Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold141
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: 2772588
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 118404 characters in sequence are not A, C, G, or T
File 11 of 18
Found at i:1770076 original size:155 final size:153
Alignment explanation
Indices: 1769808--1770160 Score: 370
Period size: 155 Copynumber: 2.3 Consensus size: 153
1769798 CCCTTAGGGA
* * ** * *
1769808 ATATCTTCGACGTAGAAGTGCCCAATACCCCTAAAAGACTTAAAAAATTTAAAAAGGGGTGAACC
1 ATATCTTCGACATAGAGGAACCTAATACCCCTAAAAGACTTAAAAAATTTAAAAAGGGATGAACC
* * * *
1769873 TATCCTAAATACCCACCTTTGGCATGAAAGTGGATCCGTTAACAACCT-AGAACTCA-ATCATTA
66 TATCCTAAACACCCACCTTTGGCATGAAAGCGGACCCGGTAACAACCTAAG-ACTCAGATC-TTA
* * * * *
1769936 GAAATTATAAAAGTGCCCCTAGGGG
129 GAAATTACAAAAATACCCCTAAGAG
* * *
1769961 ATATCTTTGACATAGAGGAACCTAATACCCCTAAAGGACTTAAAAAGAATTTTAAAAGGGATGAA
1 ATATCTTCGACATAGAGGAACCTAATACCCCTAAAAGACTT-AAAA-AATTTAAAAAGGGATGAA
** * ** *
1770026 CCTATCCTAAACATGCACCTTTGGCATAGAAA-CGGACCCGGTGATGACCTAAGACTCAGTTCTT
64 CCTATCCTAAACACCCACCTTTGGCAT-GAAAGCGGACCCGGTAACAACCTAAGACTCAGATCTT
1770090 AGAAATTACAAAAATACCCCTAAGAG
128 AGAAATTACAAAAATACCCCTAAGAG
* * * * **
1770116 ATATCTTCGACATAAAAGTACCTGATACCTTTAAAAGACTTAAAA
1 ATATCTTCGACATAGAGGAACCTAATACCCCTAAAAGACTTAAAA
1770161 TGATAAATAA
Statistics
Matches: 163, Mismatches: 32, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
153 34 0.21
154 8 0.05
155 113 0.69
156 8 0.05
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (153 bp):
ATATCTTCGACATAGAGGAACCTAATACCCCTAAAAGACTTAAAAAATTTAAAAAGGGATGAACC
TATCCTAAACACCCACCTTTGGCATGAAAGCGGACCCGGTAACAACCTAAGACTCAGATCTTAGA
AATTACAAAAATACCCCTAAGAG
Found at i:1771612 original size:22 final size:24
Alignment explanation
Indices: 1771576--1771623 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
1771566 AAGCTTCTTT
1771576 TTCTTTGCTTTTGCTTATTGTTTC
1 TTCTTTGCTTTTGCTTATTGTTTC
*
1771600 TTCTTT-C-TTTGCTTGTTGTTTC
1 TTCTTTGCTTTTGCTTATTGTTTC
1771622 TT
1 TT
1771624 TTTTTCTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.70
23 1 0.04
24 6 0.26
ACGTcount: A:0.02, C:0.17, G:0.12, T:0.69
Consensus pattern (24 bp):
TTCTTTGCTTTTGCTTATTGTTTC
Found at i:1772388 original size:25 final size:26
Alignment explanation
Indices: 1772360--1772429 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 26
1772350 TTGGCTGCTC
* *
1772360 TTTTT-TTCTTTTATGTTTGATGGTT
1 TTTTTCTTTTTTTATGTTTGATAGTT
*
1772385 TTTTTCTTTTTTTTATGTTT-CTAG-T
1 TTTTTC-TTTTTTTATGTTTGATAGTT
*
1772410 TTTTTCTTTTTTTTTGTTTG
1 TTTTTCTTTTTTTATGTTTG
1772430 CTCATTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
24 12 0.32
25 12 0.32
26 2 0.05
27 12 0.32
ACGTcount: A:0.06, C:0.06, G:0.11, T:0.77
Consensus pattern (26 bp):
TTTTTCTTTTTTTATGTTTGATAGTT
Found at i:1772404 original size:27 final size:26
Alignment explanation
Indices: 1772363--1772429 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 26
1772353 GCTGCTCTTT
*
1772363 TTTTCTTTTATGTTTGATGGTTTTTTTC
1 TTTT-TTTTATGTTTGATAG-TTTTTTC
*
1772391 TTTTTTTTATGTTT-CTAGTTTTTTC
1 TTTTTTTTATGTTTGATAGTTTTTTC
1772416 TTTTTTTT-TGTTTG
1 TTTTTTTTATGTTTG
1772430 CTCATTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
24 5 0.14
25 15 0.42
26 2 0.06
27 10 0.28
28 4 0.11
ACGTcount: A:0.06, C:0.06, G:0.12, T:0.76
Consensus pattern (26 bp):
TTTTTTTTATGTTTGATAGTTTTTTC
Found at i:1772412 original size:24 final size:25
Alignment explanation
Indices: 1772384--1772446 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
1772374 GTTTGATGGT
1772384 TTTTTTCTTTTTTTTATGTTT-CT-A
1 TTTTTTCTTTTTTTT-TGTTTGCTCA
1772408 GTTTTTTCTTTTTTTTTGTTTGCTCA
1 -TTTTTTCTTTTTTTTTGTTTGCTCA
*
1772434 -TTTTTATTTTTTT
1 TTTTTTCTTTTTTT
1772447 GTTTCTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
24 17 0.49
25 17 0.49
26 1 0.03
ACGTcount: A:0.06, C:0.08, G:0.06, T:0.79
Consensus pattern (25 bp):
TTTTTTCTTTTTTTTTGTTTGCTCA
Found at i:1772444 original size:25 final size:23
Alignment explanation
Indices: 1772385--1772453 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
1772375 TTTGATGGTT
1772385 TTTTTCTTTTTTTTATGTTTCTAG
1 TTTTT-TTTTTTTTATGTTTCTAG
*
1772409 TTTTTTCTTTTTTTTTGTTTGCTCA-
1 TTTTTT-TTTTTTTATGTTT-CT-AG
*
1772434 -TTTTTATTTTTT-TGTTTCTA
1 TTTTTTTTTTTTTATGTTTCTA
1772454 TTTCTCTTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
20 1 0.03
21 2 0.05
22 5 0.12
23 7 0.17
24 22 0.55
25 2 0.05
26 1 0.03
ACGTcount: A:0.07, C:0.09, G:0.07, T:0.77
Consensus pattern (23 bp):
TTTTTTTTTTTTTATGTTTCTAG
Found at i:1773312 original size:3 final size:3
Alignment explanation
Indices: 1773306--1773358 Score: 88
Period size: 3 Copynumber: 17.3 Consensus size: 3
1773296 TTTTTTTTCA
*
1773306 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
1773352 ATT ATT A
1 ATT ATT A
1773359 AATAAACTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1773707 original size:42 final size:43
Alignment explanation
Indices: 1773660--1776178 Score: 1346
Period size: 42 Copynumber: 60.1 Consensus size: 43
1773650 GACAGTCTAG
* *
1773660 AGGTAAGAAAGTCTCCAAGGTCAAAGCTAG-TAGGCAGACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * *
1773702 GGGTAA-AGAAGTCTCCAAGGTCAAAGC-CGATAAGCAGACTAA
1 AGGTAAGA-AAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * *
1773744 GGGTAAAAAAGTCTCCAAGGTCAAAGC-CGATAAGCAGACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * * *
1773786 AGTTTAGGAAGTCT-CTAGAGTCAAAG-TCGACAAGCAGCCTAA
1 AGGTAAGAAAGTCTCCAAG-GTCAAAGCTCGACAGGCAGACTAA
* * * * * * * *
1773828 AGCTAAGGAAGCCTCTAGGGTCAAA-CCCGATAGGCAAACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * * *
1773870 AGGTTAGGAAGTCTCTAGGGTCAAAG-TCGATAGGCAAACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
** * *
1773912 ACATTAAG-AAGTCTCCACGGTCAAAGC-CGACAAGCAGACTAA
1 A-GGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * * *
1773954 GGGCAAAGAAA-TCT-CTAGAGTCAAAG-TAGACAGGCAAACAAA
1 AGG-TAAGAAAGTCTCCAAG-GTCAAAGCTCGACAGGCAGACTAA
* * * * *
1773996 ATGTAAAAAAGTCTCTAGGGTCAAAGC-CGACAGGCAAACTAAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACT-AA
* * * *
1774039 AGTTAAG-AAGTCTCTAAGGTCAAAGC-CGACAGCCAAACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * *
1774080 AGGTAAGGAAA-TCTCTAATGTTAAAGC-CGACAGGCACACAAA
1 AGGTAA-GAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * *
1774122 AGGTTAGGAAGTCTCCAAGGTCAAAGC-CGACAAGCAAACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * *
1774164 AGGTTAGGAAGTCTCCAAGCTCAAAGC-CAGCCAACAAGCAGACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTC-G---ACAGGCAGACTAA
* * * * * *
1774210 AGGTTAGGAACTCTCCAGGGTCAAAGC-CAATAGGCAGACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * * * * *
1774252 AGGTTAGGAAGCCTTCAGGGTCAAAG-TCGACATGTAAACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * *
1774294 AAGTCAGGAAGTCTCCAAGGTCAAAGC-CAACAGGCAGACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * *
1774336 AGGTAA-AGAAGTCTCTAGGGTCAAAGC-CAACAGGCAAACTAA
1 AGGTAAGA-AAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * * *
1774378 AGGTAA-AGAAGTCTCTAGGGTCAAAGC-CAATAGGTAAACTAA
1 AGGTAAGA-AAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* *
1774420 AGGTAA-AGAAGTCTCCAAGGTCAAAGCT-GACAAGTAGACTAA
1 AGGTAAGA-AAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * ** *
1774462 AGGCAAAAAAGT-TTCTAGAGTCAAAG-TCGGTAGGCAAACTAA
1 AGGTAAGAAAGTCTCCAAG-GTCAAAGCTCGACAGGCAGACTAA
* * * * * *
1774504 AGGTTAGGAAGTCT--AAGGGTCAAAAC-CAACAAGCAAACTAAA
1 AGGTAAGAAAGTCTCCAA-GGTCAAAGCTCGACAGGCAGACT-AA
* * * *
1774546 AGATAAG-AAGTCT-CAAGGTCAAAACT-GATAGGTAGACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* *
1774586 AGGTAAGGAAA-TCTCCAAGGTCAAAGC-CGATAGGTAGACTAA
1 AGGTAA-GAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * * * * *
1774628 AGGTTAGGAAGTCTCCAATGTCAAAAC-CGATAAGTAAACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * **
1774670 AGGTTAGGAAGCCTCCAACATCAAAGC-CGACAGGCAGACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * ** * * * *
1774712 AGGTTAGGAAGTCTTTAGGGTCAAAG-TTGATAGACAGACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* *
1774754 GGGTGAAG-AAGTCTCCAAGGTCAAAGCT-GATAGGCAGACT-A
1 AGGT-AAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * * *
1774795 AGGTAAAAAAGCCTCCAGGGTCAAA-ATCAACCGGCAGACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * * * * *
1774837 AGGTTAGGAAGTCTCTAGGGTTAAAG-TCGATAGGTAGATTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * *
1774879 AGATGAA-AAAGTCTCCAAGGTTAAGGC-CGACAAGTAGACTAA
1 AGGT-AAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * * *
1774921 AGGTAAGGAAGTCTCTAGGGTCAAAGC-CGATAGGTAAACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * *
1774963 TGGTTAGGAAGTCTCCAAGGTCAAAG-TCGATAGGCAGAC---
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * * *
1775002 --GTTAGGAAGTCTCCAGGGTCAAAGCT-GATAAGTAGACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * ** *
1775042 AGGTTAGAAAGTCTCTAGGGTCAAAGC-CGATAAACAAACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * ** *
1775084 AGG-AAAAGAAGTCT-CTAGTGTCAAAG-TCGATGGGTAGACTAA
1 AGGTAAGA-AAGTCTCCAAG-GTCAAAGCTCGACAGGCAGACTAA
* * *
1775126 AGGTAAGGAAGTCTCCAAGGTCAAAG-TCGACAAGCAGATTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* *
1775168 AGGTTAAG-AAGTCTCCAAGGTCAAAG-TCGACAAGCAGATTAA
1 AGG-TAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
**
1775210 AGGTTAAG-AAGTCTCCAAGGTCAAAG-TCGACAGATAGACTAA
1 AGG-TAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * *
1775252 AGGTTAGGAAA-TCTCTAAGGTCAAAACT-GACAGGCAGACTAA
1 AGG-TAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* *
1775294 AGGTAAAGAAA-TCTCCAATGTCAAAGCT-GATAGGCAGACTAA
1 AGGT-AAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * ** * * *
1775336 AGGTTAGGAAGTCTTTAGGGTCAAAGC-CGATAGGCAAACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * *
1775378 AGGTTAGGAAGTCTCCAAGGTCAAAGC-CAACATGCAAACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * *
1775420 AAGTAAGGAAGTCTCTAAGGTCAAAGC-CGATAGGCAAACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* ** * * *
1775462 CGGTAA-AGAAGTCTTTAGGGTC-AAGC-CAACATGCAGACTAA
1 AGGTAAGA-AAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * *
1775503 AGGTAA-AGAAGTCTTCAAGGTCAAAAC-CAACATGTAGACTAA
1 AGGTAAGA-AAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
** * *
1775545 AGGTGAA-AAAGT-TTTAAGGGTCAAAGC-CCACAAGCAGACTAA
1 AGGT-AAGAAAGTCTCCAA-GGTCAAAGCTCGACAGGCAGACTAA
* * *
1775587 GGGCAA-AGAAGTCTCCAAGGTCAAAGC-CAACAGGCAGACTAA
1 AGGTAAGA-AAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * *
1775629 AGGTTAGGAAGTCT--TAGGATCAAAG-TCGACAGGCAGACTAA
1 AGGTAAGAAAGTCTCCAAGG-TCAAAGCTCGACAGGCAGACTAA
** * *
1775670 AGGTGAAG-AAGTCTTTAAAGTCAAAG-TCAACAGGCAGACTAA
1 AGGT-AAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * ** *
1775712 AAGTTAGGAAGTCTTCAAGGTCAAAG-TCGACCTGCAAACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * *
1775754 AGGTTAGAAAGTCTCTAAGGTTAAAGC-CAATAGGCAGACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * *
1775796 GGGTAA-AGAAGTCTCTAGGGTCAAAGC-CGACAAGCAGACTAA
1 AGGTAAGA-AAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
*
1775838 AGGTGAAG-AAGTCT-CTAGGATCGAAA-C-CGACAGGCAGACTAA
1 AGGT-AAGAAAGTCTCCAAGG-TC-AAAGCTCGACAGGCAGACTAA
* * * * * *
1775880 AGGTGAAG-AAGTCTCTAGGGTTATAGC-CGATAGGTAGACTAA
1 AGGT-AAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * *
1775922 AGGTGAGAAA-TCTCTAGGGTCAAAGC-CGACATGTAGACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * *
1775963 AGGTAAGGAAGTCTCTAGGGTCAAAGCT-GACAAGCAGACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * * *
1776005 AGGTTAGGAAGCCTCCAAGGTCAAAG-TCGATAGGTAGACCAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * * *
1776047 AGGTTAGAAAGTCTCCAAGATTAAAG-TCAAAAGGCAAACTAA
1 AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * *
1776089 AGATAA-AGAAGTCTCCAAGGTCAAAGCT-AACAGGCAAACTAA
1 AGGTAAGA-AAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
* * * * *
1776131 AGGTAA-AAATGTTTACAGGGTCAAAGC-CGATAAGCAGACTAA
1 AGGTAAGAAA-GTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
*
1776173 AAGTAA
1 AGGTAA
1776179 AGAAGTTAGA
Statistics
Matches: 1995, Mismatches: 381, Indels: 202
0.77 0.15 0.08
Matches are distributed among these distances:
37 32 0.02
38 1 0.00
40 13 0.01
41 229 0.11
42 1632 0.82
43 51 0.03
46 37 0.02
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (43 bp):
AGGTAAGAAAGTCTCCAAGGTCAAAGCTCGACAGGCAGACTAA
