Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 421 of 427
Found at i:122488660 original size:6 final size:6
Alignment explanation
Indices: 122488645--122488686 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
122488635 AATCCAATGT
*
122488645 AAAAAA AAAAAC AAAAAAAC AAAAAC AAAAAC -AAAAC AAAAA
1 AAAAAC AAAAAC --AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
122488687 AGACATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
5 5 0.16
6 21 0.66
8 6 0.19
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:122489324 original size:43 final size:41
Alignment explanation
Indices: 122489275--122489360 Score: 136
Period size: 41 Copynumber: 2.0 Consensus size: 41
122489265 CGAGGTGAGC
*
122489275 AACGGTCTGGTTTTTCAAAATTCAAAATATAAGATGAACGTTG
1 AACGGTCTGATTTTTC-AAATTC-AAATATAAGATGAACGTTG
*
122489318 AACGGTCTGATTTTTCAAATTCAAATTTAAGATGAACGTTG
1 AACGGTCTGATTTTTCAAATTCAAATATAAGATGAACGTTG
122489359 AA
1 AA
122489361 TGGCAATTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
41 20 0.49
42 6 0.15
43 15 0.37
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (41 bp):
AACGGTCTGATTTTTCAAATTCAAATATAAGATGAACGTTG
Found at i:122490178 original size:9 final size:10
Alignment explanation
Indices: 122490153--122490177 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
122490143 GACCGGACCC
122490153 AAAAAATATT
1 AAAAAATATT
122490163 AAAAAATATT
1 AAAAAATATT
122490173 AAAAA
1 AAAAA
122490178 TCGAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAAATATT
Found at i:122490215 original size:21 final size:21
Alignment explanation
Indices: 122490165--122490224 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
122490155 AAAATATTAA
*
122490165 AAAATATTAAAAA-TCGAAAAT
1 AAAA-ATTAAAAATTCTAAAAT
122490186 AAAAA-TAAAAATTCTAAAA-
1 AAAAATTAAAAATTCTAAAAT
* *
122490205 AAGAAATTAAATATTGTAAA
1 AA-AAATTAAAAATTCTAAA
122490225 TAATTAACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.24
20 10 0.30
21 15 0.45
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (21 bp):
AAAAATTAAAAATTCTAAAAT
Found at i:122490534 original size:20 final size:21
Alignment explanation
Indices: 122490509--122490547 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
122490499 TATAATATTT
122490509 ATTTTT-ATAAATTGTTTATG
1 ATTTTTAATAAATTGTTTATG
*
122490529 ATTTTTAATAAATTTTTTA
1 ATTTTTAATAAATTGTTTA
122490548 CAATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
ATTTTTAATAAATTGTTTATG
Found at i:122491079 original size:21 final size:21
Alignment explanation
Indices: 122491049--122491091 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
122491039 AAATGCTACG
*
122491049 TGAAGTAACTTAATATTTTTA
1 TGAAGGAACTTAATATTTTTA
122491070 TGAAGGAACTTAATATTTTTA
1 TGAAGGAACTTAATATTTTTA
122491091 T
1 T
122491092 TTTCTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.47
Consensus pattern (21 bp):
TGAAGGAACTTAATATTTTTA
Found at i:122499958 original size:26 final size:30
Alignment explanation
Indices: 122499887--122499961 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 30
122499877 ATGCTATTTG
*
122499887 ATCTAAGTATCAAATTGAATACTAAAGTAGA
1 ATCTAAGTATCAAATTGAAGACTAAAG-AGA
*
122499918 A-CTCAAGTACCAAATT-AAGAC-AAA-A-A
1 ATCT-AAGTATCAAATTGAAGACTAAAGAGA
122499944 ATCTAAGTATCAAATTGA
1 ATCTAAGTATCAAATTGA
122499962 GCGTTAAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
26 13 0.34
27 4 0.11
29 3 0.08
30 6 0.16
31 12 0.32
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.25
Consensus pattern (30 bp):
ATCTAAGTATCAAATTGAAGACTAAAGAGA
Found at i:122510374 original size:29 final size:28
Alignment explanation
Indices: 122510312--122510375 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
122510302 TTTTAAATTT
* *
122510312 AAAATTTAGTCATTATATTTTTATTTTT
1 AAAATTTAGTCATTATATTTTTAGTTTC
*
122510340 AGAAATTTAGTCCTT-TATTTTTCGAGTTTC
1 A-AAATTTAGTCATTATATTTTT--AGTTTC
122510370 AAAATT
1 AAAATT
122510376 CAGGTTTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 8 0.27
29 17 0.57
30 5 0.17
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.53
Consensus pattern (28 bp):
AAAATTTAGTCATTATATTTTTAGTTTC
Found at i:122513114 original size:21 final size:21
Alignment explanation
Indices: 122513088--122513149 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
