Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold22
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: 1964558
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.31
Warning! 137786 characters in sequence are not A, C, G, or T
File 7 of 6
Found at i:1839554 original size:159 final size:160
Alignment explanation
Indices: 1839208--1839539 Score: 386
Period size: 160 Copynumber: 2.1 Consensus size: 160
1839198 GACAAGACAA
* * * * *
1839208 GCCTCGGGGAGGCTAAAAAAATATGAAAAATATCTGGAAAACACTAGTAAATTGTGTTTGTTCCA
1 GCCTCAGGGAGGCTAAACAAATATGAAAAATATCGGGAAAACACCAGTAAATTGTGTATGTTCCA
* * * *
1839273 GTGCAATGAGATCCACACCAGGGAGGCAAAAATTAAATATGAAAAATCTCAGGTAAACACAAGTA
66 GTGCAATGAGATCCACACCAGGGAGACAAAAATTAAATATGAAAAATATAAGGAAAACACAAGTA
* ** *
1839338 AATTGCGTTGATTCCAGTGCAATAAGATCT
131 AATTACACTGATTCCAGTGCAACAAGATCT
* *
1839368 GCCTCAGGGAGGCTAAACAAATCTGAAAAATCTCGGGAAAACACCAGTAAATTGTG-ATGATTCC
1 GCCTCAGGGAGGCTAAACAAATATGAAAAATATCGGGAAAACACCAGTAAATTGTGTATG-TTCC
* * * *
1839432 AGTGCAATGAGAT-C-CGCCTGTGAGAGACAAAACA-TAAA-ATGAAAATTATAATGAAAACACA
65 AGTGCAATGAGATCCACACCAG-G-GAGACAAAA-ATTAAATATGAAAAATATAAGGAAAACACA
* *
1839493 AGTAAATTATACTGATTCCAGTGCAACGAGATCT
127 AGTAAATTACACTGATTCCAGTGCAACAAGATCT
* *
1839527 GCTTCAGTGAGGC
1 GCCTCAGGGAGGC
1839540 AGTACAAATT
Statistics
Matches: 145, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
158 4 0.03
159 61 0.42
160 79 0.54
161 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (160 bp):
GCCTCAGGGAGGCTAAACAAATATGAAAAATATCGGGAAAACACCAGTAAATTGTGTATGTTCCA
GTGCAATGAGATCCACACCAGGGAGACAAAAATTAAATATGAAAAATATAAGGAAAACACAAGTA
AATTACACTGATTCCAGTGCAACAAGATCT
Found at i:1839566 original size:159 final size:159
Alignment explanation
Indices: 1839208--1839584 Score: 377
Period size: 159 Copynumber: 2.4 Consensus size: 159
1839198 GACAAGACAA
* * * * * * *
1839208 GCCTCGGGGAGGCTAAAAAAATATGAAAAATATCTGGAAAACACTAGTAAATTGTGTTTGTTCCA
1 GCCTCAGGGAGGCTAAACAAATCTGAAAAATCTCAGGAAAACACAAGTAAATTGTG-ATGTTCCA
* * * *
1839273 GTGCAATGAGATCCACACCAGGGAGGCAAAAATTAAATATGAAAAATCTCAGGTAAACACAAGTA
65 GTGCAATGAGATCCACACCAGGGAGACAAAAATTAAATATGAAAAATATAAGGAAAACACAAGTA
* ** *
1839338 AATTGCGTTGATTCCAGTGCAATAAGATCT
130 AATTACACTGATTCCAGTGCAACAAGATCT
* *
1839368 GCCTCAGGGAGGCTAAACAAATCTGAAAAATCTCGGGAAAACACCAGTAAATTGTGATGATTCCA
1 GCCTCAGGGAGGCTAAACAAATCTGAAAAATCTCAGGAAAACACAAGTAAATTGTGATG-TTCCA
* * * *
1839433 GTGCAATGAGAT-C-CGCCTGTGAGAGACAAAACA-TAAA-ATGAAAATTATAATGAAAACACAA
65 GTGCAATGAGATCCACACCAG-G-GAGACAAAA-ATTAAATATGAAAAATATAAGGAAAACACAA
* *
1839494 GTAAATTATACTGATTCCAGTGCAACGAGATCT
127 GTAAATTACACTGATTCCAGTGCAACAAGATCT
* * * * ** * * *
1839527 GCTTCAGTGAGGC-AGTACAAATTTGAAATTTTTTAGGAAAACACAAGTAAATTATGAT
1 GCCTCAGGGAGGCTA-AACAAATCTGAAAAATCTCAGGAAAACACAAGTAAATTGTGAT
1839585 AAAACTATGT
Statistics
Matches: 180, Mismatches: 32, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
158 5 0.03
159 95 0.53
160 79 0.44
161 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.24
Consensus pattern (159 bp):
GCCTCAGGGAGGCTAAACAAATCTGAAAAATCTCAGGAAAACACAAGTAAATTGTGATGTTCCAG
TGCAATGAGATCCACACCAGGGAGACAAAAATTAAATATGAAAAATATAAGGAAAACACAAGTAA
ATTACACTGATTCCAGTGCAACAAGATCT
Found at i:1840112 original size:54 final size:53
Alignment explanation
Indices: 1840030--1840140 Score: 206
Period size: 54 Copynumber: 2.1 Consensus size: 53
1840020 AAACAATGGC
1840030 TATGCTTAGTATATGTATAATAATAGATATTGCAGTAGTGTTACCCGTCAAAT
1 TATGCTTAGTATATGTATAATAATAGATATTGCAGTAGTGTTACCCGTCAAAT
1840083 NTATGCTTAGTATATGTATAATAATAGATATTGCAGTAGTGTTACCCGTCAAA-
1 -TATGCTTAGTATATGTATAATAATAGATATTGCAGTAGTGTTACCCGTCAAAT
1840136 TATGC
1 TATGC
1840141 CAAATTTCAA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 5 0.09
54 52 0.91
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.37
Consensus pattern (53 bp):
TATGCTTAGTATATGTATAATAATAGATATTGCAGTAGTGTTACCCGTCAAAT
Found at i:1841700 original size:23 final size:24
Alignment explanation
Indices: 1841670--1841715 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
1841660 CTAAGATAAA
1841670 TGATTTGT-ATGA-AAAAAAAATT
1 TGATTTGTAATGACAAAAAAAATT
*
1841692 TGATATTGTAATTACAAAAAAAAT
1 TGAT-TTGTAATGACAAAAAAAAT
1841716 CGGACCAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 4 0.20
24 3 0.15
25 9 0.45
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (24 bp):
TGATTTGTAATGACAAAAAAAATT
Found at i:1843965 original size:53 final size:53
Alignment explanation
Indices: 1843900--1844008 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
1843890 CTTTTTCTTT
1843900 ATTAAGGTCTTCCGTCTTCAGCGGAAGACCTTACTGTTTTTCTACGCGTTCTC
1 ATTAAGGTCTTCCGTCTTCAGCGGAAGACCTTACTGTTTTTCTACGCGTTCTC
*
1843953 ATTAAGGTCTTCCGTCTTCAGCGGAAGACCTTACTGTTTTTCTACGGGTTCTC
1 ATTAAGGTCTTCCGTCTTCAGCGGAAGACCTTACTGTTTTTCTACGCGTTCTC
1844006 ATT
1 ATT
1844009 CTTCTATATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (53 bp):
ATTAAGGTCTTCCGTCTTCAGCGGAAGACCTTACTGTTTTTCTACGCGTTCTC
Found at i:1844193 original size:66 final size:66
Alignment explanation
Indices: 1843948--1844208 Score: 280
Period size: 66 Copynumber: 3.9 Consensus size: 66
1843938 TTTCTACGCG
* * * * * * **