Found at i:1773781 original size:84 final size:84
Alignment explanation
Indices: 1773660--1776184 Score: 1666
Period size: 84 Copynumber: 30.1 Consensus size: 84
1773650 GACAGTCTAG
* * * *
1773660 AGGTAAGAAAGTCTCCAAGGTCAAAG-CTAGTAGGCAGACTAAGGGTAAAGAAGTCTCCAAGGTC
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGA-CAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTC
*
1773724 AAAGCCGATAAGCAGACTAA
65 AAAGCCGACAAGCAGACTAA
* ** * * * * * *
1773744 GGGTAAAAAAGTCTCCAAGGTCAAAGCCGATAAGCAGACTAAAGTTTAGGAAGTCT-CTAGAGTC
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAG-GTC
* *
1773808 AAAGTCGACAAGCAGCCTAA
65 AAAGCCGACAAGCAGACTAA
* * * * * * * * * * *
1773828 AGCTAAGGAAGCCTCTAGGGTCAAACCCGATAGGCAAACTAAAGGTTAGGAAGTCTCTAGGGTCA
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCA
* * * *
1773893 AAGTCGATAGGCAAACTAA
66 AAGCCGACAAGCAGACTAA
** * * * * * *
1773912 ACATTAA-GAAGTCTCCACGGTCAAAGCCGACAAGCAGACTAAGGGCAAAGAAATCT-CTAGAGT
1 A-GGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAG-GT
** * * *
1773975 CAAAGTAGACAGGCAAACAAA
64 CAAAGCCGACAAGCAGACTAA
* ** * * * * * *
1773996 ATGTAAAAAAGTCTCTAGGGTCAAAGCCGACAGGCAAACTAAAAGTTAAGAAGTCTCTAAGGTCA
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCA
*
1774061 AAGCCGAC-AGCCAAACTAA
66 AAGCCGACAAG-CAGACTAA
* * * * * * * *
1774080 AGGTAAGGAAATCTCTAATGTTAAAGCCGACAGGCACACAAAAGGTTAGGAAGTCTCCAAGGTCA
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCA
*
1774145 AAGCCGACAAGCAAACTAA
66 AAGCCGACAAGCAGACTAA
* * * * * * *
1774164 AGGTTAGGAAGTCTCCAAGCTCAAAGCCAGCCAACAAGCAGACTAAAGGTTAGGAACTCTCCAGG
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCC-G---ACAGGCAGACTAAAGGTAAAGAAGTCTCCAAG
* * *
1774229 GTCAAAGCCAATAGGCAGACTAA
62 GTCAAAGCCGACAAGCAGACTAA
* * * * * * * * * * *
1774252 AGGTTAGGAAGCCTTCAGGGTCAAAGTCGACATGTAAACTAAAAGTCAGGAAGTCTCCAAGGTCA
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCA
* *
1774317 AAGCCAACAGGCAGACTAA
66 AAGCCGACAAGCAGACTAA
* * * * * * *
1774336 AGGTAAAGAAGTCTCTAGGGTCAAAGCCAACAGGCAAACTAAAGGTAAAGAAGTCTCTAGGGTCA
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCA
* * * * *
1774401 AAGCCAATAGGTAAACTAA
66 AAGCCGACAAGCAGACTAA
* * * * * * * *
1774420 AGGTAAAGAAGTCTCCAAGGTCAAAGCTGACAAGTAGACTAAAGGCAAAAAAGT-TTCTAGAGTC
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAG-GTC
* ** * *
1774484 AAAGTCGGTAGGCAAACTAA
65 AAAGCCGACAAGCAGACTAA
* * * * * *
1774504 AGGTTAGGAAGTCT--AAGGGTCAAAACCAACAAGCAAACTAAAAG-ATAAGAAGTCT-CAAGGT
1 AGGTAAGGAAGTCTCCAA-GGTCAAAGCCGACAGGCAGACTAAAGGTA-AAGAAGTCTCCAAGGT
* * * * *
1774565 CAAAACTGATAGGTAGACTAA
64 CAAAGCCGACAAGCAGACTAA
* * * * * *
1774586 AGGTAAGGAAATCTCCAAGGTCAAAGCCGATAGGTAGACTAAAGGTTAGGAAGTCTCCAATGTCA
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCA
* * * *
1774651 AAACCGATAAGTAAACTAA
66 AAGCCGACAAGCAGACTAA
* * ** * * ** *
1774670 AGGTTAGGAAGCCTCCAACATCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTCTTTAGGGTCA
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCA
** *
1774735 AAGTTGA-TAGACAGACTAA
66 AAGCCGACAAG-CAGACTAA
* * * * * *
1774754 GGGTGAA-GAAGTCTCCAAGGTCAAAGCTGATAGGCAGACT-AAGGTAAAAAAGCCTCCAGGGTC
1 AGGT-AAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTC
** * **
1774817 AAAATCAACCGGCAGACTAA
65 AAAGCCGACAAGCAGACTAA
* * * * * * * * * *
1774837 AGGTTAGGAAGTCTCTAGGGTTAAAGTCGATAGGTAGATTAAAGATGAAA-AAGTCTCCAAGGTT
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGT-AAAGAAGTCTCCAAGGTC
* *
1774901 AAGGCCGACAAGTAGACTAA
65 AAAGCCGACAAGCAGACTAA
* * * * * * * *
1774921 AGGTAAGGAAGTCTCTAGGGTCAAAGCCGATAGGTAAACTAATGGTTAGGAAGTCTCCAAGGTCA
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCA
* * *
1774986 AAGTCGATAGGCAGAC---
66 AAGCCGACAAGCAGACTAA
* * * * * * * * *
1775002 --GTTAGGAAGTCTCCAGGGTCAAAGCTGATAAGTAGACTAAAGGT-TAGAAAGTCTCTAGGGTC
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAG-AAGTCTCCAAGGTC
* * *
1775064 AAAGCCGATAAACAAACTAA
65 AAAGCCGACAAGCAGACTAA
* * * * ** * *
1775084 AGGAAAAGAAGTCT-CTAGTGTCAAAGTCGATGGGTAGACTAAAGGTAAGGAAGTCTCCAAGGTC
1 AGGTAAGGAAGTCTCCAAG-GTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTC
* *
1775148 AAAGTCGACAAGCAGATTAA
65 AAAGCCGACAAGCAGACTAA
* * * *
1775168 AGGTTAA-GAAGTCTCCAAGGTCAAAGTCGACAAGCAGATTAAAGGTTAAGAAGTCTCCAAGGTC
1 AGG-TAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTC
* *
1775232 AAAGTCGAC-AGATAGACTAA
65 AAAGCCGACAAG-CAGACTAA
* * * * * * *
1775252 AGGTTAGGAAATCTCTAAGGTCAAAACTGACAGGCAGACTAAAGGTAAAGAAATCTCCAATGTCA
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCA
* * *
1775317 AAGCTGATAGGCAGACTAA
66 AAGCCGACAAGCAGACTAA
* ** * * * * *
1775336 AGGTTAGGAAGTCTTTAGGGTCAAAGCCGATAGGCAAACTAAAGGTTAGGAAGTCTCCAAGGTCA
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCA
* * *
1775401 AAGCCAACATGCAAACTAA
66 AAGCCGACAAGCAGACTAA
* * * * * ** *
1775420 AAGTAAGGAAGTCTCTAAGGTCAAAGCCGATAGGCAAACTAACGGTAAAGAAGTCTTTAGGGTC-
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCA
* *
1775484 AAGCCAACATGCAGACTAA
66 AAGCCGACAAGCAGACTAA
* * * * * * **
1775503 AGGTAAAGAAGTCTTCAAGGTCAAAACCAACATGTAGACTAAAGGTGAAA-AAGT-TTTAAGGGT
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGT-AAAGAAGTCTCCAA-GGT
*
1775566 CAAAGCCCACAAGCAGACTAA
64 CAAAGCCGACAAGCAGACTAA
* * * * * * *
1775587 GGGCAAAGAAGTCTCCAAGGTCAAAGCCAACAGGCAGACTAAAGGTTAGGAAGTCT--TAGGATC
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGG-TC
* *
1775650 AAAGTCGACAGGCAGACTAA
65 AAAGCCGACAAGCAGACTAA
** * * * * * * *
1775670 AGGTGAA-GAAGTCTTTAAAGTCAAAGTCAACAGGCAGACTAAAAGTTAGGAAGTCTTCAAGGTC
1 AGGT-AAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTC
* ** *
1775734 AAAGTCGACCTGCAAACTAA
65 AAAGCCGACAAGCAGACTAA
* * * * * * * * *
1775754 AGGTTAGAAAGTCTCTAAGGTTAAAGCCAATAGGCAGACTAAGGGTAAAGAAGTCTCTAGGGTCA
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCA
1775819 AAGCCGACAAGCAGACTAA
66 AAGCCGACAAGCAGACTAA
* * * *
1775838 AGGTGAA-GAAGTCT-CTAGGATCGAAA-CCGACAGGCAGACTAAAGGTGAAGAAGTCTCTAGGG
1 AGGT-AAGGAAGTCTCCAAGG-TC-AAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGG
* * * * *
1775900 TTATAGCCGATAGGTAGACTAA
63 TCAAAGCCGACAAGCAGACTAA
* * * * * * * * *
1775922 AGGTGA-GAAATCTCTAGGGTCAAAGCCGACATGTAGACTAAAGGTAAGGAAGTCTCTAGGGTCA
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCA
*
1775986 AAGCTGACAAGCAGACTAA
66 AAGCCGACAAGCAGACTAA
* * * * * * * * *
1776005 AGGTTAGGAAGCCTCCAAGGTCAAAGTCGATAGGTAGACCAAAGGT-TAGAAAGTCTCCAAGATT
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAG-AAGTCTCCAAGGTC
* * *
1776069 AAAGTC-AAAAGGCAAACTAA
65 AAAGCCGACAA-GCAGACTAA
* * ** * * * *
1776089 AGATAAAGAAGTCTCCAAGGTCAAAGCTAACAGGCAAACTAAAGGTAAA-AATGTTTACAGGGTC
1 AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAA-GTCTCCAAGGTC
*
1776153 AAAGCCGATAAGCAGACTAA
65 AAAGCCGACAAGCAGACTAA
* *
1776173 AAGTAAAGAAGT
1 AGGTAAGGAAGT
1776185 TAGAAGGGTT
Statistics
Matches: 1925, Mismatches: 454, Indels: 124
0.77 0.18 0.05
Matches are distributed among these distances:
78 1 0.00
79 63 0.03
82 42 0.02
83 336 0.17
84 1379 0.72
85 34 0.02
87 1 0.00
88 69 0.04
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (84 bp):
AGGTAAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAAGAAGTCTCCAAGGTCA
AAGCCGACAAGCAGACTAA
Found at i:1773869 original size:126 final size:125
Alignment explanation
Indices: 1773631--1776184 Score: 1706
Period size: 126 Copynumber: 20.3 Consensus size: 125
1773621 TCTCTGTCCG
* * * * * * * * *
1773631 TCCAAGTTTAAAGCCAACAGACAGTCTAGAGG-TAAGAAAGTCTCCAAGGTCAAAG-CTAGTAGG
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAG-AAGTCTCCAA-GTCAAAGCCGA-CAAG
* * * * * * * * **
1773694 CAGACTAAGGGTAAAGAAGTCTCCAAGGTCAAAGCCGATAAGCAGACTAAGGGTAAAAAAGTC
63 CAGACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * *
1773757 TCCAAGGTCAAAGCCGATAAGCAGACTAAAGTTTAGGAAGTCTCTAGAGTCAAAGTCGACAAGCA
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCA-AGTCAAAGCCGACAAGCA
* * * * * *
1773822 GCCTAAAGCTAAGGAAGCCTCTAGGGTCAAACCCGATAGGCAAACTAAAGGTTAGGAAGTC
65 GACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * ** *
1773883 TCTAGGGTCAAAGTCGATAGGCAAACTAAACATTAAGAAGTCTCCACGGTCAAAGCCGACAAGCA
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCA-AGTCAAAGCCGACAAGCA
* * * * * ** * * * * **
1773948 GACTAAGGGCAAAGAAATCTCTAGAGTCAAAGTAGACAGGCAAACAAAATGTAAAAAAGTC
65 GACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * *
1774009 TCTAGGGTCAAAGCCGACAGGCAAACTAAAAGTTAAGAAGTCTCTAAGGTCAAAGCCGAC-AGCC
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCAA-GTCAAAGCCGACAAG-C
* * ** * * *
1774073 AAACTAAAGGTAAGGAAATCTCTAATGTTAAAGCCGACAGGCACACAAAAGGTTAGGAAGTC
64 AGACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * *
1774135 TCCAAGGTCAAAGCCGACAAGCAAACTAAAGGTTAGGAAGTCTCCAAGCTCAAAGCCAGCCAACA
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCAAG-TCAAAGCC-G---ACA
* * * * * *
1774200 AGCAGACTAAAGGTTAGGAACTCTCCAGGGTCAAAGCCAATAGGCAGACTAAAGGTTAGGAAGCC
61 AGCAGACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * * * * * * *
1774265 TTCAGGGTCAAAGTCGACATGTAAACTAAAAGTCAGGAAGTCTCCAAGGTCAAAGCCAACAGGCA
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCAA-GTCAAAGCCGACAAGCA
* * * * *
1774330 GACTAAAGGTAAAGAAGTCTCTAGGGTCAAAGCCAACAGGCAAACTAAAGGTAAAGAAGTC
65 GACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * * * * *
1774391 TCTAGGGTCAAAGCCAATAGGTAAACTAAAGGTAAAGAAGTCTCCAAGGTCAAAGCTGACAAGTA
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCAA-GTCAAAGCCGACAAGCA
* ** * * * ** *
1774456 GACTAAAGGCAAAAAAGTTTCTAGAGTCAAAGTCGGTAGGCAAACTAAAGGTTAGGAAGTC
65 GACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * * * * * * *
1774517 T--AAGGGTCAAAACCAACAAGCAAACTAAAAGATAAGAAGTCT-CAAGGTCAAAACTGATAGGT
1 TCCAA-GGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCAA-GTCAAAGCCGACAAGC
* * * * *
1774579 AGACTAAAGGTAAGGAAATCTCCAAGGTCAAAGCCGATAGGTAGACTAAAGGTTAGGAAGTC
64 AGACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * * * * * *
1774641 TCCAATGTCAAAACCGATAAGTAAACTAAAGGTTAGGAAGCCTCCAACATCAAAGCCGACAGGCA
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCAA-GTCAAAGCCGACAAGCA
* * ** * * * * *
1774706 GACTAAAGGTTAGGAAGTCTTTAGGGTCAAAGTTGATAGACAGACTAAGGGTGAAGAAGTC
65 GACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * * ** * **
1774767 TCCAAGGTCAAAGCTGATAGGCAGACT-AAGGTAAAAAAGCCTCCAGGGTCAAAATCAACCGGCA
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCA-AGTCAAAGCCGACAAGCA
* * * * * * * * **
1774831 GACTAAAGGTTAGGAAGTCTCTAGGGTTAAAGTCGATAGGTAGATTAAAGATGAAAAAGTC
65 GACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * * * * *
1774892 TCCAAGGTTAAGGCCGACAAGTAGACTAAAGG-TAAGGAAGTCTCTAGGGTCAAAGCCGATAGGT
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAA-GAAGTCTCCA-AGTCAAAGCCGACAAGC
* * * * * * *
1774956 AAACTAATGGTTAGGAAGTCTCCAAGGTCAAAGTCGATAGGCAGAC-----GTTAGGAAGTC
64 AGACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * * * * *
1775013 TCCAGGGTCAAAGCTGATAAGTAGACTAAAGGTT-AGAAAGTCTCTAGGGTCAAAGCCGATAAAC
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAG-AAGTCTCCA-AGTCAAAGCCGACAAGC
* * * * * ** * *
1775077 AAACTAAAGGAAAAGAAGTCTCTAGTGTCAAAGTCGATGGGTAGACTAAAGGTAAGGAAGTC
64 AGACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * *
1775139 TCCAAGGTCAAAGTCGACAAGCAGATTAAAGGTTAAGAAGTCTCCAAGGTCAAAGTCGACAAGCA
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCAA-GTCAAAGCCGACAAGCA
* * * * ** *
1775204 GATTAAAGGTTAA-GAAGTCTCCAAGGTCAAAGTCGACAGATAGACTAAAGGTTAGGAAATC
65 GACTAAAGG-TAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * * * *
1775265 TCTAAGGTCAAAACTGACAGGCAGACTAAAGGTAAAGAAATCTCCAATGTCAAAGCTGATAGGCA
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCAA-GTCAAAGCCGACAAGCA
* * * *
1775330 GACTAAAGGTTAGGAAGTCTTTAGGGTCAAAGCCGATAGGCAAACTAAAGGTTAGGAAGTC
65 GACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * * *
1775391 TCCAAGGTCAAAGCCAACATGCAAACTAAAAG-TAAGGAAGTCTCTAAGGTCAAAGCCGATAGGC
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAA-GAAGTCTCCAA-GTCAAAGCCGACAAGC
* * * * * * * *
1775455 AAACTAACGGTAAAGAAGTCTTTAGGGTC-AAGCCAACATGCAGACTAAAGGTAAAGAAGTC
64 AGACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * * * ** *
1775516 TTCAAGGTCAAAACCAACATGTAGACTAAAGGTGAAAAAGT-TTTAAGGGTCAAAGCCCACAAGC
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCAA--GTCAAAGCCGACAAGC
* * * * * *
1775580 AGACTAAGGGCAAAGAAGTCTCCAAGGTCAAAGCCAACAGGCAGACTAAAGGTTAGGAAGTC
64 AGACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * ** * * *
