Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2504
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: 1293507
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.25
Warning! 302448 characters in sequence are not A, C, G, or T
File 5 of 7
Found at i:631824 original size:30 final size:32
Alignment explanation
Indices: 631770--631833 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 32
631760 TAGAATTGTG
* *
631770 TTTTATATTTTTAGCAAGTAATTTTAAAATTT
1 TTTTATATTTTTAGAAAATAATTTTAAAATTT
**
631802 TTTTATA-TTTTA-AAAATAATTTTGTAATTT
1 TTTTATATTTTTAGAAAATAATTTTAAAATTT
631832 TT
1 TT
631834 AAATAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 16 0.57
31 5 0.18
32 7 0.25
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (32 bp):
TTTTATATTTTTAGAAAATAATTTTAAAATTT
Found at i:631891 original size:21 final size:21
Alignment explanation
Indices: 631809--631891 Score: 50
Period size: 22 Copynumber: 4.0 Consensus size: 21
631799 TTTTTTTATA
* *
631809 TTTT-AAAAATAATTTTGTAAT
1 TTTTAAAAAATAGTTTT-AAAT
* *
631830 TTTTAAATAAT--TTTTATA-
1 TTTTAAAAAATAGTTTTAAAT
* *
631848 TTTAAAAAAATCAGATATT-AAT
1 TTTTAAAAAAT-AG-TTTTAAAT
631870 TTTTAAAAAATAGTTTTAAAT
1 TTTTAAAAAATAGTTTTAAAT
631891 T
1 T
631892 ATTTCAAATT
Statistics
Matches: 46, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
18 9 0.20
19 1 0.02
20 7 0.15
21 11 0.24
22 18 0.39
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (21 bp):
TTTTAAAAAATAGTTTTAAAT
Found at i:633112 original size:2 final size:2
Alignment explanation
Indices: 633105--633145 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
633095 AGATTTAAAG
633105 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
633146 AAGGAAACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:639956 original size:3 final size:3
Alignment explanation
Indices: 639950--639983 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
639940 TGATGATGAT
639950 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
639984 CGTGGAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:640635 original size:16 final size:16
Alignment explanation
Indices: 640606--640663 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
640596 TATAATAAAT
*
640606 TATTAAAATTATATTTA
1 TATT-AAATAATATTTA
640623 TATTAAATAATA--TA
1 TATTAAATAATATTTA
*
640637 TA-TAAATTATATTTA
1 TATTAAATAATATTTA
*
640652 TGTTAAATAATA
1 TATTAAATAATA
640664 ATTAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
13 8 0.24
14 4 0.12
15 3 0.09
16 15 0.44
17 4 0.12
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
TATTAAATAATATTTA
Found at i:640703 original size:24 final size:22
Alignment explanation
Indices: 640668--640734 Score: 55
Period size: 25 Copynumber: 2.8 Consensus size: 22
640658 ATAATAATTA
640668 AAATTAATAAG-ATTATGAAAATAT
1 AAATTAA-AAGAATTA--AAAATAT
640692 AAATATAAAAGAATTAAAAATAT
1 AAAT-TAAAAGAATTAAAAATAT
*
640715 ATAATTTAAAAAGAAATAAA
1 A-AA-TT-AAAAGAATTAAA
640735 TTATTAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
23 8 0.22
24 10 0.27
25 19 0.51
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (22 bp):
AAATTAAAAGAATTAAAAATAT
Found at i:640707 original size:25 final size:24
Alignment explanation
Indices: 640685--640734 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
640675 TAAGATTATG
640685 AAAATATA-AATATAAAAGAATTA
1 AAAATATATAATATAAAAGAATTA
* *
640708 AAAATATATAATTTAAAAAGAAATA
1 AAAATATATAATAT-AAAAGAATTA
640733 AA
1 AA
640735 TTATTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 8 0.35
24 4 0.17
25 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (24 bp):
AAAATATATAATATAAAAGAATTA
Found at i:641005 original size:41 final size:41
Alignment explanation
Indices: 640954--641035 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
640944 TATTGGTAGG
640954 ATGAAATTAATTATTATAATAATGAAGATTAAAATTAATTA
1 ATGAAATTAATTATTATAATAATGAAGATTAAAATTAATTA
640995 ATGAAATTAATTATTATAATAATGAAGATTAAAATTAATTA
1 ATGAAATTAATTATTATAATAATGAAGATTAAAATTAATTA
641036 TAAAATATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (41 bp):
ATGAAATTAATTATTATAATAATGAAGATTAAAATTAATTA
Found at i:641119 original size:22 final size:22
Alignment explanation
Indices: 641070--641128 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
641060 ATAGTATTAT
*
641070 TATAT-TTATTTAATAAATTTTT
1 TATATATTATTT-ATAAATTTTA
641092 TA-ATATTATTTA-AAATTTTAA
1 TATATATTATTTATAAATTTT-A
641113 TATATATTAGTTTATA
1 TATATATTA-TTTATA
641129 TGTATTGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
20 7 0.23
21 5 0.16
22 14 0.45
23 4 0.13
24 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TATATATTATTTATAAATTTTA
Found at i:644343 original size:13 final size:13
Alignment explanation
Indices: 644295--644349 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
644285 TTTTCGCAAT
644295 TTGTATCGATACA
1 TTGTATCGATACA
* *
644308 TTGTTCATTG-TATA
1 TTG-T-ATCGATACA
*
644322 TTTTATCGATACA
1 TTGTATCGATACA
644335 TTGTATCGATACA
1 TTGTATCGATACA
644348 TT
1 TT
644350 CTGGGTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.64
14 6 0.18
15 3 0.09
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:644392 original size:20 final size:19
Alignment explanation
Indices: 644367--644439 Score: 101
Period size: 20 Copynumber: 3.7 Consensus size: 19
644357 TATCCAGATA
644367 TATCGATACATTTTGCATTG
1 TATCGATACATTTT-CATTG
*
644387 TATCGATACATTGCTCATTG
1 TATCGATACATT-TTCATTG
*
644407 TATCGATACATTTTACAATG
1 TATCGATACATTTT-CATTG
644427 TATCGATACATTT
1 TATCGATACATTT
644440 AGGCATTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.42
Consensus pattern (19 bp):
TATCGATACATTTTCATTG
Found at i:646892 original size:80 final size:79
Alignment explanation
Indices: 646723--646901 Score: 216
Period size: 80 Copynumber: 2.3 Consensus size: 79
646713 ATTTTTCATC
* * *
646723 TCGGGGATACTCCAACCCCGGTTCCATTTCTAAAATGTCAATTTTTCTTAATCAGGGATACTCCA
1 TCGGGGATACTCCAACCCCGGTTCCATATCTAAAATATCAATTTTTCATAATCAGGGATACTCCA
*
646788 ACCCCGTTATTTCC
66 ACCCCGTTATTTCA
** * * * *
646802 GAGGGGATACTCCAACCCCGGCTT-TATATCTAAAAATATTATTTTTTCATAATCAGGGGTACTC
1 TCGGGGATACTCCAACCCCGG-TTCCATATCT-AAAATATCAATTTTTCATAATCAGGGATACTC
*
646866 TAACCCCGTTATTTCA
64 CAACCCCGTTATTTCA
* *
646882 TCGGGTATACTCCAATCCCG
1 TCGGGGATACTCCAACCCCG
646902 TTATTTCTGA
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 24 0.29
80 59 0.71
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (79 bp):
TCGGGGATACTCCAACCCCGGTTCCATATCTAAAATATCAATTTTTCATAATCAGGGATACTCCA
ACCCCGTTATTTCA
Found at i:646919 original size:28 final size:28
Alignment explanation
Indices: 646856--646929 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
646846 TTTCATAATC
*
646856 AGGGG-TACTCTAACCCCGTTATTTCAT
1 AGGGGATACTCCAACCCCGTTATTTCAT
* * *
646883 CGGGTATACTCCAATCCCGTTATTTC-T
1 AGGGGATACTCCAACCCCGTTATTTCAT
646910 GAGGGGATACTCCAACCCCG
1 -AGGGGATACTCCAACCCCG
646930 ATTTTATTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 4 0.11
28 34 0.89
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (28 bp):
AGGGGATACTCCAACCCCGTTATTTCAT
Found at i:646974 original size:51 final size:51
Alignment explanation
Indices: 646912--647031 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 51
646902 TTATTTCTGA
* *
646912 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAA-TTTTCTATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTC-ACAATC
* * *
646963 GGGGATACTCCAACTCCAATTTTATTTCCAAAATACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTCACAATC
647014 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
647032 TTATTTCATC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 56 0.92
52 5 0.08
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTCACAATC
Found at i:647047 original size:28 final size:28
Alignment explanation
Indices: 647011--647084 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
647001 ATTTTTCACA
647011 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
**
647039 ATCGGGGATACTCCAACCGTGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
***
647067 CGAGGGGATACTCCAACC
1 ATCGGGGATACTCCAACC
647085 TCGGCTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:647050 original size:158 final size:157
Alignment explanation
Indices: 646805--647222 Score: 446
Period size: 158 Copynumber: 2.6 Consensus size: 157
646795 TATTTCCGAG
** * * * * * *
646805 GGGATACTCCAACCCCGGCTTTATATCTAAAAATATTATTTTTTCATAATCAGGGG-TACTCTAA
1 GGGATACTCCAACCCCAACCTTATTTC-CAAAATATTAATTTTTCACAATC-GGGGATACTCAAA
* * *
646869 CCCCGTTATTTCATCGGGTATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTT
64 CCCCGTTATTTCATCGGGGATACTCCAA-CCCGTTATTTCCGAGGGGATACTCCAACCCCGACTT
* * *
646934 TATTTCTAAAATACCAATTT-TCTATAATCG
128 TATTTCCAAAATACCAATTTCTC-ACAATCA
* ** * *
646964 GGGATACTCCAACTCCAATTTTATTTCCAAAATACTAATTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCAACCTTATTTCCAAAATATTAATTTTTCACAATCGGGGATACTCAAACC
* * *
647029 CCGTTATTTCATCGGGGATACTCCAACCGTGTTATTTCCGAGGGGATACTCCAACCTCGGCTTTA
66 CCGTTATTTCATCGGGGATACTCCAACC-CGTTATTTCCGAGGGGATACTCCAACCCCGACTTTA
***
647094 TTTCCAAAATATTGATTTCTCACAATCA
130 TTTCCAAAATACCAATTTCTCACAATCA
* * ** * * *
647122 TGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCAAACC
1 GGGATACTCCAACCCCAACCTTATTTCCAAAATATTAATTTTTCACAATCGGGGATACTCAAACC
* *
647187 CCGTTATTT-TTGAGGGGATACTCCAACCCCGTTATT
66 CCGTTATTTCAT-CGGGGATACTCCAA-CCCGTTATT
647223 ATCTCCAAAA
Statistics
Matches: 217, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
157 7 0.03
158 184 0.85
159 26 0.12
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (157 bp):
GGGATACTCCAACCCCAACCTTATTTCCAAAATATTAATTTTTCACAATCGGGGATACTCAAACC
CCGTTATTTCATCGGGGATACTCCAACCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTAT
TTCCAAAATACCAATTTCTCACAATCA
Found at i:647146 original size:51 final size:51
Alignment explanation
Indices: 647071--647189 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 51
647061 TATTTCCGAG
* * *
647071 GGGATACTCCAACCTCGGCTTTATTTCCAAAATATTGATTTCTCACAATCA
1 GGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
* * *
647122 TGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAATCG
1 GGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
647173 GGGATAC-TCAAACCCCG
1 GGGATACTTC-AACCCCG
647190 TTATTTTTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 2 0.03
51 58 0.97
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (51 bp):
GGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
Found at i:649376 original size:20 final size:19
Alignment explanation
Indices: 649328--649382 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
649318 GTATCGATAG
649328 ATTATATCGATACATGTTC
1 ATTATATCGATACATGTTC
* *
649347 ATTGTATCGATATATGCGTT-
1 ATTATATCGATACAT--GTTC
649367 ATTATATCGATACATG
1 ATTATATCGATACATG
649383 AAACTAACAG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.03
19 13 0.43
20 13 0.43
21 3 0.10
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (19 bp):
ATTATATCGATACATGTTC
Found at i:649450 original size:13 final size:13
Alignment explanation
Indices: 649432--649456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
649422 CATGTCACAT
649432 TGTATCGATACAA
1 TGTATCGATACAA
649445 TGTATCGATACA
1 TGTATCGATACA
649457 TGAATAATTG
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:653973 original size:166 final size:166
Alignment explanation
Indices: 653669--654387 Score: 730
Period size: 166 Copynumber: 4.3 Consensus size: 166
653659 ATTCATGAAA
* * * * *
653669 TAGAAAACTCGGTTTTTCAAGAAAAGAGAGATTTCAAAGCAAAAAATTC-AAAACTCATGAAAAT
1 TAGAAAACTCCGTATTTCAA-AATAGA-AAATTTC-AAGGAAAAAATTCAAAAACTCATGAAAAT
* * **
653733 GAATG-AATTTTG-AAACTTGATTT-ATATGAAATAAATAATAATATTTTATGGATT-CTAAAAA
63 GAATGAAATTTTGAAAAC-TGATTTAATATGAAATAAATAATAATATTTGATGAATTAAAAAAAA
* *
653794 TTAAAAACCAAGAAAAATCCCCCCGAAAAAATTTATGGAG
127 TTAAAAACCAAGAAAAATCCCCCTGAAAAAATTTACGGAG
* ** * *
653834 TAGAAAACTCCTTA-TT-ATAAATCATGTGAATTTCAAGGAAAAAAATCAAAAACTCATTAAAAT
1 TAGAAAACTCCGTATTTCA-AAAT-A-GAAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAAT
* * * * * *
653897 GAATGAAATTTTGAAAACTGACTTAACATAAAATAAATAATAATATCTGATGGATT-TAAAAAAT
63 GAATGAAATTTTGAAAACTGATTTAATATGAAATAAATAATAATATTTGATGAATTAAAAAAAAT
* * * **
653961 TAAAAACCAAGAAAAATCTCTCTAAAAAAATTTACAAAG
128 TAAAAACCAAGAAAAATCCCCCTGAAAAAATTTACGGAG
* *
654000 TAAAAAACTCCGTATTTCAAAAATAGAAAATTTTAAGGAAAAAATTCAAAAACTCATGAAAATGA
1 TAGAAAACTCCGTATTTC-AAAATAGAAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATG-
* * * * *
654065 AAGGAATTTTTGAAAATTGATTTAATATGAAATAAATAATAATATTTTATAAATT-AAAAAAATT
64 AATGAAATTTTGAAAACTGATTTAATATGAAATAAATAATAATATTTGATGAATTAAAAAAAATT
*
654129 AAAAACCAAGAAAAAT-CCCTTG-AAAAATTTACGGAG
129 AAAAACCAAGAAAAATCCCCCTGAAAAAATTTACGGAG
* * *
654165 TAGAAAACTTCGTATTTCGAAAATAAAAAATTTCAAGGAAAAAATTCAAAAACTAATGAAAATGG
1 TAGAAAACTCCGTATTTC-AAAATAGAAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAAT-G
* *
654230 AA-GAATTTTTGAAAATTGATTTAATATGAAATAAATAATAATATTTGATGAATTAAAAAAAATT
64 AATGAAATTTTGAAAACTGATTTAATATGAAATAAATAATAATATTTGATGAATTAAAAAAAATT
* * * * *
654294 TAAACCCATG-AAAATCCTCCTGAAAAAATTTATGG-G
129 AAAAACCAAGAAAAATCCCCCTGAAAAAATTTACGGAG
* * * * * * *
654330 GAAAAAAATCCCGTATTTTTAAAATATGAGAAATTTCAA-AAAAAAAGTCAATAACTCA
1 TAGAAAACT-CCGTA-TTTCAAAATA-GA-AAATTTCAAGGAAAAAATTCAAAAACTCA
654388 AAAAATAAAA
Statistics
Matches: 463, Mismatches: 72, Indels: 36
0.81 0.13 0.06
Matches are distributed among these distances:
163 14 0.03
164 83 0.18
165 122 0.26
166 139 0.30
167 91 0.20
168 13 0.03
