Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 176 of 322
Found at i:57632938 original size:24 final size:24
Alignment explanation
Indices: 57632910--57633060 Score: 108
Period size: 25 Copynumber: 6.0 Consensus size: 24
57632900 ATCATTTCTA
*
57632910 ATATATATATATTGTATATGTTTTTT
1 ATATATAT-TA-TGTATATATTTTTT
*
57632936 ATATATATTATGTATATATTTTTA
1 ATATATATTATGTATATATTTTTT
* * *
57632960 ATACCATACTAT-TCATATACTTTTT
1 ATA-TATATTATGT-ATATATTTTTT
*
57632985 ATGT-TATCTCATGTATATATTTTTT
1 ATATATAT-T-ATGTATATATTTTTT
* *
57633010 AATAACTATATTATGTATGTATTTTTA
1 -AT-A-TATATTATGTATATATTTTTT
* *
57633037 ACACTATATTATGTACATATTTTT
1 ATA-TATATTATGTATATATTTTT
57633061 AATACTATGT
Statistics
Matches: 100, Mismatches: 16, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
23 2 0.02
24 17 0.17
25 51 0.51
26 12 0.12
27 13 0.13
28 2 0.02
29 3 0.03
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATATATATTATGTATATATTTTTT
Found at i:57635633 original size:50 final size:50
Alignment explanation
Indices: 57635558--57635734 Score: 309
Period size: 50 Copynumber: 3.5 Consensus size: 50
57635548 CTATGGCAAT
*
57635558 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
*
57635608 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
*
57635658 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
*
57635708 CAAGTGAAAAGTGATAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
57635735 CTGATCAGTG
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
50 96 0.79
51 25 0.21
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
Found at i:57635745 original size:31 final size:31
Alignment explanation
Indices: 57635710--57635826 Score: 189
Period size: 31 Copynumber: 3.8 Consensus size: 31
57635700 ACAAATGACA
57635710 AGTGAAAAGTGATAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGATAGCTTCGGCTACCTGATC
*
57635741 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGATAGCTTCGGCTACCTGATC
* *
57635772 AGTGAAAAATGATAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGATAGCTTCGGCTACCTGATC
* *
57635803 AGTGAATAGTGGTAGCTTCGGCTA
1 AGTGAAAAGTGATAGCTTCGGCTA
57635827 AAAGTGACAA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGATAGCTTCGGCTACCTGATC
Found at i:57635968 original size:10 final size:10
Alignment explanation
Indices: 57635953--57635980 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
57635943 ATGCTATGGC
57635953 ATCAGTGATT
1 ATCAGTGATT
57635963 ATCAGTGATT
1 ATCAGTGATT
57635973 ATCAGTGA
1 ATCAGTGA
57635981 AATTCAGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (10 bp):
ATCAGTGATT
Found at i:57638191 original size:21 final size:21
Alignment explanation
Indices: 57638148--57638314 Score: 113
Period size: 21 Copynumber: 8.0 Consensus size: 21
57638138 ACATCATTTT
* *
57638148 CAGAAGCCCA-AAG-GCTGAA
1 CAGAAGCTCATAAGAGCTAAA
*
57638167 CAGAAGCTCATGAGAGCTAAA
1 CAGAAGCTCATAAGAGCTAAA
* * * * *
57638188 CAGAAACCCATAAGGGTTGAA
1 CAGAAGCTCATAAGAGCTAAA
* *
57638209 CGGAAGCTCATAAGAGCTGAA
1 CAGAAGCTCATAAGAGCTAAA
* * * * *
57638230 CGGAAACTTATAAGGGTTAAA
1 CAGAAGCTCATAAGAGCTAAA
* *
57638251 CAGAAGCTCAAAAGAGCTGAA
1 CAGAAGCTCATAAGAGCTAAA
* * *
57638272 CAGAAACTCATATGAGTTAAA
1 CAGAAGCTCATAAGAGCTAAA
* * *
57638293 TAGAAGCTTATGAGAGCTAAA
1 CAGAAGCTCATAAGAGCTAAA
57638314 C
1 C
57638315 GAAAAGTAAA
Statistics
Matches: 108, Mismatches: 38, Indels: 2
0.73 0.26 0.01
Matches are distributed among these distances:
19 9 0.08
20 2 0.02
21 97 0.90
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.16
Consensus pattern (21 bp):
CAGAAGCTCATAAGAGCTAAA
Found at i:57638215 original size:42 final size:42
Alignment explanation
Indices: 57638165--57638318 Score: 175
Period size: 42 Copynumber: 3.7 Consensus size: 42
57638155 CCAAAGGCTG
* * *
57638165 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGGGTTA
* * * *
57638207 AACGGAAGCTCATAAGAGCTGAACGGAAACTTATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGGGTTA
* * * *
57638249 AACAGAAGCTCAAAAGAGCTGAACAGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGGGTTA
* * *
57638291 AATAGAAGCTTATGAGAGCTAAAC-GAAA
1 AACAGAAGCTCATAAGAGCTAAACAGAAA
57638319 AGTAAACAAG
Statistics
Matches: 94, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 4 0.04
42 90 0.96
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGGGTTA
Found at i:57641263 original size:23 final size:23
Alignment explanation
Indices: 57641237--57641282 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
57641227 ATCTGTATTC
57641237 ATCTATATATTAAT-TTTATAAAT
1 ATCTATAT-TTAATATTTATAAAT
*
57641260 ATCTTTATTTAATATTTATAAAT
1 ATCTATATTTAATATTTATAAAT
57641283 TCAGTTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
ATCTATATTTAATATTTATAAAT
Found at i:57645044 original size:6 final size:6
Alignment explanation
Indices: 57645033--57645057 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57645023 CCTTGAACTG
57645033 CCCTCT CCCTCT CCCTCT CCCTCT C
1 CCCTCT CCCTCT CCCTCT CCCTCT C
57645058 TTCTCCCCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCCTCT
Found at i:57646951 original size:20 final size:21
Alignment explanation
Indices: 57646906--57646951 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
57646896 GCTCATCTGG
* *
57646906 TTTTGCTGCTGCTCCCTCCCT
1 TTTTCCTGCTGCTCCCGCCCT
*
57646927 GTTTCCTGCTGC-CCCGCCCT
1 TTTTCCTGCTGCTCCCGCCCT
57646947 TTTTC
1 TTTTC
57646952 TAATATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.00, C:0.43, G:0.15, T:0.41
Consensus pattern (21 bp):
TTTTCCTGCTGCTCCCGCCCT
Found at i:57648701 original size:10 final size:8
Alignment explanation
Indices: 57648673--57648697 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
57648663 TTATAAGGGT
57648673 ATATTAAA
1 ATATTAAA
57648681 ATATTAAA
1 ATATTAAA
57648689 ATATTAAA
1 ATATTAAA
57648697 A
1 A
57648698 AATAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATTAAA
Found at i:57649870 original size:12 final size:12
Alignment explanation
Indices: 57649853--57649880 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
57649843 AAAGTCATTG
57649853 TTAATATAGACA
1 TTAATATAGACA
57649865 TTAATATAGACA
1 TTAATATAGACA
57649877 TTAA
1 TTAA
57649881 GGGTGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (12 bp):
TTAATATAGACA
Found at i:57661991 original size:111 final size:111
Alignment explanation
Indices: 57661797--57662019 Score: 437
Period size: 111 Copynumber: 2.0 Consensus size: 111
57661787 AATTTTTTTG
57661797 AAGTACAGAATAAAGTGGTTATATTCATTGTCTTAAGATTGATCCAGATGGTTTGTGCTGATCTA
1 AAGTACAGAATAAAGTGGTTATATTCATTGTCTTAAGATTGATCCAGATGGTTTGTGCTGATCTA
57661862 TAGAAGTTAGATAGCAGATACAGACAGTGCCTCATTATCTAGTTTC
66 TAGAAGTTAGATAGCAGATACAGACAGTGCCTCATTATCTAGTTTC
57661908 AAGTACAGAATAAAGTGGTTATATTCATTGTCTTAAGATTGATCCAGATGGTTTGTGCTGATCTA
1 AAGTACAGAATAAAGTGGTTATATTCATTGTCTTAAGATTGATCCAGATGGTTTGTGCTGATCTA
*
57661973 TAGAAGTTAGATAGCAGATACAGACAGTGCCTCATTATCTGGTTTC
66 TAGAAGTTAGATAGCAGATACAGACAGTGCCTCATTATCTAGTTTC
57662019 A
1 A
57662020 TCTTTCCAGA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.34
Consensus pattern (111 bp):
AAGTACAGAATAAAGTGGTTATATTCATTGTCTTAAGATTGATCCAGATGGTTTGTGCTGATCTA
TAGAAGTTAGATAGCAGATACAGACAGTGCCTCATTATCTAGTTTC
Found at i:57663922 original size:6 final size:6
Alignment explanation
Indices: 57663911--57663935 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57663901 TACTTGTCAA
57663911 TCTGCT TCTGCT TCTGCT TCTGCT T
1 TCTGCT TCTGCT TCTGCT TCTGCT T
57663936 TTTCAACACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.16, T:0.52
Consensus pattern (6 bp):
TCTGCT
Found at i:57665743 original size:16 final size:16
Alignment explanation
Indices: 57665714--57665756 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
57665704 AAATATTTTA
57665714 TAATATTTTATAATTT
1 TAATATTTTATAATTT
57665730 TAATGATTTT-TAATTTT
1 TAAT-ATTTTATAA-TTT
*
57665747 TAAAATTTTA
1 TAATATTTTA
57665757 AAAATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TAATATTTTATAATTT
Found at i:57666785 original size:17 final size:17
Alignment explanation
Indices: 57666763--57666796 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57666753 AGGTTTAGAT
57666763 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
57666780 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
57666797 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:57672263 original size:22 final size:22
Alignment explanation
Indices: 57672235--57672279 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
57672225 CCAACAAGAT
57672235 TGTCAATTTCTGCTTCTTTATC
1 TGTCAATTTCTGCTTCTTTATC
57672257 TGTCAATTTCTGCTTCTTTATC
1 TGTCAATTTCTGCTTCTTTATC
57672279 T
1 T
57672280 TTGACAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.22, G:0.09, T:0.56
Consensus pattern (22 bp):
TGTCAATTTCTGCTTCTTTATC
Found at i:57673681 original size:40 final size:40
Alignment explanation
Indices: 57673628--57673722 Score: 181
Period size: 40 Copynumber: 2.4 Consensus size: 40
57673618 CAAGTTAATG
*
57673628 AAAAAAGTTAAAATTTTTATTTTTCTTAAAAAGAAAGGGA
1 AAAAAAATTAAAATTTTTATTTTTCTTAAAAAGAAAGGGA
57673668 AAAAAAATTAAAATTTTTATTTTTCTTAAAAAGAAAGGGA
1 AAAAAAATTAAAATTTTTATTTTTCTTAAAAAGAAAGGGA
57673708 AAAAAAATTAAAATT
1 AAAAAAATTAAAATT
57673723 AAAAAGGGGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (40 bp):
AAAAAAATTAAAATTTTTATTTTTCTTAAAAAGAAAGGGA
Found at i:57684239 original size:5 final size:5
Alignment explanation
Indices: 57684231--57684255 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
57684221 GGGAGGTGTT
57684231 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
57684256 ATATAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:57684265 original size:24 final size:24
Alignment explanation
Indices: 57684238--57684299 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
57684228 GTTTTTTATT
* **
57684238 TTATTTTATTTTATTTTAATATAA
1 TTATTTTATTTAACATTAATATAA
57684262 TTATTTTTATTTAACATTAATATAA
1 TTA-TTTTATTTAACATTAATATAA
**
57684287 AAATTTTATTTAA
