTACGACACAACT
1 AACTACCACTA-CGACACCACCAACTACCACTACGACACTACC
*
775528 AACTACTACTACGACACCACCA
1 AACTACCACTACGACACCACCA
775550 CCAACCACCA
Statistics
Matches: 382, Mismatches: 85, Indels: 28
0.77 0.17 0.06
Matches are distributed among these distances:
38 1 0.00
39 26 0.07
40 1 0.00
41 6 0.02
42 341 0.89
43 7 0.02
ACGTcount: A:0.37, C:0.43, G:0.08, T:0.11
Consensus pattern (42 bp):
AACTACCACTACGACACCACCAACTACCACTACGACACTACC
Found at i:776621 original size:11 final size:11
Alignment explanation
Indices: 776605--776632 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
776595 TATGGTTCAT
776605 GTACATGTAAA
1 GTACATGTAAA
776616 GTACATGTAAA
1 GTACATGTAAA
776627 GTACAT
1 GTACAT
776633 TGACAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.29
Consensus pattern (11 bp):
GTACATGTAAA
Found at i:791691 original size:2 final size:2
Alignment explanation
Indices: 791684--791723 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
791674 AATTTTTATC
*
791684 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
791724 ATTGCACACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:794088 original size:1 final size:1
Alignment explanation
Indices: 794082--794136 Score: 101
Period size: 1 Copynumber: 55.0 Consensus size: 1
794072 TGTGTGTGTG
*
794082 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
794137 GTCAGCTATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.00, G:0.02, T:0.98
Consensus pattern (1 bp):
T
Found at i:794148 original size:11 final size:11
Alignment explanation
Indices: 794134--794158 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
794124 TTTTTTTTGT
794134 TTTGTCAGCTA
1 TTTGTCAGCTA
794145 TTTGTCAGCTA
1 TTTGTCAGCTA
794156 TTT
1 TTT
794159 AAACCGCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTGTCAGCTA
Found at i:805108 original size:99 final size:98
Alignment explanation
Indices: 805005--807122 Score: 2092
Period size: 99 Copynumber: 21.4 Consensus size: 98
804995 GAAACGACCA
* * *
805005 CACTGTAGAACTTTTATTAGATAATA-AAGCAGATATTAATTCATGTGACACTAACAGAA-AAAC
1 CACTGTACAACTTTTATTAGATAA-AGGAGCAGATATTAATTCATGTGACACAAACA-AAGAAAC
* * * *
805068 TCCTCTACATAAAGCAATTACATGTGGACGTGAAAG
64 TCCTCTACATAAAGCCAGTA-ATGGGGACATGAAAG
** *
805104 CACTGTACGGCTTTTATTAGA-AAGAGGAGCAGATATTAATTCATGTGACACAAAAAAAGAAACT
1 CACTGTACAACTTTTATTAGATAA-AGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACT
* * * *
805168 CCCCTTCATAAAGCCAGTAAATTGGGACATGATAG
65 CCTCTACATAAAGCCAGT-AATGGGGACATGAAAG
* ** *
805203 CATTGTACGGCTTTTATTAGA-AAGAAGAGCAGATATTAATTCATGTGACACAAACAAAGAAACT
1 CACTGTACAACTTTTATTAGATAA-AGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACT
* * * *
805267 CCCCTTCATAAAGCCAGTAAATGGGGACATTATAG
65 CCTCTACATAAAGCCAGT-AATGGGGACATGAAAG
* * * *
805302 CACTGTACAATTTTTATTAGATGAAGGTGCAGATATTAATTCATGTGACGCAAACAAAGAAACTC
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
* * *
805367 CTCTACATAAAGCAAGTGAA-GAAGGACATAAAAG
66 CTCTACATAAAGCCAGT-AATG-GGGACATGAAAG
* * * * * * *
805401 TACCGTGCAACTTTTATTAGAAAAAAGAGCAGACATTGATTCATGTGACACAAACAAAGAAACTC
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
* *
805466 CTCTACAAAAAGCCAGTGAA-GGAGGACATAAAAG
66 CTCTACATAAAGCCAGT-AATGG-GGACATGAAAG
* * * * *
805500 AACTGTGCAACTTTTATTCA-AAAAAGGAGCAAATATTAATTCATGTGACACAAAAAAAGAAACT
1 CACTGTACAACTTTTATT-AGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACT
* ** * *
805564 CCCCTTTATAAAGCCAGTAAGTTGGGACATGATAG
65 CCTCTACATAAAGCCAGTAA-TGGGGACATGAAAG
* * * ** * * *
805599 CACTGTACAATTTTTATTAGATGAAGGTGCATCTATTAATTTAAGTGACACAAACAAAGTAACTC
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
* * *
805664 CTCTACATAAGGCCAGTGAATGTGGACATGAATG
66 CTCTACATAAAGCCAGT-AATGGGGACATGAAAG
* *
805698 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTTATGTGATACAAACAAAGAAACTC
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
** * * ** * **
805763 CTCTTGATAAAGCAATTAAATATGGACAAGGCAG
66 CTCTACATAAAGCCAGT-AATGGGGACATGAAAG
* * * * * * * * *
805797 TACGGTACAACGTTTATTAGATTACGGGGCAGACATTAATTCATGTGACACAAACAAGGAAAATC
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
* * * * * **
805862 ATCTAAATTATGCCAGTGAAT-GGGACCTTGCTAG
66 CTCTACATAAAGCCAGT-AATGGGGA-CATGAAAG
* * *
805896 CACAGTACAA-TTATTATTAGATAAAGGAGCAAATATAAATTCATGTGACACAAACAAAGAAACT
1 CACTGTACAACTT-TTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACT
* * **
805960 CCTCTACATAAAGCCAGTGGACGGGGACATTG-CTG
65 CCTCTACATAAAGCCAGT-AATGGGGACA-TGAAAG
* * * * * *
805995 CACTGTACAACTTTTATTAGATAAAGGAGCAGATGTTAATTTATGTGATATAAATAAAAAAACTC
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
* * *
806060 CTCTACATAAAGCAAGTAAAGGAGGACATCAAAG
66 CTCTACATAAAGCCAGTAATGG-GGACATGAAAG
* *
806094 CACGGTGCAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
806159 CTCTACATAAAGCCAGTAAATGGGGACATGAAAG
66 CTCTACATAAAGCCAGT-AATGGGGACATGAAAG
*
806193 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAATGAAACTC
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
*
806258 CTCTA-ATAAAAGCCAGTAAATGGGGACATGATAG
66 CTCTACAT-AAAGCCAGT-AATGGGGACATGAAAG
* ** *
806292 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTGATTCATGTGACGGAAACGGAA-AAACT
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAAC-AAAGAAACT
** **
806356 CCTCTACATAAAGCCAGTCTTTGGGGACATGTCAG
65 CCTCTACATAAAGCCAGT-AATGGGGACATGAAAG
* * * * ** * * *
806391 CACTGTAAAACTCTTATTAGATGAAGGAGCAAATACCAATT-ATGATGATATAAACAATGAAACT
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATG-TGACACAAACAAAGAAACT
* * * * ** *
806455 CCTCTTCATGAAGCCATTGAAAGGGGATGTGAAAA
65 CCTCTACATAAAGCCAGT-AATGGGGACATGAAAG
* * * ** * * * **
806490 CACAGTGCAACTTTTGTTAGATAAAGGAGCAGATACCAATT-ATTGTGATATAAACAATGAATTT
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCA-TGTGACACAAACAAAGAAACT
* ** *
806554 CCTCTACATAAAGCCAGTGAAAGGGGATGTGAAAA
65 CCTCTACATAAAGCCAGT-AATGGGGACATGAAAG
* * * * *** * *
806589 CA-TAGTGCAACTTTTATTAGATAAAGGAGCATATATTAATGCATGCGACTTTAACGGAA-CAAC
1 CACT-GTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAAC-AAAGAAAC
*
806652 TCCTCTACATAAAGCCAGTAAATGGGGACATAAAAG
64 TCCTCTACATAAAGCCAGT-AATGGGGACATGAAAG
* * *** *
806688 CATTGTGCAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACGTCGAAACAC
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
* * *
806753 CTTTACACAAAGCCAGTGAATGGGGAGATGAAAG
66 CTCTACATAAAGCCAGT-AATGGGGACATGAAAG
* * * * * *
806787 CTCTGTACAGCTTTTATTAGATAAAGGAGCGGATGTTAATTCATGTGACACAAACGAAGAAACAC
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
* * * * *
806852 CTTTACATAAAGCCAGTAAAGAAGGAGAGGAAAG
66 CTCTACATAAAGCCAGTAATG-GGGACATGAAAG
* * * *
806886 CACTGTACAACTTTTATTAGATAACGGAGCAAATATTGATTCATGTGACGCAAACAAAGAAACTC
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
* *
806951 CTCTACATAAAGCCAGTGGACGGGGACATGAAAG
66 CTCTACATAAAGCCAGT-AATGGGGACATGAAAG
* * *
806985 CACTGTACAACTTTTATTAGATGAAGGAGCAGATATTAATTCATATGACACAAATAAAGAAACTC
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
**
807050 CTCTACATAAAGCCAGTGAGA-AAGGACATGAAAG
66 CTCTACATAAAGCCAGT-A-ATGGGGACATGAAAG
* *
807084 CACTGTACAACTTTTATTAAAAAAAGGAGCAGATATTAA
1 CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAA
807123 GGAGGAGGAA
Statistics
Matches: 1687, Mismatches: 299, Indels: 66
0.82 0.15 0.03
Matches are distributed among these distances:
98 27 0.02
99 1631 0.97
100 29 0.02
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.25
Consensus pattern (98 bp):
CACTGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
CTCTACATAAAGCCAGTAATGGGGACATGAAAG
Found at i:807257 original size:99 final size:97
Alignment explanation
Indices: 807130--807515 Score: 389
Period size: 99 Copynumber: 3.9 Consensus size: 97
807120 TAAGGAGGAG
* * * * * *
807130 GAAAGCACTGTGCAACGTTTATTAGATAAAGGAGGAAATAGTAATTCATGCGACACAAATAAAGA
