Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold370
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: 1088289
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.29
Warning! 123460 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:529192 original size:2 final size:2
Alignment explanation
Indices: 529185--529221 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
529175 NNNNNNNNNN
529185 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
529222 TAGGTGACTG
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:530811 original size:2 final size:2
Alignment explanation
Indices: 530804--530833 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
530794 CCTCTTTCAA
530804 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
530834 GGGCCTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:533034 original size:4 final size:4
Alignment explanation
Indices: 533000--533057 Score: 82
Period size: 4 Copynumber: 14.8 Consensus size: 4
532990 ATCACATTTT
* * *
533000 GTCC GT-C GTCC GTCT GTCC GTCT GTCT GTCC GTCC GTCC GTCC GTCC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC
533047 GTCC GTCC GTC
1 GTCC GTCC GTC
533058 TGTAAACTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 3 0.06
4 46 0.94
ACGTcount: A:0.00, C:0.43, G:0.26, T:0.31
Consensus pattern (4 bp):
GTCC
Found at i:534541 original size:41 final size:41
Alignment explanation
Indices: 534492--535815 Score: 1849
Period size: 41 Copynumber: 32.3 Consensus size: 41
534482 GCAGTAGGGA
* * * *
534492 ACAGTGCTGGTCACTGCCCGTACAGTGGCATACAGTGGAGG
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * * * * *
534533 ACAATGCTGGTCAGTACCCGTAAAGTGGAATACAGTGGGGA
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * *
534574 ACAGTGCTGGTAAGTACCCGTAAAGTGGCATACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * * *
534615 ACAGTGCTGGTCAATTCCCGTACAGTGGCATACATTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * *
534656 ACAGTGCTGGTCAGTACCCGTAAAGTGGCATACAGTGGGGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
*
534697 ACAGTGCTGGTCAGTACCCATACAGTGGCACACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* **
534738 ACAGTGCTGGTCAGTACCCATAAAGTGGCACGCAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * * *
534779 ACAGTGCTGATCAATTCCCGTACAGTGGCATACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * *
534820 TCAGTGCTGGTCAGTACCCGTAAAGTGGCATACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * *
534861 ACAGTGCTGGTCAGTACCCGTAAAGTGGCATACAGTGGGGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* *
534902 ACAGTGCTGGTCAGTACCCATACAGTGCCACACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* **
534943 ACAGTGCTGGTCAGTACCCATAAAGTGGCACGCAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * * *
534984 ACAGTGCTGATCAATTCCCGTACAGTGGCATACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * * *
535025 TCAGTGCTGGTCAGTACCCGTAAAGTGGCATACAGTGGGGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
*
535066 ACAGTGCTGGTCAGTACCCATACAGTGGCACACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* *
535107 ACAGTGCTGGTCAGTACCCATAAAGTGGCACACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * * *
535148 ACAGTGCTGATCAATTCCCGTACAGTGGCATACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* *
535189 ACAGTGCTGGTCAGTACCCGTAAAGTGGCATACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* *
535230 ACAGTGCTGGTCAGTACCCATACGGTGGCACACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
*
535271 ACAGTGCTGGTCAGTACCCATACAGTGGCACACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
*
535312 ACAGTGCTGGTCAGTACCCATACAGTGGCACACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * *
535353 ACAGTGCTGGTCAGTACCCGTACAGTGGCATACAATGGGGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
*
535394 ACAGTGCTGGTCAGTACCCATACAGTAGCATACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * ** *
535435 ACAGTGCTGGTCAGTACCCGTAAAG-NACACACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
*
535475 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGGGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * * *
535516 ACATTGCTGGTCAGTACCCATACAGTCGCACACAGTGCAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* *
535557 ACAGTGCTGGTAAGTACCCATACAGTGGCACACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* *
535598 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGGGA
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
*
535639 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGATT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * *
535680 ACAGTGCTGGTCAATTCCCGTACAGTGGCATACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * *
535721 ACAATGCTGGTCAGTACCCGTACAGTGGCACACAGTGGAGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
* * *
535762 ACAGTGCTGGTCAGTACCCATACAGTGGCATGCAATGGGGT
1 ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
535803 ACAGTGCTGGTCA
1 ACAGTGCTGGTCA
535816 TTATCCGTAC
Statistics
Matches: 1149, Mismatches: 133, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
40 35 0.03
41 1114 0.97
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.21
Consensus pattern (41 bp):
ACAGTGCTGGTCAGTACCCATACAGTGGCATACAGTGGAGT
Found at i:538457 original size:131 final size:131
Alignment explanation
Indices: 538234--538563 Score: 529
Period size: 131 Copynumber: 2.5 Consensus size: 131
538224 TCAGCAAGTA
* * *
538234 TCCGTTAGGTTTCAGTCA-GCAGAAACTTT-AGTCTAAGATTCCTGATGGTTTCCGCAATGCGGA
1 TCCGCTAGGTTTCAGT-ATGCTGAAACTTTAAGT-TAAGATTCCTGATGGTTTCCGCAATGCAGA
* *
538297 AACTAAATGTGAATCGTGTGAATAGTTGTGTAAATTATTATGGAAATATCAATCAGTTTCAGAAC
64 AACTAAATGTGAATCATGTGAAAAGTTGTGTAAATTATTATGGAAATATCAATCAGTTTCAGAAC
538362 ATT
129 ATT
538365 TCCGCTAGGTTTCAGTATGCTGAAACTTTAAGTTAAGATTCCTGATGGTTTCCGCAATGCAGAAA
1 TCCGCTAGGTTTCAGTATGCTGAAACTTTAAGTTAAGATTCCTGATGGTTTCCGCAATGCAGAAA
*
538430 CTAAATTTGAATCATGTGAAAAGTTGTGTAAATTATTATGGAAATATCAATCAGTTTCAGAACAT
66 CTAAATGTGAATCATGTGAAAAGTTGTGTAAATTATTATGGAAATATCAATCAGTTTCAGAACAT
538495 T
131 T
** * * *
538496 TCCGCTAGGTTTCAGTATGCTGAAACTTTAAGTTAAGATTCCAAATGGTTTACGCATTGCTGAAA
1 TCCGCTAGGTTTCAGTATGCTGAAACTTTAAGTTAAGATTCCTGATGGTTTCCGCAATGCAGAAA
538561 CTA
66 CTA
538564 TTACTAAAAT
Statistics
Matches: 186, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
130 1 0.01
131 182 0.98
132 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (131 bp):
TCCGCTAGGTTTCAGTATGCTGAAACTTTAAGTTAAGATTCCTGATGGTTTCCGCAATGCAGAAA
CTAAATGTGAATCATGTGAAAAGTTGTGTAAATTATTATGGAAATATCAATCAGTTTCAGAACAT
T
Found at i:558753 original size:2 final size:2
Alignment explanation
Indices: 558746--558770 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
558736 NNNNNNNNNN
558746 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 G
558771 TTTATCCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:559825 original size:17 final size:16
Alignment explanation
Indices: 559793--559827 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
559783 TCTTCCTTAA
559793 AACCTTATTTAAATTT
1 AACCTTATTTAAATTT
*
559809 AACCTTAATTTAGATTT
1 AACCTT-ATTTAAATTT
559826 AA
1 AA
559828 TTTTCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (16 bp):
AACCTTATTTAAATTT
Found at i:566800 original size:2 final size:2
Alignment explanation
Indices: 566793--566838 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
566783 TTTGATGTAT
*
566793 GA GA GA GA GA GA GA GA GA GA AA 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
566835 GA GA
1 GA GA
566839 ATTCAATAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:568601 original size:2 final size:2
Alignment explanation
Indices: 568594--568628 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
568584 CGATCGATTA
568594 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
568629 CAGAAAGACA
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:568666 original size:2 final size:2
Alignment explanation
Indices: 568659--568710 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
568649 TAAGATAGAA
568659 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
568701 TG TG TG TG TG
1 TG TG TG TG TG
568711 GTAAAAGCGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:570016 original size:26 final size:26
Alignment explanation
Indices: 569980--570056 Score: 136
Period size: 26 Copynumber: 3.0 Consensus size: 26
569970 TGGTATAGAG
569980 ATGGATAGTTTCTATCTGATTCAAAC
1 ATGGATAGTTTCTATCTGATTCAAAC
570006 ATGGATAGTTTCTATCTGATTCAAAC
1 ATGGATAGTTTCTATCTGATTCAAAC
* *
570032 ATGGATAGTTTCTATCCGACTCAAA
1 ATGGATAGTTTCTATCTGATTCAAA
570057 TATGTTTACC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (26 bp):
ATGGATAGTTTCTATCTGATTCAAAC
Found at i:573839 original size:15 final size:16
Alignment explanation
Indices: 573819--573848 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
573809 AAATTGAGAT
573819 AATAAT-TTTGATATG
1 AATAATATTTGATATG
573834 AATAATATTTGATAT
1 AATAATATTTGATAT
573849 TAATTTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (16 bp):
AATAATATTTGATATG
Found at i:574252 original size:4 final size:4
Alignment explanation
Indices: 574243--574273 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
574233 GTATTAAAAG
574243 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
574274 GGAGTTAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:575074 original size:11 final size:13
Alignment explanation
Indices: 575045--575076 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
575035 GGACGGTAAA
575045 TATATACAATAAT
1 TATATACAATAAT
575058 TATATACAATAAT
1 TATATACAATAAT
575071 TATATA
1 TATATA
575077 TATANNNNNN
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATACAATAAT
Found at i:577157 original size:11 final size:11
Alignment explanation
Indices: 577134--577170 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
577124 AATATTTTAA
*
577134 TATATGACATG
1 TATATGTCATG
*
577145 TATTTGTCATG
1 TATATGTCATG
577156 TATATGTCATG
1 TATATGTCATG
577167 TATA
1 TATA
577171 AATAATATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (11 bp):
TATATGTCATG
Found at i:581968 original size:12 final size:12
Alignment explanation
Indices: 581951--581975 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
