Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold382
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: 2572505
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 14 of 16
Found at i:2197168 original size:15 final size:15
Alignment explanation
Indices: 2197148--2197178 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2197138 TAAAAATGTC
*
2197148 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2197163 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2197178 C
1 C
2197179 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2199269 original size:20 final size:20
Alignment explanation
Indices: 2199190--2199269 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
2199180 AATGTCCAAA
*
2199190 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
2199210 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
2199235 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
2199255 TTGTATCGATACATT
1 ATGTATCGATACATT
2199270 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:2199273 original size:13 final size:13
Alignment explanation
Indices: 2199255--2199293 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2199245 ACATTTTTCT
2199255 TTGTATCGATACA
1 TTGTATCGATACA
2199268 TTGTATCGATACA
1 TTGTATCGATACA
*
2199281 CTGTATCGATACA
1 TTGTATCGATACA
2199294 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2199438 original size:21 final size:21
Alignment explanation
Indices: 2199414--2199460 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
2199404 AAATCTTTTG
2199414 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
2199435 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
2199455 CAAAAT
1 CAAAAT
2199461 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:2199457 original size:20 final size:19
Alignment explanation
Indices: 2199416--2199458 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
2199406 ATCTTTTGCA
2199416 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
2199436 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
2199456 AAA
1 AAA
2199459 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:2201859 original size:13 final size:13
Alignment explanation
Indices: 2201841--2201866 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2201831 TACAGCAAGT
2201841 ATGTATCGATACA
1 ATGTATCGATACA
2201854 ATGTATCGATACA
1 ATGTATCGATACA
2201867 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2206624 original size:21 final size:22
Alignment explanation
Indices: 2206591--2206639 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
2206581 ATGCAAGTTT
** *
2206591 TTATTTTTTTTAGCTAAC-TCA
1 TTATTTTCATTAGCCAACTTCA
*
2206612 TTATTTTCATTAGCCAACTTCT
1 TTATTTTCATTAGCCAACTTCA
2206634 TTATTT
1 TTATTT
2206640 CAACTTGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.22, C:0.16, G:0.04, T:0.57
Consensus pattern (22 bp):
TTATTTTCATTAGCCAACTTCA
Found at i:2208878 original size:13 final size:13
Alignment explanation
Indices: 2208860--2208885 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2208850 CAATTTTTTG
2208860 TGTATCGATACAT
1 TGTATCGATACAT
2208873 TGTATCGATACAT
1 TGTATCGATACAT
2208886 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2208897 original size:32 final size:33
Alignment explanation
Indices: 2208840--2208903 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2208830 TACAAGCCAA
** *
2208840 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCAATACAT
2208873 TGTATCGATAC-ATACTTTGTGTATCAATACA
1 TGTATCGATACAATACTTTGTGTATCAATACA
2208904 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCAATACAT
Found at i:2211846 original size:78 final size:78
Alignment explanation
Indices: 2211716--2212055 Score: 315
Period size: 78 Copynumber: 4.3 Consensus size: 78
2211706 TATTTTGGAG
* * * ** ** * *
2211716 ATAAAATCGAGGTTGGGGGTATTCCCTAGAAAATAACAGGGTCGGAGTATCCCTGATTGTGAAAA
1 ATAAAATCGGGGTT-GGAGTA-TCCCTCGAAAATAATGGGGTTAGAGTATCCCCGATTGTGGAAA
* *
2211781 ATTGGTATTTTAAAA
64 ATCGGTGTTTTAAAA
* * *
2211796 ATAAAATCGGGGTTGTAGTATCCCTCGGAAATAATGGGGTTAGAGTATCCCCGATTATGGAAAAT
1 ATAAAATCGGGGTTGGAGTATCCCTCGAAAATAATGGGGTTAGAGTATCCCCGATTGTGGAAAAT
* **
2211861 CAGTGTTTTGGAA
66 CGGTGTTTTAAAA
* * * * * * *
2211874 ATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCTCGGATGGTGGAAA
1 ATAAAATCGGGGTTGGAGTAT-CCCTCGAAAATAATGGGGTTAGAGTATCC-CCGATTGTGGAAA
2211939 ATCGGTGTTTTAAAA
64 ATCGGTGTTTTAAAA
* * *
2211954 ATAAAATCGGAGTTGGAGTATCCC-CATGAAAATAATGGGGTTAGAGTATCTCCGA-TGTAGAAA
1 ATAAAATCGGGGTTGGAGTATCCCTC--GAAAATAATGGGGTTAGAGTATCCCCGATTGTGGAAA
* *
2212017 ATCGATGTTTTAGAA
64 ATCGGTGTTTTAAAA
* * * *
2212032 ATAAAACCAGGATTAGAGTATCCC
1 ATAAAATCGGGGTTGGAGTATCCC
2212056 CGAGATTAAA
Statistics
Matches: 209, Mismatches: 47, Indels: 10
0.79 0.18 0.04
Matches are distributed among these distances:
78 101 0.48
79 35 0.17
80 73 0.35
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (78 bp):
ATAAAATCGGGGTTGGAGTATCCCTCGAAAATAATGGGGTTAGAGTATCCCCGATTGTGGAAAAT
CGGTGTTTTAAAA
Found at i:2211878 original size:158 final size:157
Alignment explanation
Indices: 2211708--2212056 Score: 422
Period size: 158 Copynumber: 2.2 Consensus size: 157
2211698 AAGTTTAATA
* * * * *
2211708 TTTTGGAGATAAAATC-GAGGTTGGGGGTATTCCCTAGAAAATAACAGGG-TCGGAGTATCC-CT
1 TTTTGGAAATAAAACCAG-GGTT-GGAGTATCCCCTAGAAAATAAC-GGGATCGGAGTATCCTCG
* * * * *
2211770 GATTGTGAAAAATTGGTATTTTAAAAATAAAATCGGGGTTGTAGTATCCCTC-GGAAATAATGGG
63 GATGGTGAAAAATCGGTATTTTAAAAATAAAATCGGAGTTGGAGTATCCC-CAGAAAATAATGGG
2211834 GTTAGAGTATCCCCGAT-TATGGAAAATC-AGTG
127 GTTAGAGTATCCCCGATGTA--GAAAATCGA-TG
* *
2211866 TTTTGGAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCTCGGAT
1 TTTTGGAAATAAAACCAGGGTTGGAGTATCCCCTAGAAAATAACGGGATCGGAGTATCCTCGGAT
* *
2211931 GGTGGAAAATCGGTGTTTTAAAAATAAAATCGGAGTTGGAGTATCCCCATGAAAATAATGGGGTT
66 GGTGAAAAATCGGTATTTTAAAAATAAAATCGGAGTTGGAGTATCCCCA-GAAAATAATGGGGTT
*
2211996 AGAGTATCTCCGATGTAGAAAATCGATG
130 AGAGTATCCCCGATGTAGAAAATCGATG
* * *
2212024 TTTTAGAAATAAAACCAGGATTAGAGTATCCCC
1 TTTTGGAAATAAAACCAGGGTTGGAGTATCCCC
2212057 GAGATTAAAA
Statistics
Matches: 166, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
156 3 0.02
157 30 0.18
158 102 0.61
159 29 0.17
160 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (157 bp):
TTTTGGAAATAAAACCAGGGTTGGAGTATCCCCTAGAAAATAACGGGATCGGAGTATCCTCGGAT
GGTGAAAAATCGGTATTTTAAAAATAAAATCGGAGTTGGAGTATCCCCAGAAAATAATGGGGTTA
GAGTATCCCCGATGTAGAAAATCGATG
Found at i:2214387 original size:13 final size:13
Alignment explanation
Indices: 2214369--2214398 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2214359 TAAAACCTAG
2214369 AATGTATCGATAT
1 AATGTATCGATAT
2214382 AATGTATCGATAT
1 AATGTATCGATAT
2214395 AATG
1 AATG
2214399 AACAATGTAT
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:0.07, G:0.17, T:0.37
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:2214407 original size:20 final size:20
Alignment explanation
Indices: 2214382--2214436 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
2214372 GTATCGATAT
*
2214382 AATGTATCGATATAATGAAC
1 AATGTATCGATACAATGAAC
2214402 AATGTAT-GTATACAATGAAC
1 AATGTATCG-ATACAATGAAC
2214422 AATGTATCGATACAA
1 AATGTATCGATACAA
2214437 ATTGTGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:2225848 original size:21 final size:22
Alignment explanation
Indices: 2225799--2225854 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
2225789 TGGACATGAT
2225799 AAAAATGCATGAAATATAGCTC
1 AAAAATGCATGAAATATAGCTC
2225821 AAAAATGCATGAAATATAGCTC
1 AAAAATGCATGAAATATAGCTC
2225843 -AAAATGCATGAA
1 AAAAATGCATGAA
2225855 CATTGGCTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.35
22 22 0.65
ACGTcount: A:0.52, C:0.12, G:0.14, T:0.21
Consensus pattern (22 bp):
AAAAATGCATGAAATATAGCTC
Found at i:2226778 original size:20 final size:20
Alignment explanation
Indices: 2226753--2226806 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2226743 ATTTACCTGC
2226753 ATGTATCGATACATTGAACA
1 ATGTATCGATACATTGAACA
* *
2226773 ATGTATTGATATATTGAACA
1 ATGTATCGATACATTGAACA
2226793 ATGTATCGATACAT
1 ATGTATCGATACAT
2226807 CTGGGTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGAACA
Found at i:2230504 original size:19 final size:20
Alignment explanation
Indices: 2230467--2230504 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2230457 TATAAAATTT
* *
2230467 TAATTTAAATTATTATTTAA
1 TAATTAAAAATATTATTTAA
2230487 TAATTAAAAATATT-TTTA
1 TAATTAAAAATATTATTTA
2230505 TTTAAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTAAAAATATTATTTAA
Found at i:2230875 original size:17 final size:17
Alignment explanation
Indices: 2230855--2230896 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
2230845 ATTTTATTTT
2230855 TTTTATTTTT-TTGATAA
1 TTTTATTTTTATTG-TAA
2230872 TTTTATTTTTATTGTAA
1 TTTTATTTTTATTGTAA
*
2230889 TTATATTT
1 TTTTATTT
2230897 AAAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTTATTTTTATTGTAA
Found at i:2230963 original size:31 final size:31
Alignment explanation
Indices: 2230928--2231032 Score: 72
Period size: 31 Copynumber: 3.3 Consensus size: 31
2230918 AATTTAAATA
2230928 TTAAATTTAATTAATAATTATTTATTATATT
1 TTAAATTTAATTAATAATTATTTATTATATT
* * *
2230959 TTAAA-ATAATTTTATATTTATTTATTTGATATT
1 TTAAATTTAA-TTAATAATTATTTA-TT-ATATT
* * * *
2230992 TAAAAATTTTAAATATTAAATATTTA-TA-ATT
1 T-TAAA-TTTAATTAATAATTATTTATTATATT
2231023 TTAAAATTTA
1 TT-AAATTTA
2231033 TATTTACATA
Statistics
Matches: 56, Mismatches: 11, Indels: 15
0.68 0.13 0.18
Matches are distributed among these distances:
30 7 0.12
31 24 0.43
32 3 0.05
33 7 0.12
34 3 0.05
35 9 0.16
36 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (31 bp):
TTAAATTTAATTAATAATTATTTATTATATT
Found at i:2230995 original size:63 final size:65
Alignment explanation
Indices: 2230888--2231029 Score: 143
Period size: 63 Copynumber: 2.2 Consensus size: 65
2230878 TTTTATTGTA
* * *
2230888 ATTATATTTAAAAATAAATTATATTCATTAAATTTAAATATT-AAA-TTTAATTAATAATTATTT
1 ATTATATTTTAAAATAAATTATATTCATTAAATTTAAATATTAAAATTTTAAATAATAAATATTT
* * * * *
2230951 ATTATATTTTAAAATAATTTTATATTTATT-TATTT-GATATTTAAAAATTTTAAATATTAAATA
1 ATTATATTTTAAAATAA-ATTATATTCATTAAATTTAAATA-TT-AAAATTTTAAATAATAAATA
2231014 TTT
63 TTT
2231017 A-TA-ATTTTAAAAT
1 ATTATATTTTAAAAT
2231030 TTATATTTAC
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
62 3 0.05
63 22 0.33
64 20 0.30
65 5 0.08
66 16 0.24
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (65 bp):
ATTATATTTTAAAATAAATTATATTCATTAAATTTAAATATTAAAATTTTAAATAATAAATATTT
Found at i:2231000 original size:15 final size:14
Alignment explanation
Indices: 2230982--2231048 Score: 53
Period size: 15 Copynumber: 4.5 Consensus size: 14