169 1 0.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (166 bp):
TAGAAAACTCCGTATTTCAAAATAGAAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAA
TGAAATTTTGAAAACTGATTTAATATGAAATAAATAATAATATTTGATGAATTAAAAAAAATTAA
AAACCAAGAAAAATCCCCCTGAAAAAATTTACGGAG
Found at i:654167 original size:331 final size:328
Alignment explanation
Indices: 653709--654325 Score: 825
Period size: 331 Copynumber: 1.9 Consensus size: 328
653699 ATTTCAAAGC
* *
653709 AAAAAATTCAAAACTCATGAAAATGAATGAATTTTGAAACTTGATTTATATGAAATAAATAATAA
1 AAAAAATTCAAAACTCATGAAAATGAAGGAATTTTGAAAATTGATTTATATGAAATAAATAATAA
** ** *
653774 TATTTTATGGATTCTAAAAATTAAAAACCAAGAAAAATCCCCCCGAAAAAATTTATGGAGTAGAA
66 TATTTTATAAATTAAAAAAATTAAAAACCAAGAAAAATCCCCCCGAAAAAATTTACGGAGTAGAA
* *** * *
653839 AACTCCTTA-TT-ATAAATCATGTGAATTTCAAGGAAAAAAATCAAAAACTCATTAAAAT-GAAT
131 AACTCCGTATTTCA-AAAT-A-AAAAATTTCAAGGAAAAAAATCAAAAACTAATGAAAATGGAA-
* *
653901 GAAATTTTGAAAACTGACTTAACATAAAATAAATAATAATATCTGATGGATT-TAAAAAATTAAA
192 GAAATTTTGAAAACTGACTTAACATAAAATAAATAATAATATCTGATGAATTAAAAAAAATTAAA
653965 AACCAAGAAAAAT-CTCTCTAAAAAAATTTACAAAGTAAAAAACTCCGTATTTCAAAAATAGAAA
257 AACCAAG-AAAATCCTC-CTAAAAAAATTTACAAAGTAAAAAACTCCGTATTTCAAAAATAGAAA
654029 ATTTTAAGG
320 ATTTTAAGG
654038 AAAAAATTCAAAAACTCATGAAAATGAAAGGAATTTTTGAAAATTGATTTAATATGAAATAAATA
1 AAAAAATTC-AAAACTCATGAAAATG-AAGGAA-TTTTGAAAATTGATTT-ATATGAAATAAATA
**
654103 ATAATATTTTATAAATTAAAAAAATTAAAAACCAAGAAAAAT-CCCTTG-AAAAATTTACGGAGT
62 ATAATATTTTATAAATTAAAAAAATTAAAAACCAAGAAAAATCCCCCCGAAAAAATTTACGGAGT
* *
654166 AGAAAACTTCGTATTTCGAAAATAAAAAATTTCAAGGAAAAAATTCAAAAACTAATGAAAATGGA
127 AGAAAACTCCGTATTTC-AAAATAAAAAATTTCAAGGAAAAAAATCAAAAACTAATGAAAATGGA
* * * * * * *
654231 AGAATTTTTGAAAATTGATTTAATATGAAATAAATAATAATATTTGATGAATTAAAAAAAATTTA
191 AGAAATTTTGAAAACTGACTTAACATAAAATAAATAATAATATCTGATGAATTAAAAAAAATTAA
* * *
654296 AACCCATGAAAATCCTCCTGAAAAAATTTA
256 AAACCAAGAAAATCCTCCTAAAAAAATTTA
654326 TGGGGAAAAA
Statistics
Matches: 249, Mismatches: 29, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
329 9 0.04
330 16 0.06
331 124 0.50
332 43 0.17
333 56 0.22
334 1 0.00
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.29
Consensus pattern (328 bp):
AAAAAATTCAAAACTCATGAAAATGAAGGAATTTTGAAAATTGATTTATATGAAATAAATAATAA
TATTTTATAAATTAAAAAAATTAAAAACCAAGAAAAATCCCCCCGAAAAAATTTACGGAGTAGAA
AACTCCGTATTTCAAAATAAAAAATTTCAAGGAAAAAAATCAAAAACTAATGAAAATGGAAGAAA
TTTTGAAAACTGACTTAACATAAAATAAATAATAATATCTGATGAATTAAAAAAAATTAAAAACC
AAGAAAATCCTCCTAAAAAAATTTACAAAGTAAAAAACTCCGTATTTCAAAAATAGAAAATTTTA
AGG
Found at i:654346 original size:331 final size:331
Alignment explanation
Indices: 653672--654387 Score: 821
Period size: 331 Copynumber: 2.2 Consensus size: 331
653662 CATGAAATAG
* * *
653672 AAAACTCGGTTTTTCAAGAAA-A-GAGAGATTTCAAAGCAAAAAATTC-AAAACTCATGAAAATG
1 AAAACTCCGTATTTCAA-AAATATGAGAAATTTCAAA--AAAAAATTCAAAAACTCATGAAAATG
* * ** **
653734 AATGAATTTTGAAACTTGATTTATATGAAATAAATAATAATATTTTATGGATTCTAAAAATTAAA
63 AAGGAATTTTGAAAATTGATTTATATGAAATAAATAATAATATTTTATAAATTAAAAAAATTAAA
* * ***
653799 AACCAAGAAAAATCCCCCCGAAAAAATTTATGGAGTAGAAAACTCCTTATTATAAATCATGTGAA
128 AACCAAGAAAAATCCCCCCGAAAAAATTTACGGAGTAGAAAACTCCGTATTATAAATCATAAAAA
* *
653864 TTTCAAGGAAAAAAATCAAAAACTCATTAAAATGAATGAAATTTTGAAAACTGACTTAACATAAA
193 TTTCAAGGAAAAAAATCAAAAACTAATGAAAATGAATGAAATTTTGAAAACTGACTTAACATAAA
* *
653929 ATAAATAATAATATCTGATGGATTTAAAAAATTAAAAACCAAGAAAAATCTCTCTAAAAAAATTT
258 ATAAATAATAATATCTGATGAATTAAAAAAATTAAAAACCAAGAAAAATCTCTCTAAAAAAATTT
*
653994 ACAAAGTAA
323 ACAAAGAAA
* *
654003 AAAACTCCGTATTTCAAAAATA-GA-AAATTTTAAGGAAAAAATTCAAAAACTCATGAAAATGAA
1 AAAACTCCGTATTTCAAAAATATGAGAAATTTCAA-AAAAAAATTCAAAAACTCATGAAAATG-A
654066 AGGAATTTTTGAAAATTGATTTAATATGAAATAAATAATAATATTTTATAAATTAAAAAAATTAA
64 AGGAA-TTTTGAAAATTGATTT-ATATGAAATAAATAATAATATTTTATAAATTAAAAAAATTAA
** *
654131 AAACCAAGAAAAAT-CCCTTG-AAAAATTTACGGAGTAGAAAACTTCGTATT-TCGAAA--ATAA
127 AAACCAAGAAAAATCCCCCCGAAAAAATTTACGGAGTAGAAAACTCCGTATTAT--AAATCAT-A
* * * * *
654191 AAAATTTCAAGGAAAAAATTCAAAAACTAATGAAAATGGAA-GAATTTTTGAAAATTGATTTAAT
189 AAAATTTCAAGGAAAAAAATCAAAAACTAATGAAAAT-GAATGAAATTTTGAAAACTGACTTAAC
* * * * * *
654255 ATGAAATAAATAATAATATTTGATGAATTAAAAAAAATTTAAACCCATG-AAAATC-CTCCTGAA
253 ATAAAATAAATAATAATATCTGATGAATT-AAAAAAATTAAAAACCAAGAAAAATCTCT-CTAAA
****
654318 AAAATTTATGGGGAAA
316 AAAATTTACAAAGAAA
** * *
654334 AAAA-TCCCGTATTTTTAAAATATGAGAAATTTCAAAAAAAAAGTCAATAACTCA
1 AAAACT-CCGTATTTCAAAAATATGAGAAATTTCAAAAAAAAATTCAAAAACTCA
654388 AAAAATAAAA
Statistics
Matches: 325, Mismatches: 45, Indels: 29
0.81 0.11 0.07
Matches are distributed among these distances:
329 9 0.03
330 32 0.10
331 166 0.51
332 58 0.18
333 60 0.18
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (331 bp):
AAAACTCCGTATTTCAAAAATATGAGAAATTTCAAAAAAAAATTCAAAAACTCATGAAAATGAAG
GAATTTTGAAAATTGATTTATATGAAATAAATAATAATATTTTATAAATTAAAAAAATTAAAAAC
CAAGAAAAATCCCCCCGAAAAAATTTACGGAGTAGAAAACTCCGTATTATAAATCATAAAAATTT
CAAGGAAAAAAATCAAAAACTAATGAAAATGAATGAAATTTTGAAAACTGACTTAACATAAAATA
AATAATAATATCTGATGAATTAAAAAAATTAAAAACCAAGAAAAATCTCTCTAAAAAAATTTACA
AAGAAA
Found at i:660377 original size:28 final size:28
Alignment explanation
Indices: 660345--660401 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
660335 TTATGAAGAA
660345 GTAAGGATATATTTCTGGTCTATGGAGG
1 GTAAGGATATATTTCTGGTCTATGGAGG
*
660373 GTAAGGATATATTTTTGGTCTATGGAGG
1 GTAAGGATATATTTCTGGTCTATGGAGG
660401 G
1 G
660402 GTTGAACTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.05, G:0.33, T:0.37
Consensus pattern (28 bp):
GTAAGGATATATTTCTGGTCTATGGAGG
Found at i:663106 original size:89 final size:90
Alignment explanation
Indices: 662952--663123 Score: 215
Period size: 89 Copynumber: 1.9 Consensus size: 90
662942 AGTTTCCCCA
* * * *
662952 AAAATTATACGAAAAAAGTACGAGTTTTTTTTTGAAGATTGGGATTAGAACGTTCTTTTAGAATA
1 AAAATTATACAAAAAAAGTACGAGATTTTTTTTGAAGATTGGGATTAGAACGTTCTTTCAAAATA
*
663017 GTAAGGATGGAGTTTCCCTAAAGAT
66 GTAAGGATGAAGTTTCCCTAAAGAT
** *
663042 AAAATTATACAAAAAAAGTTTGA-ATTTTTTTTGAAGATTGGGGTTA-AA-GTATCTCTTCAAAA
1 AAAATTATACAAAAAAAGTACGAGATTTTTTTTGAAGATTGGGATTAGAACGT-TCT-TTCAAAA
**
663104 TAGTGGGGATGAAGTTTCCC
64 TAGTAAGGATGAAGTTTCCC
663124 CAAAATTAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
87 2 0.03
88 5 0.07
89 43 0.61
90 20 0.29
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (90 bp):
AAAATTATACAAAAAAAGTACGAGATTTTTTTTGAAGATTGGGATTAGAACGTTCTTTCAAAATA
GTAAGGATGAAGTTTCCCTAAAGAT
Found at i:669249 original size:119 final size:119
Alignment explanation
Indices: 669037--669277 Score: 428
Period size: 119 Copynumber: 2.0 Consensus size: 119
669027 CCAAAAACAA
669037 GATAATCAAGGGTAAAACCTTAGGTTAAAATAGTGACTAGGGCAAGACCTAAGTAAAAGAACCTA
1 GATAATCAAGGGTAAAACCTTAGGTTAAAATAGTGACTAGGGCAAGACCTAAGTAAAAGAACCTA
* *
669102 AGAGGTTGATTAGGACAAAACCAAACTAGTCAACAAATAAAGAGGGTTGACCAG
66 AGAGGTTGACTAAGACAAAACCAAACTAGTCAACAAATAAAGAGGGTTGACCAG
*
669156 GATAATCAAGGGTAAAACCTTAGGTTAAAATGGTGACTAGGGCAAGACCTAAGTAAAAGAACCTA
1 GATAATCAAGGGTAAAACCTTAGGTTAAAATAGTGACTAGGGCAAGACCTAAGTAAAAGAACCTA
* * *
669221 AGAGGTTGACTAAGACGAAACCACACTAGTCAACAAATACAGAGGGTTGACCAG
66 AGAGGTTGACTAAGACAAAACCAAACTAGTCAACAAATAAAGAGGGTTGACCAG
669275 GAT
1 GAT
669278 GAAACCATAC
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 116 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (119 bp):
GATAATCAAGGGTAAAACCTTAGGTTAAAATAGTGACTAGGGCAAGACCTAAGTAAAAGAACCTA
AGAGGTTGACTAAGACAAAACCAAACTAGTCAACAAATAAAGAGGGTTGACCAG
Found at i:669367 original size:41 final size:41
Alignment explanation
Indices: 669305--669493 Score: 145
Period size: 41 Copynumber: 4.6 Consensus size: 41
669295 CATGTTTAAG
*
669305 AGGTTGACTTAGGATGGAACCATATAAGTCAATGAATGAGAA
1 AGGTTGAC-TAGGATGAAACCATATAAGTCAATGAATGAGAA
* * **
669347 AGGTTTACTAGGATGAAACCATATAAGTCAA-CAA-GTTTAA
1 AGGTTGACTAGGATGAAACCATATAAGTCAATGAATG-AGAA
* * *
669387 AGACTTGACTAGGATAAAACCATATAAGTTAATGAATGAG-A
1 AG-GTTGACTAGGATGAAACCATATAAGTCAATGAATGAGAA
* * * ** * *
669428 TGGATT-ACTCGAGATAAAACCATGCAAGTCAATGAGTTTA-AA
1 AGG-TTGACTAG-GATGAAACCATATAAGTCAATGA-ATGAGAA
*
669470 AGGTTGATTAGGATGAAACCATAT
1 AGGTTGACTAGGATGAAACCATAT
669494 GAACCTACTA
Statistics
Matches: 112, Mismatches: 26, Indels: 19
0.71 0.17 0.12
Matches are distributed among these distances:
39 1 0.01
40 10 0.09
41 83 0.74
42 17 0.15
43 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (41 bp):
AGGTTGACTAGGATGAAACCATATAAGTCAATGAATGAGAA
Found at i:669424 original size:82 final size:82
Alignment explanation
Indices: 669273--669493 Score: 250
Period size: 82 Copynumber: 2.7 Consensus size: 82
669263 AGGGTTGACC
** * *
669273 AGGATGAAACCATACAAGTTGACATGTTT-AAGAGGTTGACTTAGGATGGAACCATATAAGTCAA
1 AGGATGAAACCATACAAGTCAACAAGTTTAAAGAGGTTGAC-TAGGATGAAACCATATAAGTCAA
*
669337 TGAATGAGAAAGGTTTACT
65 TGAATGAG-AAGGATTACT
* * * *
669356 AGGATGAAACCATATAAGTCAACAAGTTTAAAGA-CTTGACTAGGATAAAACCATATAAGTTAAT
1 AGGATGAAACCATACAAGTCAACAAGTTTAAAGAGGTTGACTAGGATGAAACCATATAAGTCAAT
*
669420 GAATGAGATGGATTACT
66 GAATGAGAAGGATTACT
* * * ** *
669437 CGAGATAAAACCATGCAAGTCAATGAGTTTAAA-AGGTTGATTAGGATGAAACCATAT
1 AG-GATGAAACCATACAAGTCAACAAGTTTAAAGAGGTTGACTAGGATGAAACCATAT
669494 GAACCTACTA
Statistics
Matches: 116, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
81 10 0.09
82 72 0.62
83 30 0.26
84 4 0.03
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (82 bp):
AGGATGAAACCATACAAGTCAACAAGTTTAAAGAGGTTGACTAGGATGAAACCATATAAGTCAAT
GAATGAGAAGGATTACT
Found at i:669535 original size:64 final size:63
Alignment explanation
Indices: 669460--669617 Score: 174
Period size: 64 Copynumber: 2.5 Consensus size: 63
669450 TGCAAGTCAA
* ** *
669460 TGAGTTTAAAAGGTTGA-TTAGGATGAAACCATATGAACCTACTAAAGGTGACTAGGGCAAAACC
1 TGAGTTAAAAAGGTTGACCAAGG-TGAAACC-TACGAACCTACTAAAGGTGACTAGGGCAAAACC
* * * *
669524 TGAGTTAAAAAGGGTTGACCAAGGTGGAACCTGCGAACCTACTAAAGGTGACTAGGGTAGAACC
1 TGAGTTAAAAA-GGTTGACCAAGGTGAAACCTACGAACCTACTAAAGGTGACTAGGGCAAAACC
* * *
669588 TAAGTTGAAAAGGGTTGACCAGGGTGAAAC
1 TGAGTT-AAAAAGGTTGACCAAGGTGAAAC
669618 ATAAGTTAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
64 60 0.76
65 16 0.20
66 3 0.04
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.21
Consensus pattern (63 bp):
TGAGTTAAAAAGGTTGACCAAGGTGAAACCTACGAACCTACTAAAGGTGACTAGGGCAAAACC
Found at i:669834 original size:66 final size:65
Alignment explanation
Indices: 669758--670007 Score: 191
Period size: 67 Copynumber: 3.8 Consensus size: 65
669748 ACTTAAGTTG
* * * * *
669758 AAAATGAGTTGGCCAAGATGAAACCATACGAATC-AACGAAAGGTGACTAGGGTAGATCCTATGT
1 AAAAAGAGTTGGCCAAGATGAAACCATACGAA-CAAACGAAAGGTGA-TAGGGCAAAACCTAAGT
669822 -A
64 CA
* * ** *
669823 AAAAAGAAGTTGGCCAGGATGAAACCATATGAACAAATTAAGGGTGATAGGGCAAAACCTAAGTC
1 AAAAAG-AGTTGGCCAAGATGAAACCATACGAACAAACGAAAGGTGATAGGGCAAAACCTAAGTC
669888 A
65 A
* * * * * * *
669889 AAAAAGAGTTGGTCGAGATGAAACCATAC-ATACCAACAAAAAGATGACCAGGGCGAAACCTAAG
1 AAAAAGAGTTGGCCAAGATGAAACCATACGA-ACAAAC-GAAAGGTGA-TAGGGCAAAACCTAAG
*
669953 TCG
63 TCA
* * * * * *
669956 AAAAAGAGTTGGCTAGGATAAAACTATACGAACCAACAAAAAGGTGACTAGG
1 AAAAAGAGTTGGCCAAGATGAAACCATACGAACAAAC-GAAAGGTGA-TAGG
670008 ATGAAACCTA
Statistics
Matches: 148, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
64 1 0.01
65 42 0.28
66 46 0.31
67 58 0.39
68 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (65 bp):
AAAAAGAGTTGGCCAAGATGAAACCATACGAACAAACGAAAGGTGATAGGGCAAAACCTAAGTCA
Found at i:669865 original size:132 final size:131
Alignment explanation
Indices: 669614--669984 Score: 345
Period size: 132 Copynumber: 2.8 Consensus size: 131
669604 GACCAGGGTG
* * * * *
669614 AAACATAAGTTAAAAAGGGGTTGGCCGAGTTGAAACCATACAATCTAACTAAAGATGACTAGGGT
1 AAACCTAAGTTAAAAAAGAGTTGGCCGAGATGAAACCATACAATCTAACGAAAGATGACTAGGGT
* * * * * *
669679 GAAACCTAAGTAGAAAAGGAGTTGGTCGGGACAAAACCATACAAACCAACTAAGGGTGATCATGA
66 GAAACCTAAGTAAAAAAGAAGTTGGCCAGGACAAAACCATACAAACAAACTAAGGGTGAT-AGGA
669744 CA
130 CA
* * * * * *
669746 GAACTTAAGTTGAAAATGAGTTGGCCAAGATGAAACCATACGAATC-AACGAAAGGTGACTAGGG
1 AAACCTAAGTTAAAAAAGAGTTGGCCGAGATGAAACCATAC-AATCTAACGAAAGATGACTAGGG
* * ** ** *
669810 T-AGATCCTATGTAAAAAAGAAGTTGGCCAGGATGAAACCATATGAACAAATTAAGGGTGATAGG
65 TGA-AACCTAAGTAAAAAAGAAGTTGGCCAGGACAAAACCATACAAACAAACTAAGGGTGATAGG
*
669874 GCA
129 ACA
* * * * *
669877 AAACCTAAGTCAAAAAAGAGTTGGTCGAGATGAAACCATAC-ATACCAACAAAAAGATGACCAGG
1 AAACCTAAGTTAAAAAAGAGTTGGCCGAGATGAAACCATACAAT-CTAAC-GAAAGATGACTAGG
* * * * *
669941 GCGAAACCTAAGTCGAAAAAG-AGTTGGCTAGGATAAAACTATAC
64 GTGAAACCTAAGT-AAAAAAGAAGTTGGCCAGGACAAAACCATAC
669985 GAACCAACAA
Statistics
Matches: 191, Mismatches: 41, Indels: 14
0.78 0.17 0.06
Matches are distributed among these distances:
129 2 0.01
130 1 0.01
131 42 0.22
132 135 0.71
133 11 0.06
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (131 bp):
AAACCTAAGTTAAAAAAGAGTTGGCCGAGATGAAACCATACAATCTAACGAAAGATGACTAGGGT
GAAACCTAAGTAAAAAAGAAGTTGGCCAGGACAAAACCATACAAACAAACTAAGGGTGATAGGAC
A
Found at i:669960 original size:67 final size:67
Alignment explanation
Indices: 669603--670032 Score: 190
Period size: 66 Copynumber: 6.5 Consensus size: 67
669593 TGAAAAGGGT
* * * * * * * * *
669603 TGACCAGGGTGAAACATAAGTTAAAAAGGGGTTGGCCGA-GTTGAAACCATAC-AATCTAAC-TA
1 TGACCAGGGCGAAACCTAAGTCAAAAAAGAGTTGG-CGAGGATAAAACCATACGAA-CCAACAAA
669665 AAGA
64 AAGA
* * * * * *
669669 TGACTAGGGTGAAACCTAAGT-AGAAAAGGAGTTGGTCG-GGACAAAACCATACAAACCAAC-TA
1 TGACCAGGGCGAAACCTAAGTCA-AAAAAGAGTTGG-CGAGGATAAAACCATACGAACCAACAAA
* *
669731 AGGG
64 AAGA
* * * * ** * * * * * *
669735 TGATCATGAC-AGAACTTAAGTTGAAAATGAGTTGGCCAAGATGAAACCATACGAATCAAC-GAA