122513078 TTTATCGATT
122513088 AGGCACTTTATGTGTCGTATC
1 AGGCACTTTATGTGTCGTATC
* ** * *
122513109 AGGCACCTCGTGTGTCGTTTT
1 AGGCACTTTATGTGTCGTATC
122513130 AGGCACTTTATGTGTCGTAT
1 AGGCACTTTATGTGTCGTAT
122513150 ACTGATCAGG
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.16, C:0.19, G:0.26, T:0.39
Consensus pattern (21 bp):
AGGCACTTTATGTGTCGTATC
Found at i:122514659 original size:136 final size:136
Alignment explanation
Indices: 122514415--122514699 Score: 525
Period size: 136 Copynumber: 2.1 Consensus size: 136
122514405 TATTGGGCCT
** *
122514415 AAGCCCATTCAGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
122514480 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCAATTTCAAAATACATGCAACATCAATAAC
122514545 ATATGC
131 ATATGC
122514551 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
122514616 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCAATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCAATTTCAAAATACATGCAACATCAATAAC
122514681 ATATGC
131 ATATGC
*
122514687 AAACCCATTTGGG
1 AAGCCCATTTGGG
122514700 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 144 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCAATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:122514983 original size:25 final size:27
Alignment explanation
Indices: 122514946--122514999 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
122514936 TCAAACATGC
122514946 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
122514972 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
122514998 AT
1 AT
122515000 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:122515007 original size:26 final size:27
Alignment explanation
Indices: 122514963--122515038 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
122514953 TCAATTTAAC
* * *
122514963 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
122514989 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
122515017 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
122515039 AGTTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:122516494 original size:14 final size:14
Alignment explanation
Indices: 122516477--122516519 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
122516467 CATGAAATTC
122516477 TTATCATGAAACAT
1 TTATCATGAAACAT
122516491 TTATC-T-AAACCA-
1 TTATCATGAAA-CAT
122516503 TTATCATGAAACAT
1 TTATCATGAAACAT
122516517 TTA
1 TTA
122516520 CCTAACCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 8 0.32
13 6 0.24
14 11 0.44
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (14 bp):
TTATCATGAAACAT
Found at i:122516513 original size:26 final size:26
Alignment explanation
Indices: 122516477--122516586 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
122516467 CATGAAATTC
* *
122516477 TTATCATGAAACATTTATCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
122516503 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
122516529 TTATCATGGAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
122516555 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
122516581 TTATCA
1 TTATCA
122516587 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:122516517 original size:13 final size:13
Alignment explanation
Indices: 122516477--122516517 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
122516467 CATGAAATTC
122516477 TTATCATGAAACA
1 TTATCATGAAACA
122516490 TTTATC-T-AAACCA
1 -TTATCATGAAA-CA
122516503 TTATCATGAAACA
1 TTATCATGAAACA
122516516 TT
1 TT
122516518 TACCTAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (13 bp):
TTATCATGAAACA
Found at i:122520511 original size:20 final size:21
Alignment explanation
Indices: 122520465--122520515 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
122520455 TTATAAATTA
*
122520465 ATAAAATTATAAAATTATACT
1 ATAAAATTATAAAATGATACT
* *
122520486 -TTAAATTCTAAAATGATA-T
1 ATAAAATTATAAAATGATACT
122520505 ATAAAATTATA
1 ATAAAATTATA
122520516 TTTTAATCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (21 bp):
ATAAAATTATAAAATGATACT
Found at i:122525114 original size:18 final size:18
Alignment explanation
Indices: 122525076--122525116 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
122525066 CATCGTTAAC
* *
122525076 AAATATTTAAAAATTATA
1 AAATATTTAAAAATAAAA