581941 AACTTGTCAT
581951 AAAAGTACTTTA
1 AAAAGTACTTTA
581963 AAAAGTACTTTA
1 AAAAGTACTTTA
581975 A
1 A
581976 GGTAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
AAAAGTACTTTA
Found at i:589211 original size:2 final size:2
Alignment explanation
Indices: 589206--589247 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
589196 GGTTTAAAAG
589206 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
589248 TATGGGGTAT
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:603480 original size:21 final size:21
Alignment explanation
Indices: 603454--603493 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
603444 TTTATAAATT
*
603454 GAAAAAATAGAATAAATTTAA
1 GAAAAAATAAAATAAATTTAA
603475 GAAAAAATAAAATAAATTT
1 GAAAAAATAAAATAAATTT
603494 TATAGGCCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (21 bp):
GAAAAAATAAAATAAATTTAA
Found at i:607359 original size:29 final size:30
Alignment explanation
Indices: 607285--607426 Score: 207
Period size: 29 Copynumber: 4.8 Consensus size: 30
607275 ATTCATTGGA
* *
607285 AGGGGGGTCCTCTGGCTGGCTGTCAATGGC
1 AGGGGGGCCCTCTGGCTGGCTGTCAATGGT
*
607315 AGGGGGGCCCTCTGGCTGGTTGTCAATGGT
1 AGGGGGGCCCTCTGGCTGGCTGTCAATGGT
* *
607345 A-GGGGGCCCTCTGGCTGGCTATCGATGGT
1 AGGGGGGCCCTCTGGCTGGCTGTCAATGGT
*
607374 A-GGGGGCGCTCTGGCTGGCTGTCAATGGT
1 AGGGGGGCCCTCTGGCTGGCTGTCAATGGT
*
607403 AGGGGGGCCCTCTGGCTGGTTGTC
1 AGGGGGGCCCTCTGGCTGGCTGTC
607427 CATTGAGAAG
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 52 0.52
30 48 0.48
ACGTcount: A:0.09, C:0.23, G:0.44, T:0.25
Consensus pattern (30 bp):
AGGGGGGCCCTCTGGCTGGCTGTCAATGGT
Found at i:615425 original size:2 final size:2
Alignment explanation
Indices: 615418--615468 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
615408 AGACTGAAAA
615418 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC -C TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
615459 TC TC TC TC TC
1 TC TC TC TC TC
615469 ATGTTTTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:624670 original size:2 final size:2
Alignment explanation
Indices: 624665--624702 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
624655 AACGTGTGTG
624665 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
624703 TGAGTAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:637533 original size:161 final size:161
Alignment explanation
Indices: 637224--637555 Score: 445
Period size: 161 Copynumber: 2.1 Consensus size: 161
637214 GAAGAAAACA
* * * *
637224 AACGGAAAATGCAAATACTTGGAATTTTTCTAAGTCCAAGGGACATAACGCTGTCAAAAATAGCT
1 AACGGAAACTGCAAATAATTGAAATTTTTCTAAGTCCAAGGGACATAACACTGTCAAAAATAGCT
637289 CGATTGTACCCAAAATCAAAGTTGACCTAGACATTATTATGATAAATCTGTATACCAAATTTAAT
66 CGATTGTACCCAAAATCAAAGTTGACCTAGACATTATTATGATAAATCTGTATACCAAATTTAAT
**** *
637354 ATCACTACGTTTAACCTCTGCAAAGTAAATG
131 ATCACTACAAGCAACCTCTGCAAAGAAAATG
* *
637385 AACGGAAACTGCAAATAATTGAAATTTTTCTAAGTCCAA-GGAGCATAACATTGTCAAAAATTGC
1 AACGGAAACTGCAAATAATTGAAATTTTTCTAAGTCCAAGGGA-CATAACACTGTCAAAAATAGC
* *
637449 TCGATTGTACCCAAAATCTAAA-TTGACCTAGATATTTTTATGATAAATCTGTATACCAAATTTC
65 TCGATTGTACCCAAAATC-AAAGTTGACCTAGACATTATTATGATAAATCTGTATACCAAATTT-
* * * **
637513 ATTTTC-GTACAAGCAACCTCTGGGAAGAAAATG
128 AATATCACTACAAGCAACCTCTGCAAAGAAAATG
*
637546 AACAGAAACT
1 AACGGAAACT
637556 TGGTGGACCT
Statistics
Matches: 149, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
160 3 0.02
161 139 0.93
162 7 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.29
Consensus pattern (161 bp):
AACGGAAACTGCAAATAATTGAAATTTTTCTAAGTCCAAGGGACATAACACTGTCAAAAATAGCT
CGATTGTACCCAAAATCAAAGTTGACCTAGACATTATTATGATAAATCTGTATACCAAATTTAAT
ATCACTACAAGCAACCTCTGCAAAGAAAATG
Found at i:638142 original size:48 final size:48
Alignment explanation
Indices: 638084--638633 Score: 712
Period size: 48 Copynumber: 11.5 Consensus size: 48
638074 AGTGACCACA
* * * * *
638084 TGAGTGCAGGAAAGTGATGTGAGCACACTCAATGTTTAAC-ACACCAAG
1 TGAGTACAGGAAAGCGGTGTGAGCACACTCAATGTTTTACTA-ACCGAG
** *
638132 TGAGTACAGGAAA-ATG-GTGAGCACACTCAATGATTTACTAACCGAG
1 TGAGTACAGGAAAGCGGTGTGAGCACACTCAATGTTTTACTAACCGAG
* * *
638178 TGAGTACAGGAAAGCGGTGTAAGCACACTCAATGATTTACTAACTGAG
1 TGAGTACAGGAAAGCGGTGTGAGCACACTCAATGTTTTACTAACCGAG
* * * * *
638226 TGAGTACGGGAATGCGATGTGAGCATACTCAATGTTTTACTAACCAAG
1 TGAGTACAGGAAAGCGGTGTGAGCACACTCAATGTTTTACTAACCGAG
* * * ** * * **
638274 TTAGTATAGGAATGCTATGTGAGCACACACAATGTTATACTAACAAAG
1 TGAGTACAGGAAAGCGGTGTGAGCACACTCAATGTTTTACTAACCGAG
* *
638322 TGAGTACAGGAAAGTGGTGTGAGCACACACAATGTTTTACTAACCGAG
1 TGAGTACAGGAAAGCGGTGTGAGCACACTCAATGTTTTACTAACCGAG
**
638370 TGAGTACAGGAAAGCGGTGTGAATACACTCAATGTTTTACTAACCGAG
1 TGAGTACAGGAAAGCGGTGTGAGCACACTCAATGTTTTACTAACCGAG
* * * * * *
638418 TGAGTACAGGAATGCGATGCGAGCACACGCAATGTTTTACTTACTGAG
1 TGAGTACAGGAAAGCGGTGTGAGCACACTCAATGTTTTACTAACCGAG
638466 TGAGTACAGGAAAGCGGTGTGAGCACACTCAATGTTTTACTAACCGAG
1 TGAGTACAGGAAAGCGGTGTGAGCACACTCAATGTTTTACTAACCGAG
*
638514 TGAGTACAGGAAAGCGGTGTGAGCACACACAATGTTTTACTAACCGAG
1 TGAGTACAGGAAAGCGGTGTGAGCACACTCAATGTTTTACTAACCGAG
*
638562 TGAGTACAGGAAAGCGGTGTGAGCACAATCAATGTTTTACTAACCGAG
1 TGAGTACAGGAAAGCGGTGTGAGCACACTCAATGTTTTACTAACCGAG
*
638610 TGAGTACA-GAAATGCGATGTGAGC
1 TGAGTACAGGAAA-GCGGTGTGAGC
638634 GTCCAGGGAG
Statistics
Matches: 440, Mismatches: 58, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
46 38 0.09
47 6 0.01
48 396 0.90
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (48 bp):
TGAGTACAGGAAAGCGGTGTGAGCACACTCAATGTTTTACTAACCGAG
Found at i:641875 original size:16 final size:17
Alignment explanation
Indices: 641856--641891 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
641846 ACCTAAACTG
641856 ATATATCTA-TAAATAT
1 ATATATCTATTAAATAT
*
641872 ATATATCTATTAACTAT
1 ATATATCTATTAAATAT
641889 ATA
1 ATA
641892 ATTTCATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATATCTATTAAATAT
Found at i:643824 original size:11 final size:10
Alignment explanation
Indices: 643805--643832 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
643795 GTTTGTTTTT
643805 AATAAAAAAA
1 AATAAAAAAA
643815 AATAAAAAAA
1 AATAAAAAAA
643825 AATAAAAA
1 AATAAAAA
643833 GAAAGATAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:649785 original size:21 final size:21
Alignment explanation
Indices: 649760--649801 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
649750 TCACCAATCT
649760 GTTGTACATATATATAAAAAG
1 GTTGTACATATATATAAAAAG
649781 GTTGTACATATATATAAAAAG
1 GTTGTACATATATATAAAAAG
649802 TAGCAAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (21 bp):
GTTGTACATATATATAAAAAG
Found at i:652031 original size:36 final size:36
Alignment explanation
Indices: 651967--652066 Score: 130
Period size: 36 Copynumber: 2.7 Consensus size: 36
651957 CCGTGGAGGA
* * * *
651967 GGGAAGGGCACGGCCTTGAAGTGGGGTGGTTCCT-G
1 GGGAGGGGCTCGGTCTTGTAGTGGGGTGGTTCCTAG
652002 GAGGAGGGGCTCGGTCTTGTAGTGGGGTGGTTCCTAG
1 G-GGAGGGGCTCGGTCTTGTAGTGGGGTGGTTCCTAG
652039 GGGAGGGGCTCGGTCTTGTGAAGTGGGG
1 GGGAGGGGCTCGGTCTTGT--AGTGGGG
652067 CTGTGTTGAG
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
35 1 0.02
36 47 0.82
37 2 0.04
38 7 0.12
ACGTcount: A:0.12, C:0.14, G:0.51, T:0.23
Consensus pattern (36 bp):
GGGAGGGGCTCGGTCTTGTAGTGGGGTGGTTCCTAG
Found at i:663600 original size:2 final size:2
Alignment explanation
Indices: 663593--663632 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
663583 NNNNNNNNNN
663593 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
663633 GTTCGTAGTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:665006 original size:23 final size:23
Alignment explanation
Indices: 664975--665032 Score: 89
Period size: 25 Copynumber: 2.4 Consensus size: 23
664965 CAGTTTTCTC
*
664975 TCAAATTTGTTTCTTTAGATTCA
1 TCAATTTTGTTTCTTTAGATTCA
664998 TCAATTTTGTGTTTCTTTAGATTCA
1 TCAA-TTT-TGTTTCTTTAGATTCA
665023 TCAATTTTGT
1 TCAATTTTGT
665033 GTGTATACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 7 0.22
24 5 0.16
25 20 0.62
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.55
Consensus pattern (23 bp):
TCAATTTTGTTTCTTTAGATTCA
Found at i:665015 original size:25 final size:25
Alignment explanation
Indices: 664982--665034 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
664972 CTCTCAAATT
664982 TGTTTCTTTAGATTCATCAATTTTG
1 TGTTTCTTTAGATTCATCAATTTTG
665007 TGTTTCTTTAGATTCATCAATTTTG
1 TGTTTCTTTAGATTCATCAATTTTG
665032 TGT
1 TGT
665035 GTATACATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.19, C:0.11, G:0.13, T:0.57
Consensus pattern (25 bp):
TGTTTCTTTAGATTCATCAATTTTG
Found at i:674392 original size:21 final size:22
Alignment explanation
Indices: 674342--674397 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
674332 TAGCCTCGAT
*
674342 TTTGTTGTTATTGTATTTGTTTG
1 TTTGTTGTT-TTATATTTGTTTG
674365 TTT-TTGTTTTATA-TTGTTTG
1 TTTGTTGTTTTATATTTGTTTG
674385 TTTGTTGTTTTAT
1 TTTGTTGTTTTAT
674398 TTCTATTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 10 0.32
21 13 0.42
22 5 0.16
23 3 0.10
ACGTcount: A:0.09, C:0.00, G:0.18, T:0.73
Consensus pattern (22 bp):
TTTGTTGTTTTATATTTGTTTG
Found at i:691364 original size:23 final size:23
Alignment explanation
Indices: 691337--691380 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
691327 CGCTATACGT
*
691337 TTATAACGACTTCGTAATAAATA
1 TTATAACGAATTCGTAATAAATA
* *
691360 TTATAGCGAATTCGTTATAAA
1 TTATAACGAATTCGTAATAAA
691381 ATAATTAAGG
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:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (23 bp):
TTATAACGAATTCGTAATAAATA
Found at i:691678 original size:15 final size:16
Alignment explanation
Indices: 691641--691681 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
691631 TTTAAATTAC
691641 TTCGTTATAGCCGTAAA
1 TTCGTTATAGCCGT-AA
*
691658 TTCGTTATAGCCGT-G
1 TTCGTTATAGCCGTAA
691673 TTCGTTATA
1 TTCGTTATA
691682 TACATCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
17 14 0.61
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (16 bp):
TTCGTTATAGCCGTAA
Found at i:696432 original size:1 final size:1
Alignment explanation
Indices: 696428--696456 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
696418 GGGGGGGGGG
696428 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