1775642 T--TAGGATCAAAGTCGACAGGCAGACTAAAGGTGAAGAAGTCTTTAAAGTCAAAGTCAACAGGC
1 TCCAAGG-TCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTC-TCCAAGTCAAAGCCGACAAGC
* * * * ** * *
1775705 AGACTAAAAGTTAGGAAGTCT-TCAAGGTCAAAGTCGACCTGCAAACTAAAGGTTAGAAAGTC
64 AGACTAAAGGTAAGGAAGTCTCT-AGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * * * *
1775767 TCTAAGGTTAAAGCCAATAGGCAGACTAAGGGTAAAGAAGTCTCTAGGGTCAAAGCCGACAAGCA
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCA-AGTCAAAGCCGACAAGCA
* * *
1775832 GACTAAAGGTGAA-GAAGTCTCTAGGATCGAAA-CCGACAGGCAGACTAAAGGTGAAGAAGTC
65 GACTAAAGGT-AAGGAAGTCTCTAGGGTC-AAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * * * * * * * *
1775893 TCTAGGGTTATAGCCGATAGGTAGACTAAAGG-TGAGAAATCTCTAGGGTCAAAGCCGACATGTA
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCA-AGTCAAAGCCGACAAGCA
* * *
1775957 GACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCTGACAAGCAGACTAAAGGTTAGGAAGCC
65 GACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
* * * * * * *
1776018 TCCAAGGTCAAAGTCGATAGGTAGACCAAAGGTT-AGAAAGTCTCCAAGATTAAAGTC-AAAAGG
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAG-AAGTCTCCAAG-TCAAAGCCGACAA-G
* * * * * ** * ** *
1776081 CAAACTAAAGATAAAGAAGTCTCCAAGGTCAAAGCTAACAGGCAAACTAAAGG-TAAAAATGTT
63 CAGACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAA-GTC
* * * * * *
1776144 TACAGGGTCAAAGCCGATAAGCAGACTAAAAGTAAAGAAGT
1 TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGT
1776185 TAGAAGGGTT
Statistics
Matches: 1937, Mismatches: 439, Indels: 104
0.78 0.18 0.04
Matches are distributed among these distances:
120 1 0.00
121 96 0.05
122 1 0.00
124 81 0.04
125 467 0.24
126 1162 0.60
127 25 0.01
130 101 0.05
131 3 0.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (125 bp):
TCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTTAAGAAGTCTCCAAGTCAAAGCCGACAAGCAG
ACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAGGTTAGGAAGTC
Found at i:1776764 original size:32 final size:30
Alignment explanation
Indices: 1776728--1776786 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1776718 GAAATCAAAT
1776728 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
1776760 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
1776787 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:1777082 original size:13 final size:13
Alignment explanation
Indices: 1777064--1777089 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1777054 ATATTTTTTG
1777064 TGTATCGATACAT
1 TGTATCGATACAT
1777077 TGTATCGATACAT
1 TGTATCGATACAT
1777090 ATTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1777100 original size:32 final size:33
Alignment explanation
Indices: 1777043--1777107 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
1777033 TACAAGCCAA
1777043 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
1777077 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
1777108 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:1777101 original size:19 final size:19
Alignment explanation
Indices: 1777043--1777107 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
1777033 TACAAGCCAA
1777043 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
1777064 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1777077 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1777096 TGTATCGATACA
1 TGTATCGATACA
1777108 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:1781736 original size:15 final size:15
Alignment explanation
Indices: 1781716--1781746 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1781706 ATTTCGTTTG
*
1781716 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1781731 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1781746 G
1 G
1781747 GATATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1783579 original size:21 final size:21
Alignment explanation
Indices: 1783550--1783594 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1783540 AAGTTTTTAT
*
1783550 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1783570 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1783592 TTT
1 TTT
1783595 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1785512 original size:32 final size:30
Alignment explanation
Indices: 1785476--1785534 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1785466 GAAATCAAAT
1785476 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
1785508 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
1785535 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:1785817 original size:13 final size:13
Alignment explanation
Indices: 1785799--1785823 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1785789 ATATTTTTTG
1785799 TGTATCGATACAT
1 TGTATCGATACAT
1785812 TGTATCGATACA
1 TGTATCGATACA
1785824 AGTTTGGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1786361 original size:44 final size:43
Alignment explanation
Indices: 1786296--1787253 Score: 480
Period size: 44 Copynumber: 22.5 Consensus size: 43
1786286 GTTAGAAGGG
*
1786296 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAA-AA
* * *
1786340 TCTGACCAGGGTGGTAACCATACG-CTAGA-CAAGAA--AAAGGCATA
1 TTTGACCAGGGTGGTAACCATACGTC-AAATC-AGAATGAAA---AAA
* *
1786384 TTTGACCAGAGTGGTAACCATACGTCAAATCAAAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAA-AA
* * * *
1786428 TTTAACCAGGGTGGTAACCATACGTCAGACCAAAAT-AAGAAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAA-AAAA
* *
1786471 GTTTGACTAGGGTGGTAACCATACGTCAAA-CAGAA-CAAAGATAGA
1 -TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAA-A-A-A
** * *
1786516 TTTGACCAAAGTGGTAACCATACATCAAATCAAAATGAAAACAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAA-AA
** * *
1786560 CCTGACCAGGGTGGTAACCATATGTCAAATC-GAAATGAGAAAAG
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAG-AATGA-AAAAA
* * * * *
1786604 TTTGAACAAGGTGATAACTATACATCAAA-C--AA--AAAAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAAA
* * * *
1786642 TCTGACGAGGGTGGTAACCATACGTCAGATC-GAAATGAAGAAAG
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAG-AATGAA-AAAA
** *
1786686 TTTGACCAGGGTGGTAAGTATACATCAAA-C---A--AAAAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAAA
* * * * * *
1786723 TTTGACGATGGTGATAACCATACGTCAGATCAAAATGAGAAAAT
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGA-AAAAA
* **
1786767 TTTGACCAGGGTGGTAACCATAGGTCAAAT-AGAACAT-AGGCAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAG-A-ATGA-AAAAA
* * * *
1786811 TTTGACCAGAGTGGTAACCATACGTTAAATTAGATTGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAA-AA
* * * * *
1786855 TCT-ACCCAAGGTGGTAACCATACATTAGA-CAGGAA--AAAAAA
1 TTTGA-CCAGGGTGGTAACCATACGTCAAATCA-GAATGAAAAAA
* * * *
1786896 GTTTAACCAAGGTGGTAACCATACGTCAAAT-AGAA-CAAAAGTGGA
1 -TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAA---AA
* * *
1786941 TTTGACTA-GGT-GTAACCATACTTCAAATCAAAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAA-AA
* * * *
1786983 TCTGGCCAGGGTGGTAACCATACGTCAGATC-GAAATGAGAAAAG
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAG-AATGA-AAAAA
*
1787027 TTTGATCAGGGTGGTAACCATACGTCAAA-C--AA--AAAAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAAA
** * * * * * * * *
1787065 CCTAACAAGGGTAGTAACCATACATCAGAT-TGAAATTAGAAAAG
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAG-AATGA-AAAAA
* **
1787109 TTTGACCAAGGTGGTAACCATA--T---ATCA-AACAAAAAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAAA
* * * * * *
1787146 TCTGACGTATGGTGGTAACCATACGTCAGAT-GGAAATGAGAAAAG
1 TTTGAC-CAGGGTGGTAACCATACGTCAAATCAG-AATGA-AAAAA
* *
1787191 TTTGACCAGGGTGGTAACCATACATCAAA-CA-AA-AAAAAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAAA
* * * *
1787231 TCTGACGATGATGGTAACCATAC
1 TTTGACCAGGGTGGTAACCATAC
1787254 ACCAATACTG
Statistics
Matches: 695, Mismatches: 148, Indels: 146
0.70 0.15 0.15
Matches are distributed among these distances:
37 34 0.05
38 70 0.10
39 5 0.01
40 25 0.04
41 15 0.02
42 62 0.09
43 38 0.05
44 410 0.59
45 30 0.04
46 6 0.01
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (43 bp):
TTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAAA
Found at i:1786674 original size:82 final size:82
Alignment explanation
Indices: 1786298--1787253 Score: 612
Period size: 88 Copynumber: 11.3 Consensus size: 82
1786288 TAGAAGGGTT
* * * * *
1786298 TGACCAGGGTGGTAACCATACATCAAATC-AGAATGA-AAAGAATCTGACCAGGGTGGTAACCAT
1 TGACCAGGGTGGTAACCATACGTCAGATCGA-AATGAGAAA-AGTTTGACCAAGGTGGTAACCAT
* * *
1786361 AC-GCTAGACAAGAAAAAGGCATATT
64 ACATC-AAAC-A-AAAAA---A-ATC
* * * * * *
1786386 TGACCAGAGTGGTAACCATACGTCAAATCAAAATGA-AAAGAATTTAACCAGGGTGGTAACCATA
1 TGACCAGGGTGGTAACCATACGTCAGATCGAAATGAGAAA-AGTTTGACCAAGGTGGTAACCATA
* * *
1786450 CGTCAGACCAAAATAAGAAAAGTT
65 CATCA-A--ACAA-AA-AAAA-TC
* * * * *
1786474 TGACTAGGGTGGTAACCATACGTCA-AACAGAACA-AAG-ATAGATTTGACCAAAGTGGTAACCA
1 TGACCAGGGTGGTAACCATACGTCAGATC-GAA-ATGAGAAAAG-TTTGACCAAGGTGGTAACCA
*
1786536 TACATCAAATCAAAATGAAAACAACC
63 TACATCAAA-C--AA--AAAA-AATC
* * * * *
1786562 TGACCAGGGTGGTAACCATATGTCAAATCGAAATGAGAAAAGTTTGAACAAGGTGATAACTATAC
1 TGACCAGGGTGGTAACCATACGTCAGATCGAAATGAGAAAAGTTTGACCAAGGTGGTAACCATAC
1786627 ATCAAACAAAAAAAATC
66 ATCAAACAAAAAAAATC
* * **
1786644 TGACGAGGGTGGTAACCATACGTCAGATCGAAATGA-AGAAAGTTTGACCAGGGTGGTAAGTATA
1 TGACCAGGGTGGTAACCATACGTCAGATCGAAATGAGA-AAAGTTTGACCAAGGTGGTAACCATA
*
1786708 CATCAAAC-AAAAAAATT
65 CATCAAACAAAAAAAATC
* * * * * * *
1786725 TGACGATGGTGATAACCATACGTCAGATCAAAATGAGAAAATTTTGACCAGGGTGGTAACCATAG
1 TGACCAGGGTGGTAACCATACGTCAGATCGAAATGAGAAAAGTTTGACCAAGGTGGTAACCATAC
* * *
1786790 GTCAAATAGAACATAGGCAAATT
66 ATCAAACA-AA-A-A---AAATC
* * * * * * *
1786813 TGACCAGAGTGGTAACCATACGTTAAAT-TAGATTGA-AAAGAATCT-ACCCAAGGTGGTAACCA
1 TGACCAGGGTGGTAACCATACGTCAGATCGA-AATGAGAAA-AGTTTGA-CCAAGGTGGTAACCA
* * *
1786875 TACATTAGACAGGAAAAAAAAGTT
63 TACATCA-A-A-CAAAAAAAA-TC
* * * * ** *** *
1786899 TAACCAAGGTGGTAACCATACGTCAAATAGAACAAAAGTGGA-TTTGA-CTAGGT-GTAACCATA
1 TGACCAGGGTGGTAACCATACGTCAGATCGAA-ATGAGAAAAGTTTGACCAAGGTGGTAACCATA
*
1786961 CTTCAAATCAAAATGAAAAGAATC
65 CATCAAA-C--AA--AAAA-AATC
* * *
1786985 TGGCCAGGGTGGTAACCATACGTCAGATCGAAATGAGAAAAGTTTGATCAGGGTGGTAACCATAC
1 TGACCAGGGTGGTAACCATACGTCAGATCGAAATGAGAAAAGTTTGACCAAGGTGGTAACCATAC
* *
1787050 GTCAAACAAAAAAAACC
66 ATCAAACAAAAAAAATC
* * * * * * *
1787067 TAACAAGGGTAGTAACCATACATCAGATTGAAATTAGAAAAGTTTGACCAAGGTGGTAACCATAT
1 TGACCAGGGTGGTAACCATACGTCAGATCGAAATGAGAAAAGTTTGACCAAGGTGGTAACCATAC
1787132 ATCAAAC-AAAAAAATC
66 ATCAAACAAAAAAAATC
* * * *
1787148 TGACGTATGGTGGTAACCATACGTCAGATGGAAATGAGAAAAGTTTGACCAGGGTGGTAACCATA
1 TGAC-CAGGGTGGTAACCATACGTCAGATCGAAATGAGAAAAGTTTGACCAAGGTGGTAACCATA
1787213 CATCAAACAAAAAAAAAATC
65 CATCAAAC--AAAAAAAATC
* * *
1787233 TGACGATGATGGTAACCATAC
1 TGACCAGGGTGGTAACCATAC
1787254 ACCAATACTG
Statistics
Matches: 697, Mismatches: 119, Indels: 108
0.75 0.13 0.12
Matches are distributed among these distances:
81 81 0.12
82 192 0.28
83 11 0.02
84 30 0.04
85 31 0.04
86 66 0.09
87 23 0.03
88 238 0.34
89 15 0.02
90 6 0.01
91 4 0.01
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.21
Consensus pattern (82 bp):
TGACCAGGGTGGTAACCATACGTCAGATCGAAATGAGAAAAGTTTGACCAAGGTGGTAACCATAC
ATCAAACAAAAAAAATC
Found at i:1787026 original size:130 final size:132
Alignment explanation
Indices: 1786732--1787055 Score: 383
Period size: 130 Copynumber: 2.5 Consensus size: 132
1786722 ATTTGACGAT
* * * *
1786732 GGTGATAACCATACGTCAGATCAAAATGAGAAAATTTTGACCAGGGTGGTAACCATAGGTCAAAT
1 GGTGGTAACCATACGTCAGATCGAAATGAGAAAAGTTTGACCAGGGTGGTAACCATACGTCAAAT
* * * * *
1786797 AGAACATAGGCAAATTTGACCAGAGTGGTAACCATACGTTAAATTAGATTGAAAAGAATCTACCC
66 AGAACAAAAGCAAATTTGACCAGAGTGGTAACCATACGTTAAATCAAAATGAAAAGAATCTACCC
1786862 AA
131 AA
* * * *
1786864 GGTGGTAACCATACATTAGA-CAGGAAA--A-AAAAGTTTAACCAAGGTGGTAACCATACGTCAA
1 GGTGGTAACCATACGTCAGATC--GAAATGAGAAAAGTTTGACCAGGGTGGTAACCATACGTCAA
*** * *
1786925 ATAGAACAAAAGTGGATTTGACTAG-GT-GTAACCATAC-TTCAAATCAAAATGAAAAGAATCTG
64 ATAGAACAAAAGCAAATTTGACCAGAGTGGTAACCATACGTT-AAATCAAAATGAAAAGAATCTA
* *
1786987 GCCAG
128 CCCAA
*
1786992 GGTGGTAACCATACGTCAGATCGAAATGAGAAAAGTTTGATCAGGGTGGTAACCATACGTCAAA
1 GGTGGTAACCATACGTCAGATCGAAATGAGAAAAGTTTGACCAGGGTGGTAACCATACGTCAAA
1787056 CAAAAAAAAC
Statistics
Matches: 160, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
127 6 0.04
128 49 0.31
129 4 0.03
130 79 0.49
131 2 0.01
132 17 0.11
133 3 0.02
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (132 bp):
GGTGGTAACCATACGTCAGATCGAAATGAGAAAAGTTTGACCAGGGTGGTAACCATACGTCAAAT
