Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 139 of 425
Found at i:41862211 original size:63 final size:63
Alignment explanation
Indices: 41862139--41862264 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
41862129 CTTTCTACCA
* *
41862139 TAGTTTTGCTATGCTCTTCAGGAGACAAATTATCCATTTTTTCTTCTACCTCAATATCAGTGC
1 TAGTTTTGCTACGCTCTTCAAGAGACAAATTATCCATTTTTTCTTCTACCTCAATATCAGTGC
** *
41862202 TAGTTTTGCTACGCTCTTCAAGAGACAAATTATCCATTTTTTCTTCTAGTTCAATGTCAGTGC
1 TAGTTTTGCTACGCTCTTCAAGAGACAAATTATCCATTTTTTCTTCTACCTCAATATCAGTGC
41862265 CAGCAGACAG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.41
Consensus pattern (63 bp):
TAGTTTTGCTACGCTCTTCAAGAGACAAATTATCCATTTTTTCTTCTACCTCAATATCAGTGC
Found at i:41864885 original size:490 final size:491
Alignment explanation
Indices: 41863965--41864946 Score: 1761
Period size: 490 Copynumber: 2.0 Consensus size: 491
41863955 GGGAACAAAT
* * *
41863965 ACCTTGCGTTGTCACTTTCTTTTTTATTGATCATTTTGACTAAAGGATTGCAAGGTTATATTAAT
1 ACCTTGCATTGTCACTTTCTTTCTTATTGATCATTTTGACTAAAGAATTGCAAGGTTATATTAAT
* *
41864030 GGTGATAAGTGGAAACCATTGATAAAAGATCCTACCTTTAATCAGTGAGACTTAGAGAACTCACT
66 GGTGATAAGTGGAAACAATTGATAAAAGATCCCACCTTTAATCAGTGAGACTTAGAGAACTCACT
41864095 TGTTATGGCACGGCTTATCAACTCTATGCAGCCCCAAATTTCCTGAGCATACGACATTGCAGAAA
131 TGTTATGGCACGGCTTATCAACTCTATGCAGCCCCAAATTTCCTGAGCATACGACATTGCAGAAA
* *
41864160 AAACATGAAATGCAATCTTACCTACTCACAAACGAGAATGAAGTTTAGATCTTTGAATTTTGGGA
196 AAACATGAAATGCAATCTTACCAACTCACAAACGAGAATGAAGTTTACATCTTTGAATTTTGGGA
*
41864225 TAAGGTCCATAGCACAAAGCAAGGTGATGACAATTTCTCATTACTTTTCTTGAATTGAGTGGCTT
261 TAAAGTCCATAGCACAAAGCAAGGTGATGACAATTTCTCATTACTTTTCTTGAATTGAGTGGCTT
*
41864290 ATGACAGGAACTTGGTTATTACCAAATGCAATCAAATTTCAAATTTTGGTTGAAAAGGAACGGGT
326 ATGACAGGAACTTGATTATTACCAAATGCAATCAAATTTCAAATTTTGGTTGAAAAGGAACGGGT
*
41864355 TTATGATTTTCTAATCAAGTTGAACAATGAGTATAATTAGATCAAGATTCAAGTTCTTGG-AAAA
391 TTATGATTTTCTAATCAAGTTGAACAATGAGTATAATTAGATCAAGATACAAGTTCTTGGAAAAA
*
41864419 ACCCCTTTCTCCTTCACTTGACCAAAGCATATTCCC
456 ACCCCTTTCTCCTTCACTCGACCAAAGCATATTCCC
*
41864455 ACCTTGCATTGTCACTTTCTTTCTTATTGATCATTTTGACTAGAGAATTGCAAGGTTATATTAAT
1 ACCTTGCATTGTCACTTTCTTTCTTATTGATCATTTTGACTAAAGAATTGCAAGGTTATATTAAT
41864520 GGTGATAAGTGGAAACAATTGATAAAAGATCCCACCTTTAATCAGTGAGACTTAGAGAACTCACT
66 GGTGATAAGTGGAAACAATTGATAAAAGATCCCACCTTTAATCAGTGAGACTTAGAGAACTCACT
*
41864585 TGTTATGGCACGGCTTATCAACTCTATGCAGCCCCAAATTTCCTGAGCATATGACATTGCAGAAA
131 TGTTATGGCACGGCTTATCAACTCTATGCAGCCCCAAATTTCCTGAGCATACGACATTGCAGAAA
*
41864650 AAACATGAAATGCAATCTTACCAACTCACGAACGAGAATGAAGTTTACATCTTCT-AATTTTGGG
196 AAACATGAAATGCAATCTTACCAACTCACAAACGAGAATGAAGTTTACATCTT-TGAATTTTGGG
41864714 ATAAAGTCCATAGCACAAAGCAAGGTGATGACAATTTCTCATTACTTTTCTTGAATTGAGTGGCT
260 ATAAAGTCCATAGCACAAAGCAAGGTGATGACAATTTCTCATTACTTTTCTTGAATTGAGTGGCT
**
41864779 TATGACAGGAACTTGATTATTACCAAATGCAATCAAATTTCAAATTTTGGTTGAAAAGGATTGGG
325 TATGACAGGAACTTGATTATTACCAAATGCAATCAAATTTCAAATTTTGGTTGAAAAGGAACGGG
41864844 TTTATGATTTTCTAATCAAGTTGAACAATGAGTATAATTAGATCAAGATACAAGTTCTTGGAAAA
390 TTTATGATTTTCTAATCAAGTTGAACAATGAGTATAATTAGATCAAGATACAAGTTCTTGGAAAA
* * * *
41864909 AACCCTTTTTTCCTTCTCTCGAGCAAAGCATATTCCC
455 AACCCCTTTCTCCTTCACTCGACCAAAGCATATTCCC
41864946 A
1 A
41864947 TGTCCAGCAA
Statistics
Matches: 470, Mismatches: 20, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
490 433 0.92
491 37 0.08
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (491 bp):
ACCTTGCATTGTCACTTTCTTTCTTATTGATCATTTTGACTAAAGAATTGCAAGGTTATATTAAT
GGTGATAAGTGGAAACAATTGATAAAAGATCCCACCTTTAATCAGTGAGACTTAGAGAACTCACT
TGTTATGGCACGGCTTATCAACTCTATGCAGCCCCAAATTTCCTGAGCATACGACATTGCAGAAA
AAACATGAAATGCAATCTTACCAACTCACAAACGAGAATGAAGTTTACATCTTTGAATTTTGGGA
TAAAGTCCATAGCACAAAGCAAGGTGATGACAATTTCTCATTACTTTTCTTGAATTGAGTGGCTT
ATGACAGGAACTTGATTATTACCAAATGCAATCAAATTTCAAATTTTGGTTGAAAAGGAACGGGT
TTATGATTTTCTAATCAAGTTGAACAATGAGTATAATTAGATCAAGATACAAGTTCTTGGAAAAA
ACCCCTTTCTCCTTCACTCGACCAAAGCATATTCCC
Found at i:41868504 original size:19 final size:19
Alignment explanation
Indices: 41868480--41868518 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
41868470 ACCACACAAA
41868480 TCAATAGAATTATCATCTT
1 TCAATAGAATTATCATCTT
41868499 TCAATAGAATTATCATCTT
1 TCAATAGAATTATCATCTT
41868518 T
1 T
41868519 TTCTCAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (19 bp):
TCAATAGAATTATCATCTT
Found at i:41872618 original size:27 final size:27
Alignment explanation
Indices: 41872549--41872604 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
41872539 AAAATATATG
41872549 ATTAGAAATTAATTAATAATATTTAAA
1 ATTAGAAATTAATTAATAATATTTAAA
41872576 ATTAGAAATTAATTAATAATATTTAAA
1 ATTAGAAATTAATTAATAATATTTAAA
41872603 AT
1 AT
41872605 ATATTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (27 bp):
ATTAGAAATTAATTAATAATATTTAAA
Found at i:41876233 original size:27 final size:27
Alignment explanation
Indices: 41876203--41876256 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
41876193 TGTCATGTGA
* *
41876203 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
41876230 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
41876257 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:41883581 original size:123 final size:123
Alignment explanation
Indices: 41883411--41883658 Score: 410
Period size: 123 Copynumber: 2.0 Consensus size: 123
41883401 GTAAGTATCT
* *
41883411 AGCCATAACGTCTAGACTGGGTTTGGGAGGTTACAACTCTGGGCTCTACTCGA-CATCAAAATCA
1 AGCCATAACGTCTAGACCGGGTTTGAGAGGTTACAACTCTGGGCTCTACTC-ACCATCAAAATCA
*
41883475 AGATTATTCTAATCTCTTTTCTCTTTCAATTCAATCGTGTTCTTTACATGTTTTATTCA
65 AGATTATTCTAATCTCTTTTCTCTTTCAATTCAATCATGTTCTTTACATGTTTTATTCA
* * *
41883534 AGCCATAATGTTTAGACCGGGTTTGAGAGGTT-CAAACTCTGGGCTCTACTCACCATCAAAATTA
1 AGCCATAACGTCTAGACCGGGTTTGAGAGGTTAC-AACTCTGGGCTCTACTCACCATCAAAATCA
41883598 AGATTATTCTAATCTCTTTTCTCTTTCAATTCAATCATGTTCTTTACATGTTTTATTCA
65 AGATTATTCTAATCTCTTTTCTCTTTCAATTCAATCATGTTCTTTACATGTTTTATTCA
41883657 AG
1 AG
41883659 TGAGATTTCG
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
122 2 0.02
123 115 0.98
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.39
Consensus pattern (123 bp):
AGCCATAACGTCTAGACCGGGTTTGAGAGGTTACAACTCTGGGCTCTACTCACCATCAAAATCAA
GATTATTCTAATCTCTTTTCTCTTTCAATTCAATCATGTTCTTTACATGTTTTATTCA
Found at i:41886171 original size:93 final size:93
Alignment explanation
Indices: 41886059--41886230 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
41886049 CGCCCATAAG
* * *
41886059 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
41886124 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
41886152 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
41886217 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
41886231 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:41886227 original size:46 final size:46
Alignment explanation
Indices: 41886052--41886227 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
41886042 TGTAACCCGC
* * *
41886052 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
41886098 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
41886148 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
41886191 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
41886228 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:41889415 original size:27 final size:27
Alignment explanation
Indices: 41889367--41889448 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
41889357 CAAAATACAT
* ** *
41889367 CACAAAGGCGATCCATATAGAGTATGC
1 CACAAAGGCTATAAATACAGAGTATGC
41889394 CACAAAGGCTATAAATACAGAGTATGC
1 CACAAAGGCTATAAATACAGAGTATGC
*
41889421 CACAAAGGCTATATATACAGAGTATGC
1 CACAAAGGCTATAAATACAGAGTATGC
41889448 C
1 C
41889449 TGTAACACCC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.20
Consensus pattern (27 bp):
CACAAAGGCTATAAATACAGAGTATGC
Found at i:41890591 original size:110 final size:110
Alignment explanation
Indices: 41890446--41890839 Score: 488
Period size: 110 Copynumber: 3.6 Consensus size: 110
41890436 CATGATGTTG
* ** * * * **
41890446 CTCACACAAGCTGCAGAGAATCTGCAACATGTGTAGGATCTTAAGCTATCATTACGGTTTGTATC
1 CTCACACAAGCTGCAGAGAATCCGCAACACATGCAGGATCTCAAGCCATCGCTACGGTTTGTATC
* * * * *
41890511 AGCGA-TACATAGTAGC-TACTAAATAATCATTGGTTCAC-AGTGCTG
66 A-CTAGTACATAGTA-CTTGCTAAATAATCACTGGATCACGA-TGCTA
* * * * *
41890556 CTCACACAAGCTGTAGAGAATCCGCAACACATGTAGGATCTCAAGCTATCTCTACAGTTTGTATC
1 CTCACACAAGCTGCAGAGAATCCGCAACACATGCAGGATCTCAAGCCATCGCTACGGTTTGTATC
*
41890621 ACTAGTACATAGTACTTGCTAAATAATCACTGGATCATGATGCTA
66 ACTAGTACATAGTACTTGCTAAATAATCACTGGATCACGATGCTA
* * * * * *
41890666 CTCACACAAGCTGTAGAGATTCTGCAACACATGCAAGATCTTAAGCCATCGCTACGGTTTATATC
1 CTCACACAAGCTGCAGAGAATCCGCAACACATGCAGGATCTCAAGCCATCGCTACGGTTTGTATC
* *
41890731 ACTAGTACATAGTACTTGCTAAATAATCACGGGCTCACGATGCTA
66 ACTAGTACATAGTACTTGCTAAATAATCACTGGATCACGATGCTA
*
41890776 CTCACACAAGCTGCAAAGAATCCGCAACACATGCAGGATCTCAAGCCATCGCTACGGTTTGTAT
1 CTCACACAAGCTGCAGAGAATCCGCAACACATGCAGGATCTCAAGCCATCGCTACGGTTTGTAT
41890840 TACCGACTCA
Statistics
Matches: 248, Mismatches: 33, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
109 3 0.01
110 244 0.98
111 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (110 bp):
CTCACACAAGCTGCAGAGAATCCGCAACACATGCAGGATCTCAAGCCATCGCTACGGTTTGTATC
ACTAGTACATAGTACTTGCTAAATAATCACTGGATCACGATGCTA
Found at i:41890782 original size:220 final size:220
Alignment explanation
Indices: 41890435--41890839 Score: 546
Period size: 220 Copynumber: 1.8 Consensus size: 220
41890425 TCTAACTTGC
* * ** * * * *
41890435 TCATGATGTTGCTCACACAAGCTGCAGAGAATCTGCAACATGTGTAGGATCTTAAGCTATCATTA
1 TCATGATGCTACTCACACAAGCTGCAGAGAATCTGCAACACATGCAAGATCTTAAGCCATCACTA
* ** * *
41890500 CGGTTTGTATCAGCGATACATAGTAGCTACTAAATAATCATTGGTTCACAGTGCTGCTCACACAA
66 CGGTTTATATCAGCGATACATAGTAGCTACTAAATAATCACGGGCTCACAGTGCTACTCACACAA
* * * * *
41890565 GCTGTAGAGAATCCGCAACACATGTAGGATCTCAAGCTATCTCTACAGTTTGTATCACTAGTACA
131 GCTGCAAAGAATCCGCAACACATGCAGGATCTCAAGCCATCGCTACAGTTTGTATCACTAGTACA
41890630 TAGTACTTGCTAAATAATCACTGGA
196 TAGTACTTGCTAAATAATCACTGGA
* * *
41890655 TCATGATGCTACTCACACAAGCTGTAGAGATTCTGCAACACATGCAAGATCTTAAGCCATCGCTA
1 TCATGATGCTACTCACACAAGCTGCAGAGAATCTGCAACACATGCAAGATCTTAAGCCATCACTA
* *
41890720 CGGTTTATATCA-CTAGTACATAGTA-CTTGCTAAATAATCACGGGCTCAC-GATGCTACTCACA
66 CGGTTTATATCAGCGA-TACATAGTAGC-TACTAAATAATCACGGGCTCACAG-TGCTACTCACA
*
41890782 CAAGCTGCAAAGAATCCGCAACACATGCAGGATCTCAAGCCATCGCTACGGTTTGTAT
128 CAAGCTGCAAAGAATCCGCAACACATGCAGGATCTCAAGCCATCGCTACAGTTTGTAT
41890840 TACCGACTCA
Statistics
Matches: 158, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
219 4 0.03
220 154 0.97
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (220 bp):