1 GAAAGCACTGTACAACTTTTATTAGATAAAGGAGCAAATATTAATTCATGTGACACAAACAAAGA
807195 AACTCCTCTACATAAAGTCAATGAAGAAGGACAT
66 AACTCCTCTACATAAAG-CAA-GAAGAAGGACAT
* * * *
807229 GAAAGCACTGTGCAACTTTTATAAGATAAGGGAGCAACTATTAATTCATGTGACACAAACAAAGA
1 GAAAGCACTGTACAACTTTTATTAGATAAAGGAGCAAATATTAATTCATGTGACACAAACAAAGA
* * *
807294 AACTCCTCTACATAAAGCAAGTATACTGCGA-ACT
66 AACTCCTCTACATAAAGCAAGAAGA-AG-GACA-T
* * * * * *
807328 GAGAGCACTTTACAACTTTTATTAGATAAAGGAGCAAATATTAATTTATGTGATATAAACAATGA
1 GAAAGCACTGTACAACTTTTATTAGATAAAGGAGCAAATATTAATTCATGTGACACAAACAAAGA
* * *
807393 AACTCCTATACATAAAGCCAAGGAATG-GGGACGT
66 AACTCCTCTACATAAAG-CAA-GAA-GAAGGACAT
* * * *
807427 GAAAGCACTGTACATCTATTATTACATGTAGATAAAGAAGCATATATTAATTCATGTGACACCAA
1 GAAAGCACTGTACAAC--TT-TT--AT-TAGATAAAGGAGCAAATATTAATTCATGTGACACAAA
*
807492 CAAAGAAACTCCTCTATATAAAGC
60 CAAAGAAACTCCTCTACATAAAGC
807516 CAGTGAATGC
Statistics
Matches: 236, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
97 3 0.01
98 5 0.02
99 164 0.69
100 4 0.02
101 4 0.02
102 2 0.01
104 3 0.01
105 51 0.22
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (97 bp):
GAAAGCACTGTACAACTTTTATTAGATAAAGGAGCAAATATTAATTCATGTGACACAAACAAAGA
AACTCCTCTACATAAAGCAAGAAGAAGGACAT
Found at i:807263 original size:150 final size:150
Alignment explanation
Indices: 806980--807272 Score: 421
Period size: 150 Copynumber: 2.0 Consensus size: 150
806970 ACGGGGACAT
* * * * *
806980 GAAAGCACTGTACAACTTTTATTAGATGAAGGAGCAGATATTAATTCATATGACACAAATAAAGA
1 GAAAGCACTGTACAACGTTTATTAGATAAAGGAGCAAATAGTAATTCATACGACACAAATAAAGA
*
807045 AACTCCTCTACATAAAGCCAGTGAGAAAGGACATGAAAGCACTGTACAACTTTTATTAAAAAAAG
66 AACTCCTCTACATAAAGCCAATGAGAAAGGACATGAAAGCACTGTACAACTTTTATTAAAAAAAG
807110 GAGCAGA-TATTAAGGAGGAG
131 GAGCA-ACTATTAAGGAGGAG
* * *
807130 GAAAGCACTGTGCAACGTTTATTAGATAAAGGAGGAAATAGTAATTCATGCGACACAAATAAAGA
1 GAAAGCACTGTACAACGTTTATTAGATAAAGGAGCAAATAGTAATTCATACGACACAAATAAAGA
* * *
807195 AACTCCTCTACATAAAGTCAATGA-AGAAGGACATGAAAGCACTGTGCAACTTTTA-TAAGATAA
66 AACTCCTCTACATAAAGCCAATGAGA-AAGGACATGAAAGCACTGTACAACTTTTATTAA-AAAA
*
807258 GGGAGCAACTATTAA
129 AGGAGCAACTATTAA
807273 TTCATGTGAC
Statistics
Matches: 127, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
149 5 0.04
150 122 0.96
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (150 bp):
GAAAGCACTGTACAACGTTTATTAGATAAAGGAGCAAATAGTAATTCATACGACACAAATAAAGA
AACTCCTCTACATAAAGCCAATGAGAAAGGACATGAAAGCACTGTACAACTTTTATTAAAAAAAG
GAGCAACTATTAAGGAGGAG
Found at i:807344 original size:249 final size:248
Alignment explanation
Indices: 806873--807371 Score: 675
Period size: 249 Copynumber: 2.0 Consensus size: 248
806863 GCCAGTAAAG
* * * * * *
806873 AAGGAGAGGAAAGCACTGTACAACTTTTATTAGATAACGGAGCAAATATTGATTCATGTGACGCA
1 AAGGAGAGGAAAGCACTGTACAACGTTTATTAGATAAAGGAGCAAATAGTAATTCATGCGACACA
* * * *
806938 AACAAAGAAACTCCTCTACATAAAGCCAGTGGACGGGGACATGAAAGCACTGTACAACTTTTATT
66 AACAAAGAAACTCCTCTACATAAAGCCAATGGAAGAGGACATGAAAGCACTGTACAACTTTTATA
* *
807003 AGATGAAGGAGCAGATATTAATTCATATGACACAAATAAAGAAACTCCTCTACATAAAGCCAGTG
131 AGATGAAGGAGCAGATATTAATTCATATGACACAAACAAAGAAACTCCTCTACATAAAGCAAGTG
*
807068 AGAAAGGACATGAAAGCACTGTACAACTTTTATTAAAAAAAGGAGCAGATATT
196 AGAAAGGACATGAAAGCACTGTACAACTTTTATTAAAAAAAGGAGCAAATATT
* *
807121 AAGGAGGAGGAAAGCACTGTGCAACGTTTATTAGATAAAGGAGGAAATAGTAATTCATGCGACAC
1 AAGGA-GAGGAAAGCACTGTACAACGTTTATTAGATAAAGGAGCAAATAGTAATTCATGCGACAC
* * *
807186 AAATAAAGAAACTCCTCTACATAAAGTCAAT-GAAGAAGGACATGAAAGCACTGTGCAACTTTTA
65 AAACAAAGAAACTCCTCTACATAAAGCCAATGGAAG-AGGACATGAAAGCACTGTACAACTTTTA
*
807250 TAAGAT-AAGGGAGCA-ACTATTAATTCATGTGACACAAACAAAGAAACTCCTCTACATAAAGCA
129 TAAGATGAA-GGAGCAGA-TATTAATTCATATGACACAAACAAAGAAACTCCTCTACATAAAGCA
* ** * * * *
807313 AGT-ATACTGCGA-ACTGAGAGCACTTTACAACTTTTATTAGATAAAGGAGCAAATATT
192 AGTGAGAAAG-GACA-TGAAAGCACTGTACAACTTTTATTAAAAAAAGGAGCAAATATT
807370 AA
1 AA
807372 TTTATGTGAT
Statistics
Matches: 219, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
248 15 0.07
249 204 0.93
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (248 bp):
AAGGAGAGGAAAGCACTGTACAACGTTTATTAGATAAAGGAGCAAATAGTAATTCATGCGACACA
AACAAAGAAACTCCTCTACATAAAGCCAATGGAAGAGGACATGAAAGCACTGTACAACTTTTATA
AGATGAAGGAGCAGATATTAATTCATATGACACAAACAAAGAAACTCCTCTACATAAAGCAAGTG
AGAAAGGACATGAAAGCACTGTACAACTTTTATTAAAAAAAGGAGCAAATATT
Found at i:807436 original size:348 final size:348
Alignment explanation
Indices: 806799--807450 Score: 882
Period size: 348 Copynumber: 1.9 Consensus size: 348
806789 CTGTACAGCT
* * * *
806799 TTTATTAGATAAAGGAGCGGATGTTAATTCATGTGACACAAACGAAGAAACACCTTTACATAAAG
1 TTTATTAGATAAAGGAGCGAATGTTAATTCATGCGACACAAACAAAGAAACACCTCTACATAAAG
* * * *
806864 CCAGTAAAGAAGGAGAGGAAAGCACTGTACAACTTTTATTAGATAACGGAGCAAATATTGATTCA
66 CCAATAAAGAAGGACAGGAAAGCACTGTACAACTTTTATAAGATAACGGAGCAAATATTAATTCA
* * * * *
806929 TGTGACGCAAACAAAGAAACTCCTCTACATAAAGCCAGTGGACGGGGACATGAAAGCACTGTACA
131 TGTGACACAAACAAAGAAACTCCTCTACATAAAGCAAGTAGACGCGAACATGAAAGCACTGTACA
* * * *
806994 ACTTTTATTAGATGAAGGAGCAGATATTAATTCATATGACACAAATAAAGAAACTCCTCTACATA
196 ACTTTTATTAGATAAAGGAGCAAATATTAATTCATATGACACAAACAAAGAAACTCCTATACATA
*
807059 AAGCCAGTGAGAAAGGACATGAAAGCACTGTACAACTTTTATTAAAAAAAGGAGCAGATATTAAG
261 AAGCCAGTGAGAAAGGACATGAAAGCACTGTACAACTATTATTAAAAAAAGGAGCAGATATTAAG
807124 GAGGAGGAAAGCACTGTGCAACG
326 GAGGAGGAAAGCACTGTGCAACG
* *
807147 TTTATTAGATAAAGGAG-GAAATAG-TAATTCATGCGACACAAATAAAGAAACTCCTCTACATAA
1 TTTATTAGATAAAGGAGCG-AAT-GTTAATTCATGCGACACAAACAAAGAAACACCTCTACATAA
* * * * * *
807210 AGTCAATGAAGAAGGACATGAAAGCACTGTGCAACTTTTATAAGATAAGGGAGCAACTATTAATT
64 AGCCAATAAAGAAGGACAGGAAAGCACTGTACAACTTTTATAAGATAACGGAGCAAATATTAATT
* * *
807275 CATGTGACACAAACAAAGAAACTCCTCTACATAAAGCAAGTATACTGCGAAC-TGAGAGCACTTT
129 CATGTGACACAAACAAAGAAACTCCTCTACATAAAGCAAGTAGAC-GCGAACATGAAAGCACTGT
* * * * *
807339 ACAACTTTTATTAGATAAAGGAGCAAATATTAATTTATGTGATATAAACAATGAAACTCCTATAC
193 ACAACTTTTATTAGATAAAGGAGCAAATATTAATTCATATGACACAAACAAAGAAACTCCTATAC
** * *
807404 ATAAAGCCAAG-GA-ATGGGGACGTGAAAGCACTGTACATCTATTATTA
258 ATAAAGCC-AGTGAGA-AAGGACATGAAAGCACTGTACAACTATTATTA
807451 CATGTAGATA
Statistics
Matches: 261, Mismatches: 38, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
347 2 0.01
348 252 0.97
349 7 0.03
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (348 bp):
TTTATTAGATAAAGGAGCGAATGTTAATTCATGCGACACAAACAAAGAAACACCTCTACATAAAG
CCAATAAAGAAGGACAGGAAAGCACTGTACAACTTTTATAAGATAACGGAGCAAATATTAATTCA
TGTGACACAAACAAAGAAACTCCTCTACATAAAGCAAGTAGACGCGAACATGAAAGCACTGTACA
ACTTTTATTAGATAAAGGAGCAAATATTAATTCATATGACACAAACAAAGAAACTCCTATACATA
AAGCCAGTGAGAAAGGACATGAAAGCACTGTACAACTATTATTAAAAAAAGGAGCAGATATTAAG
GAGGAGGAAAGCACTGTGCAACG
Found at i:807538 original size:105 final size:98
Alignment explanation
Indices: 807132--807610 Score: 367
Period size: 99 Copynumber: 4.8 Consensus size: 98
807122 AGGAGGAGGA
* * * * * * *
807132 AAGCACTGTGCAACGTTTATTAGATAAAGGAGGAAATAGTAATTCATGCGACACAAATAAAGAAA
1 AAGCACTGTACAACTTTTATTAGATAAAGAAGCAAATATTAATTCATGTGACACAAACAAAGAAA
* * * * *
807197 CTCCTCTACATAAAGTCAATGAA-GAAGGACATGA
66 CTCCTCTACATAAAGCCAGTGAATG--CGACCTGG
* * * * *
807231 AAGCACTGTGCAACTTTTATAAGATAAGGGAGCAACTATTAATTCATGTGACACAAACAAAGAAA
1 AAGCACTGTACAACTTTTATTAGATAAAGAAGCAAATATTAATTCATGTGACACAAACAAAGAAA
* *
807296 CTCCTCTACATAAAGCAAGT-ATACTGCGAACT-G
66 CTCCTCTACATAAAGCCAGTGA-A-TGCGACCTGG
* * * * * *
807329 AGAGCACTTTACAACTTTTATTAGATAAAGGAGCAAATATTAATTTATGTGATATAAACAATGAA
1 A-AGCACTGTACAACTTTTATTAGATAAAGAAGCAAATATTAATTCATGTGACACAAACAAAGAA
* * * *
807394 ACTCCTATACATAAAGCCAAG-GAATGGGGACGTGA
65 ACTCCTCTACATAAAGCC-AGTGAAT-GCGACCTGG
* * *
807429 AAGCACTGTACATCTATTATTACATGTAGATAAAGAAGCATATATTAATTCATGTGACACCAACA
1 AAGCACTGTACAAC--TT-TT--AT-TAGATAAAGAAGCAAATATTAATTCATGTGACACAAACA
*
807494 AAGAAACTCCTCTATATAAAGCCAGTGAATGCTGACCTGG
60 AAGAAACTCCTCTACATAAAGCCAGTGAATGC-GACCTGG
* * * * * * * * * * *