1843948 TTCTCATTAAGGTCTTCCGTCTTCAGCGGAAGACCTTAC-TGTTTTTCTACGGGTTCTCATTCTT
1 TTCTTATTAGGGTCTTCCGTCTTCAACGGAAGACCCT-CTTGTTATTCTACGGTTTCTTTTTCTT
1844012 CTA
65 -TA
* * * * *
1844015 -TATTATTAGGGTCTTCCGTTTTCAACGGAAGACCCTCTTGTTATTTTTCGGTTTCTTTTTATTA
1 TTCTTATTAGGGTCTTCCGTCTTCAACGGAAGACCCTCTTGTTATTCTACGGTTTCTTTTT-CT-
1844079 TTA
64 TTA
*
1844082 TT-TTTTTAGGGTCTTCCGT-TTCCAACGGAAGACCCTCTTGTTATTCTACGGTTTCTTTTTCTT
1 TTCTTATTAGGGTCTTCCGTCTT-CAACGGAAGACCCTCTTGTTATTCTACGGTTTCTTTTTCTT
1844145 TA
65 TA
* * *
1844147 TTCTTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCT-TCTATTATTCTTCGGTTTCTTTTTC
1 TTCTTATTAGGGTCTTCCGTCTTCAACGGAAGACCCTCT-TGTTATTCTACGGTTTCTTTTTC
1844209 AATTCTATTA
Statistics
Matches: 165, Mismatches: 21, Indels: 17
0.81 0.10 0.08
Matches are distributed among these distances:
65 7 0.04
66 99 0.60
67 57 0.35
68 2 0.01
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (66 bp):
TTCTTATTAGGGTCTTCCGTCTTCAACGGAAGACCCTCTTGTTATTCTACGGTTTCTTTTTCTTT
A
Found at i:1844198 original size:133 final size:133
Alignment explanation
Indices: 1843958--1844207 Score: 337
Period size: 133 Copynumber: 1.9 Consensus size: 133
1843948 TTCTCATTAA
* * *
1843958 GGTCTTCCGTCTTCAGCGGAAGACCTTACTGTTTTTCTACGGGTTCTCATTCTTCTATATTATTA
1 GGTCTTCCGTCTTCAACGGAAGACCCTACTGTTATTCTACGGGTTCTCATTCTTCTATATTATTA
* * *
1844023 GGGTCTTCCGTTTTCAACGGAAGACCCTCTTGTTATTTTTCGGTTTCTTTTTATTATTATTTTTT
66 GGGTCTTCCGTCTTCAACGGAAGACCCTCTTATTATTCTTCGGTTTCTTTTTATTATTATTTTTT
1844088 TAG
131 TAG
* ** *
1844091 GGTCTTCCGT-TTCCAACGGAAGACCCT-CTTGTTATTCTACGGTTTCTTTTTCTT-TATTCTTA
1 GGTCTTCCGTCTT-CAACGGAAGACCCTAC-TGTTATTCTACGGGTTCTCATTCTTCTA-TATTA
*
1844153 TTAGGGTCTTCCGTCTTCAGCGGAAGACCCT-TCTATTATTCTTCGGTTTCTTTTT
63 TTAGGGTCTTCCGTCTTCAACGGAAGACCCTCT-TATTATTCTTCGGTTTCTTTTT
1844208 CAATTCTATT
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
132 6 0.06
133 96 0.94
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (133 bp):
GGTCTTCCGTCTTCAACGGAAGACCCTACTGTTATTCTACGGGTTCTCATTCTTCTATATTATTA
GGGTCTTCCGTCTTCAACGGAAGACCCTCTTATTATTCTTCGGTTTCTTTTTATTATTATTTTTT
TAG
Found at i:1844222 original size:3 final size:3
Alignment explanation
Indices: 1844214--1844238 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1844204 TTTTCAATTC
1844214 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
1844239 CTTTTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1846209 original size:436 final size:433
Alignment explanation
Indices: 1845331--1846315 Score: 1300
Period size: 436 Copynumber: 2.3 Consensus size: 433
1845321 CGAGCTTGCC
* **
1845331 TTTGATATCAAGAAAAAGGGGCT-GACTCCTCAAATTAGGGGCCAAGGGGGCTCTAAAGTCTTCT
1 TTTGATATCAAGAAAAAGGGGCTGGCCT-CTCAAATTAGGGGCCAAAAGGGCTCT-AAGTCTT-T
*
1845395 TACAATAACTCTTTACTGAACAATAATTTGTTATTAGTTATATAAGCAAAAATATTCATTGTACA
63 TACAATAACTCTTTACTGAACAATAATTTGTTATTAATTATA-AAGCAAAAATATTCATTGTACA
* * *
1845460 GCTGTTTATCTATACAGTATCATACTAAAGTCATATGTTACGTAATAAGGGGTTTCAAGGGGCCA
127 GCTGTTCATCTATACAGTACCATACTAAAGTCATATATTACGTAATAAGGGGTTTCAAGGGGCCA
* * * * *
1845525 GAAGTTCAAAACTCTGATCGTTAATATCTGAAAAAGGAGAAATATTTTTAAAAGCAATGTAGAAC
192 GAAGCTCAAAACTATCATCATTAATATATGAAAAAGGAGAAATATTTTTAAAAGCAATGTAGAAC
** * ** * *
1845590 AAAAGTTGCTTAAAATGGTGTTCTTGTCAATATGCTACCTTAAATGCTTTTGTTTATGACCCCAT
257 AAAAGTTGCTTAAAATAATGTTCTTGACAATATGAAACC-TAAAAGCTTTTGTTTATGACCCCAG
* *
1845655 TTAGGAGTTAAAGGGTCGGCCCCTAAAACACATTCGTACAGATATCTCAAAAACGGTTAACATTT
321 TAAGGAGTTAAAGGGTCGGCCCCTAAAACACATTCGTACAGATATCTCAAAAACGGTTAACAATT
* *
1845720 CATGAACACTTGTTGAACAAAATATGTTTAAATTTGCAAGACCTTAAA
386 CATGAACACTTGTAGAACAAAATATGTTTAAATTAGCAAGACCTTAAA
1845768 TTTGATATCAAGAAAAAGGGGCTGGCCTCTCAAATTAGGGGCCAAAAGGGCTCTAATGTCTTTTA
1 TTTGATATCAAGAAAAAGGGGCTGGCCTCTCAAATTAGGGGCCAAAAGGGCTCTAA-GTCTTTT-
* *
1845833 ACAATAACTCTTTACTGAACAATATTTTGTTATTAATTATAGAAGCAAAAATGTTCATTGTACAG
64 ACAATAACTCTTTACTGAACAATAATTTGTTATTAATTATA-AAGCAAAAATATTCATTGTACAG
* *
1845898 CTGTTCATCTATACAGTGCCATACCTAAA-TCATATATTACGTAATTAGGGGTTTCAAGGGGCCA
128 CTGTTCATCTATACAGTACCATA-CTAAAGTCATATATTACGTAATAAGGGGTTTCAAGGGGCCA
1845962 GAA-CTCAAAACTATCATCATTAATATATGAAAAAGGAGAAATATTTTTAAAAGCAATGTAGAAC
192 GAAGCTCAAAACTATCATCATTAATATATGAAAAAGGAGAAATATTTTTAAAAGCAATGTAGAAC
* * * *
1846026 AAAAGTTG-TTCATAATAATGTTC-TGAACAGTATTAAACC-AAAAG-TTTTGTTGCTAGTGGCC
257 AAAAGTTGCTT-AAAATAATGTTCTTG-ACAATATGAAACCTAAAAGCTTTTGTT--TA-TGACC
* * * * * *
1846087 CCGGTAAGGGGTTAAAGGGTCGGCCCCTAAAACACATTTGTACAGATATCTCGAGAACGGTTTAC
317 CCAGTAAGGAGTTAAAGGGTCGGCCCCTAAAACACATTCGTACAGATATCTCAAAAACGGTTAAC
* * **
1846152 AATTCATGAACACTTGTAGAACAAAATATGTTTATATTAGCGAGACCTTTTA
382 AATTCATGAACACTTGTAGAACAAAATATGTTTAAATTAGCAAGACCTTAAA
* * ** *
1846204 TTTGATATCAAGAAAAAGGGGCTGGCCCCACAAATTAGGGGGTACAAGGGCTACTAAGTCTTTTT
1 TTTGATATCAAGAAAAAGGGGCTGGCCTCTCAAATTAGGGGCCAAAAGGGCT-CTAAGTC-TTTT
** * * ** *
1846269 ATGATAACTCTTTTCTGACCAATAATTTAATATTCATTATAAAGCAA
64 ACAATAACTCTTTACTGAACAATAATTTGTTATTAATTATAAAGCAA
1846316 CAAAGCAGCT
Statistics
Matches: 482, Mismatches: 55, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
433 7 0.01
434 4 0.01
435 12 0.02
436 274 0.57
437 177 0.37
438 8 0.02
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (433 bp):