1 TGACCAGGGCGA-AACCTAAGTCAAAAAAGAGTTGGCGAGGATAAAACCATACGAACCAACAAAA
*
669798 AGG
65 AGA
* * * * * * * *
669801 TGACTAGGG-TAGATCCTATGT-AAAAAAGAAGTTGGCCAGGATGAAACCATATGAA-CAA-ATT
1 TGACCAGGGCGA-AACCTAAGTCAAAAAAG-AGTTGGCGAGGATAAAACCATACGAACCAACA-A
* *
669862 AAGGG
63 AAAGA
* * *
669867 TGA-TAGGGCAAAACCTAAGTCAAAAAAGAGTTGGTCGA-GATGAAACCATAC-ATACCAACAAA
1 TGACCAGGGCGAAACCTAAGTCAAAAAAGAGTTGG-CGAGGATAAAACCATACGA-ACCAACAAA
669929 AAGA
64 AAGA
* * *
669933 TGACCAGGGCGAAACCTAAGTCGAAAAAGAGTTGGCTAGGATAAAACTATACGAACCAACAAAAA
1 TGACCAGGGCGAAACCTAAGTCAAAAAAGAGTTGGCGAGGATAAAACCATACGAACCAACAAAAA
*
669998 GG
66 GA
* ** *
670000 TGACTAGGATGAAACCTAAAT-AAAAAATGAGTT
1 TGACCAGGGCGAAACCTAAGTCAAAAAA-GAGTT
670033 CGCTGATGTG
Statistics
Matches: 285, Mismatches: 59, Indels: 39
0.74 0.15 0.10
Matches are distributed among these distances:
64 1 0.00
65 42 0.15
66 165 0.58
67 76 0.27
68 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (67 bp):
TGACCAGGGCGAAACCTAAGTCAAAAAAGAGTTGGCGAGGATAAAACCATACGAACCAACAAAAA
GA
Found at i:671382 original size:21 final size:21
Alignment explanation
Indices: 671354--671399 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
671344 TTGTTTTTCC
671354 CTTT-TTTT-TTTCTTTGTTTT
1 CTTTATTTTATTT-TTTGTTTT
*
671374 GTTTATTTTATTTTTTGTTTT
1 CTTTATTTTATTTTTTGTTTT
671395 CTTTA
1 CTTTA
671400 CACTGCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.14
21 16 0.73
22 3 0.14
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.80
Consensus pattern (21 bp):
CTTTATTTTATTTTTTGTTTT
Found at i:676037 original size:163 final size:162
Alignment explanation
Indices: 675868--676301 Score: 434
Period size: 163 Copynumber: 2.7 Consensus size: 162
675858 TTCAAACATC
* * * ** *
675868 AAAATTCTTCAAATATCA-A-TCAATCCCTATTAAATCTA-TTTTGAAAAATTCTTTTATTTTCA
1 AAAATTCATCAAACATCATATTCAATCCATATTAAATC-AGTTTTGAAAAA--AATTCATTTTCA
* * * **
675930 T-GAGTTTTTGAA-TTTTTCCTTGAAA-TCCCCTTTTTTCGAAATACGGAGTTTTTTGCTCGGTG
63 TAG-GTTTTTAAATTTTTTCCTTGAAATTCCCCTTTTTTCGAAATACGAAGTTTTCTGCTCCATG
675992 GATTTTTTTTCGAGGGGATTTTTCTTGGTTTTAATTTTT
127 GA--TTTTTT-GAGGGGATTTTTCTTGGTTTTAATTTTT
* * * * *
676031 AAAATTCATCAAACATCATTATTTATTTCATATTAATTCAGTTTTTAAAAAAATTCATTTTCATA
1 AAAATTCATCAAACATCA-TATTCAATCCATATTAAATCAGTTTTGAAAAAAATTCATTTTCATA
** *
676096 GGTTTTTAAATTTTTTCCTTGAAATTTTCTTTTTTTCGAAATACGAAGTTTTCTGCTCCATGGAT
65 GGTTTTTAAATTTTTTCCTTGAAATTCCCCTTTTTTCGAAATACGAAGTTTTCTGCTCCATGGAT
676161 TTTTTGAGGGGATTTTTCTTGGTTTTAATTTTT
130 TTTTTGAGGGGATTTTTCTTGGTTTTAATTTTT
* * * ** * *
676194 AAAATTCATTAAACATCATTATTTATTTTATATTAATTCAGTTTTAAAAAACAAATTCATTTTCA
1 AAAATTCATCAAACATCA-TATTCAATCCATATTAAATCAGTTTT-GAAAA-AAATTCATTTTCA
* * * *
676259 TAAGTTTTT-GATTTTTCTCCTCGAAATT-CCCTTTTTTCAAAAT
63 TAGGTTTTTAAATTTTT-TCCTTGAAATTCCCCTTTTTTCGAAAT
676302 GCGGTATTTT
Statistics
Matches: 233, Mismatches: 28, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
163 87 0.37
164 46 0.20
165 47 0.20
166 53 0.23
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (162 bp):
AAAATTCATCAAACATCATATTCAATCCATATTAAATCAGTTTTGAAAAAAATTCATTTTCATAG
GTTTTTAAATTTTTTCCTTGAAATTCCCCTTTTTTCGAAATACGAAGTTTTCTGCTCCATGGATT
TTTTGAGGGGATTTTTCTTGGTTTTAATTTTT
Found at i:676130 original size:165 final size:163
Alignment explanation
Indices: 675923--676301 Score: 532
Period size: 163 Copynumber: 2.3 Consensus size: 163
675913 AAATTCTTTT
* * *
675923 ATTTTCAT-GAGTTTTTGAA-TTTTTCCTTGAAATCCCCTTTTTTCGAAATACGGAGTTTTTTGC
1 ATTTTCATAG-GTTTTT-AATTTTTTCCTTGAAATTCCCTTTTTTCGAAATACGAAGTTTTCTGC
**
675986 TCGGTGGATTTTTTTTCGAGGGGATTTTTCTTGGTTTTAATTTTTAAAATTCATCAAACATCATT
64 TCCATGGA--TTTTTT-GAGGGGATTTTTCTTGGTTTTAATTTTTAAAATTCATCAAACATCATT
*
676051 ATTTATTTCATATTAATTCAGTTTT-TAAAA-AAATTC
126 ATTTATTTCATATTAATTCAGTTTTAAAAAACAAATTC
* *
676087 ATTTTCATAGGTTTTTAAATTTTTTCCTTGAAATTTTCTTTTTTTCGAAATACGAAGTTTTCTGC
1 ATTTTCATAGGTTTTT-AATTTTTTCCTTGAAA-TTCCCTTTTTTCGAAATACGAAGTTTTCTGC
*
676152 TCCATGGATTTTTTGAGGGGATTTTTCTTGGTTTTAATTTTTAAAATTCATTAAACATCATTATT
64 TCCATGGATTTTTTGAGGGGATTTTTCTTGGTTTTAATTTTTAAAATTCATCAAACATCATTATT
*
676217 TATTTTATATTAATTCAGTTTTAAAAAACAAATTC
129 TATTTCATATTAATTCAGTTTTAAAAAACAAATTC
* * * *
676252 ATTTTCATAAGTTTTTGATTTTTCTCCTCGAAATTCCCTTTTTTCAAAAT
1 ATTTTCATAGGTTTTTAATTTTT-TCCTTGAAATTCCCTTTTTTCGAAAT
676302 GCGGTATTTT
Statistics
Matches: 192, Mismatches: 17, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
163 71 0.37
164 46 0.24
165 43 0.22
166 32 0.17
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.50
Consensus pattern (163 bp):
ATTTTCATAGGTTTTTAATTTTTTCCTTGAAATTCCCTTTTTTCGAAATACGAAGTTTTCTGCTC
CATGGATTTTTTGAGGGGATTTTTCTTGGTTTTAATTTTTAAAATTCATCAAACATCATTATTTA
TTTCATATTAATTCAGTTTTAAAAAACAAATTC
Found at i:678151 original size:128 final size:128
Alignment explanation
Indices: 677950--678225 Score: 482
Period size: 128 Copynumber: 2.2 Consensus size: 128
677940 TTTTTAATCA
* * * *
677950 TTTATATTCTTACGGGTATCCGTAGGGGTATAAAAGAATTCAAAAACTTTTCGTATCTTTTCGGG
1 TTTATATTCTTATGGGTATCCGTAGGGGTATAAAACAATTCAAAAACTTTTCATATCATTTCGGG
678015 TATCCATTAAGGTACGAAATAATTTTTTCAAAACACAAATAAATATCAATTATTTTCAAG-TCT
66 TATCCATTAAGGTACGAAATAATTTTTTCAAAACACAAATAAATATCAATTATTTTCAAGCT-T
* *
678078 TTTATATTCTTATGGGTATCCGTAGGGGTATAAAACATTTCAAAAATTTTTCATATCATTTCGGG
1 TTTATATTCTTATGGGTATCCGTAGGGGTATAAAACAATTCAAAAACTTTTCATATCATTTCGGG
678143 TATCCATTAAGGTACGAAATAATTTTTTCAAAACACAAATAAATATCAATTATTTTCAAGCTT
66 TATCCATTAAGGTACGAAATAATTTTTTCAAAACACAAATAAATATCAATTATTTTCAAGCTT
678206 TTTATATTCTTATGGGTATC
1 TTTATATTCTTATGGGTATC
678226 TTATATTCTT
Statistics
Matches: 141, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
128 140 0.99
129 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (128 bp):
TTTATATTCTTATGGGTATCCGTAGGGGTATAAAACAATTCAAAAACTTTTCATATCATTTCGGG
TATCCATTAAGGTACGAAATAATTTTTTCAAAACACAAATAAATATCAATTATTTTCAAGCTT
Found at i:678231 original size:19 final size:19
Alignment explanation
Indices: 678207--678244 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
678197 TTCAAGCTTT
678207 TTATATTCTTATGGGTATC
1 TTATATTCTTATGGGTATC
678226 TTATATTCTTATGGGTATC
1 TTATATTCTTATGGGTATC
678245 CGTAGGGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.53
Consensus pattern (19 bp):
TTATATTCTTATGGGTATC
Found at i:678377 original size:147 final size:148
Alignment explanation
Indices: 678051--678462 Score: 360
Period size: 147 Copynumber: 2.8 Consensus size: 148
678041 TTCAAAACAC
* * *
678051 AAATAAATATCAATTATTTTCAAGTCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAACAT
1 AAATAAATATTAATCATTTTCAA-TCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGAT
** * *
678116 TTCAAAAATTTTTCATATCATTTCG-GGTATCCATTAAGGTACGAAATAATTTTTTCAAAACACA
65 TTCAAAAATTTTTTGTATC-TTTAGAGGTATCCATTAAGGTACGAAATGA-TTTTTCAAAACACA
* * **
678180 AATAAATATCAATTATTTTCA
128 AATAAATATCAACTACTCACA
** *** * * *** * *
678201 AGCTTTTTA-TATTC-TTATGGGTATCTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGATT
1 AAATAAATATTAATCATTTTCAATCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGATT
* * * *
678264 TCAAAAATTTTTTGTATCTTTTGAGGTATCCATTAAGGTACGAAATGATTTTT-AGAA-ATAATT
66 TCAAAAATTTTTTGTATCTTTAGAGGTATCCATTAAGGTACGAAATGATTTTTCAAAACACAAAT
*
678327 AAAT-T-AACCCTCCTCACTA
131 AAATATCAA--CTACTCAC-A
* ***
678346 AAATAAATATTAATCATTTTCAATCTTTTATATTCCTATGGGTAT-CGTATAAGTATTAAAAGAT
1 AAATAAATATTAATCATTTTCAATCTTTTATATTCTTATGGGTATCCGTAGGGGTA-TAAAAGAT
* *
678410 TTC--AAATTTTTTCGTAT-TTTAGCAGGTTTCCATCAAGGTACGAAATGATTTTT
65 TTCAAAAATTTTTT-GTATCTTTAG-AGGTATCCATTAAGGTACGAAATGATTTTT
678463 TTAAGAAAAT
Statistics
Matches: 207, Mismatches: 46, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
142 2 0.01
143 1 0.00
144 11 0.05
145 21 0.10
146 52 0.25
147 111 0.54
148 3 0.01
149 2 0.01
150 4 0.02
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (148 bp):
AAATAAATATTAATCATTTTCAATCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGATT
TCAAAAATTTTTTGTATCTTTAGAGGTATCCATTAAGGTACGAAATGATTTTTCAAAACACAAAT
AAATATCAACTACTCACA
Found at i:681000 original size:27 final size:27
Alignment explanation
Indices: 680970--681143 Score: 105
Period size: 27 Copynumber: 5.8 Consensus size: 27
680960 TTTCTCCTTC
*
680970 TAAGTCCACAACTCCGTGGCACCAGTT
1 TAAGCCCACAACTCCGTGGCACCAGTT
**
680997 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTT
1 TAAGCCCACAACTCCGTGGCAC-C-----AGTT
* *
681030 CTAAGTCCACAACTCCGTGGCACCTTGTTCATTT
1 -TAAGCCCACAACTCCGTGGCA-C-----CAGTT
* ** **
681064 TAAGTCCATGACTCCGTGGCACCTTCTTT
1 TAAGCCCACAACTCCGTGGCACC--AGTT
681093 TCAAAGCCCACAACTCCGTGGCACCAGTT
1 T--AAGCCCACAACTCCGTGGCACCAGTT
681122 TAAGCCCACAACTCCGTGGCAC
1 TAAGCCCACAACTCCGTGGCAC
681144 TCTTTTTCCT
Statistics
Matches: 117, Mismatches: 14, Indels: 32
0.72 0.09 0.20
Matches are distributed among these distances:
27 43 0.37
28 1 0.01
29 7 0.06
31 19 0.16
32 1 0.01
33 21 0.18
34 22 0.19
35 1 0.01
39 2 0.02
ACGTcount: A:0.22, C:0.35, G:0.16, T:0.26
Consensus pattern (27 bp):
TAAGCCCACAACTCCGTGGCACCAGTT
Found at i:681032 original size:61 final size:61
Alignment explanation
Indices: 680937--681316 Score: 399
Period size: 61 Copynumber: 6.0 Consensus size: 61
680927 TACTTTCTCA
* *
680937 AAGCCCACAACTCCGTGGCACTCTTTCTCCTTCTAAGTCCACAACTCCGTGGCACCAGTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCATTTT
680998 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTGTTCATT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCA-C-----CATT
681063 TT
60 TT
* ** * * * *
681065 AAGTCCATGACTCCGTGGCAC-CTTCTT--TTCAAAGCCCACAACTCCGTGGCACCAGTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCATTTT
*
681123 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC--ATTTT
* * *
681186 CAAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTTAAGTCCACGACCCCGTGGCATCTTGTTC
1 --AAGCCCACAACTCCGTGGCACTCTTT-TTCCTTCTAAGTCCACAACTCCGTGGCA-C-----C
*
681251 CTTTT
57 ATTTT
* * * * *
681256 AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT-AAGTCCACAACTCCGTGGCACCATTTT
681317 CTTTTTAAAG
Statistics
Matches: 272, Mismatches: 26, Indels: 42
0.80 0.08 0.12
Matches are distributed among these distances:
58 23 0.08
59 5 0.02
61 82 0.30
62 1 0.00
63 4 0.01
64 22 0.08
65 26 0.10
66 38 0.14
67 45 0.17
68 20 0.07
70 5 0.02
72 1 0.00
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.31
Consensus pattern (61 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCATTTT
Found at i:681078 original size:33 final size:33
Alignment explanation
Indices: 680941--681520 Score: 503
Period size: 34 Copynumber: 17.6 Consensus size: 33
680931 TTCTCAAAGC
* *
680941 CCACAACTCCGTGGCACTCTTTCTCCTTCTAAGT
1 CCACAACTCCGTGGCAC-CTTTTTCCTTTTAAGT
** *
680975 CCACAACTCCGTGGCA-C-----CAGTTTAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
*
681002 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
1 CCACAACTCCGTGGCAC-CTTTTTCCTTTTAAGT
* *
681036 CCACAACTCCGTGGCACCTTGTTCATTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
** * ** *
681069 CCATGACTCCGTGGCACCTTCTT--TTCAAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
** *
681100 CCACAACTCCGTGGCA-C-----CAGTTTAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
*
681127 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
1 CCACAACTCCGTGGCAC-CTTTTTCCTTTTAAGT
* ** *
681161 CCACAACTCCGTGGCACCTTCTT--TTCAAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
681192 CCACAACTCCGTGGCACTCTTTGTTCCTTTTAAGT
1 CCACAACTCCGTGGCAC-CTTT-TTCCTTTTAAGT
* * * *
681227 CCACGACCCCGTGGCATCTTGTTCCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
* *
681260 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTT-AAGT
* *
681294 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTT-AAGT
* *
681328 CCACAACTCCTGTGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCC-GTGGCACCTTTTTCCTTTT-AAGT
* * * *
681363 CCATAACTCCATGCCACCTTTTTTCTTTTTAAAGT
1 CCACAACTCCGTGGCACC-TTTTTCCTTTT-AAGT
* * *
681398 CCACGACTTCGTGGCACCTTTTT-CTTTTCAAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTT--AAGT
*
681432 CCACAACTCTGTGGCACTCTTTTTCCCTTTTAAAGT
1 CCACAACTCCGTGGCAC-CTTTTT-CCTTTT-AAGT
*
681468 CCACAAC-CCTGTGGCACCTTGTTCCTTTTAAGT
1 CCACAACTCC-GTGGCACCTTTTTCCTTTTAAGT
*
681501 CCACGACTCCGTGGCACCTT
1 CCACAACTCCGTGGCACCTT
681521 CCTTTCAAAG
Statistics
Matches: 456, Mismatches: 61, Indels: 59
0.79 0.11 0.10
Matches are distributed among these distances:
27 43 0.09
29 2 0.00
30 1 0.00
31 42 0.09
32 4 0.01
33 100 0.22
34 149 0.33
35 92 0.20
36 18 0.04
37 5 0.01
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.33
Consensus pattern (33 bp):
CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
Found at i:681178 original size:92 final size:94
Alignment explanation
Indices: 680941--681519 Score: 415
Period size: 92 Copynumber: 5.9 Consensus size: 94
680931 TTCTCAAAGC
* **
680941 CCACAACTCCGTGGCACTCTT-TCTCCTTCTAAGTCCACAACTCCGTGGCACC--AGTTT--AAG
1 CCACAACTCCGTGGCACTCTTGT-TCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAG
**
681001 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
65 CCCACAACTCCGTGGCAC-C-TAGT--TT-TAAGT
* **
681036 CCACAACTCCGTGGCAC-CTTGTTCATTTTAAGTCCATGACTCCGTGGCACCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACTCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGC
*
681100 CCACAACTCCGTGGCACC-AG-TTTAAGC
66 CCACAACTCCGTGGCACCTAGTTTTAAGT
* *
681127 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACTCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGC
*
681192 CCACAACTCCGTGGCACTCTTTGTTCCTTTTAAGT
66 CCACAACTCCGTGGCAC-C-TAG----TTTTAAGT
