Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold119
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: 3173904
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 20
Found at i:2730565 original size:32 final size:32
Alignment explanation
Indices: 2730529--2730591 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2730519 TTCAACGATT
*
2730529 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2730561 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2730592 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2730566 original size:13 final size:13
Alignment explanation
Indices: 2730548--2730572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2730538 ACATAAGTTT
2730548 TGTATCGATACAA
1 TGTATCGATACAA
2730561 TGTATCGATACA
1 TGTATCGATACA
2730573 TAAGTATTGT
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:2730652 original size:13 final size:13
Alignment explanation
Indices: 2730634--2730659 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2730624 CATTTTTCTG
2730634 TGTATCGATACAT
1 TGTATCGATACAT
2730647 TGTATCGATACAT
1 TGTATCGATACAT
2730660 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2730656 original size:33 final size:33
Alignment explanation
Indices: 2730614--2730680 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2730604 GCCAAGGAAA
***
2730614 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2730647 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2730680 T
1 T
2730681 TGAAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2733194 original size:28 final size:27
Alignment explanation
Indices: 2733127--2733199 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
2733117 CTTCACAATC
* *
2733127 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
2733154 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
2733182 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
2733200 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:2733377 original size:28 final size:28
Alignment explanation
Indices: 2733344--2733416 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
2733334 AATCGAGGAT
** *
2733344 ACTCCAACCTCGTTATTTCATCGGGAAT
1 ACTCCAACCTCGTTATTTCAGAGGGAAC
* * * *
2733372 ATTCCAACCCCGTTACTTCCGAGGGAAC
1 ACTCCAACCTCGTTATTTCAGAGGGAAC
2733400 ACTCCAACCTCGTTATT
1 ACTCCAACCTCGTTATT
2733417 ATCTCCAAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.29
Consensus pattern (28 bp):
ACTCCAACCTCGTTATTTCAGAGGGAAC
Found at i:2737881 original size:15 final size:17
Alignment explanation
Indices: 2737850--2737883 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
2737840 AAAAATAACA
2737850 AATAAACTTTATATATT
1 AATAAACTTTATATATT
2737867 AATAAA-TTT-TATATT
1 AATAAACTTTATATATT
2737882 AA
1 AA
2737884 AATATACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 3 0.18
17 6 0.35
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AATAAACTTTATATATT
Found at i:2739226 original size:15 final size:15
Alignment explanation
Indices: 2739206--2739243 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
2739196 AATAATTTAT
2739206 ATTAATTATAAAAAG
1 ATTAATTATAAAAAG
2739221 ATTAATTATAAAAAG
1 ATTAATTATAAAAAG
2739236 ATTAATTA
1 ATTAATTA
2739244 AATTTAGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (15 bp):
ATTAATTATAAAAAG
Found at i:2739702 original size:16 final size:17
Alignment explanation
Indices: 2739673--2739713 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
2739663 TTAATTTTTT
2739673 TATTTTT-A-ATAAAAA
1 TATTTTTAATATAAAAA
*
2739688 T-TTTTTAATATAAAAT
1 TATTTTTAATATAAAAA
2739704 TATTTTTAAT
1 TATTTTTAAT
2739714 TACTATCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 5 0.23
15 2 0.09
16 7 0.32
17 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTTTTAATATAAAAA
Found at i:2739711 original size:17 final size:16
Alignment explanation
Indices: 2739672--2739713 Score: 61
Period size: 14 Copynumber: 2.7 Consensus size: 16
2739662 ATTAATTTTT
2739672 TTATTTTTAATAAAAA
1 TTATTTTTAATAAAAA
2739688 -T-TTTTTAATATAAAA
1 TTATTTTTAATA-AAAA
2739703 TTATTTTTAAT
1 TTATTTTTAAT
2739714 TACTATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 9 0.39
15 5 0.22
16 1 0.04
17 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATTTTTAATAAAAA
Found at i:2739761 original size:16 final size:16
Alignment explanation
Indices: 2739731--2739761 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2739721 AAATTAAATA
*
2739731 TTAATTAAATTATACT
1 TTAATTAAAATATACT
2739747 TTAATTAAAATATAC
1 TTAATTAAAATATAC
2739762 ATGATAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAATTAAAATATACT
Found at i:2741083 original size:2 final size:2
Alignment explanation
Indices: 2741028--2741071 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2741018 AGTATGTATG
2741028 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2741070 TA
1 TA
2741072 AAAGTTATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2742962 original size:3 final size:3
Alignment explanation
Indices: 2742954--2742988 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2742944 CCAAACGTTA
2742954 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2742989 ATAATAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2743627 original size:23 final size:23
Alignment explanation
Indices: 2743571--2743635 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
2743561 GTACAAAAAA
* *
2743571 AAATTGAA-TTTAACTTTGATTC
1 AAATTTAATTTTAACTTTAATTC
* *
2743593 AAATTTTATTTTAAGTTTAATT-
1 AAATTTAATTTTAACTTTAATTC
*
2743615 AAATTTAATTTTTAATTTTAA
1 AAATTTAA-TTTTAACTTTAA
2743636 AATTTTAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
22 13 0.37
23 22 0.63
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (23 bp):
AAATTTAATTTTAACTTTAATTC
Found at i:2744475 original size:15 final size:16
Alignment explanation
Indices: 2744449--2744478 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2744439 TTTAGTTTTG
2744449 AGTTATTTTTTATTCA
1 AGTTATTTTTTATTCA
2744465 AGTTA-TTTTTATTC
1 AGTTATTTTTTATTC
2744479 GAACTCGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (16 bp):
AGTTATTTTTTATTCA
Found at i:2745023 original size:21 final size:20
Alignment explanation
Indices: 2744999--2745063 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
2744989 TAATTATTTT
2744999 TTAATAAAAAATAATATTTAA
1 TTAATAAAAAA-AATATTTAA
**
2745020 TTAACTTTAAAAAA-ATTTACA
1 TTAA-TAAAAAAAATATTTA-A
2745041 TTAATAAATAAAAATA-TTAA
1 TTAATAAA-AAAAATATTTAA
2745061 TTA
1 TTA
2745064 TTTTTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
20 11 0.31
21 19 0.53
22 6 0.17
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAATAAAAAAAATATTTAA
Found at i:2745148 original size:18 final size:20
Alignment explanation
Indices: 2745111--2745149 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2745101 TATTATTATT
2745111 TTTTAATAAAATTAATTAAA
1 TTTTAATAAAATTAATTAAA
*
2745131 TTTTAA-AAATTTAA-TAAA
1 TTTTAATAAAATTAATTAAA
2745149 T
1 T
2745150 AATATATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTAATAAAATTAATTAAA
Found at i:2745571 original size:24 final size:23
Alignment explanation
Indices: 2745499--2745580 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 23
2745489 AAAATTTTTT
2745499 TAAAATCTAA-TTTATTTTTATTTA
1 TAAAAT-TAATTTTA-TTTTATTTA
*
2745523 TAAAATTAATTTAATTTATATTTA
1 TAAAATTAATTTTATTT-TATTTA
*
2745547 TAAAATTTATTTTTTATTTTATTATA
1 TAAAA-TTA-ATTTTATTTTATT-TA
2745573 TATAAATT
1 TA-AAATT
2745581 TAAAATATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
23 6 0.12
24 20 0.41
25 7 0.14
26 13 0.27
27 3 0.06
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (23 bp):
TAAAATTAATTTTATTTTATTTA
Found at i:2748012 original size:20 final size:19
Alignment explanation
Indices: 2747936--2748010 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
2747926 AAGTACCCAG
*
2747936 ATGTATCGATAAAATTTTCA
1 ATGTATCGAT-ACATTTTCA
* * *
2747956 ATATATCGATACATGTATGA
1 ATGTATCGATACAT-TTTCA
2747976 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATT-TTCA
2747996 ATGTATCGATACATT
1 ATGTATCGATACATT
2748011 CTGTCTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 4 0.09
20 42 0.91
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (19 bp):
ATGTATCGATACATTTTCA
Found at i:2750381 original size:20 final size:20
Alignment explanation
Indices: 2750353--2750427 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2750343 TCATACCCTG
2750353 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2750373 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2750393 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
2750413 ATGTATCGATACATT
1 ATGTATCGATACATT
2750428 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2750420 original size:40 final size:39
Alignment explanation
Indices: 2750353--2750430 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2750343 TCATACCCTG
* *
2750353 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
2750393 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
2750431 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:2751364 original size:22 final size:22
Alignment explanation
Indices: 2751338--2751392 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
2751328 AGCCTTTGAC
2751338 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
2751360 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
2751382 CATGCATTTTT
1 CATGCATTTTT
2751393 AACATGTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:2751399 original size:20 final size:21
Alignment explanation
Indices: 2751338--2751399 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
2751328 AGCCTTTGAC
**
2751338 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTAACATGTTT
**
2751360 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTAACATGTTT
2751382 CATGCA-TTTTTAACATGT
1 CATGCATTTTTTAACATGT
2751400 CCAGCATCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.26
22 28 0.74
ACGTcount: A:0.21, C:0.11, G:0.10, T:0.58
Consensus pattern (21 bp):
CATGCATTTTTTAACATGTTT
Found at i:2756756 original size:79 final size:78