2230972 ATATTTATTT
2230982 ATTTGATATTTAAAA
1 ATTT-ATATTTAAAA
* *
2230997 ATTTTAAATATTAAAT
1 A-TTTATAT-TTAAAA
*
2231013 ATTTATAATTTTAAA
1 ATTTAT-ATTTAAAA
* *
2231028 ATTTATATTTACAT
1 ATTTATATTTAAAA
2231042 ATTTATA
1 ATTTATA
2231049 AATATGTATA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
14 12 0.29
15 18 0.44
16 11 0.27
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (14 bp):
ATTTATATTTAAAA
Found at i:2231022 original size:23 final size:22
Alignment explanation
Indices: 2230987--2231053 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
2230977 TATTTATTTG
2230987 ATATTTAAAAATTTTAAATATTAA
1 ATATTT-AAAATTTTAAATATT-A
* *
2231011 ATATTTATAATTTTAAA-ATTT
1 ATATTTAAAATTTTAAATATTA
*
2231032 ATATTTACATATTTATAAATAT
1 ATATTTA-AAATTT-TAAATAT
2231054 GTATATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 7 0.19
22 7 0.19
23 14 0.39
24 8 0.22
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTTAAAATTTTAAATATTA
Found at i:2231799 original size:19 final size:19
Alignment explanation
Indices: 2231775--2231830 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
2231765 TATTTTATAT
2231775 ATTTTTTTTCTTTCTTTGA
1 ATTTTTTTTCTTTCTTTGA
* *
2231794 ATTTTTCTTC-TTCATTGA
1 ATTTTTTTTCTTTCTTTGA
*
2231812 TTTTTCTTTTCTTTTCTTT
1 ATTTT-TTTTC-TTTCTTT
2231831 CTTCTGCTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 11 0.38
19 13 0.45
21 5 0.17
ACGTcount: A:0.09, C:0.14, G:0.04, T:0.73
Consensus pattern (19 bp):
ATTTTTTTTCTTTCTTTGA
Found at i:2231800 original size:16 final size:16
Alignment explanation
Indices: 2231779--2231825 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
2231769 TTATATATTT
2231779 TTTTTC-TTTCTTTGAA
1 TTTTTCTTTTCTTTG-A
*
2231795 TTTTTCTTCTTCATTGA
1 TTTTTCTT-TTCTTTGA
2231812 TTTTTCTTTTCTTT
1 TTTTTCTTTTCTTT
2231826 TCTTTCTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 11 0.41
17 10 0.37
18 6 0.22
ACGTcount: A:0.09, C:0.15, G:0.04, T:0.72
Consensus pattern (16 bp):
TTTTTCTTTTCTTTGA
Found at i:2231814 original size:17 final size:19
Alignment explanation
Indices: 2231775--2231819 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
2231765 TATTTTATAT
* *
2231775 ATTTTTTTTCTTTCTTTGA
1 ATTTTTCTTCTTTCATTGA
2231794 ATTTTTCTTC-TTCATTG-
1 ATTTTTCTTCTTTCATTGA
2231811 ATTTTTCTT
1 ATTTTTCTT
2231820 TTCTTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 6 0.25
19 9 0.38
ACGTcount: A:0.11, C:0.13, G:0.04, T:0.71
Consensus pattern (19 bp):
ATTTTTCTTCTTTCATTGA
Found at i:2239568 original size:20 final size:20
Alignment explanation
Indices: 2239545--2239620 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
2239535 CACACCCAGA
2239545 AGTATCGATACATTATGCCT
1 AGTATCGATACATTATGCCT
* *
2239565 AGTACCGATACA-CA--CCT
1 AGTATCGATACATTATGCCT
* *
2239582 AGATGTCTTGATACATTATGTCT
1 AG-TATC--GATACATTATGCCT
2239605 AGTATCGATACATTAT
1 AGTATCGATACATTAT
2239621 ATCGATACAT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
17 5 0.12
18 2 0.05
19 1 0.02
20 27 0.63
21 1 0.02
22 3 0.07
23 4 0.09
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (20 bp):
AGTATCGATACATTATGCCT
Found at i:2239579 original size:40 final size:40
Alignment explanation
Indices: 2239530--2239616 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
2239520 TAGAAAATAT
*
2239530 CGATGCACACCCAGAAGTATCGATACATTATGCCTAGTAC
1 CGATACACACCCAGAAGTATCGATACATTATGCCTAGTAC
* * * * * *
2239570 CGATACACACCTAGATGTCTTGATACATTATGTCTAGTAT
1 CGATACACACCCAGAAGTATCGATACATTATGCCTAGTAC
2239610 CGATACA
1 CGATACA
2239617 TTATATCGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (40 bp):
CGATACACACCCAGAAGTATCGATACATTATGCCTAGTAC
Found at i:2239643 original size:19 final size:20
Alignment explanation
Indices: 2239621--2239670 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2239611 GATACATTAT
*
2239621 ATCGATACATGC-TCATTGC
1 ATCGATACATGCTTAATTGC
* *
2239640 ATCGATACATACTTAATTGT
1 ATCGATACATGCTTAATTGC
2239660 ATCGATACATG
1 ATCGATACATG
2239671 AAACTGGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (20 bp):
ATCGATACATGCTTAATTGC
Found at i:2239739 original size:111 final size:112
Alignment explanation
Indices: 2239610--2239856 Score: 388
Period size: 111 Copynumber: 2.2 Consensus size: 112
2239600 TGTCTAGTAT
* *
2239610 CGATACATTATATCGATACATGCTCATTGCATCGATACATACTTAATTGTATCGATACATGAAAC
1 CGATACATTGTATCGATACATGCTCATTGCATCGATACATACTCAATTGTATCGATACATGAAAC
2239675 TGGTAGTAGCTACCCTAAGTGAAATGTATCGATACATAGGACA-TAA
66 TGGTAGTAGCTACCCTAAGTGAAATGTATCGATACATAGGACATTAA
* * * *
2239721 CGATACATTGTATCGATACATGCTTATTGTATTGATACATGCTCAATTGTATCGATACATGAAAC
1 CGATACATTGTATCGATACATGCTCATTGCATCGATACATACTCAATTGTATCGATACATGAAAC
* * *
2239786 TGGTAGTAGCTACCTTAAGTGAAATGTATCGATACATGGGACATTGTAT
66 TGGTAGTAGCTACCCTAAGTGAAATGTATCGATACATAGGACA-T-TAA
2239835 CGATACATTGTATCGATACATG
1 CGATACATTGTATCGATACATG
2239857 AATAATTGTA
Statistics
Matches: 124, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
111 100 0.81
114 24 0.19
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (112 bp):
CGATACATTGTATCGATACATGCTCATTGCATCGATACATACTCAATTGTATCGATACATGAAAC
TGGTAGTAGCTACCCTAAGTGAAATGTATCGATACATAGGACATTAA
Found at i:2239751 original size:19 final size:20
Alignment explanation
Indices: 2239727--2239781 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
2239717 ATAACGATAC
*
2239727 ATTGTATCGATACATGCT-T
1 ATTGTATCGATACATGCTCA
*
2239746 ATTGTATTGATACATGCTCA
1 ATTGTATCGATACATGCTCA
2239766 ATTGTATCGATACATG
1 ATTGTATCGATACATG
2239782 AAACTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (20 bp):
ATTGTATCGATACATGCTCA
Found at i:2239844 original size:13 final size:13
Alignment explanation
Indices: 2239826--2239855 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2239816 GATACATGGG
2239826 ACATTGTATCGAT
1 ACATTGTATCGAT
2239839 ACATTGTATCGAT
1 ACATTGTATCGAT
2239852 ACAT
1 ACAT
2239856 GAATAATTGT
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:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:2239865 original size:33 final size:33
Alignment explanation
Indices: 2239810--2239876 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
2239800 TTAAGTGAAA
* * *
2239810 TGTATCGATACATGGGACATTGTATCGATACAT
1 TGTATCGATACATGGAAAATTGTATCAATACAT
2239843 TGTATCGATACAT-GAATAATTGTATCAATACAT
1 TGTATCGATACATGGAA-AATTGTATCAATACAT
2239876 T
1 T
2239877 ATGCCCAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 28 0.93
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATGGAAAATTGTATCAATACAT
Found at i:2244404 original size:21 final size:21
Alignment explanation
Indices: 2244352--2244407 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
2244342 ATTTTATCCA
*
2244352 AATGTATCGAAACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
2244373 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
2244394 AATGTATCGATACA
1 AATGTATCGATACA
2244408 AGGTCCCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:2244468 original size:19 final size:19
Alignment explanation
Indices: 2244444--2244507 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
2244434 TTTCAGCGAT
2244444 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
2244463 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
*
2244477 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTA
2244495 TTGTATCGATACA
1 TTGTATCGATACA
2244508 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
19 24 0.63
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:2244481 original size:32 final size:32
Alignment explanation
Indices: 2244445--2244515 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
2244435 TTCAGCGATT
2244445 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
2244477 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2244509 TGTATCG
1 TGTATCG
2244516 CTAGGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2244482 original size:13 final size:13
Alignment explanation
Indices: 2244464--2244488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2244454 ACATAAGTAT
2244464 TGTATCGATACAA
1 TGTATCGATACAA
2244477 TGTATCGATACA
1 TGTATCGATACA
2244489 TAAGTTTTGT
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:2244577 original size:13 final size:13
Alignment explanation
Indices: 2244559--2244584 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2244549 CATTTTTCTG
2244559 TGTATCGATACAT
1 TGTATCGATACAT
2244572 TGTATCGATACAT
1 TGTATCGATACAT
2244585 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:2244581 original size:33 final size:33
Alignment explanation
Indices: 2244539--2244605 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2244529 GCCAAGAAAA
***
2244539 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2244572 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2244605 T
1 T
2244606 TGGGAATTTT
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:2246994 original size:51 final size:52
Alignment explanation
Indices: 2246938--2247422 Score: 312
Period size: 51 Copynumber: 9.3 Consensus size: 52
2246928 AATTCTCCGC
* * *
2246938 AATCGGGGATATTCTC-ACTCCGATTTTATTTTC-AAAACACTAA-TTTTCTAT
1 AATCGGGGATACTC-CAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-AT
*
2246989 AATC-GGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
* * * * *** * * ** * *
2247040 AATCGAGGATACTCCAAC-CTCG-TTGTCTCATCGGGGATACTCCAACCCCGTTACCT
1 AATCGGGGATACTCCAACTC-CGATTTTAT-TTC-CAAAAACACCAA---TTTTTCAT
**** * * ** * * *** *
2247096 CCGAGGGGATACTCTAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
* * * *
2247147 AATCGGGGATACTCCAAC-CTCGGTTTTATTT-CTAAAACACTAATTTTTCAC
1 AATCGGGGATACTCCAACTC-CGATTTTATTTCCAAAAACACCAATTTTTCAT
* * * * *
2247198 AATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-AT
* * *
2247250 AATCGGGGATACTCCAAC-CTCGATTTTATTT-CTAAAACACTAATTTTTCAC
1 AATCGGGGATACTCCAACTC-CGATTTTATTTCCAAAAACACCAATTTTTCAT
* * * * * *
2247301 AATCGAGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-AT
*
2247353 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
*
2247405 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
2247423 CTTGTTATTT
Statistics
Matches: 334, Mismatches: 77, Indels: 45
0.73 0.17 0.10
Matches are distributed among these distances:
49 1 0.00
50 25 0.07
51 146 0.44
52 115 0.34
53 21 0.06
54 3 0.01
55 2 0.01
56 18 0.05
57 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
Found at i:2247267 original size:52 final size:52
Alignment explanation
Indices: 2247138--2247423 Score: 355
Period size: 52 Copynumber: 5.5 Consensus size: 52
2247128 CAAAATATTG
* * * *
2247138 ATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTA-TTTCTAAAACACTA