696457 TCTAGATCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:697515 original size:21 final size:22
Alignment explanation
Indices: 697489--697532 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
697479 ACCCATTGTC
697489 ATTATTCATTTTGTAAA-AAAA
1 ATTATTCATTTTGTAAATAAAA
697510 ATTATTCATTTTGTAAATAAAA
1 ATTATTCATTTTGTAAATAAAA
697532 A
1 A
697533 AAAACTTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTATTCATTTTGTAAATAAAA
Found at i:702598 original size:1 final size:1
Alignment explanation
Indices: 702594--702621 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
702584 TTGTTGTTGG
702594 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
702622 GGGGGGGGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:706122 original size:12 final size:12
Alignment explanation
Indices: 706091--706125 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
706081 TACTTCCCCC
*
706091 ACACACACACAA
1 ACACACAGACAA
706103 ACACACAGACAA
1 ACACACAGACAA
706115 ACACACAGACA
1 ACACACAGACA
706126 CGGACCGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.57, C:0.37, G:0.06, T:0.00
Consensus pattern (12 bp):
ACACACAGACAA
Found at i:713012 original size:110 final size:109
Alignment explanation
Indices: 712819--713019 Score: 348
Period size: 110 Copynumber: 1.8 Consensus size: 109
712809 TTGAATAATA
*
712819 AACTACATTTATATACATTAAATATTTCACTGTAAAGAATTATTTGCTTACTATCTTGCTTACTT
1 AACTACATTTATATACATTAAATATTTCACTGTAAAGAATTATTTGCTTACTAACTTGCTTACTT
*
712884 ACTTTTTGTCTACAGCTACGTACTTACTTANGTTTTTAAATGATT
66 ACTTTTTGTCCACAGCTACGTACTTACTTA-GTTTTTAAATGATT
* *
712929 AACTACATTTATTTACATTAAATATTTCACTGTAAAGAATTATTTGCTTATTAACTTGCTTACTT
1 AACTACATTTATATACATTAAATATTTCACTGTAAAGAATTATTTGCTTACTAACTTGCTTACTT
*
712994 ACTTTTTGTCCACAGCTACTTACTTA
66 ACTTTTTGTCCACAGCTACGTACTTA
713020 ATTACTAATT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 86 1.00
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.45
Consensus pattern (109 bp):
AACTACATTTATATACATTAAATATTTCACTGTAAAGAATTATTTGCTTACTAACTTGCTTACTT
ACTTTTTGTCCACAGCTACGTACTTACTTAGTTTTTAAATGATT
Found at i:715105 original size:2 final size:2
Alignment explanation
Indices: 715100--715132 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
715090 AAAAAGATTG
715100 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 G
715133 GCCTAGGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:731979 original size:15 final size:15
Alignment explanation
Indices: 731931--731979 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
731921 ATTTATTCTA
731931 AATAGGGTTGTCATT
1 AATAGGGTTGTCATT
* * *
731946 AATTATGGCTGTCAGT
1 AA-TAGGGTTGTCATT
731962 AATAGGGTTGTCATT
1 AATAGGGTTGTCATT
731977 AAT
1 AAT
731980 TGTCATAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (15 bp):
AATAGGGTTGTCATT
Found at i:733069 original size:11 final size:11
Alignment explanation
Indices: 733053--733077 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
733043 CATGACATGT
733053 AAATTTATGCA
1 AAATTTATGCA
733064 AAATTTATGCA
1 AAATTTATGCA
733075 AAA
1 AAA
733078 CTCATTGACA
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:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (11 bp):
AAATTTATGCA
Found at i:734289 original size:22 final size:22
Alignment explanation
Indices: 734258--734299 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
734248 TGGTGTTGAG
*
734258 TGAAATAAACTGAAACTGAAAC
1 TGAAAAAAACTGAAACTGAAAC
734280 TGAAAAAAACTGAAACTGAA
1 TGAAAAAAACTGAAACTGAA
734300 GACATAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.12, G:0.14, T:0.17
Consensus pattern (22 bp):
TGAAAAAAACTGAAACTGAAAC
Found at i:737142 original size:10 final size:10
Alignment explanation
Indices: 737123--737177 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
737113 NNNNNNNNNN
737123 AAAAAA-AAA
1 AAAAAATAAA
737132 AAAAAATAAA
1 AAAAAATAAA
*
737142 ATAAAAT-AA
1 AAAAAATAAA
*
737151 AATAAATAAA
1 AAAAAATAAA
* *
737161 GATAAATAAA
1 AAAAAATAAA
737171 CAAAAAA
1 -AAAAAA
737178 CTATTAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
9 13 0.35
10 20 0.54
11 4 0.11
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.13
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:737153 original size:5 final size:5
Alignment explanation
Indices: 737124--737170 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
737114 NNNNNNNNNA
* *
737124 AAAAA AAAAA AAAAT AAAAT AAAAT AAAAT -AAAT AAAGAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAA
737171 CAAAAAACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
4 6 0.16
5 30 0.79
6 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:739645 original size:4 final size:4
Alignment explanation
Indices: 739630--739667 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
739620 ACCCCAAAAT
* *
739630 ATAA AAAA ATAA ATAA GT-A ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
739668 TACATGTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 2 0.07
4 27 0.93
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:751561 original size:18 final size:19
Alignment explanation
Indices: 751521--751561 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
751511 ATAAATTTGA
* *
751521 ACACACGCATGCACACAGC
1 ACACACCCACGCACACAGC
751540 -CACACCCACGCACACA-C
1 ACACACCCACGCACACAGC
751557 ACACA
1 ACACA
751562 TGCTCTACGG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.39, C:0.49, G:0.10, T:0.02
Consensus pattern (19 bp):
ACACACCCACGCACACAGC
Found at i:755044 original size:102 final size:102
Alignment explanation
Indices: 754860--755062 Score: 390
Period size: 102 Copynumber: 2.0 Consensus size: 102
754850 CTCTGCTTAG
754860 CAGTATTCTTTTTTCATTTATTCTATTGAGTGTCTTGCTAAATCAATGATAGAAAAGTATACCCA
1 CAGTATTCTTTTTTCATTTATTCTATTGAGTGTCTTGCTAAATCAATGATAGAAAAGTATACCCA
754925 GAAATTGAAGTCGGAGATGAATTCTCGTTGTAATCNAA
66 GAAATTGAAGTCGGAGATGAATTCTCGTTGTAATC-AA
754963 CAGTATT-TTTTTTCATTTATTCTATTGAGTGTCTTGCTAAATCAATGATAGAAAAGTATACCCA
1 CAGTATTCTTTTTTCATTTATTCTATTGAGTGTCTTGCTAAATCAATGATAGAAAAGTATACCCA
755027 GAAATTGAAGTCGGAGATGAATTCTCGTTGTAATCA
66 GAAATTGAAGTCGGAGATGAATTCTCGTTGTAATCA
755063 GAATAATGCA
Statistics
Matches: 100, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
101 1 0.01
102 92 0.92
103 7 0.07
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.37
Consensus pattern (102 bp):
CAGTATTCTTTTTTCATTTATTCTATTGAGTGTCTTGCTAAATCAATGATAGAAAAGTATACCCA
GAAATTGAAGTCGGAGATGAATTCTCGTTGTAATCAA
Found at i:762526 original size:20 final size:20
Alignment explanation
Indices: 762501--762539 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
762491 TTATCTAGTT
762501 ATTAGATTAGTAAGATTATC
1 ATTAGATTAGTAAGATTATC
* *
762521 ATTAGATTTGTTAGATTAT
1 ATTAGATTAGTAAGATTAT
762540 TTTCTTACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (20 bp):
ATTAGATTAGTAAGATTATC
Found at i:765075 original size:13 final size:12
Alignment explanation
Indices: 765057--765090 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
765047 TAAACCCCTC
765057 GTTTACTTTCTGG
1 GTTTACTTT-TGG
765070 GTTTAC-TTTGG
1 GTTTACTTTTGG
765081 GTTTACTTTT
1 GTTTACTTTT
765091 TGAAACTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.45
12 5 0.25
13 6 0.30
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.59
Consensus pattern (12 bp):
GTTTACTTTTGG
Found at i:766363 original size:165 final size:166
Alignment explanation
Indices: 766082--766796 Score: 861
Period size: 165 Copynumber: 4.3 Consensus size: 166
766072 TTGGAAAAAA
* * *
766082 GTTCTAGAACACAGTTCGCAATTCAAAATTTAGAATTCATATTTGGGGCCTGAAGTTTTCAGGGT
1 GTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATTTTGGGCCTGAAATTTTCAGGGT
*
766147 CATCTACTGGTGGTATACCATTACCACCCTGAAAGTATGGT-AAAGTGGTCATCTCTAC-GTTTT
66 CATCTACTGGTGGTATACCATTACCACCCTGAAAATATGGTGAAA-TGGTCATCTCTACTGTTTT
*
766210 GAGATTCGGGCTTATTTGCAATTGAAAAGTGAACTGC
130 GAGATTCAGGCTTATTTGCAATTGAAAAGTGAACTGC
* * *
766247 GTTCTAGAACGTAGTTCGCAATTCAAAATTTAGAATTCATATTTTGGGCCTGAAATTTTAAGAGT
1 GTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATTTTGGGCCTGAAATTTTCAGGGT
* *
766312 CATCTACTGGTGGTATACCATTACTACCCTGAAAATATGGTGAAATGGTCATCTCT-CTGTTTTA
66 CATCTACTGGTGGTATACCATTACCACCCTGAAAATATGGTGAAATGGTCATCTCTACTGTTTTG
* * * *
766376 AGATTCAGGCTTATTTGCTATTGAAAGGTCAACTGT
131 AGATTCAGGCTTATTTGCAATTGAAAAGTGAACTGC
* * *
766412 GTTCTTGAACGCAGTTCGCAATTCAAAATTTAGAATTCATA-TCTGTGGCCTGTAATTTTCAGGG
1 GTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATTTTG-GGCCTGAAATTTTCAGGG
* * * * * ** *
766476 TCATCTACTGGTGCTACACCATTAACACCCTGAAAATATGGTGTAGTAATCATTTC-AGCT-TTT
65 TCATCTACTGGTGGTATACCATTACCACCCTGAAAATATGGTGAAATGGTCATCTCTA-CTGTTT
** **
766539 TGAGATTCAGGCTTATTTGCAA-TGAAAAAGCAAACTAA
129 TGAGATTCAGGCTTATTTGCAATTG-AAAAGTGAACTGC
* * * * * * *
766577 GTTCTGGAACGCAATTCGCTATTCAAAATTTAGATTTTATATTTGGGGCCTGAAATTTTCCGGGT
1 GTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATTTTGGGCCTGAAATTTTCAGGGT
* ** * * * * * * *
766642 CATCTACTAGTGGTATACCATTACCAATCTGGAAATATGCTGAAGTGGTTATTTCTACTTTTTTC
66 CATCTACTGGTGGTATACCATTACCACCCTGAAAATATGGTGAAATGGTCATCTCTACTGTTTTG
* *
766707 A-ATTCGGGCTTATTTGGAATTGAAAAGTGAACTGC
131 AGATTCAGGCTTATTTGCAATTGAAAAGTGAACTGC
* * * **
766742 GTTCTGGAACGCAGTTTGCAATTCAAAATTTAGAATTCAAATTTTAAGCCTGAAA
1 GTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATTTTGGGCCTGAAA
766797 GAGTAGGGTC
Statistics
Matches: 467, Mismatches: 73, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
164 6 0.01
165 446 0.96
166 15 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (166 bp):
GTTCTAGAACGCAGTTCGCAATTCAAAATTTAGAATTCATATTTTGGGCCTGAAATTTTCAGGGT
CATCTACTGGTGGTATACCATTACCACCCTGAAAATATGGTGAAATGGTCATCTCTACTGTTTTG
AGATTCAGGCTTATTTGCAATTGAAAAGTGAACTGC
Found at i:767952 original size:17 final size:17
Alignment explanation
Indices: 767930--767969 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
767920 CCCAAATTAC
767930 GACATTTTT-CTCGATAA
1 GACATTTTTAC-CGATAA
*
767947 GACATTTTTACCGATAT
1 GACATTTTTACCGATAA
767964 GACATT
1 GACATT
767970 GGGCGCACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (17 bp):
GACATTTTTACCGATAA
Found at i:769608 original size:18 final size:18
Alignment explanation