1 TTATTTTATTTAA
57684300 TTATTTAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TTATTTTATTTAACATTAATATAA
Found at i:57685129 original size:8 final size:8
Alignment explanation
Indices: 57685116--57685185 Score: 50
Period size: 8 Copynumber: 7.9 Consensus size: 8
57685106 TAATTTTTTT
57685116 AAAATTTA
1 AAAATTTA
*
57685124 AAAATTCA
1 AAAATTTA
57685132 AAAATTATA
1 AAAATT-TA
*
57685141 AAAGTTATTTTT
1 AAA---A-TTTA
57685153 AAAATTTA
1 AAAATTTA
57685161 AAAATTATTA
1 AAAA-T-TTA
57685171 AAAATTTA
1 AAAATTTA
*
57685179 TAAATTT
1 AAAATTT
57685186 TTTAATTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
8 29 0.58
9 7 0.14
10 7 0.14
12 5 0.10
13 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (8 bp):
AAAATTTA
Found at i:57696475 original size:6 final size:6
Alignment explanation
Indices: 57696439--57696474 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
57696429 TTTATGTGTC
*
57696439 TATGTG TATGTG TATGTG TATGTG TATGTG CATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
57696475 CCTGTGCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.03, G:0.33, T:0.47
Consensus pattern (6 bp):
TATGTG
Found at i:57696480 original size:18 final size:18
Alignment explanation
Indices: 57696440--57696480 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
57696430 TTATGTGTCT
* *
57696440 ATGTGTATGTGTATGTGT
1 ATGTGTATGTGCATGTGC
57696458 ATGTGTATGTGCATGTGC
1 ATGTGTATGTGCATGTGC
*
57696476 CTGTG
1 ATGTG
57696481 CATTTATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.07, G:0.34, T:0.44
Consensus pattern (18 bp):
ATGTGTATGTGCATGTGC
Found at i:57712032 original size:25 final size:25
Alignment explanation
Indices: 57711998--57712046 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
57711988 CATGAATGTT
57711998 CTTGAATGGTTATTGATATTAAATC
1 CTTGAATGGTTATTGATATTAAATC
57712023 CTTGAATGGTTATTGATATTAAAT
1 CTTGAATGGTTATTGATATTAAAT
57712047 TCTAGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (25 bp):
CTTGAATGGTTATTGATATTAAATC
Found at i:57718330 original size:23 final size:22
Alignment explanation
Indices: 57718298--57718353 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
57718288 TAATTTTGGT
57718298 ATATGATGAAGT-TATCTT-ATAA
1 ATATGATGAA-TCTATCTTGA-AA
57718320 ATATGCATGAATCTATCTTGAAA
1 ATATG-ATGAATCTATCTTGAAA
*
57718343 ATATGTTGAAT
1 ATATGATGAAT
57718354 TGGATTGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 11 0.37
23 18 0.60
24 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (22 bp):
ATATGATGAATCTATCTTGAAA
Found at i:57720374 original size:12 final size:12
Alignment explanation
Indices: 57720357--57720386 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
57720347 CTTATGATTG
57720357 TATATATGTATA
1 TATATATGTATA
*
57720369 TGTATATGTATA
1 TATATATGTATA
57720381 TATATA
1 TATATA
57720387 GTTTAATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (12 bp):
TATATATGTATA
Found at i:57726695 original size:20 final size:20
Alignment explanation
Indices: 57726670--57726708 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
57726660 TCTAAGGGGG
57726670 ATGCTG-CAGCAAAGTTGGTA
1 ATGCTGCCA-CAAAGTTGGTA
57726690 ATGCTGCCACAAAGTTGGT
1 ATGCTGCCACAAAGTTGGT
57726709 TTTAATAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (20 bp):
ATGCTGCCACAAAGTTGGTA
Found at i:57731045 original size:9 final size:9
Alignment explanation
Indices: 57731031--57731089 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
57731021 ATAAGAATAA
57731031 AATTAACCG
1 AATTAACCG
*
57731040 AATTAACCA
1 AATTAACCG
*
57731049 AATTAATCG
1 AATTAACCG
* *
57731058 AATTACCCC
1 AATTAACCG
*
57731067 AATTAACCA
1 AATTAACCG
57731076 AATTAACCG
1 AATTAACCG
57731085 AATTA
1 AATTA
57731090 TTCAAATTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.47, C:0.22, G:0.05, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:57731061 original size:27 final size:27
Alignment explanation
Indices: 57731031--57731089 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
57731021 ATAAGAATAA
* *
57731031 AATTAACCGAATTAACCAAATTAATCG
1 AATTAACCCAATTAACCAAATTAACCG
*
57731058 AATTACCCCAATTAACCAAATTAACCG
1 AATTAACCCAATTAACCAAATTAACCG
57731085 AATTA
1 AATTA
57731090 TTCAAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.47, C:0.22, G:0.05, T:0.25
Consensus pattern (27 bp):
AATTAACCCAATTAACCAAATTAACCG
Found at i:57731095 original size:18 final size:18
Alignment explanation
Indices: 57731030--57731098 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
57731020 AATAAGAATA
* *
57731030 AAATTAACCGAATTAACC
1 AAATTAATCAAATTAACC
* *
57731048 AAATTAATCGAATTACCC
1 AAATTAATCAAATTAACC
* *
57731066 CAATTAACCAAATTAACC
1 AAATTAATCAAATTAACC
* *
57731084 GAATTATTCAAATTA
1 AAATTAATCAAATTA
57731099 TTTGTATAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.48, C:0.20, G:0.04, T:0.28
Consensus pattern (18 bp):
AAATTAATCAAATTAACC
Found at i:57731097 original size:27 final size:27
Alignment explanation
Indices: 57731031--57731098 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
57731021 ATAAGAATAA
* * *
57731031 AATTAACCGAATTAACCAAATTAATCG
1 AATTACCCAAATTAACCAAATTAACCG
*
57731058 AATTACCCCAATTAACCAAATTAACCG
1 AATTACCCAAATTAACCAAATTAACCG
**
57731085 AATTATTCAAATTA
1 AATTACCCAAATTA
57731099 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (27 bp):
AATTACCCAAATTAACCAAATTAACCG
Found at i:57733147 original size:21 final size:20
Alignment explanation
Indices: 57733114--57733153 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
57733104 ATGTTCAAGT
57733114 TCCACACAAGCGTGTCGCCCA
1 TCCACACAAGCGTGT-GCCCA
**
57733135 TCCACACGGGCGTGTGCCC
1 TCCACACAAGCGTGTGCCC
57733154 TGTTTCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.17, C:0.42, G:0.25, T:0.15
Consensus pattern (20 bp):
TCCACACAAGCGTGTGCCCA
Found at i:57735246 original size:7 final size:7
Alignment explanation
Indices: 57735234--57735263 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
57735224 TTCATATGAA
57735234 TTTTATT
1 TTTTATT
57735241 TTTTATT
1 TTTTATT
57735248 TTTTATT
1 TTTTATT
57735255 TTTTATT
1 TTTTATT
57735262 TT
1 TT
57735264 AGCTATCGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTATT
Found at i:57739440 original size:16 final size:17
Alignment explanation
Indices: 57739419--57739451 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
57739409 GTCATTTTCT
57739419 GTTAAAAA-GAAAAAAA
1 GTTAAAAACGAAAAAAA
57739435 GTTAAAAACGAAAAAAA
1 GTTAAAAACGAAAAAAA
57739452 TAAAAAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.73, C:0.03, G:0.12, T:0.12
Consensus pattern (17 bp):
GTTAAAAACGAAAAAAA
Found at i:57739571 original size:15 final size:15
Alignment explanation
Indices: 57739551--57739587 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
57739541 GAAGCAAGTA
57739551 GAAGCAGCAACTCGG
1 GAAGCAGCAACTCGG
57739566 GAAGCAGCAACTCGG
1 GAAGCAGCAACTCGG
57739581 GAAGCAG
1 GAAGCAG
57739588 GAAGCAGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.35, C:0.24, G:0.35, T:0.05
Consensus pattern (15 bp):
GAAGCAGCAACTCGG
Found at i:57739623 original size:19 final size:19
Alignment explanation
Indices: 57739599--57739661 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 19
57739589 AAGCAGTAGC
57739599 AAGGAGAAGAAAAGAAAGA
1 AAGGAGAAGAAAAGAAAGA
*
57739618 AAGGAGAAGAGAAG-AAGAA
1 AAGGAGAAGAAAAGAAAG-A
57739637 GAAGGAGAAAGAAAAAGAAAAGA
1 -AAGGAG-AAG-AAAAG-AAAGA
57739660 AA
1 AA
57739662 AGAGTAGGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 3 0.08
19 14 0.39
20 6 0.17
21 3 0.08
22 6 0.17
23 1 0.03
24 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (19 bp):
AAGGAGAAGAAAAGAAAGA
Found at i:57739645 original size:27 final size:24
Alignment explanation
Indices: 57739602--57739664 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 24
57739592 CAGTAGCAAG
* *
57739602 GAGAAGAAAAGAAAGAAAGGAGAA
1 GAGAAGAAAAGAAAGAAAGAAAAA
57739626 GAGAAGAAGAAGAAGGAGAAAGAAAAA
1 GAGAAGAA-AAGAA--AGAAAGAAAAA
*
57739653 GAAAAGAAAAGA
1 GAGAAGAAAAGA
57739665 GTAGGTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 8 0.24
25 5 0.15
26 4 0.12
27 16 0.48
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (24 bp):
GAGAAGAAAAGAAAGAAAGAAAAA
Found at i:57739764 original size:16 final size:16
Alignment explanation
Indices: 57739720--57739766 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
57739710 TGTTTTTGCT
57739720 GTTATTATTATTGTT-
1 GTTATTATTATTGTTA
57739735 GATT-TT-TT-TTGTTA
1 G-TTATTATTATTGTTA
57739749 GTTATTATTATTGTTA
1 GTTATTATTATTGTTA
57739765 GT
1 GT
57739767 AAAAAACCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
13 7 0.26
14 5 0.19
15 5 0.19
16 10 0.37
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.66
Consensus pattern (16 bp):
GTTATTATTATTGTTA
Found at i:57739779 original size:26 final size:26
Alignment explanation
Indices: 57739750--57739799 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
57739740 TTTTTGTTAG
57739750 TTATTATTATTGTTAGTAAAAAACCC
1 TTATTATTATTGTTAGTAAAAAACCC
57739776 TTATTATTATTGTTAGTAAAAAAC
1 TTATTATTATTGTTAGTAAAAAAC
57739800 TATTATTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (26 bp):
TTATTATTATTGTTAGTAAAAAACCC
Found at i:57739805 original size:26 final size:26
Alignment explanation
Indices: 57739750--57739807 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
57739740 TTTTTGTTAG
*
57739750 TTATTATTATTGTTAGTAAAAAACCC
1 TTATTATTATTGTTAGTAAAAAACCA
*
57739776 TTATTATTATTGTTAGTAAAAAACTA
1 TTATTATTATTGTTAGTAAAAAACCA
57739802 TTATTA
1 TTATTA
57739808 GGATTGTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (26 bp):
TTATTATTATTGTTAGTAAAAAACCA
Found at i:57739813 original size:26 final size:26
Alignment explanation
Indices: 57739758--57739815 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
57739748 AGTTATTATT
* **
57739758 ATTGTTAGTAAAAAACCCTTATTATT
1 ATTGTTAGTAAAAAACCATTATTAGG
*
57739784 ATTGTTAGTAAAAAACTATTATTAGG
1 ATTGTTAGTAAAAAACCATTATTAGG
57739810 ATTGTT
1 ATTGTT
