Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 437 of 444
Found at i:126602376 original size:17 final size:16
Alignment explanation
Indices: 126602353--126602393 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
126602343 AGAATTAAAA
126602353 TATAATTTTAT-TATT
1 TATAATTTTATGTATT
126602368 T-TAATAATTTATGTATT
1 TATAAT--TTTATGTATT
126602385 TATAATTTT
1 TATAATTTT
126602394 CAAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.18
15 1 0.05
16 8 0.36
17 5 0.23
18 4 0.18
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TATAATTTTATGTATT
Found at i:126608218 original size:24 final size:24
Alignment explanation
Indices: 126608189--126608238 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
126608179 GGTGTCTTGG
126608189 TACATATAAACATAAAAACTTCAT
1 TACATATAAACATAAAAACTTCAT
126608213 TACATATAAACATAAAAACTTCAT
1 TACATATAAACATAAAAACTTCAT
126608237 TA
1 TA
126608239 ATTAATTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (24 bp):
TACATATAAACATAAAAACTTCAT
Found at i:126608876 original size:26 final size:26
Alignment explanation
Indices: 126608805--126608877 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
126608795 AAATACATAA
* *
126608805 ATAAAATTATAAGATATTAAAAAAAT
1 ATAATATTATAAAATATTAAAAAAAT
*
126608831 ATAATATTAATAAAAT-TTAAAAGAAT
1 ATAATATT-ATAAAATATTAAAAAAAT
*
126608857 ATATATATT-TAACATATTAAA
1 ATA-ATATTATAAAATATTAAA
126608878 TTAAAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 5 0.12
26 24 0.60
27 11 0.28
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (26 bp):
ATAATATTATAAAATATTAAAAAAAT
Found at i:126609067 original size:2 final size:2
Alignment explanation
Indices: 126609054--126609088 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
126609044 CATTGCTACG
* *
126609054 TC TC TC TT TC TC TC TC TC TC TC TC TC TT TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
126609089 TTCTAGTTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (2 bp):
TC
Found at i:126609067 original size:8 final size:8
Alignment explanation
Indices: 126609054--126609092 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
126609044 CATTGCTACG
126609054 TCTCTCTT
1 TCTCTCTT
126609062 TCTCTC--
1 TCTCTCTT
126609068 TCTCTC--
1 TCTCTCTT
126609074 TCTCTCTT
1 TCTCTCTT
126609082 TCTCTCTT
1 TCTCTCTT
126609090 TCT
1 TCT
126609093 AGTTGGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 12 0.41
8 17 0.59
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (8 bp):
TCTCTCTT
Found at i:126609069 original size:10 final size:10
Alignment explanation
Indices: 126609054--126609088 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
126609044 CATTGCTACG
126609054 TCTCTCTTTC
1 TCTCTCTTTC
*
126609064 TCTCTCTCTC
1 TCTCTCTTTC
126609074 TCTCTCTTTC
1 TCTCTCTTTC
126609084 TCTCT
1 TCTCT
126609089 TTCTAGTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (10 bp):
TCTCTCTTTC
Found at i:126611085 original size:26 final size:26
Alignment explanation
Indices: 126611056--126611108 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
126611046 GGAATGTAAG
*
126611056 TAAATTTATATGTATGTTTGCCAAGT
1 TAAATTTAGATGTATGTTTGCCAAGT
126611082 TAAATTTAGATGTATGTTTGCCAAGT
1 TAAATTTAGATGTATGTTTGCCAAGT
126611108 T
1 T
126611109 TTTCTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (26 bp):
TAAATTTAGATGTATGTTTGCCAAGT
Found at i:126614475 original size:74 final size:74
Alignment explanation
Indices: 126614382--126614529 Score: 235
Period size: 74 Copynumber: 2.0 Consensus size: 74
126614372 TGTTGAGAAA
* * *
126614382 GGTAGACACGATACATTGATGAATACT-ACTGATGGGGCTTATGCTTCCTTGGTGGCACTTCACT
1 GGTAGAAACGATACATTGATGAATA-TAACCGATGGGGCTTATGCTTCCTTGGTGACACTTCACT
126614446 TGACATCTTC
65 TGACATCTTC
* *
126614456 GGTAGAAACGATGCGTTGATGAATATAACCGATGGGGCTTATGCTTCCTTGGTGACACTTCACTT
1 GGTAGAAACGATACATTGATGAATATAACCGATGGGGCTTATGCTTCCTTGGTGACACTTCACTT
126614521 GACATCTTC
66 GACATCTTC
126614530 AACACAAGGC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
73 1 0.01
74 67 0.99
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (74 bp):
GGTAGAAACGATACATTGATGAATATAACCGATGGGGCTTATGCTTCCTTGGTGACACTTCACTT
GACATCTTC
Found at i:126621369 original size:131 final size:131
Alignment explanation
Indices: 126621217--126621455 Score: 343
Period size: 131 Copynumber: 1.8 Consensus size: 131
126621207 TTTTAAAGGG
* * * * *
126621217 ATATTCGACTATTTTGGACAAACGGAAAATTGTAACCCAGCACGATAAAGCACGATTCCCTGAAT
1 ATATTCAACTATTTTGAACAAACGGAAAATTGCAACCCAGCACGATAAAGCACAATTCCCGGAAT
* * *
126621282 TGCCAAACATCAAATATTTCTTTCGTCTTAAAGAATTTTTAAAGACATGAGTGAAATTCCAGAGG
66 TGCCAAACATCAAACATTGCCTTCGTCTTAAAGAATTTTTAAAGACATGAGTGAAATTCCAGAGG
126621347 A
131 A
* * ** *
126621348 ATATTCAATTATTTTGAACAAACGGAAAATTGCAACTCAGCACGATAGGGCACAATTTCCGGAAT
1 ATATTCAACTATTTTGAACAAACGGAAAATTGCAACCCAGCACGATAAAGCACAATTCCCGGAAT
* *
126621413 TGCCAAACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAA
66 TGCCAAACATCAAACATTGCCTTCGTCTTAAAGAATTTTTAAA
126621456 TGAATAATTA
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
131 93 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (131 bp):
ATATTCAACTATTTTGAACAAACGGAAAATTGCAACCCAGCACGATAAAGCACAATTCCCGGAAT
TGCCAAACATCAAACATTGCCTTCGTCTTAAAGAATTTTTAAAGACATGAGTGAAATTCCAGAGG
A
Found at i:126621595 original size:76 final size:76
Alignment explanation
Indices: 126621502--126621653 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
126621492 CGACTTGAAA
*
126621502 TAAAACGAAATTAATCTTAAAGATTTGGACCTTATAAAACCACATTTCGTAAACCAAGTGGAAAA
1 TAAAACGAAATTAATCTTAAAGATTTGGACCTCATAAAACCACATTTCGTAAACCAAGTGGAAAA
126621567 CAATGATATGG
66 CAATGATATGG
126621578 TAAAACGAAATTAATCTTAAAGATTTGGACCTCATAAAACCACATTTCGTAAACCAAGTGGAAAA
1 TAAAACGAAATTAATCTTAAAGATTTGGACCTCATAAAACCACATTTCGTAAACCAAGTGGAAAA
126621643 CAATGATATGG
66 CAATGATATGG
126621654 GATAATGTAC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (76 bp):
TAAAACGAAATTAATCTTAAAGATTTGGACCTCATAAAACCACATTTCGTAAACCAAGTGGAAAA
CAATGATATGG
Found at i:126622131 original size:21 final size:25
Alignment explanation
Indices: 126622105--126622151 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 25
126622095 AATATATTTA
126622105 ATATGA-AAGA-ATA-ATAA-AAAT
1 ATATGATAAGATATATATAAGAAAT
126622126 ATATGATAAGATATATATAAGAAAT
1 ATATGATAAGATATATATAAGAAAT
126622151 A
1 A
126622152 AGTGGTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.27
22 4 0.18
23 3 0.14
24 4 0.18
25 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.28
Consensus pattern (25 bp):
ATATGATAAGATATATATAAGAAAT
Found at i:126622308 original size:32 final size:33
Alignment explanation
Indices: 126622263--126622343 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
126622253 GATAATAAAT
126622263 AAAATAT-TTTAAAAT-AAATA-AATAAAGTTTA
1 AAAATATATTTAAAATAAAATATAA-AAAGTTTA
*
126622294 AAAATATATTTAAAATAAAATATAAATAGTTTA
1 AAAATATATTTAAAATAAAATATAAAAAGTTTA
*
126622327 AAATATAATATATAAAA
1 AAA-AT-ATATTTAAAA
126622344 GGAAATCTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
31 7 0.16
32 8 0.19
33 15 0.35
34 4 0.09
35 9 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (33 bp):
AAAATATATTTAAAATAAAATATAAAAAGTTTA
Found at i:126622423 original size:28 final size:29
Alignment explanation
Indices: 126622366--126622425 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
126622356 TAGAATAATG
* *
126622366 TATATATAAAAAGGATTATATATAAATAA
1 TATATATAAAAACGATTATAAATAAATAA
* *
126622395 TATATATAAAAACGTTTA-AAATAGATAA
1 TATATATAAAAACGATTATAAATAAATAA
126622423 TAT
1 TAT
126622426 TAATATATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (29 bp):
TATATATAAAAACGATTATAAATAAATAA
Found at i:126622431 original size:34 final size:33
Alignment explanation
Indices: 126622392--126622458 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
126622382 TATATATAAA
*
126622392 TAATATATATA-AAAACGTTTAAAATAGATAATAT
1 TAATATATACATAAAA-GTTTAAAATA-ATAATAT