1 ATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCTAAAACACCA
2247189 ATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCA
1 ATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCTAAAACACCA
* ** * * *
2247240 ATTTTCCTTTAATCGGGGATACTCCAACCTCGATTTTA-TTTCTAAAACACTA
1 ATTTTTC-ACAATCGGGGATACTCCAACCCCGGTTTTATTTTCTAAAACACCA
*
2247292 ATTTTTCACAATCGAGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCA
1 ATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCTAAAACACCA
* ** * * * *
2247343 ATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCA
1 ATTTTTC-ACAATCGGGGATACTCCAACCCCGGTTTTATTTTCTAAAACACCA
*
2247396 ATTTTTCACAATCGAGGATACTCCAACC
1 ATTTTTCACAATCGGGGATACTCCAACC
2247424 TTGTTATTTC
Statistics
Matches: 200, Mismatches: 29, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
51 91 0.46
52 94 0.47
53 15 0.08
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (52 bp):
ATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCTAAAACACCA
Found at i:2247278 original size:103 final size:103
Alignment explanation
Indices: 2247146--2247423 Score: 495
Period size: 103 Copynumber: 2.7 Consensus size: 103
2247136 TGATTTCTCA
* *
2247146 TAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTTCACAATCGGGGATACT
1 TAATCGGGGATACTCCAACCTCGATTTTATTTCTAAAACACTAATTTTTCACAATCGAGGATACT
2247211 CCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
66 CCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
2247249 TAATCGGGGATACTCCAACCTCGATTTTATTTCTAAAACACTAATTTTTCACAATCGAGGATACT
1 TAATCGGGGATACTCCAACCTCGATTTTATTTCTAAAACACTAATTTTTCACAATCGAGGATACT
2247314 CCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
66 CCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
* *
2247352 TAATCGGGGATACTCCAA-CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATA
1 TAATCGGGGATACTCCAACCT-CGATTTTATTT-CTAAAACACTAATTTTTCACAATCGAGGATA
2247416 CTCCAACC
64 CTCCAACC
2247424 TTGTTATTTC
Statistics
Matches: 169, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
102 2 0.01
103 130 0.77
104 37 0.22
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (103 bp):
TAATCGGGGATACTCCAACCTCGATTTTATTTCTAAAACACTAATTTTTCACAATCGAGGATACT
CCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
Found at i:2247556 original size:28 final size:29
Alignment explanation
Indices: 2247516--2247570 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
2247506 TCTAATAATT
**
2247516 GGGGATACTCCAA-CCCCGTTATTTTTGA
1 GGGGATACTCCAATCCCAATTATTTTTGA
2247544 GGGGATACTCCAATCCCAATTATTTTT
1 GGGGATACTCCAATCCCAATTATTTTT
2247571 TTCTAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (29 bp):
GGGGATACTCCAATCCCAATTATTTTTGA
Found at i:2247666 original size:80 final size:80
Alignment explanation
Indices: 2247516--2247670 Score: 188
Period size: 80 Copynumber: 1.9 Consensus size: 80
2247506 TCTAATAATT
** * * * * *
2247516 GGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAATCCCAATTATTTTTTTCTAAACAT
1 GGGGATACTCCAACCCCGTTATTTTCAAGGGAATACTCCAATCCCAATTATTATCTCCAAAACAT
*
2247581 CAATTTCTCACAACC
66 AAATTTCTCACAACC
* *
2247596 GGGGATACTCCAGCCCCGTTATTTTCAAGGGAATACTCCAA-CCTC-GTTATTATCTCCAAAACA
1 GGGGATACTCCAACCCCGTTATTTTCAAGGGAATACTCCAATCC-CAATTATTATCTCCAAAACA
2247659 TTAAATTTCTCA
65 -TAAATTTCTCA
2247671 TCGGAAAATA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
79 15 0.24
80 48 0.76
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (80 bp):
GGGGATACTCCAACCCCGTTATTTTCAAGGGAATACTCCAATCCCAATTATTATCTCCAAAACAT
AAATTTCTCACAACC
Found at i:2251097 original size:28 final size:28
Alignment explanation
Indices: 2251041--2251117 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
2251031 GGAATAAAGC
*** **
2251041 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
2251069 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
2251097 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
2251118 TGTGAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:2251171 original size:53 final size:52
Alignment explanation
Indices: 2251101--2251274 Score: 201
Period size: 52 Copynumber: 3.3 Consensus size: 52
2251091 AAATAACGAG
* *
2251101 GTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAAATTGGTG-TTTTAGAAATAAAATCGGA
* * * *
2251154 GCTGGAGTAACCCCGA-T-TAAAGGAAAATTGGTGTTTTAAAAATAAAATC-GA
1 GTTGGAGTATCCCCGATTGTGAA--AAAATTGGTGTTTTAGAAATAAAATCGGA
* * * *
2251205 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAATCGGG
1 -GTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAGAAATAAAATCGGA
2251258 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
2251275 CATGAGAAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
51 5 0.05
52 69 0.68
53 25 0.25
54 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAAATTGGTGTTTTAGAAATAAAATCGGA
Found at i:2251368 original size:27 final size:28
Alignment explanation
Indices: 2251307--2251380 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 28
2251297 AATAAAGCAA
***
2251307 GGGTTGGAGTATCCCCTCGGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
*
2251335 GGGTTGGAGTATCCCCGATG-ATTAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
2251362 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
2251381 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAATAACG
Found at i:2251454 original size:57 final size:51
Alignment explanation
Indices: 2251364--2251490 Score: 148
Period size: 51 Copynumber: 2.4 Consensus size: 51
2251354 GATTAACGGG
* *
2251364 GTTGGAGTATCCCCGATTGTGAAAAATTTGTGTTTATTTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTG------TTTTGAAAATAAAATCGGA
2251421 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGAAAATAAAATCGGA
* *
2251472 GGTGGAATATCCCCGATTA
1 GTTGGAGTATCCCCGATTA
2251491 CGGAGAATTG
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
51 36 0.55
56 1 0.02
57 28 0.43
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:2253833 original size:13 final size:13
Alignment explanation
Indices: 2253815--2253840 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2253805 ACAAAGATCC
2253815 ATGTATCGATACA
1 ATGTATCGATACA
2253828 ATGTATCGATACA
1 ATGTATCGATACA
2253841 CAGAAAAATG
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:2253840 original size:33 final size:33
Alignment explanation
Indices: 2253798--2253860 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
2253788 TTTCCAAATA
***
2253798 TATCGATACAAAGATCCATGTATCGATACAATG
1 TATCGATACAAAGAAAAATGTATCGATACAATG
*
2253831 TATCGATACACAGAAAAATGTATCGATACA
1 TATCGATACAAAGAAAAATGTATCGATACA
2253861 TTTCCTTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.25
Consensus pattern (33 bp):
TATCGATACAAAGAAAAATGTATCGATACAATG
Found at i:2253904 original size:19 final size:19
Alignment explanation
Indices: 2253880--2253985 Score: 152
Period size: 19 Copynumber: 5.9 Consensus size: 19
2253870 CAGTAGCTAA
* *
2253880 TTATGTATCGATATAATAC
1 TTATGTATCGATACAAAAC
2253899 TTATGTATCGATAC---A-
1 TTATGTATCGATACAAAAC
2253914 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
2253931 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
2253950 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
2253969 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2253986 TTGTTGAATT
Statistics
Matches: 80, Mismatches: 1, Indels: 12
0.86 0.01 0.13
Matches are distributed among these distances:
13 11 0.14
14 1 0.01
16 2 0.03
18 1 0.01
19 65 0.81
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:2253920 original size:13 final size:13
Alignment explanation
Indices: 2253902--2253926 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2253892 ATAATACTTA
2253902 TGTATCGATACAT
1 TGTATCGATACAT
2253915 TGTATCGATACA
1 TGTATCGATACA
2253927 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2254065 original size:21 final size:21
Alignment explanation
Indices: 2254041--2254097 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2254031 CATTTGTAGG
2254041 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
2254062 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2254083 ATGTATCGATACATT
1 ATGTATCGATACATT
2254098 TGGATAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2254132 original size:19 final size:21
Alignment explanation
Indices: 2254108--2254151 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
2254098 TGGATAATAA
2254108 TTTTAATT-TT-TTATTTTTT
1 TTTTAATTATTATTATTTTTT
2254127 TTTTAATTATTATTATTTTTT
1 TTTTAATTATTATTATTTTTT
2254148 TTTT
1 TTTT
2254152 CAAACACTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.35
20 2 0.09
21 13 0.57
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTAATTATTATTATTTTTT
Found at i:2263922 original size:22 final size:24
Alignment explanation
Indices: 2263880--2263924 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
2263870 CTAAAATATA
2263880 TAATAGTAATATAAAAATAATTTT
1 TAATAGTAATATAAAAATAATTTT
*
2263904 TAATAG-AATA-AACAATAATTT
1 TAATAGTAATATAAAAATAATTT
2263925 AGATTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (24 bp):
TAATAGTAATATAAAAATAATTTT
Found at i:2264281 original size:20 final size:18
Alignment explanation
Indices: 2264237--2264295 Score: 55
Period size: 20 Copynumber: 3.1 Consensus size: 18
2264227 AAATTAAAAT
*
2264237 AATTTATTATCATATATTCA
1 AATTTA-TATCAAATATT-A
*
2264257 TATTTATATTCAAAATATTA
1 AATTTATA-TC-AAATATTA
*
2264277 AATTTGTATCAAATATTA
1 AATTTATATCAAATATTA
2264295 A
1 A
2264296 TACATTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 9 0.27
19 4 0.12
20 14 0.42
21 6 0.18
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (18 bp):
AATTTATATCAAATATTA
Found at i:2269582 original size:1 final size:1
Alignment explanation
Indices: 2269576--2269633 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
2269566 TCTTCTCTTC
* * ** * * *
2269576 AAAAAAACAAAAAAAAAAGAAAAAAAAGCAAAAAAAAAAACAAAACAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2269634 CAAAGGAAAA
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:2269588 original size:8 final size:8
Alignment explanation
Indices: 2269575--2269633 Score: 61
Period size: 8 Copynumber: 7.6 Consensus size: 8
2269565 ATCTTCTCTT
2269575 CAAAAAAA
1 CAAAAAAA
2269583 C-AAAAAA
1 CAAAAAAA
*
2269590 -AAAAGAA
1 CAAAAAAA
*
2269597 -AAAAAAG
1 CAAAAAAA
2269604 CAAAAAAA
1 CAAAAAAA
*
2269612 AAAACAAAA
1 CAAA-AAAA
2269621 CAAAAAAA
1 CAAAAAAA
2269629 CAAAA
1 CAAAA
2269634 CAAAGGAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
7 16 0.38
8 19 0.45
9 7 0.17
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:2269600 original size:13 final size:13
Alignment explanation
Indices: 2269576--2269661 Score: 55
Period size: 13 Copynumber: 6.2 Consensus size: 13