Indices: 769587--769621 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
769577 ATAAACAATC
769587 AATGTTTGCAGATTATCA
1 AATGTTTGCAGATTATCA
769605 AATGTTTGCAGATTATC
1 AATGTTTGCAGATTATC
769622 TCTTCATAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (18 bp):
AATGTTTGCAGATTATCA
Found at i:787976 original size:20 final size:20
Alignment explanation
Indices: 787951--787990 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
787941 CGATTTTTTG
* *
787951 CGATGAAGGAAGAGAGCCTA
1 CGATGAAGAAAGAAAGCCTA
787971 CGATGAAGAAAGAAAGCCTA
1 CGATGAAGAAAGAAAGCCTA
787991 AGACTATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.15, G:0.30, T:0.10
Consensus pattern (20 bp):
CGATGAAGAAAGAAAGCCTA
Found at i:798232 original size:6 final size:6
Alignment explanation
Indices: 798221--798262 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
798211 TAAGGTTGCA
*
798221 AAAAAC AAAAAC AAAAAC -AAAAC AAACA- AAAAAC -AAAAC AAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAA
798263 CAAAACTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
5 14 0.45
6 17 0.55
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:798236 original size:5 final size:5
Alignment explanation
Indices: 798222--798268 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
798212 AAGGTTGCAA
*
798222 AAAAC AAAAAC AAAAAC AAAAC AAACAA AAAAC AAAAC -AAAC AAAAC
1 AAAAC -AAAAC -AAAAC AAAAC AAA-AC AAAAC AAAAC AAAAC AAAAC
798269 TAGATGCTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
4 4 0.11
5 18 0.49
6 15 0.41
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:798238 original size:12 final size:12
Alignment explanation
Indices: 798221--798262 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
798211 TAAGGTTGCA
798221 AAAAACAAAAAC
1 AAAAACAAAAAC
798233 AAAAAC-AAAAC
1 AAAAACAAAAAC
*
798244 AAACA-AAAAAC
1 AAAAACAAAAAC
798255 -AAAACAAA
1 AAAAACAAA
798263 CAAAACTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 3 0.12
11 17 0.65
12 6 0.23
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAC
Found at i:798248 original size:21 final size:20
Alignment explanation
Indices: 798219--798266 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
798209 TATAAGGTTG
798219 CAAA-AAAC-AAAAACAAAAA
1 CAAACAAACAAAAAAC-AAAA
798238 CAAAACAAACAAAAAACAAAA
1 C-AAACAAACAAAAAACAAAA
798259 CAAACAAA
1 CAAACAAA
798267 ACTAGATGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 1 0.04
20 10 0.38
21 9 0.35
22 6 0.23
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (20 bp):
CAAACAAACAAAAAACAAAA
Found at i:798254 original size:16 final size:16
Alignment explanation
Indices: 798222--798267 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
798212 AAGGTTGCAA
*
798222 AAAACAAAAACAAAAAC
1 AAAACAAACA-AAAAAC
798239 AAAACAAACAAAAAAC
1 AAAACAAACAAAAAAC
798255 AAAACAAACAAAA
1 AAAACAAACAAAA
798268 CTAGATGCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 19 0.68
17 9 0.32
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAACAAACAAAAAAC
Found at i:798268 original size:21 final size:20
Alignment explanation
Indices: 798220--798268 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
798210 ATAAGGTTGC
798220 AAAAAACAAAAACAAAAACA
1 AAAAAACAAAAACAAAAACA
798240 AAACAAACAAAAA-ACAAAACA
1 AAA-AAACAAAAACA-AAAACA
798261 AACAAAAC
1 AA-AAAAC
798269 TAGATGCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.15
21 21 0.81
22 1 0.04
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAACAAAAACAAAAACA
Found at i:805709 original size:438 final size:437
Alignment explanation
Indices: 804865--806098 Score: 1704
Period size: 438 Copynumber: 2.8 Consensus size: 437
804855 GGCCCCTAAA
* * *
804865 TAACATTGTTTGTTATTACAACCATCTAAAATTGTTGTTCATTTTTAAGATACAAATGATTGAAT
1 TAACATT-TTTGTTCTTACACCCATCTAAAATTGTTGTTCATTTTTGAGATACAAATGATTGAAT
* * * *
804930 ATTTTAAAGGCCATCCCTCTAGAT-CCTTAATGGGGACAAACATTGGTG--CT--T---TGGAAT
65 ATTTTAAGGGCCAGCCCTCTAGATCCCTT-ATGGGGACAGACATTGGTGTTTTGATAAGTGGAAT
* * * * **
804987 CGATTAAAATCATCAATGCAAACATTTTCTCTTTTACAATG-CTTAACAAAATATGTCTCCTTTT
129 CGATTTAAATCATTAATGCAAACATTTTTTCTTCTATGATGTCTTAACAAAATATGTCTCCTTTT
* * * *
805051 CTAGATATATTGCATCAAAGGTTAGGTACTTTGGCCCCTAAAAACCCCTCATTACGTAATAAATG
194 CTAGATATATTGCGTCAAAGTTTAAGTACTTTGGCCCCTAAAAATCCCTCATTACGTAATAAATG
* *
805116 GGCGTGGCAATGATTTTTCCTGATAGATATTGTTGCGATCAACAACTTTGCTTCTATAATGCATT
259 GGCGTGGCAATGATTTTTTCTGAAAGATATTGTTGCGATCAACAACTTTGCTTCTATAATGCATT
* * * * * * *
805181 AC-AATATCTTTTTTGTTTTAAAGTAATTTGTAAAAGAGTTTACAAGTGTCTTGGCCCCTAAGTG
324 ACAAAT-TCTTTATTGTTTTTAAGTTATTTGTAATAGAGTTTACGAGTGTCCTGGCCCCTAAGTA
* * *
805245 AAGGGACCAGCCCCTTTTTTATGATTTTTTTGAAAAGGTCTTTAGAATTC
388 AAGAGACCAGCCCCTTTTTCATGATTTCTTTGAAAAGGTCTTTAGAATTC
* *
805295 TCACATTTTTGTTCTCACACCCATCTAAAATTGTTGTTCATTTTTGAGATACAAATGATTGAATA
1 TAACATTTTTGTTCTTACACCCATCTAAAATTGTTGTTCATTTTTGAGATACAAATGATTGAATA
** *
805360 TTTTTGGGGCCAGCCCTTTAGATCCCTTATGGGGACAGACATTGGTGTTTTGATAAGTGGAATCG
66 TTTTAAGGGCCAGCCCTCTAGATCCCTTATGGGGACAGACATTGGTGTTTTGATAAGTGGAATCG
* * * * *
805425 ATTTAAA-CTATTAATGCAAATATTTTTTCTTCTATGATGTCTAAATAAAATATGTCTACTTCTC
131 ATTTAAATC-ATTAATGCAAACATTTTTTCTTCTATGATGTCTTAACAAAATATGTCTCCTTTTC
* * * * *
805489 TAGATATATTGCGTCAAAATTTAAGTACTTTGGCACCTAAAAATCTCTAATTACGTGATAAATGG
195 TAGATATATTGCGTCAAAGTTTAAGTACTTTGGCCCCTAAAAATCCCTCATTACGTAATAAATGG
* *
805554 GCGTGGCAATGATTTTTTTCTGAAAGATATTGTTACAATCAACAACTTTGCTTCTATAATGCATT
260 GCGTGGCAATGA-TTTTTTCTGAAAGATATTGTTGCGATCAACAACTTTGCTTCTATAATGCATT
* * *
805619 ACAAATTCTTTATTGTTTTTAAGTTATTTGTAATAGACTTTACGAGTGTCCTGGCCGCTAATTAA
324 ACAAATTCTTTATTGTTTTTAAGTTATTTGTAATAGAGTTTACGAGTGTCCTGGCCCCTAAGTAA
*
805684 ATTAG-CCAGCCCCTTTTTCATGATTTCTTTGAAAAGGTCTTTAGAATTC
389 A-GAGACCAGCCCCTTTTTCATGATTTCTTTGAAAAGGTCTTTAGAATTC
* *
805733 TAACATTTTTGTTCTTACGCCCATCTAAAATTGTTATTCATTTTTGAGATACAAATGATTGAATA
1 TAACATTTTTGTTCTTACACCCATCTAAAATTGTTGTTCATTTTTGAGATACAAATGATTGAATA
* * * * *
805798 TTTCAAGGGCCAGCACTGTAGATCCCTTATGGGGACAGATATTGGTGTTTTGATAAGTGGAATCA
66 TTTTAAGGGCCAGCCCTCTAGATCCCTTATGGGGACAGACATTGGTGTTTTGATAAGTGGAATCG
*
805863 ATTTAAATCATTAATGCAAACATTTTTTCTTCTATGATGT-TTAACAAAATACGTCTCCTTTTCT
131 ATTTAAATCATTAATGCAAACATTTTTTCTTCTATGATGTCTTAACAAAATATGTCTCCTTTTCT
* *
805927 AGATATATTGCGTCCAAGTCTAAGTACTTTGGCCCCTAAAAATCCCTCATTACGTAATAAATGGG
196 AGATATATTGCGTCAAAGTTTAAGTACTTTGGCCCCTAAAAATCCCTCATTACGTAATAAATGGG
*
805992 CGTGGCAATGATTTTTTCT-AATAGATATTGTTGCGGTCAACAACTTTGCTTCTATAATGCATTA
261 CGTGGCAATGATTTTTTCTGAA-AGATATTGTTGCGATCAACAACTTTGCTTCTATAATGCATTA
* * *** *
806056 CAAAATCTCTATCAATTTTAAGTTATCTGTAATAGAGTTTACG
325 CAAATTCTTTATTGTTTTTAAGTTATTTGTAATAGAGTTTACG
806099 TGTCGCTTGG
Statistics
Matches: 705, Mismatches: 84, Indels: 24
0.87 0.10 0.03
Matches are distributed among these distances:
429 90 0.13
430 10 0.01
431 1 0.00
433 1 0.00
435 3 0.00
436 121 0.17
437 176 0.25
438 298 0.42
439 5 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (437 bp):
TAACATTTTTGTTCTTACACCCATCTAAAATTGTTGTTCATTTTTGAGATACAAATGATTGAATA
TTTTAAGGGCCAGCCCTCTAGATCCCTTATGGGGACAGACATTGGTGTTTTGATAAGTGGAATCG
ATTTAAATCATTAATGCAAACATTTTTTCTTCTATGATGTCTTAACAAAATATGTCTCCTTTTCT
AGATATATTGCGTCAAAGTTTAAGTACTTTGGCCCCTAAAAATCCCTCATTACGTAATAAATGGG
CGTGGCAATGATTTTTTCTGAAAGATATTGTTGCGATCAACAACTTTGCTTCTATAATGCATTAC
AAATTCTTTATTGTTTTTAAGTTATTTGTAATAGAGTTTACGAGTGTCCTGGCCCCTAAGTAAAG
AGACCAGCCCCTTTTTCATGATTTCTTTGAAAAGGTCTTTAGAATTC
Found at i:806787 original size:66 final size:67
Alignment explanation
Indices: 806702--806879 Score: 261
Period size: 69 Copynumber: 2.7 Consensus size: 67
806692 ATAAAATTAA
* * *
806702 GAAAAA-AACCAATAGAATAATAGAAGGGTCTTCCTCTGAAGACGGAACAGCCT-AATAAGAAAA
1 GAAAAAGAAACAATAGAATAATAGAAGGGTCTTCCGCTGAAGACGGAACACCCTAAATAAGAAAA
806765 GT
66 GT
* *
806767 GAAAAAGAAACAATAGAATAATAGAAGGGTCTTCCGCTGTAGACGGAAGACCCTAACAATAAGAA
1 GAAAAAGAAACAATAGAATAATAGAAGGGTCTTCCGCTGAAGACGGAACACCCT-A-AATAAGAA
806832 AAGT
64 AAGT
* *
806836 GAAAAAGAAACAAAAGAAAAATAGAAGGGTCTTCCGCTGAAGAC
1 GAAAAAGAAACAATAGAATAATAGAAGGGTCTTCCGCTGAAGAC
806880 CCTAAATAAT
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
65 6 0.06
66 42 0.42
69 53 0.52
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (67 bp):
GAAAAAGAAACAATAGAATAATAGAAGGGTCTTCCGCTGAAGACGGAACACCCTAAATAAGAAAA
GT
Found at i:808787 original size:2 final size:2
Alignment explanation
Indices: 808769--808816 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
808759 AAATTTCGGC
* *
808769 AT AT TT AT AT GT 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 AT AT AT AT AT
808811 AT AT AT
1 AT AT AT
808817 GCACGTTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:821405 original size:160 final size:161
Alignment explanation
Indices: 821232--821582 Score: 501
Period size: 161 Copynumber: 2.2 Consensus size: 161
821222 GTCCTATATT
* *
821232 TGTGCAATAAGGTTTTAAAAATTTTAATTTCATCCAGGGAGTCAAATAGTAGCAGAA-AATTGAC
1 TGTGCAATAAGGTTTTAAAAATTTAAATTTCATCCAGGGAGTCAAAAAGTAGCA-AATAATTGAC
* * *
821296 GTTTATCACT-AAAAAAACATCGATCCAAGAGCTCATCTTATGATTTAATGGATAGACACATCGT
65 GTTTATCACTCAAAAAAACATAGATCCAAGAACTCATCTTATGATTTAATGGATAGACACATCAT
* * *
821360 ATCTTGGGATATGGTAGGAACTGTTCTATAGA
130 ATCTTGGGATATGATAGGAACGGTTCCATAGA
*
821392 TGTGCAGTAAGGTTTTAAAAATTTAAATTTCATCCAGGGAGTCAAAAAGTAGCAAATAATTGACG
1 TGTGCAATAAGGTTTTAAAAATTTAAATTTCATCCAGGGAGTCAAAAAGTAGCAAATAATTGACG
* ** * * *
821457 TTTATCACTCCAAAAAAGTTAGATCCTAGAACTCCTTTTATGATTTAATGGATAGACACATCATA
66 TTTATCACTCAAAAAAACATAGATCCAAGAACTCATCTTATGATTTAATGGATAGACACATCATA
*
821522 TCTTGGGATATGATAGGAACGGTTCCATTGA
131 TCTTGGGATATGATAGGAACGGTTCCATAGA
* *
821553 TGTGCATTACGGTTTTGAAAAA-TTAAATTT
1 TGTGCAATAAGGTTTT-AAAAATTTAAATTT
821583 AACCCTGAGG
Statistics
Matches: 170, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
159 2 0.01
160 68 0.40
161 95 0.56
162 5 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.32
Consensus pattern (161 bp):
TGTGCAATAAGGTTTTAAAAATTTAAATTTCATCCAGGGAGTCAAAAAGTAGCAAATAATTGACG
TTTATCACTCAAAAAAACATAGATCCAAGAACTCATCTTATGATTTAATGGATAGACACATCATA
TCTTGGGATATGATAGGAACGGTTCCATAGA
Found at i:829656 original size:133 final size:137
Alignment explanation
Indices: 829475--829765 Score: 343
