Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold182
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: 1166161
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 25 characters in sequence are not A, C, G, or T
File 10 of 10
Found at i:1051889 original size:38 final size:40
Alignment explanation
Indices: 1051789--1051891 Score: 108
Period size: 41 Copynumber: 2.6 Consensus size: 40
1051779 GTAAACACAT
*
1051789 TATAAAAATATTAATATAATAATATATTTTTAATTATTATA
1 TATAAAAATATTAATATAAT-ATATATTTTTAATTATAATA
* *
1051830 TATAAAAATATTAGT-TAA-ATATAATTTCTTAA-TA-AATT
1 TATAAAAATATTAATATAATATAT-ATTT-TTAATTATAATA
1051868 TA-AAAAATATATAATATAATATAT
1 TATAAAAATAT-TAATATAATATAT
1051892 TTAAATATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
37 8 0.15
38 11 0.21
39 9 0.17
40 11 0.21
41 14 0.26
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (40 bp):
TATAAAAATATTAATATAATATATATTTTTAATTATAATA
Found at i:1052311 original size:17 final size:17
Alignment explanation
Indices: 1052289--1052323 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1052279 ACAAATTGAT
*
1052289 TTTTTTTAAGTGAGAAA
1 TTTTTTTAAGTAAGAAA
*
1052306 TTTTTTTATGTAAGAAA
1 TTTTTTTAAGTAAGAAA
1052323 T
1 T
1052324 AAATTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (17 bp):
TTTTTTTAAGTAAGAAA
Found at i:1056795 original size:2 final size:2
Alignment explanation
Indices: 1056788--1056835 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
1056778 GCACCTGATA
1056788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1056830 GT AT AT
1 AT AT AT
1056836 GTAACCAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1058636 original size:2 final size:2
Alignment explanation
Indices: 1058629--1058669 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
1058619 AAAGAAAAGA
* *
1058629 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A- AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1058670 GTTTTTCTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1064498 original size:2 final size:2
Alignment explanation
Indices: 1064491--1064517 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1064481 TATAGAGATG
1064491 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1064518 TTGGGCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1067066 original size:2 final size:2
Alignment explanation
Indices: 1067059--1067083 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1067049 TTGAAATAAG
1067059 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1067084 ATGAATTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1068108 original size:2 final size:2
Alignment explanation
Indices: 1068101--1068133 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1068091 AGACATGTTA
1068101 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1068134 AATTTCGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1068218 original size:22 final size:22
Alignment explanation
Indices: 1068193--1068235 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1068183 GCTCTGGTAA
1068193 GATCCGAGACAACATTATAGTT
1 GATCCGAGACAACATTATAGTT
1068215 GATCCGAGACAACATTATAGT
1 GATCCGAGACAACATTATAGT
1068236 GGTACGAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (22 bp):
GATCCGAGACAACATTATAGTT
Found at i:1069433 original size:17 final size:17
Alignment explanation
Indices: 1069407--1069439 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1069397 TAATATAAAT
1069407 TTTTAATTTTTAATTAG
1 TTTTAATTTTTAATTAG
*
1069424 TTTTATTTTTTAATTA
1 TTTTAATTTTTAATTA
1069440 ACATCTGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTAATTTTTAATTAG
Found at i:1069554 original size:18 final size:18
Alignment explanation
Indices: 1069519--1069556 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1069509 CAAATTAATT
*
1069519 TAATTGTTTATATTTTTA
1 TAATTGTTTATATATTTA
1069537 TAATTG-TTATACTATTTA
1 TAATTGTTTATA-TATTTA
1069555 TA
1 TA
1069557 TTGATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (18 bp):
TAATTGTTTATATATTTA
Found at i:1069683 original size:15 final size:17
Alignment explanation
Indices: 1069652--1069686 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
1069642 ATTTGATATA
1069652 AAAAATTTAATTATTTT
1 AAAAATTTAATTATTTT
1069669 AAAAA-TTAA-TATTTT
1 AAAAATTTAATTATTTT
1069684 AAA
1 AAA
1069687 GTAATATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 4 0.22
17 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAAATTTAATTATTTT
Found at i:1070730 original size:2 final size:2
Alignment explanation
Indices: 1070723--1070761 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1070713 ATGCATGCAC
*
1070723 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1070762 TTCTATTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1071243 original size:3 final size:3
Alignment explanation
Indices: 1071235--1071274 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
1071225 TAATGAATAA
1071235 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1071275 TTTAATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:1075431 original size:2 final size:2
Alignment explanation
Indices: 1075426--1075459 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1075416 TGTCTTTGGG
1075426 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1075460 CATTTTTCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1076432 original size:2 final size:2
Alignment explanation
Indices: 1076425--1076451 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1076415 CCTGTCGTCA
1076425 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1076452 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1079184 original size:20 final size:19
Alignment explanation
Indices: 1079159--1079199 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
1079149 TCTTGATTTA
*
1079159 AAATTTATTGTAATATTTTT
1 AAATTTATTATAAT-TTTTT
*
1079179 AAATTTTTTATAATTTTTT
1 AAATTTATTATAATTTTTT
1079198 AA
1 AA
1079200 TTAAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
AAATTTATTATAATTTTTT
Found at i:1085886 original size:56 final size:52
Alignment explanation
Indices: 1085826--1085930 Score: 122
Period size: 52 Copynumber: 1.9 Consensus size: 52
1085816 CTTAAAGTAT
1085826 TAAATATTTATATAAATTTTGATATATTATTAATTTATGTTATA-CATATTTTAATA
1 TAAATATTT-T-T-AATTTT-ATATATTATT-ATTTATGTTATATCATATTTTAATA
* * * *
1085882 TAAATATTTTTTATTTTTTATATTATTTTTTATTTTATATCATATTTTA
1 TAAATATTTTTAATTTTATATATTATTATTTATGTTATATCATATTTTA
1085931 TTTTTTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
51 10 0.23
52 18 0.41
53 5 0.11
54 1 0.02
55 1 0.02
56 9 0.20
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (52 bp):
TAAATATTTTTAATTTTATATATTATTATTTATGTTATATCATATTTTAATA
Found at i:1085910 original size:19 final size:19
Alignment explanation
Indices: 1085886--1085936 Score: 70
Period size: 17 Copynumber: 2.8 Consensus size: 19
1085876 TTAATATAAA
1085886 TATTTTTTATTTTTTATAT
1 TATTTTTTATTTTTTATAT
1085905 TATTTTTTA--TTTTATAT
1 TATTTTTTATTTTTTATAT
* *
1085922 CATATTTTATTTTTT
1 TATTTTTTATTTTTT
1085937 TTTTGTTACG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 15 0.54
19 13 0.46
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTTTTTATTTTTTATAT
Found at i:1086026 original size:2 final size:2
Alignment explanation
Indices: 1086019--1086043 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1086009 GGGGTAATAC
1086019 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1086044 CTTGACAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1087483 original size:6 final size:6
Alignment explanation
Indices: 1087467--1087496 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1087457 AAGGCTCTAC
*
1087467 ATGGCA TTGGCA ATGGCA ATGGCA ATGGCA
1 ATGGCA ATGGCA ATGGCA ATGGCA ATGGCA
1087497 TGATGGGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.30, C:0.17, G:0.33, T:0.20
Consensus pattern (6 bp):
ATGGCA
Found at i:1089868 original size:3 final size:3
Alignment explanation
Indices: 1089860--1089907 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
1089850 AGAGAGTGCT
* * *