57739816 GGTTATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (26 bp):
ATTGTTAGTAAAAAACCATTATTAGG
Found at i:57739861 original size:39 final size:38
Alignment explanation
Indices: 57739776--57739868 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 38
57739766 TAAAAAACCC
*
57739776 TTATTATTATTGTTAGTAAAAAACTATTATTAGGATTG
1 TTATTATTATTGTTAGTAAAAAACTATAATTAGGATTG
* * *
57739814 TTGGTTATTATTGTTAGTAAAAAACTCTAATTATTG-TTAG
1 TT-ATTATTATTGTTAGTAAAAAACTATAATTA-GGATT-G
57739854 TTATTATTATTGTTA
1 TTATTATTATTGTTA
57739869 ATTTATATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.04
39 41 0.87
40 4 0.09
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (38 bp):
TTATTATTATTGTTAGTAAAAAACTATAATTAGGATTG
Found at i:57746753 original size:151 final size:151
Alignment explanation
Indices: 57746278--57747526 Score: 1858
Period size: 151 Copynumber: 8.3 Consensus size: 151
57746268 TATTTTTAAA
* *
57746278 ATTTTTAAAATTTTTGGATCTTATTTTTTAAAATATACTATTTT--TA---TA--TTTTATATTA
1 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTA
*
57746336 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATATTAATTTAGT-AATGAC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTG-TTTTTT-ATATTAATTTAGTAAATAAC
57746400 CCTAATTTTGTCCCTTTGTTTGT
129 CCTAATTTTGTCCCTTTGTTTGT
* *
57746423 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCATATTTTATTTTTTATGTTA
1 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* *
57746488 TTTTAGTATATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATATTAATTTAGT-AATGAC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTG-TTTTTT-ATATTAATTTAGTAAATAAC
57746552 CCTAATTTTGTCCCTTTGTTTGT
129 CCTAATTTTGTCCCTTTGTTTGT
* * * *
57746575 ATTTTTAAAATTTTTGGATTTTATTTTTGAAATTAGACTATTTTGGTATTTTATTTTTTATATTA
1 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* *
57746640 TTTTAGTACATAATGTTTTAAATGTATTATTTTAGTGTTTTTTATATTAATTAAGTAAATAACCC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCC
57746705 TAATTTTGTCCCTTTGTTTGT
131 TAATTTTGTCCCTTTGTTTGT
*
57746726 ATTTTTAAAATTTTTGGATTTTATTTTTAAAATTATACTATTTTCGTATTTTATTTTTTATATTA
1 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* * *
57746791 TTTTAGTATATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCC
* *
57746856 TGATTTTGGCCCTTTGTTTGT
131 TAATTTTGTCCCTTTGTTTGT
*
57746877 ATTTTTAAAATTTTTAGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
* * *
57746942 ATTTTAGTACATAATATTTCAAATGTATTATTTTATTATTATTTTATATTAATTTAGTAAATAAC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTT-TTTTATATTAATTTAGTAAATAAC
* *
57747007 CCTGATTTCGGT-CCTTTGTTTGT
129 CCTAATTT-TGTCCCTTTGTTTGT
* * **
57747030 GTTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTTTTATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
* * *
57747095 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTG-CTTTTATATCAATTTACTAAATAACC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
*
57747159 CTAATTTTGGCCCTTTGTTTGT
130 CTAATTTTGTCCCTTTGTTTGT
* * *
57747181 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTA
1 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* *
57747246 TTTTTGTACATAATGTTTCAAATGTATTATTTTAGTG-TTTTTATATTAATTTAATAAATAACCC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCC
*
57747310 TAATTTTGGCCCTTTGTTTGT
131 TAATTTTGTCCCTTTGTTTGT
* * *
57747331 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTTGTATTTTAATTTTTTATATT
1 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCGTATTTT-ATTTTTTATATT
*
57747396 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAATC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
*
57747461 CTAATTTTGTCCCTTTATTTGT
130 CTAATTTTGTCCCTTTGTTTGT
* ** * ** *
57747483 ATTATCT-AAATTTTCAGATTTCATTTTTTGAAATATATTATTTT
1 ATT-TTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTT
57747527 TGTACATAAT
Statistics
Matches: 1021, Mismatches: 68, Indels: 23
0.92 0.06 0.02
Matches are distributed among these distances:
145 42 0.04
147 2 0.00
150 158 0.15
151 364 0.36
152 315 0.31
153 139 0.14
154 1 0.00
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (151 bp):
ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCC
TAATTTTGTCCCTTTGTTTGT
Found at i:57746768 original size:22 final size:22
Alignment explanation
Indices: 57746725--57746769 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
57746715 CCTTTGTTTG
* **
57746725 TATTTTTAAAATTTTTGGATTT
1 TATTTTTAAAATTATACGATTT
*
57746747 TATTTTTAAAATTATACTATTT
1 TATTTTTAAAATTATACGATTT
57746769 T
1 T
57746770 CGTATTTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (22 bp):
TATTTTTAAAATTATACGATTT
Found at i:57746813 original size:455 final size:451
Alignment explanation
Indices: 57746278--57747676 Score: 1956
Period size: 455 Copynumber: 3.2 Consensus size: 451
57746268 TATTTTTAAA
* *
57746278 ATTTTTAAAATTTTTGGATCTTATTTTTTAAAATATACTATTTT--TA---TA--TTTTATATTA
1 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
*
57746336 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATATTAATTTAGT-AATGAC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTG-TTTTTT-ATATTAATTTAGTAAATAAC
*
57746400 CCTAATTTTGTCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATT
129 CCTAATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATT
* * *
57746465 TTCATATTTTATTTTTTATGTTATTTTAGTATATAATGTTTCAAATGTATTATTTTAGTGTTTTT
194 TTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTT
* *
57746530 TTAATATTAATTTAGT-AATGACCCTAATTTTGTCCCTTTGTTTGTATTTTTAAAATTTTTGGAT
259 TT-ATATTAATTTAGTAAATAACCCTAATTTTGTCCCTTTGTTTGTATTTTTAAAATTTTCGGAT
*
57746594 TTTATTTTTGAAATTAGACTATTTTGGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTT
323 TTTATTTTT-AAATTAGACTATTTT--TATTTTATTTTTTATATTATTTTAGTACATAATGTTTC
*
57746659 AAATGTATTATTTTAGTGTTTTTTATATTAATTAAGTAAATAACCCTAATTTTGTCCCTTTGTTT
385 AAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTAATTTTGTCCCTTTGTTT
57746724 GT
450 GT
*
57746726 ATTTTTAAAATTTTTGGATTTTA-TTTTTAAAATTATACTATTTTCGTATTTTATTTTTTATATT
1 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAA-TATACTATTTTCGTATTTTATTTTTTATATT
* *
57746790 ATTTTAGTATATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
* * *
57746855 TTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTAGATTTTATTTTTAAAAATATACTATTT
130 CTAATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTT
* * * *
57746920 TCGTATTTTATTTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTATTATTATT
195 TCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTT
* * *
57746985 TTATATTAATTTAGTAAATAACCCTGATTTCGGT-CCTTTGTTTGTGTTTTTAAAATTTTCGGAT
259 TTATATTAATTTAGTAAATAACCCTAATTT-TGTCCCTTTGTTTGTATTTTTAAAATTTTCGGAT
* *
57747049 TTTATTTTTAAAAATATACTATTTTTTTATTTTATTTTTTTATATTATTTTAGTACATAATGTTT
323 TTTATTTTT-AAATTAGACTA--TTTTTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTT
* * * *
57747114 CAAATGTATTATTTTAGTG-CTTTTATATCAATTTACTAAATAACCCTAATTTTGGCCCTTTGTT
384 CAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTAATTTTGTCCCTTTGTT
57747178 TGT
449 TGT
*
57747181 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTA
1 ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* *
57747246 TTTTTGTACATAATGTTTCAAATGTATTATTTTAGTG-TTTTTATATTAATTTAATAAATAACCC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCC
* *
57747310 TAATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
131 TAATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTT
*
57747375 TGTATTTTAATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTG-TTTTT
196 CGTATTTT-ATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT
* * * *
57747439 TATATTAATTTAGTAAATAATCCTAATTTTGTCCCTTTATTTGTATTATCT-AAATTTTCAGATT
260 TATATTAATTTAGTAAATAACCCTAATTTTGTCCCTTTGTTTGTATT-TTTAAAATTTTCGGATT
* *
57747503 TCA-TTTT---TT-G---A-----A----A-----TATATTATTTTTGTACATAATGTTTCAAAT
324 TTATTTTTAAATTAGACTATTTTTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAAT
* *
57747546 GTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAATCCTAATTTTGTCCCTTTATTTGT
389 GTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTAATTTTGTCCCTTTGTTTGT
* * * *
57747609 ATTATTT-AAATTTTCAGATTTTATTTTTTGAAATATATTATTTTTGTATTTTATTTTTTATATT
1 ATT-TTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
57747673 ATTT
65 ATTT
57747677 AAAAAAACCG
Statistics
Matches: 863, Mismatches: 67, Indels: 62
0.87 0.07 0.06
Matches are distributed among these distances:
427 43 0.05
428 101 0.12
429 3 0.00
433 1 0.00
437 1 0.00
444 1 0.00
447 9 0.01
448 34 0.04
450 2 0.00
452 6 0.01
453 72 0.08
454 236 0.27
455 291 0.34
456 59 0.07
457 4 0.00
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.57
Consensus pattern (451 bp):
ATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCC
TAATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTT
CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTT
ATATTAATTTAGTAAATAACCCTAATTTTGTCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTT
ATTTTTAAATTAGACTATTTTTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGT
ATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTAATTTTGTCCCTTTGTTTGT
Found at i:57747086 original size:13 final size:13
Alignment explanation
Indices: 57747063--57747099 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
57747053 TTTTTAAAAA
*
57747063 TATACTATTTTTT
1 TATATTATTTTTT
*
57747076 TATTTTATTTTTT
1 TATATTATTTTTT
57747089 TATATTATTTT
1 TATATTATTTT
57747100 AGTACATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TATATTATTTTTT
Found at i:57747532 original size:126 final size:126
Alignment explanation
Indices: 57747390--57747656 Score: 507
Period size: 126 Copynumber: 2.1 Consensus size: 126
57747380 TTTAATTTTT
*
57747390 TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAA
1 TATATTATTTTTGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAA
57747455 ATAATCCTAATTTTGTCCCTTTATTTGTATTATCTAAATTTTCAGATTTCATTTTTTGAAA
66 ATAATCCTAATTTTGTCCCTTTATTTGTATTATCTAAATTTTCAGATTTCATTTTTTGAAA