TCATGATGCTACTCACACAAGCTGCAGAGAATCTGCAACACATGCAAGATCTTAAGCCATCACTA
CGGTTTATATCAGCGATACATAGTAGCTACTAAATAATCACGGGCTCACAGTGCTACTCACACAA
GCTGCAAAGAATCCGCAACACATGCAGGATCTCAAGCCATCGCTACAGTTTGTATCACTAGTACA
TAGTACTTGCTAAATAATCACTGGA
Found at i:41903710 original size:27 final size:28
Alignment explanation
Indices: 41903650--41903722 Score: 103
Period size: 27 Copynumber: 2.6 Consensus size: 28
41903640 TTTAAAATTG
**
41903650 TATAGCACTAAGTGTGCGAATTTGATTA
1 TATAGCACTAAGTGTGCGAAGCTGATTA
* *
41903678 TATAGCACTATGTGTGCG-AGCTGATTT
1 TATAGCACTAAGTGTGCGAAGCTGATTA
41903705 TATAGCACTAAGTGTGCG
1 TATAGCACTAAGTGTGCG
41903723 GATTCACTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAAGCTGATTA
Found at i:41910300 original size:23 final size:23
Alignment explanation
Indices: 41910249--41910376 Score: 75
Period size: 23 Copynumber: 5.5 Consensus size: 23
41910239 CATAGCTCGT
* *
41910249 AAGAGCTTACTATTTCAGCTCAT
1 AAGAGCTTACTAATTCAGCTCAA
** *
41910272 TGGAGCTTACTAATTCAGCTGAA
1 AAGAGCTTACTAATTCAGCTCAA
* * *
41910295 AAGAGCTGACT-GTTCAACTCAA
1 AAGAGCTTACTAATTCAGCTCAA
* *
41910317 TAGAGCTTACCGT-TTTCAGCTCAA
1 AAGAGCTTA-C-TAATTCAGCTCAA
*
41910341 TAA-AGCTTACTATTATT-AGCTCATG
1 -AAGAGCTTACTA--ATTCAGCTCA-A
41910366 AAGAGCTTACT
1 AAGAGCTTACT
41910377 GACCATGTTT
Statistics
Matches: 79, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
22 16 0.20
23 28 0.35
24 24 0.30
25 11 0.14
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (23 bp):
AAGAGCTTACTAATTCAGCTCAA
Found at i:41910361 original size:24 final size:24
Alignment explanation
Indices: 41910252--41910376 Score: 66
Period size: 24 Copynumber: 5.3 Consensus size: 24
41910242 AGCTCGTAAG
* **
41910252 AGCTTACTA-TTTCAGCTCATTGG
1 AGCTTACTATTTTCAGCTCAATAA
* *
41910275 AGCTTACTA-ATTCAGCTGAA-AA
1 AGCTTACTATTTTCAGCTCAATAA
* * * *
41910297 GAGCTGAC--TGTTCAACTCAATAG
1 -AGCTTACTATTTTCAGCTCAATAA
**
41910320 AGCTTACCGTTTTCAGCTCAATAA
1 AGCTTACTATTTTCAGCTCAATAA
41910344 AGCTTACTATTATT-AGCTC-ATGAA
1 AGCTTACTATT-TTCAGCTCAAT-AA
41910368 GAGCTTACT
1 -AGCTTACT
41910377 GACCATGTTT
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
22 14 0.18
23 26 0.33
24 28 0.36
25 10 0.13
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (24 bp):
AGCTTACTATTTTCAGCTCAATAA
Found at i:41917866 original size:23 final size:23
Alignment explanation
Indices: 41917840--41917929 Score: 69
Period size: 23 Copynumber: 4.0 Consensus size: 23
41917830 GACTCACCAT
*
41917840 AGCTTGTAAGAGCTTACTGTTTC
1 AGCTTGAAAGAGCTTACTGTTTC
* ** *
41917863 AGC-TCATTGGAGCTTACTGGTTC
1 AGCTTGA-AAGAGCTTACTGTTTC
* *
41917886 ATCTTGAAAGAGCTTATTGTTT-
1 AGCTTGAAAGAGCTTACTGTTTC
*
41917908 AGC-TCAACAGAGCTTACTGTTT
1 AGCTTGAA-AGAGCTTACTGTTT
41917930 TTAGCTCAAT
Statistics
Matches: 50, Mismatches: 14, Indels: 7
0.70 0.20 0.10
Matches are distributed among these distances:
21 3 0.06
22 16 0.32
23 29 0.58
24 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (23 bp):
AGCTTGAAAGAGCTTACTGTTTC
Found at i:41917922 original size:22 final size:24
Alignment explanation
Indices: 41917894--41917949 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
41917884 TCATCTTGAA
41917894 AGAGCTTA-T-TGTTTAGCTCAAC
1 AGAGCTTACTGTGTTTAGCTCAAC
* *
41917916 AGAGCTTACTGTTTTTAGCTCAAT
1 AGAGCTTACTGTGTTTAGCTCAAC
41917940 AGAGCTTACT
1 AGAGCTTACT
41917950 ATTATCAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 8 0.27
23 1 0.03
24 21 0.70
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (24 bp):
AGAGCTTACTGTGTTTAGCTCAAC
Found at i:41917959 original size:24 final size:24
Alignment explanation
Indices: 41917908--41917961 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
41917898 CTTATTGTTT
* * *
41917908 AGCTCAACAGAGCTTACTGTTTTT
1 AGCTCAACAGAGCTTACTATTATC
*
41917932 AGCTCAATAGAGCTTACTATTATC
1 AGCTCAACAGAGCTTACTATTATC
41917956 AGCTCA
1 AGCTCA
41917962 TGAAGAGCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (24 bp):
AGCTCAACAGAGCTTACTATTATC
Found at i:41920624 original size:19 final size:19
Alignment explanation
Indices: 41920579--41920633 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
41920569 ATAAACATGT
41920579 TAGATGGTGCATGCTTTAA
1 TAGATGGTGCATGCTTTAA
* ** * *
41920598 AATTTGGTTCATGCTTTTA
1 TAGATGGTGCATGCTTTAA
41920617 TAGATGGTGCATGCTTT
1 TAGATGGTGCATGCTTT
41920634 GGCAGAATAG
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.44
Consensus pattern (19 bp):
TAGATGGTGCATGCTTTAA
Found at i:41923054 original size:15 final size:17
Alignment explanation
Indices: 41923034--41923070 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
41923024 GTCAAACATG
41923034 ATTATAAT-TATGG-TA
1 ATTATAATATATGGTTA
*
41923049 ATTATAATATTTGGTTA
1 ATTATAATATATGGTTA
41923066 ATTAT
1 ATTAT
41923071 TATGATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 4 0.21
17 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
ATTATAATATATGGTTA
Found at i:41926097 original size:48 final size:48
Alignment explanation
Indices: 41926022--41926291 Score: 283
Period size: 48 Copynumber: 5.6 Consensus size: 48
41926012 GTAGATTGCT
* * * **
41926022 GATGCCATGTTCTAGACATGGTCTTACACTGGCTCACATGTCGAGGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * *
41926070 GATTCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCC
* * * * * *
41926118 GATGCCATGTCCTAGACATGGTTTTACACTAGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * * * * **
41926166 GATGCCATGTCCCAAACTTGGTCTTACACTAGCACACATATCAACACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * * *
41926214 AATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCC
41926262 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
41926292 AGCACACAAA
Statistics
Matches: 184, Mismatches: 35, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
47 2 0.01
48 179 0.97
49 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
Found at i:41926188 original size:96 final size:96
Alignment explanation
Indices: 41926022--41926304 Score: 327
Period size: 96 Copynumber: 2.9 Consensus size: 96
41926012 GTAGATTGCT
* * ** *
41926022 GATGCCATGTTCTAGACATGGTCTTACACTGGCTCACATGTCGAGGTTGATTCCATGTCCCAGAC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGAC
* * * ****
41926087 ATGGTCTTACACTGGCTCTCATAAT-GTGGCC
66 ATGGTCTTACACTAGCACACAT-ATCAACACC
* * * * * *
41926118 GATGCCATGTCCTAGACATGGTTTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAAAC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGAC
*
41926183 TTGGTCTTACACTAGCACACATATCAACACC
66 ATGGTCTTACACTAGCACACATATCAACACC
* * *
41926214 AATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCCATGTCCCAGA
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCCGATGCCATGTCCCAGA
*
41926278 CATGGTCTTACACTAGCACACAAATCA
65 CATGGTCTTACACTAGCACACATATCA
41926305 CCCAATTGTC
Statistics
Matches: 155, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
95 2 0.01
96 151 0.97
97 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (96 bp):
GATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCACACATATCAACACC
Found at i:41930935 original size:20 final size:20
Alignment explanation
Indices: 41930910--41930956 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
41930900 ATAAATAAAA
41930910 TCATTCATGTCAATTCCTTG
1 TCATTCATGTCAATTCCTTG
41930930 TCATTCATGTCAATTCCTTG
1 TCATTCATGTCAATTCCTTG
41930950 TCATTCA
1 TCATTCA
41930957 CTGAAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.45
Consensus pattern (20 bp):
TCATTCATGTCAATTCCTTG
Found at i:41931177 original size:21 final size:21
Alignment explanation
Indices: 41931151--41931271 Score: 113
Period size: 21 Copynumber: 5.9 Consensus size: 21
41931141 TGAATACGCC
* *
41931151 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGTTG
*
41931172 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGTTG
** *
41931193 AACA-AAAAT-TTGAA-AGTTG
1 AACAGAAGCTCAT-AAGAGTTG
* *
41931212 AACAGAAGCTCGTAAGAGTTA
1 AACAGAAGCTCATAAGAGTTG
* **
41931233 AACAAAAAATCATAAGAGTTG
1 AACAGAAGCTCATAAGAGTTG
41931254 AACAGAAGCTCATAAGAG
1 AACAGAAGCTCATAAGAG
41931272 GAGAATAGAA
Statistics
Matches: 79, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
19 9 0.11
20 10 0.13
21 60 0.76
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGTTG
Found at i:41931228 original size:40 final size:42
Alignment explanation
Indices: 41931163--41931271 Score: 143
Period size: 40 Copynumber: 2.6 Consensus size: 42
41931153 CAGAAGCTCG
* * *
41931163 TAAGAGCTGAACAGAAGCTCATAAGAGCTGAAC-AAAAAT-T
1 TAAGAGTTGAACAGAAGCTCATAAGAGCTAAACAAAAAATCA
* *
41931203 TGAA-AGTTGAACAGAAGCTCGTAAGAGTTAAACAAAAAATCA
1 T-AAGAGTTGAACAGAAGCTCATAAGAGCTAAACAAAAAATCA
41931245 TAAGAGTTGAACAGAAGCTCATAAGAG
1 TAAGAGTTGAACAGAAGCTCATAAGAG
41931272 GAGAATAGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
40 26 0.44
41 10 0.17
42 23 0.39
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.18
Consensus pattern (42 bp):
TAAGAGTTGAACAGAAGCTCATAAGAGCTAAACAAAAAATCA
Found at i:41931440 original size:17 final size:17
Alignment explanation
Indices: 41931420--41931464 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
41931410 AAATCCAATT
41931420 CAATATTATAATTCCAA
1 CAATATTATAATTCCAA
*
41931437 CAATAATT-CAATTCCAA
1 CAAT-ATTATAATTCCAA
*
41931454 CAATATAATAA
1 CAATATTATAA
41931465 ATAAATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.09
17 18 0.78
18 3 0.13
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (17 bp):
CAATATTATAATTCCAA
Found at i:41932439 original size:28 final size:28
Alignment explanation
Indices: 41932402--41932462 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
41932392 CAGTATCAGT
* *
41932402 ACAGTTTGGGCCTT-AGCCCTATATAGTA
1 ACAGTGTGGG-CTTAAGCCCAATATAGTA
41932430 ACAGTGTGGGCTTAAGCCCAATATAGTA
1 ACAGTGTGGGCTTAAGCCCAATATAGTA
*
41932458 TCAGT
1 ACAGT
41932463 ACAGTCCAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (28 bp):
ACAGTGTGGGCTTAAGCCCAATATAGTA
Found at i:41952448 original size:40 final size:40
Alignment explanation
Indices: 41952403--41952570 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
41952393 CGGAATACAA
41952403 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * * *
41952443 CCGGATATAACGACTCGCACAAATGCCTTCGGATATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
41952483 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* ** *
41952523 TCGGATATAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
41952563 CCGGATAT
1 CCGGATAT
41952571 CATTCAATTG
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 107 0.98
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:41952543 original size:80 final size:80
Alignment explanation
Indices: 41952403--41952570 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 80