1089860 GAA GAA GAA GAA GAA AAA GAA GAA GAA AAA GAA GAA GAA GAG GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1089908 AATGCAGGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1095434 original size:2 final size:2
Alignment explanation
Indices: 1095427--1095463 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1095417 ATCTCAGCAC
*
1095427 AG AG AG AG AG AG AG AG AG AG AG AG AG AT AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1095464 ATAAAAGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.46, T:0.03
Consensus pattern (2 bp):
AG
Found at i:1096412 original size:14 final size:16
Alignment explanation
Indices: 1096393--1096426 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
1096383 ACATCAAAGA
1096393 CCAACTACAC-A-CAT
1 CCAACTACACTAGCAT
1096407 CCAACTACACTAGCAT
1 CCAACTACACTAGCAT
1096423 CCAA
1 CCAA
1096427 ACTCGAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 1 0.06
16 7 0.39
ACGTcount: A:0.41, C:0.41, G:0.03, T:0.15
Consensus pattern (16 bp):
CCAACTACACTAGCAT
Found at i:1098458 original size:2 final size:2
Alignment explanation
Indices: 1098451--1098495 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1098441 ACTTCTTAAA
1098451 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1098493 AT A
1 AT A
1098496 ATACGCACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1098588 original size:2 final size:2
Alignment explanation
Indices: 1098581--1098611 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1098571 GTTATCAGTC
1098581 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1098612 GCTCGCCAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1103183 original size:16 final size:15
Alignment explanation
Indices: 1103162--1103195 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1103152 ATTTAAATTT
1103162 AATTATAAAATATAAA
1 AATTAT-AAATATAAA
*
1103178 AATTATTAATATAAA
1 AATTATAAATATAAA
1103193 AAT
1 AAT
1103196 AATTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATTATAAATATAAA
Found at i:1103224 original size:20 final size:19
Alignment explanation
Indices: 1103183--1103225 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
1103173 ATAAAAATTA
* **
1103183 TTAATATAAAAATAATTTT
1 TTAATAAAAAAATAATAAT
1103202 TTAATAAAATAAATAATAAT
1 TTAATAAAA-AAATAATAAT
1103222 TTAA
1 TTAA
1103226 ACTTAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAATAAAAAAATAATAAT
Found at i:1103640 original size:29 final size:29
Alignment explanation
Indices: 1103604--1103662 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
1103594 TTAATTAATA
**
1103604 TCTTAAAATGATATTTTTAAAAAATAAAC
1 TCTTAAAATGATATTCGTAAAAAATAAAC
1103633 TCTTAAAATGATATTCGTAAAAAATAAAC
1 TCTTAAAATGATATTCGTAAAAAATAAAC
1103662 T
1 T
1103663 GACTCGTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (29 bp):
TCTTAAAATGATATTCGTAAAAAATAAAC
Found at i:1110984 original size:216 final size:216
Alignment explanation
Indices: 1110596--1111028 Score: 776
Period size: 216 Copynumber: 2.0 Consensus size: 216
1110586 TCTTCAGTTG
*
1110596 CCCTTCTGAGCATATGTTTGGCCGTAGTTCAATCTTATGTAGATATGTGATGAATTTCTTATTAA
1 CCCTTCTGAGCATATGTTTGGCCGTAGTTCAATCTTATGTAGATATGTGATGAATTTCTCATTAA
* *
1110661 GAACGCGAGACCATAGTAGCCTTGTCTAAGCAGAAATGAGAATTAATGAACAAAGCACCTTGAAT
66 GAACACCAGACCATAGTAGCCTTGTCTAAGCAGAAATGAGAATTAATGAACAAAGCACCTTGAAT
1110726 ACTTGGCTGGAAAGCTAGTCTATTACAAATTTTTGCAGTAGAAGTTGGTTATCTATCAATGTAAG
131 ACTTGGCTGGAAAGCTAGTCTATTACAAATTTTTGCAGTAGAAGTTGGTTATCTATCAATGTAAG
*
1110791 TAGCATTCTGTGTAATTCCAT
196 TAACATTCTGTGTAATTCCAT
* *
1110812 CCCTTGTGTGCATATGTTTGGCCGTAGTTCAATCTTATGTAGATATGTGATGAATTTCTCATTAA
1 CCCTTCTGAGCATATGTTTGGCCGTAGTTCAATCTTATGTAGATATGTGATGAATTTCTCATTAA
* *
1110877 GAACACCAGACCATGGTAGCCTTGTCTAAGCAGAACTGAGAATTAATGAACAAAGCACCTTGAAT
66 GAACACCAGACCATAGTAGCCTTGTCTAAGCAGAAATGAGAATTAATGAACAAAGCACCTTGAAT
*
1110942 ACTTGGCTGGAAAGCTAGTCTATTACAAATTTTTGTAGTAGAAGTTGGTTATCTATCAATGTAAG
131 ACTTGGCTGGAAAGCTAGTCTATTACAAATTTTTGCAGTAGAAGTTGGTTATCTATCAATGTAAG
*
1111007 TAACATTTTGTGTAATTCCAT
196 TAACATTCTGTGTAATTCCAT
1111028 C
1 C
1111029 AAGTCTAATA
Statistics
Matches: 207, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
216 207 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (216 bp):
CCCTTCTGAGCATATGTTTGGCCGTAGTTCAATCTTATGTAGATATGTGATGAATTTCTCATTAA
GAACACCAGACCATAGTAGCCTTGTCTAAGCAGAAATGAGAATTAATGAACAAAGCACCTTGAAT
ACTTGGCTGGAAAGCTAGTCTATTACAAATTTTTGCAGTAGAAGTTGGTTATCTATCAATGTAAG
TAACATTCTGTGTAATTCCAT
Found at i:1111795 original size:13 final size:13
Alignment explanation
Indices: 1111774--1111806 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1111764 TGTGAAGGGC
*
1111774 TTTTCTTTCTTTT
1 TTTTTTTTCTTTT
1111787 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
1111800 TTTTTTT
1 TTTTTTT
1111807 GGGGGGAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (13 bp):
TTTTTTTTCTTTT
Found at i:1111796 original size:17 final size:16
Alignment explanation
Indices: 1111774--1111806 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
1111764 TGTGAAGGGC
1111774 TTTTCTTTCTTTTTTTT
1 TTTTCTTT-TTTTTTTT
1111791 TTTTCTTTTTTTTTTT
1 TTTTCTTTTTTTTTTT
1111807 GGGGGGAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTTCTTTTTTTTTTT
Found at i:1112774 original size:3 final size:3
Alignment explanation
Indices: 1112766--1112800 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1112756 AACTATACCT
* *
1112766 TTA TTA TTA TTA TTA TTG TTA GTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1112801 CATGCATTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1115088 original size:89 final size:89
Alignment explanation
Indices: 1114992--1115174 Score: 305
Period size: 89 Copynumber: 2.1 Consensus size: 89
1114982 GTAGATTTAA
** *
1114992 ATAAAATTTTA-ATTTTATAATTCGAATTATATTAAACTTGAACATATATATATATATAATGTTA
1 ATAAAATTTTAGA-TTTATAATTCGAACCATATTAAACTTGAACATATATATATATATAATATTA
1115056 TTGACATACTAAACTTGATTCAAGT
65 TTGACATACTAAACTTGATTCAAGT
*
1115081 ATAAAATTTTAGATTTATATTTCGAACCATATTAAACTTGAACATATATATATATATAATATTAT
1 ATAAAATTTTAGATTTATAATTCGAACCATATTAAACTTGAACATATATATATATATAATATTAT
*
1115146 TGACATATTAAACTTGATTCAAGT
66 TGACATACTAAACTTGATTCAAGT
1115170 ATAAA
1 ATAAA
1115175 TTAACTTAAT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
89 87 0.99
90 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.42
Consensus pattern (89 bp):
ATAAAATTTTAGATTTATAATTCGAACCATATTAAACTTGAACATATATATATATATAATATTAT
TGACATACTAAACTTGATTCAAGT
Found at i:1115515 original size:242 final size:246
Alignment explanation
Indices: 1115081--1115532 Score: 610
Period size: 242 Copynumber: 1.9 Consensus size: 246
1115071 TGATTCAAGT
* * * * * *
1115081 ATAAAATTTTAGATTTATATTTCGAACCATATTAAACTTGAACATATATATATATATAATATTAT
1 ATAAAATTTTAAATTCATATTTCAAACCATATTAAAATTGAACATAGATATATATATAATATTAC
* * * * * * *
1115146 TGACATATTAAACTTGATTCAAGTATAAATTAACTTAATTCATAAGCATTTGTACAATTCAATTT
66 TGACATACTAAACTTGATTCAAGTATAAATCAACTTAACTCATAAACATTTATACAACTCAACTT
* * * * *
1115211 AATTTATAAACACTTGTGATTTAGTTGTGATAAGCTTTTTGATATATTTTTTAATCCTTAATGAC
131 AATTCATAAACACTTATAATTTAATTGTGATAAGATTTTTGATATATTTTTTAATCCTTAATGAC
1115276 GCATTAATAAAATTTGAATGATTATTTATTTATAAATTTAAGTAAATTTAA
196 GCATTAATAAAATTTGAATGATTATTTATTTATAAATTTAAGTAAATTTAA
* *
1115327 ATAAAATTTTAAATTCATATTTCAAACCATATTAAAATT-AA-ATAGATAT-T-TATAATGTTGC
1 ATAAAATTTTAAATTCATATTTCAAACCATATTAAAATTGAACATAGATATATATATAATATTAC
* *
1115388 TGTCATACTAAACTTGATTCAAGTATAAATCAATTTAACTCATAAACATTTATACAACTCAACTT
66 TGACATACTAAACTTGATTCAAGTATAAATCAACTTAACTCATAAACATTTATACAACTCAACTT
* * *
1115453 AATTCGTAAACACTTATAATTTAATTGTGATAA-ATATTTTGATGTACTTTTTT-ATTCTTAATG
131 AATTCATAAACACTTATAATTTAATTGTGATAAGAT-TTTTGATATA-TTTTTTAATCCTTAATG
*
1115516 ACGTATTAATAAAATTT
194 ACGCATTAATAAAATTT
1115533 AAATAATTTT
Statistics
Matches: 178, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
241 1 0.01
242 126 0.71
243 7 0.04
244 7 0.04
245 2 0.01
246 35 0.20
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (246 bp):
ATAAAATTTTAAATTCATATTTCAAACCATATTAAAATTGAACATAGATATATATATAATATTAC
TGACATACTAAACTTGATTCAAGTATAAATCAACTTAACTCATAAACATTTATACAACTCAACTT
AATTCATAAACACTTATAATTTAATTGTGATAAGATTTTTGATATATTTTTTAATCCTTAATGAC