AGAACAAAAGCAAATTTGACCAGAGTGGTAACCATACGTTAAATCAAAATGAAAAGAATCTACCC
AA
Found at i:1787281 original size:82 final size:80
Alignment explanation
Indices: 1786994--1787257 Score: 244
Period size: 82 Copynumber: 3.2 Consensus size: 80
1786984 CTGGCCAGGG
** * * *
1786994 TGGTAACCATACGTCAGATCGAAATGAGAAAAGTTTGATCAGGGTGGTAACCATACGTCAAACAA
1 TGGTAACCATACACCAGAT-G-AATGACAAAAGTTTGACCAGGGTGGTAACCATACATCAAAC-A
* * * * *
1787059 AAAAAACCTAAC-AAGGG
63 AAAAAATCTGACGTATGA
* * * * * *
1787076 TAGTAACCATACATCAGATTGAAATTAGAAAAGTTTGACCAAGGTGGTAACCATATATCAAACAA
1 TGGTAACCATACACCAGA-TG-AATGACAAAAGTTTGACCAGGGTGGTAACCATACATCAAACAA
*
1787141 AAAAATCTGACGTATGG
64 AAAAATCTGACGTATGA
** *
1787158 TGGTAACCATACGTCAGATGGAAATGAGAAAAGTTTGACCAGGGTGGTAACCATACATCAAACAA
1 TGGTAACCATACACCAGAT-G-AATGACAAAAGTTTGACCAGGGTGGTAACCATACATCAAAC--
1787223 AAAAAAAATCTGACG-ATGA
62 -AAAAAAATCTGACGTATGA
1787242 TGGTAACCATACACCA
1 TGGTAACCATACACCA
1787258 ATACTGTCAA
Statistics
Matches: 157, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
81 12 0.08
82 113 0.72
83 1 0.01
84 17 0.11
85 14 0.09
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (80 bp):
TGGTAACCATACACCAGATGAATGACAAAAGTTTGACCAGGGTGGTAACCATACATCAAACAAAA
AAATCTGACGTATGA
Found at i:1787340 original size:48 final size:48
Alignment explanation
Indices: 1787270--1787603 Score: 370
Period size: 48 Copynumber: 7.2 Consensus size: 48
1787260 ACTGTCAAAT
*
1787270 GAGTTTGACCA-GCCCTAACACCAATACTGTCAAACGAGGGATGAAAA
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAA
* * * * *
1787317 GAGTTCGACTAAGCCCGAACACCAATACAATCAAACGAGGGATGAAAA
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAA
* *
1787365 GAGCTTGACCAGGCCCTAACACCAATACAGTCAAATGAGGGATGAAAA
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAA
* * * *
1787413 GAGTTTGACTAGGCCCTAACACCAATACAGTTAAATGAGGGATGAATA
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAA
* * * *
1787461 GAGTTTGACCAGGCCTTAACACTAATATAGTTAAACGAGGGATGAAAA
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAA
* * * *
1787509 GAGTTTG---A-----T--TA-C-ATACAATCAAATGAAGGATGAAAA
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAA
* *
1787545 GAATTTGACTAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAA
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAA
*
1787593 GAGTCTGACCA
1 GAGTTTGACCA
1787604 AATACAGTCA
Statistics
Matches: 237, Mismatches: 37, Indels: 25
0.79 0.12 0.08
Matches are distributed among these distances:
36 25 0.11
38 1 0.00
39 1 0.00
40 1 0.00
44 1 0.00
45 1 0.00
46 1 0.00
47 10 0.04
48 196 0.83
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (48 bp):
GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAA
Found at i:1787453 original size:96 final size:95
Alignment explanation
Indices: 1787270--1787601 Score: 409
Period size: 96 Copynumber: 3.6 Consensus size: 95
1787260 ACTGTCAAAT
* * *
1787270 GAGTTTGACCA-GCCCTAACACCAATACTGTCAAACGAGGGATGAAAAGAGTTCGACTAAGCCCG
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAAGAGTTTGACT-AGCCCT
*
1787334 AACACCAATACAATCAAACGAGGGATGAAAA
65 AACACCAATACAATCAAATGAGGGATGAAAA
* *
1787365 GAGCTTGACCAGGCCCTAACACCAATACAGTCAAATGAGGGATGAAAAGAGTTTGACTAGGCCCT
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAAGAGTTTGACTA-GCCCT
* * *
1787430 AACACCAATACAGTTAAATGAGGGATGAATA
65 AACACCAATACAATCAAATGAGGGATGAAAA
* * * *
1787461 GAGTTTGACCAGGCCTTAACACTAATATAGTTAAACGAGGGATGAAAAGAGTTTGA-T-----T-
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAAGAGTTTGACTAGCCCTA
*
1787519 --A-C-ATACAATCAAATGAAGGATGAAAA
66 ACACCAATACAATCAAATGAGGGATGAAAA
* * *
1787545 GAATTTGACTAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAAGAGTCTGAC
1 GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAAGAGTTTGAC
1787602 CAAATACAGT
Statistics
Matches: 208, Mismatches: 26, Indels: 16
0.83 0.10 0.06
Matches are distributed among these distances:
84 69 0.33
85 1 0.00
86 1 0.00
89 1 0.00
95 12 0.06
96 124 0.60
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (95 bp):
GAGTTTGACCAGGCCCTAACACCAATACAGTCAAACGAGGGATGAAAAGAGTTTGACTAGCCCTA
ACACCAATACAATCAAATGAGGGATGAAAA
Found at i:1787609 original size:84 final size:84
Alignment explanation
Indices: 1787436--1787615 Score: 234
Period size: 84 Copynumber: 2.1 Consensus size: 84
1787426 CCCTAACACC
* * * * * * * *
1787436 AATACAGTTAAATGAGGGATGAATAGAGTTTGACCAGGCCTTAACACTAATATAGTTAAACGAGG
1 AATACAGTCAAATGAAGGATGAAAAGAATTTGACCAGGCCCTAACACCAATACAGTCAAACGAGG
* **
1787501 GATGAAAAGAGTTTGATTA
66 GATGAAAAGAGTCTGACCA
* * *
1787520 CATACAATCAAATGAAGGATGAAAAGAATTTGACTAGGCCCTAACACCAATACAGTCAAACGAGG
1 AATACAGTCAAATGAAGGATGAAAAGAATTTGACCAGGCCCTAACACCAATACAGTCAAACGAGG
1787585 GATGAAAAGAGTCTGACCA
66 GATGAAAAGAGTCTGACCA
1787604 AATACAGTCAAA
1 AATACAGTCAAA
1787616 CGATGATGGA
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.21
Consensus pattern (84 bp):
AATACAGTCAAATGAAGGATGAAAAGAATTTGACCAGGCCCTAACACCAATACAGTCAAACGAGG
GATGAAAAGAGTCTGACCA
Found at i:1788296 original size:22 final size:20
Alignment explanation
Indices: 1788271--1788327 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
1788261 GCCAAGGAAA
1788271 TGTATCGATACATGCTTAC-AAT
1 TGTATCGATACAT--TT-CTAAT
*
1788293 TGTATCGATACATTTCTCAT
1 TGTATCGATACATTTCTAAT
1788313 TGTATCGATACATTT
1 TGTATCGATACATTT
1788328 TGGGTTTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 19 0.58
22 13 0.39
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTCTAAT
Found at i:1789276 original size:32 final size:33
Alignment explanation
Indices: 1789214--1789277 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
1789204 CACACCCAGA
*
1789214 TGTATCGACACATATTGCTTAGCATCGATACAT
1 TGTATCGACACATATTGCATAGCATCGATACAT
* * *
1789247 TGTATCGATACATGTT-CATAGTATCGATACA
1 TGTATCGACACATATTGCATAGCATCGATACA
1789278 CCTTGAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (33 bp):
TGTATCGACACATATTGCATAGCATCGATACAT
Found at i:1790957 original size:3 final size:3
Alignment explanation
Indices: 1790942--1790973 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1790932 AACCATCAAG
*
1790942 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1790974 AGTTGACTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:1797252 original size:2 final size:2
Alignment explanation
Indices: 1797245--1797275 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1797235 GGTATCATTT
1797245 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1797276 TTCCCTAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1798328 original size:13 final size:13
Alignment explanation
Indices: 1798310--1798335 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1798300 TACAGCAAGT
1798310 ATGTATCGATACA
1 ATGTATCGATACA
1798323 ATGTATCGATACA
1 ATGTATCGATACA
1798336 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1800589 original size:21 final size:21
Alignment explanation
Indices: 1800556--1800600 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1800546 TTGCAAGATG
*
1800556 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1800578 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1800598 AAA
1 AAA
1800601 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1802424 original size:15 final size:15
Alignment explanation
Indices: 1802404--1802442 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1802394 TAAAAATGTC
*
1802404 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1802419 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
1802434 CCAAATGAA
1 CAAAATGAA
1802443 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1804531 original size:13 final size:13
Alignment explanation
Indices: 1804513--1804538 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1804503 ACATTTTTCT
1804513 TTGTATCGATACA
1 TTGTATCGATACA
1804526 TTGTATCGATACA
1 TTGTATCGATACA
1804539 AGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1807100 original size:13 final size:13
Alignment explanation
Indices: 1807082--1807107 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1807072 TACAGCAAGT
1807082 ATGTATCGATACA
1 ATGTATCGATACA
1807095 ATGTATCGATACA
1 ATGTATCGATACA
1807108 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1808097 original size:32 final size:32
Alignment explanation
Indices: 1808039--1808100 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
1808029 TAACCAGATG
1808039 TATCGATACATATTGCTTAGTATCGATACATTA
1 TATCGATACATATT-CTTAGTATCGATACATTA
*
1808072 TATCGATACATGTT-TATAGTATCGATACA
1 TATCGATACATATTCT-TAGTATCGATACA
1808101 CCTTGAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 1 0.04
32 13 0.48
33 13 0.48
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (32 bp):
TATCGATACATATTCTTAGTATCGATACATTA
Found at i:1809458 original size:9 final size:9
Alignment explanation
Indices: 1809444--1809474 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1809434 TCACCATGCA
1809444 CTTTTTTTT
1 CTTTTTTTT
1809453 CTTTTTTTT
1 CTTTTTTTT
*
1809462 CTTTCTTTT
1 CTTTTTTTT
1809471 CTTT
1 CTTT
1809475 CCATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:1810881 original size:79 final size:77
Alignment explanation
Indices: 1810699--1810951 Score: 240
Period size: 79 Copynumber: 3.2 Consensus size: 77
1810689 TTTTCATCTT
* * ** *
1810699 AAAGGATACTCGAATCCCGCTCTTATTTCCAAAATATTAAATTTTTTTTTTTGGGGATACTCCAA
1 AAAGGATACTCCAA-CCCGCTTTTATTTCCAAAATATTAAATTTTTCATCTTGGGGATACTCCAA
** * *
1810764 CCCCGCTATTTTT
65 CCCATCAATTTTG
* *
1810777 AAAGGGATACTCCAACCC-CTTTTTTATTTTCAAAATATTAAATTATTCATCTTGGGGATACTCC
1 AAA-GGATACTCCAACCCGC--TTTTATTTCCAAAATATTAAATTTTTCATCTTGGGGATACTCC
1810841 AACCCTATCAATTTTG
63 AACCC-ATCAATTTTG
* * *** **
1810857 AAAGGATCCTCTAACCTCGCTTTTATTTCCAAAACGCTAAATTTTTCATC-TCAGGATACTCCAA
1 AAAGGATACTCCAACC-CGCTTTTATTTCCAAAATATTAAATTTTTCATCTTGGGGATACTCCAA
* *
1810921 CCCCATTAATTCTG
65 -CCCATCAATTTTG
*
1810935 AGAGGATACTCCAACCC
1 AAAGGATACTCCAACCC
1810952 TGTTAAGCTT
Statistics
Matches: 143, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
77 2 0.01
78 39 0.27
79 91 0.64
80 10 0.07
81 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.35
Consensus pattern (77 bp):
AAAGGATACTCCAACCCGCTTTTATTTCCAAAATATTAAATTTTTCATCTTGGGGATACTCCAAC
CCATCAATTTTG
Found at i:1811270 original size:33 final size:32
Alignment explanation
Indices: 1811225--1811287 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
1811215 GCACACCCAG
*
1811225 ATGTATCGATACATATT-ACTTAGTATCGATACA
1 ATGTATCAATACATATTCA-TTA-TATCGATACA
*
1811258 ATGTATCAATACATGTTCATTATATCGATA
1 ATGTATCAATACATATTCATTATATCGATA
1811288 TATCGATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 8 0.30
33 18 0.67
34 1 0.04
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (32 bp):
ATGTATCAATACATATTCATTATATCGATACA
Found at i:1811377 original size:10 final size:10
Alignment explanation
Indices: 1811362--1811387 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1811352 GATACATACC
1811362 GTTCATTACT
1 GTTCATTACT
1811372 GTTCATTACT
1 GTTCATTACT
1811382 GTTCAT
1 GTTCAT
1811388 GTATCACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (10 bp):
GTTCATTACT
Found at i:1818036 original size:52 final size:53
Alignment explanation
Indices: 1817954--1818080 Score: 204
Period size: 52 Copynumber: 2.4 Consensus size: 53
1817944 AATATGAAAT
*
1817954 TTTGCCTGCATGTATCGATAC-ATTTCATAGTGTATCAATATATCTGAGCAAA
1 TTTGCCTGCATGTATCGATACAATTTCATAGTGTATCAATACATCTGAGCAAA
* * *
1818006 TTTGCCTGTATGTATCGATACAATTT-ATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACAATTTCATAGTGTATCAATACATCTGAGCAAA
1818058 TTTGCCTGCATGTATCGATACAA
1 TTTGCCTGCATGTATCGATACAA
1818081 AGATCAGTGT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
52 65 0.94
53 4 0.06
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (53 bp):
TTTGCCTGCATGTATCGATACAATTTCATAGTGTATCAATACATCTGAGCAAA
Found at i:1818090 original size:52 final size:51
Alignment explanation
Indices: 1817954--1818099 Score: 193
Period size: 52 Copynumber: 2.8 Consensus size: 51
1817944 AATATGAAAT
* * *
1817954 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATATATCTGAGCAAA
1 TTTGCCTGCATGTATCGATACA-ATCATAGTGTATCGATACATCTGAGCAAA
* * *
1818006 TTTGCCTGTATGTATCGATACAATTTATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACAA-TCATAGTGTATCGATACATCTGAGCAAA
**
1818058 TTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTTGCCTGCATGTATCGATACAATCAT-AGTGTATCGATACA
1818100 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (51 bp):