807534 AAGCAATATTCAACTGTTACTAGTTAAAGGAGCAGATATTAACTT-TTGTGACA-ATAAGAAACA
1 AAGCACTGTACAACTTTTATTAGATAAAGAAGCAAATATTAA-TTCATGTGACACA-AACAAAGA
*
807597 AACTCCTTTACATA
64 AACTCCTCTACATA
807611 TCGCCGGTTA
Statistics
Matches: 303, Mismatches: 59, Indels: 36
0.76 0.15 0.09
Matches are distributed among these distances:
98 3 0.01
99 208 0.69
100 7 0.02
101 3 0.01
102 4 0.01
103 1 0.00
104 5 0.02
105 72 0.24
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (98 bp):
AAGCACTGTACAACTTTTATTAGATAAAGAAGCAAATATTAATTCATGTGACACAAACAAAGAAA
CTCCTCTACATAAAGCCAGTGAATGCGACCTGG
Found at i:812872 original size:20 final size:21
Alignment explanation
Indices: 812830--812873 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
812820 AGACTATAGG
*
812830 TACATTATGTCAAATTACCAT
1 TACATTATGTCAAAGTACCAT
812851 TACATTATGTCAAAGT-CCAT
1 TACATTATGTCAAAGTACCAT
812871 TAC
1 TAC
812874 GTGGTGTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (21 bp):
TACATTATGTCAAAGTACCAT
Found at i:813115 original size:84 final size:82
Alignment explanation
Indices: 813027--813197 Score: 182
Period size: 84 Copynumber: 2.1 Consensus size: 82
813017 CAACCAAAGG
* * * * * ** *
813027 TCAATACATCATGACATTAT-TTCGACACTGTATTACATGGGGCGAATGTATCCTTACATTATGT
1 TCAATACATCATGACATTATATT-AACACCGCAGTACATAGCACGAATCTATCCTTACA-T-TGT
813091 CAACATTTTATTACATGATA
63 CAACATTTTATTACATGATA
* * * * * *
813111 TCAATATATCCTTACATTATATTAACACCGCAGTACGTATCACGATTCTATCCTTACATTGTCAA
1 TCAATACATCATGACATTATATTAACACCGCAGTACATAGCACGAATCTATCCTTACATTGTCAA
813176 CATTTTATTACATGATA
66 CATTTTATTACATGATA
813193 TCAAT
1 TCAAT
813198 GCATTTTTAC
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
82 28 0.39
83 1 0.01
84 41 0.57
85 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (82 bp):
TCAATACATCATGACATTATATTAACACCGCAGTACATAGCACGAATCTATCCTTACATTGTCAA
CATTTTATTACATGATA
Found at i:813121 original size:42 final size:42
Alignment explanation
Indices: 813075--813197 Score: 112
Period size: 42 Copynumber: 3.0 Consensus size: 42
813065 GGGGCGAATG
813075 TATCCTTACATTATGTCAACATTTTATTACATGATATCAATA
1 TATCCTTACATTATGTCAACATTTTATTACATGATATCAATA
* * **** * *
813117 TATCCTTACATTATATTAACACCGCAGTAC--G-TATCACGATTC
1 TATCCTTACATTATGTCAACATTTTATTACATGATATCA--A-TA
813159 TATCCTTACA-T-TGTCAACATTTTATTACATGATATCAAT
1 TATCCTTACATTATGTCAACATTTTATTACATGATATCAAT
813198 GCATTTTTAC
Statistics
Matches: 60, Mismatches: 15, Indels: 14
0.67 0.17 0.16
Matches are distributed among these distances:
39 5 0.08
40 12 0.20
41 3 0.05
42 35 0.58
43 5 0.08
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (42 bp):
TATCCTTACATTATGTCAACATTTTATTACATGATATCAATA
Found at i:819289 original size:21 final size:22
Alignment explanation
Indices: 819260--819305 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
819250 AATAGCAACG
819260 TTTACTTTTAACTACTAAATAC
1 TTTACTTTTAACTACTAAATAC
*
819282 TTTA-TTTTATCTACTAAATAC
1 TTTACTTTTAACTACTAAATAC
819303 TTT
1 TTT
819306 GAGACTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTACTTTTAACTACTAAATAC
Found at i:820146 original size:21 final size:21
Alignment explanation
Indices: 820122--820182 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 21
820112 TACTGCGGTG
*
820122 TTGATATAATGTAAGGATATA
1 TTGAAATAATGTAAGGATATA
** ** * *
820143 TTGAAAGCATGTAATAAAATG
1 TTGAAATAATGTAAGGATATA
*
820164 TTGACATAATGTAAGGATA
1 TTGAAATAATGTAAGGATA
820183 CATTCGCCCC
Statistics
Matches: 27, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.03, G:0.20, T:0.33
Consensus pattern (21 bp):
TTGAAATAATGTAAGGATATA
Found at i:820196 original size:42 final size:42
Alignment explanation
Indices: 820066--820200 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 42
820056 GCATTGATAT
* * *
820066 CATGTAATAAAATGTTGACATAATGTAAGGATAGAATCGCGA
1 CATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCAA
* * * **** * * *
820108 TACGTACTGCGGTGTTGATATAATGTAAGGATATATT-GAAA
1 CATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCAA
**
820149 GCATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCCC
1 -CATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCAA
820192 CATGTAATA
1 CATGTAATA
820201 CAGTGTCGAA
Statistics
Matches: 67, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
41 2 0.03
42 64 0.96
43 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.30
Consensus pattern (42 bp):
CATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCAA
Found at i:820409 original size:20 final size:21
Alignment explanation
Indices: 820384--820427 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
820374 TTCACACCAC
*
820384 GTAATG-GACTTTGACATAAT
1 GTAATGAGAATTTGACATAAT
*
820404 GTAATGATAATTTGACATAAT
1 GTAATGAGAATTTGACATAAT
820425 GTA
1 GTA
820428 CCTATAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (21 bp):
GTAATGAGAATTTGACATAAT
Found at i:822765 original size:18 final size:19
Alignment explanation
Indices: 822742--822784 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
822732 CATATTTTGA
822742 AATATCTAT-GAGTTTATC
1 AATATCTATAGAGTTTATC
822760 AATATCTATGAAGAGTTTATC
1 AATATCTAT--AGAGTTTATC
822781 AATA
1 AATA
822785 AAACATTCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
21 13 0.59
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (19 bp):
AATATCTATAGAGTTTATC
Found at i:826096 original size:99 final size:98
Alignment explanation
Indices: 825986--829876 Score: 3894
Period size: 99 Copynumber: 39.4 Consensus size: 98
825976 ACGACCACAT
* * *
825986 TGTAGAACTTTTACTA-AGTAAAGGAGCAGATATTAATTCATGTAAC-CTAAGA-AAAGAAACTC
1 TGTACAACTTTTATTAGA-TAAAGGAGCAGATATTAATTCATGTGACAC-AA-ACAAAGAAACTC
*
826048 CTCTACATAAAGCCAGTGGAAAGGGACATGTAAG-AGC
63 CTCTACATAAAGCCAGT-GAAAGGGACATGAAAGCA-C
* *
826085 TGTACAACTTTTATTAGATAAAGGAGCAAATATCAATTCATGTGACACAAACAAAGAAACTCCTC
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
* * *
826150 TACTTAAAG-CAAT-AAGAGGAGGA-AGGGAAAGCAC
66 TACATAAAGCCAGTGAA-A-G-GGACA-TGAAAGCAC
* * * *
826184 TGCACAGCTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACA-AATATAATGAAACTCCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAA-ACAAAGAAACTCCT
* * *
826248 GTACATAAAGCAAGTGGAAAGGGACATGTAAG-AGC
65 CTACATAAAGCCAGT-GAAAGGGACATGAAAGCA-C
* *
826283 TGTACAGCTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGAC-CTAAAGAAAGAAACTCCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACAC-AAACAAAGAAACTCCT
* *
826347 CTACATAAAGCCAGTGAAGGAGGACATAAAAGCAC
65 CTACATAAAGCCAGTGAAAG-GGACATGAAAGCAC
* * *
826382 TGTGCAACTTTTATTAGAAAAAGGAGCAGATATTAATTCATGTGACA-ATTACAAAGAAACTCCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACA-AACAAAGAAACTCCT
* * * *
826446 CTACATAAAGCCAGTGAAGAAGGTCAGGAAAGTAC
65 CTACATAAAGCCAGTGAA-AGGGACATGAAAGCAC
* * *
826481 TGTACAACTTTTATTAGAAAAAGGAGCAAATATTAATTCATGTGAC-CTAAAGAAAGAAACTCCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACAC-AAACAAAGAAACTCCT
* *
826545 CTACATAAAGCCAGTGAAGGAGGACATAAAAGCAC
65 CTACATAAAGCCAGTGAAAG-GGACATGAAAGCAC
* * *
826580 TGTGCAACTTTTATTAGAAAAAGGAGCAGATATTAATTCATGTGACA-ATTACAAAGAAACTCCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACA-AACAAAGAAACTCCT
* * * *
826644 CTACATAAAGCCAGTGAAGAAGGTCAGGAAAGTAC
65 CTACATAAAGCCAGTGAA-AGGGACATGAAAGCAC
* * *
826679 TGTACAACTTTTATTAGAAAAAGGAGCAAATATTAATTCATGTGAC-CTAAAGAAAGAAACTCCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACAC-AAACAAAGAAACTCCT
* *
826743 CTACATAAAGCCAGTGAAGGAGGACATAAAAGCAC
65 CTACATAAAGCCAGTGAAAG-GGACATGAAAGCAC
* * * * *
826778 TGTGCAACTTTTATTACAAAAAGGAGCAAATATTAATTCATGTGAC-CTTAACAAAGAAACTCCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACAC-AAACAAAGAAACTCCT
** *
826842 CTACATAAAGCCAGTAGACGGGGACATGAGAGCAC
65 CTACATAAAGCCAGT-GAAAGGGACATGAAAGCAC
* * * *
826877 TGTGCAACTTTTATTAGAAAAAGGAGCAAATATTAATTCATGTGACACAAAGAAAGAAAC-CTCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC-CT