GCATTAATAAAATTTGAATGATTATTTATTTATAAATTTAAGTAAATTTAA
Found at i:1119866 original size:2 final size:2
Alignment explanation
Indices: 1119859--1119888 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1119849 CTACGTGTAT
1119859 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1119889 CACACATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1120905 original size:2 final size:2
Alignment explanation
Indices: 1120898--1120933 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1120888 GGTGCTGTAA
1120898 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1120934 TTTCTCTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1127506 original size:16 final size:15
Alignment explanation
Indices: 1127485--1127529 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
1127475 TATACCCTTA
1127485 ATTTTAAAATAATATT
1 ATTTTAAAATAAT-TT
1127501 ATTTT--AATAATTT
1 ATTTTAAAATAATTT
*
1127514 ATTTTAAAATTATTT
1 ATTTTAAAATAATTT
1127529 A
1 A
1127530 CTTAAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
15 8 0.31
16 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTAAAATAATTT
Found at i:1127511 original size:14 final size:13
Alignment explanation
Indices: 1127492--1127528 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1127482 TTAATTTTAA
1127492 AATAATATTATTTT
1 AATAAT-TTATTTT
1127506 AATAATTTATTTT
1 AATAATTTATTTT
1127519 AA-AA-TTATTT
1 AATAATTTATTT
1127529 ACTTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.26
12 2 0.09
13 9 0.39
14 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AATAATTTATTTT
Found at i:1136783 original size:24 final size:23
Alignment explanation
Indices: 1136756--1136800 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
1136746 CTGAGGGGTC
1136756 AGTTGGCAA-AAATTTTATTATTTG
1 AGTT-GCAAGAAATTTT-TTATTTG
*
1136780 AGTTGCAAGAGATTTTTTATT
1 AGTTGCAAGAAATTTTTTATT
1136801 GATGCAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (23 bp):
AGTTGCAAGAAATTTTTTATTTG
Found at i:1147189 original size:2 final size:2
Alignment explanation
Indices: 1147182--1147208 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1147172 GTGCTCCAGG
1147182 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1147209 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1150757 original size:22 final size:23
Alignment explanation
Indices: 1150716--1150767 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
1150706 TAAATTAAGG
1150716 GATTTAGTTAGACAAATCTTCAA
1 GATTTAGTTAGACAAATCTTCAA
*
1150739 GATTTGGTTAGA-AAATCTTCAA
1 GATTTAGTTAGACAAATCTTCAA
1150761 GATTTAG
1 GATTTAG
1150768 GAATGAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (23 bp):
GATTTAGTTAGACAAATCTTCAA
Found at i:1155494 original size:44 final size:44
Alignment explanation
Indices: 1155439--1155528 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
1155429 ATTAGGAGAA
1155439 TTAGTTTGAAATCCCTTAAATTAAGGGATTTGGTTAGAGAAATC
1 TTAGTTTGAAATCCCTTAAATTAAGGGATTTGGTTAGAGAAATC
1155483 TTAGTTTGAAATCCCTTAAATTAAGGGATTTGGTTAGAGAAATC
1 TTAGTTTGAAATCCCTTAAATTAAGGGATTTGGTTAGAGAAATC
1155527 TT
1 TT
1155529 CAAGATTTGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (44 bp):
TTAGTTTGAAATCCCTTAAATTAAGGGATTTGGTTAGAGAAATC
Found at i:1155551 original size:22 final size:23
Alignment explanation
Indices: 1155509--1155558 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
1155499 TAAATTAAGG
1155509 GATTTGGTTAGAGAAATCTTCAA
1 GATTTGGTTAGAGAAATCTTCAA
*
1155532 GATTTGGTTAGA-CAATCTTCAA
1 GATTTGGTTAGAGAAATCTTCAA
1155554 GATTT
1 GATTT
1155559 AGGAATGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (23 bp):
GATTTGGTTAGAGAAATCTTCAA
Found at i:1158429 original size:32 final size:33
Alignment explanation
Indices: 1158370--1158432 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
1158360 AAGCCTTTTC
*
1158370 AGCCCATTCCGTTTAGCATATTCAGTTTGCTTG
1 AGCCCATTCCATTTAGCATATTCAGTTTGCTTG
* * *
1158403 AGCCCATT-CATTTAGCCTGTTTAGTTTGCT
1 AGCCCATTCCATTTAGCATATTCAGTTTGCT
1158433 CCAGCACATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (33 bp):
AGCCCATTCCATTTAGCATATTCAGTTTGCTTG
Found at i:1159782 original size:8 final size:8
Alignment explanation
Indices: 1159759--1159835 Score: 51
Period size: 8 Copynumber: 10.2 Consensus size: 8
1159749 AAATTTAGAG
1159759 TTTAGGG-
1 TTTAGGGT
*
1159766 TTTAAGGT
1 TTTAGGGT
1159774 TTTAGGGT
1 TTTAGGGT
*
1159782 TTTAGGAT
1 TTTAGGGT
1159790 TTT-GAGG-
1 TTTAG-GGT
1159797 TTT-GGGAT
1 TTTAGGG-T
1159805 TTTAGGG-
1 TTTAGGGT
*
1159812 -TTGGGGT
1 TTTAGGGT
*
1159819 TTTAAGG-
1 TTTAGGGT
1159826 TTTAGGGT
1 TTTAGGGT
1159834 TT
1 TT
1159836 AAGGTTTGAG
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
6 7 0.13
7 17 0.31
8 27 0.50
9 3 0.06
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (8 bp):
TTTAGGGT
Found at i:1159856 original size:14 final size:15
Alignment explanation
Indices: 1159759--1159857 Score: 80
Period size: 15 Copynumber: 6.7 Consensus size: 15
1159749 AAATTTAGAG
* *
1159759 TTTAGGGTTTAAGGT
1 TTTAAGGTTTGAGGT
* *
1159774 TTTAGGGTTTTAGGAT
1 TTTAAGGTTTGAGG-T
*
1159790 TTTGAGGTTTG-GGAT
1 TTTAAGGTTTGAGG-T
* *
1159805 TTT-AGGGTTGGGGT
1 TTTAAGGTTTGAGGT
*
1159819 TTTAAGGTTT-AGGG
1 TTTAAGGTTTGAGGT
1159833 TTTAAGGTTTGAGGT
1 TTTAAGGTTTGAGGT
1159848 TTTAA-GTTTG
1 TTTAAGGTTTG
1159858 GGGTCTGGGG
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
14 27 0.38
15 35 0.49
16 9 0.13
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.47
Consensus pattern (15 bp):
TTTAAGGTTTGAGGT
Found at i:1159946 original size:7 final size:7
Alignment explanation
Indices: 1159853--1160694 Score: 870
Period size: 7 Copynumber: 121.3 Consensus size: 7
1159843 GAGGTTTTAA
1159853 GTTTGGG
1 GTTTGGG
*
1159860 GTCTGGG
1 GTTTGGG
* *
1159867 GTCTAGG
1 GTTTGGG
*
1159874 GTTTGGCA
1 GTTTGG-G
*
1159882 TTTTAGGG
1 GTTT-GGG
* *
1159890 GTTCGAG
1 GTTTGGG
*
1159897 GTTTGAG
1 GTTTGGG
1159904 GTTTGGG
1 GTTTGGG
1159911 GTTTGGG
1 GTTTGGG
* *
1159918 GTTCGAG
1 GTTTGGG
*
1159925 GTTTTGG
1 GTTTGGG
1159932 GTTTGGG
1 GTTTGGG
*
1159939 GTTCGGG
1 GTTTGGG
1159946 G-TTGGG
1 GTTTGGG
*
1159952 GTTCGGG
1 GTTTGGG
**
1159959 GTTCAGG
1 GTTTGGG
*
1159966 GTTTAGG
1 GTTTGGG
*
1159973 GTTCGGG
1 GTTTGGG
*
1159980 GTTCGGG
1 GTTTGGG
*
1159987 G-TTCGG
1 GTTTGGG
*
1159993 G-TTCGG
1 GTTTGGG
1159999 GTTT-GG
1 GTTTGGG
*
1160005 G-TTCGG
1 GTTTGGG
1160011 GTTT-GG
1 GTTTGGG
*
1160017 GTTTAGG
1 GTTTGGG
*
1160024 GTTTAGG
1 GTTTGGG
*
1160031 GTTTAGG
1 GTTTGGG
*
1160038 GTTTAGG
1 GTTTGGG
**
1160045 GTCAGGG
1 GTTTGGG
* *
1160052 CTCTGGG
1 GTTTGGG
* **
1160059 CTCAGGG
1 GTTTGGG
* *
1160066 CTCT-GG
1 GTTTGGG
* **
1160072 GCTCAGG
1 GTTTGGG
* **
1160079 GCTCAGG
1 GTTTGGG
1160086 G-TTGAGG
1 GTTTG-GG
* **
1160093 GCTCAGG
1 GTTTGGG
1160100 G-TTGAGG
1 GTTTG-GG
* **
1160107 GCTCAGG
1 GTTTGGG
1160114 G-TTGAGG
1 GTTTG-GG
*
1160121 GTTCGGG
1 GTTTGGG
*
1160128 GTTCGGG
1 GTTTGGG
*
1160135 GTTCGGG
1 GTTTGGG
*
1160142 GTTCGGG
1 GTTTGGG
1160149 GTTTGGG
1 GTTTGGG
1160156 GTTTTGGG
1 G-TTTGGG
1160164 GTTTGGG
1 GTTTGGG
*
1160171 GTATGGG
1 GTTTGGG
*
1160178 GTATGGG
1 GTTTGGG
*
1160185 GTATGGG
1 GTTTGGG
*
1160192 GTCTGGG
1 GTTTGGG
*
1160199 GTCTGGG
1 GTTTGGG
*
1160206 GTCTGGG
1 GTTTGGG
*
1160213 GTCTGGG
1 GTTTGGG
*
1160220 GTTTAGG
1 GTTTGGG
*
1160227 GTCTGGG
1 GTTTGGG
*
1160234 GTTTAGG
1 GTTTGGG
*
1160241 GTCTGGG
1 GTTTGGG
1160248 GTTTGGG
1 GTTTGGG
1160255 GTTTGGG
1 GTTTGGG
1160262 GTTTTGGG
1 G-TTTGGG
1160270 GTTTGGG
1 GTTTGGG
1160277 GTTTGGG
1 GTTTGGG
1160284 GTTTGGG
1 GTTTGGG
1160291 GTTTGGG
1 GTTTGGG
1160298 GTTTGGG
1 GTTTGGG
*
1160305 GTTTAGG
1 GTTTGGG
1160312 GTTTGGG
1 GTTTGGG
1160319 GTTTGGG
1 GTTTGGG
1160326 GTTTTGGG
1 G-TTTGGG
1160334 GTTTGGG
1 GTTTGGG
1160341 GTTTGGG
1 GTTTGGG
1160348 GTTTGGG
1 GTTTGGG
1160355 GTTTGGG
1 GTTTGGG
1160362 GTTTGGG
1 GTTTGGG
1160369 GTTTGGG
1 GTTTGGG
1160376 GTTTGGG
1 GTTTGGG
1160383 GTTTGGG
1 GTTTGGG
1160390 GTTTGGG
1 GTTTGGG
1160397 GTTTGGG
1 GTTTGGG
1160404 GTTTGGG
1 GTTTGGG
1160411 GTTTGGG
1 GTTTGGG
1160418 GTTTGGG
1 GTTTGGG
1160425 GTTTGGG
1 GTTTGGG
1160432 GTTTGGG
1 GTTTGGG
1160439 GTTTGGG
1 GTTTGGG
1160446 GTTTGGG
1 GTTTGGG
1160453 GTTTGGG
1 GTTTGGG
1160460 GTTTGGG
1 GTTTGGG