TTTGCCTGCATGTATCGATACAATCATAGTGTATCGATACATCTGAGCAAA
Found at i:1818106 original size:13 final size:13
Alignment explanation
Indices: 1818088--1818112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1818078 CAAAGATCAG
1818088 TGTATCGATACAA
1 TGTATCGATACAA
1818101 TGTATCGATACA
1 TGTATCGATACA
1818113 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1818179 original size:19 final size:18
Alignment explanation
Indices: 1818155--1818252 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
1818145 TAGCTTACAT
1818155 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
*
1818174 TGTATCGATGC--A--T-
1 TGTATCGATACAAACTTA
1818187 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1818206 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1818219 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
1818239 TGTATCGATACAAA
1 TGTATCGATACAAA
1818253 TCATTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.36
20 13 0.20
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1818193 original size:32 final size:32
Alignment explanation
Indices: 1818150--1818250 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
1818140 GGCAGTAGCT
*
1818150 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
1818182 TGCATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1818214 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
1818247 TACA
1 TACA
1818251 AATCATTGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 50 0.77
33 15 0.23
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:1818224 original size:13 final size:13
Alignment explanation
Indices: 1818174--1818230 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1818164 ACAAAACTTA
*
1818174 TGTATCGATGCAT
1 TGTATCGATACAT
1818187 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1818205 ATGTATCGATACAT
1 -TGTATCGATACAT
1818219 TGTATCGATACA
1 TGTATCGATACA
1818231 ACACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 21 0.57
14 1 0.03
16 5 0.14
18 1 0.03
19 9 0.24
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1820644 original size:14 final size:14
Alignment explanation
Indices: 1820625--1820652 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1820615 TACATATTTC
1820625 AAAAATGATGTCAA
1 AAAAATGATGTCAA
1820639 AAAAATGATGTCAA
1 AAAAATGATGTCAA
1820653 TCTAAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
AAAAATGATGTCAA
Found at i:1823880 original size:17 final size:19
Alignment explanation
Indices: 1823855--1823893 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
1823845 TGAAAAAGAA
1823855 TTTATTTATCA-TTTTTAT
1 TTTATTTATCATTTTTTAT
*
1823873 TTTA-TTATTATTTTTTAT
1 TTTATTTATCATTTTTTAT
1823891 TTT
1 TTT
1823894 CAAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTATTTATCATTTTTTAT
Found at i:1825039 original size:31 final size:31
Alignment explanation
Indices: 1824998--1825081 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 31
1824988 TTAAAGAAGA
1824998 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAA-GGT
1825030 TG-CACCAACTTGTGT--GCTTTTG-AAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
**
1825057 TGCCACTGAC-T-TGTGGGCTTTTGAA
1 TGCCACCAACTTGTGTGGGCTTTTGAA
1825082 GAGATACCAC
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
26 3 0.07
27 6 0.13
28 14 0.30
29 8 0.17
31 13 0.28
32 2 0.04
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.35
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
Found at i:1825099 original size:29 final size:29
Alignment explanation
Indices: 1825057--1825320 Score: 325
Period size: 29 Copynumber: 9.0 Consensus size: 29
1825047 TTTTGAAGGT
* *
1825057 TGCCACTGACTTGTGGGCTTTTGAAGAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
1825086 TACCACTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
*
1825116 TGCCACTGGCTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
*
1825145 TGCCACTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
*
1825175 TGCCACTGACTTGTGGGCATTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
*
1825204 TGCCACTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
* * *
1825234 TGCCACTGATTTGTGGGCTTT--AAAGGT
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
* * *
1825261 TGCCACTAACTTGTGGGCTTTGGGAGAAGGG
1 TGCCACTGACTTGTGGGCTTT-GGA-AAAGA
* *
1825292 TGCCACTGATTTGTGGGCTTTGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
1825321 GTGACATCCA
Statistics
Matches: 204, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
27 20 0.10
28 3 0.01
29 81 0.40
30 77 0.38
31 23 0.11
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.28
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTGGAAAAGA
Found at i:1825129 original size:59 final size:59
Alignment explanation
Indices: 1825052--1825320 Score: 398
Period size: 59 Copynumber: 4.6 Consensus size: 59
1825042 TGTGCTTTTG
* * * *
1825052 AAGGTTGCCACTGACTTGTGGGCTTTTGAAGAGATACCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
*
1825111 AAGGGTGCCACTGGCTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
*
1825170 AAGGGTGCCACTGACTTGTGGGCATTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
* * * * *
1825229 AAGGGTGCCACTGATTTGTGGGCTTT--AAAGGTTGCCACTAACTTGTGGGCTTTGGGAG
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTT-GGAA
* *
1825287 AAGGGTGCCACTGATTTGTGGGCTTTGAAAAAGA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGA
1825321 GTGACATCCA
Statistics
Matches: 192, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
57 24 0.12
58 29 0.15
59 135 0.70
60 4 0.02
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.28
Consensus pattern (59 bp):
AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
Found at i:1825155 original size:88 final size:88
Alignment explanation
Indices: 1825057--1825320 Score: 345
Period size: 88 Copynumber: 3.0 Consensus size: 88
1825047 TTTTGAAGGT
*
1825057 TGCCACTGACTTGTGGGCTTTTGAAGAGATACCACTGACTTGTGGGCTTTGGAAAAGGGTGCCAC
1 TGCCACTGACTTGTGGGCTTTTGAAGAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCAC
*
1825122 TGGCTTGTGGGCTTTGGAAAAGA
66 TGACTTGTGGGCTTTGGAAAAGA
* * * * *
1825145 TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCATTGGAAAA-GATGCCA
1 TGCCACTGACTTGTGGGCTTTTGAAGA-GATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCA
*
1825209 CTGACTTGTGGGCTTTGGAAAAGGG
65 CTGACTTGTGGGCTTTGGAAAA-GA
* * * * *
1825234 TGCCACTGATTTGTGGGC-TTTAAAG-GTTGCCACTAACTTGTGGGCTTTGGGAGAAGGGTGCCA
1 TGCCACTGACTTGTGGGCTTTTGAAGAGATGCCACTGACTTGTGGGCTTT-GGAAAAGGGTGCCA
* *
1825297 CTGATTTGTGGGCTTTGAAAAAGA
65 CTGACTTGTGGGCTTTGGAAAAGA
1825321 GTGACATCCA
Statistics
Matches: 152, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
86 20 0.13
87 6 0.04
88 82 0.54
89 44 0.29
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.28
Consensus pattern (88 bp):
TGCCACTGACTTGTGGGCTTTTGAAGAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCAC
TGACTTGTGGGCTTTGGAAAAGA
Found at i:1826771 original size:17 final size:17
Alignment explanation
Indices: 1826738--1826812 Score: 84
Period size: 17 Copynumber: 4.4 Consensus size: 17
1826728 ATCCGGACCC
1826738 TTTTTATTGTTTT-TTTG
1 TTTTT-TTGTTTTGTTTG
1826755 TTTTTTTGTTTTGTTTG
1 TTTTTTTGTTTTGTTTG
*
1826772 TTTTTTT-TTCGTTGTTTT
1 TTTTTTTGTT--TTGTTTG
*
1826790 TTTTTTTGGTTTGTTT-
1 TTTTTTTGTTTTGTTTG
1826806 TTTTTTT
1 TTTTTTT
1826813 TTTGTGGAGG
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
16 16 0.31
17 22 0.42
18 13 0.25
19 1 0.02
ACGTcount: A:0.01, C:0.01, G:0.13, T:0.84
Consensus pattern (17 bp):
TTTTTTTGTTTTGTTTG
Found at i:1826777 original size:35 final size:34
Alignment explanation
Indices: 1826738--1826817 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 34
1826728 ATCCGGACCC
* * *
1826738 TTTTTATTGTTTTTTTGTTTTTTTGTTTTGTTTGT
1 TTTTTTTTGTTGTTTT-TTTTTTTGGTTTGTTTGT
*
1826773 TTTTTTTTCGTTGTTTTTTTTTTTGGTTTGTTTTT
1 TTTTTTTT-GTTGTTTTTTTTTTTGGTTTGTTTGT
1826808 TTTTTTTTGT
1 TTTTTTTTGT
1826818 GGAGGACGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
34 2 0.05
35 31 0.77
36 7 0.17
ACGTcount: A:0.01, C:0.01, G:0.14, T:0.84
Consensus pattern (34 bp):
TTTTTTTTGTTGTTTTTTTTTTTGGTTTGTTTGT
Found at i:1826790 original size:31 final size:31
Alignment explanation
Indices: 1826752--1826811 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
1826742 TATTGTTTTT
1826752 TTGTTTTTTTGTTTT-GTTTGTTTTTTTTTCG
1 TTGTTTTTTT-TTTTGGTTTGTTTTTTTTTCG
1826783 TTGTTTTTTTTTTTGGTTTGTTTTTTTTT
1 TTGTTTTTTTTTTTGGTTTGTTTTTTTTT
1826812 TTTTGTGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (31 bp):
TTGTTTTTTTTTTTGGTTTGTTTTTTTTTCG
Found at i:1826813 original size:17 final size:16
Alignment explanation
Indices: 1826747--1826813 Score: 86
Period size: 17 Copynumber: 4.2 Consensus size: 16
1826737 CTTTTTATTG
1826747 TTTT-TTTGTTTTTTT
1 TTTTGTTTGTTTTTTT
1826762 GTTTTGTTTG-TTTTTT
1 -TTTTGTTTGTTTTTTT
*
1826778 TTTCG-TTGTTTTTTT
1 TTTTGTTTGTTTTTTT
1826793 TTTTGGTTTGTTTTTTT
1 TTTT-GTTTGTTTTTTT
1826810 TTTT
1 TTTT
1826814 TTGTGGAGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
14 3 0.07
15 13 0.29
16 11 0.24
17 18 0.40
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.85
Consensus pattern (16 bp):
TTTTGTTTGTTTTTTT
Found at i:1833172 original size:13 final size:13
Alignment explanation
Indices: 1833154--1833179 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1833144 CAATTTTTTG
1833154 TGTATCGATACAT
1 TGTATCGATACAT
1833167 TGTATCGATACAT
1 TGTATCGATACAT
1833180 ACTTTGTATA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1833192 original size:32 final size:33
Alignment explanation
Indices: 1833134--1833197 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1833124 TACAAGCCAA
** *
1833134 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTATATCGATACAT
1833167 TGTATCGATAC-ATACTTTGTATATCGATACA
1 TGTATCGATACAATACTTTGTATATCGATACA
1833198 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTATATCGATACAT
Found at i:1833274 original size:20 final size:20
Alignment explanation
Indices: 1833248--1833304 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
1833238 TACATCTTTT
1833248 TCATGTATCGATACTTTGCAA
1 TCATGTATCGATACTTTG-AA
1833269 -CATGTATCGATACTTTGAA
1 TCATGTATCGATACTTTGAA
**
1833288 TTGTGTATCGATACTTT
1 TCATGTATCGATACTTT
1833305 TAAGGGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (20 bp):
TCATGTATCGATACTTTGAA
Found at i:1833899 original size:39 final size:40
Alignment explanation
Indices: 1833821--1833906 Score: 106
Period size: 39 Copynumber: 2.2 Consensus size: 40
1833811 TTCTTTTCTT
**
1833821 TCTCCCTTAATTAAAGTAATTTTAACAAATTTGTACATTC
1 TCTCCCTTAATTAAAGTAATTTTAACAAATTTACACATTC
* *
1833861 TCTCCCTTAA-T-AAGATAATTTTAGCAAATTTACGCATTC
1 TCTCCCTTAATTAAAG-TAATTTTAACAAATTTACACATTC
1833900 TC-CCCTT
1 TCTCCCTT
1833907 TTATTAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
38 8 0.20
39 23 0.56
40 10 0.24
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (40 bp):
TCTCCCTTAATTAAAGTAATTTTAACAAATTTACACATTC
Found at i:1836357 original size:84 final size:83
Alignment explanation
Indices: 1836239--1836412 Score: 201
Period size: 84 Copynumber: 2.1 Consensus size: 83
1836229 CCAATTCATC
* * *
1836239 ATTTTCCATTTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAAT-T-
1 ATTTT-CATTTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTC-TTTT-AAAGAATATC
*
1836302 ATTTTCTAAACTCATTGATTT
63 ATTCTCTAAACTCATTGATTT
* * *
1836323 ATTTTCATTTTGTAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTCTTTTCAAGAATATCA
1 ATTTTCA-TTTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTAAAGAATATCA
* *
1836387 TTCTCTACACTTATTGATTT
64 TTCTCTAAACTCATTGATTT
1836407 ATTTTC
1 ATTTTC
1836413 TTCTTTGAGT
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
82 6 0.08
83 11 0.14
84 60 0.78
ACGTcount: A:0.25, C:0.18, G:0.03, T:0.53
Consensus pattern (83 bp):
ATTTTCATTTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTAAAGAATATCATT
CTCTAAACTCATTGATTT
Found at i:1838466 original size:13 final size:13
Alignment explanation
Indices: 1838448--1838473 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1838438 CAATTTTTTG
1838448 TGTATCGATACAT
1 TGTATCGATACAT
1838461 TGTATCGATACAT
1 TGTATCGATACAT
1838474 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1838485 original size:32 final size:33
Alignment explanation
Indices: 1838428--1838491 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1838418 TACAAGCCAA