Alignment explanation
Indices: 2756579--2756842 Score: 325
Period size: 79 Copynumber: 3.3 Consensus size: 78
2756569 TTTTGGAGAT
* * * *
2756579 AATAACGGGGCTGGAGTATCCCCGATTATGGAAAATCAGTGTTCTAGAAATAAAAATCGGGGTTG
1 AATAACGGGGTTGGAGTATCCCCGATTAT-GAAAATCAATATTTTAGAAAT-AAAATCGGGGTTG
2756644 GAGTATCCCCTCAGA
64 GAGTATCCCCTCAGA
* * * * *
2756659 AATAACAGGGTTGAAGTATCCCCGATTATAGAAAATCAAAATTTT-GAAAATAAAATTGGGATTG
1 AATAACGGGGTTGGAGTATCCCCGATTAT-GAAAATCAATATTTTAG-AAATAAAATCGGGGTTG
* *
2756723 GAGTATCCTCGC-GAA
64 GAGTATCCCCTCAG-A
* * *
2756738 AATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGTCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTATGA-AAATCAATATTTTAGAAATAAAATCGGGGTTGG
2756803 AGTATCCCCTCAGA
65 AGTATCCCCTCAGA
*
2756817 AATAATGGGGTTGGAGTATCCCCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
2756843 GAAATAACGG
Statistics
Matches: 157, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
78 3 0.02
79 111 0.71
80 43 0.27
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (78 bp):
AATAACGGGGTTGGAGTATCCCCGATTATGAAAATCAATATTTTAGAAATAAAATCGGGGTTGGA
GTATCCCCTCAGA
Found at i:2756868 original size:28 final size:28
Alignment explanation
Indices: 2756794--2756870 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
2756784 GAAATAAAGT
*
2756794 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
2756822 TGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
2756850 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2756871 TGTAAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.98
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:2756920 original size:15 final size:15
Alignment explanation
Indices: 2756900--2756930 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2756890 TGGGAAATAA
2756900 AATCGAAGTTGGAGT
1 AATCGAAGTTGGAGT
2756915 AATCGAAGTTGGAGT
1 AATCGAAGTTGGAGT
2756930 A
1 A
2756931 TCCCCGATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (15 bp):
AATCGAAGTTGGAGT
Found at i:2756969 original size:66 final size:67
Alignment explanation
Indices: 2756854--2756981 Score: 204
Period size: 66 Copynumber: 1.9 Consensus size: 67
2756844 AAATAACGGG
*
2756854 GTTGGAGTATCCCCGATTGTAAAAAAAATTGATGTTTGGGAAATAAAATCGAAGTTGGAGTAATC
1 GTTGGAGTATCCCCGATTGT-AAAAAAATTGATGTTTGAGAAATAAAATCGAAGTTGGAGTAATC
2756919 GAA
65 GAA
* * *
2756922 GTTGGAGTATCCCCGATTGT-GAAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTA
1 GTTGGAGTATCCCCGATTGTAAAAAAATTGATGTTTGAGAAATAAAATCGAAGTTGGAGTA
2756982 TCCCCTTAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
66 36 0.64
68 20 0.36
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.30
Consensus pattern (67 bp):
GTTGGAGTATCCCCGATTGTAAAAAAATTGATGTTTGAGAAATAAAATCGAAGTTGGAGTAATCG
AA
Found at i:2757063 original size:51 final size:51
Alignment explanation
Indices: 2756998--2757096 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
2756988 TAGAAATAAC
*
2756998 AGGGTTAGAGTATCCCCGATGGTGGAAAATTGATGTTTTGGAAATAAAATA
1 AGGGTTAGAGTATCCCCGATGGTGGAAAATTGATGTTTTAGAAATAAAATA
* * *
2757049 AGGGTTGGAGTATCCTCGATTGTGGAAAATTGATGTTTTAGAAATAAA
1 AGGGTTAGAGTATCCCCGATGGTGGAAAATTGATGTTTTAGAAATAAA
2757097 GCCGAGATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (51 bp):
AGGGTTAGAGTATCCCCGATGGTGGAAAATTGATGTTTTAGAAATAAAATA
Found at i:2757111 original size:51 final size:51
Alignment explanation
Indices: 2756987--2757116 Score: 142
Period size: 51 Copynumber: 2.6 Consensus size: 51
2756977 GAGTATCCCC
*
2756987 TTAGAAAT--AAC-AGGGTTAGAGTATCCCCGATGGTGGAAAATTGATGTT
1 TTAGAAATAAAACAAGGATTAGAGTATCCCCGATGGTGGAAAATTGATGTT
* * * * * *
2757035 TTGGAAATAAAATAAGGGTTGGAGTATCCTCGATTGTGGAAAATTGATGTT
1 TTAGAAATAAAACAAGGATTAGAGTATCCCCGATGGTGGAAAATTGATGTT
* *
2757086 TTAGAAATAAAGC-CGAGATTAGAGTATCCCC
1 TTAGAAATAAAACAAG-GATTAGAGTATCCCC
2757117 TTGGAAATAA
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
48 7 0.11
50 3 0.05
51 56 0.85
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (51 bp):
TTAGAAATAAAACAAGGATTAGAGTATCCCCGATGGTGGAAAATTGATGTT
Found at i:2757199 original size:51 final size:50
Alignment explanation
Indices: 2757129--2757246 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 50
2757119 GGAAATAACA
** *
2757129 GGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTT-GAAAATAAAATCT
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAG-AAATAAAA-CC
* * *
2757180 GGGTTGGAGTATCCTCGATTGTGGAAAATTAATGTTTTAGAAATAAAACC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACC
2757230 GAGGTTGGAGTATCCCC
1 G-GGTTGGAGTATCCCC
2757247 TTGGAAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 2 0.03
51 55 0.95
52 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACC
Found at i:2757237 original size:260 final size:259
Alignment explanation
Indices: 2756922--2757435 Score: 778
Period size: 260 Copynumber: 2.0 Consensus size: 259
2756912 AGTAATCGAA
* *
2756922 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
* **
2756987 TTAGAAATAACAGGGTTAGAGTATCCCCGATGGTGGAAAATTGATGTTTTGGAAATAAAA-TAAG
66 TTAGAAATAACAGGGTTAGAGTATCCCCGATGGTAGAAAATCCATGTTTTGGAAATAAAACT-AG
* * * * *
2757051 GGTTGGAGTATCCTCGATTGTGGAAAATTGATGTTTTAGAAATAAAGCCGAGATTAGAGTATCCC
130 GGTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTCAGAAATAAAACCGAGATTAGAGTAT-CC
* * * *
2757116 CTTGGAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCTG
194 CTCGGAAACAACAGGGTTGGAGTATCCCCAATTATAAAAAATTGGTGTTTTGAAAATAAAATCTG
2757181 G
259 G
* *
2757182 GTTGGAGTATCCTCGATTGTGGAAAATTAATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
* * *
2757247 TTGGAAATAACGGGGTTAGAGTATCCCCGATGGTAGAAAATCCATGTTTTGGAAATAAAACTGGG
66 TTAGAAATAACAGGGTTAGAGTATCCCCGATGGTAGAAAATCCATGTTTTGGAAATAAAACTAGG
* *
2757312 GTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTCAGAAATAAAACCGAGGTTGGAGTATCCCT
131 GTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTCAGAAATAAAACCGAGATTAGAGTATCCCT
* * * *
2757377 CGGAAACAACGGGGTTGGAGTATCCCCAATTGTAAAAAATTGGTGTTTTGGAAGTAAAA
196 CGGAAACAACAGGGTTGGAGTATCCCCAATTATAAAAAATTGGTGTTTTGAAAATAAAA
2757436 ACATGAATGA
Statistics
Matches: 228, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
259 55 0.24
260 172 0.75
261 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (259 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
TTAGAAATAACAGGGTTAGAGTATCCCCGATGGTAGAAAATCCATGTTTTGGAAATAAAACTAGG
GTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTCAGAAATAAAACCGAGATTAGAGTATCCCT
CGGAAACAACAGGGTTGGAGTATCCCCAATTATAAAAAATTGGTGTTTTGAAAATAAAATCTGG
Found at i:2757269 original size:79 final size:79
Alignment explanation
Indices: 2757180--2757325 Score: 202
Period size: 79 Copynumber: 1.8 Consensus size: 79
2757170 AATAAAATCT
* * * * * *
2757180 GGGTTGGAGTATCCTCGATTGTGGAAAATTAATGTTTTAGAAATAAAACCGAGGTTGGAGTATCC
1 GGGTTAGAGTATCCCCGATGGTAGAAAATCAATGTTTTAGAAATAAAACCGAGGTTGAAGTATCC
2757245 CCTTGGAAATAACG
66 CCTTGGAAATAACG
* * * *
2757259 GGGTTAGAGTATCCCCGATGGTAGAAAATCCATGTTTTGGAAATAAAACTGGGGTTGAAGTATCC
1 GGGTTAGAGTATCCCCGATGGTAGAAAATCAATGTTTTAGAAATAAAACCGAGGTTGAAGTATCC
2757324 CC
66 CC
2757326 GATTGTGAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 57 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (79 bp):
GGGTTAGAGTATCCCCGATGGTAGAAAATCAATGTTTTAGAAATAAAACCGAGGTTGAAGTATCC
CCTTGGAAATAACG
Found at i:2757321 original size:51 final size:50
Alignment explanation
Indices: 2757247--2757375 Score: 131
Period size: 51 Copynumber: 2.6 Consensus size: 50
2757237 GAGTATCCCC
2757247 TTGGAAAT--AACGGGGTT-AGAGTATCCCCGATGGT-AGAAAATCCATGTT
1 TTGGAAATAAAACGGGGTTGA-AGTATCCCCGATGGTGA-AAAATCCATGTT
* **
2757295 TTGGAAATAAAACTGGGGTTGAAGTATCCCCGATTGTGAAAAATTGATGTT
1 TTGGAAATAAAAC-GGGGTTGAAGTATCCCCGATGGTGAAAAATCCATGTT
** * *
2757346 TCAGAAATAAAACCGAGGTTGGAGTATCCC
1 TTGGAAATAAAA-CGGGGTTGAAGTATCCC
2757376 TCGGAAACAA
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
48 8 0.12
50 3 0.04
51 54 0.79
52 3 0.04
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (50 bp):
TTGGAAATAAAACGGGGTTGAAGTATCCCCGATGGTGAAAAATCCATGTT
Found at i:2757437 original size:130 final size:129
Alignment explanation
Indices: 2756922--2757435 Score: 690
Period size: 130 Copynumber: 4.0 Consensus size: 129
2756912 AGTAATCGAA
*
2756922 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
* **
2756987 TTAGAAATAACAGGGTTAGAGTATCCCCGATGGTGGAAAATTGATGTTTTGGAAATAAAA-TAAG
66 TTGGAAATAACAGGGTTAGAGTATCCCCGATGGTAAAAAATTGATGTTTTGGAAATAAAACT--G
2757051 G
129 G
* * * * *
2757052 GTTGGAGTATCCTCGATTGTGGAAAATTGATGTTTTAGAAATAAAGCCGAGATTAGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
* ** * * *
2757117 TTGGAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCTGG
66 TTGGAAATAACAGGGTTAGAGTATCCCCGATGGTAAAAAATTGATGTTTTGGAAATAAAA-CTGG
* * *
2757182 GTTGGAGTATCCTCGATTGTGGAAAATTAATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
* * **
2757247 TTGGAAATAACGGGGTTAGAGTATCCCCGATGGTAGAAAATCCATGTTTTGGAAATAAAACTGGG
66 TTGGAAATAACAGGGTTAGAGTATCCCCGATGGTAAAAAATTGATGTTTTGGAAATAAAACT-GG
* *
2757312 GTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTCAGAAATAAAACCGAGGTTGGAGTAT-CCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
* * * * * * * *
2757376 TCGGAAACAACGGGGTTGGAGTATCCCCAATTGTAAAAAATTGGTGTTTTGGAAGTAAAA
66 TTGGAAATAACAGGGTTAGAGTATCCCCGATGGTAAAAAATTGATGTTTTGGAAATAAAA
2757436 ACATGAATGA
Statistics
Matches: 339, Mismatches: 42, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
129 55 0.16
130 283 0.83
132 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (129 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
TTGGAAATAACAGGGTTAGAGTATCCCCGATGGTAAAAAATTGATGTTTTGGAAATAAAACTGG
Found at i:2759623 original size:7 final size:7
Alignment explanation
Indices: 2759611--2759638 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
2759601 GACATTTGGC
2759611 CCCTAAA
1 CCCTAAA
2759618 CCCTAAA
1 CCCTAAA
2759625 CCCTAAA
1 CCCTAAA
2759632 CCCTAAA
1 CCCTAAA
2759639 GATGAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
CCCTAAA
Found at i:2759845 original size:33 final size:33