1160467 GTTTGGG
1 GTTTGGG
1160474 GTTTGGG
1 GTTTGGG
1160481 GTTTGGG
1 GTTTGGG
1160488 GTTTGGG
1 GTTTGGG
1160495 GTTTGGG
1 GTTTGGG
1160502 GTTTGGG
1 GTTTGGG
1160509 GTTTGGG
1 GTTTGGG
1160516 GTTTGGG
1 GTTTGGG
1160523 GTTTGGG
1 GTTTGGG
1160530 GTTT-GG
1 GTTTGGG
1160536 GTTTGGG
1 GTTTGGG
1160543 GTTTGGG
1 GTTTGGG
1160550 GTTTGGG
1 GTTTGGG
1160557 GTTTGGG
1 GTTTGGG
1160564 GTTTGGG
1 GTTTGGG
1160571 GTTTGGG
1 GTTTGGG
1160578 GTTTGGG
1 GTTTGGG
1160585 GTTTGGG
1 GTTTGGG
1160592 GTTTGGG
1 GTTTGGG
1160599 GTTTGGG
1 GTTTGGG
1160606 GTTTGGG
1 GTTTGGG
1160613 GTTTGGG
1 GTTTGGG
1160620 GTTTGGG
1 GTTTGGG
1160627 GTTT-GG
1 GTTTGGG
*
1160633 G-TTAGG
1 GTTTGGG
1160639 GTTT-GG
1 GTTTGGG
*
1160645 GTTTCGG
1 GTTTGGG
*
1160652 GTTTTGG
1 GTTTGGG
1160659 GTTTCGGG
1 GTTT-GGG
1160667 G--TGGG
1 GTTTGGG
* *
1160672 TTTTCGG
1 GTTTGGG
*
1160679 GTTTCGG
1 GTTTGGG
*
1160686 GTTTCGG
1 GTTTGGG
1160693 GT
1 GT
1160695 CTCCGGGTTT
Statistics
Matches: 743, Mismatches: 68, Indels: 48
0.86 0.08 0.06
Matches are distributed among these distances:
5 7 0.01
6 51 0.07
7 650 0.87
8 33 0.04
9 2 0.00
ACGTcount: A:0.03, C:0.05, G:0.53, T:0.39
Consensus pattern (7 bp):
GTTTGGG
Found at i:1161670 original size:9 final size:7
Alignment explanation
Indices: 1160218--1166090 Score: 3654
Period size: 7 Copynumber: 785.7 Consensus size: 7
1160208 CTGGGGTCTG
*
1160218 GGGTTTA
1 GGGTTTC
* *
1160225 GGGTCTG
1 GGGTTTC
*
1160232 GGGTTTA
1 GGGTTTC
* *
1160239 GGGTCTG
1 GGGTTTC
*
1160246 GGGTTTG
1 GGGTTTC
*
1160253 GGGTTTG
1 GGGTTTC
*
1160260 GGGTTTTG
1 GGG-TTTC
*
1160268 GGGTTTG
1 GGGTTTC
*
1160275 GGGTTTG
1 GGGTTTC
*
1160282 GGGTTTG
1 GGGTTTC
*
1160289 GGGTTTG
1 GGGTTTC
*
1160296 GGGTTTG
1 GGGTTTC
*
1160303 GGGTTTA
1 GGGTTTC
*
1160310 GGGTTTG
1 GGGTTTC
*
1160317 GGGTTTG
1 GGGTTTC
*
1160324 GGGTTTTG
1 GGG-TTTC
*
1160332 GGGTTTG
1 GGGTTTC
*
1160339 GGGTTTG
1 GGGTTTC
*
1160346 GGGTTTG
1 GGGTTTC
*
1160353 GGGTTTG
1 GGGTTTC
*
1160360 GGGTTTG
1 GGGTTTC
*
1160367 GGGTTTG
1 GGGTTTC
*
1160374 GGGTTTG
1 GGGTTTC
*
1160381 GGGTTTG
1 GGGTTTC
*
1160388 GGGTTTG
1 GGGTTTC
*
1160395 GGGTTTG
1 GGGTTTC
*
1160402 GGGTTTG
1 GGGTTTC
*
1160409 GGGTTTG
1 GGGTTTC
*
1160416 GGGTTTG
1 GGGTTTC
*
1160423 GGGTTTG
1 GGGTTTC
*
1160430 GGGTTTG
1 GGGTTTC
*
1160437 GGGTTTG
1 GGGTTTC
*
1160444 GGGTTTG
1 GGGTTTC
*
1160451 GGGTTTG
1 GGGTTTC
*
1160458 GGGTTTG
1 GGGTTTC
*
1160465 GGGTTTG
1 GGGTTTC
*
1160472 GGGTTTG
1 GGGTTTC
*
1160479 GGGTTTG
1 GGGTTTC
*
1160486 GGGTTTG
1 GGGTTTC
*
1160493 GGGTTTG
1 GGGTTTC
*
1160500 GGGTTTG
1 GGGTTTC
*
1160507 GGGTTTG
1 GGGTTTC
*
1160514 GGGTTTG
1 GGGTTTC
*
1160521 GGGTTTG
1 GGGTTTC
1160528 GGGTTT-
1 GGGTTTC
*
1160534 GGGTTTG
1 GGGTTTC
*
1160541 GGGTTTG
1 GGGTTTC
*
1160548 GGGTTTG
1 GGGTTTC
*
1160555 GGGTTTG
1 GGGTTTC
*
1160562 GGGTTTG
1 GGGTTTC
*
1160569 GGGTTTG
1 GGGTTTC
*
1160576 GGGTTTG
1 GGGTTTC
*
1160583 GGGTTTG
1 GGGTTTC
*
1160590 GGGTTTG
1 GGGTTTC
*
1160597 GGGTTTG
1 GGGTTTC
*
1160604 GGGTTTG
1 GGGTTTC
*
1160611 GGGTTTG
1 GGGTTTC
*
1160618 GGGTTTG
1 GGGTTTC
1160625 GGGTTT-
1 GGGTTTC
*
1160631 GGG-TTA
1 GGGTTTC
1160637 GGGTTT-
1 GGGTTTC
1160643 GGGTTTC
1 GGGTTTC
*
1160650 GGGTTTT
1 GGGTTTC
1160657 GGGTTTC
1 GGGTTTC
*
1160664 GGG-GT-
1 GGGTTTC
1160669 GGGTTTTC
1 GGG-TTTC
1160677 GGGTTTC
1 GGGTTTC
1160684 GGGTTTC
1 GGGTTTC
*
1160691 GGGTCTCC
1 GGGT-TTC
1160699 GGGTTTC
1 GGGTTTC
*
1160706 GGG-TTA
1 GGGTTTC
1160712 GCGGTTTC
1 G-GGTTTC
*
1160720 GGTTTTC
1 GGGTTTC
1160727 -GGTTTC
1 GGGTTTC
1160733 GGGTTATC
1 GGGTT-TC
1160741 -GGTTTC
1 GGGTTTC
1160747 GGGTTTC
1 GGGTTTC
1160754 GGGTTTCCC
1 GGGTTT--C
1160763 GGGTTTTC
1 GGG-TTTC
1160771 GGGTTTC
1 GGGTTTC
1160778 -GGTTTC
1 GGGTTTC
1160784 GGGTTTTC
1 GGG-TTTC
1160792 GGGTTTTC
1 GGG-TTTC
1160800 GGGTTTC
1 GGGTTTC
1160807 GGGTTTCC
1 GGGTTT-C
1160815 GGGTTTGTTC
1 GGG--T-TTC
*
1160825 GGGTTGC
1 GGGTTTC
*
1160832 GGGTTCC
1 GGGTTTC
1160839 GGGTTTCC
1 GGGTTT-C
*
1160847 GGTTTTC
1 GGGTTTC
1160854 GGGTTTTC
1 GGG-TTTC
1160862 GGGTTTC
1 GGGTTTC
1160869 GGGTTTC
1 GGGTTTC
1160876 GGGTTTC
1 GGGTTTC
1160883 -GGTTTAC
1 GGGTTT-C
1160890 -GG-TTC
1 GGGTTTC
1160895 GGGTTTC
1 GGGTTTC
1160902 GGGTTTC
1 GGGTTTC
1160909 GGGTTTC
1 GGGTTTC
1160916 GGGTTTC
1 GGGTTTC
1160923 GGGGTTTTTC
1 -GGG--TTTC
*
1160933 GGTTTTC
1 GGGTTTC
1160940 GGGTTTCC
1 GGGTTT-C
1160948 AGGGTTTC
1 -GGGTTTC
1160956 -GGTTTC
1 GGGTTTC
1160962 -GGTTTAC
1 GGGTTT-C
*
1160969 GAGTTTTC
1 G-GGTTTC
1160977 GGGATTTC
1 GGG-TTTC
1160985 GGAGTTTTC
1 GG-G-TTTC
1160994 AGGAGTTATCC
1 -GG-GTT-T-C
1161005 GGGTTTC
1 GGGTTTC
1161012 GGGTTTAC
1 GGGTTT-C
*
1161020 CGGTTTC
1 GGGTTTC
1161027 AGGGTTTTC
1 -GGG-TTTC
1161036 GGGTTTTC
1 GGG-TTTC
1161044 -GGTTTC
1 GGGTTTC
1161050 GGGTTTGC
1 GGGTTT-C
1161058 GGGTTTTC
1 GGG-TTTC
* *
1161066 GGGTGTA
1 GGGTTTC
*
1161073 GGATTTC
1 GGGTTTC
1161080 GGGTTTC
1 GGGTTTC
1161087 GGGTTTC
1 GGGTTTC
1161094 GGGTTTC
1 GGGTTTC
*
1161101 GGGTTTGA
1 GGGTTT-C
1161109 GAGGTATTC
1 G-GGT-TTC
*
1161118 GGGTTGC
1 GGGTTTC
1161125 GGGTTTCC
1 GGGTTT-C
1161133 GGGTTTC
1 GGGTTTC
1161140 GGGTTTC
1 GGGTTTC
1161147 GGGTTGTC
1 GGGTT-TC
*
1161155 GGTTTTC
1 GGGTTTC
1161162 GGGTTTTC
1 GGG-TTTC
1161170 GGGTTTC
1 GGGTTTC
1161177 GGGGTTTAC
1 -GGGTTT-C
1161186 GGGTTTC
1 GGGTTTC
1161193 GGGTTTC
1 GGGTTTC
1161200 GGGAACTTTC
1 GGG---TTTC
1161210 GGGTTTC
1 GGGTTTC
*
1161217 GGGTTCC
1 GGGTTTC
*
1161224 CGGTTTC
1 GGGTTTC
1161231 GGCGTTTC
1 GG-GTTTC
1161239 GGGTTTC
1 GGGTTTC
1161246 GGGTTTC
1 GGGTTTC
*
1161253 GGG-TGC
1 GGGTTTC
1161259 GGGTTTC
1 GGGTTTC
*
1161266 GGGTGTC
1 GGGTTTC
1161273 GGAGTTTC
1 GG-GTTTC
1161281 -GGTTTC
1 GGGTTTC
1161287 GGGATTTCC
1 GGG-TTT-C
*
1161296 GGGTTGC
1 GGGTTTC
*
1161303 GGGTTGCC
1 GGGTT-TC
1161311 GGG-TTC
1 GGGTTTC
1161317 GAAGGTTTC
1 G--GGTTTC
*
1161326 ATGGTTTCC
1 -GGGTTT-C
1161335 GGGTTTC
1 GGGTTTC
1161342 GGGTTTC
1 GGGTTTC
*
1161349 GGGTGTGC
1 GGGT-TTC
1161357 AGGGTTTC
1 -GGGTTTC
*
1161365 GGGTTTT
1 GGGTTTC
1161372 GGGTTTC
1 GGGTTTC
1161379 GGGTTTC
1 GGGTTTC
1161386 GGGTTTC
1 GGGTTTC
1161393 GGGTAATTC
1 GGGT--TTC
* *
1161402 GTGTTGC
1 GGGTTTC
*
1161409 GGTGATTC
1 GG-GTTTC
1161417 GGGTTTC
1 GGGTTTC
* *
1161424 CGGTTGC
1 GGGTTTC
**
1161431 GGGTGGC
1 GGGTTTC
**
1161438 GGG-TGA
1 GGGTTTC
1161444 GGGTTTC
1 GGGTTTC
1161451 GGGGTTTC
1 -GGGTTTC
*
1161459 GGGTGTC
1 GGGTTTC
1161466 GGGTTTCC
1 GGGTTT-C
1161474 GGGTTTC
1 GGGTTTC
1161481 GAGGTTTC
1 G-GGTTTC
1161489 GGGTTTC
1 GGGTTTC
1161496 GAGGTTATC
1 G-GGTT-TC
1161505 GGGTTTC
1 GGGTTTC
*
1161512 GGGTTGC
1 GGGTTTC
1161519 GGGTTTTC
1 GGG-TTTC
1161527 GGGTTTC
1 GGGTTTC
1161534 GGGTTATC
1 GGGTT-TC
1161542 GGGTTTC
1 GGGTTTC
1161549 GGGTTTC
1 GGGTTTC
*
1161556 GGTTTTC
1 GGGTTTC
1161563 GGGTATTC
1 GGGT-TTC
1161571 GGGTTTC
1 GGGTTTC
1161578 GGGTTTTC
1 GGG-TTTC
1161586 GGGTGTTC
1 GGGT-TTC
1161594 GGGTTTC
1 GGGTTTC
1161601 GGGGTTTC
1 -GGGTTTC
*
1161609 GGGTTTA
1 GGGTTTC
* *
1161616 AGGTGT-
1 GGGTTTC
1161622 GGGTTTC
1 GGGTTTC
1161629 GGGTTTC
1 GGGTTTC
*
1161636 GGGTGTC
1 GGGTTTC
1161643 GGGGTTTC
1 -GGGTTTC
1161651 AGGGTTTC
1 -GGGTTTC
1161659 GGGTTATTC
1 GGG-T-TTC
1161668 GGGTTTCC
1 GGGTTT-C
1161676 GGGTATTCC
1 GGGT-TT-C
1161685 GGGTTTC
1 GGGTTTC
1161692 GGGTTTC
1 GGGTTTC
1161699 GGGTTTC
1 GGGTTTC
1161706 GGAGTTATCTC
1 GG-G-T-T-TC
1161717 GGGTTTC
1 GGGTTTC
1161724 GGAGTTTC
1 GG-GTTTC
*
1161732 GGGTTGCC
1 GGGTT-TC
1161740 GGGTTTC
1 GGGTTTC
*
1161747 ---ATTC
1 GGGTTTC
1161751 GGGTTTC
1 GGGTTTC
1161758 AGAGGATTTTC
1 -G-GG--TTTC
1161769 GGGTATTTC
1 GGG--TTTC
*
1161778 GGGTTTA
1 GGGTTTC
1161785 GGGTTTC
1 GGGTTTC
*
1161792 GGGTTGC
1 GGGTTTC
1161799 GGGTTTC
1 GGGTTTC
*
1161806 -GGTTGC
1 GGGTTTC
1161812 GGGGTTTC
1 -GGGTTTC
1161820 GGG--TC
1 GGGTTTC
1161825 -GGTTTC
1 GGGTTTC
1161831 AGGGTTT-
1 -GGGTTTC
1161838 GGGTTTTAC
1 GGG-TTT-C
1161847 TAGGGTTTC
1 --GGGTTTC
**
1161856 GGGGGTC
1 GGGTTTC
1161863 GGGTTCTC
1 GGGTT-TC
*
1161871 GGGGTTC
1 GGGTTTC
1161878 -GGTTCTC
1 GGGTT-TC
1161885 AGGAGTTTC
1 -GG-GTTTC
1161894 GGGTTTC
1 GGGTTTC
1161901 GGGTTTC
1 GGGTTTC
1161908 GGGTTTCC
1 GGGTTT-C
1161916 GGGTATTC
1 GGGT-TTC
1161924 AGGGTTTC
1 -GGGTTTC
1161932 GGGTTTC
1 GGGTTTC
*
1161939 GGGGGTTCC
1 --GGGTTTC
1161948 GGGTTTC