**
1838428 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1838461 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1838492 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1847237 original size:52 final size:53
Alignment explanation
Indices: 1847155--1847281 Score: 204
Period size: 52 Copynumber: 2.4 Consensus size: 53
1847145 AATATGAAAT
*
1847155 TTTGCCTGCATGTATCGATAC-ATTTCATAGTGTATCAATATATCTGAGCAAA
1 TTTGCCTGCATGTATCGATACAATTTCATAGTGTATCAATACATCTGAGCAAA
* * *
1847207 TTTGCCTGTATGTATCGATACAATTT-ATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACAATTTCATAGTGTATCAATACATCTGAGCAAA
1847259 TTTGCCTGCATGTATCGATACAA
1 TTTGCCTGCATGTATCGATACAA
1847282 AGATCAGTGT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
52 65 0.94
53 4 0.06
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (53 bp):
TTTGCCTGCATGTATCGATACAATTTCATAGTGTATCAATACATCTGAGCAAA
Found at i:1847291 original size:52 final size:51
Alignment explanation
Indices: 1847155--1847300 Score: 193
Period size: 52 Copynumber: 2.8 Consensus size: 51
1847145 AATATGAAAT
* * *
1847155 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATATATCTGAGCAAA
1 TTTGCCTGCATGTATCGATACA-ATCATAGTGTATCGATACATCTGAGCAAA
* * *
1847207 TTTGCCTGTATGTATCGATACAATTTATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACAA-TCATAGTGTATCGATACATCTGAGCAAA
**
1847259 TTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTTGCCTGCATGTATCGATACAATCAT-AGTGTATCGATACA
1847301 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (51 bp):
TTTGCCTGCATGTATCGATACAATCATAGTGTATCGATACATCTGAGCAAA
Found at i:1847307 original size:13 final size:13
Alignment explanation
Indices: 1847289--1847313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1847279 CAAAGATCAG
1847289 TGTATCGATACAA
1 TGTATCGATACAA
1847302 TGTATCGATACA
1 TGTATCGATACA
1847314 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1847382 original size:19 final size:18
Alignment explanation
Indices: 1847358--1847453 Score: 77
Period size: 13 Copynumber: 5.7 Consensus size: 18
1847348 GCTTACATTA
1847358 TATCGATACAAAACTTATG
1 TATCGATAC-AAACTTATG
*
1847377 TATCGATGC--A--T-TG
1 TATCGATACAAACTTATG
1847390 TATCGATACAACACTTATG
1 TATCGATACAA-ACTTATG
1847409 TATCGATAC--A--T-TG
1 TATCGATACAAACTTATG
1847422 TATCGATACAACACTTTATG
1 TATCGATACAA-AC-TTATG
1847442 TATCGATACAAA
1 TATCGATACAAA
1847454 TCATTGAAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 26
0.69 0.02 0.29
Matches are distributed among these distances:
13 21 0.34
14 2 0.03
16 4 0.06
18 1 0.02
19 21 0.34
20 13 0.21
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (18 bp):
TATCGATACAAACTTATG
Found at i:1847399 original size:32 final size:32
Alignment explanation
Indices: 1847351--1847451 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
1847341 GGTAGTAGCT
* *
1847351 TACATTATATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
1847383 TGCATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1847415 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
1847448 TACA
1 TACA
1847452 AATCATTGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:1848824 original size:26 final size:27
Alignment explanation
Indices: 1848790--1848841 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
1848780 CATTTTTTGC
*
1848790 TTTTGTTTT-TGTTTCTTTTTTATTTCA
1 TTTTGTTTTATGTTAC-TTTTTATTTCA
1848817 TTTT-TTTTATGTTACTTTTTATTTC
1 TTTTGTTTTATGTTACTTTTTATTTC
1848842 GAGGAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.10, C:0.08, G:0.06, T:0.77
Consensus pattern (27 bp):
TTTTGTTTTATGTTACTTTTTATTTCA
Found at i:1849847 original size:14 final size:14
Alignment explanation
Indices: 1849828--1849855 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1849818 TACATATTTC
1849828 AAAAATGATGTCAA
1 AAAAATGATGTCAA
1849842 AAAAATGATGTCAA
1 AAAAATGATGTCAA
1849856 TCTAAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
AAAAATGATGTCAA
Found at i:1853081 original size:17 final size:19
Alignment explanation
Indices: 1853056--1853094 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
1853046 TGAAAAAGAA
1853056 TTTATTTATCA-TTTTTAT
1 TTTATTTATCATTTTTTAT
*
1853074 TTTA-TTATTATTTTTTAT
1 TTTATTTATCATTTTTTAT
1853092 TTT
1 TTT
1853095 CGAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTATTTATCATTTTTTAT
Found at i:1854382 original size:22 final size:22
Alignment explanation
Indices: 1854357--1854414 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
1854347 TTTTTTTGCT
*
1854357 TTTGCTTGTTGTTTATTCTTTC
1 TTTGCTTGCTGTTTATTCTTTC
*
1854379 TTTGCTTGCTGTTTCTTCTTTC
1 TTTGCTTGCTGTTTATTCTTTC
* **
1854401 CTCACTTGCTGTTT
1 TTTGCTTGCTGTTT
1854415 CGTCTTGCTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.03, C:0.21, G:0.14, T:0.62
Consensus pattern (22 bp):
TTTGCTTGCTGTTTATTCTTTC
Found at i:1854438 original size:15 final size:13
Alignment explanation
Indices: 1854405--1854429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1854395 TCTTTCCTCA
1854405 CTTGCTGTTTCGT
1 CTTGCTGTTTCGT
1854418 CTTGCTGTTTCG
1 CTTGCTGTTTCG
1854430 ATTCTTGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.52
Consensus pattern (13 bp):
CTTGCTGTTTCGT
Found at i:1854510 original size:40 final size:40
Alignment explanation
Indices: 1854466--1854590 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
1854456 CTACTGTTGT
* *
1854466 TGTTGCTCTTGCTGTTGCAGCTTCCTCCTCCATCAACTGC
1 TGTTGCTCTTGCTGTTGCTGCTTTCTCCTCCATCAACTGC
* * * *
1854506 TGTTGTTCTTGATGCTGCTGCTTTCTCCTCCAT-TA-T-C
1 TGTTGCTCTTGCTGTTGCTGCTTTCTCCTCCATCAACTGC
* *
1854543 TGTTCCTGCTT-CTGTTTGCTGCTTTCTCCTCCATCAGCTGC
1 TGTTGCT-CTTGCTG-TTGCTGCTTTCTCCTCCATCAACTGC
1854584 TGTTGCT
1 TGTTGCT
1854591 TCTTCCACCA
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
37 8 0.12
38 22 0.33
39 1 0.01
40 29 0.43
41 7 0.10
ACGTcount: A:0.07, C:0.31, G:0.18, T:0.44
Consensus pattern (40 bp):
TGTTGCTCTTGCTGTTGCTGCTTTCTCCTCCATCAACTGC
Found at i:1854591 original size:38 final size:40
Alignment explanation
Indices: 1854478--1854593 Score: 121
Period size: 38 Copynumber: 3.0 Consensus size: 40
1854468 TTGCTCTTGC
* *
1854478 TGTTGCAGCTTCCTCCTCCATCAACTGCTGTTG-TTCTTGA
1 TGTTGCTGCTTTCTCCTCCATCAACTGCTGTTGCTTC-TGA
* * * * **
1854518 TGCTGCTGCTTTCTCCTCCATTATCTGTTCCTGCTTCTG-
1 TGTTGCTGCTTTCTCCTCCATCAACTGCTGTTGCTTCTGA
*
1854557 T-TTGCTGCTTTCTCCTCCATCAGCTGCTGTTGCTTCT
1 TGTTGCTGCTTTCTCCTCCATCAACTGCTGTTGCTTCT
1854594 TCCACCAGTT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
38 30 0.49
39 1 0.02
40 27 0.44
41 3 0.05
ACGTcount: A:0.08, C:0.32, G:0.16, T:0.44
Consensus pattern (40 bp):
TGTTGCTGCTTTCTCCTCCATCAACTGCTGTTGCTTCTGA
Found at i:1856152 original size:24 final size:22
Alignment explanation
Indices: 1856115--1856161 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 22
1856105 AAATTATCAA
1856115 AATTATAAACAT-AAATATGATT
1 AATTATAAACATAAAATAT-ATT
1856137 AATTATTAAACTATAAAATATATT
1 AATTA-TAAAC-ATAAAATATATT
1856161 A
1 A
1856162 TATTTTCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 5 0.23
24 6 0.27
25 6 0.27
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
AATTATAAACATAAAATATATT
Found at i:1857108 original size:2 final size:2
Alignment explanation
Indices: 1857101--1857129 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1857091 TTTTCTTTAG
1857101 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1857130 TCTTTTAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1857634 original size:18 final size:18
Alignment explanation
Indices: 1857597--1857647 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 18
1857587 GTATCAATCA
* *
1857597 TTTTTAAAAAATATTGAT
1 TTTTTAAAAAAAATTAAT
1857615 TTTTTAAAAAAAATTAA-
1 TTTTTAAAAAAAATTAAT
1857632 --TTTAAAAAAAATTAAT
1 TTTTTAAAAAAAATTAAT
1857648 CCTCAAGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 15 0.50
18 15 0.50
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
TTTTTAAAAAAAATTAAT
Found at i:1857676 original size:18 final size:17
Alignment explanation
Indices: 1857597--1857674 Score: 61
Period size: 18 Copynumber: 4.6 Consensus size: 17
1857587 GTATCAATCA
*
1857597 TTTTTAAAAAATATTGAT
1 TTTTTAAAAAAAATT-AT
1857615 TTTTTAAAAAAAATTA-
1 TTTTTAAAAAAAATTAT
* *
1857631 -ATTTAAAAAAAATTAA
1 TTTTTAAAAAAAATTAT
** * *
1857647 TCCTCAAGAAGAAATTAT
1 TTTTTAA-AAAAAATTAT
1857665 TTTTTAAAAA
1 TTTTTAAAAA
1857675 GAGTCAATCC
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
15 14 0.30
17 6 0.13
18 26 0.57
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (17 bp):
TTTTTAAAAAAAATTAT
Found at i:1861246 original size:33 final size:33
Alignment explanation
Indices: 1861207--1861269 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
1861197 AAAAAAAAAT
* *
1861207 TTAAAAATAATATTTATCCTTAATATTATTAAA
1 TTAAAAATAATAATTACCCTTAATATTATTAAA
1861240 TTAAAAATAATAATTACCCTTAATATTATT
1 TTAAAAATAATAATTACCCTTAATATTATT
1861270 GATTTCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (33 bp):
TTAAAAATAATAATTACCCTTAATATTATTAAA
Found at i:1861586 original size:26 final size:24
Alignment explanation
Indices: 1861554--1861635 Score: 73
Period size: 26 Copynumber: 3.4 Consensus size: 24
1861544 ATTGATTAAA
1861554 TAAAATAATTTAAGACAACAGAAAAT
1 TAAAATAATTTAAGA-AACA-AAAAT
* *
1861580 TAAAAT-ATATATAGAAAAAAAGAAAT
1 TAAAATAATTTA-AG-AAACAA-AAAT
1861606 TAAAA-AA-TTAA-AAACAAAAAT
1 TAAAATAATTTAAGAAACAAAAAT
1861627 TAAAATAAT
1 TAAAATAAT
1861636 AAAAGATTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
21 9 0.20
22 7 0.15
24 1 0.02
25 7 0.15
26 21 0.46
27 1 0.02
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.23
Consensus pattern (24 bp):
TAAAATAATTTAAGAAACAAAAAT
Found at i:1861618 original size:21 final size:21
Alignment explanation
Indices: 1861570--1861639 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
1861560 AATTTAAGAC
1861570 AACAGAAAATTAAAATATATATAGAA
1 AACA-AAAATT-AAA-ATA-ATA-AA
*
1861596 AAAAAGAAATTAAAA-AATTAAA
1 AACAA-AAATTAAAATAA-TAAA
1861618 AACAAAAATTAAAATAATAAA
1 AACAAAAATTAAAATAATAAA
1861639 A
1 A
1861640 GATTAGATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
21 14 0.36
22 9 0.23
23 3 0.08
24 1 0.03
25 4 0.10
26 8 0.21
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (21 bp):
AACAAAAATTAAAATAATAAA
Found at i:1865346 original size:2 final size:2
Alignment explanation
Indices: 1865341--1865368 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1865331 GGGGGGGGGG
1865341 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1865369 ATAAGAGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1865873 original size:25 final size:25
Alignment explanation
Indices: 1865811--1865867 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
1865801 AAACTAATTC
1865811 TCCTAATCTATTTGCAGCTCATCTA
1 TCCTAATCTATTTGCAGCTCATCTA
1865836 TCCTAATCTATTTGCAGCTCATCTA
1 TCCTAATCTATTTGCAGCTCATCTA
1865861 TCCTAAT
1 TCCTAAT
1865868 TCATTTATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.25, C:0.28, G:0.07, T:0.40
Consensus pattern (25 bp):
TCCTAATCTATTTGCAGCTCATCTA
Found at i:1865881 original size:25 final size:25
Alignment explanation
Indices: 1865811--1865885 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
1865801 AAACTAATTC
* *
1865811 TCCTAATCTATTTGCAGCTCATCTA
1 TCCTAATCTATTTACAACTCATCTA
* *
1865836 TCCTAATCTATTTGCAGCTCATCTA
1 TCCTAATCTATTTACAACTCATCTA
*
1865861 TCCTAAT-TCATTTATAACTCATCTA
1 TCCTAATCT-ATTTACAACTCATCTA
1865886 CAACTCGACA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 1 0.02
25 45 0.98
ACGTcount: A:0.27, C:0.27, G:0.05, T:0.41
Consensus pattern (25 bp):
TCCTAATCTATTTACAACTCATCTA
Found at i:1867367 original size:25 final size:27
Alignment explanation
Indices: 1867337--1867386 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
1867327 AGAAATGAAA
1867337 CCAATAAAAAATA-G-AAAGAAAGCAT
1 CCAATAAAAAATAGGCAAAGAAAGCAT
* *
1867362 CCAATAGACAATAGGCAAAGAAAGC
1 CCAATAAAAAATAGGCAAAGAAAGC
1867387 TAATAAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 1 0.05
27 9 0.43
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (27 bp):
CCAATAAAAAATAGGCAAAGAAAGCAT
Found at i:1871637 original size:15 final size:15
Alignment explanation
Indices: 1871617--1871669 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 15
1871607 TATTATATTT
*
1871617 AATAATTTTTAATAA
1 AATAATTTTAAATAA
1871632 AATAATTTTAAAATAA
1 AATAATTTT-AAATAA
1871648 TTAATAATTTGTAAATAA
1 --AATAATTT-TAAATAA
1871666 AATA
1 AATA
1871670 CTACCATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 9 0.27
16 9 0.27
18 14 0.42