57747516 TATATTATTTTTGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAA
1 TATATTATTTTTGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAA
* *
57747581 ATAATCCTAATTTTGTCCCTTTATTTGTATTATTTAAATTTTCAGATTTTATTTTTTGAAA
66 ATAATCCTAATTTTGTCCCTTTATTTGTATTATCTAAATTTTCAGATTTCATTTTTTGAAA
57747642 TATATTATTTTTGTA
1 TATATTATTTTTGTA
57747657 TTTTATTTTT
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 138 1.00
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.56
Consensus pattern (126 bp):
TATATTATTTTTGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAA
ATAATCCTAATTTTGTCCCTTTATTTGTATTATCTAAATTTTCAGATTTCATTTTTTGAAA
Found at i:57747674 original size:12 final size:13
Alignment explanation
Indices: 57747642--57747676 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
57747632 TTTTTTGAAA
57747642 TATATTATTTTTG
1 TATATTATTTTTG
*
57747655 TATTTTATTTTT-
1 TATATTATTTTTG
57747667 TATATTATTT
1 TATATTATTT
57747677 AAAAAAACCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (13 bp):
TATATTATTTTTG
Found at i:57747733 original size:16 final size:15
Alignment explanation
Indices: 57747712--57747795 Score: 60
Period size: 16 Copynumber: 5.1 Consensus size: 15
57747702 TCAAAAAAAA
57747712 TTATTTTTTTCATATT
1 TTATTTTTTT-ATATT
*
57747728 TTATTTCTTTTTGTATT
1 TTA-TT-TTTTTATATT
**
57747745 TTATTTTTTTATTAAG
1 TTATTTTTTTA-TATT
* *
57747761 ATATTTTTTAAATATT
1 TTATTTTTT-TATATT
57747777 TTATTTTTTATACTATT
1 TTATTTTTT-TA-TATT
57747794 TT
1 TT
57747796 TGTAAAATAG
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
15 5 0.09
16 27 0.51
17 16 0.30
18 5 0.09
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (15 bp):
TTATTTTTTTATATT
Found at i:57748121 original size:10 final size:10
Alignment explanation
Indices: 57748106--57748139 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
57748096 AAAAAAATTA
57748106 CCTTTTTTTT
1 CCTTTTTTTT
57748116 CCTTTTTTTT
1 CCTTTTTTTT
57748126 -CTTTCTTTTT
1 CCTTT-TTTTT
57748136 CCTT
1 CCTT
57748140 CCCTCCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.18
10 15 0.68
11 3 0.14
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
CCTTTTTTTT
Found at i:57754236 original size:23 final size:24
Alignment explanation
Indices: 57754183--57754272 Score: 78
Period size: 23 Copynumber: 3.7 Consensus size: 24
57754173 GCCATGATCG
*
57754183 GTAAGCTCCTCTTGAGCTGATGAACA
1 GTAAGCT-CTATTGAGCTGA-GAACA
57754209 GTAAGCTCTATTGAGCTGA-AACTA
1 GTAAGCTCTATTGAGCTGAGAAC-A
* * * *
57754233 -TAAGCTCCAATGAGTTGAAAACA
1 GTAAGCTCTATTGAGCTGAGAACA
57754256 GTAAGCTCT-TATGAGCT
1 GTAAGCTCTAT-TGAGCT
57754273 AACATATCGG
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
23 19 0.36
24 16 0.30
25 11 0.21
26 7 0.13
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (24 bp):
GTAAGCTCTATTGAGCTGAGAACA
Found at i:57757219 original size:20 final size:20
Alignment explanation
Indices: 57757194--57757232 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
57757184 ATTGATTGTT
57757194 TTGTTTGAA-TTGATTCAAAG
1 TTGTTT-AATTTGATTCAAAG
57757214 TTGTTTAATTTGATTCAAA
1 TTGTTTAATTTGATTCAAA
57757233 ACCCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (20 bp):
TTGTTTAATTTGATTCAAAG
Found at i:57759216 original size:183 final size:185
Alignment explanation
Indices: 57758884--57759256 Score: 448
Period size: 183 Copynumber: 2.0 Consensus size: 185
57758874 AGACAAGGAA
* * *
57758884 GATGGAGAAGACTGTGAAGATATTATAGACTTGGAGAAACCCCATATACAGAAAAGGAAGATCAA
1 GATGGAGAAGACTATGAAGACATTATAGACTTGGAGAAAACCCATATACAGAAAA-GAAGATCAA
* * * * * * *
57758949 GAAGGGAAGAGGAAGACCAAGTTCAAAAGCTGTTGACGCTGATAATCGTCATCAATCGAAGGGAA
65 GAAGAGAAGAGGAAGACCAAGCTCAAAAGCTGTTGACACTAATAACCATCATCAATCGAAGGCAA
** * * * * * *
57759014 GGGAGGACAAGCAGCCTCGAGTTGGCAAATCTGCTGTCG-AGAGGGAAGTATTGATT
130 CAGAGAAAAAGCAGCCTCGAGTTAGAAAATCTGCTGTCGAAG-GGGAAGTATCGATC
* * *
57759070 GATGGAGATGACTATGAAGACATTATAGATTTGGAGAAAATCCATA-AGCA-AAAA-AAGATCAA
1 GATGGAGAAGACTATGAAGACATTATAGACTTGGAGAAAACCCATATA-CAGAAAAGAAGATCAA
* * *
57759132 GACGAGAAGAGGAAGACCGAGCTCAAAAGCTGTTGACACTAATAACCATCATCAATCTAAGGCAA
65 GAAGAGAAGAGGAAGACCAAGCTCAAAAGCTGTTGACACTAATAACCATCATCAATCGAAGGCAA
* * *
57759197 CAGAGAAAAAGCGGCCTCGAGTTATAAAATCTGCTGTTGAAGGGGAAGTATCGATC
130 CAGAGAAAAAGCAGCCTCGAGTTAGAAAATCTGCTGTCGAAGGGGAAGTATCGATC
57759253 GATG
1 GATG
57759257 AATCGGATGG
Statistics
Matches: 158, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
183 109 0.69
184 2 0.01
185 5 0.03
186 42 0.27
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.19
Consensus pattern (185 bp):
GATGGAGAAGACTATGAAGACATTATAGACTTGGAGAAAACCCATATACAGAAAAGAAGATCAAG
AAGAGAAGAGGAAGACCAAGCTCAAAAGCTGTTGACACTAATAACCATCATCAATCGAAGGCAAC
AGAGAAAAAGCAGCCTCGAGTTAGAAAATCTGCTGTCGAAGGGGAAGTATCGATC
Found at i:57763471 original size:14 final size:13
Alignment explanation
Indices: 57763454--57763510 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 13
57763444 TAAGAAATAA
57763454 AAAATATGAAAAAT
1 AAAATAT-AAAAAT
*
57763468 -AAA-A-AAAATT
1 AAAATATAAAAAT
57763478 AAAATA-AAAAAT
1 AAAATATAAAAAT
*
57763490 AAAAAATAAAAAAT
1 AAAATAT-AAAAAT
57763504 AAAATAT
1 AAAATAT
57763511 TTTAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 5 0.14
11 3 0.09
12 12 0.34
13 3 0.09
14 12 0.34
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (13 bp):
AAAATATAAAAAT
Found at i:57763472 original size:7 final size:7
Alignment explanation
Indices: 57763448--57763507 Score: 77
Period size: 7 Copynumber: 8.1 Consensus size: 7
57763438 AATTTTTAAG
57763448 AAATAAA
1 AAATAAA
57763455 AAATATGAA
1 AAATA--AA
57763464 AAATAAA
1 AAATAAA
57763471 AAA-AATTA
1 AAATAA--A
57763479 AAATAAA
1 AAATAAA
57763486 AAATAAA
1 AAATAAA
57763493 AAATAAA
1 AAATAAA
57763500 AAATAAA
1 AAATAAA
57763507 A
1 A
57763508 TATTTTAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
6 2 0.04
7 33 0.69
8 4 0.08
9 9 0.19
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:57763521 original size:14 final size:14
Alignment explanation
Indices: 57763499--57763532 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
57763489 TAAAAAATAA
*
57763499 AAAATAAAATATTTT
1 AAAA-AAAATATTGT
57763514 AAAAAAAATATTGT
1 AAAAAAAATATTGT
57763528 AAAAA
1 AAAAA
57763533 TATAAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
AAAAAAAATATTGT
Found at i:57764833 original size:90 final size:91
Alignment explanation
Indices: 57764647--57764854 Score: 231
Period size: 91 Copynumber: 2.3 Consensus size: 91
57764637 GGAAACTCTG
* * * * * * * *
57764647 ATTTGTGGATAAACCACCAGTA-TTGCAGGTTAATACATTGCCATTAGTAGTGAGTATACAACGG
1 ATTTGTGGACAAACCACCAGTATTTGCAAGTTAATACACTACCAGTAGTAGTAAATACACAACGG
* *
57764711 GTTTACAAATAAAAGCTGGCAATAAA
66 GTTTACAAATAAAAGATGCCAATAAA
* * * *
57764737 AATTGTGGACAAACCACCAGTATTTGCAAGTTAATACGCTACCAGTAGTTGTAAATACACAATGG
1 ATTTGTGGACAAACCACCAGTATTTGCAAGTTAATACACTACCAGTAGTAGTAAATACACAACGG
* * *
57764802 GTTTGCAGATAAAAGATGCCAGT-AA
66 GTTTACAAATAAAAGATGCCAATAAA
* *
57764827 GTTTGTGGACAAACCACCAGTGTTTGCA
1 ATTTGTGGACAAACCACCAGTATTTGCA
57764855 GATAAACTAC
Statistics
Matches: 97, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
90 47 0.48
91 50 0.52
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (91 bp):
ATTTGTGGACAAACCACCAGTATTTGCAAGTTAATACACTACCAGTAGTAGTAAATACACAACGG
GTTTACAAATAAAAGATGCCAATAAA
Found at i:57771723 original size:16 final size:17
Alignment explanation
Indices: 57771700--57771742 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
57771690 TATTTAATTT
57771700 TAATTATTATATTATA-
1 TAATTATTATATTATAG
* *
57771716 TTATTATTATATTTTAG
1 TAATTATTATATTATAG
57771733 TAATTATTAT
1 TAATTATTAT
57771743 TATTTACTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TAATTATTATATTATAG
Found at i:57773117 original size:48 final size:49
Alignment explanation
Indices: 57773039--57773135 Score: 137
Period size: 48 Copynumber: 2.0 Consensus size: 49
57773029 GCTTTATCAT
*
57773039 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
57773087 ATAACTGG-GGCATAAGCC-CTTTATCATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGAGGCAT-AGCCTCTTT-TAATAACTGGGGCATAAGCCCTTTTA
57773136 CACTTCCTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
47 8 0.18
48 25 0.57
49 11 0.25
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:57773121 original size:25 final size:24
Alignment explanation
Indices: 57773039--57773135 Score: 135
Period size: 25 Copynumber: 4.0 Consensus size: 24
57773029 GCTTTATCAT
*
57773039 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
57773064 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
57773087 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
57773112 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
57773136 CACTTCCTCC
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.27
24 17 0.26
25 31 0.47
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:57773209 original size:20 final size:20
Alignment explanation
Indices: 57773184--57773230 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
57773174 TTATGAATAC
57773184 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
57773204 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
57773224 ACCATGT
1 ATCATGT
57773231 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:57776138 original size:20 final size:19
Alignment explanation
Indices: 57776102--57776151 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
57776092 AATAGCTATT
57776102 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTAAAATAA
*
57776121 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTAAAATAA
*
57776141 TTGAAAATGTG
1 TTGTAAATGTG
57776152 AGTTGCTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 16 0.59
21 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (19 bp):
TTGTAAATGTGTAAAATAA
Found at i:57776822 original size:47 final size:48
Alignment explanation
Indices: 57776761--57776883 Score: 194
Period size: 47 Copynumber: 2.6 Consensus size: 48
57776751 ATATTACGCG