* * *
681227 CCACGACCCCGTGGCA-TCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAA
1 CCACAACTCCGTGGCACTCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACC---TTCTTTTCAA
** *
681291 AGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
63 AGCCCACAACTCCGTGGCACC----TAGTTTT-AAGT
* * * * * *
681328 CCACAACTCCTGTGGCAC-CTTTTTCTTTTTAAAGCCCATAACTCCATGCCACCTTTTTTCTTTT
1 CCACAACTCC-GTGGCACTCTTGTTCCTTTT-AAGTCCACAACTCCGTGGCACC----TTCTTTT
* * * * ** *
681392 TAAAGTCCACGACTTCGTGGCACCTTTTTCTTTTCAAAGC
60 CAAAGCCCACAACTCCGTGGCACC---TAGTTTT--AAGT
* * * *
681432 CCACAACTCTGTGGCACTCTTTTTCCCTTTTAAAGTCCACAAC-CCTGTGGCACCTTGTTCCTTT
1 CCACAACTCCGTGGCACTCTTGTT-CCTTTT-AAGTCCACAACTCC-GTGGCACCTTCTT--TTC
* * *
681496 TAAGTCCACGACTCCGTGGCACCT
61 AAAGCCCACAACTCCGTGGCACCT
681520 TCCTTTCAAA
Statistics
Matches: 407, Mismatches: 46, Indels: 57
0.80 0.09 0.11
Matches are distributed among these distances:
91 21 0.05
92 61 0.15
93 1 0.00
94 28 0.07
95 19 0.05
96 3 0.01
97 1 0.00
98 21 0.05
99 33 0.08
100 25 0.06
101 16 0.04
102 45 0.11
103 57 0.14
104 55 0.14
105 21 0.05
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.33
Consensus pattern (94 bp):
CCACAACTCCGTGGCACTCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGC
CCACAACTCCGTGGCACCTAGTTTTAAGT
Found at i:681352 original size:69 final size:67
Alignment explanation
Indices: 681123--681520 Score: 430
Period size: 69 Copynumber: 5.9 Consensus size: 67
681113 GCACCAGTTT
* *
681123 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC---TTCTTT
1 AAGCCCACAACTCCGTGGCAC-CTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
681185 TCA
65 TTA
* * * * * *
681188 AAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTTAAGTCCACGACCCCGTGGCATCTTGTTCCT
1 AAGCCCACAACTCCGTGGCAC-CTTT-TTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTT
681253 TTT-
64 TTTA
* *
681256 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTT
681321 TTA
65 TTA
* * * *
681324 AAGCCCACAACTCCTGTGGCACCTTTTTCTTTTTAAAGCCCATAACTCCATGCCACCTTTTTTCT
1 AAGCCCACAACTCC-GTGGCACCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCACC-TTTTTCT
681389 TTTTA
63 TTTTA
* * * *
681394 AAGTCCACGACTTCGTGGCACCTTTTT-CTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT--AAGCCCACAACTCCGTGGCAC-CTTTTT-C
*
681458 CTTTTA
62 TTTTTA
* * * *
681464 AAGTCCACAAC-CCTGTGGCACCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTT
1 AAGCCCACAACTCC-GTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTT
681521 CCTTTCAAAG
Statistics
Matches: 287, Mismatches: 33, Indels: 23
0.84 0.10 0.07
Matches are distributed among these distances:
65 26 0.09
66 33 0.11
67 31 0.11
68 40 0.14
69 100 0.35
70 52 0.18
71 5 0.02
ACGTcount: A:0.19, C:0.33, G:0.13, T:0.34
Consensus pattern (67 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
TA
Found at i:681688 original size:33 final size:32
Alignment explanation
Indices: 681549--681721 Score: 262
Period size: 32 Copynumber: 5.4 Consensus size: 32
681539 TCCGTGGCAT
681549 CTTCTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTCTCAAAGCCCACACAAGTCGGTGGCAACC
*
681581 CTTCTCAAAGCCCACACAAGTCGATGGCAACC
1 CTTCTCAAAGCCCACACAAGTCGGTGGCAACC
681613 CTTCTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTCTCAAAGCCCACACAAGTCGGTGGCAACC
* *
681645 C-TCTCTAAAGCTCACACAAGTTGGTGGCAACC
1 CTTCTC-AAAGCCCACACAAGTCGGTGGCAACC
* *
681677 ATTCTCTAAAGCGCACACAAGTCGGTGGCAACC
1 CTTCTC-AAAGCCCACACAAGTCGGTGGCAACC
681710 CTTCT--AAGCCCA
1 CTTCTCAAAGCCCA
681722 ATATCGCAGG
Statistics
Matches: 130, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
30 6 0.05
31 4 0.03
32 87 0.67
33 33 0.25
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (32 bp):
CTTCTCAAAGCCCACACAAGTCGGTGGCAACC
Found at i:681821 original size:43 final size:43
Alignment explanation
Indices: 681709--681988 Score: 326
Period size: 43 Copynumber: 6.1 Consensus size: 43
681699 CGGTGGCAAC
* * *
681709 CCTTCTAAGCCCAATATCGCAGGCCTTGAATCAGCATATTGGCA
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * *
681753 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
681802 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
*
681845 CCTTCTTCTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCA
1 -C--CTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* *
681892 CCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
681941 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
681984 CCTTT
1 CCTTT
681989 TCCATCTTTA
Statistics
Matches: 207, Mismatches: 16, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
43 84 0.41
44 1 0.00
45 2 0.01
46 3 0.01
47 38 0.18
48 1 0.00
49 69 0.33
50 9 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (43 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
Found at i:681960 original size:139 final size:141
Alignment explanation
Indices: 681709--682032 Score: 517
Period size: 139 Copynumber: 2.3 Consensus size: 141
681699 CGGTGGCAAC
* * *
681709 CCTTCTAAGCCCAATATCGCAGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTTCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
681774 TAGCTGGCCTTGAATTAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
66 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
681839 TTGGCACC-TT
131 TTGGCACCTTT
* *
681849 -CTTCTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
1 CCTTCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
681913 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
66 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
681978 TTGGCACCTTTT
131 TTGGCACC-TTT
* * * *
681990 CCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CC-T-TCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
682033 ACATCCTTTT
Statistics
Matches: 169, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
139 132 0.78
141 2 0.01
142 1 0.01
143 1 0.01
144 33 0.20
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (141 bp):
CCTTCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
TTGGCACCTTT
Found at i:682020 original size:52 final size:53
Alignment explanation
Indices: 681942--682095 Score: 193
Period size: 52 Copynumber: 2.9 Consensus size: 53
681932 ACATTGGCAC
681942 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
681994 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
682049 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
682096 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 6 0.07
55 36 0.42
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:682218 original size:122 final size:119
Alignment explanation
Indices: 681991--682214 Score: 301
Period size: 116 Copynumber: 1.9 Consensus size: 119
681981 GCACCTTTTC
*
681991 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAG
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCC---TTCTCATCTTTAAG
* * *
682056 CCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTT
63 CCCAACATCGCTGGCCGTGAATCAACACATTGGCATCTTTATCACTTTTCTCATCTT
* * *
682113 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CC-T-TCATCTTTAAGTCC
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTCTCATCTTTAAGCCC
* * * *
682175 AACGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
66 AACATCGCTGGCCGTGAATCAACACATTGGCATCTTTATC
682215 TTTAAGTCCA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
116 46 0.51
117 1 0.01
121 2 0.02
122 42 0.46
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (119 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTCTCATCTTTAAGCCC
AACATCGCTGGCCGTGAATCAACACATTGGCATCTTTATCACTTTTCTCATCTT
Found at i:682232 original size:49 final size:49
Alignment explanation
Indices: 682110--682232 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
682100 CTTTTCTCAT
682110 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
*
682159 CTTCATCTTTAAGTCCAACGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* *
682208 CTTTATCTTTAAGTCCAATATCGCT
1 CTTCATCTTTAAGTCCAATGTCGCT
682233 AGCCGCATAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (49 bp):
CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:682993 original size:19 final size:19
Alignment explanation
Indices: 682954--683024 Score: 124
Period size: 19 Copynumber: 3.7 Consensus size: 19
682944 TTTCAACGAT
682954 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
682974 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
682993 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
683012 TTGTATCGATACA
1 TTGTATCGATACA
683025 ATATAAGCTA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 36 0.72
20 14 0.28
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:683134 original size:52 final size:52
Alignment explanation
Indices: 683098--683226 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
683088 CACTGATCTT
683098 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
683150 TGTATCGATATATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
683202 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
683227 TCATATTTCA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:688095 original size:20 final size:21
Alignment explanation
Indices: 688072--688110 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
688062 TAAAGCAATA
688072 TGTATCAATAC-TTCTAGGCT
1 TGTATCAATACTTTCTAGGCT
*
688092 TGTATCGATACTTTCTAGG
1 TGTATCAATACTTTCTAGG
688111 GTTTTGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (21 bp):
TGTATCAATACTTTCTAGGCT
Found at i:694660 original size:17 final size:15
Alignment explanation
Indices: 694620--694654 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
694610 CTAGTTTGAT
694620 AATTTT-TTTTCAAG
1 AATTTTATTTTCAAG
*
694634 AATTTCATTTTCAAG
1 AATTTTATTTTCAAG
694649 AATTTT
1 AATTTT
694655 TTATTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (15 bp):
AATTTTATTTTCAAG
Found at i:695099 original size:12 final size:12
Alignment explanation
Indices: 695082--695113 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
695072 TGAGTCAACT
695082 TCATCATCATTA
1 TCATCATCATTA
*
695094 TCATCATCATTT
1 TCATCATCATTA
695106 TCATCATC
1 TCATCATC
695114 CTTGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (12 bp):
TCATCATCATTA
Found at i:696718 original size:13 final size:13
Alignment explanation
Indices: 696700--696724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
696690 CATTTTACTC
696700 TGTATCGATACAT
1 TGTATCGATACAT
696713 TGTATCGATACA
1 TGTATCGATACA
696725 ATGTCCCATG
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:696814 original size:13 final size:13
Alignment explanation
Indices: 696796--696853 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
696786 CAATGACCAT
696796 GTATCGATACAAG
1 GTATCGATACAAG
696809 GTATCGATACAAAG
1 GTATCGATAC-AAG
696823 CAATATGTATCGATACAAG
1 ------GTATCGATACAAG
696842 GTATCGATACAA
1 GTATCGATACAA
696854 AGCAATATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.58
14 3 0.08
19 3 0.08
20 10 0.26
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (13 bp):
GTATCGATACAAG
Found at i:696834 original size:20 final size:20
Alignment explanation
Indices: 696809--696871 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
696799 TCGATACAAG
696809 GTATCGATACAAAGCAATAT
1 GTATCGATACAAAGCAATAT
696829 GTATCGATAC-AAG------
1 GTATCGATACAAAGCAATAT
696842 GTATCGATACAAAGCAATAT
1 GTATCGATACAAAGCAATAT
696862 GTATCGATAC
1 GTATCGATAC
696872 TTCTAGGCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 14
0.72 0.00 0.28
Matches are distributed among these distances:
13 10 0.28
14 3 0.08
19 3 0.08
20 20 0.56
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.25
Consensus pattern (20 bp):
GTATCGATACAAAGCAATAT
Found at i:696836 original size:33 final size:33
Alignment explanation
Indices: 696777--696871 Score: 156
Period size: 33 Copynumber: 2.9 Consensus size: 33
696767 CCAATTTCAT
* **
696777 GTATCGATACAATG-ACCATGTATCGATACAAG
1 GTATCGATACAAAGCAATATGTATCGATACAAG
696809 GTATCGATACAAAGCAATATGTATCGATACAAG
1 GTATCGATACAAAGCAATATGTATCGATACAAG
696842 GTATCGATACAAAGCAATATGTATCGATAC
1 GTATCGATACAAAGCAATATGTATCGATAC
696872 TTCTAGGCTT
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 13 0.22
33 46 0.78
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (33 bp):
GTATCGATACAAAGCAATATGTATCGATACAAG
Found at i:703143 original size:19 final size:19
Alignment explanation
Indices: 703119--703167 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
703109 TTAGGGTAGC
*
703119 TATCGATACAATGA-ACATG
1 TATCGATACAATCATA-ATG
703138 TATCGATACAAATCATAATG
1 TATCGATAC-AATCATAATG
703158 TATCGATACA
1 TATCGATACA
703168 TCTGGATGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 16 0.59
21 1 0.04
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (19 bp):
TATCGATACAATCATAATG
Found at i:703840 original size:94 final size:92
Alignment explanation
Indices: 703737--703915 Score: 295
Period size: 94 Copynumber: 1.9 Consensus size: 92
703727 TTTAGAAGCA
*
703737 GATTTTTATTAAGAGATTTCAAAAGTAAATTTTCAATAAACCTCCCTCTTAAAAAAAATAATTAA
1 GATTTTTATTAAGAGATTTCAAAAGTAAATTTTCAATAAAACTCCC-CTT-AAAAAAATAATTAA
*
703802 AGCTCTCTTTTAAAAATGATTTAGAAATG
64 AGCTCTCTTTTAAAAACGATTTAGAAATG
* *
703831 GATTTTTATTAAGAGATTTCAAAAGTAAATTTTCAATAAAATTCCCCTTAATAAAATAATTAAAG
1 GATTTTTATTAAGAGATTTCAAAAGTAAATTTTCAATAAAACTCCCCTTAAAAAAATAATTAAAG
*
703896 TTCTCTTTTAAAAACGATTT
66 CTCTCTTTTAAAAACGATTT
703916 TCTCCCCCCT
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 33 0.41
93 3 0.04
94 44 0.55
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (92 bp):