126622426 TAATATATACATAAAAGTTTAAAATAATAATAT
1 TAATATATACATAAAAGTTTAAAATAATAATAT
126622459 ACAAATAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 7 0.23
34 20 0.65
35 4 0.13
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (33 bp):
TAATATATACATAAAAGTTTAAAATAATAATAT
Found at i:126627921 original size:24 final size:23
Alignment explanation
Indices: 126627888--126627932 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
126627878 GATCTGAATT
126627888 TTAAAATTTTAAAGATAAAAAAAA
1 TTAAAATTTTAAA-ATAAAAAAAA
*
126627912 TTAAATTTTTAAAATAAAAAA
1 TTAAAATTTTAAAATAAAAAA
126627933 TATAAACACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TTAAAATTTTAAAATAAAAAAAA
Found at i:126634343 original size:13 final size:13
Alignment explanation
Indices: 126634327--126634352 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
126634317 TTTTCCACGG
126634327 TATTTTTTAAAAA
1 TATTTTTTAAAAA
126634340 TATTTTTTAAAAA
1 TATTTTTTAAAAA
126634353 CATTGTCAAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTTTTTAAAAA
Found at i:126649633 original size:131 final size:131
Alignment explanation
Indices: 126649393--126649684 Score: 304
Period size: 131 Copynumber: 2.2 Consensus size: 131
126649383 ACGGGAAATT
* * * * *
126649393 GCAACCTAGCACGATAGGGCACTATTCCCCGAATTGCCAAACATCGAACATTTCTTTCATTTTAA
1 GCAACCCAGCACGATAGGGCACGATT-CCCAAATCGCCAAACATCGAACATATCTTTCATTTTAA
* ** * * *
126649458 AGAGTTTTTAGAAAACGTGAATGAAGTTCCGAAGGGATCTTCGATCATTTAGAACAAATGAAAAA
65 AGAGTTTTTAGAAAACATGAATGAAGAACCAAAGGAATATTCGATCATTTAGAACAAATGAAAAA
126649523 GC
130 GC
* * *
126649525 GCAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAATCATCGAACATCATC-TTCGTTTTGA
1 GCAACCCAGCACGATAGGGCACGATTCCCAAATCGCCAAACATCGAACAT-ATCTTTCATTTT-A
* ** * * *
126649589 AAG-GTTTTTA-ATAAACATGAGTGAA-AACCTAAAGGAATATTCGATTGTTTTGAGCAAATGAG
64 AAGAGTTTTTAGA-AAACATGAATGAAGAACC-AAAGGAATATTCGATCATTTAGAACAAATGAA
*
126649651 AAATC
127 AAAGC
* *
126649656 ACAACCCAGCACGATAGGGCATGATTCCC
1 GCAACCCAGCACGATAGGGCACGATTCCC
126649685 GAATTGTCAA
Statistics
Matches: 132, Mismatches: 24, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
130 3 0.02
131 99 0.75
132 30 0.23
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (131 bp):
GCAACCCAGCACGATAGGGCACGATTCCCAAATCGCCAAACATCGAACATATCTTTCATTTTAAA
GAGTTTTTAGAAAACATGAATGAAGAACCAAAGGAATATTCGATCATTTAGAACAAATGAAAAAG
C
Found at i:126650776 original size:2 final size:2
Alignment explanation
Indices: 126650769--126650797 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
126650759 AAGTGTATTA
126650769 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
126650798 AGTTTAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:126650928 original size:13 final size:13
Alignment explanation
Indices: 126650910--126650936 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
126650900 AAAATAATTT
126650910 TATACAAAACACA
1 TATACAAAACACA
126650923 TATACAAAACACA
1 TATACAAAACACA
126650936 T
1 T
126650937 TATCATAACG
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:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (13 bp):
TATACAAAACACA
Found at i:126654643 original size:19 final size:20
Alignment explanation
Indices: 126654619--126654670 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 20
126654609 ATTTAACCAT
*
126654619 TTTTGTTTAACAAGTTA-AG
1 TTTTGTTTAACAAGTCAGAG
*
126654638 TTTTG-TAAACAAG-CAGAG
1 TTTTGTTTAACAAGTCAGAG
126654656 TTTTGTTTAACAAGT
1 TTTTGTTTAACAAGT
126654671 AATCCATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 1 0.04
18 14 0.52
19 12 0.44
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (20 bp):
TTTTGTTTAACAAGTCAGAG
Found at i:126657084 original size:3 final size:3
Alignment explanation
Indices: 126657076--126657104 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
126657066 GCTTATGTTA
126657076 AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
126657105 CTAACAGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:126657096 original size:14 final size:14
Alignment explanation
Indices: 126657077--126657104 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
126657067 CTTATGTTAA
126657077 ATAATAATAATAAT
1 ATAATAATAATAAT
126657091 ATAATAATAATAAT
1 ATAATAATAATAAT
126657105 CTAACAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:126664401 original size:23 final size:21
Alignment explanation
Indices: 126664366--126664411 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
126664356 AGGCGTGACC
126664366 TATTTTTTTAATAATATAATT
1 TATTTTTTTAATAATATAATT
*
126664387 TATTTTTTTAA-AATATTA-T
1 TATTTTTTTAATAATATAATT
126664406 TATTTT
1 TATTTT
126664412 ATTATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.29
20 6 0.25
21 11 0.46
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTTTTTAATAATATAATT
Found at i:126664713 original size:3 final size:3
Alignment explanation
Indices: 126664648--126664695 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
126664638 TGCAGCAGCA
126664648 AAG AGAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
126664693 AAG
1 AAG
126664696 GAGGAGGAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:126665801 original size:11 final size:11
Alignment explanation
Indices: 126665766--126665793 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
126665756 GAGAGTAAGA
126665766 AATTTTAATGT
1 AATTTTAATGT
126665777 AATTTTAATGT
1 AATTTTAATGT
126665788 AATTTT
1 AATTTT
126665794 GATATAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (11 bp):
AATTTTAATGT
Found at i:126667328 original size:6 final size:6
Alignment explanation
Indices: 126667317--126667374 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
126667307 ACCAGCTCCG
* * * *
126667317 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCG GAGGCA GTGCCG
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA
*
126667365 GACCCA GAGC
1 GAGCCA GAGC
126667375 GGCGGCCAGA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.28, C:0.33, G:0.38, T:0.02
Consensus pattern (6 bp):
GAGCCA
Found at i:126667552 original size:33 final size:33
Alignment explanation
Indices: 126667510--126667594 Score: 116
Period size: 33 Copynumber: 2.6 Consensus size: 33
126667500 CCACATCTGC
126667510 ACTCTACTCCTCCCGGCTCATATCCACCACCGT
1 ACTCTACTCCTCCCGGCTCATATCCACCACCGT
* * * *
126667543 ACTCTACTCCTCCTGGCCCATATCCAGCGCCGT
1 ACTCTACTCCTCCCGGCTCATATCCACCACCGT
* *
126667576 TCTCTACTCCACCCGGCTC
1 ACTCTACTCCTCCCGGCTC
126667595 GAGTTCATCA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.15, C:0.48, G:0.12, T:0.25
Consensus pattern (33 bp):
ACTCTACTCCTCCCGGCTCATATCCACCACCGT
Found at i:126671568 original size:27 final size:27
Alignment explanation
Indices: 126671530--126671589 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
126671520 AGGGGAGTCG
126671530 CGCCTCTGCAGCAGGAGCGACTGGTCA
1 CGCCTCTGCAGCAGGAGCGACTGGTCA
*
126671557 CGCCTCTGCAGCAGGAGCGACTGGTCG
1 CGCCTCTGCAGCAGGAGCGACTGGTCA
126671584 CGCCTC
1 CGCCTC
126671590 CGGGTCTGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (27 bp):
CGCCTCTGCAGCAGGAGCGACTGGTCA
Found at i:126671688 original size:18 final size:17
Alignment explanation
Indices: 126671657--126671696 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
126671647 AAAATATAAT
126671657 AAAATAATAATATTTAAA
1 AAAATAATAATA-TTAAA
* *
126671675 AAAATTATATTATTAAA
1 AAAATAATAATATTAAA
126671692 AAAAT
1 AAAAT
126671697 GGGTCGCGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATAATAATATTAAA
Found at i:126673135 original size:33 final size:32
Alignment explanation
Indices: 126673077--126673144 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
126673067 CCTATAATAT
*
126673077 TTTTAATTTTTTAAAATTATTTATATTATATTA
1 TTTTAATTATTTAAAATTATTTATATT-TATTA
*
126673110 TTTTAA-TATTTAATAATT-TTATATATTTTTTA
1 TTTTAATTATTTAA-AATTATT-TATATTTATTA
126673142 TTT
1 TTT
126673145 ATTGAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (32 bp):