41952393 CGGAATACAA
* *
41952403 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
41952468 CCTTCGGATATTAGC
66 CCTTCGGATATTAAC
** * * *
41952483 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCTCGGATATAGTC-ACTAGCACAATT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
* *
41952547 GCCTTCGGGTCTTAAC
65 GCCTTCGGATATTAAC
41952563 CCGGATAT
1 CCGGATAT
41952571 CATTCAATTG
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 76 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGATATTAAC
Found at i:41952676 original size:124 final size:125
Alignment explanation
Indices: 41952527--41952752 Score: 312
Period size: 124 Copynumber: 1.8 Consensus size: 125
41952517 CTTAGCTCGG
* * * * * *
41952527 ATATAGTCACTAGCACAATTGCCTTCGGGTCTTAACCC-GGATATCATTCAATTGCTCATGCACA
1 ATATAATCACTAGCACAATTGCCTTCGGGACTTAACCCAGG-TACCATTCAAATACTCATACACA
* *
41952591 CATACATCAATAATCATTACACATTCAT-GTTTCATTTTCGTTACTAAGGCTCAAACACAA
65 CATACATCAATAATCATTACACATCCATAATTTCATTTTCGTTACTAAGGCTCAAACACAA
* *
41952651 ATATAATCACTAGCATAATTGCCTTCGGGACTTAGCCCAGGTACCATTCAAATACTCATACACAC
1 ATATAATCACTAGCACAATTGCCTTCGGGACTTAACCCAGGTACCATTCAAATACTCATACACAC
* * *
41952716 GTATATCAGTAATCATTACACATCCATAATTTCATTT
66 ATACATCAATAATCATTACACATCCATAATTTCATTT
41952753 CACATAATTC
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
124 77 0.89
125 10 0.11
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (125 bp):
ATATAATCACTAGCACAATTGCCTTCGGGACTTAACCCAGGTACCATTCAAATACTCATACACAC
ATACATCAATAATCATTACACATCCATAATTTCATTTTCGTTACTAAGGCTCAAACACAA
Found at i:41960433 original size:40 final size:40
Alignment explanation
Indices: 41960388--41960553 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
41960378 CGGAATACAA
41960388 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
41960428 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
41960468 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG-
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
** *
41960507 CCGGATA-AGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
41960546 CCGGATAT
1 CCGGATAT
41960554 CATTCAATTG
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
37 2 0.02
38 22 0.20
39 14 0.13
40 71 0.65
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:41967527 original size:29 final size:29
Alignment explanation
Indices: 41967493--41967565 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
41967483 GTGACGAGAT
41967493 TGGCACTAAGTGTGCAAACTTGAGATGTA
1 TGGCACTAAGTGTGCAAACTTGAGATGTA
41967522 TGGCACTAAGTGTGCAAACTTGAGATGTA
1 TGGCACTAAGTGTGCAAACTTGAGATGTA
41967551 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
41967566 GAGCTCAACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAACTTGAGATGTA
Found at i:41967663 original size:24 final size:24
Alignment explanation
Indices: 41967631--41967693 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
41967621 AATCTCAATT
41967631 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
41967655 GCACTATGTGTGCGATTTATTATG
1 GCACTATGTGTGCGATTTACTATG
41967679 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
41967694 ACATAATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:41974976 original size:40 final size:41
Alignment explanation
Indices: 41974909--41975129 Score: 332
Period size: 40 Copynumber: 5.6 Consensus size: 41
41974899 AACCCAAGTA
* *
41974909 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
41974948 CCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACT-AGCACAAATG
*
41974988 CCTTCGGGTCTTAGCCCGGATATAGTCAA-TAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
41975028 CCTTC-GGACTTGGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
41975067 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
41975107 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
41975130 CATTCGAATA
Statistics
Matches: 170, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
38 1 0.01
39 48 0.28
40 118 0.69
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:41975051 original size:79 final size:80
Alignment explanation
Indices: 41974909--41975129 Score: 319
Period size: 79 Copynumber: 2.8 Consensus size: 80
41974899 AACCCAAGTA
* *
41974909 CCTTCGGGAT-TTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGG-TCTTAGCCCGGATATAGTCAA-TAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
41974971 AG-CAACTCA-CACAAATG
64 AGTC-ACT-AGCACAAATG
*
41974988 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATGCCTTC-GGACTTGGCCCGGATATAG
1 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
41975052 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* *
41975067 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
41975130 CATTCGAATA
Statistics
Matches: 130, Mismatches: 6, Indels: 11
0.88 0.04 0.07
Matches are distributed among these distances:
78 2 0.02
79 83 0.64
80 42 0.32
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:41977971 original size:40 final size:40
Alignment explanation
Indices: 41977851--41977972 Score: 149
Period size: 40 Copynumber: 3.1 Consensus size: 40
41977841 ACCCAAGTAT
*
41977851 CTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACAAATGC
* * * * *
41977890 CGTCGAGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAA-CAACTCGCACAAATGC
* *
41977930 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACAAATGC
41977970 CTT
1 CTT
41977973 TGGATCTTAG
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
39 10 0.15
40 56 0.84
41 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:41980891 original size:29 final size:29
Alignment explanation
Indices: 41980858--41980989 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
41980848 CCTTCGAGCT
* *
41980858 CGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTCAGTGCCATATATTTCCAGCA
* *
41980887 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTCAGTGCCATATATTTCCAGCA
*
41980916 TGCACACTCAGTGCCATATATTTCCAGCA
1 CGCACACTCAGTGCCATATATTTCCAGCA
*
41980945 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTCAGTGCCATATATTTCCAGCA
*
41980974 CGCACACTTAGTGCCA
1 CGCACACTCAGTGCCA
41980990 ATCTCGTCAC
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 96 1.00
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTCAGTGCCATATATTTCCAGCA
Found at i:41980892 original size:58 final size:58
Alignment explanation
Indices: 41980829--41980989 Score: 189
Period size: 58 Copynumber: 2.8 Consensus size: 58
41980819 GATTTAAGCC
* * * *
41980829 CGCACACATAGTGCCATAGCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATAGACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * *
41980887 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAGACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
* * * **
41980945 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATAGACTTCCAGCATGCACACCCAGTGCCA
41980990 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
58 90 0.99
59 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATAGACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:41980921 original size:87 final size:86
Alignment explanation
Indices: 41980800--41980989 Score: 222
Period size: 87 Copynumber: 2.2 Consensus size: 86
41980790 TACTCGATTT
* * * *
41980800 TGCACACTTAGTGCCATTCGATTTAAGCCCGCACACAT-AGTGCCATAGCCTTCGAGCTCGCACA
1 TGCACACTTAGTGCCATTC-ATTTAAGCACGCACAC-TCAGTGCCATAGACTTCCAGCACGCACA
*
41980864 CCCAGTGCCGTATATTTCCAGCA
64 CCCAGTGCCATATATTTCCAGCA
* * * *
41980887 TGCACACTTAGTGCCATAT-ATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCACGCACA
1 TGCACACTTAGTGCCAT-TCATTT-AAGCACGCACACTCAGTGCCATAGACTTCCAGCACGCACA
**
41980951 CTTAGTGCCATATATTTCCAGCA
64 CCCAGTGCCATATATTTCCAGCA
*
41980974 CGCACACTTAGTGCCA
1 TGCACACTTAGTGCCA
41980990 ATCTCGTCAC
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
86 5 0.06
87 82 0.93
88 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (86 bp):
TGCACACTTAGTGCCATTCATTTAAGCACGCACACTCAGTGCCATAGACTTCCAGCACGCACACC
CAGTGCCATATATTTCCAGCA
Found at i:41987518 original size:40 final size:40
Alignment explanation
Indices: 41987397--41987579 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
41987387 TATTCGAATG
* *
41987397 ATATCCGGGCAAAGTCCCGAAGGC-TTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
41987437 ATAACCGGACTAAGATCC-AAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
*
41987476 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
41987516 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
41987556 ATATCCGGGCTAAGACTCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
41987580 CTTGTGCAAG
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
39 24 0.20
40 97 0.80
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:41987564 original size:80 final size:79
Alignment explanation
Indices: 41987397--41987586 Score: 233
Period size: 79 Copynumber: 2.4 Consensus size: 79
41987387 TATTCGAATG
* * *
41987397 ATATCCGGGCAAAGTCCCGAAGGCTTTGTGCTAGGTGACTATAACCGGACTAAGATCCAAGGCAT
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGGCGACTATAACCGGACTAAGATCCAAGGCAT
*
41987462 TCGTGCGAGTTGCT
66 TCATGCGAGTTGCT
* *
41987476 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGGCGACTATAACCGGACTAAGAT-CC-AAGG
* *
41987539 CATTTATGCTAG-TGACT
63 CATTCATGCGAGTTG-CT
* *
41987556 ATATCCGGGCTAAGACTCGAAGGCCTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGC
41987587 AAGTAGTTAT
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 49 0.51
80 47 0.48
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGGCGACTATAACCGGACTAAGATCCAAGGCAT
TCATGCGAGTTGCT
Found at i:41995285 original size:40 final size:41
Alignment explanation
Indices: 41995191--41995411 Score: 255
Period size: 40 Copynumber: 5.6 Consensus size: 41
41995181 TATTCGAATG
*
41995191 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTA-GTGACT
* * * *
41995232 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
41995272 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
*
41995312 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
41995352 ATATCCGGGCTAAGA-CCCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGA-CT
41995391 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
41995412 ATTACTTGAG
Statistics
Matches: 156, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 16 0.10
40 95 0.61
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:41999663 original size:40 final size:40
Alignment explanation
Indices: 41999596--41999767 Score: 217
Period size: 40 Copynumber: 4.3 Consensus size: 40
41999586 ACCCAAGTAT
* *
41999596 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCACACAAATGC
41999635 CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