GATTTTTATTAAGAGATTTCAAAAGTAAATTTTCAATAAAACTCCCCTTAAAAAAATAATTAAAG
CTCTCTTTTAAAAACGATTTAGAAATG
Found at i:705556 original size:16 final size:16
Alignment explanation
Indices: 705535--705569 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
705525 AAGTGAAAAG
705535 GAACCTAAATCTCTAA
1 GAACCTAAATCTCTAA
705551 GAACCTAAATCTCTAA
1 GAACCTAAATCTCTAA
705567 GAA
1 GAA
705570 AAAAAACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.23, G:0.09, T:0.23
Consensus pattern (16 bp):
GAACCTAAATCTCTAA
Found at i:711546 original size:19 final size:19
Alignment explanation
Indices: 711501--711592 Score: 123
Period size: 19 Copynumber: 4.7 Consensus size: 19
711491 CTGCCAGTTT
*
711501 CATGTATCGATACAATTAA
1 CATGTATCGATACAATGAA
*
711520 GTATGTATCGATACAATGAA
1 -CATGTATCGATACAATGAA
711540 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
711559 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
711580 -ATGTATCGATACA
1 CATGTATCGATACA
711593 TCTGGATGTG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
19 34 0.52
20 31 0.47
21 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:711550 original size:39 final size:40
Alignment explanation
Indices: 711501--711592 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 40
711491 CTGCCAGTTT
* * *
711501 CATGTATCGATACAATTAAGTATGTATCGATACAATG-A-A
1 CATGTATCGATACAATGAA-CATGTATCGATACAAAGCATA
711540 CATGTATCGATACAATGAACATGTATCGATACAAAGCATA
1 CATGTATCGATACAATGAACATGTATCGATACAAAGCATA
711580 -ATGTATCGATACA
1 CATGTATCGATACA
711593 TCTGGATGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
38 15 0.31
39 32 0.67
40 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (40 bp):
CATGTATCGATACAATGAACATGTATCGATACAAAGCATA
Found at i:715727 original size:29 final size:29
Alignment explanation
Indices: 715649--715727 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 29
715639 ATCAAATTTG
715649 CTTCAAATTCATCAACAAAAATTACTTTT
1 CTTCAAATTCATCAACAAAAATTACTTTT
**
715678 CAATCTCAAAATT-AT---TTAAAATTACTTTT
1 C--T-TC-AAATTCATCAACAAAAATTACTTTT
715707 CTTCAAATTCATCAACAAAAA
1 CTTCAAATTCATCAACAAAAA
715728 CACACCTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
25 5 0.13
26 4 0.11
27 1 0.03
29 18 0.47
31 1 0.03
32 4 0.11
33 5 0.13
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (29 bp):
CTTCAAATTCATCAACAAAAATTACTTTT
Found at i:721184 original size:52 final size:52
Alignment explanation
Indices: 721106--721234 Score: 197
Period size: 52 Copynumber: 2.5 Consensus size: 52
721096 CGAAATATGA
*
721106 AAATTTGCCTGCATGTAACGATACATTTCATAATGTATCGATACATCT-AGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAATGTATCGATACATCTGA-GC
* * *
721158 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATATATCTGAGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAATGTATCGATACATCTGAGC
*
721210 AAATTTTCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
721235 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
52 70 0.99
53 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAATGTATCGATACATCTGAGC
Found at i:721245 original size:52 final size:52
Alignment explanation
Indices: 721106--721255 Score: 178
Period size: 52 Copynumber: 2.9 Consensus size: 52
721096 CGAAATATGA
* *** *
721106 AAATTTGCCTGCATGTAACGATACATTTCATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTAGGC
*** *
721158 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATATATCT-GAGC
1 AAATTTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTAG-GC
*
721210 AAATTTTCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATAAGAT-AGTGTATCGATACAT
721256 TTGAGTAATG
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 3 0.03
52 84 0.97
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTAGGC
Found at i:721317 original size:13 final size:13
Alignment explanation
Indices: 721299--721349 Score: 57
Period size: 13 Copynumber: 3.5 Consensus size: 13
721289 AGCTTCGTAG
721299 CGATACATTGTAT
1 CGATACATTGTAT
721312 CGATACAAACTTATGTAT
1 CGATAC--A--T-TGTAT
721330 CGATACATTGTAT
1 CGATACATTGTAT
721343 CGATACA
1 CGATACA
721350 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 18 0.55
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 11 0.33
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:721330 original size:18 final size:18
Alignment explanation
Indices: 721307--721364 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
721297 AGCGATACAT
721307 TGTATCGATACAAACTTA
1 TGTATCGATACAAACTTA
721325 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
721338 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
721357 TGTATCGA
1 TGTATCGA
721365 GTTTTGATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.32
14 1 0.03
16 2 0.06
18 12 0.35
19 8 0.24
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:721337 original size:31 final size:32
Alignment explanation
Indices: 721299--721364 Score: 125
Period size: 31 Copynumber: 2.1 Consensus size: 32
721289 AGCTTCGTAG
721299 CGATACATTGTATCGATACAA-ACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
721330 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
721362 CGA
1 CGA
721365 GTTTTGATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 21 0.62
32 13 0.38
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:722426 original size:20 final size:20
Alignment explanation
Indices: 722401--722455 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
722391 ATTTGCCTGC
722401 ATGTATCGATACACTATGA-A
1 ATGTATCGATACA-TATGAGA
* *
722421 ATGTATCGATATATTTGAGTA
1 ATGTATCGATACATATGAG-A
722442 ATGTATCGATACAT
1 ATGTATCGATACAT
722456 TTTTTTGGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.13
20 12 0.40
21 14 0.47
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATATGAGA
Found at i:722497 original size:13 final size:13
Alignment explanation
Indices: 722479--722560 Score: 56
Period size: 13 Copynumber: 5.5 Consensus size: 13
722469 GCTTCGTAGT
722479 GATACATTGTATC
1 GATACATTGTATC
*
722492 GATACAAACTTATGTATT
1 GATAC--A--T-TGTATC
722510 GATACATTGTATC
1 GATACATTGTATC
722523 GATACAACACTTATGTATC
1 GAT---ACA--T-TGTATC
722542 GATACATTGTATC
1 GATACATTGTATC
722555 GATACA
1 GATACA
722561 ACATTTTTGT
Statistics
Matches: 56, Mismatches: 2, Indels: 22
0.70 0.03 0.28
Matches are distributed among these distances:
13 25 0.45
14 2 0.04
15 1 0.02
16 7 0.12
17 1 0.02
18 11 0.20
19 9 0.16
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:722540 original size:32 final size:32
Alignment explanation
Indices: 722479--722579 Score: 168
Period size: 32 Copynumber: 3.2 Consensus size: 32
722469 GCTTCGTAGT
*
722479 GATACATTGTATCGATACAA-ACTTATGTATT
1 GATACATTGTATCGATACAACACTTATGTATC
722510 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
* *
722542 GATACATTGTATCGATACAACATTTTTGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
722574 GATACA
1 GATACA
722580 AATCGTTGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
31 20 0.30
32 46 0.70
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (32 bp):
GATACATTGTATCGATACAACACTTATGTATC
Found at i:722541 original size:19 final size:17
Alignment explanation
Indices: 722516--722580 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 17
722506 TATTGATACA
722516 TTGTATCGATACAACACT
1 TTGTATCGATACAACA-T
722534 TATGTATCGAT---ACA-
1 T-TGTATCGATACAACAT
722548 TTGTATCGATACAACATTT
1 TTGTATCGATACAACA--T
722567 TTGTATCGATACAA
1 TTGTATCGATACAA
722581 ATCGTTGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 9 0.22
14 1 0.03
16 6 0.15
18 1 0.03
19 23 0.57
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (17 bp):
TTGTATCGATACAACAT
Found at i:723819 original size:13 final size:13
Alignment explanation
Indices: 723801--723829 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
723791 TAGAGCTTAC
723801 ACATTGTATCGAT
1 ACATTGTATCGAT
723814 ACATTGTATCGAT
1 ACATTGTATCGAT
723827 ACA
1 ACA
723830 AATTATAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:724685 original size:33 final size:32
Alignment explanation
Indices: 724641--725091 Score: 152
Period size: 28 Copynumber: 15.0 Consensus size: 32
724631 TAGAAGGAGA
* *
724641 TGCCACTAACTTGTG-GGGGTTTAGAGAAGAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGA-AA-AGGT
* *
724674 TACCACCAACTTGTGTAGGCTTTAGAAAAAGG-
1 TGCCACCAACTTGTGTGGGCTTTAG-AAAAGGT
* *
724706 TGCCACCAATTTGTGTGGGTTTTAGAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAGGT
* * * ** *
724738 TGCCACCAGCTTGTGTAGGCTTT-GGAGGGGG
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAGGT
* *
724769 TGCCACCGAC-T-TGTGGGCTTTA-AAAA-GA
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAGGT
* * *
724797 TGCCACTAAC-T-TGTGGACTTT-G--AAGGAA
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAGG-T
** *
724825 TGCCACTGAC-T-TGTGGGCTTT-G--AAGGAA
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAGG-T
* * *
724853 TGCCACTAAC-T-TGTGGGCTTT-G-AATGGG
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAGGT
* ** **
724881 TACCACTGAC-T-TGTGGGCTTT-G-AAAGCC
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAGGT
** * *
724909 TGCCACTGAC-T-TGTGGGCTTT-G-GAAGGG
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAGGT
** *
724937 TGCCACCGGC-T-T-TGGGCTTT-G-AAAGGG
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAGGT
* ** **
724964 TGCCACAAAC-T-CATGGGCTTT-GAAAAAAAT
1 TGCCACCAACTTGTGTGGGCTTTAG-AAAAGGT
* * *
724994 ATGCCACTAACTTGTGTAGGC-TTCGAAGAAGGT
1 -TGCCACCAACTTGTGTGGGCTTTAGAA-AAGGT
*
725027 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAGGT
725059 TGCCACCAACTTGTGTGGGCTTT-GAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAA-AAGGT
725091 T
1 T
725092 TCTCCACTAA
Statistics
Matches: 339, Mismatches: 61, Indels: 37
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.01
27 23 0.07
28 133 0.39
29 13 0.04
30 4 0.01
31 30 0.09
32 95 0.28
33 29 0.09
34 9 0.03
35 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAAAGGT
Found at i:724941 original size:84 final size:84
Alignment explanation
Indices: 724755--725084 Score: 295
Period size: 84 Copynumber: 3.8 Consensus size: 84
724745 AGCTTGTGTA
* * * * *
724755 GGCTTTGGAGGGGGTGCCACCGACTTGTGGGCTTTAAAAAGATGCCACTAACTTGTGGACTTTGA
1 GGCTTTGGA-AGGGTGCCACCGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGA
*
724820 AGGAATGCCACTGACTTGTG
65 AAGAATGCCACTGACTTGTG
* ** * * *
724840 GGCTTT-GAAGGAATGCCACTAACTTGTGGGCTTTGAATGGGTACCACTGACTTGTGGGCTTTGA
1 GGCTTTGGAAGG-GTGCCACCGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGA
**
724904 AAGCCTGCCACTGACTTGTG
65 AAGAATGCCACTGACTTGTG
* * **
724924 GGCTTTGGAAGGGTGCCACCGGCTT-TGGGCTTTGAAAGGGTGCCACAAACTCATGGGCTTTGAA
1 GGCTTTGGAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTG--
* *
724988 AAAAATATGCCACTAACTTGTG
64 AAAGA-ATGCCACTGACTTGTG
* * * *
725010 TAGGCTTCGAAGAAGGTTGCCACCAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCAACTTGTGT
1 --GGCTTTG--GAAGGGTGCCACCGAC-T-TGTGGGCTTT-GAAAGGG-TGCCACTAAC-T-TGT
725075 GGGCTTTGAA
56 GGGCTTTGAA
725085 GAAGGTTTCT
Statistics
Matches: 194, Mismatches: 35, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
83 33 0.17
84 76 0.39
85 14 0.07
86 14 0.07
88 6 0.03
90 13 0.07
91 1 0.01
92 1 0.01
93 8 0.04
94 7 0.04
95 11 0.06
96 1 0.01
97 9 0.05
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (84 bp):
GGCTTTGGAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAA
AGAATGCCACTGACTTGTG
Found at i:724987 original size:28 final size:28
Alignment explanation
Indices: 724766--724988 Score: 227
Period size: 28 Copynumber: 8.0 Consensus size: 28
724756 GCTTTGGAGG
* *
724766 GGGTGCCACCGACTTGTGGGCTTTAAAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
* * * *
724794 AGATGCCACTAACTTGTGGACTTTG-AA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
*
724821 GGAATGCCACTGACTTGTGGGCTTTG-AA
1 GG-GTGCCACTGACTTGTGGGCTTTGAAA
* * *
724849 GGAATGCCACTAACTTGTGGGCTTTGAAT
1 GG-GTGCCACTGACTTGTGGGCTTTGAAA
*
724878 GGGTACCACTGACTTGTGGGCTTTGAAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
** *
724906 GCCTGCCACTGACTTGTGGGCTTTGGAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
* *
724934 GGGTGCCACCGGCTT-TGGGCTTTGAAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
** **
724961 GGGTGCCACAAACTCATGGGCTTTGAAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
724989 AAAATATGCC
Statistics
Matches: 164, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
27 25 0.15
28 136 0.83
29 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.27
Consensus pattern (28 bp):
GGGTGCCACTGACTTGTGGGCTTTGAAA
Found at i:725321 original size:28 final size:27
Alignment explanation
Indices: 725262--725324 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
725252 TATATAGCAA
* *
725262 GTGCCACTAATTGTGGACTTTAAAAAG
1 GTGCCACTAATTATAGACTTTAAAAAG
* * *
725289 ATGCCACTAACTTATAGACTTTGAAGAG
1 GTGCCACTAA-TTATAGACTTTAAAAAG
725317 GTGCCACT
1 GTGCCACT
725325 GACTAGTGGG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
27 9 0.31
28 20 0.69
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (27 bp):
GTGCCACTAATTATAGACTTTAAAAAG
Found at i:725425 original size:14 final size:14
Alignment explanation
Indices: 725390--725432 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
725380 CTGACACACG
*
725390 TTCTTGACAAAAGT
1 TTCTTGACAAAAAT
725404 TT-TTGACAAAAAT
1 TTCTTGACAAAAAT
* *
725417 TTCTCGACAACAAT
1 TTCTTGACAAAAAT
725431 TT
1 TT
725433 TGTTGATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (14 bp):
TTCTTGACAAAAAT
Found at i:726689 original size:15 final size:14
Alignment explanation