1 GGGTTTC
1161955 GGGTTT-
1 GGGTTTC
1161961 -GGTTTC
1 GGGTTTC
*
1161967 GGGTTGC
1 GGGTTTC
1161974 GGGTTGTC
1 GGGTT-TC
1161982 GGGTTTC
1 GGGTTTC
1161989 GAGGTTTC
1 G-GGTTTC
1161997 GGGTTTC
1 GGGTTTC
1162004 GGGTTTTC
1 GGG-TTTC
1162012 GGGTTTC
1 GGGTTTC
1162019 GGGTTTC
1 GGGTTTC
*
1162026 GGATTTC
1 GGGTTTC
1162033 GGGGTTTC
1 -GGGTTTC
1162041 GGGTTTC
1 GGGTTTC
**
1162048 GGGGGTC
1 GGGTTTC
1162055 GGGTTTTC
1 GGG-TTTC
*
1162063 GGGTATGCC
1 GGGT-T-TC
1162072 GGGTTTC
1 GGGTTTC
1162079 GGGTTTC
1 GGGTTTC
1162086 GGGGTTTC
1 -GGGTTTC
1162094 AGGGTTTTC
1 -GGG-TTTC
1162103 GGCGGTGGTTC
1 -G-GGT--TTC
*
1162114 AGGGGTTC
1 -GGGTTTC
1162122 GGGTTTC
1 GGGTTTC
1162129 GGGTTATC
1 GGGTT-TC
1162137 GGGTTTC
1 GGGTTTC
1162144 GGGTTTTC
1 GGG-TTTC
1162152 GAGGTTTC
1 G-GGTTTC
1162160 GGGTTTC
1 GGGTTTC
1162167 GGGTGTTTCC
1 -GG-GTTT-C
1162177 GGGTTTC
1 GGGTTTC
1162184 GGGTTTATCC
1 GGG-TT-T-C
1162194 GGGATATTC
1 GGG-T-TTC
1162203 -GGTTTC
1 GGGTTTC
1162209 GGGTTTAC
1 GGGTTT-C
1162217 GGGATGTTTC
1 -GG--GTTTC
*
1162227 GGGTTGCC
1 GGGTT-TC
1162235 GGGTTTCC
1 GGGTTT-C
1162243 GGGTTTC
1 GGGTTTC
1162250 GGGTTTC
1 GGGTTTC
1162257 GGGTTTC
1 GGGTTTC
*
1162264 GGGTTGC
1 GGGTTTC
1162271 GGGTTTC
1 GGGTTTC
*
1162278 ACGGTTT-
1 -GGGTTTC
1162285 GGGTTTCC
1 GGGTTT-C
*
1162293 TGGTTTC
1 GGGTTTC
1162300 GGGTTTTC
1 GGG-TTTC
1162308 AGGGTTCTTCC
1 -GGG-T-TT-C
1162319 GGGTTTC
1 GGGTTTC
*
1162326 GGGTTGGCC
1 GGGTT--TC
1162335 GGGTTTC
1 GGGTTTC
1162342 GGGTTTTC
1 GGG-TTTC
1162350 GGGTTTC
1 GGGTTTC
1162357 GGGTTTTC
1 GGG-TTTC
*
1162365 GGGTGTAC
1 GGGT-TTC
1162373 AGGGTTTC
1 -GGGTTTC
1162381 GGGTTGTC
1 GGGTT-TC
1162389 GGGTTTC
1 GGGTTTC
1162396 GGGAATTTC
1 GGG--TTTC
1162405 GGG-TTC
1 GGGTTTC
1162411 GGGTTTC
1 GGGTTTC
1162418 GGGTTTC
1 GGGTTTC
1162425 GGGTTTC
1 GGGTTTC
*
1162432 GGTTTTCC
1 GGGTTT-C
*
1162440 AGGTTTCCC
1 GGGTTT--C
1162449 GAGGTTTC
1 G-GGTTTC
*
1162457 GAGGGTTC
1 G-GGTTTC
1162465 GGGTTTC
1 GGGTTTC
*
1162472 GGG-TGC
1 GGGTTTC
*
1162478 GGGGTTGC
1 -GGGTTTC
1162486 GGGTTTC
1 GGGTTTC
* **
1162493 CGGTTGGG
1 GGGTT-TC
*
1162501 GGGTTTG
1 GGGTTTC
*
1162508 GGGTTTT
1 GGGTTTC
* *
1162515 GGTTTTG
1 GGGTTTC
*
1162522 GGGTTTTTTG
1 GGG---TTTC
*
1162532 GGGTTTG
1 GGGTTTC
*
1162539 GGGTTTG
1 GGGTTTC
*
1162546 GGGTTTG
1 GGGTTTC
*
1162553 GGGTTTG
1 GGGTTTC
**
1162560 GGGATTGG
1 GGG-TTTC
*
1162568 GGCGTTTTG
1 GG-G-TTTC
*
1162577 GGGTTTTTG
1 GGG--TTTC
* *
1162586 GGGTGTG
1 GGGTTTC
*
1162593 GGAGCTATTAG
1 GG-G-T-TT-C
*
1162604 GGGTTTG
1 GGGTTTC
*
1162611 GGGTTTG
1 GGGTTTC
* *
1162618 GGGGTTG
1 GGGTTTC
*
1162625 GGGTTTG
1 GGGTTTC
*
1162632 GGGTTTG
1 GGGTTTC
*
1162639 GGGTTTG
1 GGGTTTC
*
1162646 GGGTTTG
1 GGGTTTC
*
1162653 GGGTTTG
1 GGGTTTC
*
1162660 GGGTTTG
1 GGGTTTC
*
1162667 GGGTTTG
1 GGGTTTC
* *
1162674 GGGTGTG
1 GGGTTTC
*
1162681 GGGTGTTGGA
1 GGGT-TT--C
*
1162691 GGGTTTG
1 GGGTTTC
*
1162698 GGGTGTTT
1 GGGT-TTC
*
1162706 GGGTTTA
1 GGGTTTC
1162713 GAGGTCTTC
1 G-GGT-TTC
*
1162722 GGGTTTG
1 GGGTTTC
*
1162729 GGGTTTG
1 GGGTTTC
1162736 GGGTTTC
1 GGGTTTC
1162743 GGG-TTC
1 GGGTTTC
1162749 GGGTTTC
1 GGGTTTC
*
1162756 GGGTGATC
1 GGGT-TTC
1162764 GGGTTTCC
1 GGGTTT-C
1162772 GGGTATTC
1 GGGT-TTC
1162780 GGGTTTC
1 GGGTTTC
1162787 GGGAATGTTTC
1 -GG---GTTTC
1162798 GGGTTTC
1 GGGTTTC
1162805 GGGTTTATC
1 GGG-TT-TC
1162814 GGGTTTC
1 GGGTTTC
1162821 GGGATTTCC
1 GGG-TTT-C
1162830 GGGTTTC
1 GGGTTTC
1162837 GGGTTTC
1 GGGTTTC
1162844 GGGTTTCC
1 GGGTTT-C
*
1162852 TCGGTTTC
1 -GGGTTTC
1162860 GGGTTTCC
1 GGGTTT-C
1162868 GGCGTTTTC
1 GG-G-TTTC
1162877 GGGTTTTTC
1 GGG--TTTC
*
1162886 GGATTTTC
1 GG-GTTTC
*
1162894 GGGATATGTTA
1 GGG---T-TTC
*
1162905 GGGGTTC
1 GGGTTTC
1162912 GGGTTTC
1 GGGTTTC
*
1162919 GCGGTTGAC
1 G-GGTT-TC
1162928 GGG-TTC
1 GGGTTTC
*
1162934 GGGTTGC
1 GGGTTTC
1162941 GGAGTTTCC
1 GG-GTTT-C
1162950 GGGTTTTC
1 GGG-TTTC
*
1162958 GGAGTTGC
1 GG-GTTTC
1162966 GGAGTCTTC
1 GG-GT-TTC
1162975 GGGTTTCACCC
1 GGGTTT----C
******
1162986 AAAAAAC
1 GGGTTTC
****
1162993 GCCACGGCAAA
1 G----GGTTTC
1163004 GGGTTTTC
1 GGG-TTTC
1163012 -GGTTTC
1 GGGTTTC
1163018 GGGTTTC
1 GGGTTTC
1163025 GGGTTTC
1 GGGTTTC
1163032 GGGTTTTCC
1 GGG-TTT-C
1163041 GGGTTTC
1 GGGTTTC
1163048 GGGGGTTTC
1 --GGGTTTC
1163057 GGGTTTC
1 GGGTTTC
* *
1163064 GGATTGC
1 GGGTTTC
*
1163071 GCGGCGTTC
1 G-GG-TTTC
1163080 GGGTTTTCC
1 GGG-TTT-C
1163089 GGGTTTC
1 GGGTTTC
1163096 AGGGTTTC
1 -GGGTTTC
*
1163104 GGGTTGC
1 GGGTTTC
1163111 GGGGGTTTC
1 --GGGTTTC
1163120 -GGTTTCC
1 GGGTTT-C
1163127 GGGTTTC
1 GGGTTTC
1163134 GGGTTTC
1 GGGTTTC
1163141 GGGGTTTC
1 -GGGTTTC
1163149 GGG-TTC
1 GGGTTTC
1163155 GGGTTTC
1 GGGTTTC
1163162 GGGTTTC
1 GGGTTTC
*
1163169 GGGGTTC
1 GGGTTTC
1163176 GGGTTTTC
1 GGG-TTTC
1163184 GGGTTTC
1 GGGTTTC
*
1163191 TGGTTTC
1 GGGTTTC
1163198 GGGTTTTC
1 GGG-TTTC
1163206 GGGTTTC
1 GGGTTTC
1163213 AGGGTTTTC
1 -GGG-TTTC
1163222 GGGTTATC
1 GGGTT-TC
1163230 GGGTTTTTC
1 GGG--TTTC
*** *
1163239 TTTTTTT
1 GGGTTTC
***
1163246 TTTTTTC
1 GGGTTTC
1163253 GGGTATTTC
1 GGG--TTTC
1163262 GGGTTTCCC
1 GGGTTT--C
1163271 GGGTATTC
1 GGGT-TTC
1163279 GGG-TTC
1 GGGTTTC
1163285 GGGTTTC
1 GGGTTTC
*
1163292 -GATATTC
1 GGGT-TTC
1163299 GGGTTTTC
1 GGG-TTTC
*
1163307 GGG-GTC
1 GGGTTTC
1163313 GGGTTTC
1 GGGTTTC
1163320 GGGTATTC
1 GGGT-TTC
*
1163328 GGGGTCTC
1 -GGGTTTC
1163336 GGGTTTTC
1 GGG-TTTC
1163344 GAGGTTTC
1 G-GGTTTC
*
1163352 GGGTTGCC
1 GGGTT-TC
*
1163360 GGGGTTC
1 GGGTTTC
1163367 GCGGTTTAC
1 G-GGTTT-C
*
1163376 GAGGCTTC
1 G-GGTTTC
1163384 GGGTTCTC
1 GGGTT-TC
*
1163392 GAGGTTGC
1 G-GGTTTC
1163400 GGG-TTC
1 GGGTTTC
1163406 GGGTTTC
1 GGGTTTC
1163413 GGGGTTTC
1 -GGGTTTC
1163421 GGGTTTC
1 GGGTTTC
1163428 GAGGTTGCTC
1 G-GGTT--TC
*
1163438 GGGTTGC
1 GGGTTTC
1163445 GGGTTT-
1 GGGTTTC
*
1163451 GGAGTGTC
1 GG-GTTTC
1163459 GGGTTTC
1 GGGTTTC
*
1163466 GGTATTTC
1 GG-GTTTC
1163474 AGGGCATTTC
1 -GGG--TTTC
1163484 GGGTTTC
1 GGGTTTC
1163491 GGGTTTC
1 GGGTTTC
*
1163498 GGGTTTA
1 GGGTTTC
1163505 GGGTTTC
1 GGGTTTC
*
1163512 -GGTTCC
1 GGGTTTC
1163518 GGGTTTTC
1 GGG-TTTC
*
1163526 GGGGTT-
1 GGGTTTC
*
1163532 GCGGTTGC
1 G-GGTTTC
1163540 GGGTTTC
1 GGGTTTC
1163547 GGGTGTTCC
1 GGGT-TT-C
1163556 GGGATTTCCCC
1 GGG-TTT---C
1163567 GGGTTTC
1 GGGTTTC
*
1163574 CGGTTT-
1 GGGTTTC
1163580 GGGTTTC
1 GGGTTTC
*
1163587 GGGTGTC
1 GGGTTTC
1163594 GGGTTTC
1 GGGTTTC
1163601 GGGGTTTCC
1 -GGGTTT-C
*
1163610 GGGTTGCC
1 GGGTT-TC
1163618 GGGTATTC
1 GGGT-TTC
1163626 GAAGGTTTTTTGC
1 G--GG---TTT-C
1163639 GGGTTTC
1 GGGTTTC
1163646 GGGTCTTCAC
1 GGGT-TT--C
1163656 GGGTTTTC
1 GGG-TTTC
1163664 GGGTTTC
1 GGGTTTC
1163671 GGGTTTC
1 GGGTTTC
*
1163678 GGCGTTGC
1 GG-GTTTC
1163686 GGGTTTC
1 GGGTTTC
1163693 GGGTGTATC
1 GGGT-T-TC
1163702 GGGTTTC
1 GGGTTTC
1163709 GGAG-TTC
1 GG-GTTTC
1163716 GGG-TTC
1 GGGTTTC
*
1163722 TGGTTTC
1 GGGTTTC
*
1163729 GGGTGTAC
1 GGGT-TTC
1163737 GGGTTTC
1 GGGTTTC
1163744 -GGTTTC
1 GGGTTTC
1163750 GGGTATTC
1 GGGT-TTC
1163758 GAGCGTTTAC
1 G-G-GTTT-C
* **
1163768 GTGTCAAC
1 GGGT-TTC
*
1163776 GAGGTTGC
1 G-GGTTTC
1163784 GGG-TTC
1 GGGTTTC
1163790 GGGTGTTC
1 GGGT-TTC
1163798 -GGTTTC
1 GGGTTTC
*
1163804 CGGTTTC
1 GGGTTTC
*
1163811 GGGTTGC
1 GGGTTTC
1163818 GGGTTTC
1 GGGTTTC
1163825 GGGGTTTTCC
1 -GGG-TTT-C
1163835 GGGTTT-
1 GGGTTTC
**
1163841 -TTTTTCC
1 GGGTTT-C
*
1163848 GGGGGTTGTT
1 --GGGTT-TC
* *
1163858 GTGTTCACC
1 GGGTT--TC
1163867 GAGGTTTC
1 G-GGTTTC
1163875 GGGTTTTC
1 GGG-TTTC
1163883 GGGTATTTC
1 GGG--TTTC
1163892 GGGTTTCC
1 GGGTTT-C
1163900 GGAG-TTC
1 GG-GTTTC
1163907 GGGTTTC
1 GGGTTTC
1163914 GGGTTTTC
1 GGG-TTTC
1163922 GGGTTTC
1 GGGTTTC
1163929 -GGTTTC
1 GGGTTTC
1163935 GGGTTTC
1 GGGTTTC
* *
1163942 GGATATC
1 GGGTTTC
1163949 -GGTTTC
1 GGGTTTC
1163955 GGGTTTC
1 GGGTTTC
1163962 GGGTCTTC
1 GGGT-TTC
1163970 GGGTTTC
1 GGGTTTC
1163977 GGGTTTC
1 GGGTTTC
1163984 -GGTTTCC
1 GGGTTT-C
1163991 GGGTTTC
1 GGGTTTC
1163998 TGGGGTTTC
1 --GGGTTTC
1164007 GGGTTTTC
1 GGG-TTTC
1164015 GGGTATTC
1 GGGT-TTC
1164023 GGGTTTCC
1 GGGTTT-C
1164031 GGGTTTC
1 GGGTTTC
1164038 GGGTTTTC
1 GGG-TTTC
1164046 GGGTTTC
1 GGGTTTC
1164053 GGGTTTC
1 GGGTTTC
1164060 GGGTTGTTC
1 GGG-T-TTC
1164069 GGGTATTGC
1 GGGT-TT-C
1164078 GGAGTTTC
1 GG-GTTTC
1164086 GGGTTTC
1 GGGTTTC