* * *
41999675 CTTCGGGTCTTAGCTCGGATATAATC-ACT-AGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCA-CACAAATGC
* *
41999715 CTTCGGGACATAGCCCGGATATAGCAACTCACACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
*
41999755 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
41999768 TCTGGTTATC
Statistics
Matches: 114, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 96 0.84
41 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
Found at i:41999729 original size:80 final size:79
Alignment explanation
Indices: 41999596--41999767 Score: 258
Period size: 80 Copynumber: 2.2 Consensus size: 79
41999586 ACCCAAGTAT
* * *
41999596 CTTCGGGAT-TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGG-TCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGC
41999660 AACTCACACAAATGC
65 AACTCACACAAATGC
*
41999675 CTTCGGGTCTTAGCTCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAG
1 CTTCGGGTCTTAGC-CGGATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAG
41999739 CAACTCACACAAATGC
64 CAACTCACACAAATGC
*
41999755 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
41999768 TCTGGTTATC
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
78 1 0.01
79 12 0.14
80 71 0.84
81 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCA
ACTCACACAAATGC
Found at i:42003868 original size:43 final size:44
Alignment explanation
Indices: 42003820--42003929 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
42003810 AAGGTAAATC
*
42003820 CAACAACCC-ATGTTTATCTTC-TCTTATTTTTAAATTC-TTTTTT
1 CAACAACCCAATATTT-TCTTCTTC-TATTTTTAAATTCATTTTTT
* *
42003863 CAACAACCCAATATTTTCTTCTTCTCTTTTTACATTCATTTTTT
1 CAACAACCCAATATTTTCTTCTTCTATTTTTAAATTCATTTTTT
* *
42003907 CAACAACCGAATATTATCTTCTT
1 CAACAACCCAATATTTTCTTCTT
42003930 TTGAAATTCT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
43 25 0.42
44 34 0.58
ACGTcount: A:0.25, C:0.24, G:0.02, T:0.49
Consensus pattern (44 bp):
CAACAACCCAATATTTTCTTCTTCTATTTTTAAATTCATTTTTT
Found at i:42004444 original size:27 final size:27
Alignment explanation
Indices: 42004360--42004464 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 27
42004350 CCATATTTCA
** *
42004360 CCACAAA-GCTTCCTTTATTTAGATTG
1 CCACAAAGGCTTCCTTTACATAGATAG
** * * *
42004386 TTACAAGGGCTTCCTTTACATGGTTAG
1 CCACAAAGGCTTCCTTTACATAGATAG
*
42004413 ACACAAAGGCTTCCTTTACATAGATAG
1 CCACAAAGGCTTCCTTTACATAGATAG
* * *
42004440 CCACAAAGGCTCCCATTACAGAGAT
1 CCACAAAGGCTTCCTTTACATAGAT
42004465 TGCCCCAAGG
Statistics
Matches: 61, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
26 4 0.07
27 57 0.93
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (27 bp):
CCACAAAGGCTTCCTTTACATAGATAG
Found at i:42007837 original size:40 final size:40
Alignment explanation
Indices: 42007776--42007959 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
42007766 TATTCGAATG
* *
42007776 ATATCCGAGCTAAG-TCTCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTATGCTAGTGACT
* * * * *
42007816 ATATCCAGACTAAGATCCGAAGGCATTTGTACGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
42007856 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
42007896 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTTACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
42007936 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
42007960 CTTGTGCGAG
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 115 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:42007909 original size:80 final size:80
Alignment explanation
Indices: 42007776--42007959 Score: 235
Period size: 80 Copynumber: 2.3 Consensus size: 80
42007766 TATTCGAATG
* * * * *
42007776 ATATCCGAGCTAAGTCTCGAAGGCTTTTATGCTAGTGACTATATCCAGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCAGACTAAG-TCCCGAAGGC
* * *
42007840 ATTTGTACGAGTTGCT
65 ATTTATACGAGTTACC
* * *
42007856 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCAGACTAAGTCCCGAAGGCA
* *
42007921 TTTATGCTAGTTACC
66 TTTATACGAGTTACC
42007936 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
42007960 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
79 1 0.01
80 89 0.99
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCAGACTAAGTCCCGAAGGCA
TTTATACGAGTTACC
Found at i:42010821 original size:11 final size:11
Alignment explanation
Indices: 42010805--42010830 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
42010795 ACAAAATAAT
42010805 CATACATTTCA
1 CATACATTTCA
42010816 CATACATTTCA
1 CATACATTTCA
42010827 CATA
1 CATA
42010831 TTCATATAAT
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:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (11 bp):
CATACATTTCA
Found at i:42014168 original size:28 final size:29
Alignment explanation
Indices: 42014136--42014198 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
42014126 TGAATGTGAC
*
42014136 TGGGCCTAACGGG-CATATAAATATGATT
1 TGGGCCTAACGGGCCATATAAAGATGATT
* * *
42014164 TGGGCCTAATGGGCCATATATAGGTGATT
1 TGGGCCTAACGGGCCATATAAAGATGATT
42014193 TGGGCC
1 TGGGCC
42014199 AAAAGAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (29 bp):
TGGGCCTAACGGGCCATATAAAGATGATT
Found at i:42019671 original size:49 final size:50
Alignment explanation
Indices: 42019614--42019722 Score: 127
Period size: 49 Copynumber: 2.2 Consensus size: 50
42019604 GAAAGTTTCA
* *
42019614 TAAA-GCATGCAATAATT-AAA-TCATGAACTTCATTAACATATGAGTTA-T
1 TAAATGCATGAAATAATTAAAACTCA--AACTTCATTAACATATGAGATACT
* *
42019662 TAAATGCATGAAATAATTAAAACTCAAACTTTATTAACATGTGAGATACT
1 TAAATGCATGAAATAATTAAAACTCAAACTTCATTAACATATGAGATACT
*
42019712 TTAATGCATGA
1 TAAATGCATGA
42019723 CTAAATTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
48 4 0.08
49 31 0.60
50 14 0.27
51 3 0.06
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (50 bp):
TAAATGCATGAAATAATTAAAACTCAAACTTCATTAACATATGAGATACT
Found at i:42027164 original size:13 final size:13
Alignment explanation
Indices: 42027146--42027171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42027136 AAGTAATCGT
42027146 ACACGAGCGTGTC
1 ACACGAGCGTGTC
42027159 ACACGAGCGTGTC
1 ACACGAGCGTGTC
42027172 CCTACCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGAGCGTGTC
Found at i:42046345 original size:47 final size:47
Alignment explanation
Indices: 42046271--42046395 Score: 189
Period size: 47 Copynumber: 2.7 Consensus size: 47
42046261 TCATTCGATA
* * * * *
42046271 AGTACCTACACCGTGGCTCGTAACCAAATCAAGGTAACTTATCCTGG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGG
42046318 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGG
*
42046365 AGTACCTATACCATAG-CCGTAGCCAAATCAA
1 AGTACCTATACCATGGCCCGTAGCCAAATCAA
42046396 TGTATCATTC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
46 15 0.21
47 57 0.79
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGG
Found at i:42047912 original size:34 final size:34
Alignment explanation
Indices: 42047836--42047915 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
42047826 GGCCTTAGCC
* *
42047836 CCTTTTTCAGTAATAGTCGCAGTCTGGGCCTGAG
1 CCTTTTTCAGTAATAATCGCAGTCTGGGCCTAAG
** *
42047870 CCCATTTCAGTAATAAT-GATAGTCTGGGCCTAAG
1 CCTTTTTCAGTAATAATCG-CAGTCTGGGCCTAAG
*
42047904 TCTTTTTCAGTA
1 CCTTTTTCAGTA
42047916 CAGTATGCAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
33 1 0.03
34 36 0.97
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (34 bp):
CCTTTTTCAGTAATAATCGCAGTCTGGGCCTAAG
Found at i:42055150 original size:40 final size:40
Alignment explanation
Indices: 42055069--42055285 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
42055059 CAACCCGGTA
* * *
42055069 CCTTCGGGATTTAG-CCGGATATAACT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATAT-AGTAACTCGCACAAATG
* *
42055108 CCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
42055148 CCTTCGGGACTTAGCCTGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42055188 CCTTCGGGACTTTGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
42055228 CCTTCGGG-CTTAGCCCGGA-ATCAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATAT-AGTAACTCGCACAAATG
42055267 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42055286 TTATCATCCG
Statistics
Matches: 159, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.01
39 48 0.30
40 109 0.69
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42058942 original size:12 final size:12
Alignment explanation
Indices: 42058925--42058950 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
42058915 AGGGAGGCAT
42058925 CACTATAAATGA
1 CACTATAAATGA
42058937 CACTATAAATGA
1 CACTATAAATGA
42058949 CA
1 CA
42058951 AACTCTTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (12 bp):
CACTATAAATGA
Found at i:42063284 original size:40 final size:40
Alignment explanation
Indices: 42063223--42063429 Score: 287
Period size: 40 Copynumber: 5.2 Consensus size: 40
42063213 CCTTTTGGAT
* *
42063223 TTAG-CCGGATATAACT-ACTCGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGTAACTCGCACAAATGCCTTCGGGAC
*
42063262 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
42063302 TTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
42063342 TTAGCCCGGATATAGTAACTCGCACGAATGCCTTTGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
42063381 TTAGCTCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
42063421 TTAGCCCGG
1 TTAGCCCGG
42063430 TTATCATCCG
Statistics
Matches: 150, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 38 0.25
40 111 0.74
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:42064004 original size:22 final size:22
Alignment explanation
Indices: 42063979--42064030 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
42063969 ACCACATATA
*
42063979 AATGACATACATTTTACTAACT-
1 AATGACATACATATTA-TAACTC
42064001 AATG-CATTACATATTATAACTC
1 AATGACA-TACATATTATAACTC
42064023 AAT-ACATA
1 AATGACATA
42064031 TCCATCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (22 bp):
AATGACATACATATTATAACTC
Found at i:42077590 original size:37 final size:37
Alignment explanation
Indices: 42077549--42077627 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
42077539 AACATAATAT
42077549 CATACGTGTATGCAGAAATGTCATGCTCAACAACAGC
1 CATACGTGTATGCAGAAATGTCATGCTCAACAACAGC
*
42077586 CATACGTGTATGCAGAAATGTCATGCTCAACAACAGT
1 CATACGTGTATGCAGAAATGTCATGCTCAACAACAGC
42077623 CATAC
1 CATAC
42077628 ATAATACAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (37 bp):
CATACGTGTATGCAGAAATGTCATGCTCAACAACAGC
Found at i:42077968 original size:18 final size:18
Alignment explanation
Indices: 42077945--42077981 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
42077935 CACGGCCCAG
42077945 TTCGGCCCA-GAATATCGT
1 TTCGGCCCATGAA-ATCGT
42077963 TTCGGCCCATGAAATCGT