TTTTAATTATTTAAAATTATTTATATTTATTA
Found at i:126674637 original size:30 final size:30
Alignment explanation
Indices: 126674591--126674647 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
126674581 TAATATTAAG
*
126674591 TAAAAAATTAATATGA-TTATCAAACACAT
1 TAAAAAATCAATATGATTTATCAAACACAT
*
126674620 TAAAAAATCAATAATGATTTTTCAAACA
1 TAAAAAATCAAT-ATGATTTATCAAACA
126674648 TACCCTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.46
30 4 0.17
31 9 0.38
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.32
Consensus pattern (30 bp):
TAAAAAATCAATATGATTTATCAAACACAT
Found at i:126676673 original size:31 final size:30
Alignment explanation
Indices: 126676616--126676676 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
126676606 TTTATTTTTT
* *
126676616 AATTAAATTTTACTTTTAATTTTTAAAAAA
1 AATTAAATTTAACTATTAATTTTTAAAAAA
*
126676646 AATTAAATTTAACTATTAATTTTTTAAAAA
1 AATTAAATTTAACTATTAATTTTTAAAAAA
126676676 A
1 A
126676677 GTCGAGTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (30 bp):
AATTAAATTTAACTATTAATTTTTAAAAAA
Found at i:126682867 original size:21 final size:20
Alignment explanation
Indices: 126682841--126682952 Score: 84
Period size: 21 Copynumber: 5.4 Consensus size: 20
126682831 TAAAATTCTC
126682841 AACTTAAACTCTAAAACTTA
1 AACTTAAACTCTAAAACTTA
* * *
126682861 AATCTTAAACTATAAATCCTA
1 AA-CTTAAACTCTAAAACTTA
** *
126682882 AACTCTAATGT-TAAAAACCTA
1 AACT-TAAACTCT-AAAACTTA
*
126682903 AACTTAAACTCTAAAATTTA
1 AACTTAAACTCTAAAACTTA
*
126682923 AATCTTAAA-TCTTAAACTATA
1 AA-CTTAAACTCTAAAACT-TA
126682944 AACCTTAAA
1 AA-CTTAAA
126682953 ATTTAAATAA
Statistics
Matches: 73, Mismatches: 13, Indels: 11
0.75 0.13 0.11
Matches are distributed among these distances:
20 24 0.33
21 49 0.67
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.32
Consensus pattern (20 bp):
AACTTAAACTCTAAAACTTA
Found at i:126682950 original size:14 final size:12
Alignment explanation
Indices: 126682841--126682952 Score: 53
Period size: 14 Copynumber: 8.2 Consensus size: 12
126682831 TAAAATTCTC
126682841 AACTTAAACTCTAA
1 AACTTAAACT-T-A
126682855 AACTTAAATCTTA
1 AACTTAAA-CTTA
*
126682868 AACTATAAATCCTA
1 AACT-TAAA-CTTA
**
126682882 AACTCTAATGTTAAA
1 AACT-TAAACTT--A
*
126682897 AACCTAAACTTA
1 AACTTAAACTTA
*
126682909 AACTCTAAAATTTA
1 AACT-T-AAACTTA
126682923 AATCTTAAATCTTA
1 AA-CTTAAA-CTTA
126682937 AACTATAAACCTTA
1 AACT-TAAA-CTTA
126682951 AA
1 AA
126682953 ATTTAAATAA
Statistics
Matches: 77, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
12 4 0.05
13 12 0.16
14 53 0.69
15 8 0.10
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.32
Consensus pattern (12 bp):
AACTTAAACTTA
Found at i:126682951 original size:28 final size:28
Alignment explanation
Indices: 126682901--126682960 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
126682891 GTTAAAAACC
* *
126682901 TAAA-CTTAAACTCTAAAA-TTTAAATCT
1 TAAATCTTAAACTATAAAACTTAAAAT-T
*
126682928 TAAATCTTAAACTATAAACCTTAAAATT
1 TAAATCTTAAACTATAAAACTTAAAATT
126682956 TAAAT
1 TAAAT
126682961 AATAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 4 0.14
28 18 0.64
29 6 0.21
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (28 bp):
TAAATCTTAAACTATAAAACTTAAAATT
Found at i:126685299 original size:9 final size:9
Alignment explanation
Indices: 126685233--126685283 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 9
126685223 ACCACATGGG
126685233 TAAAAATAA
1 TAAAAATAA
126685242 -AAAAA-AA
1 TAAAAATAA
*
126685249 TCATAAAATCA
1 T-A-AAAATAA
126685260 TATAAAATAA
1 TA-AAAATAA
126685270 TAAAAATAA
1 TAAAAATAA
126685279 TAAAA
1 TAAAA
126685284 GGTATTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
7 2 0.06
8 5 0.14
9 13 0.36
10 14 0.39
11 2 0.06
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAAAATAA
Found at i:126686803 original size:19 final size:19
Alignment explanation
Indices: 126686678--126686831 Score: 67
Period size: 19 Copynumber: 8.2 Consensus size: 19
126686668 TATTATAATT
126686678 TTTTA-AAA-TTTTAA-AA
1 TTTTACAAATTTTTAATAA
* **
126686694 TTCTTATAAATTTCAAATAA
1 TT-TTACAAATTTTTAATAA
*
126686714 TTCTTAC-ATTTTTTAATCAA
1 TT-TTACAAATTTTTAAT-AA
* *
126686734 -TTTA-AATTTTTTAAATGA
1 TTTTACAAATTTTT-AATAA
126686752 TTTT-CACAATTGTTTAA-AA
1 TTTTACA-AATT-TTTAATAA
* **
126686771 TTTTATTATTTTTTTAATAA
1 TTTTA-CAAATTTTTAATAA
126686791 TTTTACAAATTTTTAAT-A
1 TTTTACAAATTTTTAATAA
* *
126686809 TGTT-CAAATATTTTTATAA
1 TTTTACAAAT-TTTTAATAA
126686828 TTTT
1 TTTT
126686832 TAATAAGTCT
Statistics
Matches: 104, Mismatches: 18, Indels: 29
0.69 0.12 0.19
Matches are distributed among these distances:
16 2 0.02
17 8 0.08
18 24 0.23
19 42 0.40
20 24 0.23
21 4 0.04
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTACAAATTTTTAATAA
Found at i:126687346 original size:63 final size:63
Alignment explanation
Indices: 126687127--126687536 Score: 357
Period size: 64 Copynumber: 6.5 Consensus size: 63
126687117 ATATATCTCA
* *
126687127 TGGTTTTTGTTTGTAATGCTTTTGGGTGTTTAGGCTTTACTCCTTTTTG-TTTGCAGACAACAG
1 TGGTTTTCGTTTGTAATGCTTTTGGGTGTTTAGGGTTTACT-CTTTTTGATTTGCAGACAACAG
* * * * * * * * * *
126687190 TGGTTTTCGCTTGTTATTCCTTTGGGTGTTTAGGGTTTCATTGCTTTCT-AATTGAAGACAATAC
1 TGGTTTTCGTTTGTAATGCTTTTGGGTGTTTAGGGTTT-ACT-CTTTTTGATTTGCAGACAACAG
* * *
126687254 TGGTCTTT-GTTTGTAATGCTTTTGAGTGTTTGGGGCTTACTCTTTTTGATTTGCAGACAACAG
1 TGGT-TTTCGTTTGTAATGCTTTTGGGTGTTTAGGGTTTACTCTTTTTGATTTGCAGACAACAG
* * * * * * * * *
126687317 TGGTTTTCGTTTGTTATTCCTTTGGGTGTTTAGGGTTTCATTTCTTTCTCA-TTGAAGACAATAC
1 TGGTTTTCGTTTGTAATGCTTTTGGGTGTTTAGGGTTT-A-CTCTTTTTGATTTGCAGACAACAG
* * * *
126687381 TGGTATTT-GTTTGTAATGCTTTTGAGTGTTTGGGGTTTACTCTTTTTTATTTGCATACAACAG
1 TGGT-TTTCGTTTGTAATGCTTTTGGGTGTTTAGGGTTTACTCTTTTTGATTTGCAGACAACAG
* * * * * *
126687444 TGGCTTTCGTTTGTTATGCTTTTGGGTGTTTAGGGTTTCATTGCTTTCTCA-TTGAAGACAACAG
1 TGGTTTTCGTTTGTAATGCTTTTGGGTGTTTAGGGTTT-ACT-CTTTTTGATTTGCAGACAACAG
* *
126687508 TGGTCTTT-GTTTGTATTGCTTTTCGGTGT
1 TGGT-TTTCGTTTGTAATGCTTTTGGGTGT
126687537 AGCCCGGTTT
Statistics
Matches: 271, Mismatches: 63, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
62 18 0.07
63 113 0.42
64 118 0.44
65 22 0.08
ACGTcount: A:0.15, C:0.13, G:0.23, T:0.49
Consensus pattern (63 bp):
TGGTTTTCGTTTGTAATGCTTTTGGGTGTTTAGGGTTTACTCTTTTTGATTTGCAGACAACAG
Found at i:126687358 original size:127 final size:127
Alignment explanation
Indices: 126687127--126687530 Score: 632
Period size: 127 Copynumber: 3.2 Consensus size: 127
126687117 ATATATCTCA
* * *
126687127 TGGTTTTTGTTTGTAATGCTTTTGGGTGTTT-AGGCTTTACTCCTTTTTG-TTTGCAGACAACAG
1 TGGTCTTTGTTTGTAATGCTTTTGAGTGTTTGGGGC-TTACT-CTTTTTGATTTGCAGACAACAG
* *
126687190 TGGTTTTCGCTTGTTATTCCTTTGGGTGTTTAGGGTTTCATTGCTTTCTAATTGAAGACAATAC
64 TGGTTTTCGTTTGTTATTCCTTTGGGTGTTTAGGGTTTCATTGCTTTCTCATTGAAGACAATAC
126687254 TGGTCTTTGTTTGTAATGCTTTTGAGTGTTTGGGGCTTACTCTTTTTGATTTGCAGACAACAGTG
1 TGGTCTTTGTTTGTAATGCTTTTGAGTGTTTGGGGCTTACTCTTTTTGATTTGCAGACAACAGTG
*
126687319 GTTTTCGTTTGTTATTCCTTTGGGTGTTTAGGGTTTCATTTCTTTCTCATTGAAGACAATAC
66 GTTTTCGTTTGTTATTCCTTTGGGTGTTTAGGGTTTCATTGCTTTCTCATTGAAGACAATAC
* * * *
126687381 TGGTATTTGTTTGTAATGCTTTTGAGTGTTTGGGGTTTACTCTTTTTTATTTGCATACAACAGTG
1 TGGTCTTTGTTTGTAATGCTTTTGAGTGTTTGGGGCTTACTCTTTTTGATTTGCAGACAACAGTG
* * * * *
126687446 GCTTTCGTTTGTTATGCTTTTGGGTGTTTAGGGTTTCATTGCTTTCTCATTGAAGACAACAG
66 GTTTTCGTTTGTTATTCCTTTGGGTGTTTAGGGTTTCATTGCTTTCTCATTGAAGACAATAC
*
126687508 TGGTCTTTGTTTGTATTGCTTTT
1 TGGTCTTTGTTTGTAATGCTTTT
126687531 CGGTGTAGCC
Statistics
Matches: 257, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
126 7 0.03
127 247 0.96
128 3 0.01
ACGTcount: A:0.15, C:0.13, G:0.23, T:0.49
Consensus pattern (127 bp):
TGGTCTTTGTTTGTAATGCTTTTGAGTGTTTGGGGCTTACTCTTTTTGATTTGCAGACAACAGTG
GTTTTCGTTTGTTATTCCTTTGGGTGTTTAGGGTTTCATTGCTTTCTCATTGAAGACAATAC
Found at i:126690566 original size:55 final size:55
Alignment explanation