* * * *
826941 CTGCA-AAAGGCCTGTGAAAGAGGACTTGAAAGAAC
65 CTACATAAA-GCCAGTGAAAG-GGACATGAAAGCAC
* * *
826976 TGTGCAACTTTTATTAGAAAAAGGAGGAGCAAATATTAATTCATGTGACACAAACAAAGAAACTC
1 TGTACAACTTTTATTAG-ATAA--AGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTC
*
827041 CTCTACATAAAGCCAGT-AAATGGGGACATGATAGCAC
63 CTCTACATAAAGCCAGTGAAA--GGGACATGAAAGCAC
* * * * *
827078 GGTACAACTTGTGTTAGATAAAGGGGCAGATATTAATTCATGTGACACAAACAAAAAAACTCCTC
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
* ** *
827143 TACATAAAGCCAGTGAATGGGGATGTGATAGCAC
66 TACATAAAGCCAGTGAA-AGGGACATGAAAGCAC
* * *
827177 GGTACAACTTTTATTAGATAAAGGGGCAGATATTAATTCATGTGACACAAACAAAAAAACTCCTC
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
* ** *
827242 TACATAAAGCCAGTGAATGGGGATGTGATAGCAC
66 TACATAAAGCCAGTGAA-AGGGACATGAAAGCAC
* * * *
827276 GGTACAACTTTTATTAGATAAAGGGGCAGATATTAATTCATGTGACACAAGCAAAAAAACTCCTC
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
* *
827341 TACATAAAGCCAGT-AAATGGAGAAATGATAGCA-
66 TACATAAAGCCAGTGAAA-GG-GACATGAAAGCAC
* * * * *
827374 TGGTACAACTTTTATTAGAAAAAGGAGCGGATGTTAATTCATGGGAC-CTTAACAAAGAAACTCC
1 T-GTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACAC-AAACAAAGAAACTCC
* * ** *
827438 TCTAGATAATGCCAGTAGACGGGGAAATGAAAGCAC
64 TCTACATAAAGCCAGT-GAAAGGGACATGAAAGCAC
* * * *
827474 TGTGCAACTTATATTAGAAAAAGGAGCAAATATTAATTCATGTGACACAAACAAAGAAACTCCTC
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
* * *
827539 TACATAAAGCCAGTGAATGGGGACATTATAGCAC
66 TACATAAAGCCAGTGAA-AGGGACATGAAAGCAC
* * * *
827573 GGTGCAACTTTTATTAGATAAAGGGGCAGATATTAATTCATGTGACACAAACAAAAAAACTCCTC
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
* * * *
827638 TACATAAAGCCATTGAACGTGGACATGATAGTA-
66 TACATAAAGCCAGTGAAAG-GGACATGAAAGCAC
* * *
827671 TGTACAAGTTTTATTAGATAATGGAGCAGATATTAATAT-ATGTAACACAAACAAAGAAACTCCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAAT-TCATGTGACACAAACAAAGAAACTCCT
* * *
827735 CTACATAAAGCCATTGAACGTGGACATGATAGCAC
65 CTACATAAAGCCAGTGAAAG-GGACATGAAAGCAC
* * * *
827770 TGTGCAACGTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACGAACAAACTCCTC
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
* * * * * * *
827835 TACAAAAAGCAATTAAATATGGACGTAAAAGCAC
66 TACATAAAGCCAGTGAA-AGGGACATGAAAGCAC
* * * * * * *
827869 TGTACAGCTTTTATTAGATAAAGTAGCAGATATTGA-TC-TGTGTAAAACAAACAATGAAACACT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTG--ACACAAACAAAGAAACTCC
* * * * * *
827932 TCTCCATTATGCCAGTCAATGGGGACTTGATAA-CAC
64 TCTACATAAAGCCAGTGAA-AGGGACATGA-AAGCAC
* *
827968 TGTACAACTTTTATTAGATAAAGGGGCAGATATTGATTCATGTGACACAAACAAAGAAACTCCTC
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
* *
828033 TACATAAAGCTAGTG-AAGGAAGGCATGAAAGCAC
66 TACATAAAGCCAGTGAAAGG--GACATGAAAGCAC
* * * * * *
828067 TGTACAAGTTTAATTATATAATGGAGCAGATATTAATAT-ATGTAACACAAACAAAGAAACCCCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAAT-TCATGTGACACAAACAAAGAAACTCCT
* * * *
828131 CTGCATAAAGCAAGTGAATGGGGA-AGTGAAAGAAC
65 CTACATAAAGCCAGTGAA-AGGGACA-TGAAAGCAC
* * *
828166 TGTACAACTTTTATTAGATAAAGGAGCAGCTATTAATTTATGTGACATAAACAAAGAAACTCCTC
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
* * *
828231 TACATAAATCCAGTAAAATGGGATAT-AAAGGCAC
66 TACATAAAGCCAGTGAAA-GGGACATGAAA-GCAC
* *
828265 CGTACAACTTTTATTAGAAAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
*
828330 TACATAAAGCCAGT-AAATGGGGACGTGAAAGCAC
66 TACATAAAGCCAGTGAAA--GGGACATGAAAGCAC
* * * * * * * *
828364 TGTACAGCTTTTATTAGATAAAGGAGCAAATGTAAATTCATGTGACACATATAAAGAAACCCCTT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
* * ** *
828429 TACACAAAGTCAGTGAAATGGGACAACAAAGCAT
66 TACATAAAGCCAGTGAAA-GGGACATGAAAGCAC
828463 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
*
828528 TACATAAAGCCAGTGAATGTGGA-AGTGAAAGCAC
66 TACATAAAGCCAGTGAAAG-GGACA-TGAAAGCAC
* * *
828562 TGTACAGCTTTTATTAGATAAAGGAGCAAATATTAATTTAT-TAGACACAAACAAAGAAACTCCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGT-GACACAAACAAAGAAACTCCT
* * * * * *
828626 CTACATACAG-CAATTAAATGTGGAGAGGAAATCAC
65 CTACATAAAGCCAGTGAAA-G-GGACATGAAAGCAC
* * *
828661 TGTACAGCTTTTATTAGATAAAGGAGCAAATATT-ATTCTATGTGACACAAACAAAGAAACTCTT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTC-ATGTGACACAAACAAAGAAACTCCT
* * * * ** * *
828725 CTCCATTATGCCAGTCTATGGGGACTTAAAAGCAC
65 CTACATAAAGCCAGT-GAAAGGGACATGAAAGCAC
* * * *
828760 TGTACAACGTTTATTAGGA-AAAGGAACAGATATTAATTCATATGACA-AATACAATGAAACTCC
1 TGTACAACTTTTATTA-GATAAAGGAGCAGATATTAATTCATGTGACACAA-ACAAAGAAACTCC
* *
828823 TCTACATAAAGCCAGTGAATCGGGACATGAAAGAAC
64 TCTACATAAAGCCAGTGAA-AGGGACATGAAAGCAC
* *
828859 TGTACAGCTTTTATTAGATAACGGAGCAGATATTAATTCATGTGACGA-AAACAAAGAAACTCCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGAC-ACAAACAAAGAAACTCCT
* *
828923 CTGCATAAAGCCAGTGGAAAGGGACGTGAAAGCAC
65 CTACATAAAGCCAGT-GAAAGGGACATGAAAGCAC
* *
828958 TGTACAACTTTTATTAGATAAAGGTGCAGATATTAATTTATGTGACACAAACAAAGAAACTCCTC
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
* ** *
829023 TACATAAAGCCTGTGATTGGGGACATGATAGCAC
66 TACATAAAGCCAGTGA-AAGGGACATGAAAGCAC
* * * * *
829057 TGTACAACTTTTATTAGATAAAGGATCAAACATTAATTCATTTGACA-AATACAATGAAACTCCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAA-ACAAAGAAACTCCT
* * *
829121 CTACATAAAGCCAGTGAATCGGGACATAAAAGAAC
65 CTACATAAAGCCAGTGAA-AGGGACATGAAAGCAC
* * * *
829156 AGTGCAACTTTTATTACATAAAGGAGCAGATATTAATTCCTGTGACGA-AAACAAAGAAACTCCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGAC-ACAAACAAAGAAACTCCT
* *
829220 CTGCATAAAGCCAGTGCAAAGGGACGTGAAAGCAC
65 CTACATAAAGCCAGTG-AAAGGGACATGAAAGCAC
* *
829255 TGTACAACTTTTATTAGATAAAGGAGCAAATATTAATTCATGTGACGA-AAACAAACAAACTCCT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGAC-ACAAACAAAGAAACTCCT
* * *
829319 CTGCATAAAGCCAGTGGAAAGGGACGTAAAAGCAC
65 CTACATAAAGCCAGT-GAAAGGGACATGAAAGCAC
*
829354 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACA-AATACAATGAAAC-CTC
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAA-ACAAAGAAACTC-C
* * * ** *
829417 TTTACATAGAGCCAAACT-ACTGGGACATGAAAACAC
64 TCTACATAAAGCC--AGTGAAAGGGACATGAAAGCAC
* * *
829453 TGTACAACTTTTATCAGATAAAGG-GCAGATATTAATTCATGAGACACAAACAAATAAA-----C
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
*
829512 T-C-----G--AGTGAACAGGGATATGAAAGCAC
66 TACATAAAGCCAGTGAA-AGGGACATGAAAGCAC
* * * * * * * * *
829538 TGCACATCATTTACTAAATAAATGAGCAGATATTAATTTACATGAGACACAAACAAAGACACTAC
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAA-TT-CATGTGACACAAACAAAGAAACTCC
* * * * *
829603 TCTACGTTAAGCAAG-GAAACCGGGAC-TAAAAAGAAC
64 TCTACATAAAGCCAGTGAAA--GGGACAT-GAAAGCAC
* * * *
829639 TGTACACATTTTTATT-GAATAAAGGAGCAGATATTAATTCATGTGGCAGAAACAACGACAA-TC
1 TGTACA-ACTTTTATTAG-ATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGA-AACTC
* * * * * * **
829702 CTCTCCAAAAAGCCAATAAAAGGGGACCTAAAAGCGT
63 CTCTACATAAAGCCAGTGAAA-GGGACATGAAAGCAC
** * * ** ** * * * *
829739 TACACAACTTCTATTGGATAAAAAAAAAACATACTAATCCATGTTACGA-AAACAAAGAAACTCC
1 TGTACAACTTTTATTAGAT-AAAGGAGCAGATATTAATTCATGTGAC-ACAAACAAAGAAACTCC
*
829803 TCTACATAAAGCCTGTGAAAGAGGACATGAAAGCAC
64 TCTACATAAAGCCAGTGAAAG-GGACATGAAAGCAC
**** * *
829839 TGTATTTTTTTTATTTGATCAAGGAGCAGATATTAATT
1 TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATT
829877 TTTTGACAAT
Statistics
Matches: 3192, Mismatches: 464, Indels: 272
0.81 0.12 0.07
Matches are distributed among these distances:
83 2 0.00
84 1 0.00
85 30 0.01
86 11 0.00
87 3 0.00
88 19 0.01
92 1 0.00
93 3 0.00
94 1 0.00
96 2 0.00
97 7 0.00
98 185 0.06
99 2607 0.82
100 174 0.05
101 43 0.01
102 98 0.03
103 5 0.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.24
Consensus pattern (98 bp):
TGTACAACTTTTATTAGATAAAGGAGCAGATATTAATTCATGTGACACAAACAAAGAAACTCCTC
TACATAAAGCCAGTGAAAGGGACATGAAAGCAC