57776761 AGCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACA
* **
57776809 A-CCAGTGTAAGACATGTCTGGGACATTCATCGGCCTCGAGATATACA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACA
* *
57776856 AGCTAGTGTAAGACCTGTCTGGGACATG
1 AGCCAGTGTAAGACATGTCTGGGACATG
57776884 GCCTCAGCTT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
47 44 0.65
48 24 0.35
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (48 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACA
Found at i:57776978 original size:49 final size:49
Alignment explanation
Indices: 57776761--57777075 Score: 179
Period size: 49 Copynumber: 6.6 Consensus size: 49
57776751 ATATTACGCG
* * * * *
57776761 AGCCAGTGTAAGACATGTCTGGGACAT-GCATCAACCTCGAGATAT-ACA
1 AGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA-A
* * * * * *
57776809 A-CCAGTGTAAGACATGTCTGGGACAT-TCATCGGCCTCGAGATAT-ACA
1 AGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA-A
* * * * * **
57776856 AGCTAGTGTAAGACCTGTCTGGGACATGGCCTC-AGCT---T-GTTGTT
1 AGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAA
* * * *
57776900 TGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAG
1 AGCCAATGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAA
* * *
57776949 AGCCAATGTAATACCTGTCTGGGACATGGCATCGGCCTCGATATATGAA
1 AGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAA
* * * * * * * **
57776998 AGTCAGTGTAAGACCTATCTAGGATATGGCATCGACTTTGAT--ATGCT
1 AGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAA
* *
57777045 AGCCAGTGTAAGACCATGTTTGGGACATGGC
1 AGCCAATGTAAGACC-TGTCTGGGACATGGC
57777076 GTCGGCATCT
Statistics
Matches: 211, Mismatches: 45, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
44 30 0.14
45 1 0.00
46 1 0.00
47 61 0.29
48 39 0.18
49 79 0.37
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (49 bp):
AGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAA
Found at i:57777027 original size:142 final size:139
Alignment explanation
Indices: 57776764--57777027 Score: 327
Period size: 142 Copynumber: 1.9 Consensus size: 139
57776754 TTACGCGAGC
* *
57776764 CAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACAACCAGTGTAAGACATGTCTG
1 CAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGAGATACAACCAATGTAAGACATGTCTG
* * *
57776829 GGACATTCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGGACATGGCCTCAGCTT
66 GGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTATCTAGGACATGGCCTCAGCTT
57776894 GTTGTTTGT
131 GTTGTTTGT
* * * * * * *
57776903 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCCAATGTAATACCTGT
1 CAGTGTAAGACATGTCTGGGACAT-GCATCAAC-CTCGAGAGAT-ACAACCAATGTAAGACATGT
* *
57776967 CTGGGACATGGCATCGGCCTCGATATATGA-AAG-TCAGTGTAAGACCTATCTAGGATATGGC
63 CTGGGACAT-GCATCGGCCTCGAGATAT-ACAAGCT-AGTGTAAGACCTATCTAGGACATGGC
57777028 ATCGACTTTG
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
139 23 0.22
140 13 0.12
141 26 0.25
142 42 0.40
143 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (139 bp):
CAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGAGATACAACCAATGTAAGACATGTCTG
GGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTATCTAGGACATGGCCTCAGCTT
GTTGTTTGT
Found at i:57780890 original size:40 final size:40
Alignment explanation
Indices: 57780785--57781121 Score: 565
Period size: 40 Copynumber: 8.5 Consensus size: 40
57780775 CGGATGATAA
* *
57780785 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
57780825 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57780864 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57780904 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57780944 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57780984 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57781024 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57781064 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
57781104 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57781122 TACTTGGTTT
Statistics
Matches: 286, Mismatches: 8, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
39 51 0.18
40 235 0.82
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57788748 original size:40 final size:40
Alignment explanation
Indices: 57788689--57788945 Score: 439
Period size: 40 Copynumber: 6.5 Consensus size: 40
57788679 GGATTGATAA
*
57788689 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57788728 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57788768 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57788808 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57788848 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57788888 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
57788928 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57788946 TACTTGGGTT
Statistics
Matches: 210, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
39 26 0.12
40 184 0.88
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57793003 original size:40 final size:40
Alignment explanation
Indices: 57792948--57793028 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
57792938 TTTTCAGAAA
57792948 AAACTTACCAAAATTGAAAGAAAAACAATTTAAATTTACT
1 AAACTTACCAAAATTGAAAGAAAAACAATTTAAATTTACT
*
57792988 AAACTTACCTAAATTGAAAGAAAAACAATTTAAATTTACT
1 AAACTTACCAAAATTGAAAGAAAAACAATTTAAATTTACT
57793028 A
1 A
57793029 TCCTAGGTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.28
Consensus pattern (40 bp):
AAACTTACCAAAATTGAAAGAAAAACAATTTAAATTTACT
Found at i:57793731 original size:11 final size:11
Alignment explanation
Indices: 57793715--57793740 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
57793705 GGTTAGTCAT
57793715 GTTAAGATTTA
1 GTTAAGATTTA
57793726 GTTAAGATTTA
1 GTTAAGATTTA
57793737 GTTA
1 GTTA
57793741 GAATTGAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (11 bp):
GTTAAGATTTA
Found at i:57797794 original size:10 final size:9
Alignment explanation
Indices: 57797781--57797846 Score: 71
Period size: 9 Copynumber: 6.9 Consensus size: 9
57797771 TAAAATCAAT
57797781 AAAAATATA
1 AAAAATATA
57797790 AAAAATCAT-
1 AAAAAT-ATA
57797799 AAAAATATA
1 AAAAATATA
*
57797808 GAAAATCATA
1 AAAAAT-ATA
57797818 AAAAATATA
1 AAAAATATA
57797827 TAAAAATTATA
1 -AAAAA-TATA
57797838 AACAAATAT
1 AA-AAATAT
57797847 TAAAGTGCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
8 2 0.04
9 20 0.41
10 20 0.41
11 7 0.14
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.24
Consensus pattern (9 bp):
AAAAATATA
Found at i:57797822 original size:19 final size:19
Alignment explanation
Indices: 57797772--57797846 Score: 91
Period size: 18 Copynumber: 3.9 Consensus size: 19
57797762 TAAAATCATT
57797772 AAAATCA-ATAAAAATATAA
1 AAAATCATA-AAAAATATAA
*
57797791 AAAATCAT-AAAAATATAG
1 AAAATCATAAAAAATATAA
57797809 AAAATCATAAAAAATATATA
1 AAAATCATAAAAAATATA-A
*
57797829 AAAATTATAAACAAATAT
1 AAAATCATAAA-AAATAT
57797847 TAAAGTGCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
18 17 0.35
19 16 0.33
20 10 0.20
21 6 0.12
ACGTcount: A:0.69, C:0.05, G:0.01, T:0.24
Consensus pattern (19 bp):
AAAATCATAAAAAATATAA
Found at i:57798038 original size:19 final size:20
Alignment explanation
Indices: 57798016--57798058 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
57798006 AAAATTATGT
57798016 AAAATATTT-AAAATATAGA
1 AAAATATTTAAAAATATAGA
57798035 AAAATATTTAAAAAATATAGA
1 AAAATATTT-AAAAATATAGA
57798056 AAA
1 AAA
57798059 GTGAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 9 0.41
21 13 0.59
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAATATTTAAAAATATAGA
Found at i:57798051 original size:21 final size:21
Alignment explanation
Indices: 57797992--57798058 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 21
57797982 TATAAATTAT
*
57797992 GAAAAAAATTGTAAAAAAT-TA
1 GAAAAATATT-TAAAAAATATA
*
57798013 TGTAAAATATTT--AAAATATA
1 -GAAAAATATTTAAAAAATATA
57798033 GAAAAATATTTAAAAAATATA
1 GAAAAATATTTAAAAAATATA
57798054 GAAAA
1 GAAAA
57798059 GTGAAAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 15 0.38
20 2 0.05
21 14 0.36
22 8 0.21
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.28
Consensus pattern (21 bp):
GAAAAATATTTAAAAAATATA
Found at i:57798085 original size:19 final size:19
Alignment explanation
Indices: 57798061--57798098 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
57798051 ATAGAAAAGT
57798061 GAAAATTATAAAAAATATA
1 GAAAATTATAAAAAATATA
*
57798080 GAAAATTATGAAAAATATA
1 GAAAATTATAAAAAATATA
57798099 TTACAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (19 bp):
GAAAATTATAAAAAATATA
Found at i:57798515 original size:8 final size:8
Alignment explanation
Indices: 57798504--57798600 Score: 56
Period size: 8 Copynumber: 11.6 Consensus size: 8
57798494 TTTTTAATAT
57798504 TTTTATAA
1 TTTTATAA
57798512 TTTTTCATAA
1 -TTTT-ATAA
*
57798522 -TTTATAT
1 TTTTATAA
57798529 TTTTAT-A
1 TTTTATAA
57798536 TTTTATAA
1 TTTTATAA
*
57798544 TTTTTAGTTA
1 -TTTTA-TAA
*
57798554 TTTTAAAA
1 TTTTATAA
57798562 TTTATATAA
1 TTT-TATAA
* **
57798571 ATTTATTC
1 TTTTATAA
57798579 TTTTATAA
1 TTTTATAA
57798587 TATTT-TATA
1 T-TTTATA-A
57798596 TTTTA
1 TTTTA
57798601 ATGATTTTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
7 9 0.13
8 27 0.40
9 25 0.37
10 6 0.09
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (8 bp):
TTTTATAA
Found at i:57798592 original size:10 final size:10
Alignment explanation
Indices: 57798412--57798595 Score: 56
Period size: 10 Copynumber: 18.5 Consensus size: 10
57798402 TTTATTCTTC
*
57798412 TTATAATATG
1 TTATAATATT
57798422 TTATAATATAT
1 TTATAATAT-T
* *
57798433 ATTTTAATTTT
1 -TTATAATATT
*
57798444 TTATTAA-GTT
1 TTA-TAATATT
57798454 TTA-AATATT
1 TTATAATATT
57798463 TT-TAATAATT
1 TTATAAT-ATT
**
57798473 TT-CCATATT
1 TTATAATATT
57798482 TTAAAATAATATT
1 TT---ATAATATT
*
57798495 TTTTAATATTT
1 TTATAATA-TT
57798506 TTATAAT-TT
1 TTATAATATT
57798515 TTCATAATTTATAT
1 TT-ATAA--TAT-T
*
57798529 TT-TTATATT
1 TTATAATATT
57798538 TTATAAT-TT
1 TTATAATATT
57798547 TTAGT--TATT
1 TTA-TAATATT
57798556 TTA-AA-ATT