Indices: 126690476--126690585 Score: 170
Period size: 55 Copynumber: 2.0 Consensus size: 55
126690466 TCCAGAATAT
* *
126690476 TGTAACACCGCTTTAACCCCAAATCGTCGTTGAAATAGGGTTACGAGGCATTACC
1 TGTAACACCGCTTTAACCCCAAACCGTCGTCGAAATAGGGTTACGAGGCATTACC
126690531 TGTAACACC-CTTTTAACCCCAAACCGTC-TCCGAAATAGGGTTACGAGGCATTACC
1 TGTAACACCGC-TTTAACCCCAAACCGTCGT-CGAAATAGGGTTACGAGGCATTACC
126690586 AGACATATCA
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
54 2 0.04
55 49 0.96
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (55 bp):
TGTAACACCGCTTTAACCCCAAACCGTCGTCGAAATAGGGTTACGAGGCATTACC
Found at i:126694821 original size:15 final size:15
Alignment explanation
Indices: 126694801--126694830 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
126694791 TAATTTAATC
126694801 AATTATGTTTGAAAT
1 AATTATGTTTGAAAT
126694816 AATTATGTTTGAAAT
1 AATTATGTTTGAAAT
126694831 GTTACGCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (15 bp):
AATTATGTTTGAAAT
Found at i:126696397 original size:19 final size:19
Alignment explanation
Indices: 126696375--126696428 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 19
126696365 ATTTTTTTAA
126696375 AAAAATATTATAATTTTTT
1 AAAAATATTATAATTTTTT
126696394 AAAAATA-TA-AA-TTTTT
1 AAAAATATTATAATTTTTT
* *
126696410 ATAAATATTTTGAATTTTT
1 AAAAATATTAT-AATTTTT
126696429 GAACCTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
16 11 0.38
17 3 0.10
18 2 0.07
19 9 0.31
20 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
AAAAATATTATAATTTTTT
Found at i:126696408 original size:17 final size:20
Alignment explanation
Indices: 126696368--126696414 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 20
126696358 TTCTTTAATT
*
126696368 TTTTTAAAAAAATATTATAA
1 TTTTTATAAAAATATTATAA
126696388 TTTTT-TAAAAATA-TA-AA
1 TTTTTATAAAAATATTATAA
126696405 TTTTTATAAA
1 TTTTTATAAA
126696415 TATTTTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 7 0.28
20 5 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTTATAAAAATATTATAA
Found at i:126696982 original size:29 final size:29
Alignment explanation
Indices: 126696924--126696982 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
126696914 TCCACCTTGA
* * *
126696924 CACGAATTCTCAACAAACAAGTTTTTCAC
1 CACGAACTCTCAACAAACAAGTTCTCCAC
*
126696953 CACGAACTCTCAACGAACAAGTTCTCCAC
1 CACGAACTCTCAACAAACAAGTTCTCCAC
126696982 C
1 C
126696983 TTTTCCACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.34, G:0.08, T:0.22
Consensus pattern (29 bp):
CACGAACTCTCAACAAACAAGTTCTCCAC
Found at i:126702544 original size:2 final size:2
Alignment explanation
Indices: 126702537--126702573 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
126702527 GACATTTAAA
126702537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
126702574 GAAATTGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:126709673 original size:19 final size:19
Alignment explanation
Indices: 126709651--126709693 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
126709641 AATATAACCT
*
126709651 TAAATTTTC-AAAATATTTA
1 TAAAATTTCTAAAAT-TTTA
126709670 TAAAATTTCTAAAATTTTA
1 TAAAATTTCTAAAATTTTA
126709689 TAAAA
1 TAAAA
126709694 ATTTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAATTTCTAAAATTTTA
Found at i:126709702 original size:19 final size:20
Alignment explanation
Indices: 126709651--126709702 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
126709641 AATATAACCT
*
126709651 TAAATTTTC-AAAATATTTA
1 TAAAATTTCAAAAATATTTA
*
126709670 TAAAATTTCTAAAAT-TTTA
1 TAAAATTTCAAAAATATTTA
126709689 TAAAAATTT-AAAAA
1 T-AAAATTTCAAAAA
126709703 AAAAAGGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAATTTCAAAAATATTTA
Found at i:126710098 original size:44 final size:44
Alignment explanation
Indices: 126710049--126710134 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 44
126710039 AATAAAACTC
* *
126710049 GTCAACTTGATTAACTCAAATATTTTTTATTCGAGTCAATTCTT
1 GTCAACTTGACTAACTCAAATATTTTTTATTCGAATCAATTCTT
126710093 GTCAACTTGACTAACTCAAATATTTTTTATTCGAATCAATTC
1 GTCAACTTGACTAACTCAAATATTTTTTATTCGAATCAATTC
126710135 AATTCAATCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.43
Consensus pattern (44 bp):
GTCAACTTGACTAACTCAAATATTTTTTATTCGAATCAATTCTT
Found at i:126711369 original size:5 final size:5
Alignment explanation
Indices: 126711359--126711384 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
126711349 AACAACATAT
126711359 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
126711385 ATCATAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:126725054 original size:15 final size:15
Alignment explanation
Indices: 126725030--126725059 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
126725020 TTTGACTGAG
126725030 AGAGGGGGAGGAGAA
1 AGAGGGGGAGGAGAA
*
126725045 AGAGGTGGAGGAGAA
1 AGAGGGGGAGGAGAA
126725060 GGGCAGAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.57, T:0.03
Consensus pattern (15 bp):
AGAGGGGGAGGAGAA
Found at i:126730172 original size:212 final size:212
Alignment explanation
Indices: 126729901--126730295 Score: 632
Period size: 212 Copynumber: 1.9 Consensus size: 212
126729891 GAGATGATTT
* *
126729901 AAAAATAAAAGAATTATCCACTCACTCAGCGGCTTTGCATTCCTTATTTTTCTTACTAGTCTTCT
1 AAAAATAAAAGAATAATCCACTCACTCAGCGGCTTTGCATTCCTGATTTTTCTTACTAGTCTTCT
* *
126729966 CTCCTTTATTTAAGGTTGAATCAAAATCAAAATCATCCAACCTGCAACAGATACAATATACAGGC
66 CTCCTTTATTCAAGGCTGAATCAAAATCAAAATCATCCAACCTGCAACAGATACAATATACAGGC
* *
126730031 TAACAAAT-AAAAAATGAATGTGAAGTTGACTTGCATG-TCCAGTAAACAATTTCAAAGCAAAAG
131 TAACAAATAAAAAAATGAATGTGAAGTGGAC-T-CATGATCCAATAAACAATTTCAAAGCAAAAG
126730094 ATTGTACATGAGATAACTG
194 ATTGTACATGAGATAACTG
* * *
126730113 AAAAATAAAAGAATAATCCACTCACTCAGCGTCTTTGCTTTCCTGGTTTTTCTTACTAGTCTTCT
1 AAAAATAAAAGAATAATCCACTCACTCAGCGGCTTTGCATTCCTGATTTTTCTTACTAGTCTTCT
* * *
126730178 CTCCTTTATTCAGGGCTGAATCAAAATCAAAATCATCCAACCTGCAACAGATCCAATGTACAGGC
66 CTCCTTTATTCAAGGCTGAATCAAAATCAAAATCATCCAACCTGCAACAGATACAATATACAGGC
*
126730243 TAACAAATAAAAAAATGACTGTGAAGTGGACTCATGCATCCAATAAACAATTT
131 TAACAAATAAAAAAATGAATGTGAAGTGGACTCATG-ATCCAATAAACAATTT
126730296 TAAAACATGA
Statistics
Matches: 167, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
211 4 0.02
212 129 0.77
213 34 0.20
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (212 bp):
AAAAATAAAAGAATAATCCACTCACTCAGCGGCTTTGCATTCCTGATTTTTCTTACTAGTCTTCT
CTCCTTTATTCAAGGCTGAATCAAAATCAAAATCATCCAACCTGCAACAGATACAATATACAGGC
TAACAAATAAAAAAATGAATGTGAAGTGGACTCATGATCCAATAAACAATTTCAAAGCAAAAGAT
TGTACATGAGATAACTG
Found at i:126744870 original size:2 final size:2
Alignment explanation
Indices: 126744865--126744891 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
126744855 TCTCTCTTAA
126744865 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
126744892 AAACAATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:126745998 original size:27 final size:23
Alignment explanation
Indices: 126745957--126746009 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 23
126745947 ATCTTTAATA
126745957 TAATAATTTATATTTATATATTTT
1 TAATAATTTATATTTATA-ATTTT
*
126745981 TAATAATTTCAATGATTTTTAATTTT
1 TAATAATTT--AT-ATTTATAATTTT
126746007 TAA
1 TAA
126746010 AAATAGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 9 0.36
26 10 0.40
27 6 0.24
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TAATAATTTATATTTATAATTTT
Found at i:126747833 original size:21 final size:21
Alignment explanation
Indices: 126747781--126747833 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
126747771 ATTTTTATTT
126747781 AATTTTAATTATAAAATATATA
1 AATTTTAA-TATAAAATATATA
* *
126747803 AATATCAATATAAAATGATAT-
1 AATTTTAATATAAAAT-ATATA
*
126747824 ATTTTTAATA
1 AATTTTAATA
126747834 ATTTATTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
AATTTTAATATAAAATATATA
Found at i:126749744 original size:13 final size:13
Alignment explanation
Indices: 126749723--126749757 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