2269566 TCTTCTCTTC
*
2269576 AAAAAAACAAAAAA
1 AAAAAAA-AAAAAG
2269590 AAAAGAAAAAAAAG
1 AAAA-AAAAAAAAG
* *
2269604 CAAAAAAAAAAAC
1 AAAAAAAAAAAAG
* *
2269617 AAAACAAAAAAAC
1 AAAAAAAAAAAAG
2269630 AAAACAAAGGAAAAGAG
1 AAAA-AAA--AAAA-AG
* *
2269647 AGAAAAGAAAAAG
1 AAAAAAAAAAAAG
2269660 AA
1 AA
2269662 CCTGCTTAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
13 26 0.46
14 18 0.32
15 3 0.05
16 6 0.11
17 4 0.07
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:2269620 original size:21 final size:21
Alignment explanation
Indices: 2269575--2269633 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
2269565 ATCTTCTCTT
2269575 CAAAAAAACAAAAAAAAAAGA
1 CAAAAAAACAAAAAAAAAAGA
2269596 -AAAAAAAGCAAAAAAAAAA-A
1 CAAAAAAA-CAAAAAAAAAAGA
* *
2269616 CAAAACAA-AAAAACAAAA
1 CAAAAAAACAAAAAAAAAA
2269634 CAAAGGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 9 0.26
20 8 0.24
21 17 0.50
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.00
Consensus pattern (21 bp):
CAAAAAAACAAAAAAAAAAGA
Found at i:2269633 original size:18 final size:17
Alignment explanation
Indices: 2269576--2269637 Score: 83
Period size: 17 Copynumber: 3.6 Consensus size: 17
2269566 TCTTCTCTTC
2269576 AAAAAAACAAAA-AAAA
1 AAAAAAACAAAACAAAA
*
2269592 AAGAAAAA-AAAGCAAAA
1 AA-AAAAACAAAACAAAA
2269609 AAAAAAACAAAACAAAA
1 AAAAAAACAAAACAAAA
2269626 AAACAAAACAAA
1 AAA-AAAACAAA
2269638 GGAAAAGAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
16 10 0.25
17 22 0.55
18 8 0.20
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAAACAAAA
Found at i:2269643 original size:18 final size:17
Alignment explanation
Indices: 2269576--2269643 Score: 77
Period size: 18 Copynumber: 4.0 Consensus size: 17
2269566 TCTTCTCTTC
2269576 AAAAAAACAAA--AAAA
1 AAAAAAACAAAGCAAAA
*
2269591 AAAGAAAAAAAAGCAAAA
1 AAA-AAAACAAAGCAAAA
*
2269609 AAAAAAACAAAACAAAA
1 AAAAAAACAAAGCAAAA
*
2269626 AAACAAAACAAAGGAAAA
1 AAA-AAAACAAAGCAAAA
2269644 GAGAGAAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
15 3 0.07
16 7 0.16
17 15 0.34
18 19 0.43
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAAGCAAAA
Found at i:2270770 original size:59 final size:57
Alignment explanation
Indices: 2270627--2271384 Score: 802
Period size: 55 Copynumber: 13.2 Consensus size: 57
2270617 TCCGCTTTTT
* * * * **
2270627 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAAAACCCCCACATGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTC---TT--AAAGCCCACACAAGTTGGTGGCACCTT-C
*
2270690 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGACACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTC--TTAAAGCCCACACAAGTTGGTGGCACCTTC
*
2270749 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTC--TTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
2270808 AGTCCTCAAAGAGCGGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTC--TTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
2270867 AGTCCTCAAACAACAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTC--TTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
2270926 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTC--TT-AAAGCCCACACAAGTTGGTGGCACC-TTC
* * **
2270987 AGTCCCCAAAGAGCAGGACTCC-TTTC--AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* **
2271042 AGTCCTCAAAGAGCAGGACACC-TTTC--AAAGCCCACACAAGTTGGTGGCATTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
2271096 TAGTCCTCAAAGAGTAGGACACC---TCTTAAAGCCTACACAAGTTGGTGGCACATTTC
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
* *
2271152 AGTCCCCAAAGAGCAGGACACC-TTTC--AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * **
2271207 AGTCCCCAAAGAGCAGGACACC-TTTC--AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTAAAGCCCACACAAGTTGGTGGCACCTT-C
*
2271262 AGTCCTCAAAGAGCAGGACACC---TCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * ** *
2271317 AGTCCTCAAAGAGCAGGATGCC-TTTC--AAAGCCCACACGAGTTGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTAAAGCCCACACAAGTTGGTGGCA-CCTTC
2271372 AGTCCTCAAAGAG
1 AGTCCTCAAAGAG
2271385 TAAGATACAC
Statistics
Matches: 635, Mismatches: 43, Indels: 42
0.88 0.06 0.06
Matches are distributed among these distances:
53 4 0.01
54 5 0.01
55 316 0.50
56 6 0.01
57 4 0.01
59 199 0.31
60 50 0.08
61 21 0.03
62 4 0.01
63 26 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (57 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:2271185 original size:26 final size:26
Alignment explanation
Indices: 2271156--2271240 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
2271146 CATTTCAGTC
2271156 CCCAAAGAGCAGGACACCTTTCAAAG
1 CCCAAAGAGCAGGACACCTTTCAAAG
** * ***
2271182 CCCACACA-AGTTGGTGGCACCTTTCAGTC
1 CCCA-A-AGAG-CAG-GACACCTTTCAAAG
2271211 CCCAAAGAGCAGGACACCTTTCAAAG
1 CCCAAAGAGCAGGACACCTTTCAAAG
2271237 CCCA
1 CCCA
2271241 CACAAGTTGG
Statistics
Matches: 42, Mismatches: 12, Indels: 10
0.66 0.19 0.16
Matches are distributed among these distances:
26 18 0.43
27 5 0.12
28 5 0.12
29 14 0.33
ACGTcount: A:0.32, C:0.34, G:0.19, T:0.15
Consensus pattern (26 bp):
CCCAAAGAGCAGGACACCTTTCAAAG
Found at i:2272118 original size:21 final size:21
Alignment explanation
Indices: 2272089--2272130 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2272079 AAAAAAAAAT
*
2272089 TTATCCAAATGTATCGATACA
1 TTATACAAATGTATCGATACA
2272110 TTATACAAATGTATCGATACA
1 TTATACAAATGTATCGATACA
2272131 AGGTCCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (21 bp):
TTATACAAATGTATCGATACA
Found at i:2272191 original size:19 final size:19
Alignment explanation
Indices: 2272167--2272217 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
2272157 TTTCAGCGAT
2272167 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
*
2272186 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTA
2272205 TTGTATCGATACA
1 TTGTATCGATACA
2272218 ATGTATCGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:2272287 original size:13 final size:13
Alignment explanation
Indices: 2272269--2272294 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2272259 CATTTTTCTG
2272269 TGTATCGATACAT
1 TGTATCGATACAT
2272282 TGTATCGATACAT
1 TGTATCGATACAT
2272295 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:2272291 original size:33 final size:33
Alignment explanation
Indices: 2272249--2272315 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2272239 GCCAAGGAAA
***
2272249 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2272282 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2272315 T
1 T
2272316 TGGGAATTTT
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:2274716 original size:51 final size:52
Alignment explanation
Indices: 2274660--2275144 Score: 277
Period size: 51 Copynumber: 9.3 Consensus size: 52
2274650 AATTCTCCGC
* * *
2274660 AATCGGGGATATTCTC-ACTCCGATTTTATTTTC-AAAACACTAA-TTTTCTAT
1 AATCGGGGATACTC-CAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-AT
*
2274711 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
* **** * * ***
2274763 AATCGAGGATACTCCAAC-CTCG-TTGTCTCA-TTGGGGATACTCCAA--CCCCATT
1 AATCGGGGATACTCCAACTC-CGATT-T-T-ATTTCCAAAAACACCAATTTTTCA-T
* * * ** * * *** *
2274815 ACCTCCGAGGGGATGCTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCAT
1 A-AT-C--GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
* * *
2274870 AATCGGGGATACTCCAAC-CTCGATTTTATTT-CTAAAACACTAATTTTTCAC
1 AATCGGGGATACTCCAACTC-CGATTTTATTTCCAAAAACACCAATTTTTCAT
* * * *
2274921 AATCGGGGATACTCCAAC-CCTGGTTTTATTTTC-AAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAATTTTTC-AT
* * ** * *
2274973 AATCGGGGATACTCCAAC-CTTGGTTTTATTT-TTAAAACACTAATTTTTCAC
1 AATCGGGGATACTCCAACTC-CGATTTTATTTCCAAAAACACCAATTTTTCAT
* ** * *
2275024 AATCGGGGATACTCCAAC-CCTGGTTTTATTT-TTAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAATTTTTC-AT
* *
2275076 AATC-GGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
*
2275127 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
2275145 CTTGTTATTT
Statistics
Matches: 341, Mismatches: 65, Indels: 55
0.74 0.14 0.12
Matches are distributed among these distances:
50 3 0.01
51 180 0.53
52 110 0.32
53 16 0.05
54 9 0.03
55 3 0.01
56 18 0.05
57 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
Found at i:2274983 original size:52 final size:51
Alignment explanation
Indices: 2274861--2275145 Score: 342
Period size: 51 Copynumber: 5.5 Consensus size: 51
2274851 CAAAATATTG
* * * *
2274861 ATTTCTCATAATCGGGGATACTCCAA-CCTCGATTTTA-TTTCTAAAACACTA
1 ATTTTTCACAATCGGGGATACTCCAACCCT-GGTTTTATTTTC-AAAACACCA
2274912 ATTTTTCACAATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACCA
1 ATTTTTCACAATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACCA
* ** * * *
2274963 ATTTTCCTTTAATCGGGGATACTCCAACCTTGGTTTTATTTTTAAAACACTA
1 ATTTTTC-ACAATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACCA
*
2275015 ATTTTTCACAATCGGGGATACTCCAACCCTGGTTTTATTTTTAAAACACCA
1 ATTTTTCACAATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACCA
* ** * * *
2275066 ATTTTCCTTTAATC-GGGATACTCCAACTCTGATTTTATTTCCAAAAACACCA
1 ATTTTTC-ACAATCGGGGATACTCCAACCCTGGTTTTATTTTC-AAAACACCA
*
2275118 ATTTTTCACAATCGAGGATACTCCAACC
1 ATTTTTCACAATCGGGGATACTCCAACC
2275146 TTGTTATTTC
Statistics
Matches: 201, Mismatches: 27, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
51 118 0.59
52 83 0.41
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.36
Consensus pattern (51 bp):
ATTTTTCACAATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACCA
Found at i:2275001 original size:103 final size:103
Alignment explanation
Indices: 2274869--2275145 Score: 459
Period size: 103 Copynumber: 2.7 Consensus size: 103
2274859 TGATTTCTCA
*
2274869 TAATCGGGGATACTCCAACCTCGATTTTATTTCTAAAACACTAATTTTTCACAATCGGGGATACT
1 TAATCGGGGATACTCCAACCTTGATTTTATTTCTAAAACACTAATTTTTCACAATCGGGGATACT
2274934 CCAACCCTGGTTTTATTTTCAAAACACCAATTTTCCTT
66 CCAACCCTGGTTTTATTTTCAAAACACCAATTTTCCTT
* *
2274972 TAATCGGGGATACTCCAACCTTGGTTTTATTTTTAAAACACTAATTTTTCACAATCGGGGATACT
1 TAATCGGGGATACTCCAACCTTGATTTTATTTCTAAAACACTAATTTTTCACAATCGGGGATACT
*
2275037 CCAACCCTGGTTTTATTTTTAAAACACCAATTTTCCTT
66 CCAACCCTGGTTTTATTTTCAAAACACCAATTTTCCTT
* * *
2275075 TAATC-GGGATACTCCAA-CTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATA
1 TAATCGGGGATACTCCAACCT-TGATTTTATTT-CTAAAACACTAATTTTTCACAATCGGGGATA
2275138 CTCCAACC
64 CTCCAACC
2275146 TTGTTATTTC
Statistics
Matches: 163, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
101 2 0.01
102 22 0.13
103 139 0.85
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (103 bp):
TAATCGGGGATACTCCAACCTTGATTTTATTTCTAAAACACTAATTTTTCACAATCGGGGATACT
CCAACCCTGGTTTTATTTTCAAAACACCAATTTTCCTT