Alignment explanation
Indices: 2759802--2759884 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 33
2759792 GTAAACCCAG
2759802 AATGTATCGATACAATGTATCGATACAATGAAC
1 AATGTATCGATACAATGTATCGATACAATGAAC
* * *
2759835 TATGTATCGATAAAATGTATCGATATAATGAAC
1 AATGTATCGATACAATGTATCGATACAATGAAC
2759868 AATGTATCGATACAATG
1 AATGTATCGATACAATG
2759885 AACAATGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAATGTATCGATACAATGAAC
Found at i:2759902 original size:13 final size:13
Alignment explanation
Indices: 2759802--2759831 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2759792 GTAAACCCAG
2759802 AATGTATCGATAC
1 AATGTATCGATAC
2759815 AATGTATCGATAC
1 AATGTATCGATAC
2759828 AATG
1 AATG
2759832 AACTATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2759912 original size:24 final size:20
Alignment explanation
Indices: 2759813--2759902 Score: 113
Period size: 20 Copynumber: 4.8 Consensus size: 20
2759803 ATGTATCGAT
2759813 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
2759833 ACTATGTATCG-----AT-A
1 ACAATGTATCGATACAATGA
*
2759847 A-AATGTATCGATATAATGA
1 ACAATGTATCGATACAATGA
2759866 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
2759886 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
2759903 ATTGTGAACA
Statistics
Matches: 60, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
13 8 0.13
14 2 0.03
15 2 0.03
18 2 0.03
19 2 0.03
20 44 0.73
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.28
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:2760583 original size:37 final size:34
Alignment explanation
Indices: 2760531--2760632 Score: 109
Period size: 35 Copynumber: 2.9 Consensus size: 34
2760521 AAATAGGTCT
*
2760531 TGCTCCTTGAGGACAAAGGAAAAAAAGGAAAGTGTCC
1 TGCTTCTTGAGGACAAAGGAAAAAAAGGAAA---TCC
* * *
2760568 TGCTTCTTGAGGACAAAGTGAAAAAGAGTACATCC
1 TGCTTCTTGAGGACAAAG-GAAAAAAAGGAAATCC
2760603 TGCTT-TTCGAGGACAAAGG-AAAAAAGGAAA
1 TGCTTCTT-GAGGACAAAGGAAAAAAAGGAAA
2760633 ACGAAATGCG
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
33 8 0.14
34 3 0.05
35 18 0.32
37 17 0.30
38 10 0.18
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (34 bp):
TGCTTCTTGAGGACAAAGGAAAAAAAGGAAATCC
Found at i:2760686 original size:43 final size:43
Alignment explanation
Indices: 2760611--2760764 Score: 154
Period size: 45 Copynumber: 3.5 Consensus size: 43
2760601 CCTGCTTTTC
* * *
2760611 GAGGACAAAGGAAAAAAGGAAAACGAAA-TGCGTCCTACTCTTTT
1 GAGGACAAAAGAAAAGAGGAAAA-TAAAGTGCGTCCTACTC-TTT
*
2760655 GAGGACAAAAG-AAAGAGGAAAATAAAGTGCGTCCTGCTCTTT
1 GAGGACAAAAGAAAAGAGGAAAATAAAGTGCGTCCTACTCTTT
* **
2760697 GAGGACAAAAGGGAAAAGAAGG-GAATAAAGTATGTCCTACTCTTT
1 GAGGACAAAA--GAAAAG-AGGAAAATAAAGTGCGTCCTACTCTTT
*
2760742 GAGGACAAAGGAGAAA-AGGAAAA
1 GAGGACAAAAGA-AAAGAGGAAAA
2760765 GGCATCCTAC
Statistics
Matches: 93, Mismatches: 10, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
42 19 0.20
43 25 0.27
44 14 0.15
45 32 0.34
46 3 0.03
ACGTcount: A:0.45, C:0.12, G:0.27, T:0.16
Consensus pattern (43 bp):
GAGGACAAAAGAAAAGAGGAAAATAAAGTGCGTCCTACTCTTT
Found at i:2760734 original size:45 final size:45
Alignment explanation
Indices: 2760594--2760759 Score: 143
Period size: 45 Copynumber: 3.8 Consensus size: 45
2760584 AGTGAAAAAG
* * * *
2760594 AGTACATCCTGCT-TTTCGAGGAC-AAA-GGAAAAAAGGAAAACGAA
1 AGTACGTCCTACTCTTT-GAGGACAAAAGGGAAAAGAGGAAAA-TAA
*
2760638 A-TGCGTCCTACTCTTTTGAGGACAAAA--G-AAAGAGGAAAATAA
1 AGTACGTCCTACTC-TTTGAGGACAAAAGGGAAAAGAGGAAAATAA
* * *
2760680 AGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGG-GAATAA
1 AGTACGTCCTACTCTTTGAGGACAAAAGGGAAAAG-AGGAAAATAA
*
2760725 AGTATGTCCTACTCTTTGAGGAC-AAAGGAGAAAAG
1 AGTACGTCCTACTCTTTGAGGACAAAAGG-GAAAAG
2760760 GAAAAGGCAT
Statistics
Matches: 103, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
42 16 0.16
43 29 0.28
44 14 0.14
45 41 0.40
46 3 0.03
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.19
Consensus pattern (45 bp):
AGTACGTCCTACTCTTTGAGGACAAAAGGGAAAAGAGGAAAATAA
Found at i:2760832 original size:61 final size:59
Alignment explanation
Indices: 2760755--2761175 Score: 471
Period size: 61 Copynumber: 7.1 Consensus size: 59
2760745 GACAAAGGAG
* * * * *
2760755 AAAAGGAAAAGGCATCCTACTCTTTGAGGAATAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 AAAA-GAAAA-GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * *
2760816 GAAAAGAAAAGACATCCTGCTCTTTGAGGACTGGAAGGTACCACCAACTTGTATGGGCTTT
1 -AAAAGAAAAG-CGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * * * *
2760877 GCAAAGAGAAAGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGAGTGGTCTTT
1 -AAAAGA-AAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
2760938 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAA-GAAAA-GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT
**
2761000 AAAAGGAGAAAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAA-GA-AAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
* *
2761061 AAAAG----GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
* *
2761116 ----GAAAAGCGTCCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
*
2761171 GAAAG
1 AAAAG
2761176 GCATCTTGCT
Statistics
Matches: 314, Mismatches: 31, Indels: 31
0.84 0.08 0.08
Matches are distributed among these distances:
51 1 0.00
55 92 0.29
59 1 0.00
60 8 0.03
61 149 0.47
62 60 0.19
63 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (59 bp):
AAAAGAAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:2761028 original size:123 final size:120
Alignment explanation
Indices: 2760755--2761197 Score: 479
Period size: 123 Copynumber: 3.8 Consensus size: 120
2760745 GACAAAGGAG
* * * *
2760755 AAAAGGAAAAGGCATCCTACTCTTTGAGGAATAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAA
1 AAAA-GAAAA-GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTT-AAA
* * * * * *
2760820 AGAAAAGACATCCTGCTCTTTGAGGACT-GGAAGGTACCACCAACTTGTATGGGCTTT
63 AGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
2760877 GCAAAGAGAAAGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGAGTGGTCTTTAAAA
1 -AAAAGA-AAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAA
2760942 GGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
64 -GAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
2761000 AAAAGGAGAAAGCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT---
1 AAAA-GA-AAAGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTAAA
*
2761061 --AAAAGGCGTCCTGCTCTTTGAGGACTA-AAAAATGCCACCAACTTGTGTGGGCTTT
63 AGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
2761116 ----GAAAAGCGTCCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-
1 AAAAGAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGA
* *
2761172 AAAGGCATCTTGCTCTTTGAGGACTA
66 AAAGGCGTCCTGCTCTTTGAGGACTA
2761198 AAGGGTGAAA
Statistics
Matches: 289, Mismatches: 24, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
109 3 0.01
110 71 0.25
111 2 0.01
116 27 0.09
117 27 0.09
121 4 0.01
122 73 0.25
123 78 0.27
124 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (120 bp):
AAAAGAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGA
AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:2762297 original size:13 final size:13
Alignment explanation
Indices: 2762281--2762326 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
2762271 TTCTTTTCTC
2762281 TTTTTTTTGTTTG
1 TTTTTTTTGTTTG
2762294 TTTTTTTTGTTT-
1 TTTTTTTTGTTTG
*
2762306 TTTGTTTTGTTTTG
1 TTTTTTTTG-TTTG
2762320 TTTTTTT
1 TTTTTTT
2762327 ATAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 8 0.28
13 15 0.52
14 6 0.21
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (13 bp):
TTTTTTTTGTTTG
Found at i:2762306 original size:21 final size:22
Alignment explanation
Indices: 2762283--2762323 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2762273 CTTTTCTCTT
2762283 TTTTTTG-TTTGTTTT-TTTTG
1 TTTTTTGTTTTGTTTTGTTTTG
2762303 TTTTTTGTTTTGTTTTGTTTT
1 TTTTTTGTTTTGTTTTGTTTT
2762324 TTTATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (22 bp):
TTTTTTGTTTTGTTTTGTTTTG
Found at i:2762323 original size:16 final size:16
Alignment explanation
Indices: 2762281--2762325 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
2762271 TTCTTTTCTC
*
2762281 TTTTTT-TTGTTTGTT
1 TTTTTTGTTTTTTGTT
2762296 TTTTTTGTTTTTTGTT
1 TTTTTTGTTTTTTGTT
2762312 TTGTTTTGTTTTTT
1 TT-TTTTGTTTTTT
2762326 TATAAAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.22
16 10 0.37
17 11 0.41
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (16 bp):
TTTTTTGTTTTTTGTT
Found at i:2777174 original size:13 final size:13
Alignment explanation
Indices: 2777156--2777181 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2777146 TACACCAAGT
2777156 ATGTATCGATACA
1 ATGTATCGATACA
2777169 ATGTATCGATACA
1 ATGTATCGATACA
2777182 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2777200 original size:34 final size:32
Alignment explanation
Indices: 2777138--2777202 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
2777128 TAGCCAAACT
**
2777138 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
2777170 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
2777203 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:2778460 original size:20 final size:19
Alignment explanation
Indices: 2778435--2778501 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
2778425 TATCGATACA
2778435 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAC
2778454 TATGTATCGAT---AT--A-
1 -ATGTATCGATACAATGAAC
2778468 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAC
2778487 AATGTATCGATACAA
1 -ATGTATCGATACAA
2778502 ATTGTGAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.25
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
20 24 0.60
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:2778464 original size:33 final size:33
Alignment explanation
Indices: 2778421--2778501 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
2778411 GTAAACCCAG
2778421 AATGTATCGATACAATGTATCGATACAATGAAC
1 AATGTATCGATACAATGTATCGATACAATGAAC
* *
2778454 TATGTATCGATATAATGTATCGATACAATGAAC