126749713 GATTCATTCT
*
126749723 AATAGATACCTTA
1 AATATATACCTTA
126749736 AATATATACCTTA
1 AATATATACCTTA
*
126749749 AATTTATAC
1 AATATATAC
126749758 ATAATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (13 bp):
AATATATACCTTA
Found at i:126751759 original size:2 final size:2
Alignment explanation
Indices: 126751747--126751781 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
126751737 AATATCTACT
*
126751747 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
126751782 CTTTCTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:126752818 original size:12 final size:12
Alignment explanation
Indices: 126752801--126752825 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
126752791 TGTACTAGAC
126752801 TGTTTTTTTTTT
1 TGTTTTTTTTTT
126752813 TGTTTTTTTTTT
1 TGTTTTTTTTTT
126752825 T
1 T
126752826 TAATTTTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TGTTTTTTTTTT
Found at i:126759759 original size:2 final size:2
Alignment explanation
Indices: 126759754--126759778 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
126759744 TCCATAAAAA
126759754 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
126759779 AACAAACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:126762131 original size:12 final size:12
Alignment explanation
Indices: 126762110--126762147 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
126762100 GAAATACATA
126762110 TTATATTAATTT
1 TTATATTAATTT
* *
126762122 TTATAATAA-TA
1 TTATATTAATTT
126762133 TTATATTAATTT
1 TTATATTAATTT
126762145 TTA
1 TTA
126762148 CAAATTTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATATTAATTT
Found at i:126762133 original size:23 final size:24
Alignment explanation
Indices: 126762102--126762147 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
126762092 TGCCCAATGA
126762102 AATACATATTATATTAATTTTTAT
1 AATACATATTATATTAATTTTTAT
126762126 AATA-ATATTATATTAATTTTTA
1 AATACATATTATATTAATTTTTA
126762148 CAAATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
AATACATATTATATTAATTTTTAT
Found at i:126762283 original size:27 final size:27
Alignment explanation
Indices: 126762253--126762304 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
126762243 TTAAAAGATG
126762253 AGTATTTTCATCAATATCTTTTGAATA
1 AGTATTTTCATCAATATCTTTTGAATA
*
126762280 AGTATTTTCATCAATTTCTTTTGAA
1 AGTATTTTCATCAATATCTTTTGAA
126762305 AACAAGTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.50
Consensus pattern (27 bp):
AGTATTTTCATCAATATCTTTTGAATA
Found at i:126771583 original size:17 final size:19
Alignment explanation
Indices: 126771563--126771608 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
126771553 TTAAAATAGT
*
126771563 AACAAAATTA-ACAATAA-
1 AACAAAATAATACAATAAC
*
126771580 AACAAGAGTAATACAATAAC
1 AACAA-AATAATACAATAAC
126771600 AACAAAATA
1 AACAAAATA
126771609 GTAGCAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 10 0.43
20 5 0.22
ACGTcount: A:0.67, C:0.13, G:0.04, T:0.15
Consensus pattern (19 bp):
AACAAAATAATACAATAAC
Found at i:126772009 original size:19 final size:19
Alignment explanation
Indices: 126771972--126772009 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
126771962 TCAAGAAATT
*
126771972 TTAATTAAAATATATAAAA
1 TTAATTAAAATATAAAAAA
126771991 TTAATTATAAAT-TAAAAAA
1 TTAATTA-AAATATAAAAAA
126772010 AAAGACTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TTAATTAAAATATAAAAAA
Found at i:126782328 original size:28 final size:28
Alignment explanation
Indices: 126782296--126782352 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
126782286 AAGAAGTTAA
126782296 TGGTAAATACCTCAATTAATTCACTGAT
1 TGGTAAATACCTCAATTAATTCACTGAT
126782324 TGGTAAATACCTCAATTAATTCACTGAT
1 TGGTAAATACCTCAATTAATTCACTGAT
126782352 T
1 T
126782353 CAACATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.37
Consensus pattern (28 bp):
TGGTAAATACCTCAATTAATTCACTGAT
Found at i:126787431 original size:38 final size:38
Alignment explanation
Indices: 126787389--126787469 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
126787379 TGGACATTAG
*
126787389 AAATTAAAGCATATTCCTAGAGAAGAAAATAAACTTGT
1 AAATTAAAGAATATTCCTAGAGAAGAAAATAAACTTGT
****
126787427 AAATTTCTTAATATTCCTAGAGAAGAAAATAAACTTGT
1 AAATTAAAGAATATTCCTAGAGAAGAAAATAAACTTGT
126787465 AAATT
1 AAATT
126787470 TCTTAGTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (38 bp):
AAATTAAAGAATATTCCTAGAGAAGAAAATAAACTTGT
Found at i:126787470 original size:38 final size:38
Alignment explanation
Indices: 126787399--126787474 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
126787389 AAATTAAAGC
126787399 ATATTCCTAGAGAAGAAAATAAACTTGTAAATTTCTTA
1 ATATTCCTAGAGAAGAAAATAAACTTGTAAATTTCTTA
126787437 ATATTCCTAGAGAAGAAAATAAACTTGTAAATTTCTTA
1 ATATTCCTAGAGAAGAAAATAAACTTGTAAATTTCTTA
126787475 GTTAAGATGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (38 bp):
ATATTCCTAGAGAAGAAAATAAACTTGTAAATTTCTTA
Found at i:126793079 original size:14 final size:14
Alignment explanation
Indices: 126793060--126793092 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
126793050 AATTACTATA
126793060 ATAGGACAGAAAAT
1 ATAGGACAGAAAAT
126793074 ATAGGACAGAAAAT
1 ATAGGACAGAAAAT
126793088 ATAGG
1 ATAGG
126793093 TCACTTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.55, C:0.06, G:0.24, T:0.15
Consensus pattern (14 bp):
ATAGGACAGAAAAT
Found at i:126793349 original size:59 final size:59
Alignment explanation
Indices: 126793285--126793402 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
126793275 GGTAACCAAA
126793285 ACGAGTGCCTTTAGCAAAACTAATTAATATTACCATGATCTTTGCCATTAGAATGAGTG
1 ACGAGTGCCTTTAGCAAAACTAATTAATATTACCATGATCTTTGCCATTAGAATGAGTG
*
126793344 ACGAGTGCCTTTAGCAAAAGTAATTAATATTACCATGATCTTTGCCATTAGAATGAGTG
1 ACGAGTGCCTTTAGCAAAACTAATTAATATTACCATGATCTTTGCCATTAGAATGAGTG
126793403 CAGTTGAAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (59 bp):
ACGAGTGCCTTTAGCAAAACTAATTAATATTACCATGATCTTTGCCATTAGAATGAGTG
Found at i:126795399 original size:122 final size:122
Alignment explanation
Indices: 126795180--126795407 Score: 305
Period size: 122 Copynumber: 1.9 Consensus size: 122
126795170 CTAATGTTAT
* * *
126795180 ATGAGGCAATCTAATCAACATGTCATGACAAATTTTGGTAGAAAATACTAATAATGTTACATGGA
1 ATGAGGCAATCTAATCAACATCTCATGACAAAATTTGGCAGAAAATACTAATAATGTTACATGGA
* * * *
126795245 TTACATTTTCAATTTTGTCCAAGTACAAGGACTAAAAAAACATTTATGCAATATGAA
66 CTAAATTTTAAAGTTTGTCCAAGTACAAGGACTAAAAAAACATTTATGCAATATGAA
* * * * *
126795302 ATGAGGCAGTGTAATTAACATCTCATGGCAAAATTTGGCAGAAAATACTAATGATGTTACA-GGA
1 ATGAGGCAATCTAATCAACATCTCATGACAAAATTTGGCAGAAAATACTAATAATGTTACATGG-
* * *
126795366 ACTAAATTTTAAAGTTTGTCTAAGTACAGGGACTAACAAAAC
65 ACTAAATTTTAAAGTTTGTCCAAGTACAAGGACTAAAAAAAC
126795408 GTTTTAACCT
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
121 2 0.02
122 88 0.98
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.29
Consensus pattern (122 bp):
ATGAGGCAATCTAATCAACATCTCATGACAAAATTTGGCAGAAAATACTAATAATGTTACATGGA
CTAAATTTTAAAGTTTGTCCAAGTACAAGGACTAAAAAAACATTTATGCAATATGAA
Found at i:126798183 original size:2 final size:2
Alignment explanation
Indices: 126798178--126798219 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
126798168 ACACACATAC
* *
126798178 AT AT AT AT AA AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
126798220 CTTCATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:126800738 original size:16 final size:16
Alignment explanation
Indices: 126800708--126800778 Score: 88
Period size: 16 Copynumber: 4.4 Consensus size: 16
126800698 GTTTGGTTCA
*
126800708 CTGTAATGAAATAGAG
1 CTGTAATGGAATAGAG
* *
126800724 CTGCAATTGAATAGAG
1 CTGTAATGGAATAGAG
* *
126800740 CTGTAATGGAATAAAA
1 CTGTAATGGAATAGAG
126800756 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
126800772 TTGTAAT
1 CTGTAAT
126800779 CAGTAATTCA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:126801036 original size:58 final size:58