Period size: 134 Copynumber: 2.2 Consensus size: 137
829465 CATGACCCCA
* *
829475 AAACCATATA-ATTCTTGTTTC-TGATGTCAAGGGGCATCAGATGTTATGTCGGTCAAGGG-CCC
1 AAACCATATATATTCTTGTTCCTTGATGTCAAGGGGCATCAGATGTTATGTAGGTCAAGGGCCCC
* * * *
829537 TGTGGGTGGTCCTGAC-CCCCTCGAACAGCAAGT-CCCTTAATATCTTC-AAAACAGTTGAGATC
66 AG-GGGTGGTCCTGACTCACCTCGAACAGCAAGTGCAC-GAATATC-TCAAAAACAGTTGAGATC
829599 CCCA-CCCTT
128 CCCACCCCTT
*
829608 AAACCATATATATTCTTGTTCCTTG-TGTCAAGGGGCATCA-ACTG-TATGTAGGTCATGGGCCC
1 AAACCATATATATTCTTGTTCCTTGATGTCAAGGGGCATCAGA-TGTTATGTAGGTCAAGGGCCC
* * * * *
829670 CAGGGGTGTTCGTGACTCACCTCGAACTGGAAGTGCACGAATATCTCAAAAACGGTTGAGATCCC
65 CAGGGGTGGTCCTGACTCACCTCGAACAGCAAGTGCACGAATATCTCAAAAACAGTTGAGATCCC
829735 CACCCCTT
130 CACCCCTT
* *
829743 -AACCATATATTTTCTTGATCCTT
1 AAACCATATATATTCTTGTTCCTT
829766 AAAGGGCATC
Statistics
Matches: 136, Mismatches: 14, Indels: 15
0.82 0.08 0.09
Matches are distributed among these distances:
133 37 0.27
134 90 0.66
135 9 0.07
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (137 bp):
AAACCATATATATTCTTGTTCCTTGATGTCAAGGGGCATCAGATGTTATGTAGGTCAAGGGCCCC
AGGGGTGGTCCTGACTCACCTCGAACAGCAAGTGCACGAATATCTCAAAAACAGTTGAGATCCCC
ACCCCTT
Found at i:830077 original size:163 final size:166
Alignment explanation
Indices: 829807--830241 Score: 515
Period size: 171 Copynumber: 2.6 Consensus size: 166
829797 CCTCAGGGTT
* * * *
829807 AAATTT-AATTTTTCAAAACCGTAATGCACATCTATGGAACAGTTCCTGTC-TCATCCCAAGATA
1 AAATTTAAATTTTT-AAAACCTTAATGCACATCTATAGAACAGTCCCTATCAT-ATCCCAAGATA
* * *
829870 TGATATGTCTATCCATTAAATCATAAGAGGAGTTGTAGGATCTAT-G-TTT-TTTTTGGAATGAT
64 TGATGTGTCTATCCATTAAATCATAAGAGGAGTTCTGGGATCTATGGTTTTATTTTTGGAATGAT
* * *
829932 GAACGTCAATTTTCTGCTACTTTTTGACTCCCTGGATG
129 AAACGTCAAATTTCTGCTACTATTTGACTCCCTGGATG
* * *
829970 AAATTTAAATTTTTAAAACCTTACTGCACATCTATAGAACAGTCCCTATCATATCCCCATATATG
1 AAATTTAAATTTTTAAAACCTTAATGCACATCTATAGAACAGTCCCTATCATATCCCAAGATATG
* *
830035 ATGTGTCTATCCATTAAATCATAAGAGGAGTTCTGGGATCTATGGTTTTATTTTATTTTTTGAGT
66 ATGTGTCTATCCATTAAATCATAAGAGGAGTTCTGGGATCTATGG-----TTTTATTTTTGGAAT
830100 GATAAACGTCAAATTTCTGCTACTATTTGACTCCCTGGATG
126 GATAAACGTCAAATTTCTGCTACTATTTGACTCCCTGGATG
* * * * * * *
830141 AAATTAAAATTTCTAAAACCTTATTGCACATCTATAGGACAGCCCCAATCATATCCCAAGAGATG
1 AAATTTAAATTTTTAAAACCTTAATGCACATCTATAGAACAGTCCCTATCATATCCCAAGATATG
* **
830206 ATGTAG-CTACTCCA-AAAATTGTAAGAGGAGTTCTGG
66 ATGT-GTCTA-TCCATTAAATCATAAGAGGAGTTCTGG
830242 AAACCATACT
Statistics
Matches: 233, Mismatches: 27, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
163 88 0.38
164 9 0.04
170 3 0.01
171 128 0.55
172 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (166 bp):
AAATTTAAATTTTTAAAACCTTAATGCACATCTATAGAACAGTCCCTATCATATCCCAAGATATG
ATGTGTCTATCCATTAAATCATAAGAGGAGTTCTGGGATCTATGGTTTTATTTTTGGAATGATAA
ACGTCAAATTTCTGCTACTATTTGACTCCCTGGATG
Found at i:831545 original size:18 final size:18
Alignment explanation
Indices: 831522--831559 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
831512 GAGTAGTCCA
831522 AAGATACACAAAACAAAC
1 AAGATACACAAAACAAAC
831540 AAGATACACAAAACAAAC
1 AAGATACACAAAACAAAC
831558 AA
1 AA
831560 CAATTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.68, C:0.21, G:0.05, T:0.05
Consensus pattern (18 bp):
AAGATACACAAAACAAAC
Found at i:836458 original size:107 final size:107
Alignment explanation
Indices: 836272--836487 Score: 387
Period size: 107 Copynumber: 2.0 Consensus size: 107
836262 GTGCTACACT
*
836272 AATAAAAAATTGGCAAGATGGTCAATACAAGTAGGCCAAGATCGACGTCTTTTCAAATGCATGCA
1 AATAAAAAATTGGCAAGATGGTCAATACAAGTAGGCCAAGATCGACATCTTTTCAAATGCATGCA
*
836337 TTAATTAGCATCACTGACTGTCAAACATACATTAAGATAATA
66 TTAATTAGCATCACTGACAGTCAAACATACATTAAGATAATA
* * *
836379 AATAAAAAATTGGCAAGATTGTCATTACAAGTAGGCGAAGATCGACATCTTTTCAAATGCATGCA
1 AATAAAAAATTGGCAAGATGGTCAATACAAGTAGGCCAAGATCGACATCTTTTCAAATGCATGCA
836444 TTAATTAGCATCACTGACAGTCAAACATACATTAAGATAATA
66 TTAATTAGCATCACTGACAGTCAAACATACATTAAGATAATA
836486 AA
1 AA
836488 GAGAATCATA
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 104 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.26
Consensus pattern (107 bp):
AATAAAAAATTGGCAAGATGGTCAATACAAGTAGGCCAAGATCGACATCTTTTCAAATGCATGCA
TTAATTAGCATCACTGACAGTCAAACATACATTAAGATAATA
Found at i:836651 original size:19 final size:19
Alignment explanation
Indices: 836603--836654 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
836593 GAAACGAAAT
**
836603 GAAACAAAACGAAATCTATT
1 GAAACAAAACG-AATCTACC
**
836623 GAAAGGAAACGAATCTACC
1 GAAACAAAACGAATCTACC
836642 GAAACAAAACGAA
1 GAAACAAAACGAA
836655 ACGAAATTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.56, C:0.17, G:0.15, T:0.12
Consensus pattern (19 bp):
GAAACAAAACGAATCTACC
Found at i:836668 original size:16 final size:15
Alignment explanation
Indices: 836641--836722 Score: 76
Period size: 16 Copynumber: 5.4 Consensus size: 15
836631 ACGAATCTAC
836641 CGAAACAAAACGAAA
1 CGAAACAAAACGAAA
*
836656 CGAAATTAAAACGAAA
1 CGAAA-CAAAACGAAA
** * * *
836672 CGAAACGCATC-TAC
1 CGAAACAAAACGAAA
836686 CGAAACAAAACGAAA
1 CGAAACAAAACGAAA
*
836701 CGAAATTAAAACGAAA
1 CGAAA-CAAAACGAAA
836717 CGAAAC
1 CGAAAC
836723 TACCAGAATA
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
14 9 0.18
15 13 0.26
16 28 0.56
ACGTcount: A:0.59, C:0.21, G:0.13, T:0.07
Consensus pattern (15 bp):
CGAAACAAAACGAAA
Found at i:836687 original size:45 final size:45
Alignment explanation
Indices: 836623--836722 Score: 182
Period size: 45 Copynumber: 2.2 Consensus size: 45
836613 GAAATCTATT
*
836623 GAAAGGAAACGAATCTACCGAAACAAAACGAAACGAAATTAAAAC
1 GAAACGAAACGAATCTACCGAAACAAAACGAAACGAAATTAAAAC
*
836668 GAAACGAAACGCATCTACCGAAACAAAACGAAACGAAATTAAAAC
1 GAAACGAAACGAATCTACCGAAACAAAACGAAACGAAATTAAAAC
836713 GAAACGAAAC
1 GAAACGAAAC
836723 TACCAGAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.57, C:0.20, G:0.15, T:0.08
Consensus pattern (45 bp):
GAAACGAAACGAATCTACCGAAACAAAACGAAACGAAATTAAAAC
Found at i:837707 original size:5 final size:5
Alignment explanation
Indices: 837690--837790 Score: 53
Period size: 5 Copynumber: 20.0 Consensus size: 5
837680 TTTTGCTCGA
* * ** *
837690 TTTCG TTTTG TTTCG TTTCG TTTCC TTTCGG CAT-A TTTCG TTTCG TTTCGG
1 TTTCG TTTCG TTTCG TTTCG TTTCG TTTC-G TTTCG TTTCG TTTCG TTTC-G
* * * * * * *
837741 TAT-A TTTCA TTTCG TTTCA TTTCA CTTCG TTTCG TTTCTA TTTCG TTTCG
1 TTTCG TTTCG TTTCG TTTCG TTTCG TTTCG TTTCG TTTC-G TTTCG TTTCG
837791 CACTTTACAG
Statistics
Matches: 71, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
4 3 0.04
5 60 0.85
6 8 0.11
ACGTcount: A:0.08, C:0.20, G:0.15, T:0.57
Consensus pattern (5 bp):
TTTCG
Found at i:837728 original size:20 final size:20
Alignment explanation
Indices: 837705--837758 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
837695 TTTTGTTTCG
*
837705 TTTCGTTTCCTTTCGGCATA
1 TTTCGTTTCGTTTCGGCATA
*
837725 TTTCGTTTCGTTTCGGTATA
1 TTTCGTTTCGTTTCGGCATA
*
837745 TTTCATTTCGTTTC
1 TTTCGTTTCGTTTC
837759 ATTTCACTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.09, C:0.20, G:0.15, T:0.56
Consensus pattern (20 bp):
TTTCGTTTCGTTTCGGCATA
Found at i:838400 original size:8 final size:8
Alignment explanation
Indices: 838364--838398 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
838354 CCCCCCCCAA
838364 AAAAAAAT
1 AAAAAAAT
*
838372 AAAAAAAA
1 AAAAAAAT
838380 AAAAAAAT
1 AAAAAAAT
*
838388 AAATAAAT
1 AAAAAAAT
838396 AAA
1 AAA
838399 TATGAAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:839360 original size:140 final size:141
Alignment explanation
Indices: 839103--839433 Score: 409
Period size: 140 Copynumber: 2.3 Consensus size: 141
839093 CTCAATTGAT
* * * * * * *
839103 CTTGGGTCAAAGTCATGACACACCCTTT-GGTCATAAGCAGTATTTGTGTGAAGTTAGAACATTC
1 CTTGCGTCAAGGTCACGACACA-CCTTTAGGTCATAAGCAATCTTTGTGTGAAGTAAAAACATTC
* * *
839167 AATGGTTCTCAATAAGGAAGATATGGACCGGACACGAATTTTGCACTTTTTCTGCCAGTG-ACCT
65 AATGGTTCCCAATAAGAAAGATATGGACCGGACACGAATTTTCCACTTTTTCTGCCAGTGCACCT
839231 TGCCCGAATGAC
130 TGCCCGAATGAC
* * *
839243 CTTGTGTCAAGGTCACGACTCACCTTTAGGTCATATGCAATCTTTGTGTGAAGTAAAAAC-TTCC
1 CTTGCGTCAAGGTCACGACACACCTTTAGGTCATAAGCAATCTTTGTGTGAAGTAAAAACATT-C
* * *
839307 AATGTTTCCCCATAAGAAAGATGTGGACC-GACCACGAATTTTCCACTTTTTCTGCCAGTGACCT
65 AATGGTTCCCAATAAGAAAGATATGGACCGGA-CACGAATTTTCCACTTTTTCTGCCAGTG----
839371 TCACCTTGCCCGAATGAC
125 -CACCTTGCCCGAATGAC
*
839389 CTTGCGTCAAGGTCACGACACACCTTTAAGTCATAAGCAATCTTT
1 CTTGCGTCAAGGTCACGACACACCTTTAGGTCATAAGCAATCTTT
839434 TTTTTTTTTA
Statistics
Matches: 163, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
139 9 0.06
140 97 0.60
146 57 0.35
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (141 bp):
CTTGCGTCAAGGTCACGACACACCTTTAGGTCATAAGCAATCTTTGTGTGAAGTAAAAACATTCA
ATGGTTCCCAATAAGAAAGATATGGACCGGACACGAATTTTCCACTTTTTCTGCCAGTGCACCTT
GCCCGAATGAC
Found at i:846192 original size:20 final size:21
Alignment explanation
Indices: 846167--846208 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
846157 GTTAAAAAAA
846167 AGGGTATGGTA-AAAAGTTGC
1 AGGGTATGGTACAAAAGTTGC
*
846187 AGGGTATGGTACAAAATTTGC
1 AGGGTATGGTACAAAAGTTGC
846208 A
1 A
846209 TGTTTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.36, C:0.07, G:0.31, T:0.26
Consensus pattern (21 bp):
AGGGTATGGTACAAAAGTTGC
Found at i:850397 original size:20 final size:20
Alignment explanation
Indices: 850374--850434 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
850364 TAGTCCATAT
*
850374 CTTTCTACCACGCTCCACCA
1 CTTTCAACCACGCTCCACCA
* *
850394 CTTTCAACCATGTTCCACCA
1 CTTTCAACCACGCTCCACCA
* * *
850414 CTATCCACCACGCTCAACCA
1 CTTTCAACCACGCTCCACCA
850434 C
1 C
850435 GCTTCACCAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.25, C:0.48, G:0.05, T:0.23
Consensus pattern (20 bp):
CTTTCAACCACGCTCCACCA
Found at i:850443 original size:30 final size:30
Alignment explanation
Indices: 850387--850452 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
850377 TCTACCACGC
** * **
850387 TCCACCACTTTCAACCATGTTCCACCACTA
1 TCCACCACGCTCAACCACGTTCCACCAAAA
850417 TCCACCACGCTCAACCACGCTT-CACCAAAA
1 TCCACCACGCTCAACCACG-TTCCACCAAAA
850447 TCCACC
1 TCCACC
850453 CCGTCCCCTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.29, C:0.47, G:0.05, T:0.20
Consensus pattern (30 bp):