Found at i:2275179 original size:28 final size:28
Alignment explanation
Indices: 2275128--2275204 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
2275118 ATTTTTCACA
* ** **
2275128 ATCGAGGATACTCCAACCTTGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
2275156 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
***
2275184 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
2275205 ACTTTATTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACCTC
Found at i:2275337 original size:80 final size:80
Alignment explanation
Indices: 2275158--2275381 Score: 256
Period size: 80 Copynumber: 2.8 Consensus size: 80
2275148 GTTATTTCAT
** * * *
2275158 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACT-TTATTCTCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTATTATTCTCAAAACA
* * *
2275222 TTGATTTCTCATAAT
66 TCGATTTCTCACAAC
* * * * *
2275237 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTATTTTTTTCTAAACA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTATTATTCTCAAAACA
2275302 TCGATTTCTCACAAC
66 TCGATTTCTCACAAC
* * * * *
2275317 CGGGGATACTACAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG-TTATTA-TCTCCAAAAC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTATTATTCT-CAAAAC
2275380 AT
65 AT
2275382 TAAATTTCTC
Statistics
Matches: 120, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
78 2 0.02
79 56 0.47
80 62 0.52
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (80 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTATTATTCTCAAAACA
TCGATTTCTCACAAC
Found at i:2277673 original size:20 final size:21
Alignment explanation
Indices: 2277648--2277686 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2277638 AATTTTCAAA
2277648 ATGTATCGATACAT-TGAATG
1 ATGTATCGATACATCTGAATG
2277668 ATGTATCGATACATCTGAA
1 ATGTATCGATACATCTGAA
2277687 AAACCCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATCTGAATG
Found at i:2277733 original size:13 final size:13
Alignment explanation
Indices: 2277715--2277741 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2277705 ACAATGTTCT
2277715 TTGTATCGATACA
1 TTGTATCGATACA
2277728 TTGTATCGATACA
1 TTGTATCGATACA
2277741 T
1 T
2277742 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2278025 original size:22 final size:21
Alignment explanation
Indices: 2277982--2278025 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
2277972 ACCCTTCAAA
* **
2277982 TCTTATAGTTTAGGTTGTTTT
1 TCTTAGAGTTTAGGTTCCTTT
2278003 TCTTAGAGATTTAGGTTCCTTT
1 TCTTAGAG-TTTAGGTTCCTTT
2278025 T
1 T
2278026 TATTCCCCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.16, C:0.09, G:0.18, T:0.57
Consensus pattern (21 bp):
TCTTAGAGTTTAGGTTCCTTT
Found at i:2279641 original size:33 final size:34
Alignment explanation
Indices: 2279592--2279656 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
2279582 AAATTTGTTT
** *
2279592 TATAAATGTTTTAT-AAAGGGGGAGTTTTATTAA
1 TATAAATGTTAAATAAAAGGGAGAGTTTTATTAA
*
2279625 TATAAATGTTAAATAAAAGGGATAGTTTTATT
1 TATAAATGTTAAATAAAAGGGAGAGTTTTATT
2279657 TAAAATCCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 12 0.44
34 15 0.56
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (34 bp):
TATAAATGTTAAATAAAAGGGAGAGTTTTATTAA
Found at i:2280259 original size:20 final size:20
Alignment explanation
Indices: 2280236--2280308 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
2280226 ACACCTAGAT
2280236 GTATCGATACATTATGCCTA
1 GTATCGATACATTATGCCTA
* * *
2280256 GTATCGATACA-CA-CCCAGA
1 GTATCGATACATTATGCC-TA
*
2280275 TGTATTGATACATTATGCCTA
1 -GTATCGATACATTATGCCTA
2280296 GTATCGATACATT
1 GTATCGATACATT
2280309 GTATCAATAC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 33 0.80
21 2 0.05
22 2 0.05
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (20 bp):
GTATCGATACATTATGCCTA
Found at i:2280277 original size:40 final size:40
Alignment explanation
Indices: 2280217--2280306 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 40
2280207 CCGTAGAAAA
* * *
2280217 TATCAATATACACCTAGATGTATCGATACATTATGCCTAG
1 TATCGATACACACCCAGATGTATCGATACATTATGCCTAG
*
2280257 TATCGATACACACCCAGATGTATTGATACATTATGCCTAG
1 TATCGATACACACCCAGATGTATCGATACATTATGCCTAG
2280297 TATCGATACA
1 TATCGATACA
2280307 TTGTATCAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (40 bp):
TATCGATACACACCCAGATGTATCGATACATTATGCCTAG
Found at i:2280350 original size:20 final size:19
Alignment explanation
Indices: 2280305--2280359 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
2280295 AGTATCGATA
* *
2280305 CATTGTATCAATACATGCT
1 CATTGTATCGATACATCCT
2280324 CATTGTATCGATACATCCT
1 CATTGTATCGATACATCCT
*
2280343 CAATTGTATTGATACAT
1 C-ATTGTATCGATACAT
2280360 GAAATTGGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATCCT
Found at i:2280423 original size:111 final size:112
Alignment explanation
Indices: 2280297--2280565 Score: 387
Period size: 111 Copynumber: 2.4 Consensus size: 112
2280287 TTATGCCTAG
* * *
2280297 TATCGATACATTGTATCAATACATGCTCATTGTATCGATACATCCTCAATTGTATTGATACATGA
1 TATCGATACATTGTATCGATACATGCTCATTGTATCGATACATACTCAATTGTATCGATACATGA
**
2280362 AATTGGCAGTTTCTACCCTAAGTGAAATGTAGCGATACATGGGACA-
66 AATTGGCAGTAGCTACCCTAAGTGAAATGTAGCGATACATGGGACAT
*
2280408 TATCGATAAATTGTATCGATACATGCTCATTGTATCGATACATACTCAATTGTATCGATACATGA
1 TATCGATACATTGTATCGATACATGCTCATTGTATCGATACATACTCAATTGTATCGATACATGA
* **
2280473 AATTGGCAGTAGCTACCTTAAGTGAAATGTATTGATACATGGGACATT
66 AATTGGCAGTAGCTACCCTAAGTGAAATGTAGCGATACATGGGACA-T
* ** *
2280521 GTGTCGATACATTGTATCGATACATAAATAATTGTATCGATACAT
1 -TATCGATACATTGTATCGATACAT-GCTCATTGTATCGATACAT
2280566 TATGCCTAAT
Statistics
Matches: 140, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
111 102 0.73
114 22 0.16
115 16 0.11
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (112 bp):
TATCGATACATTGTATCGATACATGCTCATTGTATCGATACATACTCAATTGTATCGATACATGA
AATTGGCAGTAGCTACCCTAAGTGAAATGTAGCGATACATGGGACAT
Found at i:2280441 original size:19 final size:20
Alignment explanation
Indices: 2280416--2280471 Score: 96
Period size: 19 Copynumber: 2.9 Consensus size: 20
2280406 CATATCGATA
2280416 AATTGTATCGATACATGCTC
1 AATTGTATCGATACATGCTC
*
2280436 -ATTGTATCGATACATACTC
1 AATTGTATCGATACATGCTC
2280455 AATTGTATCGATACATG
1 AATTGTATCGATACATG
2280472 AAATTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (20 bp):
AATTGTATCGATACATGCTC
Found at i:2280534 original size:13 final size:13
Alignment explanation
Indices: 2280516--2280545 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2280506 GATACATGGG
*
2280516 ACATTGTGTCGAT
1 ACATTGTATCGAT
2280529 ACATTGTATCGAT
1 ACATTGTATCGAT
2280542 ACAT
1 ACAT
2280546 AAATAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:2282943 original size:277 final size:277
Alignment explanation
Indices: 2282449--2283003 Score: 997
Period size: 277 Copynumber: 2.0 Consensus size: 277
2282439 GGATGACCGA
2282449 TTTGATGAAAACATCAAGTTCATGTTGTTCTCCATCTATTGGAGCCAACATGAACTTAACTTGGG
1 TTTGATGAAAACATCAAGTTCATGTTGTTCTCCATCTATTGGAGCCAACATGAACTTAACTTGGG
*
2282514 TTCTATTTTTTAGAAAATTAGGTTTTATAACCATCAAGCATGCATCTTGACAAACAAATCATGCA
66 ATCTATTTTTTAGAAAATTAGGTTTTATAACCATCAAGCATGCATCTTGACAAACAAATCATGCA
* ** *
2282579 TAAGACACCACATTTTCAAGGATGGACGAATTTCAGCATGCAAACACATAAATGTGACATTTTTG
131 TAAAACACCACATGCTCAAGGATGGACGAATTTCAGCATGCAAACACATAAAGGTGACATTTTTG
* *
2282644 ATAGGGAAAATGCAACAAATATGTGGGAATATGACAAATAAAAGGCATGGAAATGATATGAAAAA
196 ATAGGGAAAATGCAACAAATATGTAGGAAGATGACAAATAAAAGGCATGGAAATGATATG-AAAA
2282709 AATTAG-GAAAAGAAAGG
260 AATTAGAGAAAAGAAAGG
2282726 TTTGATGAAAACATCAAGTTCATGTTGTTCTCCATCTATTGGAGCCAACATGAACTTAACTTGGG
1 TTTGATGAAAACATCAAGTTCATGTTGTTCTCCATCTATTGGAGCCAACATGAACTTAACTTGGG
2282791 ATCTATTTTTTAGAAAATTAGGTTTTATAACCATCAAGCATGCATCTTGACAAACAAATCATGCA
66 ATCTATTTTTTAGAAAATTAGGTTTTATAACCATCAAGCATGCATCTTGACAAACAAATCATGCA
2282856 TAAAACACCACATGCTCAAGGATGGACGAATTTCAGCATGCAAACACATAAAGGTGACATATTTT
131 TAAAACACCACATGCTCAAGGATGGACGAATTTCAGCATGCAAACACATAAAGGTGACAT-TTTT
*
2282921 -ATAGGGAAAATGCAACAAATATGTAGGAAGATGACAAATAAAAGGCATGGAAATGATATGAACA
195 GATAGGGAAAATGCAACAAATATGTAGGAAGATGACAAATAAAAGGCATGGAAATGATATGAAAA
*
2282985 AATTTGAGAAAAGAAAGG
260 AATTAGAGAAAAGAAAGG
2283003 T
1 T
2283004 GTGTTGGAGT
Statistics
Matches: 267, Mismatches: 9, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
276 8 0.03
277 255 0.96
278 4 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.27
Consensus pattern (277 bp):
TTTGATGAAAACATCAAGTTCATGTTGTTCTCCATCTATTGGAGCCAACATGAACTTAACTTGGG
ATCTATTTTTTAGAAAATTAGGTTTTATAACCATCAAGCATGCATCTTGACAAACAAATCATGCA
TAAAACACCACATGCTCAAGGATGGACGAATTTCAGCATGCAAACACATAAAGGTGACATTTTTG
ATAGGGAAAATGCAACAAATATGTAGGAAGATGACAAATAAAAGGCATGGAAATGATATGAAAAA
ATTAGAGAAAAGAAAGG
Found at i:2285033 original size:153 final size:150
Alignment explanation
Indices: 2284805--2285211 Score: 373
Period size: 153 Copynumber: 2.7 Consensus size: 150
2284795 GATTATAGAA
* * * * * *
2284805 GGGATAAACCTATCCTAAATACCCACATTCGGCATAAAAGTGGACCCAGTGACAACCTAGTACTT
1 GGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTGGATCCAGTGACAACCTAGGAGTC
*
2284870 GATATT-GAAAAAATTACTAAAATACCCCTAGGGGATACATTCGATGTGAAAGT-GCTT-G-ATA
66 GGT-TTAGAAAAAATTACTAAAAT-CCCCTAGGGGATACATTCGATGTGAAAGTAGCTTAGTA-A
*
2284931 CCCTTAAAGGACTTAAAAAATTTAAAAT
128 CCC-TAAAGAACTT-AAAAA---AAAAT
*** *
2284959 -GGATGAACCTATCCTAAATACCCACCTTCGGCAT-AAAGCAAATCTAGTGACAACCTAGGAGTC
1 GGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTGGATCCAGTGACAACCTAGGAGTC
* ** * * *
2285022 GGTTCTAGAAAAATATGA--AAAATGTCCTAATGGGTATACTTTCGATGTGAAAGTATCTTAGTA
66 GGTT-TAGAAAAA-ATTACTAAAATCCCCT-A-GGGGATACATTCGATGTGAAAGTAGCTTAGTA
* * *
2285085 ACCCTGAAGAACTTAAAAAGAGAT
127 ACCCTAAAGAACTTAAAAAAAAAT
* * * * *
2285109 GGGATGAGCCTATCCTAAATGCCCACCTTCGGCATAAAAGTGGATCCGGTGACAATCTAAGAGTC
1 GGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTGGATCCAGTGACAACCTAGGAGTC
* *
2285174 GGTTTTA-AAAAAATTACTAAAATGCCCTTAAGGGATAC
66 GG-TTTAGAAAAAATTACTAAAAT-CCCCTAGGGGATAC
2285212 TTTTGATATA
Statistics
Matches: 203, Mismatches: 36, Indels: 31
0.75 0.13 0.11
Matches are distributed among these distances:
150 6 0.03
151 47 0.23
152 62 0.31
153 68 0.33
154 14 0.07
155 5 0.02
156 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (150 bp):
GGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTGGATCCAGTGACAACCTAGGAGTC
GGTTTAGAAAAAATTACTAAAATCCCCTAGGGGATACATTCGATGTGAAAGTAGCTTAGTAACCC
TAAAGAACTTAAAAAAAAAT
Found at i:2287399 original size:166 final size:164
Alignment explanation
Indices: 2287111--2287709 Score: 638
Period size: 164 Copynumber: 3.6 Consensus size: 164
2287101 AAGCCCTCAT
* * * * *
2287111 AAAATATTTACGGAGTAGAAAACTTGAT-TTTTCAAAAATAGGGGCATTTCAAAGAAAAAAAATT