1164093 GGGTTTC
1 GGGTTTC
1164100 -GGTTTC
1 GGGTTTC
1164106 AGGGTTTTGC
1 -GGG-TTT-C
*
1164116 GGTTTTTC
1 GG-GTTTC
1164124 GGGTTTC
1 GGGTTTC
1164131 GGGTATT-
1 GGGT-TTC
*
1164138 AGG-TTC
1 GGGTTTC
1164144 GGGTTTC
1 GGGTTTC
1164151 GGGTTTTATC
1 GGG--TT-TC
1164161 GGGTTTC
1 GGGTTTC
1164168 GGGTTTCC
1 GGGTTT-C
**
1164176 GGG-TGG
1 GGGTTTC
**
1164182 GGGTTGA
1 GGGTTTC
1164189 GGGTTTCAC
1 GGGTTT--C
*
1164198 GGGTTGC
1 GGGTTTC
1164205 GGGTTTTC
1 GGG-TTTC
**
1164213 GGGTGGC
1 GGGTTTC
1164220 GGG-TTC
1 GGGTTTC
1164226 GGAGTTTCC
1 GG-GTTT-C
1164235 GGGGTAGTTC
1 -GGGT--TTC
1164245 GGGTTTC
1 GGGTTTC
1164252 GGGTTTC
1 GGGTTTC
1164259 GGGTTTC
1 GGGTTTC
*
1164266 GAGTTTC
1 GGGTTTC
1164273 -GGTTTCC
1 GGGTTT-C
1164280 GGGTTTTC
1 GGG-TTTC
1164288 GGGTTTC
1 GGGTTTC
*
1164295 GGGTTTA
1 GGGTTTC
1164302 GGGTTTTC
1 GGG-TTTC
*
1164310 GGGTTTA
1 GGGTTTC
*
1164317 GGGTGT-
1 GGGTTTC
1164323 GGGTTTC
1 GGGTTTC
1164330 GGGGTTTTC
1 -GGG-TTTC
1164339 GGGTTATC
1 GGGTT-TC
*
1164347 GGGTTTTAA
1 GGG-TTT-C
1164356 GGGTTTCTC
1 GGG-TT-TC
1164365 GGAGTTTTC
1 GG-G-TTTC
1164374 GGGATTTC
1 GGG-TTTC
1164382 GGGTTTC
1 GGGTTTC
*
1164389 GGGTTGC
1 GGGTTTC
*
1164396 GGGTTATG
1 GGGTT-TC
1164404 GGGTTTC
1 GGGTTTC
1164411 GGGTTTC
1 GGGTTTC
*
1164418 ---CTTC
1 GGGTTTC
1164422 GGGTTTTC
1 GGG-TTTC
1164430 GGGTTTC
1 GGGTTTC
1164437 GGGATTTC
1 GGG-TTTC
1164445 GGGTTTC
1 GGGTTTC
1164452 GCGGTTTC
1 G-GGTTTC
*
1164460 GGGTGTC
1 GGGTTTC
1164467 GGGTTATC
1 GGGTT-TC
1164475 GGGTATAT-
1 GGGT-T-TC
1164483 GGGTTTC
1 GGGTTTC
1164490 GGGTTTCC
1 GGGTTT-C
*
1164498 GGGTTGC
1 GGGTTTC
***
1164505 GGGTCGG
1 GGGTTTC
1164512 GGGTTTAC
1 GGGTTT-C
1164520 GGGGTTTC
1 -GGGTTTC
1164528 GGGTCTTC
1 GGGT-TTC
1164536 GGGTTTC
1 GGGTTTC
*
1164543 GGGTTTAG
1 GGGTTT-C
1164551 GGGTTTC
1 GGGTTTC
1164558 GAGG-TTC
1 G-GGTTTC
1164565 -GGTTTC
1 GGGTTTC
*
1164571 GGGTTTA
1 GGGTTTC
1164578 GGCGTTTC
1 GG-GTTTC
1164586 GGGTTTC
1 GGGTTTC
1164593 AGGGTTTAC
1 -GGGTTT-C
1164602 GGGTTTC
1 GGGTTTC
1164609 GAAGAGGTTTTC
1 ---G-GG-TTTC
1164621 GGGTTTC
1 GGGTTTC
*
1164628 GGGTTCC
1 GGGTTTC
1164635 GGGTTTC
1 GGGTTTC
1164642 GGGTTTTC
1 GGG-TTTC
1164650 GGGTTTC
1 GGGTTTC
1164657 -GGTTTC
1 GGGTTTC
*
1164663 GGGTTTTA
1 GGG-TTTC
* *
1164671 GCGTTTA
1 GGGTTTC
* *
1164678 GGGGTTA
1 GGGTTTC
*
1164685 GGGTTATTTA
1 GGG---TTTC
1164695 GGGTTTACTC
1 GGG-TT--TC
*
1164705 GGG-TTA
1 GGGTTTC
*
1164711 GGG-TTA
1 GGGTTTC
1164717 GGGTTTC
1 GGGTTTC
*
1164724 GGGGTTC
1 GGGTTTC
*
1164731 GGGTTATA
1 GGGTT-TC
1164739 GGGTTTAGC
1 GGGTTT--C
*
1164748 GGGTTTA
1 GGGTTTC
1164755 GGG-TTC
1 GGGTTTC
*
1164761 GGGTTTA
1 GGGTTTC
1164768 GGGTTTTC
1 GGG-TTTC
*
1164776 GGGTTTAG
1 GGGTTT-C
1164784 GGGTTTC
1 GGGTTTC
1164791 GGGTTTC
1 GGGTTTC
*
1164798 AGGGTTTA
1 -GGGTTTC
1164806 GGGTTTC
1 GGGTTTC
*
1164813 GGGATTTA
1 GGG-TTTC
1164821 GGGTTTC
1 GGGTTTC
1164828 AGGGTTTC
1 -GGGTTTC
*
1164836 GGGTTTA
1 GGGTTTC
*
1164843 GGGTTTTA
1 GGG-TTTC
1164851 GGG-TTC
1 GGGTTTC
1164857 -GGTTTC
1 GGGTTTC
1164863 GGGTTTC
1 GGGTTTC
1164870 GGGTATTC
1 GGGT-TTC
*
1164878 GGGTTTA
1 GGGTTTC
*
1164885 GGTTTTGC
1 GGGTTT-C
*
1164893 GGGTTTAA
1 GGGTTT-C
1164901 GGGTTTC
1 GGGTTTC
1164908 GGGTTTC
1 GGGTTTC
1164915 -GGTTTC
1 GGGTTTC
**
1164921 GGGTTGA
1 GGGTTTC
*
1164928 GGGTGTC
1 GGGTTTC
1164935 GGAGTTAATC
1 GG-GTT--TC
*
1164945 GGGGGTTTT
1 --GGGTTTC
*
1164954 GGGCGTTC
1 GGG-TTTC
*
1164962 GGGTTATTG
1 GGG-T-TTC
*
1164971 GGGTTCCC
1 GGGTT-TC
1164979 GGGGTTTC
1 -GGGTTTC
*
1164987 GGAGGTTGC
1 -G-GGTTTC
*
1164996 AGGGGTTTT
1 --GGGTTTC
*
1165005 GGGGTT-
1 GGGTTTC
1165011 GGG-TTC
1 GGGTTTC
1165017 GGGTTTC
1 GGGTTTC
1165024 GGGGTTTC
1 -GGGTTTC
1165032 GGAGTTTTC
1 GG-G-TTTC
*
1165041 GGGTTTA
1 GGGTTTC
1165048 GGGTTTC
1 GGGTTTC
*
1165055 GGG-TTG
1 GGGTTTC
*
1165061 GGGTTTATT
1 GGG-TT-TC
* *
1165070 GGGGTTG
1 GGGTTTC
*
1165077 GGGTTTTG
1 GGG-TTTC
*
1165085 GGGTTTG
1 GGGTTTC
1165092 GGGTTTC
1 GGGTTTC
1165099 GGG-TTC
1 GGGTTTC
1165105 GGGCTATTC
1 GGG-T-TTC
1165114 GGG-TTC
1 GGGTTTC
1165120 GGGTTTTC
1 GGG-TTTC
1165128 -GG-TTC
1 GGGTTTC
1165133 GGGTATTC
1 GGGT-TTC
1165141 GGGTATTC
1 GGGT-TTC
1165149 -GGTTTC
1 GGGTTTC
1165155 GGGTTTC
1 GGGTTTC
1165162 GGGTGTTTC
1 -GG-GTTTC
*
1165171 GGGAGTATC
1 -GG-GTTTC
1165180 AGGGTTTCC
1 -GGGTTT-C
1165189 GGGTTTC
1 GGGTTTC
*
1165196 TGGGTTTA
1 -GGGTTTC
1165204 GGGTTTC
1 GGGTTTC
1165211 GGGTTTC
1 GGGTTTC
1165218 GGGTTGT-
1 GGGTT-TC
1165225 GGG-TTC
1 GGGTTTC
*
1165231 GGGTTGC
1 GGGTTTC
*
1165238 GGGGATTC
1 -GGGTTTC
*
1165246 GGGGTTC
1 GGGTTTC
1165253 GGGTTTTC
1 GGG-TTTC
1165261 GGGTTTC
1 GGGTTTC
1165268 GGAGTTTC
1 GG-GTTTC
1165276 GGGTTATC
1 GGGTT-TC
1165284 GGGTTTC
1 GGGTTTC
1165291 GGGTTTC
1 GGGTTTC
**
1165298 GGGTTAA
1 GGGTTTC
1165305 GGGTTTC
1 GGGTTTC
1165312 GGGTTTC
1 GGGTTTC
1165319 GGGTTTAC
1 GGGTTT-C
1165327 GGGTTTC
1 GGGTTTC
1165334 GGGTTTC
1 GGGTTTC
1165341 GGGTTTAC
1 GGGTTT-C
1165349 GGGTTTCC
1 GGGTTT-C
*
1165357 GGGTGTC
1 GGGTTTC
1165364 -GGTTTC
1 GGGTTTC
* *
1165370 GTGTTCC
1 GGGTTTC
1165377 GGGTTCTC
1 GGGTT-TC
1165385 GGGTTTC
1 GGGTTTC
1165392 GGGTTTC
1 GGGTTTC
*
1165399 GGTTTTCC
1 GGGTTT-C
1165407 GGGTTTC
1 GGGTTTC
1165414 GGAGTTTC
1 GG-GTTTC
1165422 GGGTTTC
1 GGGTTTC
1165429 GGGGTTTC
1 -GGGTTTC
1165437 GGGTGTTC
1 GGGT-TTC
1165445 GGGTTTC
1 GGGTTTC
1165452 GGGTTTC
1 GGGTTTC
*
1165459 GGGTTCTA
1 GGGTT-TC
1165467 GGGTTTC
1 GGGTTTC
1165474 GGGTTTC
1 GGGTTTC
1165481 GGGTTTC
1 GGGTTTC
1165488 GGGTTTC
1 GGGTTTC
*
1165495 GTGTTTTC
1 G-GGTTTC
1165503 GGG-TTC
1 GGGTTTC
*
1165509 GGGTTGC
1 GGGTTTC
1165516 GGGTTTC
1 GGGTTTC
1165523 GGGTTAATC
1 GGGTT--TC
1165532 GGGTTTC
1 GGGTTTC
1165539 GGGTTTC
1 GGGTTTC
1165546 GGGTTTC
1 GGGTTTC
1165553 GGGTGTTC
1 GGGT-TTC
1165561 GGGTTTTC
1 GGG-TTTC
1165569 GGGTTTC
1 GGGTTTC
1165576 GGGTTTC
1 GGGTTTC
1165583 GGGTTTTC
1 GGG-TTTC
*
1165591 AGGTTTC
1 GGGTTTC
1165598 GAGGTTTC
1 G-GGTTTC
*
1165606 GGGTGT-
1 GGGTTTC
1165612 GGGTTT-
1 GGGTTTC
1165618 GGGTTTC
1 GGGTTTC
*
1165625 -GGTTAC
1 GGGTTTC
1165631 AGGGTATTGTC
1 -GGG--TT-TC
*
1165642 GGGTTTTA
1 GGG-TTTC
1165650 GGGTTTC
1 GGGTTTC
*
1165657 GGATTTC
1 GGGTTTC
1165664 AGGGTTTC
1 -GGGTTTC
*
1165672 CGGTTTCC
1 GGGTTT-C
1165680 AGGG-TTC
1 -GGGTTTC
*
1165687 AGGTTTCC
1 GGGTTT-C
1165695 AGGGTTTC
1 -GGGTTTC
*
1165703 AGGCTTTC
1 -GGGTTTC
1165711 GGGATTTC
1 GGG-TTTC
1165719 GGGTTTC
1 GGGTTTC
1165726 GGGTTTC
1 GGGTTTC
*
1165733 GGG-TTG
1 GGGTTTC
1165739 GGGTTTC
1 GGGTTTC
1165746 GGGTTTC
1 GGGTTTC
1165753 GGGTTTTC
1 GGG-TTTC
*
1165761 GGGTTAC
1 GGGTTTC
*
1165768 GCGGTTCC
1 G-GGTTTC
1165776 GGGGTTTC
1 -GGGTTTC
*
1165784 -GGTATC
1 GGGTTTC
1165790 GAGGTTTCC
1 G-GGTTT-C
1165799 GGGTTTTC
1 GGG-TTTC
1165807 GGGTTTCC
1 GGGTTT-C
*
1165815 TGG-TTC
1 GGGTTTC
1165821 GGGTTTC
1 GGGTTTC
1165828 GGGTTATC
1 GGGTT-TC
1165836 GGGTTTC
1 GGGTTTC
1165843 GGGTTTTC
1 GGG-TTTC
1165851 GGGTTTC
1 GGGTTTC
1165858 GGG-TTC
1 GGGTTTC
1165864 GGGTATTC
1 GGGT-TTC
1165872 GGGTTTC
1 GGGTTTC
* *
1165879 --CTCTC
1 GGGTTTC
*
1165884 AGGTTTC
1 GGGTTTC
1165891 GGGTTTCTC
1 GGG-TT-TC
1165900 GGGTTATC
1 GGGTT-TC
*
1165908 GGATTTC
1 GGGTTTC
1165915 AGGGTTTC
1 -GGGTTTC
*
1165923 GGGAGTTC
1 GGG-TTTC
1165931 GGG-TTC
1 GGGTTTC
1165937 GGGTTTC
1 GGGTTTC
1165944 GGG-TT-
1 GGGTTTC
*
1165949 GCGTTTC
1 GGGTTTC
*
1165956 GGGTTTA
1 GGGTTTC
1165963 GGGTTTC
1 GGGTTTC
1165970 GGGTTTC
1 GGGTTTC
1165977 GGGTTTC
1 GGGTTTC
1165984 --GTTTC
1 GGGTTTC
1165989 GGGTTTC
1 GGGTTTC
1165996 GGGTTTC
1 GGGTTTC
1166003 GGG-TTC
1 GGGTTTC
1166009 -GGTTTC
1 GGGTTTC
1166015 GGGTTTCC
1 GGGTTT-C
1166023 AGGGTTTC
1 -GGGTTTC
1166031 -GGTTTC
1 GGGTTTC
1166037 GGGTTTC
1 GGGTTTC
1166044 GAGGTGTTC
1 G-GGT-TTC
1166053 GGGTTTC
1 GGGTTTC
*
1166060 GGGTTTA
1 GGGTTTC
1166067 GGGTTTC
1 GGGTTTC
1166074 GGGTTTC
1 GGGTTTC
1166081 -GGTTT-
1 GGGTTTC
1166086 GGGTT
1 GGGTT
1166091 GACGGGTTTA
Statistics
Matches: 4853, Mismatches: 464, Indels: 1099
0.76 0.07 0.17
Matches are distributed among these distances:
4 8 0.00
5 40 0.01
6 370 0.08
7 2437 0.50
8 1300 0.27
9 482 0.10
10 147 0.03
11 58 0.01
12 8 0.00
13 3 0.00
ACGTcount: A:0.05, C:0.13, G:0.43, T:0.40
Consensus pattern (7 bp):
GGGTTTC
Found at i:1162970 original size:25 final size:24