1 AATGTATCGATACAATGTATCGATACAATGAAC
2778487 AATGTATCGATACAA
1 AATGTATCGATACAA
2778502 ATTGTGAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAATGTATCGATACAATGAAC
Found at i:2778501 original size:13 final size:13
Alignment explanation
Indices: 2778421--2778483 Score: 66
Period size: 13 Copynumber: 5.3 Consensus size: 13
2778411 GTAAACCCAG
2778421 AATGTATCGATAC
1 AATGTATCGATAC
2778434 AATGTATCGATAC
1 AATGTATCGATAC
2778447 -A---AT-GA-AC
1 AATGTATCGATAC
* *
2778454 TATGTATCGATAT
1 AATGTATCGATAC
2778467 AATGTATCGATAC
1 AATGTATCGATAC
2778480 AATG
1 AATG
2778484 AACAATGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
7 2 0.05
8 3 0.07
9 2 0.05
11 2 0.05
12 3 0.07
13 29 0.71
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2781720 original size:27 final size:27
Alignment explanation
Indices: 2781689--2781743 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
2781679 GTCTAAGAAG
2781689 TATGAGTGTAGACATGTTGTCCTTAAA
1 TATGAGTGTAGACATGTTGTCCTTAAA
2781716 TATGAGTGTAGACATGTTGTCCTTAAA
1 TATGAGTGTAGACATGTTGTCCTTAAA
2781743 T
1 T
2781744 TTTTCAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (27 bp):
TATGAGTGTAGACATGTTGTCCTTAAA
Found at i:2783251 original size:27 final size:27
Alignment explanation
Indices: 2783221--2783534 Score: 414
Period size: 27 Copynumber: 11.5 Consensus size: 27
2783211 CAAAGTGCAA
2783221 AACTCCGTGGCATCCTTTTAAGTCCAC
1 AACTCCGTGGCATCCTTTTAAGTCCAC
2783248 AACTCCGTGGCA-CCTTTTTAAAGTCCAC
1 AACTCCGTGGCATCC-TTTT-AAGTCCAC
* *
2783276 AACTCCGTGGTATCCTTTAAAGTCCAC
1 AACTCCGTGGCATCCTTTTAAGTCCAC
*
2783303 AACTCCGTGGCACCCTTTTAAAGTCCAC
1 AACTCCGTGGCATCCTTTT-AAGTCCAC
* * *
2783331 AACTCTGTGGCACCCTTTTAAGTTCAC
1 AACTCCGTGGCATCCTTTTAAGTCCAC
*
2783358 AACTCCGTGGCATCCTTTTAAGTCTAC
1 AACTCCGTGGCATCCTTTTAAGTCCAC
*
2783385 AACTCCGTGGCACCCTTTTAAAGTCCAC
1 AACTCCGTGGCATCCTTTT-AAGTCCAC
* *
2783413 AACTCCGTGGCACCCTTTTAAATCCAC
1 AACTCCGTGGCATCCTTTTAAGTCCAC
2783440 AACTCCGTGGCATCCTTTTAAGTCCAC
1 AACTCCGTGGCATCCTTTTAAGTCCAC
* * *
2783467 AACTCCGTGGCACCCTTTAAAGTCCAT
1 AACTCCGTGGCATCCTTTTAAGTCCAC
* * *
2783494 AACTCAGTGGCATCCTTTCAAAGCCCAC
1 AACTCCGTGGCATCCTTT-TAAGTCCAC
* *
2783522 AAGTCAGTGGCAT
1 AACTCCGTGGCAT
2783535 ACCCTTTCAA
Statistics
Matches: 257, Mismatches: 24, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
26 2 0.01
27 160 0.62
28 93 0.36
29 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (27 bp):
AACTCCGTGGCATCCTTTTAAGTCCAC
Found at i:2783283 original size:55 final size:54
Alignment explanation
Indices: 2783206--2783511 Score: 436
Period size: 55 Copynumber: 5.6 Consensus size: 54
2783196 AGTGGCATTT
* *
2783206 CTTTTCAAAGTGCAAAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
1 CTTTT-AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* *
2783261 CTTTTTAAAGTCCACAACTCCGTGGTATCCTTTAAAGTCCACAACTCCGTGGCACC
1 C-TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA-C
* * *
2783317 CTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAGTTCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA-C
* *
2783372 CTTTT-AAGTCTACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCA-C
2783427 CTTTTAAA-TCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
2783480 CCTTTAAAGTCCATAACTCAGTGGCATCCTTT
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTT
2783512 CAAAGCCCAC
Statistics
Matches: 227, Mismatches: 19, Indels: 11
0.88 0.07 0.04
Matches are distributed among these distances:
53 8 0.04
54 66 0.29
55 145 0.64
56 8 0.04
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (54 bp):
CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:2783534 original size:28 final size:28
Alignment explanation
Indices: 2783227--2784136 Score: 643
Period size: 28 Copynumber: 31.8 Consensus size: 28
2783217 GCAAAACTCC
* * * *
2783227 GTGGCATCCTTT-TAAGTCCACAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
2783254 GTGGCA-CCTTTTTAAAGTCCACAACTCC
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
* * * *
2783282 GTGGTATCCTTT-AAAGTCCACAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * *
2783309 GTGGCACCCTTTTAAAGTCCACAACTCT
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * ** * *
2783337 GTGGCACCCTTT-TAAGTTCACAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * *
2783364 GTGGCATCCTTT-TAAGTCTACAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * *
2783391 GTGGCACCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * *
2783419 GTGGCACCCTTTTAAA-TCCACAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
2783446 GTGGCATCCTTT-TAAGTCCACAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
2783473 GTGGCACCCTTT-AAAGTCCATAACTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
2783500 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
2783528 GTGGCATACCCTTTCAAAGCCCACAAGTCA
1 GTGGCAT--CCTTTCAAAGCCCACAAGTCA
* *
2783558 GTGGCATACCCTTCCAAAGCCCACAAGTCG
1 GTGGCAT--CCTTTCAAAGCCCACAAGTCA
* *
2783588 GTGGCACCCTTCCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
2783616 GTGGCACCCTTTCAAAGCCCACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
2783644 GTGGCATATCCTTTCAAAGCCCACAAGTCG
1 GTGGC--ATCCTTTCAAAGCCCACAAGTCA
* * *
2783674 GTGGCACCCTTCCAAAGTCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * **
2783702 GTGACACCCATTTTTAAGCCCACAAGTCA
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
* **
2783731 GTGGCAT-TTTTCAAAGCCCACACAAGTTG
1 GTGGCATCCTTTCAAAG-CC-CACAAGTCA
* * *
2783760 GTGGCAACTCATTTGAAAGCCCACACAAGTCC
1 GTGGC-A-TCCTTTCAAAG-CC-CACAAGTCA
*
2783792 GTGGCAACCCATTTCAAAGCCCACAAGTCA
1 GTGGC-ATCC-TTTCAAAGCCCACAAGTCA
** * * *
2783822 GTGGCATCAGTTCAGAGCACATACAAGTCG
1 GTGGCATCCTTTCAAAGC-C-CACAAGTCA
* **
2783852 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
1 GTGGC-ATCC-TTTCAAAG-CC-CACAAGTCA
* * *
2783884 GTGGCAACCCATTTCGAAGCCCACACAAGTCG
1 GTGGC-ATCC-TTTCAAAG-CC-CACAAGTCA
* * * *
2783916 GTGGTAACCTATTTCAAAGCTCACAAATCA
1 GTGGCATCC--TTTCAAAGCCCACAAGTCA
*
2783946 GTGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
2783974 GTGGAACCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
2784002 GTGGCATCCTTTCAAAGTCCACAAGTCG
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
2784030 GTGGCATCCTTTTCAAAGCCCACAAGTCG
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
* *
2784059 GTGGCATCTTTTCAAATCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
2784087 GTGGCATTCTTTCAAAGTCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
2784115 GTGACA-CTCTTTCAAAGCCCAC
1 GTGGCATC-CTTTCAAAGCCCAC
2784137 GCAAATCGAT
Statistics
Matches: 760, Mismatches: 97, Indels: 51
0.84 0.11 0.06
Matches are distributed among these distances:
26 4 0.01
27 154 0.20
28 319 0.42
29 63 0.08
30 120 0.16
31 10 0.01
32 89 0.12
33 1 0.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (28 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCA
Found at i:2783604 original size:58 final size:57
Alignment explanation
Indices: 2783244--2784136 Score: 650
Period size: 55 Copynumber: 15.6 Consensus size: 57
2783234 CCTTTTAAGT
* * * * * * * * * *
2783244 CCACAACTCCGTGGCACCTTTTTAAAGTCCACAACTCCGTGG-TATCCTTT-AAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGC
* * * * * * * *
2783299 CCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCTGTGGC-ACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGC
* * * * * * * * * * *
2783354 TCACAACTCCGTGGCATCCTTT-TAAGTCTACAACTCCGTGGC-ACCCTTTTAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGC
* * * * * * * * *
2783409 CCACAACTCCGTGGCACCCTTTTAAA-TCCACAACTCCGTGGC-ATCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGC
* * * * * *
2783463 CCACAACTCCGTGGCACCCTTT-AAAGTCCATAACTCAGTGGC-ATCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGC
*
2783518 CCACAAGTCAGTGGCATACCCTTTCAAAGCCCACAAGTCAGTGGCATACCCTTCCAAAGC
1 CCACAAGTCAGTGGC--ACCCTTTCAAAGCCCACAAGTCAGTGGCA-ACCCTTTCAAAGC
* *
2783578 CCACAAGTCGGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGC-ACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGC
* * * * *
2783634 CCACAAGTTAGTGGCATATCCTTTCAAAGCCCACAAGTCGGTGGC-ACCCTTCCAAAGT
1 CCACAAGTCAGTGGC--ACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGC
* ** **
2783692 CCACAAGTCAGTGACACCCATTTTTAAGCCCACAAGTCAGTGGC-A-TTTTTCAAAGCC
1 CCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAG-C
** * * *
2783749 CACACAAGTTGGTGGCAACTCATTTGAAAGCCCACACAAGTCCGTGGCAACCCATTTCAAAGC
1 C-CACAAGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGCAACCC-TTTCAAAGC
* ** * * *
2783812 CCACAAGTCAGTGGCATCAGTTCAGAGCACATACAAGTCGGTGGCAACCCATTTCAAAGCC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC-C-CACAAGTCAGTGGCAACCC-TTTCAAAG-C
** * * * *
2783873 CACACAAGTTGGTGGCAACCCATTTCGAAGCCCACACAAGTCGGTGGTAACCTATTTCAAAGC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGCAACC-CTTTCAAAGC
* *
2783936 TCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG-AACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGC
* * * * *
2783992 CCACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCGGTGGCATCCTTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGC
* * * * ** *
2784049 CCACAAGTCGGTGGCATCTTTTCAAATCCCACAAGTCAGTGGC-ATTCTTTCAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGC
* *
2784105 CCACAAGTCAGTGACACTCTTTCAAAGCCCAC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
2784137 GCAAATCGAT
Statistics
Matches: 704, Mismatches: 104, Indels: 59
0.81 0.12 0.07
Matches are distributed among these distances:
53 3 0.00
54 71 0.10
55 131 0.19
56 117 0.17
57 84 0.12
58 116 0.16
59 11 0.02
60 70 0.10
61 20 0.03
62 36 0.05
63 5 0.01
64 39 0.06
65 1 0.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (57 bp):
CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGC
Found at i:2783649 original size:86 final size:84
Alignment explanation
Indices: 2783227--2784136 Score: 720
Period size: 82 Copynumber: 10.6 Consensus size: 84
2783217 GCAAAACTCC
* * * * * * * * * * *
2783227 GTGGCATCCTTT-TAAGTCCACAACTCCGTGGCACCTTTTTAAAGTCCACAACTCCGTGGTATCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