1 AAAAAATTTATGGAGTAGAAAACTTG-TGTTTT-AAAAACAGGAGAATTTC-AAG--AAAAAATT
* * * *
2287175 CAAAACTCATGAAAAT-AGATTAATTTTTCAAAAATGATTTATTAAGAATTAAATAATAATATTT
61 CAAAACTCATGAAAATGA-ATGAATTTTTAAAAAATAATTTA-TATGAATTAAATAATAATATTT
* *
2287239 GATAAATTTCAAAAATTTAAAACCAAGAAAAAT-CTCACTG
124 GATAAATTTTAAAAATTAAAAACCAAGAAAAATCCTCACTG
* * * *
2287279 AAAAAATTTATAGAGTAGAAAACTATGTGTTTTGAAAACAGAAAAATTTTCAAGAAAAAATTCAA
1 AAAAAATTTATGGAGTAGAAAACT-TGTGTTTTAAAAACAGGAGAA-TTTCAAGAAAAAATTCAA
* *
2287344 AACTCGTGAAAATGAATGAATTTTTAAAAAATAATTTCATATGAATTAAATAATAATATTTGATG
64 AACTCATGAAAATGAATGAATTTTTAAAAAATAATTT-ATATGAATTAAATAATAATATTTGATA
* *
2287409 AATTTTAAAAATTAAAAACCAAGAAAAATCCCCAC-A
128 AATTTTAAAAATTAAAAACCAAGAAAAATCCTCACTG
* * * *
2287445 AAAAAATTTACGGAGTAGAAAACTCTATGTTTCAAAAACAGGAGAATTTCCA-AAAAAATTCAAA
1 AAAAAATTTATGGAGTAGAAAACT-TGTGTTTTAAAAACAGGAGAATTTCAAGAAAAAATTCAAA
* * * * * *
2287509 ACTCATGAAAATGAGTGAATTTTTGAGAACTAATTTAATATAAATTAAATAATAATATTTTATAA
65 ACTCATGAAAATGAATGAATTTTTAAAAAATAATTT-ATATGAATTAAATAATAATATTTGATAA
* * * *
2287574 ATTTTAAAAATTGAAAATCGATG-AAAATCCTC-TTG
129 ATTTTAAAAATT-AAAAACCAAGAAAAATCCTCACTG
* * **
2287609 AAAAAATTTATGGAGTAGAAAACTTCGTATTTTAAAAATAGGAGAATTTCAAGAAAAAATAAAAA
1 AAAAAATTTATGGAGTAGAAAACTT-GTGTTTTAAAAACAGGAGAATTTCAAGAAAAAATTCAAA
* * * *
2287674 ATTCATG-AAATAAATGGAATTTTTTAAAAATGATTT
65 ACTCATGAAAATGAAT-GAATTTTTAAAAAATAATTT
2287710 GATGGTAATT
Statistics
Matches: 362, Mismatches: 58, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
163 1 0.00
164 138 0.38
165 44 0.12
166 131 0.36
167 6 0.02
168 32 0.09
169 10 0.03
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (164 bp):
AAAAAATTTATGGAGTAGAAAACTTGTGTTTTAAAAACAGGAGAATTTCAAGAAAAAATTCAAAA
CTCATGAAAATGAATGAATTTTTAAAAAATAATTTATATGAATTAAATAATAATATTTGATAAAT
TTTAAAAATTAAAAACCAAGAAAAATCCTCACTG
Found at i:2287566 original size:330 final size:330
Alignment explanation
Indices: 2287111--2287709 Score: 764
Period size: 330 Copynumber: 1.8 Consensus size: 330
2287101 AAGCCCTCAT
* * * * *
2287111 AAAATATTTACGGAGTAGAAAACTTGATTTTTCAAAAATAGGGGCATTTCAAAGAAAAAAAATTC
1 AAAAAATTTACGGAGTAGAAAACTTGATGTTTCAAAAACAGGAGAATTTC--A-AAAAAAAATTC
* * *
2287176 AAAACTCATGAAAATAGATTAATTTTTCAAAAATGATTTATTAAGAATTAAATAATAATATTTGA
63 AAAACTCATGAAAATAGATGAATTTTTCAAAAATAATTTAATAAGAATTAAATAATAATATTTGA
*
2287241 TAAATTTCAAAAATTTAAAA-CCAAGAAAAAT-CTCACTGAAAAAATTTATAGAGTAGAAAACTA
128 TAAATTTCAAAAATTGAAAATCCAAG-AAAATCCTC-CTGAAAAAATTTATAGAGTAGAAAACT-
* * ** * *
2287304 T-GTGTTTTGAAAACAGAAAAATTTTCAAGAAAAAATTCAAAACTCGTGAAAATGAAT-GAATTT
190 TCGTATTTTAAAAACAGAAAAA-TTTCAAGAAAAAATAAAAAACTCATG-AAATAAATGGAATTT
2287367 TTAAAAAATAATTTCATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAG
253 TTAAAAAATAATTTCATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAG
2287432 AAAAATCCCCACA
318 AAAAATCCCCACA
*
2287445 AAAAAATTTACGGAGTAGAAAACTCT-ATGTTTCAAAAACAGGAGAATTTC-CAAAAAAATTCAA
1 AAAAAATTTACGGAGTAGAAAACT-TGATGTTTCAAAAACAGGAGAATTTCAAAAAAAAATTCAA
* * * *
2287508 AACTCATGAAAAT-GAGTGAATTTTTGAGAACTAATTTAATATA-AATTAAATAATAATATTTTA
65 AACTCATGAAAATAGA-TGAATTTTTCAAAAATAATTTAATA-AGAATTAAATAATAATATTTGA
* * * * *
2287571 TAAATTTTAAAAATTGAAAATCGATGAAAATCCTCTTGAAAAAATTTATGGAGTAGAAAACTTCG
128 TAAATTTCAAAAATTGAAAATCCAAGAAAATCCTCCTGAAAAAATTTATAGAGTAGAAAACTTCG
* * * * *
2287636 TATTTTAAAAATAGGAGAATTTCAAGAAAAAATAAAAAATTCATGAAATAAATGGAATTTTTTAA
193 TATTTTAAAAACAGAAAAATTTCAAGAAAAAATAAAAAACTCATGAAATAAATGGAATTTTTAAA
*
2287701 AAATGATTT
258 AAATAATTT
2287710 GATGGTAATT
Statistics
Matches: 227, Mismatches: 31, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
328 7 0.03
329 43 0.19
330 126 0.56
331 7 0.03
334 43 0.19
335 1 0.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (330 bp):
AAAAAATTTACGGAGTAGAAAACTTGATGTTTCAAAAACAGGAGAATTTCAAAAAAAAATTCAAA
ACTCATGAAAATAGATGAATTTTTCAAAAATAATTTAATAAGAATTAAATAATAATATTTGATAA
ATTTCAAAAATTGAAAATCCAAGAAAATCCTCCTGAAAAAATTTATAGAGTAGAAAACTTCGTAT
TTTAAAAACAGAAAAATTTCAAGAAAAAATAAAAAACTCATGAAATAAATGGAATTTTTAAAAAA
TAATTTCATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCC
CCACA
Found at i:2288920 original size:44 final size:43
Alignment explanation
Indices: 2288851--2288972 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 43
2288841 TAAACGTAAC
* * * **
2288851 AAGTTCGATTAGAGCTAAACCATCACGTCGAATGAGGATGAA-A
1 AAGTTTGATTAGGGCTAAACCATCACGTCAAATGAAAAT-AATA
2288894 AGAGTTTGATTAGGGCTAAACCATCACGTCAAATGAAAATAATA
1 A-AGTTTGATTAGGGCTAAACCATCACGTCAAATGAAAATAATA
* ** *
2288938 AAGTTTGATCAGGGGAAAACCATCACGCCAAATGA
1 AAGTTTGATTAGGGCTAAACCATCACGTCAAATGA
2288973 TAGTGAAAGG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 33 0.49
44 35 0.51
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.21
Consensus pattern (43 bp):
AAGTTTGATTAGGGCTAAACCATCACGTCAAATGAAAATAATA
Found at i:2288958 original size:43 final size:44
Alignment explanation
Indices: 2288867--2289122 Score: 151
Period size: 44 Copynumber: 5.8 Consensus size: 44
2288857 GATTAGAGCT
* ** * *
2288867 AAACCATCACGTCGAATGAGGATGAAAAGAGTTTGATTAGGGCT
1 AAACCATCACGTCAAATGAAAATGAAAAGAGTTTGATCAGGGCA
*
2288911 AAACCATCACGTCAAATGAAAAT-AATAA-AGTTTGATCAGGGGA
1 AAACCATCACGTCAAATGAAAATGAA-AAGAGTTTGATCAGGGCA
* * * * * * * *
2288954 AAACCATCACGCCAAATGATAGTGAAAGGGGGTTTAACCAGGGTA
1 AAACCATCACGTCAAATGAAAATGAAA-AGAGTTTGATCAGGGCA
* * * * * * *
2288999 GAACCATCACCTCAAACGATAGT-TAAAGAAGTTTGACCAGGGCA
1 AAACCATCACGTCAAATGAAAATGAAAAG-AGTTTGATCAGGGCA
* * * * ** * * *
2289043 GAGCCATCATGTCAAACGAGGATGAAAGGAGTTTGACCTA-GGTA
1 AAACCATCACGTCAAATGAAAATGAAAAGAGTTTGATC-AGGGCA
* **
2289087 GAACCATCACGTCAAATGAGGATGAAAAGAGTTTGA
1 AAACCATCACGTCAAATGAAAATGAAAAGAGTTTGA
2289123 CCAAGACTGA
Statistics
Matches: 169, Mismatches: 36, Indels: 14
0.77 0.16 0.06
Matches are distributed among these distances:
43 36 0.21
44 99 0.59
45 34 0.20
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (44 bp):
AAACCATCACGTCAAATGAAAATGAAAAGAGTTTGATCAGGGCA
Found at i:2289051 original size:89 final size:88
Alignment explanation
Indices: 2288938--2289102 Score: 190
Period size: 89 Copynumber: 1.9 Consensus size: 88
2288928 GAAAATAATA
* * * *
2288938 AAGTTTGATCAGGGGAAAACCATCACGCCAAATGATAG-TGAAAGGGGGTTTAACC-AGGGTAGA
1 AAGTTTGACCAGGGCAAAACCATCACGCCAAACGA-AGATGAAA-GGAGTTTAACCTA-GGTAGA
2289001 ACCATCACCTCAAACGATAGTTAAAG
63 ACCATCACCTCAAACGATAGTTAAAG
* * * * * *
2289027 AAGTTTGACCAGGGCAGAGCCATCATGTCAAACGAGGATGAAAGGAGTTTGACCTAGGTAGAACC
1 AAGTTTGACCAGGGCAAAACCATCACGCCAAACGAAGATGAAAGGAGTTTAACCTAGGTAGAACC
*
2289092 ATCACGTCAAA
66 ATCACCTCAAA
2289103 TGAGGATGAA
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
88 29 0.46
89 34 0.54
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (88 bp):
AAGTTTGACCAGGGCAAAACCATCACGCCAAACGAAGATGAAAGGAGTTTAACCTAGGTAGAACC
ATCACCTCAAACGATAGTTAAAG
Found at i:2289076 original size:44 final size:43
Alignment explanation
Indices: 2289023--2289147 Score: 151
Period size: 44 Copynumber: 2.8 Consensus size: 43
2289013 AACGATAGTT
* *
2289023 AAAGAAGTTTGACCAGGGCAGAGCCATCATGTCAAACGAGGATG
1 AAAGGAGTTTGACCA-GGCAGAACCATCATGTCAAACGAGGATG
* * *
2289067 AAAGGAGTTTGACCTAGGTAGAACCATCACGTCAAATGAGGATG
1 AAAGGAGTTTGACC-AGGCAGAACCATCATGTCAAACGAGGATG
* * *
2289111 AAAAGAGTTTGACCAAGACTGAACCATCATGTCAAAC
1 AAAGGAGTTTGACC-AGGCAGAACCATCATGTCAAAC
2289148 AAGAAGGAGG
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 67 0.99
45 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (43 bp):
AAAGGAGTTTGACCAGGCAGAACCATCATGTCAAACGAGGATG
Found at i:2289189 original size:44 final size:44
Alignment explanation
Indices: 2289132--2289706 Score: 388
Period size: 44 Copynumber: 13.1 Consensus size: 44
2289122 ACCAAGACTG
* * * *
2289132 AACCATCATGTCAAACAAGAAGGAGGCATATTTGACCAGGGTGGT
1 AACCAT-ACGTCAAACAAGAATGAGGAAGATTTGACCAGGGTGGT
* * * *
2289177 AACCATGCGTCAAATC-AGAACGAAG-AGAATTTGACCAAGGTGGT
1 AACCATACGTCAAA-CAAGAATGAGGAAG-ATTTGACCAGGGTGGT
* * * *
2289221 AACCATACGTCAGACTAA-AAGGA-GAAGAGTTTGACCACGATGGT
1 AACCATACGTCAAAC-AAGAATGAGGAAGA-TTTGACCAGGGTGGT
* * ** * *
2289265 AACCATACGTCAAACATGAATAAGGCCGATTTGACTAGGGTGAT
1 AACCATACGTCAAACAAGAATGAGGAAGATTTGACCAGGGTGGT
** ** * * *
2289309 AACCATACGTCAAATTAGAATGAAAAAAATCTGACTAGGGTGGT
1 AACCATACGTCAAACAAGAATGAGGAAGATTTGACCAGGGTGGT
* **
2289353 AACCATACGTCAAAC-TGAAATGA-GAAGAGTTTGACCACAGTGGT
1 AACCATACGTCAAACAAG-AATGAGGAAGA-TTTGACCAGGGTGGT
* * ** *
2289397 AGCCATACGTCAAACAAGAATAAGGTTGATTTGACTAGGGTGGT
1 AACCATACGTCAAACAAGAATGAGGAAGATTTGACCAGGGTGGT
* * * *
2289441 AACCATACGTCAAATC-AGAATGA-AAAGAATCTGACTAGTGTGGT
1 AACCATACGTCAAA-CAAGAATGAGGAAG-ATTTGACCAGGGTGGT
* * *
2289485 AACCATACATCAGAC-CGAAATGA-GAAGAGTTTGACCAGGGTGGT
1 AACCATACGTCAAACAAG-AATGAGGAAGA-TTTGACCAGGGTGGT
* * *
2289529 AACCATACGTCAAATAGGAATGAGGTAGATTTGACCA-GGTGGT
1 AACCATACGTCAAACAAGAATGAGGAAGATTTGACCAGGGTGGT
* * *
2289572 AACCATACGTCAAATC-AGAATGA-AAAGAATCTGACTAGGGTGGT
1 AACCATACGTCAAA-CAAGAATGAGGAAG-ATTTGACCAGGGTGGT
* * * * *
2289616 AACCATATGTCAGAC-CGAAATGA-GAAGAGTTTGACTAGGGTGAT
1 AACCATACGTCAAACAAG-AATGAGGAAGA-TTTGACCAGGGTGGT
* * * * ** *
2289660 AACCATACATCAAATAGGAAGGAGGTGGATTTGACTAGGGTGGT
1 AACCATACGTCAAACAAGAATGAGGAAGATTTGACCAGGGTGGT
2289704 AAC
1 AAC
2289707 TGAAAGCTTA
Statistics
Matches: 417, Mismatches: 88, Indels: 51
0.75 0.16 0.09
Matches are distributed among these distances:
42 2 0.00
43 49 0.12
44 341 0.82
45 25 0.06
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (44 bp):
AACCATACGTCAAACAAGAATGAGGAAGATTTGACCAGGGTGGT
Found at i:2289210 original size:132 final size:131
Alignment explanation
Indices: 2289080--2289706 Score: 665
Period size: 132 Copynumber: 4.8 Consensus size: 131
2289070 GGAGTTTGAC
* * * *
2289080 CTAGGTAG-AACCATCACGTCA-AATGAGGATGAAAAGAGTTTGACCAAGACT-G-AACCATCAT
1 CTAGGTGGTAACCAT-ACGTCAGAATGA-AATGAGAAGAGTTTGACCAAGA-TGGTAACCAT-AC
** * * * *
2289141 GTCAAACAAGAAGGAGGCATATTTGACCAGGGTGGTAACCATGCGTCAAATCAGAACGAAGAGAA
62 GTCAAACAAGAATAAGGCAGATTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAA
*
2289206 TTTGA
127 TCTGA
* * * * *
2289211 CCAAGGTGGTAACCATACGTCAGACTAAAAGGAGAAGAGTTTGACCACGATGGTAACCATACGTC
1 -CTAGGTGGTAACCATACGTCAGAATGAAATGAGAAGAGTTTGACCAAGATGGTAACCATACGTC
* * * * * *
2289276 AAACATGAATAAGGCCGATTTGACTAGGGTGATAACCATACGTCAAATTAGAATGAAAAAAATCT
65 AAACAAGAATAAGGCAGATTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATCT
2289341 GA
130 GA
*
2289343 CTAGGGTGGTAACCATACGTCA-AACTGAAATGAGAAGAGTTTGACCACAG-TGGTAGCCATACG
1 CTA-GGTGGTAACCATACGTCAGAA-TGAAATGAGAAGAGTTTGACCA-AGATGGTAACCATACG
** *
2289406 TCAAACAAGAATAAGGTTGATTTGACTAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAAT
63 TCAAACAAGAATAAGGCAGATTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAAT
2289471 CTGA
128 CTGA
* ** * *
2289475 CTAGTGTGGTAACCATACATCAGACCGAAATGAGAAGAGTTTGACCAGGGTGGTAACCATACGTC
1 CTAG-GTGGTAACCATACGTCAGAATGAAATGAGAAGAGTTTGACCAAGATGGTAACCATACGTC
* * * *
2289540 AAATAGGAATGAGGTAGATTTGACCA-GGTGGTAACCATACGTCAAATCAGAATGAAAAGAATCT
65 AAACAAGAATAAGGCAGATTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATCT
2289604 GA
130 GA
* ** * * * * *
2289606 CTAGGGTGGTAACCATATGTCAGACCGAAATGAGAAGAGTTTGACTAGGGTGATAACCATACATC
1 CTA-GGTGGTAACCATACGTCAGAATGAAATGAGAAGAGTTTGACCAAGATGGTAACCATACGTC
* * ** ** *
2289671 AAATAGGAAGGAGGTGGATTTGACTAGGGTGGTAAC
65 AAACAAGAATAAGGCAGATTTGACCAGGGTGGTAAC
2289707 TGAAAGCTTA
Statistics
Matches: 431, Mismatches: 52, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
131 127 0.29
132 287 0.67
133 17 0.04
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (131 bp):
CTAGGTGGTAACCATACGTCAGAATGAAATGAGAAGAGTTTGACCAAGATGGTAACCATACGTCA
AACAAGAATAAGGCAGATTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATCTG
A
Found at i:2290475 original size:13 final size:13
Alignment explanation
Indices: 2290457--2290482 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2290447 CAATTTTTTG
2290457 TGTATCGATACAT
1 TGTATCGATACAT
2290470 TGTATCGATACAT
1 TGTATCGATACAT
2290483 ACTTGCTGTA
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:2290547 original size:21 final size:21
Alignment explanation
Indices: 2290521--2290596 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2290511 CTGCCAAGAA
*
2290521 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2290542 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
*
2290562 ATGTATCGATACATCATTTTC
1 ATGTATCGATACATCTTTTTC
2290583 ATGTATCGATACAT
1 ATGTATCGATACAT
2290597 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2290567 original size:20 final size:20
Alignment explanation
Indices: 2290542--2290614 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
2290532 CATCTTTTTT
2290542 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*
2290562 ATGTATCGATACA-T-CATTTTC
1 ATGTATCGATACATTGCA---AC
2290583 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2290603 ATGTATCGATAC
1 ATGTATCGATAC
2290615 TTTGAATTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 26 0.57
21 14 0.30
22 1 0.02
23 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2290587 original size:41 final size:41
Alignment explanation
Indices: 2290521--2290614 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2290511 CTGCCAAGAA
* *
2290521 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
2290562 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
2290603 ATGTATCGATAC
1 ATGTATCGATAC
2290615 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
Found at i:2293082 original size:13 final size:13
Alignment explanation
Indices: 2293064--2293101 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2293054 ATAATCACCC
2293064 TGTATCGATACAG
1 TGTATCGATACAG
*
2293077 TGTATCGATACAT
1 TGTATCGATACAG
2293090 TGTATCGATACA
1 TGTATCGATACA
2293102 AAGAAAAATG
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:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2293115 original size:20 final size:20
Alignment explanation
Indices: 2293090--2293166 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
2293080 ATCGATACAT
2293090 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
2293110 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
* *
2293135 TGTATCGATACACAGAAACA
1 TGTATCGATACAAAGAAAAA
2293155 TGTATCGATACA
1 TGTATCGATACA
2293167 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 30 0.62
25 18 0.38
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:2295210 original size:16 final size:15
Alignment explanation
Indices: 2295181--2295211 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2295171 ATTTCGTTTG
2295181 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
*
2295196 GAGCTTCCTCAATTT
1 GAGCTTCCTCATTTT
2295211 G
1 G
2295212 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.42
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2297044 original size:21 final size:21
Alignment explanation
Indices: 2297015--2297059 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2297005 AAGTTTTCAT
*
2297015 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2297035 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2297057 TTT
1 TTT
2297060 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2299294 original size:13 final size:13
Alignment explanation
Indices: 2299276--2299301 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2299266 CAATTTTTTG
2299276 TGTATCGATACAT
1 TGTATCGATACAT
2299289 TGTATCGATACAT
1 TGTATCGATACAT
2299302 ACTTGCTGTA
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:2299366 original size:21 final size:21
Alignment explanation
Indices: 2299340--2299415 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2299330 CTGCCAAGAA
*
2299340 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2299361 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
*
2299381 ATGTATCGATACATCATTTTC
1 ATGTATCGATACATCTTTTTC
2299402 ATGTATCGATACAT
1 ATGTATCGATACAT
2299416 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2299386 original size:20 final size:20
Alignment explanation
Indices: 2299361--2299433 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
2299351 CATCTTTTTT
2299361 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*
2299381 ATGTATCGATACA-T-CATTTTC
1 ATGTATCGATACATTGCA---AC
2299402 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2299422 ATGTATCGATAC
1 ATGTATCGATAC
2299434 TTTGAATTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 26 0.57
21 14 0.30
22 1 0.02
23 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2299406 original size:41 final size:41
Alignment explanation
Indices: 2299340--2299433 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2299330 CTGCCAAGAA
* *
2299340 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
2299381 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
2299422 ATGTATCGATAC
1 ATGTATCGATAC
2299434 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
Found at i:2299838 original size:47 final size:47
Alignment explanation
Indices: 2299783--2299904 Score: 156
Period size: 47 Copynumber: 2.6 Consensus size: 47
2299773 CCGTTATAGT
* *
2299783 CAAACGAGGGTGGAGAGAGTTTGA-TGAGGTTTTAATGCCAATACAAA
1 CAAACGAGGGTGGAAAGAGTTTGACT-AGGTCTTAATGCCAATACAAA
* **
2299830 CAAACGAGGGTGGAAAGAGTTTGACTAGGTCTTAATGCCAATATAGT
1 CAAACGAGGGTGGAAAGAGTTTGACTAGGTCTTAATGCCAATACAAA
* * *
2299877 CAAACGAGGATAGAAAGAGCTTGACTAG
1 CAAACGAGGGTGGAAAGAGTTTGACTAG
2299905 ATACAGTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
47 65 0.98
48 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (47 bp):
CAAACGAGGGTGGAAAGAGTTTGACTAGGTCTTAATGCCAATACAAA
Found at i:2300733 original size:19 final size:19
Alignment explanation
Indices: 2300709--2300803 Score: 106
Period size: 19 Copynumber: 5.6 Consensus size: 19
2300699 AAACAGTAAC
2300709 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
2300728 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
2300741 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
2300760 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
2300773 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
2300792 TGTATCGATACA
1 TGTATCGATACA
2300804 CTGTATCGCT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 34 0.53
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:2300746 original size:13 final size:13
Alignment explanation
Indices: 2300728--2300784 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
2300718 ACATAAGTGT
2300728 TGTATCGATACAA
1 TGTATCGATACAA
2300741 TGTATCGATACATAA
1 TGTATCGATAC--AA
2300756 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2300773 TGTATCGATACA
1 TGTATCGATACA
2300785 TAAGTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2300750 original size:32 final size:32
Alignment explanation
Indices: 2300709--2300811 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
2300699 AAACAGTAAC
2300709 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2300741 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2300773 TGTATCGATACATAAGTGTTGTATCGATACAC
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2300805 TGTATCG
1 TGTATCG
2300812 CTACGAAGCT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2300853 original size:13 final size:13
Alignment explanation
Indices: 2300835--2300862 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2300825 GCCGAGGAAA
2300835 TGTATCGATACAT
1 TGTATCGATACAT
2300848 TGTATCGATACAT
1 TGTATCGATACAT
2300861 TG
1 TG
2300863 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2306275 original size:23 final size:23
Alignment explanation
Indices: 2306233--2306276 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2306223 CTAAATTTTC
2306233 TTTTTCTCTTTGTTTCTTTTTGT
1 TTTTTCTCTTTGTTTCTTTTTGT
*
2306256 TTTTTCTTCTTT-TTTTTTTTT
1 TTTTTC-TCTTTGTTTCTTTTT
2306277 AAAATTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (23 bp):
TTTTTCTCTTTGTTTCTTTTTGT
Found at i:2306276 original size:16 final size:16
Alignment explanation
Indices: 2306246--2306275 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2306236 TTCTCTTTGT
2306246 TTCTTTTTGTTTTTTC
1 TTCTTTTTGTTTTTTC
2306262 TTCTTTTT-TTTTTT
1 TTCTTTTTGTTTTTT
2306276 TAAAATTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (16 bp):
TTCTTTTTGTTTTTTC
Found at i:2308074 original size:14 final size:14
Alignment explanation
Indices: 2308055--2308086 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2308045 TAAAGAAAAC
2308055 ACAAAGATTAGTGA
1 ACAAAGATTAGTGA
*
2308069 ACAAAGGTTAGTGA
1 ACAAAGATTAGTGA
2308083 ACAA
1 ACAA
2308087 CATATATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.19
Consensus pattern (14 bp):
ACAAAGATTAGTGA
Found at i:2309846 original size:194 final size:192
Alignment explanation
Indices: 2309517--2309898 Score: 479
Period size: 194 Copynumber: 2.0 Consensus size: 192
2309507 ATGGGATAAA
* *
2309517 CCTATCCTAAATACCTACCTTTGACATAAAAGCAGACCAGGTGGCAACCTAAGAGTCAGTTCTAA
1 CCTATCCTAAATACCTACCTTCGACATAAAAGCAGACCAGGTGACAACCTAAGAGTCAGTTCTAA
*
2309582 AAAATTTCAAAAAATGCCTTTATGGGTATACCTTCGACGTGAAAGTATCCTGGTAACCCTAAAGG
66 AAAATTTC--AAAATGCCCTTATGGGTATACCTTCGACGTGAAAGTATCCTGGTAACCCTAAAGG
* * * *
2309647 ACTTAAAAAGATTAGAGATGGGA-TGAACCTATCCTAAAAGCCTACCTTCGGCATAAAAGTGGAC
129 ACTTAAAAAGATCAGAGATGGGATTG-ACCTACCCTAAAAGCCCACCTTCAGCATAAAAGTGGAC
* * * *
2309711 CCTATCCTAAATGCGTACCTTCGACATAAAAGC-GAACCCA-GTGACAACCTAGGAGTCAGTTTT