TTTGATATCAAGAAAAAGGGGCTGGCCTCTCAAATTAGGGGCCAAAAGGGCTCTAAGTCTTTTAC
AATAACTCTTTACTGAACAATAATTTGTTATTAATTATAAAGCAAAAATATTCATTGTACAGCTG
TTCATCTATACAGTACCATACTAAAGTCATATATTACGTAATAAGGGGTTTCAAGGGGCCAGAAG
CTCAAAACTATCATCATTAATATATGAAAAAGGAGAAATATTTTTAAAAGCAATGTAGAACAAAA
GTTGCTTAAAATAATGTTCTTGACAATATGAAACCTAAAAGCTTTTGTTTATGACCCCAGTAAGG
AGTTAAAGGGTCGGCCCCTAAAACACATTCGTACAGATATCTCAAAAACGGTTAACAATTCATGA
ACACTTGTAGAACAAAATATGTTTAAATTAGCAAGACCTTAAA
Found at i:1847350 original size:31 final size:31
Alignment explanation
Indices: 1847312--1847389 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
1847302 TTCGGCTTTT
* * *
1847312 TTTTGTTAAGTTGTTCTTGAAATCAGGAGGA
1 TTTTGTTAAGTCGTACTTAAAATCAGGAGGA
***
1847343 TTTTGTTAAGTCGTACTTAAAATCATTCGGA
1 TTTTGTTAAGTCGTACTTAAAATCAGGAGGA
1847374 TTTTGTTAAGTCGTAC
1 TTTTGTTAAGTCGTAC
1847390 CAGGAATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.44
Consensus pattern (31 bp):
TTTTGTTAAGTCGTACTTAAAATCAGGAGGA
Found at i:1847402 original size:31 final size:31
Alignment explanation
Indices: 1847340--1847407 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
1847330 GAAATCAGGA
* *
1847340 GGATTTTGTTAAGTCGTACTTAAAATCATTC
1 GGATTTTGTTAAGTCGTACTCAAAATAATTC
*
1847371 GGATTTTGTTAAGTCGTAC-CAGGAATAATTC
1 GGATTTTGTTAAGTCGTACTCA-AAATAATTC
1847402 -GATTTT
1 GGATTTT
1847408 TTCATCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 7 0.21
31 26 0.79
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (31 bp):
GGATTTTGTTAAGTCGTACTCAAAATAATTC
Found at i:1848822 original size:437 final size:435
Alignment explanation
Indices: 1847972--1849066 Score: 1681
Period size: 436 Copynumber: 2.5 Consensus size: 435
1847962 TTCTTTTAAA
* * * * * * * * *
1847972 ATCAAGAAAAAGGGGCTAGCCCCTCACATAAGGGGACTAAACGGCTCTAAAGTCTTTAATATGTA
1 ATCAAGAAAAAGGGGCTGGCCCCTTAAATTA-GGGACCAAAGGGCTCTAAAGTCTTTTATCTATA
* ** * *
1848037 GCCCTTTACTAAACGATATTTTGTGAAATGTTATA-TAAGCAAATATGTTCATCTCACAGTTATG
65 GCCCTTTACTGAGGGATATTTTGTAAAATGTTATAGT-AGCAAATATGTTTATCTCACAGTTATG
* * * * * *
1848101 TATCCAGGCAATGTAATGATTTT-CCATGTGTTAGGTAATTAAGGGTTTTTAGGGGCCAAAAGTC
129 TATCTAAGCGATGTAATGATTTTATCATGTGTTATGTAATTAGGGGTTTTTAGGGGCCAAAAGTC
* * *
1848165 CAAAATTTTGATCACCCATATCTCAGAAAGGAAAACTATTTTGAAATGCAGTACAGAAGAAAATT
194 CAAAATTCTGATCACCCATATCTCAGAAAGGAAAAATATTTTGAAATGCAGTACAGAAGAAAAGT
* * **
1848230 TGTTCAAATGAAGTTTTTAACAATATGCAATTTTCAAAATTTCGTTAAACGGCCCCTATAAGGAG
259 TGTTCAAATGAAGTTCTTAACAAAATGCAACCTTCAAAATTTCGTTAAACGGCCCCTATAAGGAG
* * * * * *
1848295 ATAAGGGACCAGCCCCTAAAATCTTCTTTCTCATATATCTCCAGAACGGTAACGAATTTGTAAAC
324 ATAAGGGACCAGCCCCTAAAACCTTCTTTCTCATATATCTCAAAAACGGTAACAAATTTCTAAAA
1848360 ACTTGTTAAACAAAATGTGTTTAGAATTAAGTGACCTTTTATTTGAT
389 ACTTGTTAAACAAAATGTGTTTAGAATTAAGTGACCTTTTATTTGAT
*
1848407 ATCAAGAAAAAGGGGCTGGCCCCTTAAATTAGGGAACCAAAGGGCTCTAAATTCTTTTATCTATA
1 ATCAAGAAAAAGGGGCTGGCCCCTTAAATTAGGG-ACCAAAGGGCTCTAAAGTCTTTTATCTATA
1848472 GCCCTTTACTGAGGGATATTTTGTAAAATGTTATAGTAGCAAATATGTTTATCTCACAGTTATGT
65 GCCCTTTACTGAGGGATATTTTGTAAAATGTTATAGTAGCAAATATGTTTATCTCACAGTTATGT
*
1848537 ATCTAAGCGATGTAATGATTTTATCATGTGTTATGTAATTTGGGGTTTTTAGGGGCCAAAAGTCC
130 ATCTAAGCGATGTAATGATTTTATCATGTGTTATGTAATTAGGGGTTTTTAGGGGCCAAAAGTCC
* *
1848602 AAAACTCTGATCACCCATATCTAAGAAAGGAAAAATATTTTGAAATGCAGTACAGAAGAAAAGTT
195 AAAATTCTGATCACCCATATCTCAGAAAGGAAAAATATTTTGAAATGCAGTACAGAAGAAAAGTT
* *
1848667 GTTCAAAATGATGTTCTTAACAAAATGCAACCTTCAAAATTTTGTTAAACGGCCCCTATAAGGAG
260 GTTC-AAATGAAGTTCTTAACAAAATGCAACCTTCAAAATTTCGTTAAACGGCCCCTATAAGGAG
* *
1848732 ATAAGGGATCGGCCCCTAAAACCTTCTTTCTCATATATCTCAAAAACGGTAACAAATTTCTAAAA
324 ATAAGGGACCAGCCCCTAAAACCTTCTTTCTCATATATCTCAAAAACGGTAACAAATTTCTAAAA
** *
1848797 ACTTGTTGGACAAAATTTGTTTAGAATTAAGTGACCTTTTATTTGAT
389 ACTTGTTAAACAAAATGTGTTTAGAATTAAGTGACCTTTTATTTGAT
* * *
1848844 ATCAAGAAAAAGGGGCTGGTCCCTTAAATTAAGGATCAAAGGGCTCTAAAGTCTTTTATCTATAG
1 ATCAAGAAAAAGGGGCTGGCCCCTTAAATTAGGGACCAAAGGGCTCTAAAGTCTTTTATCTATAG
* *
1848909 CCCTTTACTGAGGGATATTTTGTAAAATGTTATAGAAGCAAATATGGTTATCTCACAGTTATGTA
66 CCCTTTACTGAGGGATATTTTGTAAAATGTTATAGTAGCAAATATGTTTATCTCACAGTTATGTA
*
1848974 TCTAAGCGATGTAATGATTTTATCATGTGTTATGTAATTAGGGGTTTTTAGGGGCCAAAAGTCCG
131 TCTAAGCGATGTAATGATTTTATCATGTGTTATGTAATTAGGGGTTTTTAGGGGCCAAAAGTCCA
*
1849039 AAATTCTGATTACCCATATCTCAGAAAG
196 AAATTCTGATCACCCATATCTCAGAAAG
1849067 CTCGCCCGGA
Statistics
Matches: 601, Mismatches: 55, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
434 3 0.00
435 128 0.21
436 283 0.47
437 187 0.31
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (435 bp):
ATCAAGAAAAAGGGGCTGGCCCCTTAAATTAGGGACCAAAGGGCTCTAAAGTCTTTTATCTATAG
CCCTTTACTGAGGGATATTTTGTAAAATGTTATAGTAGCAAATATGTTTATCTCACAGTTATGTA
TCTAAGCGATGTAATGATTTTATCATGTGTTATGTAATTAGGGGTTTTTAGGGGCCAAAAGTCCA
AAATTCTGATCACCCATATCTCAGAAAGGAAAAATATTTTGAAATGCAGTACAGAAGAAAAGTTG
TTCAAATGAAGTTCTTAACAAAATGCAACCTTCAAAATTTCGTTAAACGGCCCCTATAAGGAGAT
AAGGGACCAGCCCCTAAAACCTTCTTTCTCATATATCTCAAAAACGGTAACAAATTTCTAAAAAC
TTGTTAAACAAAATGTGTTTAGAATTAAGTGACCTTTTATTTGAT
Found at i:1854015 original size:4 final size:4
Alignment explanation
Indices: 1854006--1854045 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