2783291 TTT-AAAGTCCACAACTCC
66 TTTCAAAGCCCACAAGTCA
* * * * * * ** * * *
2783309 GTGGCACCCTTTTAAAGTCCACAACTCTGTGGCACCCTTT-TAAGTTCACAACTCCGTGGCATCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * *
2783373 TTT-TAAGTCTACAACTCC
66 TTTCAAAGCCCACAAGTCA
* * * * * * * * * *
2783391 GTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAA-TCCACAACTCCGTGGCATCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
2783455 TTT-TAAGTCCACAACTCC
66 TTTCAAAGCCCACAAGTCA
* * * * * *
2783473 GTGGCACCCTTT-AAAGTCCATAACTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATAC
1 GTGGCATCCTTTCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC--AC
2783537 CCTTTCAAAGCCCACAAGTCA
64 CCTTTCAAAGCCCACAAGTCA
* *
2783558 GTGGCATACCCTTCCAAAGCCCACAAGTCGGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGCAC
1 GTGGCAT--CCTTTCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
*
2783623 CCTTTCAAAGCCCACAAGTTA
64 CCTTTCAAAGCCCACAAGTCA
* * *
2783644 GTGGCATATCCTTTCAAAGCCCACAAGTCGGTGGCACCCTTCCAAAGTCCACAAGTCAGTGACAC
1 GTGGC--ATCCTTTCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
**
2783709 CCATTTTTAAGCCCACAAGTCA
64 CC-TTTCAAAGCCCACAAGTCA
* * * * *
2783731 GTGGCAT-TTTTCAAAGCCCACACAAGTTGGTGGCAACTCATTTGAAAGCCCACACAAGTCCGTG
1 GTGGCATCCTTTCAAAG-CC-CACAAGTCGGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTG
2783795 GCAACCCATTTCAAAGCCCACAAGTCA
60 GC-ACCC-TTTCAAAGCCCACAAGTCA
** * * **
2783822 GTGGCATCAGTTCAGAGCACATACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTG
1 GTGGCATCCTTTCAAAGC-C-CACAAGTCGGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTG
* *
2783887 GCAACCCATTTCGAAGCCCACACAAGTCG
60 GC-ACCC-TTTCAAAG-CC-CACAAGTCA
* * * * * *
2783916 GTGGTAACCTATTTCAAAGCTCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGAAC
1 GTGGCATCC--TTTCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
2783981 CCTTTCAAAGCCCACAAGTCA
64 CCTTTCAAAGCCCACAAGTCA
* * * *
2784002 GTGGCATCCTTTCAAAGTCCACAAGTCGGTGGCATCCTTTTCAAAGCCCACAAGTCGGTGGCATC
1 GTGGCATCCTTTCAAAGCCCACAAGTCGGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACC
* *
2784067 TTTTCAAATCCCACAAGTCA
65 CTTTCAAAGCCCACAAGTCA
* * * * *
2784087 GTGGCATTCTTTCAAAGTCCACAAGTCAGTGACACTCTTTCAAAGCCCAC
1 GTGGCATCCTTTCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCAC
2784137 GCAAATCGAT
Statistics
Matches: 709, Mismatches: 92, Indels: 52
0.83 0.11 0.06
Matches are distributed among these distances:
81 27 0.04
82 148 0.21
83 26 0.04
84 49 0.07
85 96 0.14
86 110 0.16
87 29 0.04
88 58 0.08
89 5 0.01
90 23 0.03
91 33 0.05
92 67 0.09
93 6 0.01
94 25 0.04
96 7 0.01
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (84 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
TTTCAAAGCCCACAAGTCA
Found at i:2784181 original size:113 final size:111
Alignment explanation
Indices: 2783497--2784162 Score: 390
Period size: 116 Copynumber: 5.7 Consensus size: 111
2783487 AGTCCATAAC
* * * *
2783497 TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACAAGTC-AGTG
1 TCAGTGGAACCCTTTCAAAGCCCACAAGTCAGTGACAT--CCTTTCAAAGCCCACAAATCGA-TG
* * * * *
2783561 GCATACCCTTCCAAAGCCCACAAGTCGGTGGCACCCTTCCAAAGCCCACAAG
63 GCAT-CCTTTTCAAAGCCCAC-A-TCGGTGGCATCTTTTCAAAGCCCACAAG
* * * * *
2783613 TCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATATCCTTTCAAAGCCCACAAGTCGGTGG
1 TCAGTGGAACCCTTTCAAAGCCCACAAGTCAGT-G-ACATCCTTTCAAAGCCCACAAATCGATGG
* * * * * * *
2783678 CA-CCCTTCCAAAGTCCACAAGTCAGTGACACCCATTTT-TAAGCCCACAAG
64 CATCCTTTTCAAAGCCCAC-A-TCGGTGGCA-TC-TTTTCAAAGCCCACAAG
* ** ** * * *
2783728 TCAGTGGCA-TTTTTCAAAGCCCACACAAGTTGGTGGCAACTCATTTGAAAGCCCACACAAGTCC
1 TCAGTGGAACCCTTTCAAAG-CC-CACAAGTCAGTGAC-A-TCCTTTCAAAGCCCACA-AA-T-C
* * * ** * *
2783792 G-TGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCAGTTCAGAGCACATACAAG
59 GATGGC-ATCCTTTTCAAAGCCCAC-A-TCGGTGGCATCTTTTCAAAGC-C-CACAAG
* ** * * *
2783849 TCGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCGAAGCCCACACAAGT
1 TCAGTGG-AACCC-TTTCAAAG-CC-CACAAGTCAGTGAC-ATCC-TTTCAAAGCCCACA-AA-T
* * * * * * *
2783914 CGGTGGTAACCTATTTCAAAGCTCACAAATCAGTGGCACCCTTTCAAAGCCCACAAG
58 CGATGGCATCCT-TTTCAAAGC-C-CACATCGGTGGCATCTTTTCAAAGCCCACAAG
* * * *
2783971 TCAGTGGAACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCGGTGGCA
1 TCAGTGGAACCCTTTCAAAGCCCACAAGTCAGTGACATCCTTTCAAAGCCCACAAATCGATGGCA
*
2784036 TCCTTTTCAAAGCCCACAAGTCGGTGGCATCTTTTCAAATCCCACAAG
66 TCCTTTTCAAAGCCCAC-A-TCGGTGGCATCTTTTCAAAGCCCACAAG
* ** *
2784084 TCAGTGGCATTCTTTCAAAGTCCACAAGTCAGTGACA-CTCTTTCAAAGCCCACGCAAATCGATG
1 TCAGTGGAACCCTTTCAAAGCCCACAAGTCAGTGACATC-CTTTCAAAGCCCA--CAAATCGATG
*
2784148 GCAATCTTTTTCAAA
63 GC-ATCCTTTTCAAA
2784163 TCACCACTTT
Statistics
Matches: 450, Mismatches: 69, Indels: 62
0.77 0.12 0.11
Matches are distributed among these distances:
111 2 0.00
112 3 0.01
113 77 0.17
114 44 0.10
115 37 0.08
116 106 0.24
117 5 0.01
118 21 0.05
119 9 0.02
120 33 0.07
121 16 0.04
122 12 0.03
123 7 0.02
124 74 0.16
125 2 0.00
126 2 0.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (111 bp):
TCAGTGGAACCCTTTCAAAGCCCACAAGTCAGTGACATCCTTTCAAAGCCCACAAATCGATGGCA
TCCTTTTCAAAGCCCACATCGGTGGCATCTTTTCAAAGCCCACAAG
Found at i:2784287 original size:48 final size:48
Alignment explanation
Indices: 2784228--2784502 Score: 397
Period size: 48 Copynumber: 5.7 Consensus size: 48
2784218 GCACCTTTAA
2784228 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
1 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
* * *
2784276 TAGCTTAATGTCGCTAGCCTTGAATCAGCACATTGTCCATTTTTCCCT
1 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
* * *
2784324 TAGCTCAATGTCGCGGGCCTTGAATCAGCACATTGTCCACTTTTTCGT
1 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
* * * * *
2784372 TAGCTCGATGTCGCTAGCTTTGAATTAGCACATTATCCACTTTTCCCT
1 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
* *
2784420 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCATTTTTCCTT
1 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
* * **
2784468 TAGCTCCATGTCGTTGGCCTTGAATTGGCACATTG
1 TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTG
2784503 GCACTCCTCT
Statistics
Matches: 199, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 199 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (48 bp):
TAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCT
Found at i:2785254 original size:20 final size:20
Alignment explanation
Indices: 2785226--2785300 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
2785216 AAGTACCTAG
*
2785226 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2785246 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
2785266 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
2785286 ATGTATCGATACATT
1 ATGTATCGATACATT
2785301 CTGTCATTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2790797 original size:20 final size:20
Alignment explanation
Indices: 2790768--2790842 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
2790758 AAAAAGACAT
*
2790768 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAA
*
2790788 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * *
2790808 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGCAA
2790828 AATGTATCGATACAT
1 AATGTATCGATACAT
2790843 CAGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:2790836 original size:40 final size:39
Alignment explanation
Indices: 2790765--2790842 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2790755 GGTAAAAAGA
* *
2790765 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
2790804 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
2790843 CAGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:2791816 original size:51 final size:51
Alignment explanation
Indices: 2791750--2791851 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
2791740 TTATAGCCGT
**
2791750 TTATAGCCGTTACAAGCAATGTATCGATACATT-TCATTATGTATCGATACA
1 TTATAGCCGTTACAAGCAATGTATCGATACATTGT-ACCATGTATCGATACA
2791801 TTATAGCCGTTACAAGCAATGTATCGATACATTGTACCATGTATCGATACA
1 TTATAGCCGTTACAAGCAATGTATCGATACATTGTACCATGTATCGATACA
2791852 AATAATGATA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 47 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATAGCCGTTACAAGCAATGTATCGATACATTGTACCATGTATCGATACA
Found at i:2791925 original size:19 final size:19
Alignment explanation
Indices: 2791881--2791936 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2791871 CTGCCAGTTT
* **
2791881 CATGAATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
2791901 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
2791920 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2791937 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2791939 original size:13 final size:13
Alignment explanation
Indices: 2791921--2791947 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2791911 TACAATGAAC
2791921 ATGTATCGATACA
1 ATGTATCGATACA
2791934 ATGTATCGATACA
1 ATGTATCGATACA
2791947 A
1 A
2791948 AGCAAGATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2791963 original size:33 final size:32
Alignment explanation
Indices: 2791902--2791966 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
2791892 ACAATTGTCC
*
2791902 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
2791934 ATGTATCGATACAAAGCAAGATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
2791967 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:2795500 original size:20 final size:20
Alignment explanation
Indices: 2795475--2795566 Score: 86
Period size: 20 Copynumber: 5.3 Consensus size: 20
2795465 ATTTGCCTGC
2795475 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
2795495 ATGTATCGATAC-------A
1 ATGTATCGATACATTGAATA
2795508 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
2795528 ATGTATCGATAC-------A
1 ATGTATCGATACATTGAATA
2795541 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
2795561 ATGTAT
1 ATGTAT
2795567 TAATACATTT
Statistics
Matches: 58, Mismatches: 0, Indels: 28
0.67 0.00 0.33
Matches are distributed among these distances:
13 26 0.45
20 32 0.55