1 TTATAATATT
57798564 TATATAA-A-T
1 T-TATAATATT
*
57798573 TTAT--TCTT
1 TTATAATATT
57798581 TTATAATATT
1 TTATAATATT
57798591 TTATA
1 TTATA
57798596 TTTTAATGAT
Statistics
Matches: 131, Mismatches: 16, Indels: 54
0.65 0.08 0.27
Matches are distributed among these distances:
8 15 0.11
9 33 0.25
10 50 0.38
11 12 0.09
12 10 0.08
13 8 0.06
14 3 0.02
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
TTATAATATT
Found at i:57798625 original size:42 final size:42
Alignment explanation
Indices: 57798520--57798634 Score: 112
Period size: 42 Copynumber: 2.8 Consensus size: 42
57798510 AATTTTTCAT
57798520 AATTTATAT--TTTTATATTTTATAAT-TTTTAGTTATTTTAA
1 AATTTATATAATTTTATATTTTATAATATTTTAG-TATTTTAA
* *
57798560 AATTTATATAAATTTATTCTTTTATAATATTTTA-TATTTTAA
1 AATTTATATAATTTTA-TATTTTATAATATTTTAGTATTTTAA
* * * * *
57798602 TGATTTTTTTCATTTTATATTTTAAAATATTTT
1 -AATTTATATAATTTTATATTTTATAATATTTT
57798635 TATAACTGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
40 9 0.15
42 26 0.43
43 21 0.34
44 5 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (42 bp):
AATTTATATAATTTTATATTTTATAATATTTTAGTATTTTAA
Found at i:57798634 original size:25 final size:25
Alignment explanation
Indices: 57798588--57798635 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
57798578 CTTTTATAAT
*
57798588 ATTTTATATTTTAATGATTTTTTTC
1 ATTTTATATTTTAATAATTTTTTTC
*
57798613 ATTTTATATTTTAA-AATATTTTT
1 ATTTTATATTTTAATAATTTTTTT
57798636 ATAACTGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
ATTTTATATTTTAATAATTTTTTTC
Found at i:57798686 original size:22 final size:22
Alignment explanation
Indices: 57798659--57798704 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
57798649 ATTTTTACTA
*
57798659 TTTTTATTATTTTCTA-TAATTT
1 TTTTTATAATTTT-TATTAATTT
57798681 TTTTTATAATTTTTATTAATTT
1 TTTTTATAATTTTTATTAATTT
57798703 TT
1 TT
57798705 ACTAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTATAATTTTTATTAATTT
Found at i:57798693 original size:31 final size:32
Alignment explanation
Indices: 57798650--57798711 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
57798640 CTGTAATATA
57798650 TTTTTACTATTTTTATT-ATTTTCTA-TAATTT
1 TTTTTACTATTTTTATTAATTTT-TACTAATTT
57798681 TTTTTA-TAATTTTTATTAATTTTTACTAATT
1 TTTTTACT-ATTTTTATTAATTTTTACTAATT
57798712 ATAGATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
30 1 0.04
31 17 0.61
32 10 0.36
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (32 bp):
TTTTTACTATTTTTATTAATTTTTACTAATTT
Found at i:57798695 original size:9 final size:9
Alignment explanation
Indices: 57798502--57798711 Score: 86
Period size: 9 Copynumber: 23.3 Consensus size: 9
57798492 ATTTTTTAAT
57798502 ATTTTTATA
1 ATTTTTATA
57798511 ATTTTTCATA
1 ATTTTT-ATA
57798521 A--TTTAT-
1 ATTTTTATA
57798527 ATTTTTAT-
1 ATTTTTATA
57798535 A-TTTTATA
1 ATTTTTATA
*
57798543 ATTTTTAGTT
1 ATTTTTA-TA
*
57798553 A-TTTTAAA
1 ATTTTTATA
*
57798561 ATTTATATA
1 ATTTTTATA
*
57798570 A-ATTTAT-
1 ATTTTTATA
57798577 -TCTTTTATA
1 AT-TTTTATA
57798586 ATATTTTAT-
1 AT-TTTTATA
* *
57798595 ATTTTAATG
1 ATTTTTATA
* *
57798604 ATTTTTTTC
1 ATTTTTATA
57798613 A-TTTTAT-
1 ATTTTTATA
* *
57798620 ATTTTAAAA
1 ATTTTTATA
57798629 TATTTTTATA
1 -ATTTTTATA
* * *
57798639 ACTGTAATA
1 ATTTTTATA
57798648 TATTTTTACT-
1 -ATTTTTA-TA
*
57798658 ATTTTTATT
1 ATTTTTATA
57798667 ATTTTCTATA
1 ATTTT-TATA
57798677 ATTTTTTTTATA
1 A---TTTTTATA
57798689 ATTTTTATTA
1 ATTTTTA-TA
57798699 ATTTTTACTA
1 ATTTTTA-TA
57798709 ATT
1 ATT
57798712 ATAGATATAT
Statistics
Matches: 152, Mismatches: 26, Indels: 45
0.68 0.12 0.20
Matches are distributed among these distances:
6 1 0.01
7 9 0.06
8 35 0.23
9 55 0.36
10 42 0.28
11 1 0.01
12 5 0.03
13 4 0.03
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:57799377 original size:32 final size:32
Alignment explanation
Indices: 57799341--57799401 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
57799331 TAAATAATGA
57799341 TAGACTCTAAATCGGCCCGATTTGGACAAAGT
1 TAGACTCTAAATCGGCCCGATTTGGACAAAGT
*
57799373 TAGACTCTAAATTGGCCCGATTTGGACAA
1 TAGACTCTAAATCGGCCCGATTTGGACAA
57799402 GGTTTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (32 bp):
TAGACTCTAAATCGGCCCGATTTGGACAAAGT
Found at i:57799672 original size:19 final size:20
Alignment explanation
Indices: 57799646--57799686 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
57799636 TTAAATATTT
57799646 ATATATTTATATATTTTAAAA
1 ATAT-TTTATATATTTTAAAA
* *
57799667 ATATTTTTTATTTTTTAAAA
1 ATATTTTATATATTTTAAAA
57799687 TTTTAAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATTTTATATATTTTAAAA
Found at i:57806359 original size:12 final size:12
Alignment explanation
Indices: 57806342--57806366 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57806332 AGCTTGAAAT
57806342 GCTGGTGAGCTC
1 GCTGGTGAGCTC
57806354 GCTGGTGAGCTC
1 GCTGGTGAGCTC
57806366 G
1 G
57806367 TACTTTTTTT
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:0.08, C:0.24, G:0.44, T:0.24
Consensus pattern (12 bp):
GCTGGTGAGCTC
Found at i:57809999 original size:25 final size:24
Alignment explanation
Indices: 57809971--57810040 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
57809961 CTAAATAACG
*
57809971 GGAAGCTCGTGAGAGCCAAGTATTA
1 GGAAGCTCATGAGAGCCAA-TATTA
*
57809996 GGAAGCTCAAGAGAGCCAATATTA
1 GGAAGCTCATGAGAGCCAATATTA
*
57810020 -GAATGCTCATGAGAGCTAATA
1 GGAA-GCTCATGAGAGCCAATA
57810041 ACGGATGCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.08
24 20 0.50
25 17 0.43
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (24 bp):
GGAAGCTCATGAGAGCCAATATTA
Found at i:57810959 original size:13 final size:14
Alignment explanation
Indices: 57810943--57810972 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57810933 TATTATTTAT
57810943 TTTA-TTTATCATC
1 TTTATTTTATCATC
57810956 TTTATTTTATCATC
1 TTTATTTTATCATC
57810970 TTT
1 TTT
57810973 CCAATTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTTTATCATC
Found at i:57814265 original size:20 final size:22
Alignment explanation
Indices: 57814237--57814278 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
57814227 GTTAAAGGCA
57814237 TTACAGAACAAATCAA-AACAT
1 TTACAGAACAAATCAATAACAT
*
57814258 TTAC-GAACAATTCAATAACAT
1 TTACAGAACAAATCAATAACAT
57814279 CATCCACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.52, C:0.19, G:0.05, T:0.24
Consensus pattern (22 bp):
TTACAGAACAAATCAATAACAT
Found at i:57815864 original size:44 final size:42
Alignment explanation
Indices: 57815709--57815870 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 42
57815699 GGAAAGCTCG
* * * ** *
57815709 TACAATGCCAATGTCTCAGACGTGGTCTTACTTGTAATCAAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAA
*
57815751 TATCAATGCC-ACTATCCCAGACATGGTCTTACACGAAATCAAA
1 TA-CAATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAA
* * *
57815794 TACGATGCCAACGTCCCAGACGTGGTCTTACATGTAAATACCAAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACG-AAAT--CAAA
* * *
57815839 T-CAATGCGAACGTCCTAGACCTGGTCTTACAC
1 TACAATGCCAACGTCCCAGACATGGTCTTACAC
57815871 AAAAATACAT
Statistics
Matches: 98, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 28 0.29
43 39 0.40
44 26 0.27
45 5 0.05
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
TACAATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAA
Found at i:57815878 original size:44 final size:44
Alignment explanation
Indices: 57815747--57815874 Score: 120
Period size: 44 Copynumber: 2.9 Consensus size: 44
57815737 TACTTGTAAT
* *
57815747 CAAATATCAATGCC-ACTATCCCAGACATGGTCTTACACGAAAT--
1 CAAATA-CAATGCCAAC-GTCCCAGACATGGTCTTACACAAAATAC
* * **
57815790 CAAATACGATGCCAACGTCCCAGACGTGGTCTTACATGTAAATAC
1 CAAATACAATGCCAACGTCCCAGACATGGTCTTACA-CAAAATAC
* * *
57815835 CAAAT-CAATGCGAACGTCCTAGACCTGGTCTTACACAAAA
1 CAAATACAATGCCAACGTCCCAGACATGGTCTTACACAAAA
57815875 ATACATATAA
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 24 0.34
43 15 0.21
44 26 0.37
45 5 0.07
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (44 bp):
CAAATACAATGCCAACGTCCCAGACATGGTCTTACACAAAATAC
Found at i:57830465 original size:17 final size:17
Alignment explanation
Indices: 57830443--57830478 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
57830433 ACTTCTTCTG
*
57830443 TTTGTTGTTTGTTGCAA
1 TTTGTTGTTTGCTGCAA
57830460 TTTGTTGTTTGCTGCAA
1 TTTGTTGTTTGCTGCAA
57830477 TT
1 TT
57830479 CTATTAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.08, G:0.22, T:0.58
Consensus pattern (17 bp):
TTTGTTGTTTGCTGCAA
Found at i:57833646 original size:21 final size:21
Alignment explanation
Indices: 57833571--57833636 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
57833561 GTCTTGAATT
57833571 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
57833592 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
57833617 TGTTAGATATTGAATTTATT
1 TGTTAGATATTGAATTTATT
57833637 TGGTTGGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 14 0.38
22 2 0.05
23 4 0.11
24 2 0.05
25 15 0.41
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:57834906 original size:28 final size:28
Alignment explanation
Indices: 57834874--57834932 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
57834864 ACAATATATG
* * *
57834874 TAAAAAATATTTTAAAGTATAAATTTAT
1 TAAAAAACAATTTAAAATATAAATTTAT
57834902 TAAAAAACAATTTAAAATATAAATTTAT
1 TAAAAAACAATTTAAAATATAAATTTAT
57834930 TAA
1 TAA
57834933 TATATGTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (28 bp):
TAAAAAACAATTTAAAATATAAATTTAT
Found at i:57835949 original size:43 final size:43
Alignment explanation
Indices: 57835858--57836463 Score: 374
Period size: 43 Copynumber: 14.1 Consensus size: 43
57835848 ACAGGTTATA
* * * * * *
57835858 CTTCGGTTTATCTGATGATGCCTCTGTATGTGCCAGTATATTTT
1 CTTCGGTTTGTCCGATGATG-CACTGTGTGTGCCAGTATAGTTG
* *
57835902 CTTAGGTTTGCCCGATGATGCACTGTGTGTGCCAGTATAGTTG
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * * * * * * *
57835945 CTTAGATATATCTGATGATGCACTGTATGTACCAGTATATTTT