Alignment explanation
Indices: 1162931--1162980 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 24
1162921 GGTTGACGGG
1162931 TTCGGGTTGCGGAGT-TTCCGGGTT
1 TTCGGGTTGCGGAGTCTT-CGGGTT
1162955 TTCGGAGTTGCGGAGTCTTCGGGTT
1 TTCGG-GTTGCGGAGTCTTCGGGTT
1162980 T
1 T
1162981 CACCCAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 5 0.21
25 17 0.71
26 2 0.08
ACGTcount: A:0.06, C:0.16, G:0.40, T:0.38
Consensus pattern (24 bp):
TTCGGGTTGCGGAGTCTTCGGGTT
Found at i:1163707 original size:31 final size:28
Alignment explanation
Indices: 1163012--1166099 Score: 887
Period size: 30 Copynumber: 104.7 Consensus size: 28
1163002 AAGGGTTTTC
1163012 GGTTTCGGGTTTCGGGTTTCGG-GTTTTCCG
1 GGTTTCGGGTTTCGGGTTTCGGAG--TT-CG
1163042 GGTTTCGGGGGTTTCGGGTTTCGGA-TTGCG
1 GGTTTC--GGGTTTCGGGTTTCGGAGTT-CG
*
1163072 CGGCGTTCGGGTTTTCCGGGTTTCAGG-GTTTCG
1 -GG-TTTCGGG-TTT-CGGGTTTC-GGAG-TTCG
*
1163105 GGTTGCGGGGGTTTC-GGTTTCCGG-GTTTCG
1 GGTTTC--GGGTTTCGGGTTT-CGGAG-TTCG
1163135 GGTTTCGGGGTTTCGGG-TTCGG-GTTTCG
1 GGTTTC-GGGTTTCGGGTTTCGGAG-TTCG
* *
1163163 GGTTTCGGGGTTCGGGTTTTCGG-GTTTCT
1 GGTTTCGGGTTTCGGG-TTTCGGAG-TTCG
1163192 GGTTTCGGGTTTTCGGGTTTCAGG-GTTTTCG
1 GGTTTCGGG-TTTCGGGTTTC-GGAG--TTCG
*** *****
1163223 GGTTATCGGGTTTTTCTTTTTTTTTTTTTCG
1 GGTT-TCGGG--TTTCGGGTTTCGGAGTTCG
1163254 GGTATTTCGGGTTTCCCGGGTATTCGG-GTTCG
1 GG--TTTCGGGTTT--CGGGT-TTCGGAGTTCG
*
1163286 GGTTTC-GATATTCGGG-TT-----TTCG
1 GGTTTCGGGT-TTCGGGTTTCGGAGTTCG
* *
1163308 GG-GTCGGGTTTCGGGTATTCGGGGTCTCG
1 GGTTTCGGGTTTCGGGT-TTCGGAGT-TCG
* *
1163337 GGTTTTCGAGGTTTCGGGTTGCCGGGGTTCG
1 GG-TTTCG-GGTTTCGGGTT-TCGGAGTTCG
*
1163368 CGGTTTACGAGGCTTCGGGTTCTC-GAGGTTGCG
1 -GGTTT-CG-GGTTTCGGGTT-TCGGA-GTT-CG
1163401 GG-TTCGGGTTTCGGGGTTTCGG-GTTTCG
1 GGTTTCGGGTTTC-GGGTTTCGGAG-TTCG
*
1163429 AGGTTGCTCGGGTTGCGGGTTT-GGAGTGTCG
1 -GGTT--TCGGGTTTCGGGTTTCGGAGT-TCG
*
1163460 GGTTTCGGTATTTCAGGGCATTTCGG-GTTTCG
1 GGTTTCGG-GTTTC-GGG--TTTCGGAG-TTCG
*
1163492 GGTTTCGGGTTTAGGGTTTC-G-GTTCCG
1 GGTTTCGGGTTTCGGGTTTCGGAGTT-CG
* *
1163519 GGTTTTCGGGGTT-GCGGTTGCGG-GTTTCG
1 GG-TTTCGGGTTTCG-GGTTTCGGAG-TTCG
* *
1163548 GGTGTTCCGGGATTTCCCCGGGTTTCCG-GTTTG
1 GGT-TT-CGGG-TTT---CGGGTTTCGGAGTTCG
* *
1163581 GGTTTCGGGTGTCGGGTTTCGGGGTTTCCG
1 GGTTTCGGGTTTCGGGTTTCGGAG-TT-CG
* *
1163611 GGTTGCCGGGTATTCGAAGGTTT----TTTGCG
1 GGTT-TCGGGT-TTCG--GGTTTCGGAGTT-CG
1163640 GGTTTCGGGTCTTCACGGGTTTTCGG-GTTTCG
1 GGTTTCGGGT-TT--CGGG-TTTCGGAG-TTCG
*
1163672 GGTTTCGGCGTTGCGGGTTTCGG-G-T--
1 GGTTTCGG-GTTTCGGGTTTCGGAGTTCG
* *
1163697 -GTATCGGGTTTCGGAG-TTCGG-GTTCT
1 GGTTTCGGGTTTCGG-GTTTCGGAGTTCG
* *
1163723 GGTTTCGGGTGTACGGGTTTCGG-TTTCG
1 GGTTTCGGGT-TTCGGGTTTCGGAGTTCG
* **
1163751 GGTATTCGAGCGTTTACGTGTCAAC-GAGGTTGCG
1 GGT-TTCG-G-GTTT-CGGGT-TTCGGA-GTT-CG
*
1163785 GG-TTCGGGTGTTC-GGTTTCCGG-TTTCG
1 GGTTTCGGGT-TTCGGGTTT-CGGAGTTCG
* *
1163812 GGTTGCGGGTTTCGGGGTTTTCCGG-GTT-T
1 GGTTTCGGGTTTC-GGG-TTT-CGGAGTTCG
** * * * *
1163841 TTTTTCCGGGGGTTGTTGTGTTCACCGAGGTTTCG
1 GGTTT-C--GGGTT-TCGGGTT-TCGGA-G-TTCG
1163876 GGTTTTCGGGTATTTCGGGTTTCCGGAGTTCG
1 GG-TTTCGGG--TTTCGGGTTT-CGGAGTTCG
*
1163908 GGTTTCGGGTTTTCGGGTTTCGG-TTTCG
1 GGTTTCGGG-TTTCGGGTTTCGGAGTTCG
* *
1163936 GGTTTCGGATATC-GGTTTCGG-GTTTCG
1 GGTTTCGGGTTTCGGGTTTCGGAG-TTCG
*
1163963 GGTCTTCGGGTTTCGGGTTTCGG-TTTCCG
1 GGT-TTCGGGTTTCGGGTTTCGGAGTT-CG
1163992 GGTTTCTGGGGTTTCGGGTTTTCGG-GTATTCG
1 GGTTTC--GGGTTTCGGG-TTTCGGAG--TTCG
1164024 GGTTTCCGGGTTTCGGGTTTTCGG-GTTTCG
1 GGTTT-CGGGTTTCGGG-TTTCGGAG-TTCG
1164054 GGTTTCGGGTTGTTCGGGTATTGCGGAGTTTCG
1 GGTTTCGGG-T-TTCGGGT-TT-CGGAG-TTCG
1164087 GGTTTCGGGTTTC-GGTTTCAGG-GTTTTGCG
1 GGTTTCGGGTTTCGGGTTTC-GGAG--TT-CG
* *
1164117 GTTTTTCGGGTTTCGGGTATT-AG-GTTCG
1 G-GTTTCGGGTTTCGGGT-TTCGGAGTTCG
1164145 GGTTTCGGGTTTTATCGGGTTTCGG-GTTTCCG
1 GGTTTCGGG--TT-TCGGGTTTCGGAG-TT-CG
** **
1164177 GG-TGGGGGTTGAGGGTTTCACGG-GTTGCG
1 GGTTTCGGGTTTCGGGTTT--CGGAGTT-CG
**
1164206 GGTTTTCGGGTGGCGGG-TTCGGAGTTTCCGG
1 GG-TTTCGGGTTTCGGGTTTCGGAG-TT-C-G
1164237 GGTAGTTCGGGTTTCGGGTTTCGG-GTTTCG
1 GGT--TTCGGGTTTCGGGTTTCGGAG-TTCG
*
1164267 AGTTTC-GGTTTCCGGGTTTTCGG-GTTTCG
1 GGTTTCGGGTTT-CGGG-TTTCGGAG-TTCG
* *
1164296 GGTTTAGGGTTTTCGGGTTTAGG-GTGT-G
1 GGTTTCGGG-TTTCGGGTTTCGGAGT-TCG
*
1164324 GGTTTCGGGGTTTTCGGGTTATCGG-GTTTTAAG
1 GGTTTC-GGG-TTTCGGGTT-TCGGAG--TT-CG
1164357 GGTTTCTCGGAGTTTTCGGGATTTCGG-GTTTCG
1 GG-TT-TCGG-G-TTTCGGG-TTTCGGAG-TTCG
* *
1164390 GGTTGCGGGTTATGGGGTTTCGG-GTTTC-
1 GGTTTCGGGTT-TCGGGTTTCGGAG-TTCG
* *
1164418 --CTTCGGGTTTTCGGGTTTCGGGATTTCG
1 GGTTTCGGG-TTTCGGGTTTC-GGAGTTCG
*
1164446 GGTTTCGCGGTTTCGGGTGTCGG-GTTATCG
1 GGTTTCG-GGTTTCGGGTTTCGGAG-T-TCG
1164476 GGTATAT-GGGTTTCGGGTTTCCGG-GTTGCG
1 GGT-T-TCGGGTTTCGGGTTT-CGGAGTT-CG
***
1164506 GGTCGGGGGTTTACGGGGTTTCGG-GTCTTCG
1 GGTTTCGGGTTT-C-GGGTTTCGGAG--TTCG
*
1164537 GGTTTCGGGTTTAGGGGTTTC-GAGGTTC-
1 GGTTTCGGGTTT-CGGGTTTCGGA-GTTCG
*
1164565 GGTTTCGGGTTTAGGCGTTTCGG-GTTTCAG
1 GGTTTCGGGTTTCGG-GTTTCGGAG-TTC-G
1164595 GGTTTACGGGTTTCGAAGAGGTTTTCGG-GTTTCG
1 GGTTT-CGGGTTTC---G-GG-TTTCGGAG-TTCG
*
1164629 GGTTCCGGGTTTCGGGTTTTCGG-GTTTC-
1 GGTTTCGGGTTTCGGG-TTTCGGAG-TTCG
* * * * *
1164657 GGTTTCGGGTTTTAGCGTTTAGGGGTTAG
1 GGTTTCGGG-TTTCGGGTTTCGGAGTTCG
* * *
1164686 GG-TT---ATTTAGGGTTTACTCGG-GTTAG
1 GGTTTCGGGTTTCGGG-TT--TCGGAGTTCG
* * *
1164712 GG-TTAGGGTTTCGGGGTTCGG-GTTATAG
1 GGTTTCGGGTTTCGGGTTTCGGAG-T-TCG
* *
1164740 GGTTTAGCGGGTTTAGGG-TTCGG-GTTTAG
1 GGTTT--CGGGTTTCGGGTTTCGGAG-TTCG
*
1164769 GGTTTTCGGGTTTAGGGGTTTCGG-GTTTCAG
1 GG-TTTCGGGTTT-CGGGTTTCGGAG-TTC-G
* *
1164800 GGTTTAGGGTTTCGGGATTTAGG-GTTTCAG
1 GGTTTCGGGTTTCGGG-TTTCGGAG-TTC-G
* *
1164830 GGTTTCGGGTTTAGGGTTTTAGG-GTTC-
1 GGTTTCGGGTTTCGGG-TTTCGGAGTTCG
*
1164857 GGTTTCGGGTTTCGGGTATTCGG-GTTTAG
1 GGTTTCGGGTTTCGGGT-TTCGGAG-TTCG
* *
1164886 GTTTTGCGGGTTTAAGGGTTTCGG-GTTTC-
1 GGTTT-CGGGTTT-CGGGTTTCGGAG-TTCG
** *
1164915 GGTTTCGGGTTGAGGGTGTCGGAGTTAATCGGG
1 GGTTTCGGGTTTCGGGTTTCGGAG-T--TC--G
* * * *
1164948 GGTTTTGGGCGTTCGGGTTATTGGGGTTCCCGG
1 GGTTTCGGG-TTTCGGGTT-TCGGAGTT--C-G
* * *
1164981 GGTTTCGGAGGTTGCAGGGGTTTTGGGGTT-G
1 GGTTTC-G-GGTTTC--GGGTTTCGGAGTTCG
1165012 GG-TTCGGGTTTCGGGGTTTCGGAG-T--
1 GGTTTCGGGTTTC-GGGTTTCGGAGTTCG
* *
1165037 --TTTCGGGTTTAGGGTTTCGG-GTTGG
1 GGTTTCGGGTTTCGGGTTTCGGAGTTCG
* * * * * *
1165062 GGTTTATTGGGGTTGGGGTTTTGGGGTTTGG
1 GG-TT-TCGGGTTTCGGGTTTCGGAG-TTCG
1165093 GGTTTCGGG-TTCGGGCTATTCGG-GTTCG
1 GGTTTCGGGTTTCGGG-T-TTCGGAGTTCG
1165121 GGTTTTC-GG-TTCGGGTATTCGG-GTATTC-
1 GG-TTTCGGGTTTCGGGT-TTCGGAG--TTCG
1165149 GGTTTCGGGTTTCGGGTGTTTCGGGAGTATCAG
1 GGTTTCGGGTTTC-GG-GTTTC-GGAGT-TC-G
*
1165182 GGTTTCCGGGTTTCTGGGTTTAGG-GTTTCG
1 GGTTT-CGGGTTTC-GGGTTTCGGAG-TTCG
* *
1165212 GGTTTCGGGTTGTGGGTTCGGGTTGCGGGGATTCG
1 GGTTTC-GG--GT---TTCGGGTTTCGGAG-TTCG
*
1165247 GGGTTCGGGTTTTCGGGTTTCGGAGTTTCG
1 GGTTTCGGG-TTTCGGGTTTCGGAG-TTCG
*
1165277 GGTTATCGGGTTTCGGGTTTCGG-GTTAAG
1 GGTT-TCGGGTTTCGGGTTTCGGAGTT-CG
1165306 GGTTTCGGGTTTCGGGTTTACGG-GTTTCG
1 GGTTTCGGGTTTCGGGTTT-CGGAG-TTCG
1165335 GGTTTCGGGTTTACGGGTTTCCGG-GTGTC-
1 GGTTTCGGGTTT-CGGGTTT-CGGAGT-TCG
* *
1165364 GGTTTCGTGTTCCGGGTTCTCGG-GTTTCG
1 GGTTTCGGGTTTCGGGTT-TCGGAG-TTCG
*
1165393 GGTTTCGGTTTTCCGGGTTTCGGAGTTTCG
1 GGTTTCGGGTTT-CGGGTTTCGGAG-TTCG
1165423 GGTTTCGGGGTTTCGGGTGTTCGG-GTTTCG
1 GGTTTC-GGGTTTCGGGT-TTCGGAG-TTCG
*
1165453 GGTTTCGGGTTCTAGGGTTTCGG-GTTTCG
1 GGTTTCGGGTT-TCGGGTTTCGGAG-TTCG
*
1165482 GGTTTCGGGTTTCGTGTTTTCGG-GTTCG
1 GGTTTCGGGTTTCG-GGTTTCGGAGTTCG
* *
1165510 GGTTGCGGGTTTCGGG-TT---A-ATCG
1 GGTTTCGGGTTTCGGGTTTCGGAGTTCG
*
1165533 GGTTTCGGGTTTCGGGTTTCGGGTGTTCG
1 GGTTTCGGGTTTCGGGTTTC-GGAGTTCG
*
1165562 GGTTTTCGGGTTTCGGGTTTCGG-GTTTTCA
1 GG-TTTCGGGTTTCGGGTTTCGGAG--TTCG
* *
1165592 GGTTTCGAGGTTTCGGGTGT-GG-GTTTG
1 GGTTTCG-GGTTTCGGGTTTCGGAGTTCG
* *
1165619 GGTTTC-GGTTACAGGGTATTGTCGG-GTTTTAG
1 GGTTTCGGGTTTC-GGG--TT-TCGGAG--TTCG
* *
1165651 GGTTTCGGATTTCAGGGTTTCCGG-TTTCCAG
1 GGTTTCGGGTTTC-GGGTTT-CGGAGTT-C-G
* **
1165682 GG-TTCAGGTTTCCAGGGTTTCAGGCTTTCG
1 GGTTTCGGGTTT-C-GGGTTTC-GGAGTTCG
*
1165712 GGATTTCGGGTTTCGGGTTTCGG-GTTGG
1 GG-TTTCGGGTTTCGGGTTTCGGAGTTCG
1165740 GGTTTCGGGTTTCGGGTTTTCGG-GTTACG
1 GGTTTCGGGTTTCGGG-TTTCGGAGTT-CG
* *
1165769 CGGTTCCGGGGTTTC-GGTATC-GAGGTTTCCG
1 -GGTTTC-GGGTTTCGGGTTTCGGA-G-TT-CG
*
1165800 GGTTTTCGGGTTTCCTGG-TTCGG-GTTTCG