19 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
AATAATTTTAAATAA
Found at i:1871653 original size:18 final size:18
Alignment explanation
Indices: 1871615--1871662 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 18
1871605 ATTATTATAT
*
1871615 TTAATAATTTT-TAATAA
1 TTAATAATTTTAAAATAA
1871632 --AATAATTTTAAAATAA
1 TTAATAATTTTAAAATAA
1871648 TTAATAATTTGTAAA
1 TTAATAATTT-TAAA
1871663 TAAAATACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 9 0.35
16 5 0.19
18 8 0.31
19 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TTAATAATTTTAAAATAA
Found at i:1875018 original size:19 final size:19
Alignment explanation
Indices: 1874986--1875037 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
1874976 ATTTAAATTA
1874986 ATTTAATT--TAAAATAAT
1 ATTTAATTAATAAAATAAT
*
1875003 ATTTAATTAATAAAATTAT
1 ATTTAATTAATAAAATAAT
1875022 ATTTAA-TAATAAAATA
1 ATTTAATTAATAAAATA
1875038 TTTAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 8 0.26
18 9 0.29
19 14 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTAATTAATAAAATAAT
Found at i:1875026 original size:36 final size:35
Alignment explanation
Indices: 1874944--1875037 Score: 91
Period size: 36 Copynumber: 2.6 Consensus size: 35
1874934 ATTTAATTTG
* * * *
1874944 AATTAAATTAAATTTAAAATAAATATATTTTTATTTA
1 AATT-AATTTAATTTAAAAT-AATATATTATTAATAA
1874981 AATTAATTTAATTTAAAATAATAT-TTAATTAATAA
1 AATTAATTTAATTTAAAATAATATATT-ATTAATAA
*
1875016 AATTATATTTAATAATAAAATA
1 AATTA-ATTTAAT-TTAAAATA
1875038 TTTAAATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
34 2 0.04
35 15 0.31
36 21 0.43
37 11 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (35 bp):
AATTAATTTAATTTAAAATAATATATTATTAATAA
Found at i:1875068 original size:19 final size:19
Alignment explanation
Indices: 1874981--1875070 Score: 55
Period size: 19 Copynumber: 4.6 Consensus size: 19
1874971 TTTTTATTTA
*
1874981 AATTAATTTAAT-TTAAAAT
1 AATT-ATTTAATATAAAAAT
1875000 AA-TATTTAAT-TAATAAA-
1 AATTATTTAATATAA-AAAT
*
1875017 ATTATATTTAATA-ATAAAAT
1 AAT-TATTTAATATA-AAAAT
*
1875037 ATTTAAATATTAATATAAAAAT
1 AATT--AT-TTAATATAAAAAT
1875059 AATTATTTAATA
1 AATTATTTAATA
1875071 ATTTAATATA
Statistics
Matches: 58, Mismatches: 3, Indels: 20
0.72 0.04 0.25
Matches are distributed among these distances:
17 10 0.17
18 4 0.07
19 21 0.36
20 6 0.10
21 2 0.03
22 14 0.24
23 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTATTTAATATAAAAAT
Found at i:1876791 original size:23 final size:21
Alignment explanation
Indices: 1876752--1876799 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 21
1876742 ACATAAAAAA
*
1876752 ATAATTAAAATATAATACAAT
1 ATAATAAAAATATAATACAAT
*
1876773 ATAATAAATAATACTAATACGAT
1 ATAATAAA-AATA-TAATACAAT
1876796 ATAA
1 ATAA
1876800 ATATATGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 4 0.17
23 12 0.52
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.31
Consensus pattern (21 bp):
ATAATAAAAATATAATACAAT
Found at i:1876821 original size:24 final size:24
Alignment explanation
Indices: 1876794--1876845 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1876784 TACTAATACG
1876794 ATATAAAT-ATATGAATATATTAAA
1 ATATAAATAATATGAAT-TATTAAA
* * *
1876818 ATATATATAATATTAATTATTAAT
1 ATATAAATAATATGAATTATTAAA
1876842 ATAT
1 ATAT
1876846 TAAAATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
ATATAAATAATATGAATTATTAAA
Found at i:1876838 original size:7 final size:8
Alignment explanation
Indices: 1876794--1876861 Score: 52
Period size: 8 Copynumber: 8.5 Consensus size: 8
1876784 TACTAATACG
*
1876794 ATATAAAT
1 ATATTAAT
*
1876802 ATATGAAT
1 ATATTAAT
*
1876810 ATATTAAA
1 ATATTAAT
1876818 ATA-TATAT
1 ATATTA-AT
1876826 AATATTAAT
1 -ATATTAAT
1876835 -TATTAAT
1 ATATTAAT
*
1876842 ATATTAAA
1 ATATTAAT
1876850 AT-TTATAT
1 ATATTA-AT
1876858 ATAT
1 ATAT
1876862 AACACTTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
7 12 0.25
8 28 0.58
9 6 0.12
10 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (8 bp):
ATATTAAT
Found at i:1876875 original size:32 final size:32
Alignment explanation
Indices: 1876794--1876876 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
1876784 TACTAATACG
*
1876794 ATATAAATATATGAATATATTAAAATATATATA
1 ATATAAAT-TATAAATATATTAAAATATATATA
* * *
1876827 ATATTAATTATTAATATATTAAAATTTATAT-
1 ATATAAATTATAAATATATTAAAATATATATA
1876858 ATATAACACTT-TAAATATA
1 ATATAA-A-TTATAAATATA
1876877 ATTCTAACAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
31 5 0.12
32 29 0.67
33 9 0.21
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (32 bp):
ATATAAATTATAAATATATTAAAATATATATA
Found at i:1877104 original size:16 final size:16
Alignment explanation
Indices: 1877083--1877119 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
1877073 ATAGCGTCAA
1877083 TTAGATTTTGATAACT
1 TTAGATTTTGATAACT
1877099 TTAGA-TTTGATAACT
1 TTAGATTTTGATAACT
1877114 TTAGAT
1 TTAGAT
1877120 ACAATATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (16 bp):
TTAGATTTTGATAACT
Found at i:1877401 original size:31 final size:32
Alignment explanation
Indices: 1877334--1877408 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 32
1877324 TGAATATACT
*
1877334 AATATAATAAAATTTATATAATATAAAATATT
1 AATATAATAAAATTTATATAATATAAAATATA
* *
1877366 AATATATTAAAA-TTATAT-ATATAATATTATA
1 AATATAATAAAATTTATATAATATAA-AATATA
1877397 AATATAATAAAA
1 AATATAATAAAA
1877409 AATAATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 6 0.16
31 21 0.55
32 11 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
AATATAATAAAATTTATATAATATAAAATATA
Found at i:1877412 original size:21 final size:20
Alignment explanation
Indices: 1877388--1877426 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1877378 TTATATATAT
*
1877388 AATATTATAAATATAATAAAA
1 AATAATATAAATA-AATAAAA
*
1877409 AATAATATAACTAAATAA
1 AATAATATAAATAAATAA
1877427 TTATATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAATATAAATAAATAAAA
Found at i:1877432 original size:16 final size:15
Alignment explanation
Indices: 1877333--1877438 Score: 56
Period size: 14 Copynumber: 6.9 Consensus size: 15
1877323 ATGAATATAC
*
1877333 TAATATAAT-AAAAT
1 TAATATAATAAAAAA
*
1877347 TTATATAATATAAAATA
1 TAATATAATA-AAAA-A
* *
1877364 TTAATATATTAAAATTA
1 -TAATATAATAAAA-AA
** *
1877381 TATATATAATATTATA
1 TA-ATATAATAAAAAA
1877397 -AATATAATAAAAAA
1 TAATATAATAAAAAA
*
1877411 TAATATAACTAAATAA
1 TAATATAA-TAAAAAA
*
1877427 TTATATAA-AAAA
1 TAATATAATAAAA
1877439 TTAAGATATT
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
14 21 0.30
15 8 0.11
16 21 0.30
17 12 0.17
18 8 0.11
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (15 bp):
TAATATAATAAAAAA
Found at i:1884341 original size:21 final size:23
Alignment explanation
Indices: 1884308--1884355 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
1884298 TTTATTTTTT
*
1884308 TATTTTTGAATTAATT-AATTT-A
1 TATTTTAGAATT-ATTGAATTTAA
1884330 TATTTTAG-ATTATTGAATTTAA
1 TATTTTAGAATTATTGAATTTAA
1884352 TATT
1 TATT
1884356 AAGTTTTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 3 0.13
21 8 0.35
22 12 0.52
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (23 bp):
TATTTTAGAATTATTGAATTTAA
Found at i:1886732 original size:22 final size:23
Alignment explanation
Indices: 1886705--1886751 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
1886695 CGATTTTAAC
1886705 ATAT-ATATATATATATAATTAAAA
1 ATATCATAT-TATAT-TAATTAAAA
*
1886729 ATATCATATTATATTACTTAAAA
1 ATATCATATTATATTAATTAAAA
1886752 TTAATACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 9 0.43
25 4 0.19
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATCATATTATATTAATTAAAA
Found at i:1887476 original size:23 final size:23
Alignment explanation
Indices: 1887431--1887476 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1887421 ATATACATTT
* *
1887431 ATTAGTAAATATAAATTTTTAAA
1 ATTAGTAAATATAAATATCTAAA
1887454 ATTA-TAAATATTAAATATCTAAA
1 ATTAGTAAATA-TAAATATCTAAA
1887477 GTTTTTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
ATTAGTAAATATAAATATCTAAA
Found at i:1888147 original size:11 final size:11
Alignment explanation
Indices: 1888127--1888168 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
1888117 TTTTTAATTT
1888127 TTTA-TTTAAA
1 TTTATTTTAAA
1888137 TTTATTTTAAA
1 TTTATTTTAAA
* *
1888148 TTAATTTAAAA
1 TTTATTTTAAA
1888159 TTTTATTTTA
1 -TTTATTTTA
1888169 TTATATATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 4 0.15
11 15 0.58
12 7 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTATTTTAAA
Found at i:1891743 original size:24 final size:24
Alignment explanation
Indices: 1891714--1891761 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1891704 TTTATTAAAA
*
1891714 ATATAACAATA-ATAATATTTTAAT
1 ATATAA-AATATATAAAATTTTAAT
*
1891738 ATATAAAATATTTAAAATTTTAAT
1 ATATAAAATATATAAAATTTTAAT
1891762 GACTCATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATAAAATATATAAAATTTTAAT
Found at i:1892700 original size:18 final size:20
Alignment explanation
Indices: 1892663--1892705 Score: 72
Period size: 18 Copynumber: 2.2 Consensus size: 20
1892653 TACGTCTGAA
1892663 TTATTTTTAAAAATTATAAT
1 TTATTTTTAAAAATTATAAT
1892683 TTATTTTT-AAAA-TATAAT
1 TTATTTTTAAAAATTATAAT
1892701 TTATT
1 TTATT
1892706 AATTTAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 11 0.48
19 4 0.17
20 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTATTTTTAAAAATTATAAT
Found at i:1896547 original size:3 final size:3
Alignment explanation
Indices: 1896527--1896595 Score: 64
Period size: 3 Copynumber: 25.0 Consensus size: 3
1896517 CAATTAATTA
1896527 ATT ACTT ATT ACTT ATT ATT ATT ATT A-T ATT ATT ATT A-T ATT ATT
1 ATT A-TT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1896572 -TT -TT ATT -TT -TT ATT -TT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1896596 CATGTTAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
2 16 0.27
3 37 0.63
4 6 0.10
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:1896547 original size:17 final size:17
Alignment explanation
Indices: 1896539--1896595 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 17
1896529 TACTTATTAC
1896539 TTATTATTATTATTATA
1 TTATTATTATTATTATA
1896556 TTATTATTA-TATTAT-
1 TTATTATTATTATTATA
*
1896571 TTTTTATT-TT-TTAT-
1 TTATTATTATTATTATA
*
1896585 TTTTTATTATT
1 TTATTATTATT
1896596 CATGTTAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
14 12 0.32
15 10 0.27
16 6 0.16
17 9 0.24
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:1896559 original size:11 final size:11
Alignment explanation
Indices: 1896532--1896571 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
1896522 AATTAATTAC
1896532 TTATTACTTATTA
1 TTATTA-TTA-TA
1896545 TTATTATTATA
1 TTATTATTATA
1896556 TTATTATTATA
1 TTATTATTATA
1896567 TTATT
1 TTATT
1896572 TTTTATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 18 0.67
12 3 0.11
13 6 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTATTATA
Found at i:1896571 original size:14 final size:14
Alignment explanation
Indices: 1896523--1896565 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
1896513 TTTTCAATTA
1896523 ATTA-ATTACTTATT
1 ATTATATTA-TTATT
*
1896537 ACT-TATTATTATT
1 ATTATATTATTATT
1896550 ATTATATTATTATT
1 ATTATATTATTATT
1896564 AT
1 AT
1896566 ATTATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTATATTATTATT
Found at i:1896579 original size:7 final size:7
Alignment explanation
Indices: 1896567--1896592 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1896557 TATTATTATA
1896567 TTATTTT
1 TTATTTT
1896574 TTATTTT
1 TTATTTT
1896581 TTATTTT
1 TTATTTT
1896588 TTATT
1 TTATT
1896593 ATTCATGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTATTTT
Found at i:1897259 original size:42 final size:42
Alignment explanation
Indices: 1897160--1897930 Score: 445
Period size: 42 Copynumber: 18.1 Consensus size: 42
1897150 AAAAGGTGAA
* *
1897160 AAAGTCTTCAGGGTCAAAGCTGACAGCCAGACTTGAGGGTAAG
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTGA-GGTAAG
* *
1897203 AAAGTCTCTAGGGTCAAAGCTGACAGGCAGACTTGAGTTAAG
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTGAGGTAAG
* * * * * **
1897245 ATAGTTTCCAGGGTCAAAACCGACAGTCAGACTAAAGGTAAG
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTGAGGTAAG
* * *
1897287 AAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT-ACGATGAG
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTGA-GGTAAG
** * * * *
1897329 GTAGTCTCCA-GGTCAAAGCTGACCGACA-AATTAAGGGTAAG
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTGA-GGTAAG
* * *