1853996 GTAAAACAAA
* * *
1854006 TATC TATC TATC TATC CAGC TATA TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1854046 ATGCATTATC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.45
Consensus pattern (4 bp):
TATC
Found at i:1860743 original size:18 final size:19
Alignment explanation
Indices: 1860709--1860745 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1860699 CCCCCCCCCC
1860709 CCCCCCTTCCATACCCAAA
1 CCCCCCTTCCATACCCAAA
*
1860728 CCCCCCTT-CATCCCCAAA
1 CCCCCCTTCCATACCCAAA
1860746 TCCAACTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.24, C:0.59, G:0.00, T:0.16
Consensus pattern (19 bp):
CCCCCCTTCCATACCCAAA
Found at i:1865404 original size:9 final size:9
Alignment explanation
Indices: 1865386--1865439 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
1865376 TTTGTGGTTT
1865386 TTTG-TTTG
1 TTTGTTTTG
1865394 TTTGTTTTG
1 TTTGTTTTG
1865403 TTCTGTGTTT-
1 TT-TGT-TTTG
1865413 TTT-TTTTG
1 TTTGTTTTG
*
1865421 TTTTTTTTG
1 TTTGTTTTG
*
1865430 TTTTTTTTG
1 TTTGTTTTG
1865439 T
1 T
1865440 CATTGATTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
7 3 0.07
8 8 0.20
9 22 0.54
10 5 0.12
11 3 0.07
ACGTcount: A:0.00, C:0.02, G:0.17, T:0.81
Consensus pattern (9 bp):
TTTGTTTTG
Found at i:1867390 original size:2 final size:2
Alignment explanation
Indices: 1867383--1867407 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1867373 ATATGTTGGG
1867383 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1867408 NNNNNNNNNN
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1870694 original size:12 final size:12
Alignment explanation
Indices: 1870674--1870703 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1870664 CCCCCCCCCC
1870674 AAAAA-AAAAAA
1 AAAAACAAAAAA
1870685 AAAAACAAAAAA
1 AAAAACAAAAAA
1870697 AAAAACA
1 AAAAACA
1870704 CTTCTATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAA
Found at i:1873223 original size:2 final size:2
Alignment explanation
Indices: 1873216--1873294 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
1873206 TATGTTAATA
1873216 AG 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 AG
1873258 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
1873295 TTGAGATATT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1874458 original size:19 final size:17
Alignment explanation
Indices: 1874414--1874446 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1874404 GCAAAATATG
*
1874414 AAATATAAATATAATAC
1 AAATATATATATAATAC
1874431 AAATATATATATAATA
1 AAATATATATATAATA
1874447 TAGAGATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATATATATAATAC
Found at i:1876527 original size:163 final size:164
Alignment explanation
Indices: 1876314--1876768 Score: 481
Period size: 163 Copynumber: 2.8 Consensus size: 164
1876304 ATTTCTTAAA
* * * * *
1876314 ATTTAAAACATTTTTACCATATGGCCATATTGGCCCCATCCTACAGCCTGAACCCCTAATAGAGG
1 ATTTAATACATTTTTACTATATGGCCATATTGG-CCCATCCTAGAGCCTGAACCCCTAACACAGG
* * *
1876379 GGTCAAT-AATTTTAAAATTTTGGTAGAGGGCTTCATGGAGA-CTATAACCA-GCATTTAGTATT
65 GGTC-ATGAATTTCAAAAGTTTGGTAGAGGGCTTCATGGACATC-ATAACCATGCATTTAGTATT
* ** *
1876441 TAACAAATATATA-AGTAGAGAAGAAGCTTTTCTAAG
128 TAACAAATATATAGAGTAAAGAAGAAGAGTTTCCAAG
* * * *
1876477 ATTTAATACATTTTTACTATATGGCCATATTGGCCCAACCATAGAGCCTGAACCCATGACCCAGG
1 ATTTAATACATTTTTACTATATGGCCATATTGGCCCATCC-TAGAGCCTGAACCCCTAACACAGG
** * * *
1876542 GGTCATGAATTTCACCAGTTTGTTAGAGGGCTTCATGGACATCATAATCATGCATTTAGTTTTTA
65 GGTCATGAATTTCAAAAGTTTGGTAGAGGGCTTCATGGACATCATAACCATGCATTTAGTATTTA
1876607 ACAAATATATATGGGAGTAAAGAAGAAGAGTTTCCAAG
130 ACAAATATATA---GAGTAAAGAAGAAGAGTTTCCAAG
* * * * *
1876645 ATTTAATACATTTTAACTATATGGTCATGTTGGCCTCATCCTAGAGCTTAAACCCCTGAAC-CAG
1 ATTTAATACATTTTTACTATATGGCCATATTGGCC-CATCCTAGAGCCTGAACCCCT-AACACAG
* * *** * * *
1876709 AGGACATGAATTTC-ACTTTTTGGTAAAAGGCTTTATGGACATCATAACCATGCATTTAGT
64 GGGTCATGAATTTCAAAAGTTTGGTAGAGGGCTTCATGGACATCATAACCATGCATTTAGT
1876769 TTTTTCCTCA
Statistics
Matches: 243, Mismatches: 39, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
162 8 0.03
163 87 0.36
164 25 0.10
167 38 0.16
168 79 0.33
169 6 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (164 bp):
ATTTAATACATTTTTACTATATGGCCATATTGGCCCATCCTAGAGCCTGAACCCCTAACACAGGG
GTCATGAATTTCAAAAGTTTGGTAGAGGGCTTCATGGACATCATAACCATGCATTTAGTATTTAA
CAAATATATAGAGTAAAGAAGAAGAGTTTCCAAG
Found at i:1876719 original size:168 final size:163
Alignment explanation
Indices: 1876397--1876772 Score: 461
Period size: 168 Copynumber: 2.3 Consensus size: 163
1876387 ATTTTAAAAT
* * *
1876397 TTTGGTAGAGGGCTTCATGGAGA-CTATAACCA-GCATTTAGTATTTAACAAATATATAAGTAGA
1 TTTGGTAGAGGGCTTCATGGACATC-ATAACCATGCATTTAGTTTTTAACAAATATATAAGTAAA
** * *
1876460 GAAGAAGCTTTTCTAAGATTTAATACATTTTTACTATATGGCCATATTGGCCCAACCATAGAGCC
65 GAAGAAGAGTTTCCAAGATTTAATACATTTTAACTATATGGCCATATTGGCCCAACCATAGAGCC
* * * *
1876525 TGAACCCATGACCCAGGGGTCATGAATTTCACCAG
130 TAAACCCATGAACCAGAGGACATGAATTTCA-CAG
* *
1876560 TTTGTTAGAGGGCTTCATGGACATCATAATCATGCATTTAGTTTTTAACAAATATATATGGGAGT
1 TTTGGTAGAGGGCTTCATGGACATCATAACCATGCATTTAGTTTTTAACAAATATATA----AGT
* * *
1876625 AAAGAAGAAGAGTTTCCAAGATTTAATACATTTTAACTATATGGTCATGTTGGCCTCATCC-TAG