Alignment explanation
Indices: 126800957--126801079 Score: 176
Period size: 58 Copynumber: 2.1 Consensus size: 58
126800947 TTTTAATAAG
* * *
126800957 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTACTAAAAATAATTTAAT-AAAATAATAAATAATTTAATAAAATTCTTAACATA
* * *
126801015 ATTATTACTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTACTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
126801073 ATTATTA
1 ATTATTA
126801080 TTATATGAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 23 0.40
58 35 0.60
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (58 bp):
ATTATTACTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
Found at i:126802178 original size:2 final size:2
Alignment explanation
Indices: 126802171--126802200 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
126802161 GCATTAATAC
126802171 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
126802201 TTCTCCAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126805964 original size:49 final size:49
Alignment explanation
Indices: 126805890--126806098 Score: 350
Period size: 49 Copynumber: 4.3 Consensus size: 49
126805880 CCCTTCGGGA
* * * * *
126805890 CTTATCACAT-T-TACACACTTCCACATCCATCACGTTGGCCACTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
126805937 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
126805986 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
126806035 CTTATCACATATATACACACTTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
126806084 CTTATCACATATATA
1 CTTATCACATATATA
126806099 TATCTCATAC
Statistics
Matches: 154, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 10 0.06
48 1 0.01
49 143 0.93
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:126809649 original size:14 final size:14
Alignment explanation
Indices: 126809630--126809676 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
126809620 TAGATTTTAA
126809630 AATTATATAATATT
1 AATTATATAATATT
126809644 AA-T-TATAATCA-T
1 AATTATATAAT-ATT
*
126809656 ATTTATATAATATT
1 AATTATATAATATT
126809670 AATTATA
1 AATTATA
126809677 ATCATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 8 0.30
13 4 0.15
14 15 0.56
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
AATTATATAATATT
Found at i:126809662 original size:26 final size:26
Alignment explanation
Indices: 126809632--126809693 Score: 115
Period size: 26 Copynumber: 2.3 Consensus size: 26
126809622 GATTTTAAAA
126809632 TTATATAATATTAATTATAATCATAT
1 TTATATAATATTAATTATAATCATAT
126809658 TTATATAATATTAATTATAATCATAT
1 TTATATAATATTAATTATAATCATAT
126809684 TTATAATAAT
1 TTAT-ATAAT
126809694 TATAAGTTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 30 0.86
27 5 0.14
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (26 bp):
TTATATAATATTAATTATAATCATAT
Found at i:126812859 original size:20 final size:20
Alignment explanation
Indices: 126812834--126812885 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
126812824 AGATAGGGGC
* * *
126812834 ACATGCCCGTGTGGCTTGGG
1 ACATGCCCGTGTGGCCTAGA
126812854 ACATGCCCGTGTGGCCTAGA
1 ACATGCCCGTGTGGCCTAGA
126812874 ACATGCCCGTGT
1 ACATGCCCGTGT
126812886 CCTGCGGCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.29, G:0.33, T:0.23
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTAGA
Found at i:126813145 original size:18 final size:21
Alignment explanation
Indices: 126813120--126813162 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
126813110 ACCTAAAAAT
126813120 TTTC-AACC-AAACAA-T-TA
1 TTTCAAACCAAAACAAGTATA
126813137 TTTCAAACCAAAACAAGTATA
1 TTTCAAACCAAAACAAGTATA
126813158 TTTCA
1 TTTCA
126813163 TTTTCCAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.18
18 4 0.18
19 6 0.27
20 1 0.05
21 7 0.32
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (21 bp):
TTTCAAACCAAAACAAGTATA
Found at i:126813716 original size:46 final size:47
Alignment explanation
Indices: 126813660--126813748 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 47
126813650 TACATCACAC
* *
126813660 ACCGAAGCCATAGCCCTGCCATAGTCTTATACGG-ATCACATATCAT
1 ACCGAAGCCATAGCCCAGACATAGTCTTATACGGAATCACATATCAT
* * * *
126813706 ACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATA
1 ACCGAAGCCATAGCCCAGACATAGTCTTATACGGAATCACATA
126813749 ATCACATTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 28 0.78
47 8 0.22
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (47 bp):
ACCGAAGCCATAGCCCAGACATAGTCTTATACGGAATCACATATCAT
Found at i:126815184 original size:23 final size:23
Alignment explanation
Indices: 126815154--126815199 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
126815144 GGTGTATGAG
126815154 AACCAATTTTTAATAGTAAAACT
1 AACCAATTTTTAATAGTAAAACT
126815177 AACCAATTTTTAATAGTAAAACT
1 AACCAATTTTTAATAGTAAAACT
126815200 GACTCCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (23 bp):
AACCAATTTTTAATAGTAAAACT
Found at i:126819019 original size:28 final size:28
Alignment explanation
Indices: 126818982--126819038 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
126818972 TTCATAGTCC
126818982 TAATCTTAATTTGATGCAGAGGTGATAA
1 TAATCTTAATTTGATGCAGAGGTGATAA
126819010 TAATCTTAATTTGATGCAGAGGTGATAA
1 TAATCTTAATTTGATGCAGAGGTGATAA
126819038 T
1 T
126819039 GGGCCGAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (28 bp):
TAATCTTAATTTGATGCAGAGGTGATAA
Found at i:126819233 original size:16 final size:15
Alignment explanation
Indices: 126819196--126819235 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
126819186 ATTTATATCA
126819196 TTTTATTTTAATATT
1 TTTTATTTTAATATT
*
126819211 TAATTATTTTATATATT
1 T-TTTATTTTA-ATATT
126819228 TTTTATTT
1 TTTTATTT
126819236 ATTGAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.67
17 6 0.29
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATTTTAATATT
Found at i:126820543 original size:3 final size:3
Alignment explanation
Indices: 126820537--126820565 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
126820527 ATAACAACAA
126820537 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
126820566 AAGAAAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:126822338 original size:1 final size:1
Alignment explanation
Indices: 126822332--126822376 Score: 63
Period size: 1 Copynumber: 45.0 Consensus size: 1
126822322 TTTAAAATGA
** *
126822332 TTTTTTTTCGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
126822377 GGAATCAACT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.02, G:0.04, T:0.93
Consensus pattern (1 bp):
T
Found at i:126822963 original size:17 final size:17
Alignment explanation
Indices: 126822938--126822977 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
126822928 TAATAAGTAT
126822938 ATTTATTAAATAAATTTA
1 ATTT-TTAAATAAATTTA
* *
126822956 ATTTTTAAATTATTTTA
1 ATTTTTAAATAAATTTA
126822973 ATTTT
1 ATTTT
126822978 AGTATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTTAAATAAATTTA
Found at i:126833254 original size:23 final size:23
Alignment explanation
Indices: 126833189--126833254 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
126833179 TAAAATAATA
126833189 TTATTATATTTTAAATAATATTC
1 TTATTATATTTTAAATAATATTC
* *
126833212 TTAATATATTTTTGAA-AATATT-
1 TTATTATA-TTTTAAATAATATTC
126833234 TATATTCATATTTT-AATAATA
1 T-TATT-ATATTTTAAATAATA
126833255 AATATATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 3 0.08
23 24 0.67
24 9 0.25
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (23 bp):
TTATTATATTTTAAATAATATTC
Found at i:126833972 original size:3 final size:3
Alignment explanation
Indices: 126833964--126834009 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
126833954 ATAATTTCTT
126833964 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
126834010 TTAAAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:126834319 original size:20 final size:20
Alignment explanation
Indices: 126834294--126834337 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