Found at i:836213 original size:69 final size:69
Alignment explanation
Indices: 836119--836356 Score: 404
Period size: 69 Copynumber: 3.4 Consensus size: 69
836109 CCATTCCCAT
* *
836119 TTAAATACTCGTGCACTTAGTGTACACTAATTACATTAAAGGTTCCGGATGTAGGTTACTCATTC
1 TTAAATACTCGTGCACTCAGTGTACACTAATTACATTAAAGGTTCAGGATGTAGGTTACTCATTC
836184 ATTC
66 ATTC
*
836188 TTAAATACTCGTGCACTCAGTGTACACTAATTACATTAAAGGTTCAGGATGTAGGTTTCTCATTC
1 TTAAATACTCGTGCACTCAGTGTACACTAATTACATTAAAGGTTCAGGATGTAGGTTACTCATTC
836253 ATTC
66 ATTC
** * * *
836257 TTAAATACTCGTGCACTCAGTGTTTACTAATTACATTAAAGGTTCTGGGTGTAGGCTACTCATTC
1 TTAAATACTCGTGCACTCAGTGTACACTAATTACATTAAAGGTTCAGGATGTAGGTTACTCATTC
836322 ATTC
66 ATTC
836326 TTAAATACTCGTGCACTCAGTGTACACTAAT
1 TTAAATACTCGTGCACTCAGTGTACACTAAT
836357 ACACTACCAG
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 158 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (69 bp):
TTAAATACTCGTGCACTCAGTGTACACTAATTACATTAAAGGTTCAGGATGTAGGTTACTCATTC
ATTC
Found at i:838217 original size:2 final size:2
Alignment explanation
Indices: 838206--838250 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
838196 GGAAAAAAAA
*
838206 AG AG AT AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
838248 AG A
1 AG A
838251 TTGAAGTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.47, T:0.02
Consensus pattern (2 bp):
AG
Found at i:839860 original size:2 final size:2
Alignment explanation
Indices: 839853--839916 Score: 110
Period size: 2 Copynumber: 32.0 Consensus size: 2
839843 CTATCATTTT
* *
839853 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA CA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
839895 GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA
839917 TTATTTTACA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.52, C:0.02, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:842260 original size:14 final size:14
Alignment explanation
Indices: 842254--842290 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
842244 TTCGAGATTG
842254 GAGATTCGAAATAC
1 GAGATTCGAAATAC
842268 GAGATTCGAAATAC
1 GAGATTCGAAATAC
842282 GAGATTCGA
1 GAGATTCGA
842291 GATTCNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (14 bp):
GAGATTCGAAATAC
Found at i:842293 original size:7 final size:7
Alignment explanation
Indices: 842243--842295 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
842233 GAGAAGGATC
842243 ATTCGAG
1 ATTCGAG
*
842250 ATTGGAG
1 ATTCGAG
*
842257 ATTCGAA
1 ATTCGAG
*
842264 ATACGAG
1 ATTCGAG
*
842271 ATTCGAA
1 ATTCGAG
*
842278 ATACGAG
1 ATTCGAG
842285 ATTCGAG
1 ATTCGAG
842292 ATTC
1 ATTC
842296 NNNNNNNNNN
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (7 bp):
ATTCGAG
Found at i:844636 original size:2 final size:2
Alignment explanation
Indices: 844629--844668 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
844619 GAGTTTATAC
844629 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
844669 CGATTGCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:845239 original size:142 final size:141
Alignment explanation
Indices: 844963--845227 Score: 338
Period size: 142 Copynumber: 1.9 Consensus size: 141
844953 ATATAATAGC
* * *
844963 TACTGTACACAGCCCTTCTTGACAATTTGCAGTTCACGGTAGCGAGATAGGTAAAAAGAGATGAA
1 TACTGTACACAGCCCTTCTTGACAATTTGCAGTGCACGGTAGCCAGATAGGGAAAAAGAGATGAA
* * * * *
845028 AGACACACGTGTACACGTATATATACACACACTTCCTCAGATCTGAATGGTCGGTCAGTGATTAT
66 AGACACACGTGTA-ACGTATATATACACACACGTCCTCAGATCTGAATGCTCGGTCAATGATCAA
845093 ATAATAGCTATA
130 ATAATAGCTATA
* * *
845105 TACTGTATACAGCCCTTCTTGACAATTTGCAGTGCACGGTAGCCAGACT-GGGAACAATGAGGTG
1 TACTGTACACAGCCCTTCTTGACAATTTGCAGTGCACGGTAGCCAGA-TAGGGAA-AAAGAGATG
* * * * *
845169 ACAGACACACGTGT-ACTTGTATATACACACACGTCCTCAGGTCTGGATGCTCGGT-AATG
64 AAAGACACACGTGTAACGTATATATACACACACGTCCTCAGATCTGAATGCTCGGTCAATG
845228 CTACACAATA
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
140 3 0.03
141 35 0.33
142 48 0.45
143 21 0.20
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (141 bp):
TACTGTACACAGCCCTTCTTGACAATTTGCAGTGCACGGTAGCCAGATAGGGAAAAAGAGATGAA
AGACACACGTGTAACGTATATATACACACACGTCCTCAGATCTGAATGCTCGGTCAATGATCAAA
TAATAGCTATA
Found at i:845735 original size:2 final size:2
Alignment explanation
Indices: 845728--845764 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
845718 GAAAAATCAG
845728 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
845765 ATGATTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:846332 original size:20 final size:20
Alignment explanation
Indices: 846307--846383 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
846297 AGGGGCATGC
*
846307 ACAGGGGCAGACAGTGGCTT
1 ACAGGGGCAGACAGGGGCTT
* *
846327 ACA-GGGTATGACAGGGGCGT
1 ACAGGGGCA-GACAGGGGCTT
**
846347 ACAGGGGGTGACAGGGGCTT
1 ACAGGGGCAGACAGGGGCTT
* *
846367 ACAGTGGCACACAGGGG
1 ACAGGGGCAGACAGGGG
846384 TTGTGTACAG
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 4 0.09
20 38 0.84
21 3 0.07
ACGTcount: A:0.25, C:0.18, G:0.44, T:0.13
Consensus pattern (20 bp):
ACAGGGGCAGACAGGGGCTT
Found at i:846366 original size:40 final size:41
Alignment explanation
Indices: 846284--846370 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 41
846274 TTAAAGACCG
* *
846284 TACAGGGGATGTCAGGGGCATGCACAGGGGCAGACAGTGGCT
1 TACAGGGGATGACAGGGGCA-GCACAGGGGCAGACAGGGGCT
* * **
846326 TACAGGGTATGACAGGGGC-GTACAGGGGGTGACAGGGGCT
1 TACAGGGGATGACAGGGGCAGCACAGGGGCAGACAGGGGCT
846366 TACAG
1 TACAG
846371 TGGCACACAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 22 0.56
42 17 0.44
ACGTcount: A:0.24, C:0.17, G:0.44, T:0.15
Consensus pattern (41 bp):
TACAGGGGATGACAGGGGCAGCACAGGGGCAGACAGGGGCT
Found at i:846445 original size:23 final size:22
Alignment explanation
Indices: 846366--846456 Score: 82
Period size: 23 Copynumber: 4.2 Consensus size: 22
846356 GACAGGGGCT
*
846366 TACAGTGGCACACAGGGGTTGTG
1 TACAGTGGCACACAGGGG-TATG
* *
846389 TACAGGGGCGCACAGGGG-ATG
1 TACAGTGGCACACAGGGGTATG
* * *
846410 -ACAG-GGTATACAGGGGCTCTG
1 TACAGTGGCACACAGGGG-TATG
846431 TACAGTGGCACACAGGGG-ATG
1 TACAGTGGCACACAGGGGTATG
846452 TACAG
1 TACAG
846457 GGGATGACAG
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
19 9 0.17
20 4 0.07
21 11 0.20
22 4 0.07
23 26 0.48
ACGTcount: A:0.25, C:0.19, G:0.40, T:0.16
Consensus pattern (22 bp):
TACAGTGGCACACAGGGGTATG
Found at i:846445 original size:42 final size:43
Alignment explanation
Indices: 846307--846458 Score: 127
Period size: 42 Copynumber: 3.6 Consensus size: 43
846297 AGGGGCATGC
* * *
846307 ACAGGGGCAGACAGTGGCT-TACAGGGTATGACAGGGG--C-GT
1 ACAGGGGCACACAGGGGATGTACAGGGTAT-ACAGGGGCTCTGT
*** * * * * *
846347 ACAGGGGGTGACAGGGGCT-TACAGTGGCACACAGGGGTTGTGT
1 ACAGGGGCACACAGGGGATGTACAG-GGTATACAGGGGCTCTGT
*
846390 ACAGGGGCGCACAGGGGATG-ACAGGGTATACAGGGGCTCTGT
1 ACAGGGGCACACAGGGGATGTACAGGGTATACAGGGGCTCTGT
*
846432 ACAGTGGCACACAGGGGATGTACAGGG
1 ACAGGGGCACACAGGGGATGTACAGGG
846459 GATGACAGTG
Statistics
Matches: 90, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
40 28 0.31
41 3 0.03
42 32 0.36
43 27 0.30
ACGTcount: A:0.24, C:0.18, G:0.43, T:0.15
Consensus pattern (43 bp):
ACAGGGGCACACAGGGGATGTACAGGGTATACAGGGGCTCTGT
Found at i:846458 original size:11 final size:10
Alignment explanation
Indices: 846442--846502 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
846432 ACAGTGGCAC
846442 ACAGGGGATG
1 ACAGGGGATG
846452 TACAGGGGATG
1 -ACAGGGGATG
** **
846463 ACAGTGAAAAC
1 ACAG-GGGATG
*
846474 ACAGGGGGTG
1 ACAGGGGATG
*
846484 ACAGGGGAAG
1 ACAGGGGATG
846494 ACAGGGGAT
1 ACAGGGGAT
846503 TTTCATACGG
Statistics
Matches: 37, Mismatches: 12, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
10 21 0.57
11 16 0.43
ACGTcount: A:0.34, C:0.11, G:0.44, T:0.10
Consensus pattern (10 bp):
ACAGGGGATG
Found at i:850158 original size:2 final size:2
Alignment explanation