62 AAAGAAGAAGAGTTTCCAAGATTTAATACATTTTAACTATATGGCCATATTGGCC-CAACCATAG
* * **
1876689 AGCTTAAACCCCTGAACCAGAGGACATGAATTTCACTT
126 AGCCTAAACCCATGAACCAGAGGACATGAATTTCACAG
* * *
1876727 TTTGGTAAAAGGCTTTATGGACATCATAACCATGCATTTAGTTTTT
1 TTTGGTAGAGGGCTTCATGGACATCATAACCATGCATTTAGTTTTT
1876773 TCCTCACAAA
Statistics
Matches: 181, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
163 27 0.15
164 25 0.14
167 42 0.23
168 83 0.46
169 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (163 bp):
TTTGGTAGAGGGCTTCATGGACATCATAACCATGCATTTAGTTTTTAACAAATATATAAGTAAAG
AAGAAGAGTTTCCAAGATTTAATACATTTTAACTATATGGCCATATTGGCCCAACCATAGAGCCT
AAACCCATGAACCAGAGGACATGAATTTCACAG
Found at i:1879859 original size:21 final size:21
Alignment explanation
Indices: 1879835--1879975 Score: 138
Period size: 21 Copynumber: 6.7 Consensus size: 21
1879825 TACAAGATAA
1879835 ACGATAGGATAGGATTCACGC
1 ACGATAGGATAGGATTCACGC
1879856 ACGATAGGATAGGATTCACGC
1 ACGATAGGATAGGATTCACGC
* * * *
1879877 ACGATAGAACAGTATACACGC
1 ACGATAGGATAGGATTCACGC
* *
1879898 ACGAAAGGATAGGATTAACGC
1 ACGATAGGATAGGATTCACGC
* * ** *
1879919 ACGATAGAACACTATACACGC
1 ACGATAGGATAGGATTCACGC
* * **
1879940 ACGATATGATAGGATTGATAC
1 ACGATAGGATAGGATTCACGC
*
1879961 ACGATAGGAAAGGAT
1 ACGATAGGATAGGAT
1879976 AAACGATGTT
Statistics
Matches: 92, Mismatches: 28, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 92 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (21 bp):
ACGATAGGATAGGATTCACGC
Found at i:1879967 original size:42 final size:42
Alignment explanation
Indices: 1879851--1879955 Score: 174
Period size: 42 Copynumber: 2.5 Consensus size: 42
1879841 GGATAGGATT
* *
1879851 CACGCACGATAGGATAGGATTCACGCACGATAGAACAGTATA
1 CACGCACGATAGGATAGGATTAACGCACGATAGAACACTATA
*
1879893 CACGCACGAAAGGATAGGATTAACGCACGATAGAACACTATA
1 CACGCACGATAGGATAGGATTAACGCACGATAGAACACTATA
*
1879935 CACGCACGATATGATAGGATT
1 CACGCACGATAGGATAGGATT
1879956 GATACACGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (42 bp):
CACGCACGATAGGATAGGATTAACGCACGATAGAACACTATA
Found at i:1880991 original size:21 final size:21
Alignment explanation
Indices: 1880967--1881100 Score: 121
Period size: 21 Copynumber: 6.4 Consensus size: 21
1880957 CGATAAACCT
*
1880967 GATAGGATTAACGCACGATAG
1 GATAGGATTAACGCACGATAC
1880988 GATAGGATTAACGCACGATA-
1 GATAGGATTAACGCACGATAC
* * *
1881008 GAACAGTA-TACACGCACGATAG
1 G-ATAGGATTA-ACGCACGATAC
*
1881030 GATAGCATTAACGCACGATAC
1 GATAGGATTAACGCACGATAC
* * *
1881051 AACAGTA-TACACGCACGATAC
1 GATAGGATTA-ACGCACGATAC
* **
1881072 GATAGGATTGATACACGATAC
1 GATAGGATTAACGCACGATAC
1881093 GATAGGAT
1 GATAGGAT
1881101 AGAATTGAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
20 5 0.05
21 84 0.90
22 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.19
Consensus pattern (21 bp):
GATAGGATTAACGCACGATAC
Found at i:1881092 original size:42 final size:42
Alignment explanation
Indices: 1880977--1881080 Score: 181
Period size: 42 Copynumber: 2.5 Consensus size: 42
1880967 GATAGGATTA
*
1880977 ACGCACGATAGGATAGGATTAACGCACGATAGAACAGTATAC
1 ACGCACGATAGGATAGGATTAACGCACGATACAACAGTATAC
*
1881019 ACGCACGATAGGATAGCATTAACGCACGATACAACAGTATAC
1 ACGCACGATAGGATAGGATTAACGCACGATACAACAGTATAC
*
1881061 ACGCACGATACGATAGGATT
1 ACGCACGATAGGATAGGATT
1881081 GATACACGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.17
Consensus pattern (42 bp):
ACGCACGATAGGATAGGATTAACGCACGATACAACAGTATAC
Found at i:1881758 original size:13 final size:13
Alignment explanation
Indices: 1881740--1881764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1881730 ATTCATAATT
1881740 ACAAAAAAAAAAA
1 ACAAAAAAAAAAA
1881753 ACAAAAAAAAAA
1 ACAAAAAAAAAA
1881765 CATTTGGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAAAAAAAAA
Found at i:1888067 original size:1 final size:1
Alignment explanation
Indices: 1888061--1888094 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
1888051 AATTTGGTGG
* *
1888061 TTTTTTTTTTTTTGTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1888095 AAACACGTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (1 bp):
T
Found at i:1889184 original size:11 final size:11
Alignment explanation
Indices: 1889168--1889206 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
1889158 CATTCAGTCA
1889168 ACTGAAAGGTG
1 ACTGAAAGGTG
*
1889179 ACTGAAAGGTA
1 ACTGAAAGGTG
1889190 ACTGACAA-GTG
1 ACTGA-AAGGTG
1889201 ACTGAA
1 ACTGAA
1889207 TGGCATAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 1 0.04
11 22 0.88
12 2 0.08
ACGTcount: A:0.41, C:0.13, G:0.28, T:0.18
Consensus pattern (11 bp):
ACTGAAAGGTG
Found at i:1890212 original size:21 final size:21
Alignment explanation
Indices: 1890186--1890272 Score: 83
Period size: 21 Copynumber: 4.2 Consensus size: 21
1890176 TACACCATAG
*
1890186 CATAGCATAGTATTGAAATCT
1 CATAGCATAGCATTGAAATCT
*
1890207 CATAGCA-AACATTGAAATCT
1 CATAGCATAGCATTGAAATCT
* *
1890227 CATACCATAGCATTCAAAT-T
1 CATAGCATAGCATTGAAATCT
*
1890247 CCATACCATAGCA-T-ACAATCT
1 -CATAGCATAGCATTGA-AATCT
1890268 CATAG
1 CATAG
1890273 AGTCGCATTC
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 26 0.46
21 29 0.52
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (21 bp):
CATAGCATAGCATTGAAATCT