Indices: 726669--726725 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
726659 TTCTTCCCCC
726669 TTTTTTATTTGTTTG
1 TTTTTT-TTTGTTTG
*
726684 -TTTTTTTTGTATG
1 TTTTTTTTTGTTTG
*
726697 TGTTTTTTTTCTTTG
1 T-TTTTTTTTGTTTG
726712 TTTTTTGTTTGTTT
1 TTTTTT-TTTGTTT
726726 TTTGTGTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 7 0.20
14 10 0.29
15 18 0.51
ACGTcount: A:0.04, C:0.02, G:0.14, T:0.81
Consensus pattern (14 bp):
TTTTTTTTTGTTTG
Found at i:726692 original size:13 final size:13
Alignment explanation
Indices: 726670--726739 Score: 74
Period size: 13 Copynumber: 5.4 Consensus size: 13
726660 TCTTCCCCCT
726670 TTTTTATTTGTTTG
1 TTTTT-TTTGTTTG
726684 TTTTTTTTGTATGTG
1 TTTTTTTTGT-T-TG
*
726699 TTTTTTTTCTTTG
1 TTTTTTTTGTTTG
726712 --TTTTTTGTTTG
1 TTTTTTTTGTTTG
*
726723 TTTTTTGTGTTT-
1 TTTTTTTTGTTTG
726735 TTTTT
1 TTTTT
726740 ACGAAGGATG
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
11 10 0.20
12 5 0.10
13 16 0.33
14 7 0.14
15 11 0.22
ACGTcount: A:0.03, C:0.01, G:0.14, T:0.81
Consensus pattern (13 bp):
TTTTTTTTGTTTG
Found at i:726729 original size:11 final size:11
Alignment explanation
Indices: 726701--726739 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
726691 TGTATGTGTT
*
726701 TTTTTTCTTTG
1 TTTTTTGTTTG
726712 TTTTTTGTTTG
1 TTTTTTGTTTG
726723 TTTTTTGTGTT-
1 TTTTTTGT-TTG
726734 TTTTTT
1 TTTTTT
726740 ACGAAGGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 24 0.92
12 2 0.08
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.85
Consensus pattern (11 bp):
TTTTTTGTTTG
Found at i:736197 original size:27 final size:26
Alignment explanation
Indices: 736136--736186 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
736126 AGTTTTTTCG
*
736136 TTGAAAAATGGGATTGGAGTATCCTA
1 TTGAAAAATGGGATTGGAGTATCCGA
*
736162 TTAGAAAAATGGGGTTGGAGTATCC
1 TT-GAAAAATGGGATTGGAGTATCC
736187 CCGATGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (26 bp):
TTGAAAAATGGGATTGGAGTATCCGA
Found at i:749008 original size:64 final size:63
Alignment explanation
Indices: 748871--749039 Score: 198
Period size: 64 Copynumber: 2.7 Consensus size: 63
748861 TAAAAAAGTG
* * * * * *
748871 AATGCTTGGATGAAATCTCG-AAACGATGTTCAGGCTAAAAAAAGAGGAAAAAAAATGAATGAC
1 AATGCTTGGATGAAAACCCGAAAAAG-CGTTCAGGCTAAAAAAAAAAGAAAAAAAATGAATGAC
* * *
748934 AATGCTTGGATGAAAACCTGAAAAAGCGTTCAGGCTAAAAAAAAAAGAGGAAAAAATGAATGAT
1 AATGCTTGGATGAAAACCCGAAAAAGCGTTCAGGCTAAAAAAAAAAGA-AAAAAAATGAATGAC
** *
748998 AATGCTTGGATGAAAACCCGAAAGGGCATTCAGG-TAAAAAAA
1 AATGCTTGGATGAAAACCCGAAAAAGCGTTCAGGCTAAAAAAA
749040 TTAAATGAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
63 44 0.48
64 47 0.52
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.18
Consensus pattern (63 bp):
AATGCTTGGATGAAAACCCGAAAAAGCGTTCAGGCTAAAAAAAAAAGAAAAAAAATGAATGAC
Found at i:749860 original size:78 final size:78
Alignment explanation
Indices: 749679--749849 Score: 229
Period size: 78 Copynumber: 2.2 Consensus size: 78
749669 TTCAGCCCGA
** * *
749679 CCACACATTCTTAATCATATCCTTCCTTCCCAAATAATAGATGATATTGGTGCATCACAAGGCCA
1 CCACACATTCCCAATCATATCCTTCCTTACCAAATAATAGATGATATTGGTGCATCACAAGACCA
749744 AAAGGGGCACTTC
66 AAAGGGGCACTTC
* * * *
749757 CCACACATTCCCAATCATATCCTTCCTTACCAAATACTAGATGATGTTGGTGCCTCATAA-ACCT
1 CCACACATTCCCAATCATATCCTTCCTTACCAAATAATAGATGATATTGGTGCATCACAAGACC-
*
749821 AAAGGGGGCACTTC
65 AAAAGGGGCACTTC
*
749835 TCACACATT-CCAATC
1 CCACACATTCCCAATC
749850 GCATTCCTTC
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
77 8 0.10
78 74 0.90
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (78 bp):
CCACACATTCCCAATCATATCCTTCCTTACCAAATAATAGATGATATTGGTGCATCACAAGACCA
AAAGGGGCACTTC
Found at i:750586 original size:42 final size:41
Alignment explanation
Indices: 750399--751107 Score: 417
Period size: 43 Copynumber: 16.7 Consensus size: 41
750389 TCATCTTTTA
* * **
750399 TCTGCCCGTCGGCTTAGACCCAGGAGACTTCCTT-TTTCAATCG
1 TCTGCCCATCGGCTTAGACCGA-GAGACTT--TTCCATCAATCG
* * * *
750442 TCTGCCCATCAGCTCAGACTTGAGAGA--TTTCCTTTATCTATCG
1 TCTGCCCATCGGCTTAGAC-CGAGAGACTTTTCC---ATCAATCG
* * * ** *
750485 TCTGCCCGTCAGCTAAGACCCGAGAGACTTCCTT-TGTCAATCA
1 TCTGCCCATCGGCTTAGA-CCGAGAGACTT--TTCCATCAATCG
* * * *
750528 TCTACCCGTTGGCTTAGACTCGAGAGACTTTTCCATCAATCT
1 TCTGCCCATCGGCTTAGAC-CGAGAGACTTTTCCATCAATCG
* **
750570 TCTGCCCATCGACTTAGACCTGAGAGACTTCCTT-TGTCAATCG
1 TCTGCCCATCGGCTTAGACC-GAGAGACTT--TTCCATCAATCG
* * **
750613 TCTGCCCATAGGCTCAGACCTGAGAGACTTCCTT-TGTCAATCG
1 TCTGCCCATCGGCTTAGACC-GAGAGACTT--TTCCATCAATCG
* * * *
750656 TCTACCCGTTGGCTTAGACTCGAGAGATTTTTCCATCAATCG
1 TCTGCCCATCGGCTTAGAC-CGAGAGACTTTTCCATCAATCG
* * * **
750698 TCTGCCCATCGACTTAGACCTAAGGGACTTCCTT-TGTCAATCG
1 TCTGCCCATCGGCTTAGACC-GAGAGACTT--TTCCATCAATCG
* * * * * **
750741 TCTGCCCATCGACTCAAACTTGGGAGACTTTGTTTATCAATCG
1 TCTGCCCATCGGCTTAGAC-CGAGAGACTTT-TCCATCAATCG
* * ** *
750784 TCTGCCCGTCGGCTTAGACCTAGGAGACTTTTTTATTAATCG
1 TCTGCCCATCGGCTTAGACCGA-GAGACTTTTCCATCAATCG
* *
750826 TCTCCCCATCAGCTTAGACTCGAGAGACTTTTCCATCAATCG
1 TCTGCCCATCGGCTTAGAC-CGAGAGACTTTTCCATCAATCG
* * ***
750868 TTTGCCCATCGGCTTAGACTCGGGAGACTTCTTTTGTCAATCG
1 TCTGCCCATCGGCTTAGAC-CGAGAGACTT-TTCCATCAATCG
* * * *
750911 TATGCCCATCAGCTTAGACCTGGGAGACTCTTT-CATCAATCA
1 TCTGCCCATCGGCTTAGACC-GAGAGACT-TTTCCATCAATCG
* *
750953 TCTGCCCATCGGCTTAGACCTAAGAGACTTTTCCATCAATCA
1 TCTGCCCATCGGCTTAGACC-GAGAGACTTTTCCATCAATCG
* * * * *
750995 TCTGCCCGTCGGCTTAGCCCGGGAGACTTTTTCATTAATCG
1 TCTGCCCATCGGCTTAGACCGAGAGACTTTTCCATCAATCG
** * * *
751036 TCTGCCTGTCGGCTTAGACTCGGGAGACTTTTCCATTAATCA
1 TCTGCCCATCGGCTTAGAC-CGAGAGACTTTTCCATCAATCG
* * * *
751078 TCTGCCCGTCGACTTTGACCCAAGAGACTT
1 TCTGCCCATCGGCTTAGA-CCGAGAGACTT
751108 CCTTTGTCAA
Statistics
Matches: 533, Mismatches: 102, Indels: 63
0.76 0.15 0.09
Matches are distributed among these distances:
39 2 0.00
41 44 0.08
42 230 0.43
43 246 0.46
44 8 0.02
45 1 0.00
47 2 0.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (41 bp):
TCTGCCCATCGGCTTAGACCGAGAGACTTTTCCATCAATCG
Found at i:750605 original size:85 final size:83
Alignment explanation
Indices: 750399--751131 Score: 454
Period size: 85 Copynumber: 8.6 Consensus size: 83
750389 TCATCTTTTA
* * * * * * *
750399 TCTGCCCGTCGGCTTAGACC-CAGGAGACTTCCTTTTTCAATCGTCTGCCCATCAGCTCAGACTT
1 TCTGCCCATCGACTTAGACCTGA-GAGACTT-CTTTATCAATCGTCTGCCCATCGGCTTAGAC-C
* *
750463 GAGAGA-TTTCCTTTATCTATCG
63 GAGAGACTTT--TCTATCAATCG
* * * * * * * *
750485 TCTGCCCGTC-AGCTAAGACCCGAGAGACTTCCTTTGTCAATCATCTACCCGTTGGCTTAGACTC
1 TCTGCCCATCGA-CTTAGACCTGAGAGACTT-CTTTATCAATCGTCTGCCCATCGGCTTAGAC-C
* *
750549 GAGAGACTTTTCCATCAATCT
63 GAGAGACTTTTCTATCAATCG
* * *
750570 TCTGCCCATCGACTTAGACCTGAGAGACTTCCTTTGTCAATCGTCTGCCCATAGGCTCAGACCTG
1 TCTGCCCATCGACTTAGACCTGAGAGACTT-CTTTATCAATCGTCTGCCCATCGGCTTAGACC-G
*
750635 AGAGACTTCCTT-TGTCAATCG
64 AGAGACTT--TTCTATCAATCG
* * * * *
750656 TCTACCCGTTGGCTTAGA-CTCGAGAGA-TT-TTTCCATCAATCGTCTGCCCATCGACTTAGACC
1 TCTGCCCATCGACTTAGACCT-GAGAGACTTCTTT--ATCAATCGTCTGCCCATCGGCTTAGACC
* * *
750718 TAAGGGACTTCCTT-TGTCAATCG
63 -GAGAGACTT--TTCTATCAATCG
* * * * * * *
750741 TCTGCCCATCGACTCAAACTTGGGAGACTTTGTTTATCAATCGTCTGCCCGTCGGCTTAGACCTA
1 TCTGCCCATCGACTTAGACCTGAGAGAC-TTCTTTATCAATCGTCTGCCCATCGGCTTAGACCGA
* *
750806 GGAGACTTTTTTATTAATCG
65 -GAGACTTTTCTATCAATCG
* * *
750826 TCTCCCCATC-AGCTTAGA-CTCGAGAGACTT-TTCCATCAATCGTTTGCCCATCGGCTTAGACT
1 TCTGCCCATCGA-CTTAGACCT-GAGAGACTTCTT-TATCAATCGTCTGCCCATCGGCTTAGAC-
* * *
750888 CGGGAGACTTCTTTTGTCAATCG
62 CGAGAGACTT-TTCTATCAATCG
* * *
750911 TATGCCCATC-AGCTTAGACCTGGGAGAC-TCTTTCATCAATCATCTGCCCATCGGCTTAGACCT
1 TCTGCCCATCGA-CTTAGACCTGAGAGACTTCTTT-ATCAATCGTCTGCCCATCGGCTTAGACC-
* * *
750974 AAGAGACTTTTCCATCAATCA
63 GAGAGACTTTTCTATCAATCG
* * * * * **
750995 TCTGCCCGTCGGCTTAG-CCCGGGAGACTT-TTTCATTAATCGTCTGCCTGTCGGCTTAGACTCG
1 TCTGCCCATCGACTTAGACCTGAGAGACTTCTTT-ATCAATCGTCTGCCCATCGGCTTAGAC-CG
* * * *
751058 GGAGACTTTTCCATTAATCA
64 AGAGACTTTTCTATCAATCG
* * ** *
751078 TCTGCCCGTCGACTTTGACCCAAGAGACTTCCTTTGTCAATCG-CTTGCCCATCG
1 TCTGCCCATCGACTTAGACCTGAGAGACTT-CTTTATCAATCGTC-TGCCCATCG
751132 ACTCAAACCC
Statistics
Matches: 522, Mismatches: 93, Indels: 65
0.77 0.14 0.10
Matches are distributed among these distances:
83 74 0.14
84 75 0.14
85 241 0.46
86 121 0.23
87 8 0.02
88 3 0.01
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (83 bp):
TCTGCCCATCGACTTAGACCTGAGAGACTTCTTTATCAATCGTCTGCCCATCGGCTTAGACCGAG
AGACTTTTCTATCAATCG
Found at i:750632 original size:128 final size:128
Alignment explanation
Indices: 750399--751147 Score: 657
Period size: 128 Copynumber: 5.9 Consensus size: 128
750389 TCATCTTTTA
* ** *
750399 TCTGCCCGTCGGCTTAGAC-CCAGGAGACTTCCTT-TTTCAATCGTCTGCCCATC-AGCTCAGAC
1 TCTGCCCGTCGGCTTAGACTCGA-GAGACTT--TTCCATCAATCGTCTGCCCATCGA-CTTAGAC
* * * * * * *
750461 TTGAGAGATTTCCTTTATCTATCGTCTGCCCGTCAGCTAAGACCCGAGAGACTTCCTTTGTCAAT
62 CTAAGAGACTTCCTTTATCAATCGTCTGCCCATCGGCTCAGACCCGAGAGACTTCCTTTGTCAAT
*
750526 CA
127 CG
* * * *
750528 TCTACCCGTTGGCTTAGACTCGAGAGACTTTTCCATCAATCTTCTGCCCATCGACTTAGACCTGA
1 TCTGCCCGTCGGCTTAGACTCGAGAGACTTTTCCATCAATCGTCTGCCCATCGACTTAGACCTAA
* * *
750593 GAGACTTCCTTTGTCAATCGTCTGCCCATAGGCTCAGACCTGAGAGACTTCCTTTGTCAATCG
66 GAGACTTCCTTTATCAATCGTCTGCCCATCGGCTCAGACCCGAGAGACTTCCTTTGTCAATCG
* * *
750656 TCTACCCGTTGGCTTAGACTCGAGAGATTTTTCCATCAATCGTCTGCCCATCGACTTAGACCTAA
1 TCTGCCCGTCGGCTTAGACTCGAGAGACTTTTCCATCAATCGTCTGCCCATCGACTTAGACCTAA
* * * * ** * ** *
750721 GGGACTTCCTTTGTCAATCGTCTGCCCATCGACTCAAACTTGGGAGACTTTGTTTATCAATCG
66 GAGACTTCCTTTATCAATCGTCTGCCCATCGGCTCAGACCCGAGAGACTTCCTTTGTCAATCG
* ** * *
750784 TCTGCCCGTCGGCTTAGAC-CTAGGAGACTTTTTTATTAATCGTCTCCCCATC-AGCTTAGA-CT
1 TCTGCCCGTCGGCTTAGACTCGA-GAGACTTTTCCATCAATCGTCTGCCCATCGA-CTTAGACCT
* * * * * * *
750846 CGAGAGACTT--TTCCATCAATCGTTTGCCCATCGGCTTAGACTCGGGAGACTTCTTTTGTCAAT
64 -AAGAGACTTCCTT-TATCAATCGTCTGCCCATCGGCTCAGACCCGAGAGACTTCCTTTGTCAAT
750909 CG
127 CG
* * * * * *
750911 TATGCCCATCAGCTTAGAC-CTGGGAGACTCTTT-CATCAATCATCTGCCCATCGGCTTAGACCT
1 TCTGCCCGTCGGCTTAGACTC-GAGAGACT-TTTCCATCAATCGTCTGCCCATCGACTTAGACCT
* * * * * * *
750974 AAGAGACTT--TTCCATCAATCATCTGCCCGTCGGCTTAG-CCCGGGAGACTT--TTTCATTAAT
64 AAGAGACTTCCTT-TATCAATCGTCTGCCCATCGGCTCAGACCCGAGAGACTTCCTTT-GTCAAT
751034 CG
127 CG
* * * * * * *
751036 TCTGCCTGTCGGCTTAGACTCGGGAGACTTTTCCATTAATCATCTGCCCGTCGACTTTGACCCAA
1 TCTGCCCGTCGGCTTAGACTCGAGAGACTTTTCCATCAATCGTCTGCCCATCGACTTAGACCTAA
* * * *
751101 GAGACTTCCTTTGTCAATCG-CTTGCCCATCGACTCAAACCCAAGAGA
66 GAGACTTCCTTTATCAATCGTC-TGCCCATCGGCTCAGACCCGAGAGA
751148 TCATATGCAA
Statistics
Matches: 518, Mismatches: 84, Indels: 38
0.81 0.13 0.06
Matches are distributed among these distances:
124 6 0.01
125 64 0.12
126 31 0.06
127 136 0.26
128 254 0.49
129 25 0.05
130 2 0.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (128 bp):
TCTGCCCGTCGGCTTAGACTCGAGAGACTTTTCCATCAATCGTCTGCCCATCGACTTAGACCTAA
GAGACTTCCTTTATCAATCGTCTGCCCATCGGCTCAGACCCGAGAGACTTCCTTTGTCAATCG
Found at i:751708 original size:13 final size:13
Alignment explanation
Indices: 751687--751721 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
751677 AATGTTTTAA
751687 GTATCGATACATT
1 GTATCGATACATT
*
751700 GTATTGATACATT
1 GTATCGATACATT
751713 GTATCGATA
1 GTATCGATA
751722 TAAGGTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:755976 original size:72 final size:73
Alignment explanation
Indices: 755771--756437 Score: 278
Period size: 73 Copynumber: 8.9 Consensus size: 73
755761 CTCATTTTTC
* * * * * *
755771 TCTAGTCCTCAAAGAGTAAGACGCTTTGCTTACCTACGACAAAGCCTATACGAGCTAATGGCACC
1 TCTAGTCCTCAAAGAGT-AGACGCTTTTCTTACCTACCACAAAGCCCACACAAGCTAGTGGCACC
* *
755836 TATCTACTT
65 TATCTAATG
* * * * *
755845 TC-AATCCTCAAAGAGTAGAATGTTTTTCTTACCTATCACAAAGCCCACACAA-ATCAGTGGCAC
1 TCTAGTCCTCAAAGAGTAG-ACGCTTTTCTTACCTACCACAAAGCCCACACAAGCT-AGTGGCAC
755908 CTATC-AATG
64 CTATCTAATG
* *
755917 TCTAGTCCTCAAAGAGCTAGACG-TTTTCTTACTTACCATAAAGCCCACACAAGCTAGTGGTAAG
1 TCTAGTCCTCAAAGAG-TAGACGCTTTTCTTACCTACCACAAAGCCCACACAAGCTAGT-G---G
* * *
755981 CCACACAAGCTAGTGG
61 -CAC-CTATCTAAT-G
* ** * * * * *
755997 TACCTATTTACCTCTAATCTTCAAAGAACAAGATGATTTTCTTACCTACTACAAAGGCTACACAA
1 T--CTA-GT-CCT--------CAAAG-AGTAGACGCTTTTCTTACCTACCACAAAGCCCACACAA
* * *
756062 GCTAGTGACACCTATCTACTT
53 GCTAGTGGCACCTATCTAATG
* * * * * *
756083 TC-AATCTTCAAAGAGCAAGAAG-TTTTCTTACCTACCATAAAGCCCACACAAGCTGGTGGCACC
1 TCTAGTCCTCAAAGAG-TAGACGCTTTTCTTACCTACCACAAAGCCCACACAAGCTAGTGGCACC
**
756146 TATCT-ACC
65 TATCTAATG
* * * * ** * * *
756154 TCTAGTCCTCAAAAAGCAAAACGTTTTTTCTTACCTACCGTAAAGCCCACACAGGTTGGTGGCAC
1 TCTAGTCCTCAAAGAG-TAGACG-CTTTTCTTACCTACCACAAAGCCCACACAAGCTAGTGGCAC
*
756219 CTATCT-ATT
64 CTATCTAATG
* * * * * * * * *
756228 TTTAGTCATCAAATAGCATGAAGCTTTTCTTACCTACCACACAGCCCAAACAAACTTGTGGCACC
1 TCTAGTCCTCAAAGAGTA-GACGCTTTTCTTACCTACCACAAAGCCCACACAAGCTAGTGGCACC
***
756293 TATCTACCA
65 TATCTAATG
* * * * * * * * *
756302 T-TAATCTTCAAAAAGTAGGATGATTTT-TTACCTACCGCAAAGCCCATACAAGCTGGTGACACC
1 TCTAGTCCTCAAAGAGTA-GACGCTTTTCTTACCTACCACAAAGCCCACACAAGCTAGTGGCACC
**
756365 TATCT-ACC
65 TATCTAATG
* * * * * * *
756373 T-TAGTCCACAAAAAGCTAGACTCATTTTCTTACCTACCTCAAAGCCCATATAAGCTTGTGGCAC
1 TCTAGTCCTCAAAGAG-TAGACGC-TTTTCTTACCTACCACAAAGCCCACACAAGCTAGTGGCAC
756437 C
64 C
756438 ACGTAAACCT
Statistics
Matches: 455, Mismatches: 102, Indels: 73
0.72 0.16 0.12
Matches are distributed among these distances:
71 17 0.04
72 133 0.29
73 166 0.36
74 65 0.14
76 1 0.00
77 3 0.01
78 3 0.01
79 2 0.00
80 2 0.00
81 2 0.00
82 4 0.01
83 2 0.00
84 4 0.01
86 1 0.00
87 6 0.01
88 3 0.01
92 10 0.02
93 31 0.07
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (73 bp):