1 TTCGGCCCATGAAATCGT
42077981 T
1 T
42077982 CATGGCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (18 bp):
TTCGGCCCATGAAATCGT
Found at i:42086814 original size:46 final size:46
Alignment explanation
Indices: 42086717--42086946 Score: 181
Period size: 46 Copynumber: 5.0 Consensus size: 46
42086707 CAAGTTCTAG
* *
42086717 TATATCT-GT-GCCGATGCCATGTCCCAGACACAGTCTTACACTGGC-
1 TATATCTCGTAGCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCT
*
42086762 -ACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
1 TATATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
* * *
42086807 TATATCTCG-AGGTCGATGCATGTCCTAGACATGTCTTACACTAGCAC
1 TATATCTCGTA-GCCGATGCATGTCCCAGACATGTCTTACACTAGC-T
* * * * *
42086854 T-TGTCTCAATA-CTGATGCCTTGTCCCAAACATGGTCTTACACTAGCT
1 TATATCTC-GTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT
* * * *
42086901 CTCATA-AT-GTGGCCGATACATGTCCCAAACATGTCTTACACTAGCT
1 -T-ATATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
42086947 AACACAAGTG
Statistics
Matches: 149, Mismatches: 22, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
44 17 0.11
45 16 0.11
46 69 0.46
47 26 0.17
48 19 0.13
49 1 0.01
50 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
TATATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
Found at i:42090278 original size:40 final size:40
Alignment explanation
Indices: 42090158--42090331 Score: 188
Period size: 40 Copynumber: 4.3 Consensus size: 40
42090148 GTATCCGGCC
* * *
42090158 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAACCGGGT
* *
42090199 TAAGTCTCGAAGGCATTTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCA-TTTGTGCGAGTTACTAAAACCGGGT
* *
42090240 TAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
* * * * * *
42090280 AAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
*
42090319 CAATGTCCCGAAG
1 TAA-GTCCCGAAG
42090332 ACAATCGAGC
Statistics
Matches: 112, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.02
40 61 0.54
41 42 0.38
42 7 0.06
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
Found at i:42098431 original size:41 final size:40
Alignment explanation
Indices: 42098374--42098540 Score: 172
Period size: 40 Copynumber: 4.1 Consensus size: 40
42098364 CGAATGGTAT
* * *
42098374 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGTTAAGTCCCGAAGGCTTTTGTGC-GAGTTACTAAAA
*
42098415 CCGGGTTAAGTCCCGAAGGCATTTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGC-TTTTGTGCGAGTTACTAAAA
* * * *
42098456 TCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCTTTTGTGCGAGTTACTAAAA
* * * ** * * *
42098496 CCGGGTAAATTTCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGTTAAGTCCCGAAGGCTTTTGTGCGAGTTACTAAAA
42098536 CCGGG
1 CCGGG
42098541 AAATGTCCTG
Statistics
Matches: 106, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 51 0.48
41 47 0.44
42 8 0.08
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCTTTTGTGCGAGTTACTAAAA
Found at i:42098501 original size:40 final size:40
Alignment explanation
Indices: 42098372--42098525 Score: 175
Period size: 41 Copynumber: 3.8 Consensus size: 40
42098362 TTCGAATGGT
* * * *
42098372 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
* *
42098413 AACCGGGTTAAGTCCCGAAGGCATTTTGTGCGAGTTACCAAA
1 ATCCGGGTTAAGTCCCGAAGGCA-TTTGTGCGAGTTA-CTAA
*
42098455 AT-CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
42098494 ATCCGGGTAAATTTCCGAAGGCAATTGTGCGA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
42098526 ATCACTATAA
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 5 0.05
40 36 0.38
41 44 0.46
42 11 0.11
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:42098540 original size:40 final size:40
Alignment explanation
Indices: 42098468--42098558 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 40
42098458 GGGTTAAGTC
* * *
42098468 CCGAAGGC-ATTCGTGCGAGTTACTAAATCCGGGTAAATTT
1 CCGAAGGCAATTCGTGCGAATCACTAAATCCGGG-AAATGT
42098508 CCGAAGGCAATT-GTGCGAATCACTATAA-CCGGGAAATGT
1 CCGAAGGCAATTCGTGCGAATCACTA-AATCCGGGAAATGT
*
42098547 CCTGAAGACAAT
1 CC-GAAGGCAAT
42098559 CGAGCTAGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
39 7 0.16
40 32 0.73
41 5 0.11
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGAAGGCAATTCGTGCGAATCACTAAATCCGGGAAATGT
Found at i:42103210 original size:42 final size:42
Alignment explanation
Indices: 42103161--42103269 Score: 191
Period size: 42 Copynumber: 2.6 Consensus size: 42
42103151 AGTATTGGTC
42103161 TCGGCACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGA
1 TCGGCACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGA
* *
42103203 TTGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
1 TCGGCACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGA
*
42103245 TCGGCACTAAGTGTGCGGGTTTAAA
1 TCGGCACTAAGTGTGCGGGTATAAA
42103270 ATTTGTACAG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (42 bp):
TCGGCACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGA
Found at i:42103336 original size:27 final size:28
Alignment explanation
Indices: 42103275--42103347 Score: 103
Period size: 27 Copynumber: 2.6 Consensus size: 28
42103265 TTAAAATTTG
**
42103275 TACAGCACTAAGTGTGCGAATTTGATTA
1 TACAGCACTAAGTGTGCGAAGCTGATTA
* *
42103303 TATAGCACTATGTGTGCG-AGCTGATTA
1 TACAGCACTAAGTGTGCGAAGCTGATTA
42103330 TACAGCACTAAGTGTGCG
1 TACAGCACTAAGTGTGCG
42103348 GACTCACTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (28 bp):
TACAGCACTAAGTGTGCGAAGCTGATTA
Found at i:42115040 original size:39 final size:39
Alignment explanation
Indices: 42114951--42115184 Score: 335
Period size: 39 Copynumber: 6.0 Consensus size: 39
42114941 TCGGTTATGG
* ** * *
42114951 TAACCCGCACAAAGGCCTTCGGGACTTAACCCGGGTATCA
1 TAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
* * *
42114991 CAACTCGCACAATTGCCTTCGGCCTTAGCCCTGATATCA
1 TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
**
42115030 TAACTCGCACAATTGCCTTCGGGCTTAGGTCGGATATCA
1 TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
42115069 TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
* *
42115108 CAATTC-CACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
*
42115146 TAACTCGCACAATCGCCTTCGGGCTTAGCCCGGATATCA
1 TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
42115185 CTCGAACATT
Statistics
Matches: 173, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 36 0.21
39 119 0.69
40 18 0.10
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
Found at i:42115134 original size:116 final size:118
Alignment explanation
Indices: 42114951--42115184 Score: 355
Period size: 116 Copynumber: 2.0 Consensus size: 118
42114941 TCGGTTATGG
*
42114951 TAACCCGCACAAAGGCCTTCGGGACTTAACCCGGGTATCACAACTCGCACAATTGCCTTCGGCCT
1 TAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGCCT
* * **
42115016 TAGCCCTGATATCATAACTCGCACAATTGCCTTCGGGCTTAGGTCGGATATCA
66 TAGCCCGGATATCATAACTCGCACAATCGCCTTCGGGCTTAGCCCGGATATCA
* ** * * *
42115069 TAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTC-CACAATTGCCTTCGGGCT
1 TAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGCCT
42115132 TAGCCCGGATATCATAACTCGCACAATCGCCTTCGGGCTTAGCCCGGATATCA
66 TAGCCCGGATATCATAACTCGCACAATCGCCTTCGGGCTTAGCCCGGATATCA
42115185 CTCGAACATT
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
116 66 0.63
117 19 0.18
118 20 0.19
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (118 bp):
TAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGCCT
TAGCCCGGATATCATAACTCGCACAATCGCCTTCGGGCTTAGCCCGGATATCA
Found at i:42115151 original size:77 final size:78
Alignment explanation
Indices: 42114956--42115185 Score: 336
Period size: 77 Copynumber: 2.9 Consensus size: 78
42114946 TATGGTAACC
** * * * *
42114956 CGCACAAAGGCCTTCGGGACTTAACCCGGGTATCACAACTCGCACAATTGCCTTCGGCCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCC
* *
42115021 CTGATATCATAACT
65 CGGATATCACAACT
**
42115035 CGCACAATTGCCTTCGGGCTTAGGTCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCC
*
42115100 GGATATCACAATT
66 GGATATCACAACT
*
42115113 C-CACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATCGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCC
42115177 GGATATCAC
66 GGATATCAC
42115186 TCGAACATTC
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
77 69 0.50
78 52 0.38
79 16 0.12
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.24
Consensus pattern (78 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGATATCACAACT
Found at i:42124892 original size:20 final size:20
Alignment explanation
Indices: 42124867--42124906 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
42124857 CCTATAACAT
42124867 TGGTGAATCTTATTGTGGTA
1 TGGTGAATCTTATTGTGGTA
42124887 TGGTGAATCTTATTGTGGTA
1 TGGTGAATCTTATTGTGGTA
42124907 AAGCGTTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (20 bp):
TGGTGAATCTTATTGTGGTA
Found at i:42127742 original size:42 final size:42
Alignment explanation
Indices: 42127696--42127802 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
42127686 TATTGGTCTC
42127696 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
42127738 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
42127780 GGCACTAAGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
42127803 ATTTGTACAG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:42127868 original size:27 final size:28
Alignment explanation
Indices: 42127811--42127880 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
42127801 AAATTTGTAC
**
42127811 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
42127839 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
42127866 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
42127881 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:42147268 original size:15 final size:15
Alignment explanation
Indices: 42147242--42147276 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
42147232 TGCATTAGGG
42147242 ATCATTGCATTTAGT
1 ATCATTGCATTTAGT
42147257 ATCATTGCATTTAGT
1 ATCATTGCATTTAGT
*
42147272 TTCAT
1 ATCAT
42147277 ATACTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (15 bp):
ATCATTGCATTTAGT
Found at i:42149300 original size:47 final size:46
Alignment explanation
Indices: 42149236--42149361 Score: 134
Period size: 47 Copynumber: 2.7 Consensus size: 46
42149226 ATCTCGAGGC
*
42149236 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTC-TCAATGT-
1 CGATGCATGTCCTAGACATGTCTTACACTAGCACTC-TCAT-AATGTG
* *
42149282 TGATGTTATGTCCTAGACATGGTCTTACACT-G-ACTCTCATAATGTGG
1 CGATG-CATGTCCTAGACAT-GTCTTACACTAGCACTCTCATAATGT-G
*
42149329 CCGATGCATGTCCTAGATATGTCTTACACTAGC
1 -CGATGCATGTCCTAGACATGTCTTACACTAGC
42149362 TCACACAAGT
Statistics
Matches: 66, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