1897370 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGTAAA
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTGA-GGTAAG
* * * *
1897412 AAAGTCTCTAGGGTCAAAG-TCGCCAGGCAGACTTTAGGTGAG
1 AAAGTCTCCAGGGTCAAAGCT-GACAGGCAGACTTGAGGTAAG
* * * * * * *
1897454 ATAGTCTCTAGGGTCAAAACCGAAAGGTA-AATTGAAGGGTAAG
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTG-A-GGTAAG
* * * * *
1897497 AAAGTCTCCAGGGTCAAAGCCGATAGGTAGACTTGAGATAGG
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTGAGGTAAG
** ** * * *
1897539 GCAGTCTTGAGGGTCAAAG-TCGATATGCAGAC-TGAAGGTAGG
1 AAAGTCTCCAGGGTCAAAGCT-GACAGGCAGACTTG-AGGTAAG
* * * *
1897581 AAAGTCTCC-GGAGTCAAAGCTAACAGGCACACTTTAGGTGAG
1 AAAGTCTCCAGG-GTCAAAGCTGACAGGCAGACTTGAGGTAAG
** * **
1897623 GCAGTCTTCAGGGTCAAAGCCAACAGGCAGA-TTGAAGGGTAAG
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTG-A-GGTAAG
* * * * * * *
1897666 AAAGTTTCTAGGGTCAAAGCTGACAGACAAATTTTAGGTGAGG
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTGAGGT-AAG
* * **
1897709 CAA-TCTCCAGGGTCAAAG-TCGACAGGCAAACTAAAGGTAAG
1 AAAGTCTCCAGGGTCAAAGCT-GACAGGCAGACTTGAGGTAAG
* * *
1897750 AAAGTCTCCAGAGTCAAAGCTGACAGGTAGACTTTAGGTGAATTAG
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTGAGGT--A--AG
* * * *
1897796 ATAAAGCAGTCTCTAGGGTCAAAGCCGATAGGCAGAC-TGAAGGTAGG
1 ---AA--AGTCTCCAGGGTCAAAGCTGACAGGCAGACTTG-AGGTAAG
* * * * * * *
1897843 AAAATCTCCAAGGTCAAAGCTAACAAGCAGATTTGAGATGAG
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTGAGGTAAG
** * * *
1897885 GTAGTCTCTAAGGTCAAAGCTGACATGCAGAC-TGAGGGATAAG
1 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTGA-GG-TAAG
1897928 AAA
1 AAA
1897931 ATTCATATGG
Statistics
Matches: 551, Mismatches: 141, Indels: 72
0.72 0.18 0.09
Matches are distributed among these distances:
40 3 0.01
41 47 0.09
42 346 0.63
43 110 0.20
44 9 0.02
46 2 0.00
47 1 0.00
49 3 0.01
50 1 0.00
51 29 0.05
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (42 bp):
AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTGAGGTAAG
Found at i:1897310 original size:84 final size:84
Alignment explanation
Indices: 1897162--1897430 Score: 299
Period size: 83 Copynumber: 3.2 Consensus size: 84
1897152 AAGGTGAAAA
* * * * *
1897162 AGTCTTCAGGGTCAAAGCTGACAGCCAGACTTGAGGGTAAGAAAGTCTCTAGGGTCAAAGCTGAC
1 AGTCTCCAGGGTCAAAGCTGACAGACAGAC-TAAGGGTAAGAAAGTCTCCAAGGTCAAAGCTGAC
*
1897227 AGGCAGACTTGA-GTTAAGAT
65 AGGCAGACTT-ACGATAAGAT
* * * * *
1897247 AGTTTCCAGGGTCAAAACCGACAGTCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGCTGACA
1 AGTCTCCAGGGTCAAAGCTGACAGACAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCTGACA
* *
1897312 GGCAGACTTACGATGAGGT
66 GGCAGACTTACGATAAGAT
* * * *
1897331 AGTCTCCA-GGTCAAAGCTGACCGACAAATTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACA
1 AGTCTCCAGGGTCAAAGCTGACAGACAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCTGACA
* * * * *
1897395 GGCAGACTGAGGGTAAAAA
66 GGCAGACTTACGATAAGAT
*
1897414 AGTCTCTAGGGTCAAAG
1 AGTCTCCAGGGTCAAAG
1897431 TCGCCAGGCA
Statistics
Matches: 153, Mismatches: 29, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
83 68 0.44
84 60 0.39
85 25 0.16
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (84 bp):
AGTCTCCAGGGTCAAAGCTGACAGACAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCTGACA
GGCAGACTTACGATAAGAT
Found at i:1897401 original size:125 final size:124
Alignment explanation
Indices: 1897128--1897782 Score: 444
Period size: 127 Copynumber: 5.2 Consensus size: 124
1897118 GGATTCTCTT
* * * * * * *
1897128 GGGTCAAAGTCAACGGGCAAACAAAAGGTGAAAAAGTCTTCAGGGTCAAAGCTGACAGCCAGACT
1 GGGTCAAAGCCGACAGGCAGACTAAAGGT-AAAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACT
* * * * * * *
1897193 TGAGGGTAAGAAAGTCTCTAGGGTCAAAGCTGACAGGCAGACTTGA-GTTAAGATAGTTTCCA
65 T-A-GGTGAGATAGTCTCTAGGGTCAAAGCTGACAGGCA-AATTAAGGGTAAGAAAGTCTCCA
* * *
1897255 GGGTCAAAACCGACAGTCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACT
1 GGGTCAAAGCCGACAGGCAGACTAAAGGTAA-AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACT
* * * * *
1897320 TACGATGAGGTAGTCTCCA-GGTCAAAGCTGACCGACAAATTAAGGGTAAGAAAGTCTCCA
65 TA-GGTGAGATAGTCTCTAGGGTCAAAGCTGACAGGCAAATTAAGGGTAAGAAAGTCTCCA
* * * * *
1897380 AGGTCAAAGCCGACAGGCAGACTGAGGGTAAAAAAGTCTCTAGGGTCAAAG-TCGCCAGGCAGAC
1 GGGTCAAAGCCGACAGGCAGACTAAAGGT-AAAAAGTCTCCAGGGTCAAAGCT-GACAGGCAGAC
* * * *
1897444 TTTAGGTGAGATAGTCTCTAGGGTCAAAACCGAAAGGTAAATTGAAGGGTAAGAAAGTCTCCA
64 -TTAGGTGAGATAGTCTCTAGGGTCAAAGCTGACAGGCAAATT-AAGGGTAAGAAAGTCTCCA
* * ** * *** ** * *
1897507 GGGTCAAAGCCGATAGGTAGACTTGAGATAGGGCAGTCTTGAGGGTCAAAG-TCGATATGCAGAC
1 GGGTCAAAGCCGACAGGCAGACTAAAGGTA-AAAAGTCTCCAGGGTCAAAGCT-GACAGGCAGAC
* * * * * * * ** *
1897571 TGAAGGT-AGGAAAGTCTC-CGGAGTCAAAGCTAACAGGCACACTTTA-GGTGAGGCAGTCTTCA
64 T-TAGGTGA-GATAGTCTCTAGG-GTCAAAGCTGACAGGCA-AATTAAGGGTAAGAAAGTCTCCA
* * * * * * *
1897633 GGGTCAAAGCCAACAGGCAGATTGAAGGGTAAGAAAGTTTCTAGGGTCAAAGCTGACAGACAAAT
1 GGGTCAAAGCCGACAGGCAGACT-AAAGGTAA-AAAGTCTCCAGGGTCAAAGCTGACAGGCAGA-
* ** * * * *
1897698 TTTAGGTGAGGCAATCTCCAGGGTCAAAG-TCGACAGGCAAACTAAAGGTAAGAAAGTCTCCA
63 CTTAGGTGAGATAGTCTCTAGGGTCAAAGCT-GACAGGCAAATTAAGGGTAAGAAAGTCTCCA
* * *
1897760 GAGTCAAAGCTGACAGGTAGACT
1 GGGTCAAAGCCGACAGGCAGACT
1897783 TTAGGTGAAT
Statistics
Matches: 402, Mismatches: 106, Indels: 40
0.73 0.19 0.07
Matches are distributed among these distances:
124 5 0.01
125 93 0.23
126 75 0.19
127 221 0.55
128 8 0.02
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (124 bp):
GGGTCAAAGCCGACAGGCAGACTAAAGGTAAAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTT
AGGTGAGATAGTCTCTAGGGTCAAAGCTGACAGGCAAATTAAGGGTAAGAAAGTCTCCA
Found at i:1897471 original size:167 final size:169
Alignment explanation
Indices: 1897162--1897471 Score: 383
Period size: 167 Copynumber: 1.8 Consensus size: 169
1897152 AAGGTGAAAA
* * * * * * *
1897162 AGTCTTCAGGGTCAAAGCTGACAGCCAGACTTGAGGGTAAGAAAGTCTCTAGGGTCAAAGCTGAC
1 AGTCTCCAGGGTCAAAGCTGACAGACAGAATTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGAC
* * * * *
1897227 AGGCAGACTTGAGTTAAGATAGTTTCCAGGGTCAAAACCGACAGTCAGACTAAAGGTAAGAAAGT
66 AGGCAGACTTGAGGTAAAAAAGTCTCCAGGGTCAAAACCGACAGGCAGACTAAAGGTAAGAAAGT
1897292 CTCCAAGGTCAAAGCTGACAGGCAGACTTACGATGAGGT
131 CTCCAAGGTCAAAGCTGACAGGCAGACTTACGATGAGGT
*
1897331 AGTCTCCA-GGTCAAAGCTGACCGACA-AATTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGAC
1 AGTCTCCAGGGTCAAAGCTGACAGACAGAATTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGAC
* ** * ** * *
1897394 AGGCAGAC-TGAGGGTAAAAAAGTCTCTAGGGTCAAAGTCGCCAGGCAGACTTTAGGTGAGATAG
66 AGGCAGACTTGA-GGTAAAAAAGTCTCCAGGGTCAAAACCGACAGGCAGACTAAAGGTAAGAAAG
* *
1897458 TCTCTAGGGTCAAA
130 TCTCCAAGGTCAAA
1897472 ACCGAAAGGT
Statistics
Matches: 117, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
166 3 0.03
167 91 0.78
168 16 0.14
169 7 0.06
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (169 bp):
AGTCTCCAGGGTCAAAGCTGACAGACAGAATTAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGAC
AGGCAGACTTGAGGTAAAAAAGTCTCCAGGGTCAAAACCGACAGGCAGACTAAAGGTAAGAAAGT
CTCCAAGGTCAAAGCTGACAGGCAGACTTACGATGAGGT
Found at i:1897571 original size:169 final size:169
Alignment explanation
Indices: 1897381--1897790 Score: 409
Period size: 169 Copynumber: 2.4 Consensus size: 169
1897371 AAGTCTCCAA
* ** *
1897381 GGTCAAAGCCGACAGGCAGACTGAGGGTAAAAAAGTCTCTAGG-GTCAAAG-TCGCCAGGCAGAC
1 GGTCAAAGCCGACAGGCAGACTGAAGGTAAAAAAGTCTC-AGGAGTCAAAGCT-AACAGGCACAC
* *
1897444 TTTAGGTGAGATAGTC-TCTAGGGTCAAAACCGAA-AGGTAAATTGAAGGGTAAGAAAGTCTCCA
64 TTTAGGTGAGACAGTCTTC-AGGGTCAAAACC-AACAGGCAAATTGAAGGGTAAGAAAGTCTCCA
1897507 GGGTCAAAGCCGATAGGTAGACTTGAGATAGGGCAGTCTTGAG
127 GGGTCAAAGCCGATAGGTAGACTTGAGATAGGGCAGTCTTGAG
* * * ** *
1897550 GGTCAAAGTCGATATGCAGACTGAAGGTAGGAAAGTCTCCGGAGTCAAAGCTAACAGGCACACTT
1 GGTCAAAGCCGACAGGCAGACTGAAGGTAAAAAAGTCTCAGGAGTCAAAGCTAACAGGCACACTT
* * * * *
1897615 TAGGTGAGGCAGTCTTCAGGGTCAAAGCCAACAGGCAGATTGAAGGGTAAGAAAGTTTCTAGGGT
66 TAGGTGAGACAGTCTTCAGGGTCAAAACCAACAGGCAAATTGAAGGGTAAGAAAGTCTCCAGGGT
* * ** * * * * * **
1897680 CAAAGCTGACAGACAAATTTTAGGT-GAGGCAATCTCCAG
131 CAAAGCCGATAGGTAGACTTGAGATAG-GGCAGTCTTGAG
* * * * * * *
1897719 GGTCAAAGTCGACAGGCAAACTAAAGGTAAGAAAGTCTCCA-GAGTCAAAGCTGACAGGTAGACT
1 GGTCAAAGCCGACAGGCAGACTGAAGGTAAAAAAGTCT-CAGGAGTCAAAGCTAACAGGCACACT
1897783 TTAGGTGA
65 TTAGGTGA
1897791 ATTAGATAAA
Statistics
Matches: 198, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
168 5 0.03
169 189 0.95
170 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (169 bp):
GGTCAAAGCCGACAGGCAGACTGAAGGTAAAAAAGTCTCAGGAGTCAAAGCTAACAGGCACACTT
TAGGTGAGACAGTCTTCAGGGTCAAAACCAACAGGCAAATTGAAGGGTAAGAAAGTCTCCAGGGT
CAAAGCCGATAGGTAGACTTGAGATAGGGCAGTCTTGAG
Found at i:1898614 original size:13 final size:13
Alignment explanation
Indices: 1898598--1898627 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1898588 ATACATTGTT
1898598 CATTGTATCGATA
1 CATTGTATCGATA
*
1898611 CATTGTATTGATA
1 CATTGTATCGATA
1898624 CATT
1 CATT
1898628 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1898668 original size:20 final size:20
Alignment explanation
Indices: 1898643--1898730 Score: 93
Period size: 20 Copynumber: 4.8 Consensus size: 20
1898633 TTTACCCAAA
*
1898643 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
*
1898663 TGTATCGAAACATTGCTCAT
1 TGTATCGATACATTGCTCAT
1898683 TGTATCGATACATTG-T-A-
1 TGTATCGATACATTGCTCAT
1898700 --T-T-GATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
1898716 TGTATCGATACATTG
1 TGTATCGATACATTG
1898731 TATCGATACA
Statistics
Matches: 57, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
13 9 0.16
14 2 0.04
15 2 0.04
18 2 0.04
19 2 0.04
20 39 0.68
21 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:1898696 original size:13 final size:13
Alignment explanation
Indices: 1898680--1898743 Score: 77
Period size: 13 Copynumber: 5.4 Consensus size: 13
1898670 AAACATTGCT
1898680 CATTGTATCGATA
1 CATTGTATCGATA
*
1898693 CATTGTATTGATA
1 CATTGTATCGATA
1898706 CATTG---C--T-
1 CATTGTATCGATA
1898713 CATTGTATCGATA
1 CATTGTATCGATA
1898726 CATTGTATCGATA
1 CATTGTATCGATA
1898739 CATTG
1 CATTG
1898744 CAGAACCAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 5 0.12
8 1 0.02
10 1 0.02
12 1 0.02
13 35 0.81
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1898709 original size:33 final size:33
Alignment explanation
Indices: 1898660--1898744 Score: 152
Period size: 33 Copynumber: 2.6 Consensus size: 33
1898650 ATACATTTTG
*
1898660 CATTGTATCGAAACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
*
1898693 CATTGTATTGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
1898726 CATTGTATCGATACATTGC
1 CATTGTATCGATACATTGC
1898745 AGAACCAATG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:1900939 original size:28 final size:28
Alignment explanation
Indices: 1900902--1901001 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 28
1900892 TTTCATAATC
* * *
1900902 GGGGGTACTCCAACCCCGTTATGTCATC
1 GGGGATACTCCAACCCCGTTATTTCATA
* *
1900930 GGGGATACTCCAATCTCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTATTTCAT-A
* **
1900958 GGGGATACTCCAACCCCTTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCATA
1900986 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
1901002 TGGCTTTATA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
27 1 0.02
28 60 0.98
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCATA
Found at i:1901035 original size:135 final size:135
Alignment explanation
Indices: 1900851--1901107 Score: 433
Period size: 135 Copynumber: 1.9 Consensus size: 135
1900841 TTTCTTAATC
*
1900851 GGGGATACTCCAACCCCGGCTTTATATCTAAAATATTGATTTTTCATAATCGGGGGTACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATATCTAAAATATTGATTTTTCATAATCAGGGGTACTCCAAC
* * *
1900916 CCCGTTATGTCATCGGGGATACTCCAATCTCGTTATTTCTGAGGGGATACTCCAACCCCTTTATT
66 CCCGTTATGTCATCGGGGATACTCCAATCCCGTTATTTCTGAGAGAATACTCCAACCCCTTTATT
1900981 TCCGA
131 TCCGA
* *
1900986 GGGGATACTCCAACCCTGGCTTTATATTTAAAATATTGATTTTTCATAATCAGGGGTACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATATCTAAAATATTGATTTTTCATAATCAGGGGTACTCCAAC
* * *
1901051 CCTGTTGTGTCATCGGGGATACTCCAATCCCGTTATTTTTGAGAGAATACTCCAACC
66 CCCGTTATGTCATCGGGGATACTCCAATCCCGTTATTTCTGAGAGAATACTCCAACC
1901108 TCGATTTTAT
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
135 113 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (135 bp):
GGGGATACTCCAACCCCGGCTTTATATCTAAAATATTGATTTTTCATAATCAGGGGTACTCCAAC
CCCGTTATGTCATCGGGGATACTCCAATCCCGTTATTTCTGAGAGAATACTCCAACCCCTTTATT
TCCGA
Done.