126834284 AATTTTAAAG
*
126834294 AAAATACATTTAAATTATTA-
1 AAAATACAATT-AATTATTAT
*
126834314 AAAATAGAATTAATTATTAT
1 AAAATACAATTAATTATTAT
126834334 AAAA
1 AAAA
126834338 CATAAATAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATACAATTAATTATTAT
Found at i:126838872 original size:12 final size:12
Alignment explanation
Indices: 126838855--126838881 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
126838845 CATATGCCCT
126838855 ATAACACATAAC
1 ATAACACATAAC
126838867 ATAACACATAAC
1 ATAACACATAAC
126838879 ATA
1 ATA
126838882 TAGAATAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (12 bp):
ATAACACATAAC
Found at i:126841936 original size:25 final size:27
Alignment explanation
Indices: 126841898--126841963 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 27
126841888 TCAAAATTAC
*
126841898 TAAAAATATT-AAAATAGATATTTA-T
1 TAAAAATATTAAAAAAAGATATTTATT
* *
126841923 TAAAAA-ATTAAAAAAATATTTTTATT
1 TAAAAATATTAAAAAAAGATATTTATT
126841949 TAAATAATATTAAAA
1 TAAA-AATATTAAAA
126841964 TAAATACAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 3 0.09
25 17 0.50
26 5 0.15
27 2 0.06
28 7 0.21
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (27 bp):
TAAAAATATTAAAAAAAGATATTTATT
Found at i:126850839 original size:2 final size:2
Alignment explanation
Indices: 126850832--126850860 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
126850822 TTAAGTAGAA
126850832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
126850861 AAAGATGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:126852249 original size:5 final size:5
Alignment explanation
Indices: 126852239--126852266 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
126852229 AATAATTAAG
126852239 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
126852267 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:126853913 original size:48 final size:48
Alignment explanation
Indices: 126853857--126853976 Score: 240
Period size: 48 Copynumber: 2.5 Consensus size: 48
126853847 TAGTCCGAGC
126853857 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
126853905 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
126853953 TTTGTTAATAGGGTAAATAATTGA
1 TTTGTTAATAGGGTAAATAATTGA
126853977 TGTTTGTAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (48 bp):
TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
Found at i:126865945 original size:29 final size:28
Alignment explanation
Indices: 126865904--126865958 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
126865894 TAAACTTTTC
126865904 TAAATTATAATTAAACTT-AAAAATTTTGG
1 TAAATTATAATT-AA-TTCAAAAATTTTGG
* *
126865933 TAAATTCTCATTAATTCAAAAATTTT
1 TAAATTATAATTAATTCAAAAATTTT
126865959 AAAAGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 11 0.48
29 10 0.43
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (28 bp):
TAAATTATAATTAATTCAAAAATTTTGG
Found at i:126871806 original size:19 final size:18
Alignment explanation
Indices: 126871782--126871817 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
126871772 TATATTTGAT
126871782 TGTTAGGTTAGATGTTAAA
1 TGTTAGGTTAGAT-TTAAA
*
126871801 TGTTAGTTTAGATTTAA
1 TGTTAGGTTAGATTTAA
126871818 TGTGAAGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (18 bp):
TGTTAGGTTAGATTTAAA
Found at i:126874916 original size:7 final size:7
Alignment explanation
Indices: 126874890--126874931 Score: 66
Period size: 7 Copynumber: 5.7 Consensus size: 7
126874880 TATATATATA
126874890 ATTTTATT
1 ATTTTA-T
126874898 ATTTTAAT
1 ATTTT-AT
126874906 ATTTTAT
1 ATTTTAT
126874913 ATTTTAT
1 ATTTTAT
126874920 ATTTTAT
1 ATTTTAT
126874927 ATTTT
1 ATTTT
126874932 TTAAAATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 21 0.64
8 11 0.33
9 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTTTAT
Found at i:126874941 original size:16 final size:15
Alignment explanation
Indices: 126874889--126874940 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
126874879 TTATATATAT
126874889 AATTTTATTATTTTAA
1 AATTTTATT-TTTTAA
* * *
126874905 TATTTTATATTTTAT
1 AATTTTATTTTTTAA
*
126874920 ATTTTATATTTTTTAA
1 AATTT-TATTTTTTAA
126874936 AATTT
1 AATTT
126874941 AAATCAATTT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
AATTTTATTTTTTAA
Found at i:126874958 original size:29 final size:29
Alignment explanation
Indices: 126874876--126874999 Score: 94
Period size: 29 Copynumber: 4.2 Consensus size: 29
126874866 GATCGAAGTT
*
126874876 AAATTATATATATAATTTTATTA--TTTTA
1 AAATT-TAAATATAATTTTATTATTTTTTA
* * *
126874904 ATATTTTATATTTTATATTTTA-TATTTTTTA
1 A-AATTTA-AATATA-ATTTTATTATTTTTTA
* *
126874935 AAATTTAAATCA-ATTTTTATTATTTTTAA
1 AAATTTAAAT-ATAATTTTATTATTTTTTA
* *
126874964 AAATTAAAATATAATTTTATTATTAATTTA
1 AAATTTAAATATAATTTTATTATT-TTTTA
126874994 AAATTT
1 AAATTT
126875000 CATAAATTAT
Statistics
Matches: 73, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
28 9 0.12
29 39 0.53
30 19 0.26
31 6 0.08
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (29 bp):
AAATTTAAATATAATTTTATTATTTTTTA
Found at i:126876881 original size:32 final size:32
Alignment explanation
Indices: 126876841--126876913 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
126876831 CTTATAGAAG
126876841 TTTAAAAATCTAATTAAGATAT-ATAAAAATA
1 TTTAAAAATCTAATTAAGATATGATAAAAATA
* ** *
126876872 TTTACAAAATTTAATTTTGATTTGATAAAAATA
1 TTTA-AAAATCTAATTAAGATATGATAAAAATA
*
126876905 TTAAAAAAT
1 TTTAAAAAT
126876914 AAAAAATTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 4 0.11
32 19 0.54
33 12 0.34
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (32 bp):
TTTAAAAATCTAATTAAGATATGATAAAAATA
Found at i:126877038 original size:11 final size:10
Alignment explanation
Indices: 126877024--126877057 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
126877014 TTTTATGATT
126877024 TTTTTATATAA
1 TTTTTATA-AA
126877035 TTTTTATAAA
1 TTTTTATAAA
*
126877045 TTTATATAAA
1 TTTTTATAAA
126877055 TTT
1 TTT
126877058 AATATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:126877067 original size:19 final size:19
Alignment explanation
Indices: 126877024--126877069 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
126877014 TTTTATGATT
* *
126877024 TTTTTATATAATTTTTATA
1 TTTTTATATAAATTTAATA
**
126877043 AATTTATATAAATTTAATA
1 TTTTTATATAAATTTAATA
126877062 TTTTTATA
1 TTTTTATA
126877070 GTTTTTTTAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTATATAAATTTAATA
Found at i:126877159 original size:28 final size:26
Alignment explanation
Indices: 126877110--126877209 Score: 71
Period size: 28 Copynumber: 3.7 Consensus size: 26
126877100 CTTAGTAGGT
126877110 TTATTTTTTAAATTTTAAACAAGTTTTA
1 TTATTTTTTAAATTTTAAACAA--TTTA
* *
126877138 TTATTTTTATATATTTT-TACAATTTA
1 TTATTTTT-TAAATTTTAAACAATTTA
* * *
126877164 TTAGATTTATTAGATTTTATAA-TATTTA
1 TT--ATTTTTTAAATTTTA-AACAATTTA
126877192 -TATTTTTTATAATTTTAA
1 TTATTTTTTA-AATTTTAA
126877210 TAAGTTTATA
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
25 8 0.14
26 12 0.21
27 8 0.14
28 22 0.38
29 8 0.14
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (26 bp):
TTATTTTTTAAATTTTAAACAATTTA
Found at i:126877163 original size:26 final size:26
Alignment explanation
Indices: 126877134--126877211 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 26
126877124 TTAAACAAGT
126877134 TTTATTATTTTTATATATTTTTACA-A
1 TTTATTATTTTTATATATTTTTA-ATA
** *
126877160 TTTATTAGATTTATTAGATTTTATAATA
1 TTTATTATTTTTA-TATATTTT-TAATA
*
126877188 TTTA-TATTTTT-TATAATTTTAATA
1 TTTATTATTTTTATATATTTTTAATA
126877212 AGTTTATACT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
24 5 0.12
25 6 0.14
26 11 0.26
27 13 0.31
28 7 0.17
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (26 bp):
TTTATTATTTTTATATATTTTTAATA
Found at i:126877190 original size:19 final size:18
Alignment explanation
Indices: 126877142--126877192 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