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * * * * *
57835988 ATTCGGTTTGTCCAATAATGCACT-TCATTTGCTAGTATAGTTA
1 CTTCGGTTTGTCCGATGATGCACTGT-GTGTGCCAGTATAGTTG
* * * * *
57836031 CTTCGATATATCCGATGATGCACTGTGTGTGCCAGTATATTTT
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* *** * *
57836074 CTTCGGCTTGTTTAATGATGCACTGCGTGTGCCAATATAGTTG
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * * *
57836117 CTTTGATATT-TCCGATAATGCACTGTGTGTGCCAGTATATTTT
1 CTTCGGT-TTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * *
57836160 CTTCTGTTTTTCCAATGATGCACTGTGTGTGCCAATATAGTTG
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * * * * * *
57836203 CTTTGGTATATCTGATGATACACTGTGTGTACCAGTATATTTT
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * * *
57836246 CTTCGATTTGTCTGATGGTGCACTATGTGTGCTAGTATAGTTG
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * ***** * *
57836289 CTTCTGTATATCCGATGATGCACTAAAAATGCCAATATATGCT-
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATA-GTTG
* * * *
57836332 CTTCAGTTTGTCCAATGATGCACTGTGTGTACCAATATAGTTG
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
* * * * * * * *
57836375 TTTTGGTAT-ACACGATGATGCACTGTGGGTGCTAGTATATTTT
1 CTTCGGTTTGTC-CGATGATGCACTGTGTGTGCCAGTATAGTTG
* ** * **
57836418 CTTCGGTTTGTCCAACAATGCACTGTCTGTGCCAACATAGTTG
1 CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
57836461 CTT
1 CTT
57836464 TGGTACATTC
Statistics
Matches: 411, Mismatches: 143, Indels: 17
0.72 0.25 0.03
Matches are distributed among these distances:
42 6 0.01
43 383 0.93
44 22 0.05
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (43 bp):
CTTCGGTTTGTCCGATGATGCACTGTGTGTGCCAGTATAGTTG
Found at i:57836466 original size:86 final size:86
Alignment explanation
Indices: 57835866--57836482 Score: 637
Period size: 86 Copynumber: 7.2 Consensus size: 86
57835856 TACTTCGGTT
* * * * * *
57835866 TATCTGATGATGCCTCTGTATGTGCCAGTATATTTTCTTAGGTTTGCCCGATGATGCACTGTGTG
1 TATCCGATGATG-CACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGTGTG
* * *
57835931 TGCCAGTATAGTTGCTTAGATA
65 TGCCAATATAGTTGCTTTGGTA
* * * * * * *
57835953 TATCTGATGATGCACTGTATGTACCAGTATATTTTATTCGGTTTGTCCAATAATGCACT-TCATT
1 TATCCGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGT-GTG
* * * * *
57836017 TGCTAGTATAGTTACTTCGATA
65 TGCCAATATAGTTGCTTTGGTA
* ** *
57836039 TATCCGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGCTTGTTTAATGATGCACTGCGTGT
1 TATCCGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGTGTGT
*
57836104 GCCAATATAGTTGCTTTGATA
66 GCCAATATAGTTGCTTTGGTA
* * * *
57836125 TTTCCGATAATGCACTGTGTGTGCCAGTATATTTTCTTCTGTTTTTCCAATGATGCACTGTGTGT
1 TATCCGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGTGTGT
57836190 GCCAATATAGTTGCTTTGGTA
66 GCCAATATAGTTGCTTTGGTA
* * * * ** * *
57836211 TATCTGATGATACACTGTGTGTACCAGTATATTTTCTTCGATTTGTCTGATGGTGCACTATGTGT
1 TATCCGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGTGTGT
* *
57836276 GCTAGTATAGTTGCTTCT-GTA
66 GCCAATATAGTTGCTT-TGGTA
***** * ** *
57836297 TATCCGATGATGCACTAAAAATGCCAATATATGCTCTTCAGTTTGTCCAATGATGCACTGTGTGT
1 TATCCGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGTGTGT
* *
57836362 ACCAATATAGTTGTTTTGGTA
66 GCCAATATAGTTGCTTTGGTA
* * ** *
57836383 TA-CACGATGATGCACTGTGGGTGCTAGTATATTTTCTTCGGTTTGTCCAACAATGCACTGTCTG
1 TATC-CGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGTGTG
*
57836447 TGCCAACATAGTTGCTTTGGTA
65 TGCCAATATAGTTGCTTTGGTA
* * *
57836469 CATTCAATGATGCA
1 TATCCGATGATGCA
57836483 AGTATGATGA
Statistics
Matches: 434, Mismatches: 90, Indels: 13
0.81 0.17 0.02
Matches are distributed among these distances:
85 3 0.01
86 418 0.96
87 13 0.03
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (86 bp):
TATCCGATGATGCACTGTGTGTGCCAGTATATTTTCTTCGGTTTGTCCAATGATGCACTGTGTGT
GCCAATATAGTTGCTTTGGTA
Found at i:57839942 original size:18 final size:18
Alignment explanation
Indices: 57839921--57839958 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
57839911 TCTCTTTGTT
*
57839921 CTCTTCGTTCTCAGCTTC
1 CTCTTCGTTCTCAACTTC
*
57839939 CTCTTCTTTCTCAACTTC
1 CTCTTCGTTCTCAACTTC
57839957 CT
1 CT
57839959 ATTTGTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.39, G:0.05, T:0.47
Consensus pattern (18 bp):
CTCTTCGTTCTCAACTTC
Found at i:57841130 original size:59 final size:60
Alignment explanation
Indices: 57841067--57841189 Score: 144
Period size: 60 Copynumber: 2.1 Consensus size: 60
57841057 GACAAAATTG
* *
57841067 AATAGTTGGGTGATTATTTTCT-ATTTTTTCATAGTT-GA-GTAACAAAAAAGAAATTTAAT
1 AATAGTTGGGCGATCATTTTCTAATTTTTT-ATAGTTGGATG-AACAAAAAAGAAATTTAAT
* * ** *
57841126 AATAGTTGGGCGATCATTTTGTAATTTTTTATATTTGGATGATTAAAAAAGAAATTTACT
1 AATAGTTGGGCGATCATTTTCTAATTTTTTATAGTTGGATGAACAAAAAAGAAATTTAAT
57841186 AATA
1 AATA
57841190 ATTTAATGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
59 24 0.44
60 29 0.54
61 1 0.02
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.42
Consensus pattern (60 bp):
AATAGTTGGGCGATCATTTTCTAATTTTTTATAGTTGGATGAACAAAAAAGAAATTTAAT
Found at i:57845642 original size:15 final size:16
Alignment explanation
Indices: 57845611--57845646 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
57845601 TATTACATAC
57845611 ATTAAATAAATAATAT
1 ATTAAATAAATAATAT
*
57845627 ATTAAAT-AATACTAT
1 ATTAAATAAATAATAT
57845642 ATTAA
1 ATTAA
57845647 GTTTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTAAATAAATAATAT
Found at i:57846193 original size:30 final size:29
Alignment explanation
Indices: 57846159--57846216 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
57846149 GACTTTCATG
57846159 TATAT-ATTTGAACTAAATCAAATATTTATA
1 TATATAATTT-AACTAAATCAAA-ATTTATA
* *
57846189 TATATAATTTCACTAAATTAAAATTTAT
1 TATATAATTTAACTAAATCAAAATTTAT
57846217 GTATCAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 15 0.60
31 4 0.16
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (29 bp):
TATATAATTTAACTAAATCAAAATTTATA
Found at i:57846871 original size:21 final size:21
Alignment explanation
Indices: 57846833--57846890 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
57846823 GTTTTAAGAA
*
57846833 TTGTTTTAGTATCATTTTTAT
1 TTGTTTTAATATCATTTTTAT
**
57846854 TTGTTTTAATATTTTTTTTAT
1 TTGTTTTAATATCATTTTTAT
*
57846875 GTT-TTTAAATAT-ATTT
1 -TTGTTTTAATATCATTT
57846891 GATTTATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (21 bp):
TTGTTTTAATATCATTTTTAT
Found at i:57849505 original size:37 final size:38
Alignment explanation
Indices: 57849436--57849562 Score: 157
Period size: 38 Copynumber: 3.4 Consensus size: 38
57849426 ATAATACTAA
* * *
57849436 AACAGTAGACATGCTTAACGTGTATTCAGTTCAAC-AT
1 AACAATAGACATGCTTAACATGTATTCGGTTCAACAAT
* * * *
57849473 AACAATAGACATGCTTATCATGTTTTTGGTTCAACGAT
1 AACAATAGACATGCTTAACATGTATTCGGTTCAACAAT
* *
57849511 AATAATAGACATGTTTAACATGTATTCGGTTCAACAAT
1 AACAATAGACATGCTTAACATGTATTCGGTTCAACAAT
*
57849549 AACAATAGGCATGC
1 AACAATAGACATGC
57849563 AACTATTAAT
Statistics
Matches: 74, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
37 29 0.39
38 45 0.61
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (38 bp):
AACAATAGACATGCTTAACATGTATTCGGTTCAACAAT
Found at i:57851354 original size:47 final size:46
Alignment explanation
Indices: 57851282--57851592 Score: 164
Period size: 47 Copynumber: 6.6 Consensus size: 46
57851272 TCATTTGTGC
*
57851282 GCTAGTGTAAGA-CATGTCTGAGACATGCATCGACCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCG-CCACATTATGAGA
* *
57851328 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG--GCATTAAGACAAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGCCACATTATG---AGA
* * * *
57851376 GCTAATGTAAGA-CATGTCTGGGACATGCTTCGGCTAC--GA-GAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-GCCACATTATGAGA
* * * *
57851419 TG-TCAGTGTAAGACCATGTTTGGGATATGGCATCGGCACGGATATGTGAGA
1 -GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGCCAC--AT-TATGAGA
* * * *
57851470 GCTAGTGTAAGACCATGTAT-GGACATGGCGTCGGCCTCGATT-TCGATA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATC-GCCAC-ATTAT-GAGA
* *
57851518 G-TCAGTGTAAGACCATGTCTAGGACATGACATCG--TC-TTGATGGATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATG-CATCGCCACATT-AT-GA-GA
* *
57851565 GCCAGTGTAAGACCATGTCTGTGACATG
1 GCTAGTGTAAGACCATGTCTGGGACATG
57851593 GCAGTGGCAT
Statistics
Matches: 209, Mismatches: 28, Indels: 55
0.72 0.10 0.19
Matches are distributed among these distances:
43 4 0.02
44 11 0.05
45 21 0.10
46 26 0.12
47 56 0.27
48 43 0.21
49 23 0.11
50 20 0.10
51 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGCCACATTATGAGA
Found at i:57851482 original size:94 final size:93
Alignment explanation
Indices: 57851282--57851456 Score: 221
Period size: 92 Copynumber: 1.9 Consensus size: 93
57851272 TCATTTGTGC
* *
57851282 GCTAGTGTAAGACATGTCTGAGACATGCATCGACCACATTATGAGAGCTAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACA-GATGAGAGCTAGTGTAAGACCATGTC
*
57851347 TGGGACATGGCATCGGCATTAAGACAAGA
65 TGGGACATGGCATCGGCAATAAGACAAGA
* * * *
57851376 GCTAATGTAAGACATGTCTGGGACATGCTTCGGCTAC-GA-GAGATG-TCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACAGATGAGA-GCT-AGTGTAAGACCATGT
* *
57851438 TTGGGATATGGCATCGGCA
64 CTGGGACATGGCATCGGCA
57851457 CGGATATGTG
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
91 5 0.07
92 34 0.48
94 32 0.45
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACAGATGAGAGCTAGTGTAAGACCATGTCT
GGGACATGGCATCGGCAATAAGACAAGA
Found at i:57854481 original size:12 final size:12
Alignment explanation
Indices: 57854443--57854480 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
57854433 TTTTTCTCTC
*
57854443 TTTCTTCTTCTT
1 TTTCTTCTTTTT
*
57854455 TTCCTTCTTTTT
1 TTTCTTCTTTTT
57854467 TTTCTT-TTTTT
1 TTTCTTCTTTTT
57854478 TTT
1 TTT
57854481 TAATTTACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTCTTCTTTTT
Found at i:57861420 original size:51 final size:51
Alignment explanation
Indices: 57861360--57861461 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
57861350 GGATGCTTTT