Indices: 850151--850185 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
850141 TATGATACTG
850151 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
850186 AATCTATGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:855948 original size:9 final size:9
Alignment explanation
Indices: 855934--855963 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
855924 GTATTTGCCT
855934 ATGGATGGC
1 ATGGATGGC
855943 ATGGATGGC
1 ATGGATGGC
855952 TATGGATGGC
1 -ATGGATGGC
855962 AT
1 AT
855964 TTCGAACACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.23, C:0.10, G:0.40, T:0.27
Consensus pattern (9 bp):
ATGGATGGC
Found at i:855958 original size:10 final size:10
Alignment explanation
Indices: 855932--855961 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
855922 CAGTATTTGC
855932 CTATGGATGG
1 CTATGGATGG
855942 C-ATGGATGG
1 CTATGGATGG
855951 CTATGGATGG
1 CTATGGATGG
855961 C
1 C
855962 ATTTCGAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.20, C:0.13, G:0.40, T:0.27
Consensus pattern (10 bp):
CTATGGATGG
Found at i:858015 original size:85 final size:83
Alignment explanation
Indices: 857831--858027 Score: 226
Period size: 81 Copynumber: 2.4 Consensus size: 83
857821 ACCAACTTTG
* **
857831 TTGTTGATATCGACGATATCG-ACACCAAAA-TGACGATATCAACATCGATATCGAATTTTGAGA
1 TTGTCGATATCGACGATATCGTACA-CAAAATTGACGATATCAACATCGATATCGAATACTGAGA
*
857894 AATGCTAATCCAATTATGA
65 AATGCAAATCCAATTATGA
*
857913 -TGTCGATATCGACGATATCGTACA-AAAATTGACGATATCGACATCGATATCGACATACACTGA
1 TTGTCGATATCGACGATATCGTACACAAAATTGACGATATCAACATCGATATCGA-AT--ACTGA
* *
857976 TGAAGTTGCAAAT-CAATT-TTA
63 -GAA-ATGCAAATCCAATTATGA
*
857997 TTGTCGATATCGACGATATCGTACATAAAAT
1 TTGTCGATATCGACGATATCGTACACAAAAT
858028 AAAATGTCGA
Statistics
Matches: 99, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
80 4 0.04
81 42 0.42
82 5 0.05
84 5 0.05
85 32 0.32
86 11 0.11
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (83 bp):
TTGTCGATATCGACGATATCGTACACAAAATTGACGATATCAACATCGATATCGAATACTGAGAA
ATGCAAATCCAATTATGA
Found at i:858653 original size:78 final size:78
Alignment explanation
Indices: 858551--858713 Score: 193
Period size: 78 Copynumber: 2.1 Consensus size: 78
858541 ACCGTATCGT
* * * *
858551 CGATATCGACGTTGAATATAGACAGAT-TGAGTTCTGTACCTACACAAATCGATATCGATACAAT
1 CGATATCAACGTTAAATATAGACAGCTGT-AGTTCTGTACATACACAAATCGATATCGATACAAT
**
858615 ATTGTCGATAACGA
65 ATCCTCGATAACGA
* * ** * *
858629 CGATATCAACGTTAAATATGGACAGCTGTAGTTGTGTACATATGCAACTCGATATCGATACGATA
1 CGATATCAACGTTAAATATAGACAGCTGTAGTTCTGTACATACACAAATCGATATCGATACAATA
*
858694 TCCTCGATATCGA
66 TCCTCGATAACGA
858707 CGATATC
1 CGATATC
858714 GACATGAATA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 70 0.99
79 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (78 bp):
CGATATCAACGTTAAATATAGACAGCTGTAGTTCTGTACATACACAAATCGATATCGATACAATA
TCCTCGATAACGA
Found at i:858711 original size:18 final size:19
Alignment explanation
Indices: 858676--858713 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
858666 ACATATGCAA
858676 CTCGATATCGATACGATATC
1 CTCGATATCGA-ACGATATC
858696 CTCGATATCG-ACGATATC
1 CTCGATATCGAACGATATC
858714 GACATGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (19 bp):
CTCGATATCGAACGATATC
Found at i:858787 original size:18 final size:19
Alignment explanation
Indices: 858753--858790 Score: 60
Period size: 18 Copynumber: 2.0 Consensus size: 19
858743 TCAAAGAAAT
858753 TCGATATCGATACGATATCG
1 TCGATATCGA-ACGATATCG
858773 TCGATATCG-ACGATATCG
1 TCGATATCGAACGATATCG
858791 ACGTTGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (19 bp):
TCGATATCGAACGATATCG
Found at i:858791 original size:9 final size:9
Alignment explanation
Indices: 858754--858793 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
858744 CAAAGAAATT
858754 CGATATCGATA
1 CGATATCG--A
*
858765 CGATATCGT
1 CGATATCGA
858774 CGATATCGA
1 CGATATCGA
858783 CGATATCGA
1 CGATATCGA
858792 CG
1 CG
858794 TTGAATATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (9 bp):
CGATATCGA
Found at i:866111 original size:18 final size:21
Alignment explanation
Indices: 866080--866121 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
866070 ATTTTCAATA
866080 TTTTCTGTTCGAAA-ATTATT
1 TTTTCTGTTCGAAAGATTATT
866100 TTTTCTG-T-GAAAGTATTATT
1 TTTTCTGTTCGAAAG-ATTATT
866120 TT
1 TT
866122 CCTATCGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.20
19 1 0.05
20 15 0.75
ACGTcount: A:0.24, C:0.07, G:0.12, T:0.57
Consensus pattern (21 bp):
TTTTCTGTTCGAAAGATTATT
Found at i:873935 original size:2 final size:2
Alignment explanation
Indices: 873928--873972 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
873918 TCCATAATAT
873928 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
873970 GA G
1 GA G
873973 NNNNNNNNNN
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:881725 original size:2 final size:2
Alignment explanation
Indices: 881718--881748 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
881708 CAATTATTAT
881718 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
881749 CAACTCTAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:882272 original size:2 final size:2
Alignment explanation
Indices: 882265--882305 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
882255 AGTTCGCTCT
882265 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
882306 CACAGTCAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:883729 original size:25 final size:25
Alignment explanation
Indices: 883695--883743 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
883685 AGCCTACTAG
883695 TATATAGTATACATGTACATGTCTC
1 TATATAGTATACATGTACATGTCTC
*
883720 TATATAGTATATATGTACATGTCT
1 TATATAGTATACATGTACATGTCT
883744 ATATTTTGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (25 bp):
TATATAGTATACATGTACATGTCTC
Found at i:890181 original size:78 final size:78
Alignment explanation
Indices: 889997--890672 Score: 911
Period size: 78 Copynumber: 8.6 Consensus size: 78
889987 AATGGCAAAT
* * ** * * ** * *
889997 TTACCTGTCAGTTACTAGTAGGACACTCTTTGTAAATTTGCTGTCATGGGATGTAATCATATAAT
1 TTACCTGTCAGTTACTAGTAGAACACTCTTGGTGGACTTGCTGTTATGTAATGTAAT--TACATT
* *
890062 ATTGTAATATCATGG
64 ATTGTAATACCAAGG
* * * * * * * * *
890077 TTACCTGTAAGTTACTAGTTGTACACTCATGGTGGAATTGCTGTCATATAATGTAATTACATCAC
1 TTACCTGTCAGTTACTAGTAGAACACTCTTGGTGGACTTGCTGTTATGTAATGTAATTACATTAT
* * *
890142 TGTAAAATCATGG
66 TGTAATACCAAGG
** * * * * *
890155 TTACCTGTTTGTTACAAGTAGAACACTTTTGGTGGTCTTGCTGTCATATAATGTAATTACATTAT
1 TTACCTGTCAGTTACTAGTAGAACACTCTTGGTGGACTTGCTGTTATGTAATGTAATTACATTAT
* **
890220 TGTAATATCAAAC
66 TGTAATACCAAGG
890233 TTACCTGTCAGTGTCTGTAACTAGTAGAACACTCTTGGTGGACTTGCTGTTATGTAATGTAATTA
1 TTACCTGTCA--G--T-T-ACTAGTAGAACACTCTTGGTGGACTTGCTGTTATGTAATGTAATTA
890298 CATTATTGTAATACCAAGG
60 CATTATTGTAATACCAAGG
*
890317 TTACCTGTCAGTTACTAGTAGAACACTCTTGGTGGACTTGCTGTTATGTAATGTAATTACATCAT
1 TTACCTGTCAGTTACTAGTAGAACACTCTTGGTGGACTTGCTGTTATGTAATGTAATTACATTAT
*
890382 TGTAATACCAAGA
66 TGTAATACCAAGG
* *
890395 TTACCTGTCTGTAACTAGTAGAACACTCTTGGTGGACTTGCTGTTATGTAATGTAATTACATTAT
1 TTACCTGTCAGTTACTAGTAGAACACTCTTGGTGGACTTGCTGTTATGTAATGTAATTACATTAT
890460 TGTAATACCAAGG
66 TGTAATACCAAGG
890473 TTACCTGTCAGTTACTAGTAGAACACTCTTGGTGGACTTGCTGTTATGTAATGTAATTACATTAT
1 TTACCTGTCAGTTACTAGTAGAACACTCTTGGTGGACTTGCTGTTATGTAATGTAATTACATTAT
890538 TGTAATACCAAGG
66 TGTAATACCAAGG
890551 TTACCTGTCAGTTACTAGTAGAACACTCTTGGTGGACTTGCTGTTATGTAATGTAATTACATTAT
1 TTACCTGTCAGTTACTAGTAGAACACTCTTGGTGGACTTGCTGTTATGTAATGTAATTACATTAT
*
890616 TGTAATACCAAGA
66 TGTAATACCAAGG
* *
890629 TTACCTGTCTGTAACTAGTAGAACACTCTTGGTGGACTTGCTGT
1 TTACCTGTCAGTTACTAGTAGAACACTCTTGGTGGACTTGCTGT
890673 CTCCAATGAT
Statistics
Matches: 538, Mismatches: 52, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
78 419 0.78
79 1 0.00
80 48 0.09
82 2 0.00