126877132 GTTTTATTAT
126877142 TTTTATATATTT-TTACA
1 TTTTATATATTTATTACA
* * *
126877159 ATTTATTAGATTTATTAGA
1 TTTTA-TATATTTATTACA
126877178 TTTTATAATATTTAT
1 TTTTAT-ATATTTAT
126877193 ATTTTTTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 4 0.15
18 7 0.27
19 15 0.58
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (18 bp):
TTTTATATATTTATTACA
Found at i:126881776 original size:21 final size:22
Alignment explanation
Indices: 126881737--126881777 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
126881727 TCTAATTAAT
126881737 TAAATTAACAAGAGTTAAATAA
1 TAAATTAACAAGAGTTAAATAA
126881759 TAAA-TAA-AAGAGCTTAAAT
1 TAAATTAACAAGAG-TTAAAT
126881778 TCTTATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.27
Consensus pattern (22 bp):
TAAATTAACAAGAGTTAAATAA
Found at i:126883440 original size:17 final size:17
Alignment explanation
Indices: 126883420--126883469 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 17
126883410 AAGTGAGAAG
126883420 ATTTAAATAAAAATATA
1 ATTTAAATAAAAATATA
*
126883437 ATTT-TA-AAAAATA-A
1 ATTTAAATAAAAATATA
* *
126883451 ATTTAAGTAAAAAAATA
1 ATTTAAATAAAAATATA
126883468 AT
1 AT
126883470 ACTCATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
14 5 0.19
15 7 0.27
16 7 0.27
17 7 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
ATTTAAATAAAAATATA
Found at i:126901028 original size:28 final size:28
Alignment explanation
Indices: 126900996--126901056 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
126900986 TCCCATATTA
126900996 ATGGGGTATAAGAAAAGTCTCATAACTT
1 ATGGGGTATAAGAAAAGTCTCATAACTT
** * *
126901024 ATGGGGTATAAGAAGGGTTTTATAACTT
1 ATGGGGTATAAGAAAAGTCTCATAACTT
126901052 ATGGG
1 ATGGG
126901057 ATTGATAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (28 bp):
ATGGGGTATAAGAAAAGTCTCATAACTT
Found at i:126901966 original size:22 final size:22
Alignment explanation
Indices: 126901927--126901985 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
126901917 GTTTTAAGAA
*
126901927 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
126901948 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
126901970 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
126901986 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:126902002 original size:26 final size:24
Alignment explanation
Indices: 126901956--126902015 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
126901946 ATTTGTTTTA
*
126901956 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
126901980 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
126902006 TTTTTTATTT
1 ATATTTATTT
126902016 AATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:126902193 original size:16 final size:16
Alignment explanation
Indices: 126902169--126902211 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
126902159 ATTTTACTTG
*
126902169 GGCCAGGCCCGAACCC
1 GGCCCGGCCCGAACCC
126902185 GGCCCGGCCCGAACCC
1 GGCCCGGCCCGAACCC
*
126902201 AGCCCGGCCCG
1 GGCCCGGCCCG
126902212 GCCCATGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.14, C:0.53, G:0.33, T:0.00
Consensus pattern (16 bp):
GGCCCGGCCCGAACCC
Found at i:126906800 original size:17 final size:18
Alignment explanation
Indices: 126906778--126906815 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
126906768 TTTTTTTACA
*
126906778 ATTTTTATTAACTT-TTT
1 ATTTTTATTAAATTATTT
*
126906795 ATTTTTTTTAAATTATTT
1 ATTTTTATTAAATTATTT
126906813 ATT
1 ATT
126906816 AAACATGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTATTAAATTATTT
Found at i:126915781 original size:17 final size:17
Alignment explanation
Indices: 126915740--126915781 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
126915730 AATAAAAAGT
* *
126915740 ATAATTTTTTTATTTTA
1 ATAAATTTTATATTTTA
126915757 AT-AA-TTTATATTTTA
1 ATAAATTTTATATTTTA
126915772 ATAAATTTTA
1 ATAAATTTTA
126915782 AAATATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 12 0.57
16 3 0.14
17 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATAAATTTTATATTTTA
Found at i:126917235 original size:16 final size:16
Alignment explanation
Indices: 126917204--126917233 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
126917194 TGATTTGTAG
126917204 AAATTTTAAAGTTTTA
1 AAATTTTAAAGTTTTA
126917220 AAATTTT-AAGTTTT
1 AAATTTTAAAGTTTT
126917234 TAGCAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
AAATTTTAAAGTTTTA
Found at i:126921293 original size:65 final size:66
Alignment explanation
Indices: 126921162--126921293 Score: 148
Period size: 65 Copynumber: 2.0 Consensus size: 66
126921152 ATGAGAATTT
* * *
126921162 AAAAAAAACTTAAGAAGTCTAATTAAAATTTTTAAAATTTTTGTAAAGTTTATTAAGAATTCTCT
1 AAAAAAAACTTAAGAAGTCTAAATAAAATCTTTAAAATTTTTGTAAAGTTTATGAAGAATTCTCT
126921227 A
66 A
*
126921228 AAAAAAAAC-TATGGAA-TCTAAATAAAATCTTT-AAATATTTTG-AAAGGTTTAATGAA-AATT
1 AAAAAAAACTTA-AGAAGTCTAAATAAAATCTTTAAAAT-TTTTGTAAA-GTTT-ATGAAGAATT
*
126921288 TTCTA
62 CTCTA
126921293 A
1 A
126921294 CTCTAATTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
64 7 0.12
65 34 0.60
66 16 0.28
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.37
Consensus pattern (66 bp):
AAAAAAAACTTAAGAAGTCTAAATAAAATCTTTAAAATTTTTGTAAAGTTTATGAAGAATTCTCT
A
Found at i:126921643 original size:19 final size:20
Alignment explanation
Indices: 126921601--126921651 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
126921591 CTTTCTCTAA
126921601 AAAAAATTCAAAATAAATTTT
1 AAAAAATTCAAAAT-AATTTT
126921622 AAAAAA-TCAAAAT-ATTTAT
1 AAAAAATTCAAAATAATTT-T
*
126921641 AAAAATTTCAA
1 AAAAAATTCAA
126921652 TTTTAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.15
19 6 0.22
20 11 0.41
21 6 0.22
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:126928354 original size:3 final size:3
Alignment explanation
Indices: 126928346--126928377 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
126928336 AAGATGAAAT
126928346 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
126928378 TTAAATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:126938064 original size:12 final size:12
Alignment explanation
Indices: 126938046--126938078 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
126938036 TTTAAATAAA
126938046 AAAATATATATT
1 AAAATATATATT
*
126938058 TAAATATATATT
1 AAAATATATATT
126938070 AAAAT-TATA
1 AAAATATATA
126938079 CTTTTATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AAAATATATATT
Found at i:126945234 original size:26 final size:24
Alignment explanation
Indices: 126945190--126945237 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
126945180 ATTTGTTTTA
*
126945190 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
126945214 ATATTTGATTTATTATATTTTTAA
1 ATATTTG-TTT-TTATATTTTTAA
126945238 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:126945942 original size:17 final size:17
Alignment explanation
Indices: 126945920--126945976 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
126945910 ATTAATTTAT
126945920 TTTAAAAATAAAATTAA
1 TTTAAAAATAAAATTAA
* **
126945937 TTTAAAATTAAAA-TGG
1 TTTAAAAATAAAATTAA
*
126945953 TTT-AAAATTAAATTAA
1 TTTAAAAATAAAATTAA
126945969 TTTAAAAA
1 TTTAAAAA
126945977 ATTCAATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
15 7 0.23
16 8 0.26
17 16 0.52
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (17 bp):
TTTAAAAATAAAATTAA
Found at i:126945972 original size:16 final size:16
Alignment explanation
Indices: 126945909--126945975 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
126945899 TTTGAATTTG
* *
126945909 AATTAATTTATTTTAAA
1 AATTAAATTAATTT-AA
*
126945926 AATAAAATTAATTTAA
1 AATTAAATTAATTTAA
* **
126945942 AATTAAAATGGTTTAA
1 AATTAAATTAATTTAA
126945958 AATTAAATTAATTTAA
1 AATTAAATTAATTTAA
126945974 AA
1 AA
126945976 AATTCAATTT
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
16 29 0.73
17 11 0.28
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AATTAAATTAATTTAA
Done.