TCCACCACGCTCAACCACGTTCCACCAAAA
Found at i:852982 original size:11 final size:11
Alignment explanation
Indices: 852955--852993 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
852945 GCGTTTTTTT
852955 TACCCCAATGA
1 TACCCCAATGA
852966 -ACCCCAATGA
1 TACCCCAATGA
852976 TACCCCAATGA
1 TACCCCAATGA
852987 TACCCCA
1 TACCCCA
852994 TGCAATGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.36, C:0.41, G:0.08, T:0.15
Consensus pattern (11 bp):
TACCCCAATGA
Found at i:861237 original size:2 final size:2
Alignment explanation
Indices: 861230--861281 Score: 70
Period size: 2 Copynumber: 26.0 Consensus size: 2
861220 ATGCACACTG
* *
861230 TC TC TC TC TT TC TC AC TC TC TC TC TC TC TC TC AT- TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC -TC TC TC TC TC
861272 TC TC TC TC TC
1 TC TC TC TC TC
861282 ATTTTATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.95
3 1 0.02
ACGTcount: A:0.04, C:0.46, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:861251 original size:18 final size:18
Alignment explanation
Indices: 861225--861279 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
861215 GAAAAATGCA
* *
861225 CACTGTCTCTCTCTTTCT
1 CACTCTCTCTCTCTCTCT
861243 CACTCTCTCTCTCTCTCT
1 CACTCTCTCTCTCTCTCT
*
861261 CATTCTCTCTCTCTCTCT
1 CACTCTCTCTCTCTCTCT
861279 C
1 C
861280 TCATTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.05, C:0.45, G:0.02, T:0.47
Consensus pattern (18 bp):
CACTCTCTCTCTCTCTCT
Found at i:861283 original size:20 final size:20
Alignment explanation
Indices: 861230--861284 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
861220 ATGCACACTG
*
861230 TCTCTCTCTTTCTCA--CTC
1 TCTCTCTCTCTCTCATTCTC
861248 TCTCTCTCTCTCTCATTCTC
1 TCTCTCTCTCTCTCATTCTC
861268 TCTCTCTCTCTCTCATT
1 TCTCTCTCTCTCTCATT
861285 TTATTATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 14 0.41
20 20 0.59
ACGTcount: A:0.05, C:0.44, G:0.00, T:0.51
Consensus pattern (20 bp):
TCTCTCTCTCTCTCATTCTC
Found at i:861598 original size:33 final size:32
Alignment explanation
Indices: 861553--861616 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
861543 GAATTTTATG
*
861553 TTTAATGTATTGGCTAACACTGAATATGAATAA
1 TTTAATGCATTGGCTAACACTGAATAT-AATAA
*
861586 TTTAATGCATTGGCTTACACTGAATATAATA
1 TTTAATGCATTGGCTAACACTGAATATAATA
861617 TCGTTAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (32 bp):
TTTAATGCATTGGCTAACACTGAATATAATAA
Found at i:868736 original size:9 final size:9
Alignment explanation
Indices: 868722--868753 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
868712 AAAACCCACC
868722 AATATTATA
1 AATATTATA
868731 AATA-T-TA
1 AATATTATA
868738 AATATTATA
1 AATATTATA
868747 AATATTA
1 AATATTA
868754 AATAATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 6 0.29
8 2 0.10
9 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATATTATA
Found at i:868743 original size:16 final size:16
Alignment explanation
Indices: 868722--868757 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
868712 AAAACCCACC
868722 AATATTATAAATATTA
1 AATATTATAAATATTA
868738 AATATTATAAATATTA
1 AATATTATAAATATTA
868754 AATA
1 AATA
868758 ATTCATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATTATAAATATTA
Found at i:871755 original size:11 final size:11
Alignment explanation
Indices: 871725--871756 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
871715 TAAAGACGAT
*
871725 CTTTAAGCCAC
1 CTTTAAGCTAC
871736 CTTTAAGCTAC
1 CTTTAAGCTAC
871747 CTTTAAGCTA
1 CTTTAAGCTA
871757 TATGTATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (11 bp):
CTTTAAGCTAC
Found at i:871815 original size:22 final size:22
Alignment explanation
Indices: 871765--871817 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
871755 TATATGTATT
*
871765 GCTTAAAGGTGGCTTAAAGAAA
1 GCTTAAAGATGGCTTAAAGAAA
* **
871787 GCGTAAAGATGGCTTAAAGGCA
1 GCTTAAAGATGGCTTAAAGAAA
871809 GCTTAAAGA
1 GCTTAAAGA
871818 CTATCTTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (22 bp):
GCTTAAAGATGGCTTAAAGAAA
Found at i:871838 original size:11 final size:11
Alignment explanation
Indices: 871822--871851 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
871812 TAAAGACTAT
871822 CTTTAAGTCAC
1 CTTTAAGTCAC
*
871833 CTTTAAGCCAC
1 CTTTAAGTCAC
871844 CTTTAAGT
1 CTTTAAGT
871852 ACAACTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (11 bp):
CTTTAAGTCAC
Found at i:871898 original size:11 final size:11
Alignment explanation
Indices: 871882--871935 Score: 99
Period size: 11 Copynumber: 4.9 Consensus size: 11
871872 GTCCAAACTT
871882 CTTTAAGCCAC
1 CTTTAAGCCAC
871893 CTTTAAGCCAC
1 CTTTAAGCCAC
*
871904 CTTTAAGCTAC
1 CTTTAAGCCAC
871915 CTTTAAGCCAC
1 CTTTAAGCCAC
871926 CTTTAAGCCA
1 CTTTAAGCCA
871936 TTAAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 41 1.00
ACGTcount: A:0.28, C:0.33, G:0.09, T:0.30
Consensus pattern (11 bp):
CTTTAAGCCAC
Found at i:872056 original size:14 final size:14
Alignment explanation
Indices: 872039--872065 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
872029 AAGAAAAATG
872039 AAAAAAAAAAAACC
1 AAAAAAAAAAAACC
872053 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
872066 GGCCACGGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAACC
Found at i:873154 original size:112 final size:111
Alignment explanation
Indices: 872957--873178 Score: 381
Period size: 112 Copynumber: 2.0 Consensus size: 111
872947 AACCCTGACG
*
872957 TGCACCTGGGCACACGACACACCTGCTGTGTATATCTTGTATATTCTGTGTTAGTTCCAGGGGTT
1 TGCACCTGGGCACACGACACAACTGCTGTGTATATCTTGTATATTCTGTGTTAGTTCCAGGGGTT
*
873022 TTCTTAAGTTGGACAAACAATAGACTTTAATTAGATATACACAAACA
66 TTCTTAAGTTGGACAAACAATAG-CTCTAATTAGATATACACAAACA
* *
873069 TGCACCTGGGCACGCGACACAACTGTTGTGTATATCTTGTATATTCTGTGTTAGTTCCAGGGGTT
1 TGCACCTGGGCACACGACACAACTGCTGTGTATATCTTGTATATTCTGTGTTAGTTCCAGGGGTT
* *
873134 TTCTTAAGTTGTACAAACAATAGCTCTAATTAGATATACGCAAAC
66 TTCTTAAGTTGGACAAACAATAGCTCTAATTAGATATACACAAAC
873179 GAACAAAACT
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
111 20 0.19
112 84 0.81
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (111 bp):
TGCACCTGGGCACACGACACAACTGCTGTGTATATCTTGTATATTCTGTGTTAGTTCCAGGGGTT
TTCTTAAGTTGGACAAACAATAGCTCTAATTAGATATACACAAACA
Found at i:873401 original size:2 final size:2
Alignment explanation
Indices: 873394--873437 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
873384 CGGATGAACT
873394 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
873436 GA
1 GA
873438 TTTTTTTCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:873830 original size:22 final size:21
Alignment explanation
Indices: 873772--873832 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
873762 AATATTGACT
*
873772 TAAAGACCACTTAAAGACAGTG
1 TAAAG-CCACTTAAAGACAGCG
* * *
873794 TAAAGGCAGTGTAAAGAGAGCG
1 TAAAGCCACT-TAAAGACAGCG
873816 TAAATGCCACTTAAAGA
1 TAAA-GCCACTTAAAGA
873833 TGCTTAAAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 3 0.10
22 24 0.77
23 4 0.13
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (21 bp):
TAAAGCCACTTAAAGACAGCG
Found at i:873848 original size:11 final size:11
Alignment explanation
Indices: 873825--873863 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
873815 GTAAATGCCA
*
873825 CTTAAAGAT-G
1 CTTAAAGGTGG
873835 CTTAAAGGTGG
1 CTTAAAGGTGG
873846 CTTAAAGGTGG
1 CTTAAAGGTGG
873857 CTTAAAG
1 CTTAAAG
873864 AAGTTTGGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.28
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:873949 original size:10 final size:11
Alignment explanation
Indices: 873934--873973 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
873924 GGTCGTATAG
*
873934 CCTTTAAG-CT
1 CCTTTAAGCCA
*
873944 CCTTTAAGTCA
1 CCTTTAAGCCA
873955 CCTTTAAGCCA
1 CCTTTAAGCCA
873966 CCTTTAAG
1 CCTTTAAG
873974 GACTTGCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.35
Consensus pattern (11 bp):
CCTTTAAGCCA
Found at i:875296 original size:13 final size:13
Alignment explanation
Indices: 875278--875305 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
875268 AGTTCCTCTC
875278 TACTTAGCAGGTT
1 TACTTAGCAGGTT
875291 TACTTAGCAGGTT
1 TACTTAGCAGGTT
875304 TA
1 TA
875306 GACTGTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (13 bp):
TACTTAGCAGGTT
Found at i:875489 original size:21 final size:21
Alignment explanation
Indices: 875463--875675 Score: 200
Period size: 21 Copynumber: 10.1 Consensus size: 21
875453 TTGACAGATT
* *
875463 TGTAAATTTCACACTTTAAAG
1 TGTAAAATTCACACTTTAAAC
875484 TGTAAAATTCACACTTTAATA-
1 TGTAAAATTCACACTTTAA-AC
*
875505 TGTAAAATTTACACTTTAATA-
1 TGTAAAATTCACACTTTAA-AC
* *
875526 TGTAAATTTTACAC-TTAAATC
1 TGTAAAATTCACACTTTAAA-C
* *
875547 TGTAAAATTTACACTTTAATC
1 TGTAAAATTCACACTTTAAAC
* * * *
875568 TGTATAATTCACCCTTTTAAG
1 TGTAAAATTCACACTTTAAAC
* * *
875589 TTTAAAATTCACACTGTAAAG
1 TGTAAAATTCACACTTTAAAC
*
875610 TGTAAAATTCACACTTTAATC
1 TGTAAAATTCACACTTTAAAC
*
875631 TGT-AAATTCTACACTTTAATC
1 TGTAAAATTC-ACACTTTAAAC
* *
875652 TGTAAAATTCACGCTTTAATC
1 TGTAAAATTCACACTTTAAAC
875673 TGT
1 TGT
875676 CAATTTTACA
Statistics
Matches: 165, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.01
20 10 0.06
21 143 0.87
22 11 0.07
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.40
Consensus pattern (21 bp):
TGTAAAATTCACACTTTAAAC
Found at i:875522 original size:42 final size:42
Alignment explanation
Indices: 875466--875686 Score: 234
Period size: 42 Copynumber: 5.2 Consensus size: 42
875456 ACAGATTTGT
* *
875466 AAATTTCACACTTTAAAGTGTAAAATTCACACTTTAATATGTA
1 AAATTT-ACACTTTAAACTGTAAAATTCACACTTTAATCTGTA
* * *
875509 AAATTTACACTTTAATA-TGTAAATTTTACACTTAAATCTGTA
1 AAATTTACACTTTAA-ACTGTAAAATTCACACTTTAATCTGTA
* * *
875551 AAATTTACACTTTAATCTGTATAATTCACCCTTTTAAGT-T-TA
1 AAATTTACACTTTAAACTGTAAAATTCACAC-TTTAA-TCTGTA
* * *
875593 AAATTCACACTGTAAAGTGTAAAATTCACACTTTAATCTGT-
1 AAATTTACACTTTAAACTGTAAAATTCACACTTTAATCTGTA
* * *
875634 AAATTCTACACTTTAATCTGTAAAATTCACGCTTTAATCTGTC
1 AAATT-TACACTTTAAACTGTAAAATTCACACTTTAATCTGTA
*
875677 AATTTTACAC
1 AAATTTACAC
875687 ATTTTTCTGT
Statistics
Matches: 148, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.01
41 11 0.07
42 119 0.80
43 16 0.11
44 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (42 bp):