83 1 0.00
84 67 0.12
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (78 bp):
TTACCTGTCAGTTACTAGTAGAACACTCTTGGTGGACTTGCTGTTATGTAATGTAATTACATTAT
TGTAATACCAAGG
Found at i:895521 original size:23 final size:23
Alignment explanation
Indices: 895485--895528 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
895475 CAAGCCTGCA
** *
895485 AAATACAGGCAAACAATATACAG
1 AAATACAGAAAAACAAAATACAG
895508 AAATACAGAAAAACAAAATAC
1 AAATACAGAAAAACAAAATAC
895529 TGAACACTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.16, G:0.09, T:0.11
Consensus pattern (23 bp):
AAATACAGAAAAACAAAATACAG
Found at i:899198 original size:169 final size:168
Alignment explanation
Indices: 898244--899164 Score: 1283
Period size: 168 Copynumber: 5.5 Consensus size: 168
898234 CCAATGTCCT
* * * * ** *
898244 GAACCCCTGACCCAGGGGCCATGAACTTCACAATTTAGGTAAAGGAG-ATTGTGGATATCATAAC
1 GAACCCCTGACCCAGGGGTCATGAATTTCACAATTTAGGTAGAGG-GCCTCATGGACATCATAAC
* * ** ** * * * * *
898308 CATGTATTCAGTTTTTTGCCCACATGTGTGGGAGTACAGAAGAAGATTTTCTTAGATTTAATACA
65 CATGCATTTAGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACA
*
898373 TTTTTACTATTTAGCCATATTGGCCCCACCCTAGAG-CA
130 TTTTTACTATTTGGCCATATTGGCCCCACCCTAGAGCCA
* * ** *
898411 TGAACACCTAACAAAGGGGTCATGAATTTCACAAATTTA-GTAGAGAGCCTCATGGACATCATAA
1 -GAACCCCTGACCCAGGGGTCATGAATTTCAC-AATTTAGGTAGAGGGCCTCATGGACATCATAA
* * * *
898475 TCATGCATTTAGTTTTTAACATATATATATAGGAGTAGAGAAGAAGATTTTCTAAGATCTAATAC
64 CCATGCATTTAGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATAC
*
898540 ATTTTTACTATTTGGCCATATCGGCCCCACCCTAGAG-CA
129 ATTTTTACTATTTGGCCATATTGGCCCCACCCTAGAGCCA
* * * * *
898579 TGAACCCCTGACCGAGGGGTCGTGAATTTCACAATTAAGGTAGAGAGCCTCATGGACATCATAAA
1 -GAACCCCTGACCCAGGGGTCATGAATTTCACAATTTAGGTAGAGGGCCTCATGGACATCATAAC
* *
898644 CATGCATTTAGTTTTTAACAAATATATAAGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATATA
65 CATGCATTTAGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACA
* *
898709 TTTTTACTATTTGGCCATATTGGCCCCACCCTAGTGCCT
130 TTTTTACTATTTGGCCATATTGGCCCCACCCTAGAGCCA
* *
898748 GAACCCCTGACCCAGGGGTCATGAATTTCACAATTTAGGTAGAGGGCTTCATGGACATCATAATC
1 GAACCCCTGACCCAGGGGTCATGAATTTCACAATTTAGGTAGAGGGCCTCATGGACATCATAACC
* *
898813 ATGCATTTAGTATTTAACAAATATATATGAGAGTAGAGAAGAAGATTTTCTAAGATTTAATACAT
66 ATGCATTTAGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACAT
* *
898878 TTTTACTATTTGGCCATATTAGCCCCACCCTAGAGCCT
131 TTTTACTATTTGGCCATATTGGCCCCACCCTAGAGCCA
** * *
898916 GAACCCCTGACCCAGGGGTTTTGAATTTCACAATTAAGGTAGAGGGCTTCATGGACATCATAACC
1 GAACCCCTGACCCAGGGGTCATGAATTTCACAATTTAGGTAGAGGGCCTCATGGACATCATAACC
898981 ATGCATTTAGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTTAATACA
66 ATGCATTTAGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGA-TTTAATACA
* *
899046 TTTTTACTATATGGCCATATTGGCCCAACCCTAGAGCCA
130 TTTTTACTATTTGGCCATATTGGCCCCACCCTAGAGCCA
* * *
899085 GAACCCCTGACCCAGGGGCCATAAATTTCACAATTTTGGTAGAGGGCCTCATGGACATCATAACC
1 GAACCCCTGACCCAGGGGTCATGAATTTCACAATTTAGGTAGAGGGCCTCATGGACATCATAACC
*
899150 ATGCATTCAGTTTTT
66 ATGCATTTAGTTTTT
899165 TCCTCACATG
Statistics
Matches: 675, Mismatches: 73, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
167 6 0.01
168 546 0.81
169 123 0.18
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (168 bp):
GAACCCCTGACCCAGGGGTCATGAATTTCACAATTTAGGTAGAGGGCCTCATGGACATCATAACC
ATGCATTTAGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACAT
TTTTACTATTTGGCCATATTGGCCCCACCCTAGAGCCA
Found at i:899379 original size:7 final size:7
Alignment explanation
Indices: 899369--899406 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
899359 AAAATTGTTA
899369 ACGCACG
1 ACGCACG
899376 ACGCACG
1 ACGCACG
*
899383 GCGCACG
1 ACGCACG
*
899390 ACGCACA
1 ACGCACG
899397 ACGCACG
1 ACGCACG
899404 ACG
1 ACG
899407 ACGGACGAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.42, G:0.29, T:0.00
Consensus pattern (7 bp):
ACGCACG
Found at i:900161 original size:14 final size:14
Alignment explanation
Indices: 900142--900172 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
900132 TACTTATTAG
900142 TCTCTCTCTCTCTT
1 TCTCTCTCTCTCTT
900156 TCTCTCTCTCTCTT
1 TCTCTCTCTCTCTT
900170 TCT
1 TCT
900173 GCAACTTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (14 bp):
TCTCTCTCTCTCTT
Found at i:901236 original size:4 final size:4
Alignment explanation
Indices: 901227--901279 Score: 106
Period size: 4 Copynumber: 13.2 Consensus size: 4
901217 TGTAAATCAC
901227 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
901275 AGAT A
1 AGAT A
901280 CCTTGTGATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AGAT
Found at i:901804 original size:25 final size:25
Alignment explanation
Indices: 901775--901824 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
901765 AACAATAATT
*
901775 TCTCAAAATTTCAATTATCCAGACA
1 TCTCAAAATTTCAATTATACAGACA
***
901800 TCTCAGTCTTTCAATTATACAGACA
1 TCTCAAAATTTCAATTATACAGACA
901825 CATCAACAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (25 bp):
TCTCAAAATTTCAATTATACAGACA
Found at i:902802 original size:2 final size:2
Alignment explanation
Indices: 902795--902820 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
902785 ATTTTCACTC
902795 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
902821 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:910859 original size:2 final size:2
Alignment explanation
Indices: 910852--910890 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
910842 CTGACAATGG
910852 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
910891 GAGCAGCGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:916909 original size:168 final size:165
Alignment explanation
Indices: 916527--917021 Score: 663
Period size: 168 Copynumber: 3.0 Consensus size: 165
916517 TGCCCACATG
* * * *
916527 TATGGAAGTAGAGAAGTAGATTTTTTAAGATTTAAAACATTTTTACTATATGGCCATATTGGCCC
1 TATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATATGGCCATATTGGCCC
* * ** * *
916592 CACCCTGGAGCCTGAACCCCTAACAAAGAGGTCATGAATTTCACAATTTTGGTAGAGGGTTTCAT
66 CACCCTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAA-TTTGGTAGAGGGCTTCAT
*
916657 GGAC---TAACCAGGCATTTAGTTTTAAACAAATATA
130 GGACATATAAACA-GCATTTAGTTTTAAACAAATATA
* * *
916691 TATGGGAGCAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATATAGCCATAATGGCCC
1 TATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATATGGCCATATTGGCCC
* *
916756 CATCCTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTATGGTAGAGGGCCTCAT
66 CACCCTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATT-TGGTAGAGGGCTTCAT
*
916821 AGACATGATAAACAGCCATTTAGTTTTAAACAAATATA
130 GGACAT-ATAAACAG-CATTTAGTTTTAAACAAATATA
* * *
916859 TATGGGAGTAGAGAAGAAGATTTTCTAAAATTTAATACATTTTAACTATATGGCCATATTTGCCC
1 TATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATATGGCCATATTGGCCC
* * *
916924 CACCCTAGAGCCTGAACCCCTGACCCAGGGGACATGAAGTTCACAATTTAGGTAGAGGACTTCAT
66 CACCCTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTT-GGTAGAGGGCTTCAT
* * *
916989 GGACATCATAATCATGCACTTAGTTTAAAACAA
130 GGACAT-ATAAACA-GCATTTAGTTTTAAACAA
917022 CAAGATATCT
Statistics
Matches: 290, Mismatches: 33, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
163 2 0.01
164 115 0.40
167 2 0.01
168 170 0.59
169 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (165 bp):
TATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATATGGCCATATTGGCCC
CACCCTAGAGCCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTGGTAGAGGGCTTCATG
GACATATAAACAGCATTTAGTTTTAAACAAATATA
Found at i:917504 original size:166 final size:166
Alignment explanation
Indices: 917079--918038 Score: 1451
Period size: 166 Copynumber: 5.8 Consensus size: 166
917069 GTGAATATGC
* * * * * * * * *
917079 AAAATAAGCAAAGTCGACATTTAACAGAAAGCTGGCATCCGATTGGTACAGAAATATATTCCACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* * * * *