57861360 AAGTGAAACCTCAACCCTCCATACAAAGACCCCCAAAGACCAACAAACAGG
1 AAGTGAAACCTCAACCCTCCATACAAAGACCCCCAAAGACCAACAAACAGG
57861411 AAGTGAAACCTCAACCCTCCATACAAAGACCCCCAAAGACCAACAAACAGG
1 AAGTGAAACCTCAACCCTCCATACAAAGACCCCCAAAGACCAACAAACAGG
57861462 CATACAACAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.45, C:0.35, G:0.12, T:0.08
Consensus pattern (51 bp):
AAGTGAAACCTCAACCCTCCATACAAAGACCCCCAAAGACCAACAAACAGG
Found at i:57871869 original size:2 final size:2
Alignment explanation
Indices: 57871862--57871911 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
57871852 TTTATTAAAA
57871862 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
57871904 AG AG AG AG
1 AG AG AG AG
57871912 GATGTGGTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:57872460 original size:27 final size:27
Alignment explanation
Indices: 57872408--57872468 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
57872398 TGTGTGTTTA
* *
57872408 AAAATAATATATAATTATCAACTAATG
1 AAAATAATATAAAATTATAAACTAATG
* *
57872435 AAAATAATA-AAAATATATAAATTAATT
1 AAAATAATATAAAAT-TATAAACTAATG
57872462 AAAATAA
1 AAAATAA
57872469 AACTTTAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAATAATATAAAATTATAAACTAATG
Found at i:57873650 original size:31 final size:31
Alignment explanation
Indices: 57873611--57873679 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
57873601 AATTGGTTCC
* *
57873611 TAAATTTGAGACTTTTTCTCAATTTAGTA-T
1 TAAATTTGACACTTTTTCTCAAGTTAGTAGT
* *
57873641 TGAAATTTGACATTTTTTCTTAAGTTAGTAGT
1 T-AAATTTGACACTTTTTCTCAAGTTAGTAGT
57873673 TAAATTT
1 TAAATTT
57873680 TTCGGGATCC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 1 0.03
31 30 0.91
32 2 0.06
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (31 bp):
TAAATTTGACACTTTTTCTCAAGTTAGTAGT
Found at i:57874150 original size:26 final size:28
Alignment explanation
Indices: 57874097--57874156 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 28
57874087 AACATCTAAT
57874097 AAATTTAGGTACCAAATTAAACGTAAAAA
1 AAATTTAGGTACCAAATT-AACGTAAAAA
57874126 AAATCTTAGGTACCAAATT-A-G-AAAAA
1 AAAT-TTAGGTACCAAATTAACGTAAAAA
57874152 AAATT
1 AAATT
57874157 GCTAAGTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
25 1 0.03
26 9 0.30
27 1 0.03
28 1 0.03
29 4 0.13
30 14 0.47
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (28 bp):
AAATTTAGGTACCAAATTAACGTAAAAA
Found at i:57875167 original size:22 final size:21
Alignment explanation
Indices: 57875127--57875167 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
57875117 CAAAAGTTAT
*
57875127 AAAATAAAGTTAAATTTTTTC
1 AAAATAAAGTTAAAATTTTTC
*
57875148 AAAATAAAATTTAAAATTTT
1 AAAAT-AAAGTTAAAATTTT
57875168 AAAACCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
AAAATAAAGTTAAAATTTTTC
Found at i:57879877 original size:39 final size:39
Alignment explanation
Indices: 57879818--57879910 Score: 150
Period size: 39 Copynumber: 2.4 Consensus size: 39
57879808 TAGAATCAAA
* * *
57879818 ATAGTAAAACTAGTCCTATTCACCCTTTACTTCCTATAAT
1 ATAG-AAAACTACTCCTATTCACCATCTACTTCCTATAAT
57879858 ATAGAAAACTACTCCTATTCACCATCTACTTCCTATAAT
1 ATAGAAAACTACTCCTATTCACCATCTACTTCCTATAAT
57879897 ATAGAAAACTACTC
1 ATAGAAAACTACTC
57879911 TTAAAATAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
39 46 0.92
40 4 0.08
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (39 bp):
ATAGAAAACTACTCCTATTCACCATCTACTTCCTATAAT
Found at i:57890420 original size:79 final size:81
Alignment explanation
Indices: 57890284--57890468 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
57890274 TTGAATGATG
*
57890284 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
57890348 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
57890363 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
57890425 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
57890443 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57890469 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:57890482 original size:40 final size:40
Alignment explanation
Indices: 57890285--57890468 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
57890275 TGAATGATGT
* * * *
57890285 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
57890325 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
57890365 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
57890403 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
57890444 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
57890469 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:57890490 original size:79 final size:79
Alignment explanation
Indices: 57890337--57890501 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
57890327 GGACTAAGAT
* **
57890337 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
57890402 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
57890416 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
57890479 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
57890495 CCGAAGG
1 CCGAAGG
57890502 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:57898386 original size:79 final size:81
Alignment explanation
Indices: 57898250--57898434 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
57898240 TTGAATGATG
*
57898250 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
57898314 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
57898329 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
57898391 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
57898409 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57898435 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:57898448 original size:40 final size:40
Alignment explanation
Indices: 57898251--57898434 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
57898241 TGAATGATGT
* * * *
57898251 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
57898291 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
57898331 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
57898369 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
57898410 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
57898435 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:57898456 original size:79 final size:79
Alignment explanation
Indices: 57898303--57898467 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
57898293 GGACTAAGAT
* **
57898303 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
57898368 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
57898382 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
57898445 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
57898461 CCGAAGG
1 CCGAAGG
57898468 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:57901505 original size:39 final size:39
Alignment explanation
Indices: 57901444--57901539 Score: 147
Period size: 39 Copynumber: 2.4 Consensus size: 39
57901434 TGGAATCAAA
* *
57901444 ATAGTAAAACTACTCATATTTGCCCTCTACTTCCTATAAT
1 ATAG-AAAACTACTCCTATTTGCCCTCTACCTCCTATAAT
* *
57901484 ATAGAAAACTAATCCTGTTTGCCCTCTACCTCCTATAAT
1 ATAGAAAACTACTCCTATTTGCCCTCTACCTCCTATAAT
57901523 ATAGAAAACTACTCCTA
1 ATAGAAAACTACTCCTA
57901540 AAATAAATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 46 0.92
40 4 0.08
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.33
Consensus pattern (39 bp):
ATAGAAAACTACTCCTATTTGCCCTCTACCTCCTATAAT
Found at i:57901966 original size:24 final size:24
Alignment explanation
Indices: 57901939--57901987 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
57901929 TATATTTCAT
*
57901939 ATTGAATATCCACTTAATATCTCC
1 ATTGAATATCCACTTAATACCTCC
* * *
57901963 ATTGAGTATTCATTTAATACCTCC
1 ATTGAATATCCACTTAATACCTCC
57901987 A
1 A
57901988 AACTGAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (24 bp):
ATTGAATATCCACTTAATACCTCC
Found at i:57902369 original size:34 final size:34
Alignment explanation
Indices: 57902293--57902370 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
57902283 CAACTTCCTT
* *
57902293 ATAAC-ATACATATAATGTATTCAACAATTGATA
1 ATAACTATACATATAACGCATTCAACAATTGATA
** * *
57902326 ATAGTTATACATATAACGCATTCAATAATTGGTA
1 ATAACTATACATATAACGCATTCAACAATTGATA
57902360 ATAACTATACA
1 ATAACTATACA
57902371 AGCATAATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 3 0.08
34 33 0.92
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (34 bp):
ATAACTATACATATAACGCATTCAACAATTGATA
Found at i:57902905 original size:58 final size:57
Alignment explanation
Indices: 57902831--57902995 Score: 190
Period size: 58 Copynumber: 2.8 Consensus size: 57
57902821 AAGGTTTAAC
*
57902831 TTTTTTTAGTCCAAGTTAGTCCTTGAACTAGACAATTATTCTCACATTGAGCTT-GAACT
1 TTTTTTTA-TCTAAGTTAGT-CTTGAACTAGACAATTATTCTCACATTGAGCTTGGAA-T
* * * * *
57902890 TTTTTTTATCTAAGTTAGTCTCTAAACTTGGCAACTATTCTCACACTGAGCTTGGAAT
1 TTTTTTTATCTAAGTTAGTCT-TGAACTAGACAATTATTCTCACATTGAGCTTGGAAT
* *
57902948 TTTTTTTAT-TAAAGTTAGTTCTTGAACTAGACAATTGTTTTCACATTG
1 TTTTTTTATCT-AAGTTAG-TCTTGAACTAGACAATTATTCTCACATTG
57902996 GTGACATAAA
Statistics
Matches: 89, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
57 3 0.03
58 72 0.81
59 14 0.16
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (57 bp):
TTTTTTTATCTAAGTTAGTCTTGAACTAGACAATTATTCTCACATTGAGCTTGGAAT
Found at i:57903163 original size:59 final size:59
Alignment explanation
Indices: 57903084--57903227 Score: 163
Period size: 59 Copynumber: 2.4 Consensus size: 59
57903074 CTATATTAAA
* * *
57903084 GCTTAACTTTTTTTTAGTCCAAGTTAGTA-TC-TAAACTTGGTAATTATTCTCACACTAAG
1 GCTTAAC-TTTTTTT-GTCCAAGTTAGTACCCTTAAACTTAGAAATTATTCTCACACTAAG
* *
57903143 GCTTAAGCTTTTTTTGGTCCAAGTTA--ACCCTTGAACTTAGAAATTATTCTCACATTAAG
1 GCTTAA-CTTTTTTT-GTCCAAGTTAGTACCCTTAAACTTAGAAATTATTCTCACACTAAG
57903202 GCTTGAACTTTTTTT-TCCAAGTTAGT
1 GCTT-AACTTTTTTTGTCCAAGTTAGT
57903228 TCATTATATT
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
57 10 0.14
58 1 0.01
59 59 0.81
60 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (59 bp):
GCTTAACTTTTTTTGTCCAAGTTAGTACCCTTAAACTTAGAAATTATTCTCACACTAAG
Done.