1 CCTATCCTAAATACCTACCTTCGACATAAAAGCAG-A-CCAGGTGACAACCTAAGAGTCAGTTCT
* * *
2309774 AAAAAATTATTC-AAATGCCCTTATGGGTTTA-CTGTTGACGTGAAAAGTAT-CTCGGTAACGCT
64 AAAAAA-T-TTCAAAATGCCCTTATGGGTATACCT-TCGACGTG-AAAGTATCCT-GGTAACCCT
* * *
2309836 GAAGGACTTAAAAAGATCAGAGATGGGATTGACCTACCCTAAATGCCCACCTTCATCATAAAA
124 AAAGGACTTAAAAAGATCAGAGATGGGATTGACCTACCCTAAAAGCCCACCTTCAGCATAAAA
2309899 ACAAACCCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
192 2 0.01
193 27 0.17
194 125 0.77
195 6 0.04
196 3 0.02
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (192 bp):
CCTATCCTAAATACCTACCTTCGACATAAAAGCAGACCAGGTGACAACCTAAGAGTCAGTTCTAA
AAAATTTCAAAATGCCCTTATGGGTATACCTTCGACGTGAAAGTATCCTGGTAACCCTAAAGGAC
TTAAAAAGATCAGAGATGGGATTGACCTACCCTAAAAGCCCACCTTCAGCATAAAAGTGGAC
Found at i:2324402 original size:18 final size:17
Alignment explanation
Indices: 2324351--2324425 Score: 51
Period size: 19 Copynumber: 4.0 Consensus size: 17
2324341 CCTTCATACC
*
2324351 CAAAAAAAAAAGAAAAA
1 CAAAAAAAAAAAAAAAA
2324368 CTGAAAAAAAACCAAAAAAAA
1 C--AAAAAAAA--AAAAAAAA
* * *
2324389 CAAAAAAATAAAAATAC
1 CAAAAAAAAAAAAAAAA
2324406 CAAGAAAAAATAACAAAAAA
1 CAA-AAAAAA-AA-AAAAAA
2324426 TAGAAAGGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
17 10 0.23
18 5 0.11
19 17 0.39
20 4 0.09
21 8 0.18
ACGTcount: A:0.80, C:0.11, G:0.04, T:0.05
Consensus pattern (17 bp):
CAAAAAAAAAAAAAAAA
Found at i:2325773 original size:28 final size:29
Alignment explanation
Indices: 2325644--2325959 Score: 365
Period size: 29 Copynumber: 10.9 Consensus size: 29
2325634 CGTTCATCTC
* * *
2325644 TTCAAAGCCCATAAGTTAGTGGCACTTTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
2325673 TTTAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
2325702 TTCAAAGCCCACAAGTCAGTGGTA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
2325730 TTC-AAGCCCACAAGTCAGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
2325757 TTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
2325786 TTTAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
2325814 TTCAAAGCTCATAAGTCAGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
2325842 TTTAAAGCCAACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
2325871 TTCAAAGACCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CACTCTT
*
2325901 TTCAAAGCCCACATGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
* *
2325933 TTTAAAGCCCACACAAGTTAGTGGCAC
1 TTCAAAG-CC-CACAAGTCAGTGGCAC
2325960 ATTTTTTTTT
Statistics
Matches: 247, Mismatches: 29, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
27 25 0.10
28 74 0.30
29 95 0.38
30 18 0.07
31 2 0.01
32 26 0.11
33 3 0.01
34 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:2325864 original size:85 final size:86
Alignment explanation
Indices: 2325644--2325959 Score: 388
Period size: 85 Copynumber: 3.6 Consensus size: 86
2325634 CGTTCATCTC
* * *
2325644 TTCAAAGCCCATAAGTTAGTGGCACTTTTTTTAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
1 TTCAAAGCCCATAAGTCAGTGGCACTCTTTTTAAAGCCAACAAGTCAGTGGCACTCTTTTCAAAG
*
2325709 CCCACAAGTCAGTGGTATCCT
66 CCCACAAGTCAGTGGAATCCT
* * * * *
2325730 TTC-AAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCATTCTTTTTAAAG
1 TTCAAAGCCCATAAGTCAGTGGCACTCTTTTTAAAGCCAACAAGTCAGTGGCACTCTTTTCAAAG
*
2325793 CCCACAAGTCAGTGGCATCCT
66 CCCACAAGTCAGTGGAATCCT
*
2325814 TTCAAAGCTCATAAGTCAGTGGCA-TCTTTTTAAAGCCAACAAGTCAGTGGCACTCTTTTCAAAG
1 TTCAAAGCCCATAAGTCAGTGGCACTCTTTTTAAAGCCAACAAGTCAGTGGCACTCTTTTCAAAG
* *
2325878 ACCACAAG-CTAGTGGTAACTCTT
66 CCCACAAGTC-AGTGG-AA-TCCT
* * *
2325901 TTCAAAGCCCACATGAGTCGGTGGCAACTCTTTTTAAAGCCCACACAAGTTAGTGGCAC
1 TTCAAAG-CC-CATAAGTCAGTGGC-ACTCTTTTTAAAG-CCA-ACAAGTCAGTGGCAC
2325960 ATTTTTTTTT
Statistics
Matches: 200, Mismatches: 20, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
84 60 0.30
85 84 0.42
86 4 0.02
87 10 0.05
88 1 0.00
89 12 0.06
90 1 0.00
91 11 0.05
92 3 0.01
93 14 0.07
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (86 bp):
TTCAAAGCCCATAAGTCAGTGGCACTCTTTTTAAAGCCAACAAGTCAGTGGCACTCTTTTCAAAG
CCCACAAGTCAGTGGAATCCT
Found at i:2326863 original size:20 final size:20
Alignment explanation
Indices: 2326806--2326863 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
2326796 AAAGTACCCA
* *
2326806 AATGTATCGATACATGT-ATG
1 AATGTATCGATACAT-TCTTC
*
2326826 AATGTATCGATAGATTCTTC
1 AATGTATCGATACATTCTTC
2326846 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
2326864 GTCTTTTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 1 0.03
20 32 0.97
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:2334802 original size:48 final size:49
Alignment explanation
Indices: 2334715--2334823 Score: 139
Period size: 48 Copynumber: 2.2 Consensus size: 49
2334705 TATGTTCAAA
* * * * *
2334715 GTATCGATACATTTAGATTTTTCCAGAATGTATCGATACAATGCAACCT
1 GTATCGATACATCTAGAGTTTCCCAGAATGTATCAATACAATGCAACAT
* **
2334764 GTATCGATACATCTAG-GTTTCCCAGATTGTATCAATACAATGCATGAT
1 GTATCGATACATCTAGAGTTTCCCAGAATGTATCAATACAATGCAACAT
2334812 GTATCGATACAT
1 GTATCGATACAT
2334824 ATTGTATCGA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 37 0.71
49 15 0.29
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (49 bp):
GTATCGATACATCTAGAGTTTCCCAGAATGTATCAATACAATGCAACAT
Found at i:2335650 original size:16 final size:16
Alignment explanation
Indices: 2335629--2335659 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2335619 TTTCATGATC
2335629 TATGAAATTATGCTTT
1 TATGAAATTATGCTTT
*
2335645 TATGAAATTGTGCTT
1 TATGAAATTATGCTT
2335660 ATACTTTTAT
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:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (16 bp):
TATGAAATTATGCTTT
Found at i:2338634 original size:165 final size:164
Alignment explanation
Indices: 2338447--2339043 Score: 785
Period size: 165 Copynumber: 3.6 Consensus size: 164
2338437 AATAGAGGCA
* * * *
2338447 TTTCAAAGAAAAAATTCAAAACTCAT-AAATATAAATTAATTTTTCAAAATTAATTTAATATAAA
1 TTTC-AAG-AAAAATTCAAAACTCATGAAA-ATGAATGAATTTTTAAAAACTAATTTAATATAAA
*
2338511 TTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACTAAGAAAAATCCCCCCGAAAGAATTT
63 TTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCCCGAAAGAATTT
2338576 ATGGAGTAAAAAACTCTGTGTTTCGAAAGTAGGAAAAT
128 ATGGAGTAAAAAACTCTGTGTTTCGAAA-TAGGAAAAT
* * *
2338614 TTTTAAGAAAAATTCAAAACTAATGAAAATGAATGAATTTTTAAAAACTAATTTAATATGAATTA
1 TTTCAAGAAAAATTCAAAACTCATGAAAATGAATGAATTTTTAAAAACTAATTTAATATAAATTA
* *
2338679 AATAATAGTATTTGATGAATTTTAAAAATTAAAAA-TAAAGAAAAAT-CCCTCGAAAGAATTTAT
66 AATAATAATATTTGATGAATTTTAAAAATTAAAAACT-AAGAAAAATCCCCCCGAAAGAATTTAT
*
2338742 GGAGTAAAAAACT-TCGTGTTTCGAAAATAAGAAAAT
130 GGAGTAAAAAACTCT-GTGTTTCG-AAATAGGAAAAT
* * * *
2338778 TTTCAAGAAAAAATTCAAAGCTCGTGAAAATGAATGCATTTTTAAAAACTAATTTAATATGAATT
1 TTTCAAG-AAAAATTCAAAACTCATGAAAATGAATGAATTTTTAAAAACTAATTTAATATAAATT
* * * * * *
2338843 AAATAATAGTATTTGATGAATTTAAAAAATTAAAAACCAAGAAAAATCACCGCGAAAAAATTTAT
65 AAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCCCGAAAGAATTTAT
* * *
2338908 GGAGT-AGAAACTCTGTGTTTAGGAAATAAGG-AAAG
130 GGAGTAAAAAACTCTGTGTTT-CGAAAT-AGGAAAAT
* *
2338943 TTTCAAGAAAATATTCAAAACTTATTG-AAATGAATGAATTTTTGAAAACTAATTTAATATAAAT
1 TTTCAAGAAAA-ATTCAAAACTCA-TGAAAATGAATGAATTTTTAAAAACTAATTTAATATAAAT
* *
2339007 GAAATAATAATATTTGATGAATTTTAAAAATTGAAAA
64 TAAATAATAATATTTGATGAATTTTAAAAATTAAAAA
2339044 TCGATAAAAA
Statistics
Matches: 383, Mismatches: 35, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
163 1 0.00
164 56 0.15
165 292 0.76
166 31 0.08
167 3 0.01
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (164 bp):
TTTCAAGAAAAATTCAAAACTCATGAAAATGAATGAATTTTTAAAAACTAATTTAATATAAATTA
AATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCCCGAAAGAATTTATG
GAGTAAAAAACTCTGTGTTTCGAAATAGGAAAAT
Found at i:2338976 original size:330 final size:329
Alignment explanation
Indices: 2338350--2339164 Score: 891
Period size: 330 Copynumber: 2.5 Consensus size: 329
2338340 ATGGGAGTTT
* * * * ** ** * * * **
2338350 AATAACAATATTAGATAAATTTAAAAAATTTTAAATTGAGAAAAACCCCCCGAAAATATTTACAG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAATAAAGAAAAATCTCCTGAAAATATTTATGG
* * **
2338415 AGTAGAAAA-TTTAATTTTTC-AAAAT-AGAGGCATTTCAAAGAAAAAATTCAAAACTCATAAAT
66 AGTAAAAAACTTCAA-TTTTCGAAAATAAGA-AAATTTC-AAGAAAAAATTCAAAACTCATAAAT
* * * *
2338477 ATAAATTAATTTTTCAAAATTAATTTAATATAAATTAAATAATAATATTTGATAAATTTTAAAAA
128 ATAAATGAATTTTTAAAAACTAATTTAATATAAATTAAATAATAATATTTGATAAATTTAAAAAA
* * *
2338542 TTAAAAACTAAGAAAAATCCCCCCGAAAGAATTTATGGAGTAAAAAACTCTGTGTTTCGAAAGTA
193 TTAAAAACCAAGAAAAATCACCCCGAAAAAATTTATGGAGTAAAAAACTCTGTGTTTCGAAAGTA
* *
2338607 GGAAAATTTTTAAGAAAAATTCAAAACTAATGAAAATGAATGAATTTTTAAAAACTAATTTAATA
258 GGAAAAGTTTCAAGAAAAATTCAAAACTAATGAAAATGAATGAATTTTTAAAAACTAATTTAATA
* *
2338672 TGAATTA
323 TAAATGA
*
2338679 AATAATAGTATTTGATGAATTTTAAAAATTAAAAATAAAGAAAAATC-CCTCGAAAGA-ATTTAT
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAATAAAGAAAAATCTCCT-GAAA-ATATTTAT
* * *
2338742 GGAGTAAAAAACTTC-GTGTTTCGAAAATAAGAAAATTTTCAAGAAAAAATTCAAAGCTCGTGAA
64 GGAGTAAAAAACTTCAAT-TTTCGAAAATAAGAAAA-TTTCAAGAAAAAATTCAAAACTCAT-AA
* * * * *
2338806 A-ATGAATGCATTTTTAAAAACTAATTTAATATGAATTAAATAATAGTATTTGATGAATTTAAAA
126 ATATAAATGAATTTTTAAAAACTAATTTAATATAAATTAAATAATAATATTTGATAAATTTAAAA
* * *
2338870 AATTAAAAACCAAGAAAAATCACCGCGAAAAAATTTATGGAGT-AGAAACTCTGTGTTTAGGAAA
191 AATTAAAAACCAAGAAAAATCACCCCGAAAAAATTTATGGAGTAAAAAACTCTGTGTTT-CGAAA
* *
2338934 -TAAGG-AAAGTTTCAAGAAAATATTCAAAACTTATTG-AAATGAATGAATTTTTGAAAACTAAT
255 GT-AGGAAAAGTTTCAAGAAAA-ATTCAAAAC-TAATGAAAATGAATGAATTTTTAAAAACTAAT
2338996 TTAATATAAATGA
317 TTAATATAAATGA
* ** * * *
2339009 AATAATAATATTTGATGAATTTTAAAAATTGAAAATCGATAAAAATCTTCCTTAAAATGTTTATG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAATAAAGAAAAATC-TCCTGAAAATATTTATG
* * * * ** *
2339074 GAGTAGAAAACTTCAATTTTTGAAAATGAGAGAATTTCAAGAAAAAATAAAAAATTCATGAAATA
65 GAGTAAAAAACTTCAATTTTCGAAAATAAGAAAATTTCAAGAAAAAATTCAAAACTCAT-AAATA
* * *
2339139 -AAA-GAAATTTTCAAAACTGATTTAAT
129 TAAATGAATTTTTAAAAACTAATTTAAT
2339165 GGTAATTAAA
Statistics
Matches: 406, Mismatches: 63, Indels: 34
0.81 0.13 0.07
Matches are distributed among these distances:
328 3 0.01
329 106 0.26
330 242 0.60
331 51 0.13
332 4 0.01
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (329 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAAATAAAGAAAAATCTCCTGAAAATATTTATGG
AGTAAAAAACTTCAATTTTCGAAAATAAGAAAATTTCAAGAAAAAATTCAAAACTCATAAATATA
AATGAATTTTTAAAAACTAATTTAATATAAATTAAATAATAATATTTGATAAATTTAAAAAATTA
AAAACCAAGAAAAATCACCCCGAAAAAATTTATGGAGTAAAAAACTCTGTGTTTCGAAAGTAGGA
AAAGTTTCAAGAAAAATTCAAAACTAATGAAAATGAATGAATTTTTAAAAACTAATTTAATATAA
ATGA
Done.