917144 ATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCAATACATAGCTGCTGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
917209 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT-
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* *
917244 AAAATAAACAAAGTCATCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* * * *
917309 ATATGGCATGCCTTAACAAATATTGTGTAAAAATTTCAAGCATCTGCGATAAAAAGCTGCTGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
*
917374 AATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
*
917410 AAAATAAACAAAGTAC-TCATTAAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
1 AAAATAAACAAAGT-CGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
* * *
917474 GATATGGCATGCCTAAACAAACACTGTGTAAAAATTTCAAGCATCTGCAATATATAGTTGCTGAG
65 GATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
*
917539 AAATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* * * *
917576 AAAATAAACAAAGTAC-TCATTAAACAGGAAGTTAACGTCTGATTGGTACAAAAATACATCCCAC
1 AAAATAAACAAAGT-CGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
** * * *
917640 GATAAAGCATGCCTATACATATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGA-
65 GATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
*
917704 AAATTCTTTGACAAAAATTTGTTTGAAAATTTTGGCTA
130 AAA-TCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* *
917742 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATACATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* * * *
917807 ATATGGTATGCCTATACAAATATTGTGTAAAAATTTGAAGCATCTGCGATAAATAGTTGCTGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
*
917872 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT-A
*
917909 AAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
*
917974 ATATGGCATGCCTAAACAAACACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
66 ATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
918039 TAAATGCGAC
Statistics
Matches: 732, Mismatches: 57, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
165 153 0.21
166 452 0.62
167 127 0.17
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (166 bp):
AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
ATATGGCATGCCTAAACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
Found at i:918071 original size:4 final size:4
Alignment explanation
Indices: 918062--918107 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
918052 AATTTTTGTT
* * * *
918062 ACGG ACGG ACAG ACAG ACAG ACAG ACGG ACGG ACGG ACGG ACGG AC
1 ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG AC
918108 AGACAGACAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.35, C:0.26, G:0.39, T:0.00
Consensus pattern (4 bp):
ACGG
Found at i:918112 original size:4 final size:4
Alignment explanation
Indices: 918069--918120 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
918059 GTTACGGACG
* * * * *
918069 GACA GACA GACA GACA GACG GACG GACG GACG GACG GACA GACA GACA
1 GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA
918117 GACA
1 GACA
918121 CACAAGGGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.40, C:0.25, G:0.35, T:0.00
Consensus pattern (4 bp):
GACA
Found at i:927818 original size:12 final size:12
Alignment explanation
Indices: 927801--927831 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
927791 TAAAAAGTTT
927801 ACAGACGGACAG
1 ACAGACGGACAG
927813 ACAGACGGACAG
1 ACAGACGGACAG
*
927825 ACGGACG
1 ACAGACG
927832 ACGGACAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.26, G:0.35, T:0.00
Consensus pattern (12 bp):
ACAGACGGACAG
Found at i:928009 original size:32 final size:32
Alignment explanation
Indices: 927968--928035 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
927958 ATCATGTGCA
927968 CAGATTTAGAGAAGGGGTGGGAGTGAGGGGTC
1 CAGATTTAGAGAAGGGGTGGGAGTGAGGGGTC
* **
928000 CAGATTTAGAGAAGGGTTGGGAGTGATTGGTC
1 CAGATTTAGAGAAGGGGTGGGAGTGAGGGGTC
928032 CAGA
1 CAGA
928036 CCCGACCCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.07, G:0.44, T:0.22
Consensus pattern (32 bp):
CAGATTTAGAGAAGGGGTGGGAGTGAGGGGTC
Found at i:942964 original size:2 final size:2
Alignment explanation
Indices: 942957--943015 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
942947 ATAAGGGAAT
*
942957 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
942999 GA GA GA GA AA GA GA GA G
1 GA GA GA GA GA GA GA GA G
943016 GATCATTATG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:943122 original size:2 final size:2
Alignment explanation
Indices: 943115--943164 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
943105 AGGGAAAAAT
943115 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
943157 GA GA GA GA
1 GA GA GA GA
943165 ACAAGTCCAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:951576 original size:4 final size:4
Alignment explanation
Indices: 951567--951624 Score: 107
Period size: 4 Copynumber: 14.5 Consensus size: 4
951557 TAAACTTCGC
*
951567 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTGT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
951615 CTTT CTTT CT
1 CTTT CTTT CT
951625 CAACATATCT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:953211 original size:11 final size:11
Alignment explanation
Indices: 953197--953319 Score: 108
Period size: 11 Copynumber: 11.2 Consensus size: 11
953187 AACTGATGGG
*
953197 TGACTGAAAAA
1 TGACTGAAAGA
953208 TGACTGAAAGA
1 TGACTGAAAGA
*
953219 TGATTGAAAGA
1 TGACTGAAAGA
953230 TGACTGAAAGA
1 TGACTGAAAGA
* *
953241 TGTCAGAAA-A
1 TGACTGAAAGA
*
953251 -GTAATAGAAAGA
1 TG-ACT-GAAAGA
* * *
953263 TAACTG-ATGTG
1 TGACTGAAAG-A
953274 TGACTGAAAGA
1 TGACTGAAAGA
953285 TGACTGAAAGA
1 TGACTGAAAGA
* *
953296 TGATTGAAAAA
1 TGACTGAAAGA
953307 TGACTGAAAGA
1 TGACTGAAAGA
953318 TG
1 TG
953320 TCAGAAAAGT
Statistics
Matches: 87, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
9 1 0.01
10 3 0.03
11 78 0.90
12 5 0.06
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.22
Consensus pattern (11 bp):
TGACTGAAAGA
Found at i:953234 original size:33 final size:33
Alignment explanation
Indices: 953197--953319 Score: 122
Period size: 33 Copynumber: 3.7 Consensus size: 33
953187 AACTGATGGG
953197 TGACTGAAAAATGACTGAAAGATGATTGAAAGA
1 TGACTGAAAAATGACTGAAAGATGATTGAAAGA
* * * * *
953230 TGACTGAAAGATGTCAGAAA-AGTAATAGAAAGA
1 TGACTGAAAAATGACTGAAAGA-TGATTGAAAGA
* **** *
953263 TAACTGATGTGTGACTGAAAGATGACTGAAAGA
1 TGACTGAAAAATGACTGAAAGATGATTGAAAGA
*
953296 TGATTGAAAAATGACTGAAAGATG
1 TGACTGAAAAATGACTGAAAGATG
953320 TCAGAAAAGT
Statistics
Matches: 67, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
32 1 0.01
33 65 0.97
34 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.22
Consensus pattern (33 bp):
TGACTGAAAAATGACTGAAAGATGATTGAAAGA
Found at i:953240 original size:77 final size:77
Alignment explanation
Indices: 953128--953360 Score: 344
Period size: 77 Copynumber: 3.0 Consensus size: 77
953118 ATTGGATTAG
* * * * * * * *
953128 AAATGACTTAAAGGTGACT-AAAATATGACTAAAAGATTTAAGAAAAGTGATAGAAATATAACTG
1 AAATGACTGAAAGATGATTGAAAA-ATGACTGAAAGATGTCAGAAAAGTAATAGAAAGATAACTG
*
953192 ATGGGTGACTGAA
65 ATGTGTGACTGAA
*
953205 AAATGACTGAAAGATGATTGAAAGATGACTGAAAGATGTCAGAAAAGTAATAGAAAGATAACTGA
1 AAATGACTGAAAGATGATTGAAAAATGACTGAAAGATGTCAGAAAAGTAATAGAAAGATAACTGA
953270 TGTGTGACTGAA
66 TGTGTGACTGAA
*
953282 AGATGACTGAAAGATGATTGAAAAATGACTGAAAGATGTCAGAAAAGTAATAGAAAGATAACTGA
1 AAATGACTGAAAGATGATTGAAAAATGACTGAAAGATGTCAGAAAAGTAATAGAAAGATAACTGA
953347 TGTGTGACT-AA
66 TGTGTGACTGAA
953358 AAA
1 AAA
953361 GTGAATGATG
Statistics
Matches: 142, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
76 4 0.03
77 135 0.95
78 3 0.02
ACGTcount: A:0.48, C:0.06, G:0.23, T:0.23
Consensus pattern (77 bp):
AAATGACTGAAAGATGATTGAAAAATGACTGAAAGATGTCAGAAAAGTAATAGAAAGATAACTGA
TGTGTGACTGAA
Done.