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:2795512 original size:13 final size:13
Alignment explanation
Indices: 2795494--2795553 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
2795484 TACATTGAAT
2795494 AATGTATCGATAC
1 AATGTATCGATAC
2795507 AATGTATCGATAC
1 AATGTATCGATAC
*
2795520 -A--T-T-GA-AT
1 AATGTATCGATAC
2795527 AATGTATCGATAC
1 AATGTATCGATAC
2795540 AATGTATCGATAC
1 AATGTATCGATAC
2795553 A
1 A
2795554 TTGAATAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
7 1 0.03
8 3 0.08
9 1 0.03
10 2 0.05
11 1 0.03
12 3 0.08
13 28 0.72
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2795573 original size:33 final size:33
Alignment explanation
Indices: 2795475--2795566 Score: 184
Period size: 33 Copynumber: 2.8 Consensus size: 33
2795465 ATTTGCCTGC
2795475 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACATTGAATAATGTATCGATACA
2795508 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACATTGAATAATGTATCGATACA
2795541 ATGTATCGATACATTGAATAATGTAT
1 ATGTATCGATACATTGAATAATGTAT
2795567 TAATACATTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (33 bp):
ATGTATCGATACATTGAATAATGTATCGATACA
Found at i:2795619 original size:13 final size:13
Alignment explanation
Indices: 2795601--2795626 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2795591 AGGGTAGCTT
2795601 TTGTATCGATACA
1 TTGTATCGATACA
2795614 TTGTATCGATACA
1 TTGTATCGATACA
2795627 ACACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2795871 original size:12 final size:12
Alignment explanation
Indices: 2795854--2795880 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2795844 AAACCCATTT
2795854 TCCCCACATATG
1 TCCCCACATATG
2795866 TCCCCACATATG
1 TCCCCACATATG
2795878 TCC
1 TCC
2795881 ACTCATCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.44, G:0.07, T:0.26
Consensus pattern (12 bp):
TCCCCACATATG
Found at i:2796065 original size:27 final size:27
Alignment explanation
Indices: 2796035--2796086 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
2796025 TCCCCCTTAA
*
2796035 AAAAATTTCTCCCCCTAGATAAAAAAT
1 AAAAACTTCTCCCCCTAGATAAAAAAT
2796062 AAAAACTTCTCCCCCTAGATAAAAA
1 AAAAACTTCTCCCCCTAGATAAAAA
2796087 TTTCCTCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.48, C:0.25, G:0.04, T:0.23
Consensus pattern (27 bp):
AAAAACTTCTCCCCCTAGATAAAAAAT
Found at i:2797873 original size:20 final size:23
Alignment explanation
Indices: 2797848--2797894 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
2797838 TTCTGTTGAT
2797848 GATTTTG-A-TGAAAAA-TGAAA
1 GATTTTGAAGTGAAAAAGTGAAA
2797868 GATTTTGAAGTGAAAAAGTGAAA
1 GATTTTGAAGTGAAAAAGTGAAA
2797891 -ATTT
1 GATTT
2797895 GTGGAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.29
21 1 0.04
22 11 0.46
23 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (23 bp):
GATTTTGAAGTGAAAAAGTGAAA
Found at i:2798849 original size:19 final size:20
Alignment explanation
Indices: 2798805--2798859 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2798795 CTGCTAGTTT
**
2798805 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
2798825 CATGTATCGATACAATT-AA
1 CATGTATCGATACAATTGAA
*
2798844 CATGTATCAATACAAT
1 CATGTATCGATACAAT
2798860 GTATCGATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2805210 original size:13 final size:13
Alignment explanation
Indices: 2805192--2805220 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2805182 ATACAGCTTG
2805192 CATTGTATCGATA
1 CATTGTATCGATA
2805205 CATTGTATCGATA
1 CATTGTATCGATA
2805218 CAT
1 CAT
2805221 GACCAAATGT
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:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2805233 original size:20 final size:21
Alignment explanation
Indices: 2805208--2805260 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2805198 ATCGATACAT
**
2805208 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
2805228 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
2805249 TGTATCGATACA
1 TGTATCGATACA
2805261 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:2805330 original size:13 final size:13
Alignment explanation
Indices: 2805312--2805337 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2805302 ACACACGGTA
2805312 TGTATCGATACAT
1 TGTATCGATACAT
2805325 TGTATCGATACAT
1 TGTATCGATACAT
2805338 CATAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2811520 original size:13 final size:13
Alignment explanation
Indices: 2811502--2811526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2811492 GAAAACTCAA
2811502 TGTATCGATACAG
1 TGTATCGATACAG
2811515 TGTATCGATACA
1 TGTATCGATACA
2811527 AGGGGTTTAT
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2811694 original size:20 final size:20
Alignment explanation
Indices: 2811659--2811699 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
2811649 CAAAATTCTT
2811659 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
2811681 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
2811700 AACAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:2812002 original size:20 final size:21
Alignment explanation
Indices: 2811962--2812013 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
2811952 CCCCTAGGCA
**
2811962 GCACCCACCAGGTCGTGACC-G
1 GCACCC-CCAGGTCGCAACCGG
2811983 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAGGTCGCAACCGG
2812004 GCAGCCCCCA
1 GCA-CCCCCA
2812014 CACTAGCAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.19, C:0.48, G:0.27, T:0.06
Consensus pattern (21 bp):
GCACCCCCAGGTCGCAACCGG
Found at i:2813948 original size:20 final size:20
Alignment explanation
Indices: 2813917--2813973 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
2813907 GTCAAAACCC
*
2813917 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
2813937 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
2813957 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
2813974 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:2813977 original size:13 final size:13
Alignment explanation
Indices: 2813959--2813987 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2813949 ATACAGATTG
2813959 CATTGTATCGATA
1 CATTGTATCGATA
2813972 CATTGTATCGATA
1 CATTGTATCGATA
2813985 CAT
1 CAT
2813988 GACCAAATGT
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:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2814000 original size:20 final size:21
Alignment explanation
Indices: 2813975--2814027 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2813965 ATCGATACAT
**
2813975 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
2813995 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
2814016 TGTATCGATACA
1 TGTATCGATACA
2814028 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:2816769 original size:33 final size:33
Alignment explanation
Indices: 2816731--2816797 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
2816721 GTTACAAGCT
*
2816731 ATGTATCAATACATT-TCATCATGTATCAATACA
1 ATGTATCAATACATTGT-ACCATGTATCAATACA
* *
2816764 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCAATACATTGTACCATGTATCAATACA
2816797 A
1 A
2816798 ATAGTGATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.34
Consensus pattern (33 bp):
ATGTATCAATACATTGTACCATGTATCAATACA
Found at i:2816864 original size:13 final size:13
Alignment explanation
Indices: 2816846--2816871 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2816836 TACAATTAAC
2816846 ATGTATCGATACA
1 ATGTATCGATACA
2816859 ATGTATCGATACA
1 ATGTATCGATACA
2816872 TCTGGGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2819737 original size:27 final size:27
Alignment explanation
Indices: 2819654--2819737 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 27
2819644 TCAAAGAGCA
*
2819654 GGACGCCTTTTAAAGCCCACACAAGTT
1 GGACGCCTTTCAAAGCCCACACAAGTT
** ** * * *
2819681 GGTGGCAC-TTCCCAGTCCTCAAAGAGTT
1 GGACGC-CTTTCAAAGCCCACACA-AGTT
2819709 GGACGCCTTTCAAAGCCCACACAAGTT
1 GGACGCCTTTCAAAGCCCACACAAGTT
2819736 GG
1 GG
2819738 TGGCATTTTC
Statistics
Matches: 39, Mismatches: 15, Indels: 6
0.65 0.25 0.10
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (27 bp):
GGACGCCTTTCAAAGCCCACACAAGTT
Found at i:2819816 original size:61 final size:61
Alignment explanation
Indices: 2819610--2820307 Score: 732
Period size: 61 Copynumber: 11.8 Consensus size: 61
2819600 GACGCCTTTT
*
2819610 AAAGCCCACACAAGTTGGTGGCACCCTT-CAGTCCTCAAAGAGCAGGACGC---CT--TT-T
1 AAAGCCCACACAAGTTGGTGGCA-CCTTCCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTGC
**
2819665 AAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGTTGGACGC---CT--TT-C
1 AAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTGC
** * * *
2819720 AAAGCCCACACAAGTTGGTGGCATTTTCTAATCCTCAAAGAGCAGGATGCTTTCTCCTTGC
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTGC
* *
2819781 AAAGCCCACACAAGTTGGTGGCACCTTCCGGTCCTCAAAGAGCAGGACGCCTTTC-CTTTGC
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACG-CTTTCTCCTTGC
* * * *
2819842 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCCCAAAAAGCAGGATGCTTT-TCCGTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTTTCTCC-TTGC
** * *
2819903 AAAGCCCACATGAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGTAGGATGC---CT--TT-C
1 AAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTGC
** * * * *
2819958 AAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAAGATGCTTTCTCTTTGC
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTGC
* * *
2820019 AAAGCCCACACAAGTTGGT-GCACCTTCCAGTCCTCAAAGAGCAGGACGC-CTCGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTGC
** * *
2820078 AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTCT-CTCTGC
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTTTCTCCT-TGC
* *
2820139 AAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTC-CTTTGC
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACG-CTTTCTCCTTGC
* * * * * *
2820200 AAAGCCCACACAAGTTGGTGGCACCTTCAAGTCCCCAAAAAGCAAGACGCCTTTC-CGTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACG-CTTTCTCCTTGC
** * **
2820261 AAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA
2820308 TGCACCTTAT
Statistics
Matches: 547, Mismatches: 70, Indels: 46
0.83 0.11 0.07
Matches are distributed among these distances:
53 3 0.01
55 130 0.24
56 6 0.01
58 4 0.01
59 26 0.05
60 65 0.12
61 302 0.55
62 11 0.02
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (61 bp):
AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTGC
Found at i:2819911 original size:122 final size:118
Alignment explanation
Indices: 2819587--2820307 Score: 816
Period size: 122 Copynumber: 6.1 Consensus size: 118
2819577 ACTTTTTAGC
2819587 CCTCAAAGAGCAGGACGCC-T--TTT-AAAGCCCACACAAGTTGGTGGCACCCTT-CAGTCCTCA
1 CCTCAAAGAGCAGGACGCCTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTCCAGTCCTCA
* *
2819647 AAGAGCAGGA--C--GCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGT
65 AAGAGCAGGATGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CCAGT
** ** * *
2819697 CCTCAAAGAGTTGGACG----CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAATCCTCAA
1 CCTCAAAGAGCAGGACGCCTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAA
* *
2819758 AGAGCAGGATGCTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCGGT
66 AGAGCAGGATGC-TT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
*
2819813 CCTCAAAGAGCAGGACGCCTTTCCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCCC
1 CCTCAAAGAGCAGGACGCC-TTCCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
* **
2819878 AAAAAGCAGGATGCTTTTCCGTTTCAAAGCCCACATGAGTTGGTGGCA-CTTCCCAGT
64 AAAGAGCAGGATGC-TTTCC-TTTCAAAGCCCACACAAGTTGGTGGCACCTT-CCAGT
* * ** *
2819935 CCTCAAAGAGTAGGA----TGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAA
1 CCTCAAAGAGCAGGACGCCTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAA
*
2819996 AGAGCAAGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGT-GCACCTTCCAGT
66 AGAGCAGGATGCTTTC-CTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* ** *
2820050 CCTCAAAGAGCAGGACGCCTCGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCA
1 CCTCAAAGAGCAGGACGCCT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCA
* *
2820115 AAGAGCAGGATGCTTTCTCTCTGCAAAGCCCATACAAGTTGGTGGCACCTTCCAGT
65 AAGAGCAGGATGCTTTC-CT-TTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* *
2820171 CCTCAAAGAGCAGGACGCCTTTCCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCAAGTCCCC
1 CCTCAAAGAGCAGGACGCC-TTCCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
* * * ** * **
2820236 AAAAAGCAAGACGCCTTTCCGTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAGT
64 AAAGAGCAGGATG-CTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
2820293 CCTCAAAGAGCAGGA
1 CCTCAAAGAGCAGGA
2820308 TGCACCTTAT
Statistics
Matches: 524, Mismatches: 54, Indels: 54
0.83 0.09 0.09
Matches are distributed among these distances:
109 5 0.01
110 55 0.10
112 1 0.00
115 29 0.06
116 113 0.22
117 9 0.02
119 1 0.00
120 80 0.15
121 48 0.09
122 177 0.34
123 6 0.01
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (118 bp):
CCTCAAAGAGCAGGACGCCTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAA
AGAGCAGGATGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
Found at i:2820235 original size:358 final size:348
Alignment explanation
Indices: 2819587--2820310 Score: 1098
Period size: 358 Copynumber: 2.1 Consensus size: 348
2819577 ACTTTTTAGC
* * *
2819587 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTCAGTCCTCAAAGAG
1 CCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAATCCTCAAAGAG
* **
2819652 CAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTTGGACGCCT
66 CAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCT
2819717 TTCAAAGCCCACACAAGTTGGTGGCATTTTCTAATCCTCAAAGAGCAGGATGCTTTCTCCTTGCA
131 TTCAAAGCCCACACAAGTTGGTGGCATTTTCTAATCCTCAAAGAGCAGGATGCTTTCTCCTTGCA
*
2819782 AAGCCCACACAAGTTGGTGGCACCTTCCGGTCCTCAAAGAGCAGGACGCCTTTCCTTTGCAAAGC
196 AAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTGCAAAGC
* * * *
2819847 CCACACAAGTTGGTGGCACCTTCCAGTCCCCAAAAAGCAGGATGCTTTTCCGTTTCAAAGCCCAC
261 CCACACAAGTTGGTGGCACCTTCAAGTCCCCAAAAAGCAAGACGCCTTTCCGTTTCAAAGCCCAC
2819912 ATGAGTTGGTGGCACTTCCCAGT
326 ATGAGTTGGTGGCACTTCCCAGT
* **
2819935 CCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTCAAAGA
1 CCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTT-CAATCCTCAAAGA
*
2819999 GCAAGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGT-GCACCTT-CCAGTCCTCAAAGAGCA
65 GCAAGACGC---CT-TTT--AAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCA
*
2820062 GGACGCCTCGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-TCAGTCCTCAAAGAGCAGGAT
123 GGA-----CGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCT-AATCCTCAAAGAGCAGGAT
*
2820126 GCTTTCT-CTCTGCAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCC
182 GCTTTCTCCT-TGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCC
2820190 TTTCCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCAAGTCCCCAAAAAGCAAGACGCCTTTC
246 TTTCCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCAAGTCCCCAAAAAGCAAGACGCCTTTC
***
2820255 CGTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAGT
311 CGTTTCAAAGCCCACATGAGTTGGTGGCACTTCCCAGT
2820293 CCTCAAAGAGCAGGATGC
1 CCTCAAAGAGCAGGATGC
2820311 ACCTTATTTT
Statistics
Matches: 340, Mismatches: 21, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
347 2 0.01
348 62 0.18
351 2 0.01
352 3 0.01
353 21 0.06
354 22 0.06
357 3 0.01
358 225 0.66
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (348 bp):
CCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAATCCTCAAAGAG
CAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCT
TTCAAAGCCCACACAAGTTGGTGGCATTTTCTAATCCTCAAAGAGCAGGATGCTTTCTCCTTGCA
AAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTGCAAAGC
CCACACAAGTTGGTGGCACCTTCAAGTCCCCAAAAAGCAAGACGCCTTTCCGTTTCAAAGCCCAC
ATGAGTTGGTGGCACTTCCCAGT
Found at i:2820379 original size:42 final size:41
Alignment explanation
Indices: 2820291--2820380 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 41
2820281 GCACTTTTTA
* *
2820291 GTCCTCAAAGAGCAGGATGCACCTTATTTTCCTCTTTCTTTC
1 GTCCTCAAAGAGCAGGA-GCAACTTATTTCCCTCTTTCTTTC
*
2820333 GTCCTCAAAGAGCAGG-GCATACTTCATTTCCCTTTTTCCTTT-
1 GTCCTCAAAGAGCAGGAGCA-ACTT-ATTTCCCTCTTT-CTTTC
2820375 GTCCTC
1 GTCCTC
2820381 GAAAAATGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
40 3 0.07
41 3 0.07
42 32 0.76
43 4 0.10
ACGTcount: A:0.18, C:0.30, G:0.14, T:0.38
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGAGCAACTTATTTCCCTCTTTCTTTC
Found at i:2821249 original size:13 final size:13
Alignment explanation
Indices: 2821231--2821256 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2821221 CATTATTCCA
2821231 TGTATCGATACAT
1 TGTATCGATACAT
2821244 TGTATCGATACAT
1 TGTATCGATACAT
2821257 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2828597 original size:52 final size:52
Alignment explanation
Indices: 2828531--2828664 Score: 164
Period size: 52 Copynumber: 2.6 Consensus size: 52
2828521 TTAAGTTTCT
*
2828531 CAATTGTT-CATAATCGGGGATACTCCAACCCCGGTTTTATTTCC-AAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* * * *
2828582 CAATTTTCCTTTAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* * *
2828635 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTCCATAATCGGGGATACTCCAACC
2828665 TCATTATTTC
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
50 2 0.03
51 6 0.09
52 47 0.68
53 14 0.20
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (52 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
Found at i:2833777 original size:20 final size:21
Alignment explanation
Indices: 2833748--2833800 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
2833738 ATCGATACAT
* **
2833748 TGTATTGATACATG-ACCAAA
1 TGTATCGATACATGCAAAAAA
*
2833768 TGTATCGATACTTGCAAAAAA
1 TGTATCGATACATGCAAAAAA
2833789 TGTATCGATACA
1 TGTATCGATACA
2833801 GGTGATTGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGCAAAAAA
Found at i:2839851 original size:15 final size:16
Alignment explanation
Indices: 2839819--2839851 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2839809 ATTTGATTAA
*
2839819 ATTTTGTGATTTTTTG
1 ATTTTGTGATTGTTTG
2839835 ATTTTGTGA-TGTTTG
1 ATTTTGTGATTGTTTG
2839850 AT
1 AT
2839852 GTTGAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (16 bp):
ATTTTGTGATTGTTTG
Found at i:2840549 original size:21 final size:21
Alignment explanation
Indices: 2840515--2840555 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2840505 GCACTCACCA
*
2840515 GGTCGCGACCGGCA-CCCCCG
1 GGTCGCAACCGGCAGCCCCCG
2840535 GGTCGCAACCGGGCAGCCCCC
1 GGTCGCAACC-GGCAGCCCCC
2840556 ACACTCACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.12, C:0.49, G:0.34, T:0.05
Consensus pattern (21 bp):
GGTCGCAACCGGCAGCCCCCG
Found at i:2842641 original size:15 final size:14
Alignment explanation
Indices: 2842621--2842653 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2842611 GTATCGATAC
2842621 ATACAAGATGTATCG
1 ATACAA-ATGTATCG
2842636 ATAC-AATGTATCG
1 ATACAAATGTATCG
2842649 ATACA
1 ATACA
2842654 TGACTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 12 0.71
14 1 0.06
15 4 0.24
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (14 bp):
ATACAAATGTATCG
Found at i:2842646 original size:13 final size:13
Alignment explanation
Indices: 2842628--2842653 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2842618 TACATACAAG
2842628 ATGTATCGATACA
1 ATGTATCGATACA
2842641 ATGTATCGATACA
1 ATGTATCGATACA
2842654 TGACTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2843537 original size:33 final size:33
Alignment explanation
Indices: 2843490--2843558 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
2843480 CCGTAACAAG
* *
2843490 CAATCTATCGATACATT-TCATCATGTATCGGTA
1 CAATCTATCGATACATTGT-ACCATGTATCGATA
*
2843523 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATCTATCGATACATTGTACCATGTATCGATA
2843556 CAA
1 CAA
2843559 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATCTATCGATACATTGTACCATGTATCGATA
Found at i:2843543 original size:20 final size:20
Alignment explanation
Indices: 2843520--2843557 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2843510 TCATGTATCG