122525094 AAATATTTAAAAATAAAA
1 AAATATTTAAAAATAAAA
122525112 AAATA
1 AAATA
122525117 AAAATTCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATATTTAAAAATAAAA
Found at i:122528665 original size:2 final size:2
Alignment explanation
Indices: 122528614--122528648 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
122528604 CTTCATGGTG
122528614 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
122528649 CGGTAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:122535317 original size:20 final size:20
Alignment explanation
Indices: 122535292--122535331 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
122535282 TTACATCACA
122535292 AGTAATTCATAATTTAGACC
1 AGTAATTCATAATTTAGACC
*
122535312 AGTAATTCATATTTTAGACC
1 AGTAATTCATAATTTAGACC
122535332 CAAAGTTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
AGTAATTCATAATTTAGACC
Found at i:122535763 original size:40 final size:40
Alignment explanation
Indices: 122535703--122535780 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 40
122535693 ACTTTTACCG
* *
122535703 GTACACACTTGTATCTGTAAAGTTGAAATA-AAAGTATGCA
1 GTACACACTTGTACCAGTAAAGTTGAAATATAAA-TATGCA
122535743 GTACACACTTGTACCAGTAAAGTTGAAATATAAATATG
1 GTACACACTTGTACCAGTAAAGTTGAAATATAAATATG
122535781 AAATATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 32 0.91
41 3 0.09
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (40 bp):
GTACACACTTGTACCAGTAAAGTTGAAATATAAATATGCA
Found at i:122542156 original size:31 final size:32
Alignment explanation
Indices: 122542120--122542193 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
122542110 TAACCAAGTC
*
122542120 AGGACTAAAATTTCA-TAATTC-AAAAACTATA
1 AGGACTAAAATTTCACCAATTCAAAAAAC-ATA
*
122542151 AGGACTAAAA-TTGACCAATTCAAAAAACATA
1 AGGACTAAAATTTCACCAATTCAAAAAACATA
*
122542182 GGGACTAAAATT
1 AGGACTAAAATT
122542194 GAGCAAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 3 0.08
31 27 0.73
32 7 0.19
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (32 bp):
AGGACTAAAATTTCACCAATTCAAAAAACATA
Found at i:122542194 original size:31 final size:31
Alignment explanation
Indices: 122542136--122542195 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
122542126 AAAATTTCAT
122542136 AATTCAAAAACTATAAGGACTAAAATTGACC
1 AATTCAAAAACTATAAGGACTAAAATTGACC
*
122542167 AATTCAAAAAAC-ATAGGGACTAAAATTGA
1 AATTC-AAAAACTATAAGGACTAAAATTGA
122542196 GCAAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 21 0.78
32 6 0.22
ACGTcount: A:0.53, C:0.13, G:0.12, T:0.22
Consensus pattern (31 bp):
AATTCAAAAACTATAAGGACTAAAATTGACC
Found at i:122546299 original size:19 final size:19
Alignment explanation
Indices: 122546252--122546299 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
122546242 CGAGATATAG
122546252 TTAAATTTAAGATTAATAA
1 TTAAATTTAAGATTAATAA
** *
122546271 -TATGTATTAAGGTTAATAA
1 TTAAAT-TTAAGATTAATAA
122546290 TTAAATTTAA
1 TTAAATTTAA
122546300 TAATATAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
18 3 0.14
19 16 0.73
20 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (19 bp):
TTAAATTTAAGATTAATAA
Found at i:122555447 original size:16 final size:17
Alignment explanation
Indices: 122555426--122555458 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
122555416 ATAATTTTAT
*
122555426 TATTATTAATT-TAAAA
1 TATTATAAATTATAAAA
122555442 TATTATAAATTATAAAA
1 TATTATAAATTATAAAA
122555459 AAATTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTATAAATTATAAAA
Found at i:122560963 original size:2 final size:2
Alignment explanation
Indices: 122560956--122560990 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
122560946 AAAATAAAGG
122560956 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
122560991 TAAGCTATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:122561675 original size:20 final size:19
Alignment explanation
Indices: 122561594--122561675 Score: 55
Period size: 20 Copynumber: 4.2 Consensus size: 19
122561584 CATATTACAT
*
122561594 TTTAAATATTATTTTAAAATA
1 TTTATATATTATTTT--AATA
122561615 TTTATATTATTTTATTTTAATA
1 TTTATA-TA--TTATTTTAATA
* *
122561637 -TTA-ATA--ATTTTATTT
1 TTTATATATTATTTTAATA
122561652 TTTATATAGTTATTTTAATA
1 TTTATATA-TTATTTTAATA
122561672 TTTA
1 TTTA
122561676 CATTAGAGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