Found at i:1890551 original size:21 final size:21
Alignment explanation
Indices: 1890527--1890575 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
1890517 TTTCAATTTA
1890527 TCATAGCATAGCATACAAATC
1 TCATAGCATAGCATACAAATC
*
1890548 TCATAGCATTGCATACAAATC
1 TCATAGCATAGCATACAAATC
1890569 TCATAGC
1 TCATAGC
1890576 TATGCTATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (21 bp):
TCATAGCATAGCATACAAATC
Found at i:1898718 original size:182 final size:182
Alignment explanation
Indices: 1898411--1898830 Score: 795
Period size: 182 Copynumber: 2.3 Consensus size: 182
1898401 NNNNNNNNNN
1898411 CCCTCAGGAATCCGGGGTCACCTAATTGTCACAAGTCCTAGTTTAGGCGCCCTGCGCCTTGTTTA
1 CCCTCAGGAATCCGGGGTCACCTAATTGTCACAAGTCCTAGTTTAGGCGCCCTGCGCCTTGTTTA
*
1898476 TGTCCCTATATAATATGATAATATAGTTATTATAACGATTATTCAGGGCGCCGTGGCGCCAAGAA
66 TGTCCCTATATAATATGATAATATAGTTATTATAACGATTATTCAGGGCGCCGTGGCGCCAAAAA
1898541 CGGCATAATTATTGAAGGTTCTGAGACCGGTCACCCCCGGGCAGGACCCCCA
131 CGGCATAATTATTGAAGGTTCTGAGACCGGTCACCCCCGGGCAGGACCCCCA
* *
1898593 CCCTCAGGAATCCGGGGTCACATAATTGTCACAAGTCCTAGTTTAGGCGCCGTGCGCCTTGTTTA
1 CCCTCAGGAATCCGGGGTCACCTAATTGTCACAAGTCCTAGTTTAGGCGCCCTGCGCCTTGTTTA
*
1898658 TGTCCCTATATAATATGATAATATAGTTATTATAACGATTTTTCAGGGCGCCGTGGCGCCAAAAA
66 TGTCCCTATATAATATGATAATATAGTTATTATAACGATTATTCAGGGCGCCGTGGCGCCAAAAA
1898723 CGGCATAATTATTGAAGGTTCTGAGACCGGTCACCCCCGGGCAGGACCCCCA
131 CGGCATAATTATTGAAGGTTCTGAGACCGGTCACCCCCGGGCAGGACCCCCA
*
1898775 CCCTCAGGAATCCGGGGTCACCTAATTGTCACAAGTCCTAGTTTAGGCGCCTTGCG
1 CCCTCAGGAATCCGGGGTCACCTAATTGTCACAAGTCCTAGTTTAGGCGCCCTGCG
1898831 GCTATTTTCC
Statistics
Matches: 232, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
182 232 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (182 bp):
CCCTCAGGAATCCGGGGTCACCTAATTGTCACAAGTCCTAGTTTAGGCGCCCTGCGCCTTGTTTA
TGTCCCTATATAATATGATAATATAGTTATTATAACGATTATTCAGGGCGCCGTGGCGCCAAAAA
CGGCATAATTATTGAAGGTTCTGAGACCGGTCACCCCCGGGCAGGACCCCCA
Found at i:1899140 original size:21 final size:21
Alignment explanation
Indices: 1899094--1899163 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
1899084 CATGGTATGG
* *
1899094 TATGCGATTTTAATG-ATACGC
1 TATGAGATTTTAATGTA-ATGC
*
1899115 AATGAGATTTTAATGTAATGC
1 TATGAGATTTTAATGTAATGC
1899136 TATGAGATTTGT-ATGCT-ATGC
1 TATGAGATTT-TAATG-TAATGC
1899157 TATGAGA
1 TATGAGA
1899164 CATTGACACG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
21 39 0.93
22 3 0.07
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (21 bp):
TATGAGATTTTAATGTAATGC
Found at i:1899450 original size:21 final size:20
Alignment explanation
Indices: 1899424--1899470 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
1899414 GGTGAAATAT
*
1899424 TTTAATGCTATGGTATGATA
1 TTTAATGCTATGCTATGATA
*
1899444 TTCTAATGCTATGCTATGGTA
1 TT-TAATGCTATGCTATGATA
1899465 TTTAAT
1 TTTAAT
1899471 TGCATATGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.47
Consensus pattern (20 bp):
TTTAATGCTATGCTATGATA
Found at i:1900559 original size:21 final size:20
Alignment explanation
Indices: 1900532--1900742 Score: 169
Period size: 21 Copynumber: 10.1 Consensus size: 20
1900522 TGTATACTGT
1900532 TCTATCGTGCGTTAAACCTA
1 TCTATCGTGCGTTAAACCTA
* *
1900552 TCGTATCGTGCGTTTATA-CTGT
1 TC-TATCGTGCG-TTAAACCT-A
1900574 TCTATCGTGCGTTAAACCTA
1 TCTATCGTGCGTTAAACCTA
* *
1900594 TCGTATCGTGCGTTTATA-CTGT
1 TC-TATCGTGCG-TTAAACCT-A
1900616 TCTATCGTGCGTTAAACCTA
1 TCTATCGTGCGTTAAACCTA
* *
1900636 TCGTATCGTGCGTTTATA-CTGT
1 TC-TATCGTGCG-TTAAACCT-A
1900658 TCTATCGTGCGTTAAACCTA
1 TCTATCGTGCGTTAAACCTA
* *
1900678 TCGTATCGTGCGTTTATA-CTGT
1 TC-TATCGTGCG-TTAAACCT-A
*
1900700 TCTATCGTGCGTTAATCCTA
1 TCTATCGTGCGTTAAACCTA
* * *
1900720 TCCTATCATGCATTAATCCTA
1 T-CTATCGTGCGTTAAACCTA
1900741 TC
1 TC
1900743 AGGTTTATCG
Statistics
Matches: 155, Mismatches: 19, Indels: 34
0.75 0.09 0.16
Matches are distributed among these distances:
20 25 0.16
21 106 0.68
22 24 0.15
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (20 bp):
TCTATCGTGCGTTAAACCTA
Found at i:1900581 original size:42 final size:42
Alignment explanation
Indices: 1900509--1900726 Score: 393
Period size: 42 Copynumber: 5.2 Consensus size: 42
1900499 GTATCAATCA
* *
1900509 TATCGTATCGT-TGTGTATACTGTTCTATCGTGCGTTAAACC
1 TATCGTATCGTGCGTTTATACTGTTCTATCGTGCGTTAAACC
1900550 TATCGTATCGTGCGTTTATACTGTTCTATCGTGCGTTAAACC
1 TATCGTATCGTGCGTTTATACTGTTCTATCGTGCGTTAAACC
1900592 TATCGTATCGTGCGTTTATACTGTTCTATCGTGCGTTAAACC
1 TATCGTATCGTGCGTTTATACTGTTCTATCGTGCGTTAAACC
1900634 TATCGTATCGTGCGTTTATACTGTTCTATCGTGCGTTAAACC
1 TATCGTATCGTGCGTTTATACTGTTCTATCGTGCGTTAAACC
*
1900676 TATCGTATCGTGCGTTTATACTGTTCTATCGTGCGTTAATCC
1 TATCGTATCGTGCGTTTATACTGTTCTATCGTGCGTTAAACC
*
1900718 TATCCTATC
1 TATCGTATC
1900727 ATGCATTAAT
Statistics
Matches: 172, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
41 11 0.06
42 161 0.94
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (42 bp):
TATCGTATCGTGCGTTTATACTGTTCTATCGTGCGTTAAACC
Found at i:1902803 original size:21 final size:21
Alignment explanation
Indices: 1902779--1902823 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1902769 CTATCCTACA
* *
1902779 GTGCGTTTATACTATTCTATC
1 GTGCGTTAATACTATTATATC