45 7 0.11
46 19 0.29
47 26 0.39
48 14 0.21
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (46 bp):
CGATGCATGTCCTAGACATGTCTTACACTAGCACTCTCATAATGTG
Found at i:42160174 original size:29 final size:29
Alignment explanation
Indices: 42160141--42160272 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
42160131 GTGACGAGAT
42160141 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
42160170 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
42160199 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
42160228 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
42160257 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
42160273 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:42167912 original size:29 final size:29
Alignment explanation
Indices: 42167879--42168010 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
42167869 GTGACGAGAT
42167879 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
42167908 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
42167937 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
42167966 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
42167995 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
42168011 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:42175643 original size:29 final size:29
Alignment explanation
Indices: 42175610--42175741 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
42175600 GTGACGAGAT
42175610 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
42175639 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
42175668 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
42175697 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
42175726 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
42175742 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:42188627 original size:26 final size:26
Alignment explanation
Indices: 42188593--42188653 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
42188583 AAATCATCTC
42188593 TTTCAAAAAC-CAAGGTTT-AGAAAAACT
1 TTTC-AAAACTCAA-GTTTGAGAAAAA-T
* *
42188620 TTTGAAAACTCAATTTTGAGAAAAAT
1 TTTCAAAACTCAAGTTTGAGAAAAAT
42188646 TTTCAAAA
1 TTTCAAAA
42188654 ACCCATTCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 16 0.55
27 13 0.45
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (26 bp):
TTTCAAAACTCAAGTTTGAGAAAAAT
Found at i:42188654 original size:27 final size:27
Alignment explanation
Indices: 42188593--42188656 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
42188583 AAATCATCTC
42188593 TTTCAAAAACCAAGGTTTAGAAAAACT
1 TTTCAAAAACCAAGGTTTAGAAAAACT
* *
42188620 TTT-GAAAACTCAA-TTTTGAGAAAAA-T
1 TTTCAAAAAC-CAAGGTTT-AGAAAAACT
42188646 TTTCAAAAACC
1 TTTCAAAAACC
42188657 CATTCCACAG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
26 13 0.42
27 18 0.58
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (27 bp):
TTTCAAAAACCAAGGTTTAGAAAAACT
Found at i:42194694 original size:49 final size:49
Alignment explanation
Indices: 42194641--42194872 Score: 223
Period size: 49 Copynumber: 4.7 Consensus size: 49
42194631 CTGGTACGCA
*
42194641 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC-GGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTA-TCGGGTACACG
** ** * *
42194690 TAGTAGCCTGCACTTAGTACTACACACGTTACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCGGGTACACG
* ** ** * *
42194740 TAGCAGCCTGCACTTAGTACTACACACATGATTGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCGGGTACACG
* * * * *
42194791 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTAGATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACG
* * *
42194840 TAGTAGCTTGTACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
42194873 TCACAATAGA
Statistics
Matches: 146, Mismatches: 33, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
49 69 0.47
50 42 0.29
51 35 0.24
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACG
Found at i:42194759 original size:50 final size:49
Alignment explanation
Indices: 42194645--42194766 Score: 156
Period size: 50 Copynumber: 2.5 Consensus size: 49
42194635 TACGCATAGT
* ** * *
42194645 AGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAGT
1 AGCCTGCACTTAGTACTACACACGCGACCAACCATTCGATACACGTAGC
**
42194694 AGCCTGCACTTAGTACTACACACGTTACCTAACCA-TCTGATACACGTAGC
1 AGCCTGCACTTAGTACTACACACGCGACC-AACCATTC-GATACACGTAGC
42194744 AGCCTGCACTTAGTACTACACAC
1 AGCCTGCACTTAGTACTACACAC
42194767 ATGATTGAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
49 28 0.44
50 36 0.56
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (49 bp):
AGCCTGCACTTAGTACTACACACGCGACCAACCATTCGATACACGTAGC
Found at i:42198622 original size:27 final size:27
Alignment explanation
Indices: 42198584--42198636 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
42198574 ATGTTGGGAT
* **
42198584 TGTAATGCCCCTGTAGGGTAAAATGAC
1 TGTAATACCCCTGTAAAGTAAAATGAC
42198611 TGTAATACCCCTGTAAAGTAAAATGA
1 TGTAATACCCCTGTAAAGTAAAATGA
42198637 TTGTTTTGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
TGTAATACCCCTGTAAAGTAAAATGAC
Found at i:42198659 original size:27 final size:27
Alignment explanation
Indices: 42198628--42198760 Score: 110
Period size: 27 Copynumber: 5.0 Consensus size: 27
42198618 CCCCTGTAAA
42198628 GTAAAATGATTGTTTTGCCCTTATGTG
1 GTAAAATGATTGTTTTGCCCTTATGTG
* * *
42198655 TTAAATTGACAT-TTTT-CCCTTA-GTG
1 GTAAAATGA-TTGTTTTGCCCTTATGTG
* ** *
42198680 GTAAAATAACGGTTTTGCCCTTATGAG
1 GTAAAATGATTGTTTTGCCCTTATGTG
* **
42198707 GTAAAACGATCATTTTGCCCTTATGTG
1 GTAAAATGATTGTTTTGCCCTTATGTG
** * *
42198734 GTAGGATGATTGTTTTTCCCCTATGTG
1 GTAAAATGATTGTTTTGCCCTTATGTG
42198761 ATGTATGTTT
Statistics
Matches: 80, Mismatches: 22, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
25 13 0.16
26 12 0.15
27 54 0.68
28 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.41
Consensus pattern (27 bp):
GTAAAATGATTGTTTTGCCCTTATGTG
Found at i:42199135 original size:36 final size:36
Alignment explanation
Indices: 42199091--42199176 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
42199081 TGCACACTGC
* **
42199091 TTACTGTTACTGCATTGTTTACTATTACTACACTAA
1 TTACTGTTACTGCACTAATTACTATTACTACACTAA
* * *
42199127 TTATTGTTACTGCACTAATTACTGTTACTACACTAT
1 TTACTGTTACTGCACTAATTACTATTACTACACTAA
42199163 TTACTGTTACTGCA
1 TTACTGTTACTGCA
42199177 AATGGCCAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (36 bp):
TTACTGTTACTGCACTAATTACTATTACTACACTAA
Found at i:42199136 original size:18 final size:18
Alignment explanation
Indices: 42199109--42199173 Score: 94
Period size: 18 Copynumber: 3.6 Consensus size: 18
42199099 ACTGCATTGT
*
42199109 TTACTATTACTACACTAA
1 TTACTGTTACTACACTAA
* *
42199127 TTATTGTTACTGCACTAA
1 TTACTGTTACTACACTAA
*
42199145 TTACTGTTACTACACTAT
1 TTACTGTTACTACACTAA
42199163 TTACTGTTACT
1 TTACTGTTACT
42199174 GCAAATGGCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (18 bp):
TTACTGTTACTACACTAA
Found at i:42201397 original size:157 final size:157
Alignment explanation
Indices: 42201111--42201426 Score: 569
Period size: 157 Copynumber: 2.0 Consensus size: 157
42201101 GGTCCTAAAA
*
42201111 CCACTATTCTGATTTGACTAAAAACAGGTTATTACAACATTAATCAAATACACACTTATACATGT
1 CCACTATTCTGATTTGACTAAAAACAAGTTATTACAACATTAATCAAATACACACTTATACATGT
*
42201176 TTATGTCTAATTTACTAAACAAACACAACTATACCAAGCACACACATATCAAACATGATATATCC
66 TTATGTCTAATTTACTAAACAAACACAACTATACCAAGCACACACAAATCAAACATGATATATCC
*
42201241 TCACATATAAATATACATCAAAACATG
131 TCACATATAAATATACATAAAAACATG
* * *
42201268 CCACTATTTTGATTTGACTAAAAACAAGTTGTTACAACATTAATCAAATACGCACTTATACATGT
1 CCACTATTCTGATTTGACTAAAAACAAGTTATTACAACATTAATCAAATACACACTTATACATGT
*
42201333 TTATGTCTAATTTACTAAACCAACACAACTATACCAAGCACACACAAATCAAACATGATATATCC
66 TTATGTCTAATTTACTAAACAAACACAACTATACCAAGCACACACAAATCAAACATGATATATCC
42201398 TCACATATAAATATACATAAAAACATG
131 TCACATATAAATATACATAAAAACATG
42201425 CC
1 CC
42201427 CTCACTAGCC
Statistics
Matches: 152, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (157 bp):
CCACTATTCTGATTTGACTAAAAACAAGTTATTACAACATTAATCAAATACACACTTATACATGT
TTATGTCTAATTTACTAAACAAACACAACTATACCAAGCACACACAAATCAAACATGATATATCC
TCACATATAAATATACATAAAAACATG
Found at i:42203394 original size:22 final size:22
Alignment explanation
Indices: 42203368--42203411 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
42203358 GAAAATAATC
*
42203368 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
*
42203390 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
42203412 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:42203831 original size:20 final size:20
Alignment explanation
Indices: 42203808--42203848 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
42203798 TTGATTTTTT
42203808 TCCCTTATTCAAGATTAAGC
1 TCCCTTATTCAAGATTAAGC
42203828 TCCCTTATTCAAGATTAAGC
1 TCCCTTATTCAAGATTAAGC
42203848 T
1 T
42203849 GCAATCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (20 bp):
TCCCTTATTCAAGATTAAGC
Found at i:42205570 original size:53 final size:53
Alignment explanation
Indices: 42205480--42205605 Score: 234
Period size: 53 Copynumber: 2.4 Consensus size: 53
42205470 GATGATGAAA
42205480 AAAGAAAAAGAAAGAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
1 AAAGAAAAAGAAAG-AAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
42205534 AAAGAAAAAGAAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
1 AAAGAAAAAGAAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
*
42205587 AAAGAAAAAGAAGGAAAAA
1 AAAGAAAAAGAAAGAAAAA
42205606 GAGCTTTGAG
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
53 57 0.80
54 14 0.20
ACGTcount: A:0.54, C:0.10, G:0.21, T:0.16
Consensus pattern (53 bp):
AAAGAAAAAGAAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
Found at i:42207642 original size:47 final size:47
Alignment explanation
Indices: 42207588--42207922 Score: 499
Period size: 47 Copynumber: 7.1 Consensus size: 47
42207578 TTAGGATTTT
** * *
42207588 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
42207635 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
42207682 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
42207729 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
42207776 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
42207823 ATGTGGTGAATATGAACATGCATATGTGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
42207870 ATGTGATGAATGTGAACATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
42207917 ATGTGA
1 ATGTGA
42207923 AATATGTATG
Statistics
Matches: 260, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 260 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:42207688 original size:22 final size:22
Alignment explanation