1 GG-TTTCGGGTTT-CGGGTTTCGGAG-TTCG
1165829 GGTTATCGGGTTTCGGGTTTTCGG-GTTTCG
1 GGTT-TCGGGTTTCGGG-TTTCGGAG-TTCG
* *
1165859 GG-TTCGGGTATTCGGGTTTC---CTCTCA
1 GGTTTCGGGT-TTCGGGTTTCGGAGT-TCG
*
1165885 GGTTTCGGGTTTCTCGGGTTATCGGATTTCAG
1 GGTTTCGGG-TT-TCGGGTT-TCGGAGTTC-G
*
1165917 GGTTTCGGGAGTTCGGG-TTCGG-GTTTCG
1 GGTTTCGGG-TTTCGGGTTTCGGAG-TTCG
* *
1165945 GG-TT-GCGTTTCGGGTTTAGG-GTTTCG
1 GGTTTCGGGTTTCGGGTTTCGGAG-TTCG
1165971 GGTTTCGGGTTTC--GTTTCGG-GTTTCG
1 GGTTTCGGGTTTCGGGTTTCGGAG-TTCG
1165997 GGTTTCGGG-TTC-GGTTTCGG-GTTTCCAG
1 GGTTTCGGGTTTCGGGTTTCGGAG-TT-C-G
*
1166025 GGTTTC-GGTTTCGGGTTTCGAGGTGTTCG
1 GGTTTCGGGTTTCGGGTTTC--GGAGTTCG
*
1166054 GGTTTCGGGTTTAGGGTTTCGG-GTTTC-
1 GGTTTCGGGTTTCGGGTTTCGGAG-TTCG
*
1166081 GGTTT-GGGTTGACGGGTTT
1 GGTTTCGGGTT-TCGGGTTT
1166100 ACTCTCTCTC
Statistics
Matches: 2442, Mismatches: 257, Indels: 721
0.71 0.08 0.21
Matches are distributed among these distances:
21 8 0.00
22 9 0.00
23 42 0.02
24 25 0.01
25 17 0.01
26 101 0.04
27 178 0.07
28 334 0.14
29 432 0.18
30 530 0.22
31 286 0.12
32 226 0.09
33 114 0.05
34 71 0.03
35 59 0.02
36 10 0.00
ACGTcount: A:0.05, C:0.14, G:0.41, T:0.40
Consensus pattern (28 bp):
GGTTTCGGGTTTCGGGTTTCGGAGTTCG
Found at i:1166096 original size:20 final size:21
Alignment explanation
Indices: 1163906--1166099 Score: 440
Period size: 22 Copynumber: 100.3 Consensus size: 21
1163896 TTCCGGAGTT
* *
1163906 CGGGTTTCGGGTTTTCGGGTTT
1 CGGGTTTCGGG-TTTAGGGTTA
* *
1163928 C-GGTTTCGGGTTT-CGGATA
1 CGGGTTTCGGGTTTAGGGTTA
* *
1163947 TC-GGTTTCGGGTTTCGGGTCTT
1 -CGGGTTTCGGGTTTAGGGT-TA
* * *
1163969 CGGGTTTCGGGTTTCGGTTTC
1 CGGGTTTCGGGTTTAGGGTTA
* *
1163990 CGGGTTTCTGGGGTTTCGGGTTTT
1 CGGGTTTC--GGGTTTAGGG-TTA
* *
1164014 CGGGTATTCGGGTTTCCGGGTTT
1 CGGGT-TTCGGGTTT-AGGGTTA
* *
1164037 CGGGTTTTCGGGTTTCGGGTTT
1 CGGG-TTTCGGGTTTAGGGTTA
* *
1164059 CGGGTTGTTCGGGTATTGCGGAGTTT
1 CGGG-T-TTCGGGT-TT-AGG-GTTA
* *
1164085 CGGGTTTCGGGTTT-CGGTTT
1 CGGGTTTCGGGTTTAGGGTTA
*
1164105 CAGGGTTTTGCGGTTT----TT-
1 C-GGGTTTCG-GGTTTAGGGTTA
1164123 CGGGTTTCGGGTATTA-GGTT-
1 CGGGTTTCGGGT-TTAGGGTTA
*
1164143 CGGGTTTCGGGTTTTATCGGGTTT
1 CGGGTTTCGGG-TTTA--GGGTTA
**
1164167 CGGGTTTCCGGG-TGGGGGTTGA
1 CGGGTTT-CGGGTTTAGGGTT-A
** *
1164189 -GGGTTTCACGGGTTGCGGGTTTT
1 CGGGTTT--CGGGTTTAGGG-TTA
** * *
1164212 CGGGTGGCGGG-TTCGGAGTTTC
1 CGGGTTTCGGGTTTAGG-G-TTA
* *
1164234 CGGGGTAGTTCGGGTTTCGGGTTT
1 C-GGGT--TTCGGGTTTAGGGTTA
* * * *
1164258 CGGGTTTCGAGTTTCGGTTTC
1 CGGGTTTCGGGTTTAGGGTTA
*
1164279 CGGGTTTTCGGGTTTCGGGTTTA
1 CGGG-TTTCGGGTTTAGGG-TTA
1164302 -GGGTTTTCGGGTTTAGGGTGT-
1 CGGG-TTTCGGGTTTAGGGT-TA
*
1164323 -GGGTTTCGGGGTT----TT-
1 CGGGTTTCGGGTTTAGGGTTA
*
1164338 CGGGTTATCGGGTTTTAAGGGTTTCT
1 CGGGTT-TCGGG-TTT-AGGG-TT-A
* *
1164364 CGGAGTTTTCGGGATTTCGGGTTT
1 CGG-G-TTTCGGG-TTTAGGGTTA
* * *
1164388 CGGGTTGCGGGTTATGGGGTTT
1 CGGGTTTCGGGTT-TAGGGTTA
* * *
1164410 CGGGTTTC---CTTCGGGTTTT
1 CGGGTTTCGGGTTTAGGG-TTA
* *
1164429 CGGGTTTCGGGATTTCGGGTTT
1 CGGGTTTCGGG-TTTAGGGTTA
* *
1164451 CGCGGTTTCGGGTGTCGGGTTA
1 CG-GGTTTCGGGTTTAGGGTTA
* *
1164473 TCGGGTATAT-GGGTTTCGGGTTTC
1 -CGGGT-T-TCGGGTTTAGGG-TTA
* ***
1164497 CGGGTTGCGGGTCGGGGGTTTA
1 CGGGTTTCGGGTTTAGGG-TTA
* *
1164519 CGGGGTTTCGGGTCTTCGGGTTT
1 C-GGGTTTCGGGT-TTAGGGTTA
* *
1164542 CGGGTTTAGGGGTTTCGAGGTT-
1 CGGGTTT-CGGGTTTAG-GGTTA
*
1164564 C-GGTTTCGGGTTTAGGCGTTT
1 CGGGTTTCGGGTTTAGG-GTTA
1164585 CGGGTTTCAGGGTTTACGGGTTTCGA
1 CGGGTTTC-GGGTTTA-GGG-TT--A
* * *
1164611 AGAGGTTTTCGGGTTTCGGGTTC
1 CG-GG-TTTCGGGTTTAGGGTTA
* *
1164634 CGGGTTTCGGGTTTTCGGGTTT
1 CGGGTTTCGGG-TTTAGGGTTA
*
1164656 C-GGTTTCGGGTTTTAGCGTTTA
1 CGGGTTTCGGG-TTTAG-GGTTA
* *
1164678 -GGGGTTAGGGTTATTTAGGGTTTA
1 CGGGTTTCGGG---TTTAGGG-TTA
* *
1164702 CTCGGG-TTAGGG-TTAGGGTTT
1 --CGGGTTTCGGGTTTAGGGTTA
*
1164723 CGGGGTTCGGGTTATAGGGTTTA
1 CGGGTTTCGGGTT-TAGGG-TTA
* *
1164746 GCGGGTTTAGGG-TTCGGGTTTA
1 -CGGGTTTCGGGTTTAGGG-TTA
*
1164768 -GGGTTTTCGGGTTTAGGGGTTT
1 CGGG-TTTCGGGTTTA-GGGTTA
*
1164790 CGGGTTTCAGGGTTTAGGGTTT
1 CGGGTTTC-GGGTTTAGGGTTA
* *
1164812 CGGGATTTAGGGTTTCAGGGTTT
1 CGGG-TTTCGGGTTT-AGGGTTA
*
1164835 CGGGTTTAGGGTTTTAGGGTT-
1 CGGGTTTCGGG-TTTAGGGTTA
* *
1164856 C-GGTTTCGGGTTTCGGGTATT
1 CGGGTTTCGGGTTTAGGGT-TA
* * *
1164877 CGGGTTTAGGTTTTGCGGGTTTA
1 CGGGTTTCGGGTTT-AGGG-TTA
* * *
1164900 AGGGTTTCGGGTTT-CGGTTT
1 CGGGTTTCGGGTTTAGGGTTA
** * *
1164920 CGGGTTGAGGGTGTCGGAGTTAA
1 CGGGTTTCGGGTTTAGG-GTT-A
* * *
1164943 TCGGGGGTTTTGGGCGTTCGGGTTA
1 -C--GGGTTTCGGG-TTTAGGGTTA
* * *
1164968 TTGGGGTTCCCGGGGTTTCGGAGGTTGCA
1 --CGGGTT-TC-GGGTTT-AG-GGTT--A
* * *
1164997 GGGGTTTTGGGGTT-GGGTT-
1 CGGGTTTCGGGTTTAGGGTTA
* *
1165016 CGGGTTTCGGGGTTTCGGAGTTTT
1 CGGGTTTC-GGGTTTAGG-G-TTA
* *
1165040 CGGGTTTAGGGTTTCGGGTT-
1 CGGGTTTCGGGTTTAGGGTTA
* * * * *
1165060 GGGGTTTATTGGGGTTGGGGTTTT
1 CGGG-TT-TCGGGTTTAGGG-TTA
* * *
1165084 GGGGTTTGGGGTTTCGGGTT-
1 CGGGTTTCGGGTTTAGGGTTA
* *
1165104 CGGGCTATTCGGG-TTCGGGTTTT
1 CGGG-T-TTCGGGTTTAGGG-TTA
* *
1165127 C-GG-TTCGGGTATTCGGGTATT
1 CGGGTTTCGGGT-TTAGGGT-TA
*
1165148 C-GGTTTCGGGTTTCGGG-T-
1 CGGGTTTCGGGTTTAGGGTTA
* *
1165166 ---GTTTCGGGAGTATCAGGGTTTC
1 CGGGTTTC-GG-GT-TTAGGG-TTA
*
1165188 CGGGTTTCTGGGTTTAGGGTTT
1 CGGGTTTC-GGGTTTAGGGTTA
1165210 CGGGTTTCGGGTTGT-GGGTT-
1 CGGGTTTCGGGTT-TAGGGTTA
* *
1165230 CGGGTTGC-GG----GGATT-
1 CGGGTTTCGGGTTTAGGGTTA
* * *
1165245 CGGGGTTCGGGTTTTCGGGTTT
1 CGGGTTTCGGG-TTTAGGGTTA
* *
1165267 CGGAGTTTCGGGTTATCGGGTTT
1 CGG-GTTTCGGGTT-TAGGGTTA
* *
1165290 CGGGTTTCGGGTTAAGGGTTT
1 CGGGTTTCGGGTTTAGGGTTA
*
1165311 CGGGTTTCGGGTTTACGGGTTT
1 CGGGTTTCGGGTTTA-GGGTTA
*
1165333 CGGGTTTCGGGTTTACGGGTTTC
1 CGGGTTTCGGGTTTA-GGG-TTA
* * * *
1165356 CGGGTGTC-GGTTTCGTGTTC
1 CGGGTTTCGGGTTTAGGGTTA
* *
1165376 CGGGTTCTCGGGTTTCGGGTTT
1 CGGGTT-TCGGGTTTAGGGTTA
* * *
1165398 CGGTTTTCCGGGTTTCGGAGTTT
1 CGGGTTT-CGGGTTTAGG-GTTA
* *
1165421 CGGGTTTCGGGGTTTCGGGTGTT
1 CGGGTTTC-GGGTTTAGGGT-TA
*
1165444 CGGGTTTCGGGTTTCGGGTT-
1 CGGGTTTCGGGTTTAGGGTTA
* *
1165464 CTAGGGTTTCGGGTTTCGGGTTT
1 C--GGGTTTCGGGTTTAGGGTTA
* *
1165487 CGGGTTTCGTGTTTTCGGGTT-
1 CGGGTTTCG-GGTTTAGGGTTA
* *
1165508 CGGGTTGCGGGTTTCGGGTTAA
1 CGGGTTTCGGGTTTAGGGTT-A
* *
1165530 TCGGGTTTCGGGTTTCGGGTTT
1 -CGGGTTTCGGGTTTAGGGTTA
* *
1165552 CGGGTGTTCGGGTTTTCGGGTTT
1 CGGGT-TTCGGG-TTTAGGGTTA
*
1165575 CGGGTTTCGGGTTTTCA-GGTTT
1 CGGGTTTCGGG-TTT-AGGGTTA
*
1165597 CGAGGTTTCGGGTGT-GGGTT-
1 CG-GGTTTCGGGTTTAGGGTTA
* *
1165617 TGGGTTTC-GGTTACAGGG-TA
1 CGGGTTTCGGGTT-TAGGGTTA
*
1165637 ----TTGTCGGGTTTTAGGGTTT
1 CGGGTT-TCGGG-TTTAGGGTTA
* * * *
1165656 CGGATTTCAGGGTTTCCGGTTTC
1 CGGGTTTC-GGGTTT-AGGGTTA
* *
1165679 CAGGG-TTCAGGTTTCCAGGGTTT
1 C-GGGTTTCGGGTTT--AGGGTTA
* * *
1165702 CAGGCTTTCGGGATTTCGGGTTT
1 C-GGGTTTCGGG-TTTAGGGTTA
* *
1165725 CGGGTTTCGGG-TTGGGGTTT
1 CGGGTTTCGGGTTTAGGGTTA
*
1165745 CGGGTTTCGGGTTTTCGGGTTA
1 CGGGTTTCGGG-TTTAGGGTTA
* *
1165767 CGCGGTTCCGGGGTTT-CGG-TA
1 CG-GGTTTC-GGGTTTAGGGTTA
* *
1165788 TCGAGGTTTCCGGGTTTTCGGGTTTC
1 -CG-GGTTT-CGGG-TTTAGGG-TTA
* *
1165814 CTGG-TTCGGGTTTCGGGTTA
1 CGGGTTTCGGGTTTAGGGTTA
* *
1165834 TCGGGTTTCGGGTTTTCGGGTTT
1 -CGGGTTTCGGG-TTTAGGGTTA
* *
1165857 CGGG-TTCGGGTATTCGGGTTT
1 CGGGTTTCGGGT-TTAGGGTTA
* * * * *
1165878 C--CTCTCAGGTTTCGGGTTTCT
1 CGGGTTTCGGGTTTAGGG-TT-A
* *
1165899 CGGGTTATCGGATTTCAGGGTTT
1 CGGGTT-TCGGGTTT-AGGGTTA
* * *
1165922 CGGGAGTTCGGG-TTCGGGTTT
1 CGGG-TTTCGGGTTTAGGGTTA
*
1165943 CGGGTTGCGTTTCGGGTTTAGGGTTT
1 C--G--G-GTTTCGGGTTTAGGGTTA
* *
1165969 CGGGTTTCGGGTTT--CGTTT
1 CGGGTTTCGGGTTTAGGGTTA
*
1165988 CGGGTTTCGGGTTTCGGGTT-
1 CGGGTTTCGGGTTTAGGGTTA
*
1166008 C-GGTTTCGGGTTTCCAGGGTTT
1 CGGGTTTCGGGTTT--AGGGTTA
1166030 C-GGTTTCGGGTTTCGAGGTGTT-
1 CGGGTTTCGGGTTT--AGG-GTTA
*
1166052 CGGGTTTCGGGTTTAGGGTTT
1 CGGGTTTCGGGTTTAGGGTTA
1166073 CGGGTTTC-GGTTT-GGGTTGA
1 CGGGTTTCGGGTTTAGGGTT-A
1166093 CGGGTTT
1 CGGGTTT
1166100 ACTCTCTCTC
Statistics
Matches: 1741, Mismatches: 202, Indels: 460
0.72 0.08 0.19
Matches are distributed among these distances:
15 11 0.01
16 18 0.01
17 18 0.01
18 18 0.01
19 99 0.06
20 172 0.10
21 274 0.16
22 498 0.29
23 373 0.21
24 114 0.07
25 49 0.03
26 56 0.03
27 34 0.02
28 6 0.00
29 1 0.00
ACGTcount: A:0.05, C:0.13, G:0.42, T:0.40
Consensus pattern (21 bp):
CGGGTTTCGGGTTTAGGGTTA
Done.