*
1902800 GTGCGTTAATTCTATTATATC
1 GTGCGTTAATACTATTATATC
1902821 GTG
1 GTG
1902824 TGTGTATGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.47
Consensus pattern (21 bp):
GTGCGTTAATACTATTATATC
Found at i:1907089 original size:2 final size:2
Alignment explanation
Indices: 1907082--1907138 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
1907072 TGTAAGGAGA
*
1907082 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT 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 TC
*
1907124 TT TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC T
1907139 ATATATATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:1910082 original size:183 final size:183
Alignment explanation
Indices: 1909856--1910327 Score: 517
Period size: 183 Copynumber: 2.6 Consensus size: 183
1909846 GGACTGGAAA
* * * * * *
1909856 TATTTACGTCTGCATCAT-TATCCAGTAATATCTTGACGATTTCATTATGATT-ACGGTAGCACG
1 TATTAACGTCTGCACCATGT-TCAAGTAATATCTTAACGATTTCAGTATG-TTCACGGTAGCAAG
* * * * *
1909919 CTAAAA-A-AAGAGGGCTTCGTCCTTTATCATCGCATAAATTAACGTTTGCGCCATTGTTAAGTA
64 C-AAAATATAA-AGGGCTTAGTCCTTCATAATCGCATAAATTAACATTTGCACCATTGTTAAGTA
** * *
1909982 ATATCCGTACTATTTCAGAATTTCCTGATTTACACATTATACAGAGAGGAC-TGGCTT
127 ATATCCGTACTATTTCAGAATTTCCAAATTCACACATTATACAGAGAGGACTTGG-AT
* **
1910039 TATTAACGTCTGCACCATGTTCAAGTAATATCTTAATGATTTCAGTATGTTCATTGTAGCAAGCA
1 TATTAACGTCTGCACCATGTTCAAGTAATATCTTAACGATTTCAGTATGTTCACGGTAGCAAGCA
* *
1910104 AAATATAAAGGGCTTAGTCCTTCATAATTGCATAAATTAACATTTGCACCATTGTTCAGTAATAT
66 AAATATAAAGGGCTTAGTCCTTCATAATCGCATAAATTAACATTTGCACCATTGTTAAGTAATAT
* * *
1910169 TCGTACTATTTCAGCATTTCCAAATTCGCACATTATACAGAGAGGACTTGGAT
131 CCGTACTATTTCAGAATTTCCAAATTCACACATTATACAGAGAGGACTTGGAT
* * * * * * *
1910222 TATTAACGTCTGCACGATGTCCGAGTAATATCTTGAC-AGTTTCGGTATGTTCACTGAAGCAAGC
1 TATTAACGTCTGCACCATGTTCAAGTAATATCTTAACGA-TTTCAGTATGTTCACGGTAGCAAGC
* * * * *
1910286 TAAATATAAAGGGCTCA-TACCTTCATCATCACATAGATTAAC
65 AAAATATAAAGGGCTTAGT-CCTTCATAATCGCATAAATTAAC
1910328 GTTGGCGCCT
Statistics
Matches: 245, Mismatches: 37, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
182 8 0.03
183 231 0.94
184 6 0.02
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (183 bp):
TATTAACGTCTGCACCATGTTCAAGTAATATCTTAACGATTTCAGTATGTTCACGGTAGCAAGCA
AAATATAAAGGGCTTAGTCCTTCATAATCGCATAAATTAACATTTGCACCATTGTTAAGTAATAT
CCGTACTATTTCAGAATTTCCAAATTCACACATTATACAGAGAGGACTTGGAT
Found at i:1912464 original size:2 final size:2
Alignment explanation
Indices: 1912457--1912501 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
1912447 NNNNNNNNNN
* * * *
1912457 AG AG AG AG AG AG AG AG AG AG AC AG AG AC AG AG AC AG AG AC AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1912499 AG A
1 AG A
1912502 CAGACAGACA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.09, G:0.40, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1912468 original size:6 final size:6
Alignment explanation
Indices: 1912461--1912505 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
1912451 NNNNNNAGAG
* *
1912461 AGAGAG AGAGAG AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGA
1 AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGA
1912506 CAGACAGACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.51, C:0.11, G:0.38, T:0.00
Consensus pattern (6 bp):
AGAGAC
Found at i:1912508 original size:4 final size:4
Alignment explanation
Indices: 1912499--1912529 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
1912489 ACAGAGACAG
*
1912499 AGAC AGAC AGAC AGAC AGAC AGGC AGAC AGA
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA
1912530 GTTAACAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.23, G:0.29, T:0.00
Consensus pattern (4 bp):
AGAC
Found at i:1915349 original size:2 final size:2
Alignment explanation
Indices: 1915342--1915387 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1915332 TTTCATTTAC
1915342 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
1915384 GA GA
1 GA GA
1915388 TTTCACCGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1915807 original size:11 final size:11
Alignment explanation
Indices: 1915775--1915813 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
1915765 GTAAATGCCA
1915775 CTTAAAGAT-G
1 CTTAAAGATGG
*
1915785 CTTAAAGGTGG
1 CTTAAAGATGG
*
1915796 CCTAAAGATGG
1 CTTAAAGATGG
1915807 CTTAAAG
1 CTTAAAG
1915814 GTGACTTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (11 bp):
CTTAAAGATGG
Found at i:1918985 original size:11 final size:11
Alignment explanation
Indices: 1918971--1918998 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1918961 TCTTTAATCT
1918971 ACCTTTACGTC
1 ACCTTTACGTC
1918982 ACCTTTACGTC
1 ACCTTTACGTC
1918993 ACCTTT
1 ACCTTT
1918999 CAGGACTTGG
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:0.18, C:0.36, G:0.07, T:0.39
Consensus pattern (11 bp):
ACCTTTACGTC
Found at i:1923428 original size:95 final size:95
Alignment explanation
Indices: 1923269--1923474 Score: 326
Period size: 95 Copynumber: 2.2 Consensus size: 95
1923259 AAAACGTTGT
*
1923269 AGAAATG-TTACGAAAACATTTTTAAAAACGTTATTACAACGTGAATCTGTGTGGGTTTTTTTAC
1 AGAAATGTTTAC-AAAACATTTTTAAAAACGTTATTACAACGTAAATCTGTGTGGGTTTTTTTAC