Indices: 42207617--42207688 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
42207607 GTATATATGA
42207617 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
42207639 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
42207664 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
42207686 GAT
1 GAT
42207689 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:42208060 original size:98 final size:96
Alignment explanation
Indices: 42207893--42208076 Score: 307
Period size: 98 Copynumber: 1.9 Consensus size: 96
42207883 GAACATGTAT
* *
42207893 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTAAAATATATATGAGATATGTATATGTGGTAAAGCCGA
42207958 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
42207989 ATATGTGGTAAAGCCGAATGG-TCAATGTTAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATG-TAAA-ATATATATGAGATATGTATATGTGGTAAAGC
*
42208053 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
42208077 GGCGATGTGC
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
95 1 0.01
96 25 0.30
97 3 0.04
98 53 0.65
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTAAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:42208092 original size:50 final size:48
Alignment explanation
Indices: 42207892--42208076 Score: 300
Period size: 48 Copynumber: 3.8 Consensus size: 48
42207882 TGAACATGTA
42207892 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
42207940 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
42207988 CATATGTGGTAAAGCCGAATGG-TCAATGTTAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATG-TGAA-ATATGTATGAGATATG
*
42208038 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
42208077 GGCGATGTGC
Statistics
Matches: 126, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 6 0.05
50 39 0.31
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:42208272 original size:37 final size:37
Alignment explanation
Indices: 42208222--42208292 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
42208212 GGAAATATAT
*
42208222 TCCGGGTAAGACCCGATGACTAT-GTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACT-TCGTGTGGAGATTATG
42208259 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
42208293 TTGTTTGAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 1 0.03
37 31 0.97
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTATG
Found at i:42209909 original size:199 final size:198
Alignment explanation
Indices: 42209560--42209988 Score: 666
Period size: 199 Copynumber: 2.2 Consensus size: 198
42209550 GAGAATTGAG
42209560 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
*
42209625 AAGAGCATTCGTGCTAGTGATGTATCCAGACTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATC
66 AAGAGCATTCATGCTAGTGATGTATCCAGACTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATC
*
42209690 CGGACTAAGTCCCGAAGAGCATTAGTGCTAGTGATGTA-TCCAG-GCTAAGTCCCAAAGAGCATT
131 CGGACTAAGTCCCGAAGAGCATTAGTGCTAGTGATATACT-C-GTGCTAAG-CCCAAAGAGCATT
42209753 CGTGCT
193 CGTGCT
* * *
42209759 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCTCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
* *
42209824 AAGAGCATTCATGCTAGTGATGTATCCGGACTAAGTCCCGAAGAGCATTTGTGCTAGTGATGTAT
66 AAGAGCATTCATGCTAGTGATGTATCCAGACTAAGT-CCGAAGAGCATTCGTGCTAGTGATGTAT
* * * *
42209889 CCGGGCTAAGTTCC-AAGAGCATTCGTGCTAGTGATATACTCGTGCTAAGCCCGAAGAGCATTCG
130 CCGGACTAAGTCCCGAAGAGCATTAGTGCTAGTGATATACTCGTGCTAAGCCCAAAGAGCATTCG
42209953 TGCT
195 TGCT
* * * *
42209957 GGTGTTATATCCGGGCTAGGTCCCAAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
42209989 ATCATGCTGG
Statistics
Matches: 210, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
198 45 0.21
199 125 0.60
200 40 0.19
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (198 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
AAGAGCATTCATGCTAGTGATGTATCCAGACTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATC
CGGACTAAGTCCCGAAGAGCATTAGTGCTAGTGATATACTCGTGCTAAGCCCAAAGAGCATTCGT
GCT
Found at i:42210000 original size:40 final size:40
Alignment explanation
Indices: 42209560--42209988 Score: 623
Period size: 40 Copynumber: 10.8 Consensus size: 40
42209550 GAGAATTGAG
*
42209560 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
42209600 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
42209640 AGTGATGTATCCAGACTAAGT-CCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
42209679 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTAGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
42209719 AGTGATGTATCCAGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
42209759 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
42209799 AGTGATATATCCGGGCTAAGTCTCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
42209839 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
42209879 AGTGATGTATCCGGGCTAAGTTCC-AAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
42209918 AGTGATATA-CTCGTGCTAAG-CCCGAAGAGCATTCGTGCT
1 AGTGATGTATC-CGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
42209957 GGTGTTATATCCGGGCTAGGTCCCAAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
42209989 ATCATGCTGG
Statistics
Matches: 352, Mismatches: 32, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
38 3 0.01
39 97 0.28
40 252 0.72
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:42211853 original size:51 final size:52
Alignment explanation
Indices: 42211752--42211874 Score: 203
Period size: 52 Copynumber: 2.3 Consensus size: 52
42211742 GATGATGAAA
*
42211752 AAAGAAAAGAAAGAAAAAAAAAAGCTCTCATGTTGTTCTTGGCTGAATAGAAG
1 AAAGAAAAGAAAG-AAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
42211805 AAAGAAAAGAAAGAAAAAAAAAGCTCTCATGTTGTTCTT-GCCGAATAGAAG
1 AAAGAAAAGAAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
*
42211856 AAAGAAACAGAAGGAAAAA
1 AAAGAAA-AGAAAGAAAAA
42211875 GAGCTTTGAG
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 18 0.27
52 36 0.54
53 13 0.19
ACGTcount: A:0.53, C:0.10, G:0.20, T:0.17
Consensus pattern (52 bp):
AAAGAAAAGAAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
Found at i:42213905 original size:47 final size:47
Alignment explanation
Indices: 42213846--42214131 Score: 320
Period size: 47 Copynumber: 6.2 Consensus size: 47
42213836 TTAGGATTTT
** *
42213846 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGG-CA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
42213892 ATGTGTATGAATGTGAACATGCATATATGTGATAAGG-CGAATGGCCA
1 ATGTG-ATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
42213939 ATGTGATGAATGTG--CATGCATATGTTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATAT-ATGTGATAAGGCCGAATGGCCA
* * *
42213985 ATGTGGTGAATATGAACATG--CATATGTGATAA-GCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
42214029 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * *
42214076 ATGTG-TGGAATATGAACAT-TCATATGTGAGATAAGGCCGAATGGCGA
1 ATGTGAT-GAATGTGAACATGT-ATATATGTGATAAGGCCGAATGGCCA
*
42214123 ATGTAATGA
1 ATGTGATGA
42214132 GTGAACTATG
Statistics
Matches: 208, Mismatches: 20, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
44 38 0.18
45 18 0.09
46 56 0.27
47 91 0.44
48 5 0.02
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:42214092 original size:91 final size:91
Alignment explanation
Indices: 42213846--42214131 Score: 364
Period size: 91 Copynumber: 3.1 Consensus size: 91
42213836 TTAGGATTTT
*** * * * * *
42213846 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGG-CAATGTGTATGAATGTGAAC
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGT-GGAATATGAAC
*
42213910 ATGCATATATGTGATAAGGCGAATGGCCA
65 ATGC--ATATGTGATAAGCCGAATGGCCA
42213939 ATGTGATGAATGT--GCATGCATATGTTGTGATAAGGCCGAATGGCCAATGTG-GTGAATATGAA
1 ATGTGATGAATGTGAGCATGCATATG-TGTGATAAGGCCGAATGGCCAATGTGTG-GAATATGAA
42214001 CATGCATATGTGATAAGCCGAATGGCCA
64 CATGCATATGTGATAAGCCGAATGGCCA
42214029 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGTGGAATATGAACA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGTGGAATATGAACA
* *
42214094 TTCATATGTGAGATAAGGCCGAATGGCGA
66 TGCATATGT--GATAA-GCCGAATGGCCA
*
42214123 ATGTAATGA
1 ATGTGATGA
42214132 GTGAACTATG
Statistics
Matches: 172, Mismatches: 12, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
90 35 0.20
91 51 0.30
92 42 0.24
93 25 0.15
94 19 0.11
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (91 bp):
ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGTGGAATATGAACA
TGCATATGTGATAAGCCGAATGGCCA
Found at i:42214137 original size:136 final size:137
Alignment explanation
Indices: 42213869--42214131 Score: 372
Period size: 136 Copynumber: 1.9 Consensus size: 137
42213859 GAATGTGTAT
42213869 ATATGAGATAAGGCCGAATGGCAATGTGTATGAATGTGAACATGCATATATGTGATAAGGCGAAT
1 ATATGAGATAAGGCCGAATGGCAATGTGTATGAATGTGAACATGCATATATGTGATAAGGCGAAT
* * **
42213934 GGCCAATGTGATGAATGTGCATGCATATGTTGTGATAAGGCCGAATGGCCAATGTGGTGAATATG
66 GGCCAATGTGATGAATATGCATGCATATGTTGAGATAAGGCCGAATGGCCAATGTAATGAATATG
42213999 AACATGC
131 AACATGC
* * *
42214006 ATATGTGATAA-GCCGAATGGCCAATGTG-ATGAATGTGAGCATGCATATGTGTGATAAGGCCGA
1 ATATGAGATAAGGCCGAATGG-CAATGTGTATGAATGTGAACATGCATATATGTGATAAGG-CGA
* *
42214069 ATGGCCAATGTG-TGGAATATGAACATTCATATG-TGAGATAAGGCCGAATGGCGAATGTAATGA
64 ATGGCCAATGTGAT-GAATATG--CATGCATATGTTGAGATAAGGCCGAATGGCCAATGTAATGA
42214132 GTGAACTATG
Statistics
Matches: 112, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
136 39 0.35
137 38 0.34
138 26 0.23
139 9 0.08
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (137 bp):
ATATGAGATAAGGCCGAATGGCAATGTGTATGAATGTGAACATGCATATATGTGATAAGGCGAAT
GGCCAATGTGATGAATATGCATGCATATGTTGAGATAAGGCCGAATGGCCAATGTAATGAATATG
AACATGC
Found at i:42214193 original size:48 final size:48
Alignment explanation
Indices: 42214138--42214315 Score: 249
Period size: 48 Copynumber: 3.8 Consensus size: 48
42214128 ATGAGTGAAC
42214138 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
* *
42214186 TATGTGGTAAAGCCGACTGGCTAATGTGAAATATGTATG-GATATGCA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
* *
42214233 TATGTGGTAAAGCCGAATGG-TCAATGTG-AATAT-AAT-ATGATATGTT
1 TATGTGGTAAAGCCGAATGGCT-AATGTGAAATATGTATGA-GATATGTA
* *
42214279 TATTTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
42214316 GGCGATGTGC
Statistics
Matches: 115, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
45 2 0.02
46 36 0.31
47 38 0.33
48 39 0.34
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (48 bp):
TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTA
Found at i:42214315 original size:93 final size:94
Alignment explanation
Indices: 42214138--42214315 Score: 263
Period size: 93 Copynumber: 1.9 Consensus size: 94
42214128 ATGAGTGAAC
* *
42214138 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAC
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATATAT-AGATATGTATATGTGGTAAAGCCGAA
42214203 TGGCTAATGTGAAATATGTATGGATATGCA
65 TGGCTAATGTGAAATATGTATGGATATGCA
* *
42214233 TATGTGGTAAAGCCGAATGG-TCAATGTG-AATATA-ATATGATATGTTTATTTGGTAAAGCCGA
1 TATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATA-GATATGTATATGTGGTAAAGCCGA
*
42214295 ATGGCTAGTGTGAAATATGTA
64 ATGGCTAATGTGAAATATGTA
42214316 GGCGATGTGC
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
92 1 0.01
93 43 0.57
94 6 0.08
95 26 0.34
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (94 bp):
TATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAGATATGTATATGTGGTAAAGCCGAAT
GGCTAATGTGAAATATGTATGGATATGCA
Found at i:42214510 original size:37 final size:37
Alignment explanation
Indices: 42214460--42214530 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
42214450 TGGAATATAT
*
42214460 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
*
42214497 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATT
42214531 TCGTTTGAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
Found at i:42216099 original size:71 final size:71
Alignment explanation
Indices: 42216015--42216178 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
42216005 CGATTTGTCT
42216015 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
42216080 CTTTCA
66 CTTTCA
42216086 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
42216151 CTTTCA
66 CTTTCA
42216157 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
42216179 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:42216216 original size:71 final size:70
Alignment explanation
Indices: 42216015--42216212 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
42216005 CGATTTGTCT
* * * *
42216015 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
42216080 CTTTCA
65 CTTTCA
* * * *
42216086 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
42216151 CTTTCA
65 CTTTCA
* *
42216157 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
42216213 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:42223682 original size:70 final size:71
Alignment explanation
Indices: 42223588--42223750 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
42223578 CGATTTGTCT
42223588 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
42223653 CTTTCA
66 CTTTCA
42223659 CGTAGCTCTC-TGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
42223723 CTTTCA
66 CTTTCA
42223729 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
42223751 GATACATCTC
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
70 70 0.77
71 21 0.23
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:42226097 original size:21 final size:22
Alignment explanation
Indices: 42226051--42226103 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
42226041 TGCAGGGCTC
* *
42226051 ACACACCCATGTGGCCCATGGG
1 ACACACCCGTGTGACCCATGGG
*
42226073 ACACACCCGTGTGACCC-TTGG
1 ACACACCCGTGTGACCCATGGG
*
42226094 ACACGCCCGT
1 ACACACCCGT
42226104 CTACAGGCCG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.21, C:0.40, G:0.25, T:0.15
Consensus pattern (22 bp):
ACACACCCGTGTGACCCATGGG
Found at i:42236904 original size:20 final size:20
Alignment explanation
Indices: 42236865--42236904 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
42236855 TGTATTCATA
* * *
42236865 AAATTTCATAATTTTTCATT
1 AAATTTCACAACTTTACATT
42236885 AAATTTCACAACTTTACATT
1 AAATTTCACAACTTTACATT
42236905 TTATTCCCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATTTCACAACTTTACATT
Found at i:42244786 original size:22 final size:22
Alignment explanation
Indices: 42244761--42244883 Score: 70
Period size: 22 Copynumber: 5.3 Consensus size: 22
42244751 TTTCACATTC
42244761 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
** * *
42244783 ATCACATATATACACTTTCA-CATT
1 ATCACAT-T-GGC-CATTCAGCCTT
*
42244807 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
** * * *
42244830 ATCACATATATACACTTTCA-CATCC
1 ATCACAT-T-GGC-CATTCAGCCT-T
42244855 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
42244877 ATCACAT
1 ATCACAT
42244884 AATTAATACT
Statistics
Matches: 71, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 30 0.42
23 9 0.13
24 9 0.13
25 23 0.32
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:42244802 original size:47 final size:47
Alignment explanation
Indices: 42244733--42244884 Score: 277
Period size: 47 Copynumber: 3.2 Consensus size: 47
42244723 CCCTTCGGGA
*
42244733 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
*
42244780 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
*
42244827 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
42244874 CTTATCACATA
1 CTTATCACATA
42244885 ATTAATACTA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 101 1.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
Found at i:42247613 original size:171 final size:171
Alignment explanation
Indices: 42247287--42247825 Score: 586
Period size: 171 Copynumber: 3.2 Consensus size: 171
42247277 TGACAGATAT
* * ** *
42247287 ATACCAAAATGGGTCACCCTACTAATTTGTAACAAATGAACCATTTCAATACTTAATTTGTAATG
1 ATACCAAAATGGGTCACCCTACCAATTTGTAACAAATGACCCATTTCGGTACTTAATTTGTAAGG
* * * * * *
42247352 TCGTCCA---TT-TA-AT-ATT-TTTTTATATTATTTAAGTAAAATTGTTGTACCATATACTGTG
66 TTGTCCATTTTTGTATTTAATTATTTTTATATTATTTAGGTAAAATTGTTGTACCATACACCGTT
* *
42247410 TCTTGACCTATTTACCCCAATAATTCAAAAAACATAATAAA
131 TCTTAACCTATTTACCCCAATAATCCAAAAAACATAATAAA
* *
42247451 ATACCAAAATGGGTCACCCTACCAATTTGTAACAAATGACCCATTTCGGCACTTAGTTTGTAAGG
1 ATACCAAAATGGGTCACCCTACCAATTTGTAACAAATGACCCATTTCGGTACTTAATTTGTAAGG
*
42247516 TTGTCCATTTTTGTATTTAATTATTTTTATATTATTTAGGTAAAATTATTGTACCATACACCGTT
66 TTGTCCATTTTTGTATTTAATTATTTTTATATTATTTAGGTAAAATTGTTGTACCATACACCGTT
*
42247581 TCTTAACCTATTTACCCCAATAATCCAAAAAACTTAATAAA
131 TCTTAACCTATTTACCCCAATAATCCAAAAAACATAATAAA
* * **
42247622 ATACCAAAA------ATCGTACCAATTTGTAACAACCGACCCATTTCGGTACTTAATTTGTAAGG
1 ATACCAAAATGGGTCACCCTACCAATTTGTAACAAATGACCCATTTCGGTACTTAATTTGTAAGG
* ** ** * * * *
42247681 TT-ACTCATTTCCGTATTTAATTATTTTTTTAATATTACCTAGGTAAAAATGTAGTACTATACCC
66 TTGTC-CATTTTTGTATTTAATTA--TTTTT-ATATTATTTAGGTAAAATTGTTGTACCATACAC
* * *
42247745 CATTTCTTGAA-CTTTTTACCCTAATAATCCAAAAAACATAATAAA
127 CGTTTCTT-AACCTATTTACCCCAATAATCCAAAAAACATAATAAA
* * ** *
42247790 TTACAAAAATGGAACACCCTACCAATTTGTAGCAAA
1 ATACCAAAATGGGTCACCCTACCAATTTGTAACAAA
42247826 CGGCCTCTTC
Statistics
Matches: 314, Mismatches: 43, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
164 65 0.21
165 62 0.20
167 7 0.02
168 73 0.23
169 3 0.01
170 3 0.01
171 84 0.27
174 17 0.05
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (171 bp):
ATACCAAAATGGGTCACCCTACCAATTTGTAACAAATGACCCATTTCGGTACTTAATTTGTAAGG
TTGTCCATTTTTGTATTTAATTATTTTTATATTATTTAGGTAAAATTGTTGTACCATACACCGTT
TCTTAACCTATTTACCCCAATAATCCAAAAAACATAATAAA
Found at i:42256446 original size:6 final size:6
Alignment explanation
Indices: 42256435--42256465 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
42256425 TTCGAGGAAA
42256435 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG G
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG G
42256466 GGAGGAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:42263995 original size:2 final size:2
Alignment explanation
Indices: 42263988--42264017 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
42263978 TTTAGTGAAC
*
42263988 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42264018 GAGGTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:42264303 original size:30 final size:30
Alignment explanation
Indices: 42264262--42264330 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
42264252 CACATGAGTA
*
42264262 GACACACGGGCGTGTGTCTCAACCGTGTAT
1 GACACATGGGCGTGTGTCTCAACCGTGTAT
* *
42264292 GACACATGGGCGTGTGTCTCAACTGTGTGT
1 GACACATGGGCGTGTGTCTCAACCGTGTAT
42264322 GACACATGG
1 GACACATGG
42264331 CTATACACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.25
Consensus pattern (30 bp):
GACACATGGGCGTGTGTCTCAACCGTGTAT
Found at i:42267173 original size:40 final size:40
Alignment explanation
Indices: 42267124--42267214 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
42267114 TCTCGGTATC
*
42267124 GCACACTTAGTGCCTCATATAG-G-CGAAGCTA-TTTCAATTT
1 GCACACTTAGTG-CT-ATATAGAGCCGAAGCTATTTTCAA-AT
* *
42267164 GCACACTTAGTGCTATTTAGAGCCGAAGCTATTTTGAAAT
1 GCACACTTAGTGCTATATAGAGCCGAAGCTATTTTCAAAT
42267204 GCACACTTAGT
1 GCACACTTAGT
42267215 TCCAAACATA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
38 5 0.11
39 3 0.07
40 32 0.71
41 5 0.11
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (40 bp):
GCACACTTAGTGCTATATAGAGCCGAAGCTATTTTCAAAT
Found at i:42269064 original size:22 final size:22
Alignment explanation
Indices: 42269039--42269084 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
42269029 AACTTCAAGT
42269039 AAAACATTTATGGGCAAGCTAC
1 AAAACATTTATGGGCAAGCTAC
*
42269061 AAAAGATTTATGGGCAAGCTAC
1 AAAACATTTATGGGCAAGCTAC
42269083 AA
1 AA
42269085 TCATCAGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (22 bp):
AAAACATTTATGGGCAAGCTAC
Found at i:42274554 original size:14 final size:12
Alignment explanation
Indices: 42274521--42274551 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
42274511 AAAAAAGCTT
*
42274521 AAAAAAAGTTGG
1 AAAAAAATTTGG
42274533 AAAAAAATTTGG
1 AAAAAAATTTGG
42274545 AAAAAAA
1 AAAAAAA
42274552 AATGGAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AAAAAAATTTGG
Found at i:42275116 original size:21 final size:21
Alignment explanation
Indices: 42275090--42275131 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
42275080 AGAGCAATGT
42275090 GAAAGACCTCCTGAAGTAGTC
1 GAAAGACCTCCTGAAGTAGTC
42275111 GAAAGACCTCCTGAAGTAGTC
1 GAAAGACCTCCTGAAGTAGTC
42275132 CAACCTAGAC
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:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (21 bp):
GAAAGACCTCCTGAAGTAGTC
Found at i:42276684 original size:15 final size:16
Alignment explanation
Indices: 42276666--42276700 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
42276656 GAAGATTGTA
*
42276666 AAAAAATAA-AATAAG
1 AAAAAATAAGAAAAAG
42276681 AAAAAATAAGAAAAAG
1 AAAAAATAAGAAAAAG
42276697 AAAA
1 AAAA
42276701 CAAAAGAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAAAATAAGAAAAAG
Found at i:42277966 original size:20 final size:20
Alignment explanation
Indices: 42277941--42277978 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42277931 GTTTATTCGC
*
42277941 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
42277961 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
42277979 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Done.