TCTAGTCCTCAAAGAGTAGACGCTTTTCTTACCTACCACAAAGCCCACACAAGCTAGTGGCACCT
ATCTAATG
Found at i:755986 original size:20 final size:20
Alignment explanation
Indices: 755961--755998 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
755951 ACCATAAAGC
755961 CCACACAAGCTAGTGGTAAG
1 CCACACAAGCTAGTGGTAAG
755981 CCACACAAGCTAGTGGTA
1 CCACACAAGCTAGTGGTA
755999 CCTATTTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (20 bp):
CCACACAAGCTAGTGGTAAG
Found at i:756102 original size:73 final size:72
Alignment explanation
Indices: 755981--756437 Score: 350
Period size: 73 Copynumber: 6.3 Consensus size: 72
755971 TAGTGGTAAG
* * * * *
755981 CCACACAAGCTAGTGGTACCTATTTACCTCTAATCTTCAAAGAA-CAAGATGATTTTCTTACCTA
1 CCACACAAGCTGGTGGCACCTATCTACTTC-AATCTTCAAA-AAGCAAGAAGATTTTCTTACCTA
* *
756045 CTACAAAGG
64 CCACAAAGC
* * * *
756054 CTACACAAGCTAGTGACACCTATCTACTTTCAATCTTCAAAGAGCAAGAAG-TTTTCTTACCTAC
1 CCACACAAGCTGGTGGCACCTATCTAC-TTCAATCTTCAAAAAGCAAGAAGATTTTCTTACCTAC
*
756118 CATAAAGC
65 CACAAAGC
* * * *
756126 CCACACAAGCTGGTGGCACCTATCTACCTCTAGTCCTCAAAAAGCAA-AACGTTTTTTCTTACCT
1 CCACACAAGCTGGTGGCACCTATCTACTTC-AATCTTCAAAAAGCAAGAA-G-ATTTTCTTACCT
**
756190 ACCGTAAAGC
63 ACCACAAAGC
* * * * * * * * *
756200 CCACACAGGTTGGTGGCACCTATCTATTTTTAGTCATCAAATAGCATGAAGCTTTTCTTACCTAC
1 CCACACAAGCTGGTGGCACCTATCTA-CTTCAATCTTCAAAAAGCAAGAAGATTTTCTTACCTAC
*
756265 CACACAGC
65 CACAAAGC
* * * * * *
756273 CCAAACAAACTTGTGGCACCTATCTACCATT-AATCTTCAAAAAGTAGGATGATTTT-TTACCTA
1 CCACACAAGCTGGTGGCACCTATCTA-C-TTCAATCTTCAAAAAGCAAGAAGATTTTCTTACCTA
*
756336 CCGCAAAGC
64 CCACAAAGC
* * * ** * **
756345 CCATACAAGCTGGTGACACCTATCTACCTT-AGTCCACAAAAAGCTAGACTCATTTTCTTACCTA
1 CCACACAAGCTGGTGGCACCTATCTA-CTTCAATCTTCAAAAAGCAAGA-AGATTTTCTTACCTA
*
756409 CCTCAAAGC
64 CCACAAAGC
* * *
756418 CCATATAAGCTTGTGGCACC
1 CCACACAAGCTGGTGGCACC
756438 ACGTAAACCT
Statistics
Matches: 312, Mismatches: 61, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
71 18 0.06
72 101 0.32
73 128 0.41
74 62 0.20
75 3 0.01
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (72 bp):
CCACACAAGCTGGTGGCACCTATCTACTTCAATCTTCAAAAAGCAAGAAGATTTTCTTACCTACC
ACAAAGC
Found at i:756419 original size:145 final size:143
Alignment explanation
Indices: 755985--756437 Score: 416
Period size: 145 Copynumber: 3.1 Consensus size: 143
755975 GGTAAGCCAC
* * * **
755985 ACAAGCTAGTGGTACCTATTTACCTCTAATCTTCAAAGAA-CAAGATGATTTTCTTACCTACTAC
1 ACAAGCTTGTGGCACCTATCTACCTCTAATCTTCAAA-AAGCAAGATGATTTTCTTACCTACCGC
* * * * ** *
756049 AAAGGCTACACAAGCTAGTGACACCTATCTACTTTCAATCTTCAAAGAGCAAGA-AGTTTTCTTA
65 AAAGCCCACACAAGCTGGTGACACCTATCTACTTT-AGTCCACAAAAAGC-AGACA-TTTTCTTA
*
756113 CCTACCAT-AAAGCCCAC
127 CCTACC-TCAAAGCCCAA
* * * * * * *
756130 ACAAGCTGGTGGCACCTATCTACCTCTAGTCCTCAAAAAGCAAAACGTTTTTTCTTACCTACCGT
1 ACAAGCTTGTGGCACCTATCTACCTCTAATCTTCAAAAAGCAAGATG-ATTTTCTTACCTACCGC
* * * * *
756195 AAAGCCCACACAGGTTGGTGGCACCTATCTATTTTTAGT-CATCAAATAGCATGA-AGCTTTTCT
65 AAAGCCCACACAAGCTGGTGACACCTATCTA-CTTTAGTCCA-CAAAAAGCA-GACA--TTTTCT
* *
756258 TACCTACCACACAGCCCAA
125 TACCTACCTCAAAGCCCAA
* * *
756277 ACAAACTTGTGGCACCTATCTACCAT-TAATCTTCAAAAAGTAGGATGATTTT-TTACCTACCGC
1 ACAAGCTTGTGGCACCTATCTACC-TCTAATCTTCAAAAAGCAAGATGATTTTCTTACCTACCGC
* *
756340 AAAGCCCATACAAGCTGGTGACACCTATCTACCTTAGTCCACAAAAAGCTAGACTCATTTTCTTA
65 AAAGCCCACACAAGCTGGTGACACCTATCTACTTTAGTCCACAAAAAGC-AGA--CATTTTCTTA
*
756405 CCTACCTCAAAGCCCAT
127 CCTACCTCAAAGCCCAA
*
756422 ATAAGCTTGTGGCACC
1 ACAAGCTTGTGGCACC
756438 ACGTAAACCT
Statistics
Matches: 247, Mismatches: 48, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
144 16 0.06
145 114 0.46
146 54 0.22
147 62 0.25
148 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (143 bp):
ACAAGCTTGTGGCACCTATCTACCTCTAATCTTCAAAAAGCAAGATGATTTTCTTACCTACCGCA
AAGCCCACACAAGCTGGTGACACCTATCTACTTTAGTCCACAAAAAGCAGACATTTTCTTACCTA
CCTCAAAGCCCAA
Found at i:762530 original size:18 final size:19
Alignment explanation
Indices: 762483--762532 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
762473 TATGTTGCAC
*
762483 TTTTGATGATTTATTTGGT
1 TTTTGATGATTTATGTGGT
*
762502 TTATCTTATGATTT-TGTGGT
1 TT-T-TGATGATTTATGTGGT
762522 TTTTGATGATT
1 TTTTGATGATT
762533 GTGCTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 7 0.27
19 3 0.12
20 8 0.31
21 8 0.31
ACGTcount: A:0.16, C:0.02, G:0.20, T:0.62
Consensus pattern (19 bp):
TTTTGATGATTTATGTGGT
Found at i:770806 original size:20 final size:20
Alignment explanation
Indices: 770781--770904 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
770771 AATTAACTAG
770781 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
770801 ATGTATCGATACATCTGGGTAAAAAAATAGA
1 ATGTATCGATACAT-T--G------AAT--A
*
770832 ATGTATCGATACATTGAACA
1 ATGTATCGATACATTGAATA
* *
770852 ATGTATTGATACATT-CATA
1 ATGTATCGATACATTGAATA
*
770871 CATATATCGATACATTGAA-A
1 -ATGTATCGATACATTGAATA
770891 ATGTATCGATACAT
1 ATGTATCGATACAT
770905 CTCGATAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 27
0.70 0.07 0.23
Matches are distributed among these distances:
19 15 0.18
20 43 0.52
21 2 0.02
22 2 0.02
23 1 0.01
28 1 0.01
29 3 0.04
30 1 0.01
31 15 0.18
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:770849 original size:51 final size:47
Alignment explanation
Indices: 770781--770934 Score: 153
Period size: 51 Copynumber: 3.3 Consensus size: 47
770771 AATTAACTAG
770781 ATGTATCGATACATTGAATAATGTATCGATACATCTGGGTAAAAAAATAGA
1 ATGTATCGATACATTGAA-AATGTATCGATACATCT--GT-AAAAAATAGA
* * *
770832 ATGTATCGATACATTGAACAATGTATTGATACA--T-T----CATA-C
1 ATGTATCGATACATTGAA-AATGTATCGATACATCTGTAAAAAATAGA
*
770872 ATATATCGATACATTGAAAATGTATCGATACATCTCGATAAAAAATAGA
1 ATGTATCGATACATTGAAAATGTATCGATACATCT-G-TAAAAAATAGA
770921 ATGTATCGATACAT
1 ATGTATCGATACAT
770935 GTACTATTTA
Statistics
Matches: 84, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
39 13 0.15
40 17 0.20
41 4 0.05
44 1 0.01
46 1 0.01
48 3 0.04
49 14 0.17
51 31 0.37
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (47 bp):
ATGTATCGATACATTGAAAATGTATCGATACATCTGTAAAAAATAGA
Found at i:771992 original size:28 final size:29
Alignment explanation
Indices: 771914--772522 Score: 590
Period size: 28 Copynumber: 21.5 Consensus size: 29
771904 CACTAACTTG
* * *
771914 TGTGGGCTTTGAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTTAAAAG-GATGCCACTGAC-T
* *
771945 GTGTGGGC-TTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTTAAAAGGATGCCACTGACT
* ** *
771974 TGTGGACTTCAAAAAGG-TGCCACTAACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
** *
772002 TGTGGGCTTCAAAAAGG-TGCCACTAACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
* * *
772030 TGTGGGC-TTTGAAGGGGTGCCACTGACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
* *
772058 TATGGAC-TTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
* *
772086 TGTGGGC-TTTGAAAGGATGTCACTGACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
* * *
772114 TATGGG-TTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
772142 TGTGGGC-TTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
**
772170 TGTGGGC-TTGGAAAGGATGCCACTGACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
772198 TGTGGGC-TTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
* * *
772226 TGTGGAC-TTT-AGAGAGATACCACTGACT
1 TGTGGGCTTTTAAAAG-GATGCCACTGACT
* * *
772254 TGTGGGCTTTGAAGA-GTTGCCACTGACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
* *
772282 TGTGGGC-TGTAAAAGG-TGCCATTGACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
* * *
772309 TGT-GGCCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
* *
772337 TGTGGGCTTTGAAAAGGATGCCACTCACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
* * * *
772366 TATGGGCTTTTGAAAGGACGCCACTAACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
* *
772395 TGTGGGCTTTGAAAAGGATGCCACTAACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
* * *
772424 TGTGGAC-TTTGAAATGATGCCACTGACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
* *
772452 TGTGGGC-TTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
* *
772480 TGTGGGC-TTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTTAAAAGGATGCCACTGACT
*
772508 TGTGGGCTTTGAAAA
1 TGTGGGCTTTTAAAA
772523 AGGTCGTATT
Statistics
Matches: 493, Mismatches: 72, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.01
27 32 0.06
28 343 0.70
29 89 0.18
30 13 0.03
31 6 0.01
32 7 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTTAAAAGGATGCCACTGACT
Found at i:772051 original size:84 final size:84
Alignment explanation
Indices: 771901--772522 Score: 678
Period size: 84 Copynumber: 7.3 Consensus size: 84
771891 AAAAAAAATG
* *
771901 TGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAGGGTGC
1 TGCCACTAAC-T-TGTGGGCTTTGAAAAG-G-TGCCACTGAC-T-TGTGGGCTTTGAAAGGATGC
771966 CACTGACTTGTGGACTTCAAAAAGG-
60 CACTGACTTGTGGACTT-AAAAAGGA
** * * *
771991 TGCCACTAACTTGTGGGCTTCAAAAAGGTGCCACTAACTTGTGGGCTTTGAAGGGGTGCCACTGA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* *
772056 CTTATGGACTTTAAAAGGA
66 CTTGTGGACTTAAAAAGGA
* * * * *
772075 TGCCACTGACTTGTGGGCTTTG-AAAGGATGTCACTGACTTATGGGTTTTGAAAGGATGCCACTA
1 TGCCACTAACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTG
* *
772139 ACTTGTGGGCTTTAAAAGGA
65 ACTTGTGGACTTAAAAAGGA
* * *
772159 TGCCACTGACTTGTGGGC-TTGGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTG
1 TGCCACTAACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTG
* *
772223 ACTTGTGGACTT-TAGAGAGA
65 ACTTGTGGACTTAAAAAG-GA
* * * * * * *
772243 TACCACTGACTTGTGGGCTTTGAAGAGTTGCCACTGACTTGTGGGCTGTAAAAGG-TGCCATTGA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* ** *
772307 CTTGTGGCCTTTGAAAGGG
66 CTTGTGGACTTAAAAAGGA
* * * *
772326 TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTCACTTATGGGCTTTTGAAAGGACGCCACT
1 TGCCACTAACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGC-TTTGAAAGGATGCCACT
* * *
772391 AACTTGTGGGCTTTGAAAAGGA
64 GACTTGTGGAC-TTAAAAAGGA
* * * *
772413 TGCCACTAACTTGTGGACTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* **
772478 CTTGTGGGCTTTGAAAGGA
66 CTTGTGGACTTAAAAAGGA
772497 TGCCACTAACTTGTGGGCTTTGAAAA
1 TGCCACTAACTTGTGGGCTTTGAAAA
772523 AGGTCGTATT
Statistics
Matches: 460, Mismatches: 62, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
83 61 0.13
84 263 0.57
85 41 0.09
86 38 0.08
87 32 0.07
88 14 0.03
89 1 0.00
90 10 0.02
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (84 bp):
TGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
CTTGTGGACTTAAAAAGGA
Found at i:773813 original size:13 final size:12
Alignment explanation
Indices: 773795--773837 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
773785 TAGACCCTTC
*
773795 TTTTTTGTTTGT
1 TTTTTTTTTTGT
773807 TTTTTTTTTTGT
1 TTTTTTTTTTGT
773819 TTTTTTTTTTGGT
1 TTTTTTTTTT-GT
773832 TTTTTT
1 TTTTTT
773838 GGTACGAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 21 0.72
13 8 0.28
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTTGT
Found at i:773837 original size:16 final size:16
Alignment explanation
Indices: 773795--773828 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
773785 TAGACCCTTC
773795 TTTTTTGTTTGTTTTT
1 TTTTTTGTTTGTTTTT
773811 TTTTTTGTTT-TTTTT
1 TTTTTTGTTTGTTTTT
773826 TTT
1 TTT
773829 GGTTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (16 bp):
TTTTTTGTTTGTTTTT
Found at i:776857 original size:51 final size:51
Alignment explanation
Indices: 776787--776902 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
776777 AAATAGTGGG
* * * * *
776787 GTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAATCGAA
1 GTTGGAGTATCCCCAATTGTGAAAAACTGGTATTTTAGAAATAAAATCGAA
* **
776838 GTTGGAGTATCCTCAATTGTGAAAAACTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCAATTGTGAAAAACTGGTATTTTAGAAATAAAATCGAA
776889 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
776903 TCAAAAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTGTGAAAAACTGGTATTTTAGAAATAAAATCGAA
Found at i:776921 original size:79 final size:78
Alignment explanation
Indices: 776838--777170 Score: 407
Period size: 79 Copynumber: 4.2 Consensus size: 78
776828 TAAAATCGAA
* * * *
776838 GTTGGAGTATCCTCAATTGTGAAAAACTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAACT-ATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCC
776903 TCAAAAATAACGGG
65 TCAAAAATAACGGG
* **
776917 GTTGGAGTATCCCCGATTGTGAAAAATCTATGTTTTAGAAATAAAGCCGGGGTTAGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAA-CTATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCC
** *
776982 TCGGAAATAACAGG
65 TCAAAAATAACGGG
* * * * *
776996 GTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGGAATAAAGTCGAGGTTAGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAACT-ATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCC
* *
777061 TCGAAAATAATGGG
65 TCAAAAATAACGGG
* * * * *
777075 GTTGGAGTATCCCCGATTGTGAGAAATCTATATTTTAGAAAT-AAAGCTAGCGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGA-AAAACTATATTTTAGAAATAAAATC-GGGGTTAGAGTATCCC
*
777139 TTCAAAAATAACGGG
64 CTCAAAAATAACGGG
777154 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
777171 GATTAATGGG
Statistics
Matches: 218, Mismatches: 32, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
78 4 0.02
79 209 0.96
80 5 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (78 bp):
GTTGGAGTATCCCCGATTGTGAAAAACTATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCT
CAAAAATAACGGG
Found at i:776976 original size:130 final size:130
Alignment explanation
Indices: 776738--776979 Score: 337