*
1923333 GTTATAAGAACATTTTCTAAAAACATTTCAA
65 GTTATAACAACATTTTCTAAAAACATTTCAA
*
1923364 AGAAATGTTTACAAAACATTTTTAAAAACGTTATTACAGCGTAAATCTGTGT-GGTTTTTGTTAC
1 AGAAATGTTTACAAAACATTTTTAAAAACGTTATTACAACGTAAATCTGTGTGGGTTTTT-TTAC
* *
1923428 GTTATAACAACATTTTCTAAAAACGTTTCCA
65 GTTATAACAACATTTTCTAAAAACATTTCAA
*
1923459 AGAAATGTTAACAAAA
1 AGAAATGTTTACAAAA
1923475 TGTTTGAGAA
Statistics
Matches: 103, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
94 7 0.07
95 92 0.89
96 4 0.04
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (95 bp):
AGAAATGTTTACAAAACATTTTTAAAAACGTTATTACAACGTAAATCTGTGTGGGTTTTTTTACG
TTATAACAACATTTTCTAAAAACATTTCAA
Found at i:1926013 original size:14 final size:13
Alignment explanation
Indices: 1925977--1926018 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
1925967 GAACTTATTT
1925977 GCAGGATAGGATA
1 GCAGGATAGGATA
1925990 -CAGGATATAGGATA
1 GCAGG--ATAGGATA
1926004 GCTAGGATAGGATA
1 GC-AGGATAGGATA
1926018 G
1 G
1926019 TTTTGTCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 4 0.16
14 17 0.68
15 1 0.04
16 3 0.12
ACGTcount: A:0.38, C:0.07, G:0.36, T:0.19
Consensus pattern (13 bp):
GCAGGATAGGATA
Found at i:1929576 original size:4 final size:4
Alignment explanation
Indices: 1929569--1929745 Score: 354
Period size: 4 Copynumber: 44.2 Consensus size: 4
1929559 TCAATCAGTC
1929569 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1929617 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1929665 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1929713 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
1929746 NNNNNNNNNN
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 173 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TCTA
Found at i:1943296 original size:20 final size:20
Alignment explanation
Indices: 1943240--1943326 Score: 86
Period size: 20 Copynumber: 4.2 Consensus size: 20
1943230 TCAAAAGCCG
*
1943240 TACAGGGGATGTCAGGGGCAT
1 TACAGGGGATGACAGGGGC-T
* * *
1943261 GCACTGGGGTAT-ACAGTGGCT
1 -TACAGGGG-ATGACAGGGGCT
*
1943282 TACAGGGGATGACAGGGGCG
1 TACAGGGGATGACAGGGGCT
*
1943302 TACAGGGGGTGACAGGGGCT
1 TACAGGGGATGACAGGGGCT
1943322 TACAG
1 TACAG
1943327 TGGCACACAG
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.04
20 36 0.68
21 1 0.02
22 12 0.23
23 2 0.04
ACGTcount: A:0.23, C:0.16, G:0.44, T:0.17
Consensus pattern (20 bp):
TACAGGGGATGACAGGGGCT
Found at i:1943326 original size:10 final size:10
Alignment explanation
Indices: 1943272--1943326 Score: 56
Period size: 10 Copynumber: 5.5 Consensus size: 10
1943262 CACTGGGGTA
*
1943272 TACAGTGGCT
1 TACAGGGGCT
*
1943282 TACAGGGGAT
1 TACAGGGGCT
* *
1943292 GACAGGGGCG
1 TACAGGGGCT
*
1943302 TACAGGGGGT
1 TACAGGGGCT
*
1943312 GACAGGGGCT
1 TACAGGGGCT
1943322 TACAG
1 TACAG
1943327 TGGCACACAG
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.24, C:0.16, G:0.44, T:0.16
Consensus pattern (10 bp):
TACAGGGGCT
Found at i:1944323 original size:2 final size:2
Alignment explanation
Indices: 1944316--1944363 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1944306 GTGGTTATTT
1944316 AG 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 AG
1944358 AG AG AG
1 AG AG AG
1944364 CTGAAAAACG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1945264 original size:2 final size:2
Alignment explanation
Indices: 1945257--1945290 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1945247 ATTAATAGCA
* *
1945257 AG AG AG AG AG AG AG AG GG AG AA AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1945291 TTAATTTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1947038 original size:21 final size:21
Alignment explanation
Indices: 1947012--1947060 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1947002 TACATGATAA
*
1947012 ACGATAGGATAAGATTCACGC
1 ACGATAGGATAAGATTAACGC
*
1947033 ACGATAGGATAGGATTAACGC
1 ACGATAGGATAAGATTAACGC
1947054 ACGATAG
1 ACGATAG
1947061 AACATTATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.18
Consensus pattern (21 bp):
ACGATAGGATAAGATTAACGC
Found at i:1949679 original size:2 final size:2
Alignment explanation
Indices: 1949672--1949712 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1949662 GTGGTTATTT
1949672 AG AG 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 AG AG A
1949713 ATAAACAACT
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1956893 original size:13 final size:13
Alignment explanation
Indices: 1956863--1956891 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1956853 TTACATAACA
1956863 TTTTAGATAAATG
1 TTTTAGATAAATG
1956876 TTTTAGATAAA-G
1 TTTTAGATAAATG
1956888 TTTT
1 TTTT
1956892 TAATGCACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (13 bp):
TTTTAGATAAATG
Found at i:1961517 original size:34 final size:34
Alignment explanation
Indices: 1961472--1961537 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
1961462 TCCTGGTTAG
*
1961472 GTTTCCTGTATAAAATCACGTGATTGAGTAGTAA
1 GTTTCCGGTATAAAATCACGTGATTGAGTAGTAA
1961506 GTTTCCGGTATAAAATCACGTGATTGAGTAGT
1 GTTTCCGGTATAAAATCACGTGATTGAGTAGT
1961538 TTTTCAAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (34 bp):
GTTTCCGGTATAAAATCACGTGATTGAGTAGTAA
Done.