AAATTTACACTTTAAACTGTAAAATTCACACTTTAATCTGTA
Found at i:875562 original size:63 final size:61
Alignment explanation
Indices: 875462--875663 Score: 228
Period size: 63 Copynumber: 3.2 Consensus size: 61
875452 CTTGACAGAT
* * *
875462 TTGTAAATTTCACACTTTAAAGTGTAAAATTCACACTTTAATATGTAAAATTTACACTTTAA
1 TTGTAAAATTCACAC-TTAAACTGTAAAATTCACACTTTAATCTGTAAAATTTACACTTTAA
* * * * * *
875524 TATGTAAATTTTACACTTAAATCTGTAAAATTTACACTTTAATCTGTATAATTCACCCTTTTAA
1 T-TGTAAAATTCACACTTAAA-CTGTAAAATTCACACTTTAATCTGTAAAATTTACAC-TTTAA
*
875588 GTT-TAAAATTCACACTGTAAAGTGTAAAATTCACACTTTAATCTGT-AAATTCTACACTTTAA
1 -TTGTAAAATTCACACT-TAAACTGTAAAATTCACACTTTAATCTGTAAAATT-TACACTTTAA
875650 TCTGTAAAATTCAC
1 T-TGTAAAATTCAC
875664 GCTTTAATCT
Statistics
Matches: 118, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
61 1 0.01
62 16 0.14
63 90 0.76
64 10 0.08
65 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.40
Consensus pattern (61 bp):
TTGTAAAATTCACACTTAAACTGTAAAATTCACACTTTAATCTGTAAAATTTACACTTTAA
Found at i:881705 original size:11 final size:11
Alignment explanation
Indices: 881689--881714 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
881679 GACAATCATA
881689 TGTTACATAAG
1 TGTTACATAAG
881700 TGTTACATAAG
1 TGTTACATAAG
881711 TGTT
1 TGTT
881715 TATGACTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (11 bp):
TGTTACATAAG
Found at i:886042 original size:165 final size:165
Alignment explanation
Indices: 885155--886115 Score: 1062
Period size: 166 Copynumber: 5.9 Consensus size: 165
885145 TGTGATTTTG
* * * * * * * *
885155 CAAACTTGAAT-TGACACTACCCGAGGATGCCTCTACACAAGTTTAAGCTTTTCTGGCCAAATAG
1 CAAACTTGAATCT-ACACTATCTGAGGATGCTTCCACTCAAATTTGAGC-TTTCTGGCCTAATAG
* * * * * ** *
885219 TCTTTAAAAAGAAGATTTTGAAAGATTTTCTCTATATATTCCTAAGTAAAAATCCATCCCCCCAT
64 TTTTTGAAAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAAT
* * * * *
885284 TGTGGCCTCACCCTA-CCCC-TGGACTATTATTTAAA
129 TGTGGCCCCACCCTACCCCCAGGGACCATGATTTGAA
* * * * *
885319 CAAACTTGAATCTATA-TGATCTGGGGATGCTTCCACTAAAATTTGGGCTTCCTGGCCTAATAG-
1 CAAACTTGAATCTACACT-ATCTGAGGATGCTTCCACTCAAATTTGAGCTTTCTGGCCTAATAGT
* * * * * *
885382 TTTTGAGAAGTAGACTTTTAAAGATTGTCTCTCTATA----TA---AAAA-TTTATCCCCC-ATT
65 TTTTGAAAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAATT
*
885438 GTGGCCCCGCCCTACCCCCAGGGACCATGATTTGAA
130 GTGGCCCCACCCTACCCCCAGGGACCATGATTTGAA
* * * * * * *
885474 CAAACTTGAATCTATATTATCTGAGGATGGTTACACGCCAATTTGAGCTTTCTTGGCCAAATAGT
1 CAAACTTGAATCTACACTATCTGAGGATGCTTCCACTCAAATTTGAGCTTTC-TGGCCTAATAGT
* * * * * *
885539 TTTT-AAAAGAA-ATTTTTTAAAAGATTGTCTCTATATATTCCAATATAAAAATTTATCCCGCAA
65 TTTTGAAAAGAAGA-TTTTT-AAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAA
* *
885602 TTGTGGCCCCAGCCTACCCCCGGGGACCATGATTTGAA
128 TTGTGGCCCCACCCTACCCCCAGGGACCATGATTTGAA
* *
885640 CAAACCTGAATCTACACTATCTGAGGATGCTTCCACTCAAATTTGAGCTTTTCTGGCCTAACAGT
1 CAAACTTGAATCTACACTATCTGAGGATGCTTCCACTCAAATTTGAGC-TTTCTGGCCTAATAGT
* * *
885705 TTTTGAAAAGAAGATTTTTAAAGATTTTCTCTATATATTTCT-TAGTAACACTTGATCCCACAAT
65 TTTTGAAAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTAT-GTAAAACTTGATCCCCCAAT
** *
885769 TGTGGCCCCACCCTATTCTCAGGGACCATGATTTGAA
129 TGTGGCCCCACCCTACCCCCAGGGACCATGATTTGAA
* * *
885806 CAAACTTGAATCTACACT-TCCTGAGGATGCTTCCATTCAAATTTGAGCTTTTCTTGCCTAACAG
1 CAAACTTGAATCTACACTAT-CTGAGGATGCTTCCACTCAAATTTGAGC-TTTCTGGCCTAATAG
*
885870 TTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAAT
64 TTTTTGAAAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAAT
**
885935 TGTGGCCCCACCCT-CCCCCTTGGACCATGATTTGAA
129 TGTGGCCCCACCCTACCCCCAGGGACCATGATTTGAA
* * ** *
885971 CAAACTTGAATCTACACTA-CATGAGGATGCTCCCATTTTAATTTGAGTCTTTCTGGCCTGATAG
1 CAAACTTGAATCTACACTATC-TGAGGATGCTTCCACTCAAATTTGAG-CTTTCTGGCCTAATAG
*
886035 TTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAAT
64 TTTTTGAAAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAAT
886100 TGTGGCCCCACCCTAC
129 TGTGGCCCCACCCTAC
886116 TCCCGGAAAC
Statistics
Matches: 682, Mismatches: 87, Indels: 54
0.83 0.11 0.07
Matches are distributed among these distances:
153 15 0.02
154 12 0.02
155 59 0.09
156 20 0.03
157 21 0.03
158 2 0.00
161 1 0.00
162 29 0.04
163 14 0.02
164 38 0.06
165 161 0.24
166 292 0.43
167 17 0.02
168 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (165 bp):
CAAACTTGAATCTACACTATCTGAGGATGCTTCCACTCAAATTTGAGCTTTCTGGCCTAATAGTT
TTTGAAAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAATTG
TGGCCCCACCCTACCCCCAGGGACCATGATTTGAA
Found at i:886130 original size:331 final size:326
Alignment explanation
Indices: 885155--886131 Score: 1104
Period size: 331 Copynumber: 3.0 Consensus size: 326
885145 TGTGATTTTG
* * * * * * *
885155 CAAACTTGAAT-TGACACTACCCGAGGATGCCTCTACACAAGTTTAAGCTTTTCTGGCCAAATAG
1 CAAACTTGAATCT-ACACTTCCTGAGGATGCTTCCACACAAATTTGAGCTTTTCTTGCCAAATAG
* * * * *
885219 TCTTTAAAAAGAAGATTTTGAAAGATTTTCTCTATATATTCCTAAGTAAAAATCCATCCCCCCAT
65 T-TTTTAAAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATTCATCCCCCAAT
* * * * * * *
885284 TGTGGCCTCACCCTACCCCTGGACTATTATTTAAACAAACTTGAATCTATA-TGATCTGGGGATG
129 TGTGGCCCCACCCTCCCCCTGGACCATGATTTGAACAAACTTGAATCTACACT-ATCTGAGGATG
* * * * *
885348 CTTCCACTAAAATTTGGGCTTCCTGGCCTAATAG-TTTTGAGAAGTAGACTTTTAAAGATTGTCT
193 CTTCCACTAAAATTTGAGCTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCT
* * * *
885412 CTCTATA---TA---AAAA-TTTATCCCCC-ATTGTGGCCCCGCCCTACCCCCAGGGACCATGAT
258 CTATATATTCTATGTAAAACTTGATCCCCCAATTGTGGCCCCACCCTACTCCC-GGGACCATGAT
885469 TTGAA
322 TTGAA
* * * * * *
885474 CAAACTTGAATCTATA-TTATCTGAGGATGGTTACACGCCAATTTGAGC-TTTCTTGGCCAAATA
1 CAAACTTGAATCTACACTT-CCTGAGGATGCTTCCACACAAATTTGAGCTTTTCTT-GCCAAATA
* * * * *
885537 GTTTTTAAAAGAA-ATTTTTTAAAAGATTGTCTCTATATATTCCAATATAAAAATTTATCCCGCA
64 GTTTTTAAAAGAAGA-TTTTT-AAAGATTTTCTCTATATATTCCTATGTAAAAATTCATCCCCCA
* * *
885601 ATTGTGGCCCCAGCCTACCCCCGGGGACCATGATTTGAACAAACCTGAATCTACACTATCTGAGG
127 ATTGTGGCCCCACCCT-CCCCC-TGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGG
* * *
885666 ATGCTTCCACTCAAATTTGAGCTTTTCTGGCCTAACAGTTTTTGAAAAGAAGATTTTTAAAGATT
190 ATGCTTCCACTAAAATTTGAGC-TTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATT
* * * *
885731 TTCTCTATATATTTCT-TAGTAACACTTGATCCCACAATTGTGGCCCCACCCTATTCTCAGGGAC
254 TTCTCTATATA-TTCTAT-GTAAAACTTGATCCCCCAATTGTGGCCCCACCCTACTC-CCGGGAC
885795 CATGATTTGAA
316 CATGATTTGAA
** * *
885806 CAAACTTGAATCTACACTTCCTGAGGATGCTTCCATTCAAATTTGAGCTTTTCTTGCCTAACAGT
1 CAAACTTGAATCTACACTTCCTGAGGATGCTTCCACACAAATTTGAGCTTTTCTTGCCAAATAGT
* * *
885871 TTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAATT
66 TTTT-AAAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATTCATCCCCCAATT
885936 GTGGCCCCACCCTCCCCCTTGGACCATGATTTGAACAAACTTGAATCTACACTA-CATGAGGATG
130 GTGGCCCCACCCTCCCCC-TGGACCATGATTTGAACAAACTTGAATCTACACTATC-TGAGGATG
* * ** *
886000 CTCCCATTTTAATTTGAGTCTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTC
193 CTTCCACTAAAATTTGAG-CTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTC
*
886065 TCTATATATTCCTATGTAAAACTTGATCCCCCAATTGTGGCCCCACCCTACTCCCGGAAACCATG
257 TCTATATATT-CTATGTAAAACTTGATCCCCCAATTGTGGCCCCACCCTACTCCCGG-GACCATG
886130 AT
320 AT
886132 CAACTGATGA
Statistics
Matches: 547, Mismatches: 81, Indels: 48
0.81 0.12 0.07
Matches are distributed among these distances:
317 1 0.00
318 20 0.04
319 91 0.17
320 5 0.01
321 53 0.10
322 14 0.03
323 32 0.06
327 1 0.00
330 9 0.02
331 163 0.30
332 137 0.25
333 20 0.04
334 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (326 bp):
CAAACTTGAATCTACACTTCCTGAGGATGCTTCCACACAAATTTGAGCTTTTCTTGCCAAATAGT
TTTTAAAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATTCATCCCCCAATTG
TGGCCCCACCCTCCCCCTGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGGATGCTT
CCACTAAAATTTGAGCTTTCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTA
TATATTCTATGTAAAACTTGATCCCCCAATTGTGGCCCCACCCTACTCCCGGGACCATGATTTGA
A
Found at i:891026 original size:42 final size:42
Alignment explanation
Indices: 890980--891114 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 42
890970 TTCGACACTG
** *
890980 TATTACATGGGGCGAATGTATCCTTACATTATGTCAACATTT
1 TATTACATGTCGCGAATATATCCTTACATTATGTCAACATTT
** * ***
891022 TATTACATGCTTTC-AATATATCCTTACATTATATCAACACCG
1 TATTACATG-TCGCGAATATATCCTTACATTATGTCAACATTT
* * * * * *
891064 CAGTACGTATCGCGATTCTATCCTTACATTATGTCAACATTT
1 TATTACATGTCGCGAATATATCCTTACATTATGTCAACATTT
891106 TATTACATG
1 TATTACATG
891115 ATATCAATGC
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:0.30, C:0.21, G:0.11, T:0.39
Consensus pattern (42 bp):
TATTACATGTCGCGAATATATCCTTACATTATGTCAACATTT
Found at i:891038 original size:84 final size:84
Alignment explanation
Indices: 890950--891114 Score: 204
Period size: 84 Copynumber: 2.0 Consensus size: 84
890940 CAACCAAAGG
* * * * * * * *
890950 TCAATACATCATGACATTATTTCGACACTGTATTACATGGGGCGAATGTATCCTTACATTATGTC
1 TCAATACATCATGACATTATATCAACACCGCAGTACATAGCGCGAATCTATCCTTACATTATGTC
891015 AACATTTTATTACATGCTT
66 AACATTTTATTACATGCTT
* * * * * *
891034 TCAATATATCCTTACATTATATCAACACCGCAGTACGTATCGCGATTCTATCCTTACATTATGTC
1 TCAATACATCATGACATTATATCAACACCGCAGTACATAGCGCGAATCTATCCTTACATTATGTC
891099 AACATTTTATTACATG
66 AACATTTTATTACATG
891115 ATATCAATGC
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 67 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (84 bp):
TCAATACATCATGACATTATATCAACACCGCAGTACATAGCGCGAATCTATCCTTACATTATGTC
AACATTTTATTACATGCTT
Found at i:891113 original size:21 final size:20
Alignment explanation
Indices: 891087--891155 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 20
891077 GATTCTATCC
*
891087 TTACATTATGTCAACATTTTA
1 TTACATTATATCAACA-TTTA
*
891108 TTACATGATATCAATGCATTT-
1 TTACATTATATCAA--CATTTA
*
891129 TTACATTTTATCAACACTTTA
1 TTACATTATATCAACA-TTTA
891150 TTACAT
1 TTACAT
891156 GGTGTAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.05
20 3 0.08
21 30 0.75
22 3 0.08
23 2 0.05
ACGTcount: A:0.33, C:0.16, G:0.04, T:0.46
Consensus pattern (20 bp):
TTACATTATATCAACATTTA
Found at i:891212 original size:21 final size:21
Alignment explanation
Indices: 891178--891244 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
891168 TCGTTTTATT