Period size: 130 Copynumber: 1.9 Consensus size: 130
776728 AGAAAATCGA
* **
776738 TATTTTGAAAATAAAATCGGGGTTGGAGTATCCTTGCAAAAATAGTGGGGTTGGAGTATCCCCGA
1 TATTTTGAAAATAAAATCGGGGTTGGAGTATCCCTGCAAAAATAACGGGGTTGGAGTATCCCCGA
* * * * *
776803 TTGTGAGAAATTGGTGTTTTGGAAATAAAATCGAAGTTGGAGTATCCTCAATTGTGAAAAACTGG
66 TTGTGAAAAATTGATGTTTTAGAAATAAAACCGAAGTTAGAGTATCCTCAATTGTGAAAAACTGG
776868 TATTTT-AGAAATAAAATCGGGGTTGGAGTATCCCCT-CAAAAATAACGGGGTTGGAGTATCCCC
1 TATTTTGA-AAATAAAATCGGGGTTGGAGTAT-CCCTGCAAAAATAACGGGGTTGGAGTATCCCC
* **
776931 GATTGTGAAAAATCT-ATGTTTTAGAAATAAAGCCGGGGTTAGAGTATCC
64 GATTGTGAAAAAT-TGATGTTTTAGAAATAAAACCGAAGTTAGAGTATCC
776980 CCTCGGAAAT
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
129 1 0.01
130 93 0.95
131 4 0.04
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (130 bp):
TATTTTGAAAATAAAATCGGGGTTGGAGTATCCCTGCAAAAATAACGGGGTTGGAGTATCCCCGA
TTGTGAAAAATTGATGTTTTAGAAATAAAACCGAAGTTAGAGTATCCTCAATTGTGAAAAACTGG
Found at i:777055 original size:158 final size:158
Alignment explanation
Indices: 776838--777170 Score: 468
Period size: 158 Copynumber: 2.1 Consensus size: 158
776828 TAAAATCGAA
* * ** * *
776838 GTTGGAGTATCCTCAATTGTGAAAAACTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAACTAATATTTTAGAAATAAAATCGAGGTTAGAGTATCCCC
* * *
776903 TCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCTATGTTTTAGAAATAAAGCCGGG
66 TCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCTATATTTTAGAAATAAAGCCAGC
**
776968 GTTAGAGTATCCCCTCGGAAATAACAGG
131 GTTAGAGTATCCCCTCAAAAATAACAGG
* * * *
776996 GTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGGAATAAAGTCGAGGTTAGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAACTAATATTTTAGAAATAAAATCGAGGTTAGAGTATCCCC
* * * *
777061 TCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCTATATTTTAGAAATAAAGCTAGC
66 TCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCTATATTTTAGAAATAAAGCCAGC
* * *
777126 GTTGGAGTATCCCTTCAAAAATAACGGG
131 GTTAGAGTATCCCCTCAAAAATAACAGG
777154 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
777171 GATTAATGGG
Statistics
Matches: 153, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
158 153 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (158 bp):
GTTGGAGTATCCCCGATTGTGAAAAACTAATATTTTAGAAATAAAATCGAGGTTAGAGTATCCCC
TCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCTATATTTTAGAAATAAAGCCAGC
GTTAGAGTATCCCCTCAAAAATAACAGG
Found at i:777309 original size:102 final size:102
Alignment explanation
Indices: 777178--777414 Score: 357
Period size: 102 Copynumber: 2.3 Consensus size: 102
777168 GATGATTAAT
* * * **
777178 GGGGTTGGAGTATCCTCGATTGTAAAAAATTGGTGTTTTGAAAATAAAATCAGAGTTGGAGCATC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTCAAAAATAAAATCAGAGTTGGAGCATC
*
777243 CCCGATTATAGAAAATTAGTGTTTTAAAAATAAAACC
66 CCCAATTATAGAAAATTAGTGTTTTAAAAATAAAACC
* * *
777280 GGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTCAAAAATAAAATCGGAGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTCAAAAATAAAATCAGAGTTGGAGCATC
* * *
777345 CCCAATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
66 CCCAATTATAGAAAATTAGTGTTTTAAAAATAAAACC
*
777382 GGGGTTGGAGTATCCCCGATTATGAAAAATTGA
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
777415 GAAACTTAAC
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 121 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (102 bp):
GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTCAAAAATAAAATCAGAGTTGGAGCATC
CCCAATTATAGAAAATTAGTGTTTTAAAAATAAAACC
Found at i:777411 original size:51 final size:51
Alignment explanation
Indices: 777178--777412 Score: 285
Period size: 51 Copynumber: 4.6 Consensus size: 51
777168 GATGATTAAT
* * * * *
777178 GGGGTTGGAGTATCCTCGATTGTAAAAAATTGGTGTTTTGAAAATAAAATC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAAAAATAAAACC
* * * *
777229 AGAGTTGGAGCATCCCCGATTAT-AGAAAATTAGTGTTTTAAAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTGTGA-AAAATTAGTGTTTTAAAAATAAAACC
* * *
777280 GGGGTTGGAGTATCCCCGATTGTGGAAAATT-GATGTTTCAAAAATAAAATC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTAG-TGTTTTAAAAATAAAACC
* * * *
777331 GGAGTTGGAGTATCCCCAATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAAAAATAAAACC
*
777382 GGGGTTGGAGTATCCCCGATTATGAAAAATT
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATT
777413 GAGAAACTTA
Statistics
Matches: 156, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
50 2 0.01
51 153 0.98
52 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAAAAATAAAACC
Found at i:1092230 original size:63 final size:61
Alignment explanation
Indices: 1092096--1092403 Score: 300
Period size: 55 Copynumber: 5.1 Consensus size: 61
1092086 CGTTACGACA
* *
1092096 AGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTT----G--AAAGGTGTCCTGCTCTTTG
1 AGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTG
* *
1092150 AGGACTAGAAAGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTG
1 AGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT-AAAAG-AAAAAGGCGTCCTGCTCTTTG
*** * * *
1092213 AGGACTGGGAAGTGCCACCAGCTTGTGTGGGCTTT------AAAAGGTGTCCTGCTCTTTG
1 AGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTG
*
1092268 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTCAAAAGAAAAAAGGCGTCCTGCTCTTTG
1 AGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT-AAAAG-AAAAAGGCGTCCTGCTCTTTG
* * * * * * *
1092331 AAGACTAAAAAAAATGCCACCAACTTGTGTAGGCTTTGAAAAGGAAAAGACGTCCTACTCTTTG
1 AGGACT--AAAAAGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCGTCCTGCTCTTTG
1092395 AGGACTAAA
1 AGGACTAAA
1092404 GGGCTAAAAG
Statistics
Matches: 208, Mismatches: 27, Indels: 30
0.78 0.10 0.11
Matches are distributed among these distances:
54 6 0.03
55 73 0.35
60 1 0.00
62 3 0.01
63 72 0.35
64 23 0.11
65 30 0.14
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (61 bp):
AGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTG
Found at i:1092312 original size:118 final size:118
Alignment explanation
Indices: 1092104--1092374 Score: 409
Period size: 118 Copynumber: 2.3 Consensus size: 118
1092094 CAAGGACTAA
*
1092104 AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGTGCCACC
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGTGCCACC
*
1092169 AACTCATGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTGGG
66 AACTCATGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGAAGACTGGG
*
1092222 AAGTGCCACCAGCTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTA-AAAGGTGCCAC
1 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTAGAAA-GTGCCAC
* * ***
1092286 CAACTCGTGTGGGCTTTCAAAAGAAAAAAGGCGTCCTGCTCTTTGAAGACTAAAAA
65 CAACTCATGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGAAGACT--GGG
* *
1092342 AAATGCCACCAACTTGTGTAGGCTTTGAAAAGG
1 AAGTGCCACCAACTTGTGTGGGCTTT-AAAAGG
1092375 AAAAGACGTC
Statistics
Matches: 138, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
117 3 0.02
118 106 0.77
120 23 0.17
121 6 0.04
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (118 bp):
AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGTGCCACC
AACTCATGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGAAGACTGGG
Found at i:1092401 original size:64 final size:65
Alignment explanation
Indices: 1092255--1092403 Score: 196
Period size: 65 Copynumber: 2.3 Consensus size: 65
1092245 TTTAAAAGGT
** * *
1092255 GTCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTCGTGTGGGCTTTCAAAAGAAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAAAAATGCCACCAACTCGTGTAGGCTTTCAAAAGAAAAAAGAC
* * * *
1092318 GTCCTGCTCTTTGAAGACTAAAAAAAATGCCACCAACTTGTGTAGGCTTTGAAAAG-GAAAAGAC
1 GTCCTGCTCTTTGAGGACTAAAAAAAATGCCACCAACTCGTGTAGGCTTTCAAAAGAAAAAAGAC
*
1092382 GTCCTACTCTTTGAGGACTAAA
1 GTCCTGCTCTTTGAGGACTAAA
1092404 GGGCTAAAAG
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
63 18 0.24
64 26 0.35
65 30 0.41
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (65 bp):
GTCCTGCTCTTTGAGGACTAAAAAAAATGCCACCAACTCGTGTAGGCTTTCAAAAGAAAAAAGAC
Found at i:1100824 original size:20 final size:19
Alignment explanation
Indices: 1100799--1100873 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
1100789 AAAATGCCTG
*
1100799 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
* *
1100819 AATGTATCGATAAAATGAGC
1 AATGTATCGATACAATGA-A
1100839 AATGTATCGATACAATGAA
1 AATGTATCGATACAATGAA
1100858 TAATGTATCGATACAA
1 -AATGTATCGATACAA
1100874 ATTGTGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.98
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1100845 original size:40 final size:41
Alignment explanation
Indices: 1100799--1100875 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 41
1100789 AAAATGCCTG
*
1100799 AATGTATCGATACATTGTAA-AATGTATCGATA-AAATGAGC
1 AATGTATCGATACAATG-AATAATGTATCGATACAAATGAGC
1100839 AATGTATCGATACAATGAATAATGTATCGATACAAAT
1 AATGTATCGATACAATGAATAATGTATCGATACAAAT
1100876 TGTGAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
39 2 0.06
40 28 0.82
41 4 0.12
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (41 bp):
AATGTATCGATACAATGAATAATGTATCGATACAAATGAGC
Found at i:1101939 original size:13 final size:13
Alignment explanation
Indices: 1101921--1101947 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1101911 ACATTATGCT
1101921 TTGTATCGATACA
1 TTGTATCGATACA
1101934 TTGTATCGATACA
1 TTGTATCGATACA
1101947 T
1 T
1101948 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1101977 original size:20 final size:19
Alignment explanation
Indices: 1101931--1101986 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1101921 TTGTATCGAT
*
1101931 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
1101950 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
1101969 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
1101987 AAAACTGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1102041 original size:20 final size:20
Alignment explanation
Indices: 1102016--1102069 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1102006 CTACCACTGT
*
1102016 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
*
1102036 TTGTATCAATACATGATGAA
1 TTGTATCGATACATGATGAA
1102056 TTGTATCGATACAT
1 TTGTATCGATACAT
1102070 TGCTTCTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:1103388 original size:5 final size:5
Alignment explanation
Indices: 1103373--1103445 Score: 58
Period size: 5 Copynumber: 13.8 Consensus size: 5
1103363 ATAATTGCTA
**
1103373 ATTTT ATTTTT ATTTTT AATTTT -TTTT AAATTTT AAATT ATTTT ATTTT
1 ATTTT A-TTTT A-TTTT -ATTTT ATTTT --ATTTT ATTTT ATTTT ATTTT
* *
1103422 ATTAT ATTTT ATTTT AGTTT ATTT
1 ATTTT ATTTT ATTTT ATTTT ATTT
1103446 CTGAACTAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
4 4 0.07
5 32 0.58
6 14 0.25
7 5 0.09
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:1103394 original size:18 final size:18
Alignment explanation
Indices: 1103371--1103436 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 18
1103361 TTATAATTGC
1103371 TAATTTTATTTTTATTTT
1 TAATTTTATTTTTATTTT
* *
1103389 TAATTTT-TTTTAAATTT
1 TAATTTTATTTTTATTTT
*
1103406 TAA-ATTA-TTTTATTTTAT
1 TAATTTTATTTTTA-TTT-T
1103424 TATATTTTATTTT
1 TA-ATTTTATTTT
1103437 AGTTTATTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
16 6 0.17
17 13 0.36
18 10 0.28
19 1 0.03
20 3 0.08
21 3 0.08
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TAATTTTATTTTTATTTT
Found at i:1105213 original size:13 final size:13
Alignment explanation
Indices: 1105195--1105219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1105185 ATAATGCACA
1105195 GTATCGATACATT
1 GTATCGATACATT
1105208 GTATCGATACAT
1 GTATCGATACAT
1105220 GACCATTGTA
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):
GTATCGATACATT
Found at i:1105324 original size:19 final size:20
Alignment explanation
Indices: 1105300--1105351 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1105290 CTTAACTGTT
1105300 TGTATCGATACAT-A-CAAGA
1 TGTATCGATACATGACCAA-A
1105319 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
1105339 TGTATCGATACAT
1 TGTATCGATACAT
1105352 TGGCTTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 15 0.48
21 3 0.10
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:1111024 original size:30 final size:30
Alignment explanation
Indices: 1110990--1111050 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
1110980 TTAGAGATCA
1110990 TGTGCAAAAAGGGGATGTTGTAATAGAGTT
1 TGTGCAAAAAGGGGATGTTGTAATAGAGTT
1111020 TGTGCAAAAAGGGGATGTTGTAATAGAGTT
1 TGTGCAAAAAGGGGATGTTGTAATAGAGTT
1111050 T
1 T
1111051 ATTGATACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.31
Consensus pattern (30 bp):
TGTGCAAAAAGGGGATGTTGTAATAGAGTT
Found at i:1111491 original size:21 final size:21
Alignment explanation
Indices: 1111465--1111504 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1111455 AAATTTCCAG
1111465 AATGTATCGATACATTGATTC
1 AATGTATCGATACATTGATTC
1111486 AATGTATCGATACATTGAT
1 AATGTATCGATACATTGAT
1111505 ACATCTGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTGATTC
Found at i:1111561 original size:13 final size:13
Alignment explanation
Indices: 1111543--1111607 Score: 98
Period size: 13 Copynumber: 5.0 Consensus size: 13
1111533 TAGCATTCTC
1111543 TGTATCGATACAT
1 TGTATCGATACAT
1111556 TGTATCGATACACT
1 TGTATCGATACA-T
1111570 T-TATCGATACAT
1 TGTATCGATACAT
1111582 TGTATCGATACACT
1 TGTATCGATACA-T
1111596 T-TATCGATACAT
1 TGTATCGATACAT
1111608 GGAAATTATA
Statistics
Matches: 49, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.06
13 42 0.86
14 4 0.08
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.