2843520 GTACAATGTATCGATACATT
1 GTACAATGTATCGATACATT
*
2843540 GTACCATGTATCGATACA
1 GTACAATGTATCGATACA
2843558 AATAGTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (20 bp):
GTACAATGTATCGATACATT
Found at i:2845750 original size:24 final size:23
Alignment explanation
Indices: 2845723--2845776 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
2845713 ACCAAGAAAA
2845723 ATAAAAATAAATTAAATTA-ATATT
1 ATAAAAATAAA-TAAATTAGAT-TT
2845747 ATAAATAA-AAATAAATTAGATTT
1 ATAAA-AATAAATAAATTAGATTT
2845770 -TAAAAAT
1 ATAAAAAT
2845777 TTTTTATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
21 2 0.07
22 4 0.15
23 9 0.33
24 10 0.37
25 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
ATAAAAATAAATAAATTAGATTT
Found at i:2845940 original size:15 final size:15
Alignment explanation
Indices: 2845922--2845952 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2845912 ATAAGACATG
2845922 TAAAAATAAATTAAA
1 TAAAAATAAATTAAA
2845937 TAAAAATAAATTAAA
1 TAAAAATAAATTAAA
2845952 T
1 T
2845953 TAATTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAAATAAATTAAA
Found at i:2847718 original size:2 final size:2
Alignment explanation
Indices: 2847711--2847745 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2847701 AAGCCAATCA
2847711 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2847746 AGATATCCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2848600 original size:13 final size:13
Alignment explanation
Indices: 2848582--2848607 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2848572 ACATACAAGA
2848582 TGTATCGATACAT
1 TGTATCGATACAT
2848595 TGTATCGATACAT
1 TGTATCGATACAT
2848608 GACCAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2848626 original size:34 final size:32
Alignment explanation
Indices: 2848562--2848630 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
2848552 CCTTAACTGT
2848562 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
*
2848594 TTGTATCGATACATGACCAA-ATTGTATTGATACA
1 TTGTATCGATACAT-A-CAAGA-TGTATCGATACA
2848628 TTG
1 TTG
2848631 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
32 14 0.42
33 2 0.06
34 17 0.52
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:2850216 original size:3 final size:3
Alignment explanation
Indices: 2850201--2850231 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2850191 AACCATCAAG
*
2850201 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
2850232 GTGACTCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:2854773 original size:13 final size:13
Alignment explanation
Indices: 2854755--2854779 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2854745 AAAACTCAGA
2854755 TGTATCGATACAG
1 TGTATCGATACAG
2854768 TGTATCGATACA
1 TGTATCGATACA
2854780 AAGGGTTTAT
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2855254 original size:20 final size:21
Alignment explanation
Indices: 2855214--2855255 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
2855204 TCTCTAGGTA
*
2855214 GCACTCACCAGGTCGCGACCG
1 GCACTCACCAGGTCGCAACCG
*
2855235 GCACTC-CCAGGTTGCAACCG
1 GCACTCACCAGGTCGCAACCG
2855255 G
1 G
2855256 GTAGCCCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.19, C:0.40, G:0.29, T:0.12
Consensus pattern (21 bp):
GCACTCACCAGGTCGCAACCG
Found at i:2857414 original size:34 final size:32
Alignment explanation
Indices: 2857351--2857419 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
2857341 CCTTAACTGT
2857351 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
*
2857383 TTGTATTGATACATGACCAA-ATTGTATCGATACA
1 TTGTATCGATACAT-A-CAAGA-TGTATCGATACA
2857417 TTG
1 TTG
2857420 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
32 13 0.39
33 2 0.06
34 18 0.55
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:2858101 original size:13 final size:13
Alignment explanation
Indices: 2858083--2858108 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2858073 TACACCAAGT
2858083 ATGTATCGATACA
1 ATGTATCGATACA
2858096 ATGTATCGATACA
1 ATGTATCGATACA
2858109 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2858127 original size:34 final size:32
Alignment explanation
Indices: 2858065--2858129 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
2858055 TAGCCAAACT
**
2858065 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
2858097 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
2858130 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:2860358 original size:22 final size:22
Alignment explanation
Indices: 2860331--2860386 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
2860321 TTGCAAGTTG
2860331 AAATAAAGAACTTGGCTAATG-A
1 AAATAAAGAACTTGGCTAA-GAA
* *
2860353 AAATAATGAA-TTAGCTAAGAA
1 AAATAAAGAACTTGGCTAAGAA
2860374 AAATAAA-AACTTG
1 AAATAAAGAACTTG
2860387 CATGATTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 3 0.11
21 16 0.57
22 9 0.32
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
AAATAAAGAACTTGGCTAAGAA
Found at i:2864316 original size:13 final size:13
Alignment explanation
Indices: 2864298--2864335 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2864288 CATTTTTCTT
2864298 TGTATCGATACAA
1 TGTATCGATACAA
*
2864311 TGTATCGATACAC
1 TGTATCGATACAA
2864324 TGTATCGATACA
1 TGTATCGATACA
2864336 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2864499 original size:20 final size:20
Alignment explanation
Indices: 2864456--2864501 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2864446 AAATCTTTTG
2864456 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2864477 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2864497 CAAAA
1 CAAAA
2864502 ACAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2866907 original size:13 final size:13
Alignment explanation
Indices: 2866889--2866914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2866879 TACACCAAGT
2866889 ATGTATCGATACA
1 ATGTATCGATACA
2866902 ATGTATCGATACA
1 ATGTATCGATACA
2866915 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2866933 original size:34 final size:32
Alignment explanation
Indices: 2866871--2866935 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
2866861 TAGCCAAACT
**
2866871 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
2866903 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
2866936 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:2869942 original size:2 final size:2
Alignment explanation
Indices: 2869937--2869962 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2869927 CTCTAAAAAA
2869937 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2869963 TCACAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2870225 original size:22 final size:19
Alignment explanation
Indices: 2870193--2870235 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 19
2870183 CCTACATAAT
2870193 CAAAACACAAAATTAAGCAC
1 CAAAACACAAAATTAA-CAC
2870213 CAAATACATCAAAATTAACAC
1 CAAA-ACA-CAAAATTAACAC
2870234 CA
1 CA
2870236 TAATCAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 8 0.38
22 9 0.43
ACGTcount: A:0.58, C:0.26, G:0.02, T:0.14
Consensus pattern (19 bp):
CAAAACACAAAATTAACAC
Found at i:2873068 original size:14 final size:15
Alignment explanation
Indices: 2873049--2873078 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2873039 ATTTATCCAT
2873049 AATATTT-TTTAAAA
1 AATATTTATTTAAAA
2873063 AATATTTATTTAAAA
1 AATATTTATTTAAAA
2873078 A
1 A
2873079 TTTAATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTATTTAAAA
Found at i:2873868 original size:50 final size:50
Alignment explanation
Indices: 2873780--2873874 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 50
2873770 TCTGAAAAGA
* * * **
2873780 AAATGTATCGATACATTTTTTATTGTATTGATACATTCTGGGTTTGATCC
1 AAATGCATCGATACATTTTTCACTGTATCAATACATTCTGGGTTTGATCC
* *
2873830 AAATGCATCGATACATTTTTCACTGTATCAATATATTCTTGGTTT
1 AAATGCATCGATACATTTTTCACTGTATCAATACATTCTGGGTTT
2873875 TTGACCCAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (50 bp):
AAATGCATCGATACATTTTTCACTGTATCAATACATTCTGGGTTTGATCC
Found at i:2875425 original size:166 final size:164
Alignment explanation
Indices: 2875011--2875584 Score: 599
Period size: 166 Copynumber: 3.5 Consensus size: 164
2875001 CCTGTTTTCG
* * ***
2875011 AAATACGGAGTTTCCTACTT-CGTAAATTTTTTCGGGAGGA-TTTTCATTGATCCAAAATTTTTA
1 AAATAC-GAGTTTTCTA-TTCCGTAAA-TTTTTCGAGAGGATTTTTC-TTGATTTTAAATTTTTA
* * * **
2875074 AAATTCATCAAATATTATTATTTAATTCATGTTAAATTAGTTTCCAAAAATTAATTTATTTTCAT
62 AAATTCATCAAATATTATCATTTAATTCATATTAAATCAGTTTTGAAAAATTAATTTATTTTCAT
* * * * * *
2875139 AAATTTTTTAATTTTTTTCTT-GAAAATCT-TCTATTTTTG
127 -GAGTTTTGAA-TTTTTTCTTCGAAATTCTCT-TATTTCTA
** * *
2875178 AAATACAGAGTTTTCTATTTTGTAAATTTTGTCGAGAGGATTTTTC-TCAGTTTTCAATTTTTAA
1 AAATAC-GAGTTTTCTATTCCGTAAATTTT-TCGAGAGGATTTTTCTTGA-TTTTAAATTTTTAA
* * *
2875242 AATTCATCAAATATTATCATTTAATTCATATTAAATCATTTTTGAAAAACTCATTTATTTTCATG
63 AATTCATCAAATATTATCATTTAATTCATATTAAATCAGTTTTGAAAAATTAATTTATTTTCATG
2875307 AGTTTTGAATTTTTTCTTCGAAATTCTCTTATTTCTA
128 AGTTTTGAATTTTTTCTTCGAAATTCTCTTATTTCTA
* *
2875344 AAATACGACGTTGTT-TACTCCGTAAATGTTTTCGAG-GAGATTTTTCTTGATTTTTAATTTTTA
1 AAATACGA-GTT-TTCTATTCCGTAAAT-TTTTCGAGAG-GATTTTTCTTGATTTTAAATTTTTA
* * *
2875407 AAATTCATCAAATATTATCATTTGATTTACATTAAATCAGTTTTGAAAAATTAATTTATTTTCAT
62 AAATTCATCAAATATTATCATTTAATTCATATTAAATCAGTTTTGAAAAATTAATTTATTTTCAT
* * * *
2875472 GGGTTTTGAA-TTTTTCTTCAAAATTCTCCTATTTTCGA
127 GAGTTTTGAATTTTTTCTTCGAAATTCTCTTA-TTTCTA
* ** * *
2875510 AAA-ACTAAGTTTTCTATTCCACAAATATTTTCGAGAGGATTTTTCTTGGTTTAAAATTTTTAAA
1 AAATAC-GAGTTTTCTATTCCGTAAAT-TTTTCGAGAGGATTTTTCTTGATTTTAAATTTTTAAA
2875574 ATTCATCAAAT
64 ATTCATCAAAT
2875585 TCATTGATTT
Statistics
Matches: 346, Mismatches: 46, Indels: 32
0.82 0.11 0.08
Matches are distributed among these distances:
164 2 0.01
165 88 0.25
166 149 0.43
167 102 0.29
168 5 0.01
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (164 bp):
AAATACGAGTTTTCTATTCCGTAAATTTTTCGAGAGGATTTTTCTTGATTTTAAATTTTTAAAAT
TCATCAAATATTATCATTTAATTCATATTAAATCAGTTTTGAAAAATTAATTTATTTTCATGAGT
TTTGAATTTTTTCTTCGAAATTCTCTTATTTCTA
Done.