891178 ATGTCA-AACCTTTATAACTTG
1 ATGTCATAA-CTTTATAACTTG
* *
891199 ATGTCATAAGTTTATGACGTT-
1 ATGTCATAACTTTATAAC-TTG
* * *
891220 ATGTCTTAACTTAATAACGTG
1 ATGTCATAACTTTATAACTTG
891241 ATGT
1 ATGT
891245 GAATACGTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
20 1 0.03
21 31 0.86
22 4 0.11
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (21 bp):
ATGTCATAACTTTATAACTTG
Found at i:892609 original size:21 final size:22
Alignment explanation
Indices: 892585--892630 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
892575 ATTTAGTCTC
892585 AAAGTATTTAGTAGTTAAAA-T
1 AAAGTATTTAGTAGTTAAAAGT
892606 AAAGTATTTAGTAGTTAAAAGT
1 AAAGTATTTAGTAGTTAAAAGT
892628 AAA
1 AAA
892631 CGTTGCTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (22 bp):
AAAGTATTTAGTAGTTAAAAGT
Found at i:893927 original size:21 final size:20
Alignment explanation
Indices: 893901--893969 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 20
893891 TATTTACACC
*
893901 ATGTAATAAAGTGTTGATAAA
1 ATGTAATAAA-TGTTGATATA
*
893922 ATGTAA-AAATGCATTGATATC
1 ATGTAATAAATG--TTGATATA
*
893943 ATGTAATAAAATGTTGACATA
1 ATGTAAT-AAATGTTGATATA
893964 ATGTAA
1 ATGTAA
893970 GGATAGAATC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.05
20 3 0.08
21 30 0.75
23 5 0.12
ACGTcount: A:0.46, C:0.04, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGTAATAAATGTTGATATA
Found at i:894022 original size:21 final size:21
Alignment explanation
Indices: 893998--894058 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
893988 TACTGCGGTG
893998 TTGATATAATGTAAGGATATA
1 TTGATATAATGTAAGGATATA
* ** * *
894019 TTGATATCATGTAATAAAATG
1 TTGATATAATGTAAGGATATA
*
894040 TTGACATAATGTAAGGATA
1 TTGATATAATGTAAGGATA
894059 CATTCGCCCC
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.36
Consensus pattern (21 bp):
TTGATATAATGTAAGGATATA
Found at i:894042 original size:42 final size:42
Alignment explanation
Indices: 893900--894058 Score: 140
Period size: 42 Copynumber: 3.8 Consensus size: 42
893890 ATATTTACAC
* * * ** **
893900 CATGTAATAAAGTGTTGATAAAATGTAAAAATGCATTGATAT
1 CATGTAATAAAATGTTGACATAATGTAAGGATAAATTGATAT
* **
893942 CATGTAATAAAATGTTGACATAATGTAAGGATAGAATCGCGAT
1 CATGTAATAAAATGTTGACATAATGTAAGGATA-AATTGATAT
* * **** * *
893985 -ACGTACTGCGGTGTTGATATAATGTAAGGATATATTGATAT
1 CATGTAATAAAATGTTGACATAATGTAAGGATAAATTGATAT
894026 CATGTAATAAAATGTTGACATAATGTAAGGATA
1 CATGTAATAAAATGTTGACATAATGTAAGGATA
894059 CATTCGCCCC
Statistics
Matches: 87, Mismatches: 28, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
41 5 0.06
42 77 0.89
43 5 0.06
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (42 bp):
CATGTAATAAAATGTTGACATAATGTAAGGATAAATTGATAT
Found at i:894072 original size:42 final size:42
Alignment explanation
Indices: 893942--894076 Score: 112
Period size: 42 Copynumber: 3.2 Consensus size: 42
893932 GCATTGATAT
* * *
893942 CATGTAATAAAATGTTGACATAATGTAAGGATAGAATCGCGA
1 CATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCAA
* * * **** * *
893984 TACGTACTGCGGTGTTGATATAATGTAAGGATATATT-G-ATA
1 CATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCA-A
**
894025 TCATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCCC
1 -CATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCAA
894068 CATGTAATA
1 CATGTAATA
894077 CAGTGTCGAA
Statistics
Matches: 67, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
41 2 0.03
42 64 0.96
43 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (42 bp):
CATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCAA
Found at i:894106 original size:84 final size:84
Alignment explanation
Indices: 893934--894093 Score: 221
Period size: 84 Copynumber: 1.9 Consensus size: 84
893924 GTAAAAATGC
* * * * * *
893934 ATTGATATCATGTAATAAAATGTTGACATAATGTAAGGATAGAATCGCGATACGTACTGCGGTGT
1 ATTGATATCATGTAATAAAATGTTGACATAATGTAAGGATACAATCGCCACACGTAATACAGTGT
* *
893999 TGATATAATGTAAGGATAT
66 CGAAATAATGTAAGGATAT
* * *
894018 ATTGATATCATGTAATAAAATGTTGACATAATGTAAGGATACATTCGCCCCATGTAATACAGTGT
1 ATTGATATCATGTAATAAAATGTTGACATAATGTAAGGATACAATCGCCACACGTAATACAGTGT
894083 CGAAATAATGT
66 CGAAATAATGT
894094 CATGATGTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 65 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (84 bp):
ATTGATATCATGTAATAAAATGTTGACATAATGTAAGGATACAATCGCCACACGTAATACAGTGT
CGAAATAATGTAAGGATAT
Found at i:894285 original size:20 final size:21
Alignment explanation
Indices: 894260--894303 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
894250 TTCACACCAC
*
894260 GTAATGG-ACTTTGACATAAT
1 GTAATGGTAATTTGACATAAT
894280 GTAATGGTAATTTGACATAAT
1 GTAATGGTAATTTGACATAAT
894301 GTA
1 GTA
894304 CCTATAGTCT
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:0.07, G:0.20, T:0.36
Consensus pattern (21 bp):
GTAATGGTAATTTGACATAAT
Found at i:897832 original size:4 final size:4
Alignment explanation
Indices: 897823--897929 Score: 115
Period size: 4 Copynumber: 26.8 Consensus size: 4
897813 GCAATTTTTT
* * * * * * * *
897823 TCTC TCTC TCTC TATC TCAC TTTC TCTT TCTC TCTG TCTG TCTG TCTG
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * *
897871 TCTG TCTG TCCC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
897919 TCTC TCTC TCT
1 TCTC TCTC TCT
897930 GATAAGTACT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 91 1.00
ACGTcount: A:0.02, C:0.42, G:0.06, T:0.50
Consensus pattern (4 bp):
TCTC
Found at i:911672 original size:35 final size:35
Alignment explanation
Indices: 911608--911690 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 35
911598 GGTACAATCA
* * * *
911608 GGTGTCTTACGGTAGATAATCTATTGGAAC-ATTT
1 GGTGTATTACGGTAGACAATCTATAGGAACAAGTT
* *
911642 AGGTTTATTACGGTAGACAATTTATAGGAACAAGTT
1 -GGTGTATTACGGTAGACAATCTATAGGAACAAGTT
911678 GGTGTATTACGGT
1 GGTGTATTACGGT
911691 GTACTGTCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 37 0.93
36 3 0.08
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (35 bp):
GGTGTATTACGGTAGACAATCTATAGGAACAAGTT
Found at i:911764 original size:80 final size:80
Alignment explanation
Indices: 911665--911817 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
911655 TAGACAATTT
** * * * *
911665 ATAGGAACAAGTTGGTGTATTACGGTGTACTGTCTA-TAAAATTGGTACAGACAGGTGTATCATT
1 ATAGGAACAAGTTAATGTATAACGGTGTACCGTC-AGTAAAATAGGTACAGACAGGTGTATCATG
911729 GTAGACAATATATCGG
65 GTAGACAATATATCGG
* *
911745 ATAGGAACATGTTAATGTATAACGGTGTACCGTCAGTAAAATAGGTACAGACAGGTGTATTATGG
1 ATAGGAACAAGTTAATGTATAACGGTGTACCGTCAGTAAAATAGGTACAGACAGGTGTATCATGG
911810 TAGACAAT
66 TAGACAAT
911818 CTTTAGGAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.02
80 63 0.98
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (80 bp):
ATAGGAACAAGTTAATGTATAACGGTGTACCGTCAGTAAAATAGGTACAGACAGGTGTATCATGG
TAGACAATATATCGG
Found at i:911837 original size:35 final size:35
Alignment explanation
Indices: 911785--912042 Score: 399
Period size: 35 Copynumber: 7.4 Consensus size: 35
911775 CGTCAGTAAA
*
911785 ATAGGTACAGACAGGTGTATTATGGTAGACAATCT
1 ATAGGAACAGACAGGTGTATTATGGTAGACAATCT
* *
911820 TTAGGAACAGACAGGTGTATCATGGTAGACAATCT
1 ATAGGAACAGACAGGTGTATTATGGTAGACAATCT
*
911855 ATAGGAACAGACAGGTGTATTACGGTAGACAATCT
1 ATAGGAACAGACAGGTGTATTATGGTAGACAATCT
* * *
911890 ATAGGAAAAGACAGGTGTACTATGGTATACAATCT
1 ATAGGAACAGACAGGTGTATTATGGTAGACAATCT
* * *
911925 ATTGAAACAGACAGTTGTATTATGGTAGACAATCT
1 ATAGGAACAGACAGGTGTATTATGGTAGACAATCT
* *
911960 ATAGGAACAGACAGGTGTATTACGGTAGACAAACT
1 ATAGGAACAGACAGGTGTATTATGGTAGACAATCT
*
911995 ATAGGAACAGACAGGTGTATTACGGTAGACAATCT
1 ATAGGAACAGACAGGTGTATTATGGTAGACAATCT
912030 ATAGGAACAGACA
1 ATAGGAACAGACA
912043 ATCTATAGGA
Statistics
Matches: 201, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 201 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (35 bp):
ATAGGAACAGACAGGTGTATTATGGTAGACAATCT
Found at i:912042 original size:52 final size:52
Alignment explanation
Indices: 911986--912091 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
911976 GTATTACGGT
*
911986 AGACAAACTATAGGAACAGACAGGTGTATTACGGTAGACAATCTATAGGAAC
1 AGACAAACTATAGGAACAGACAGGTGTATTACGGTAGACAATCTACAGGAAC
* *
912038 AGACAATCTATAGGAACAGACAGGTGTATTACGGTAGACAATCTCCAGGAAC
1 AGACAAACTATAGGAACAGACAGGTGTATTACGGTAGACAATCTACAGGAAC
912090 AG
1 AG
912092 GTACGTGTGT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.19
Consensus pattern (52 bp):
AGACAAACTATAGGAACAGACAGGTGTATTACGGTAGACAATCTACAGGAAC
Found at i:912043 original size:17 final size:17
Alignment explanation
Indices: 912021--912059 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
912011 GTATTACGGT
912021 AGACAATCTATAGGAAC
1 AGACAATCTATAGGAAC
912038 AGACAATCTATAGGAAC
1 AGACAATCTATAGGAAC
912055 AGACA
1 AGACA
912060 GGTGTATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.15
Consensus pattern (17 bp):
AGACAATCTATAGGAAC
Found at i:912049 original size:87 final size:87
Alignment explanation
Indices: 911951--912123 Score: 256
Period size: 87 Copynumber: 2.0 Consensus size: 87
911941 GTATTATGGT
* *
911951 AGACAATCTATAGGAACAGACAGGTGTATTACGGTAGACAAACTATAGGAACAGACAGGTGTATT
1 AGACAATCTATAGGAACAGACAGGTGTATTACGGTAGACAAACTACAGGAACAGACACGTGTATT
912016 ACGGTAGACAATCTATAGGAAC
66 ACGGTAGACAATCTATAGGAAC
* * ** *
912038 AGACAATCTATAGGAACAGACAGGTGTATTACGGTAGACAATCTCCAGGAACAGGTACGTGTGTT
1 AGACAATCTATAGGAACAGACAGGTGTATTACGGTAGACAAACTACAGGAACAGACACGTGTATT
***
912103 ACGGTATTTAATCTATAGGAA
66 ACGGTAGACAATCTATAGGAA
912124 AAGGTAGGTG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 76 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (87 bp):
AGACAATCTATAGGAACAGACAGGTGTATTACGGTAGACAAACTACAGGAACAGACACGTGTATT
ACGGTAGACAATCTATAGGAAC
Found at i:912077 original size:35 final size:35
Alignment explanation
Indices: 912038--912142 Score: 120
Period size: 35 Copynumber: 3.0 Consensus size: 35
912028 CTATAGGAAC
**
912038 AGACAATCTATAGGAACAGACAGGTGTATTACGGT
1 AGACAATCTATAGGAACAGGTAGGTGTATTACGGT
** * *
912073 AGACAATCTCCAGGAACAGGTACGTGTGTTACGGT
1 AGACAATCTATAGGAACAGGTAGGTGTATTACGGT
*** *
912108 ATTTAATCTATAGGAAAAGGTAGGTGTATTACGGT
1 AGACAATCTATAGGAACAGGTAGGTGTATTACGGT
912143 GTTCTGTCTA
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (35 bp):
AGACAATCTATAGGAACAGGTAGGTGTATTACGGT
Done.