15 7 0.15
16 3 0.06
17 3 0.06
19 2 0.04
20 12 0.25
21 8 0.17
22 6 0.12
24 7 0.15
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTATATATTATTTTAATA
Found at i:122562172 original size:27 final size:28
Alignment explanation
Indices: 122562137--122562208 Score: 101
Period size: 29 Copynumber: 2.6 Consensus size: 28
122562127 ACGTTTATAG
122562137 AAAATAATATTTGACTTTTTATAGGAAA
1 AAAATAATATTTGACTTTTTATAGGAAA
* * *
122562165 AAAAAATATATTTGACTTTTTCTTGG-AA
1 AAAATA-ATATTTGACTTTTTATAGGAAA
122562193 AAAATAATATTTGACT
1 AAAATAATATTTGACT
122562209 GTATGTCCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
27 10 0.26
28 12 0.31
29 17 0.44
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (28 bp):
AAAATAATATTTGACTTTTTATAGGAAA
Found at i:122565491 original size:18 final size:18
Alignment explanation
Indices: 122565468--122565505 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
122565458 TATTTTAGTC
122565468 ATTTATGTTAAAAATGTT
1 ATTTATGTTAAAAATGTT
122565486 ATTTATGTTAAAAATGTT
1 ATTTATGTTAAAAATGTT
122565504 AT
1 AT
122565506 GTTTTAGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (18 bp):
ATTTATGTTAAAAATGTT
Found at i:122566752 original size:20 final size:21
Alignment explanation
Indices: 122566723--122566766 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
122566713 TTCATGCTAA
* *
122566723 TTTTTATGAA-CTTTTATTAT
1 TTTTTATGAATATTTTATAAT
*
122566743 TTTTTTTGAATATTTTATAAT
1 TTTTTATGAATATTTTATAAT
122566764 TTT
1 TTT
122566767 AAATTATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTATGAATATTTTATAAT
Found at i:122567143 original size:15 final size:15
Alignment explanation
Indices: 122567125--122567167 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
122567115 ATTTAATTTA
122567125 AAAAAATAAATTAAT
1 AAAAAATAAATTAAT
* *
122567140 AAAAAATATAAATATT
1 AAAAAATA-AATTAAT
*
122567156 AAAAATTAAATT
1 AAAAAATAAATT
122567168 TACCATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAAATAAATTAAT
Found at i:122567158 original size:16 final size:16
Alignment explanation
Indices: 122567122--122567160 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
122567112 CAAATTTAAT
122567122 TTAAAAAAATAAATTA
1 TTAAAAAAATAAATTA
*
122567138 ATAAAAAATATAAA-TA
1 TTAAAAAA-ATAAATTA
122567154 TTAAAAA
1 TTAAAAA
122567161 TTAAATTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TTAAAAAAATAAATTA
Found at i:122574046 original size:18 final size:17
Alignment explanation
Indices: 122574020--122574063 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
122574010 TTATTTTTGA
122574020 TTCGGTTCGAGTTCAAG
1 TTCGGTTCGAGTTCAAG
* *
122574037 TTCGGGTTCGGGTTCAGG
1 TTC-GGTTCGAGTTCAAG
122574055 TTCGGTTCG
1 TTCGGTTCG
122574064 GAGTATGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.09, C:0.18, G:0.36, T:0.36
Consensus pattern (17 bp):
TTCGGTTCGAGTTCAAG
Found at i:122579821 original size:45 final size:47
Alignment explanation
Indices: 122579727--122579821 Score: 149
Period size: 45 Copynumber: 2.1 Consensus size: 47
122579717 GAAAGAAATC
*
122579727 AAAATTGCAAAAAAAAAAATTTACACAACGTGTAAAGATTGAGGGTT
1 AAAATTGCAAAAAAAAAAATTTACACAACGTGTAAAGATTGAGGATT
* *
122579774 AAAATTG-TAAAAAAAAAA-TTACACAACGTGTAAAGATTGATGATT
1 AAAATTGCAAAAAAAAAAATTTACACAACGTGTAAAGATTGAGGATT
122579819 AAA
1 AAA
122579822 TTATTTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 28 0.62
46 10 0.22
47 7 0.16
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (47 bp):
AAAATTGCAAAAAAAAAAATTTACACAACGTGTAAAGATTGAGGATT
Found at i:122582438 original size:46 final size:46
Alignment explanation
Indices: 122582385--122582474 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
122582375 TCTTTGTTTT
122582385 TATTATACATTTAATATGAATCAACTACCAAATCTAACTGATTACA
1 TATTATACATTTAATATGAATCAACTACCAAATCTAACTGATTACA
* *
122582431 TATTATACATTTAATATGAATCAATTACCAAATCTAAGTGATTA
1 TATTATACATTTAATATGAATCAACTACCAAATCTAACTGATTA
122582475 GACATAAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (46 bp):
TATTATACATTTAATATGAATCAACTACCAAATCTAACTGATTACA
Found at i:122586505 original size:29 final size:29
Alignment explanation
Indices: 122586472--122586527 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
122586462 TATTAATATA
*
122586472 TTAAGGGA-AAATTGTATTAATAGTCACAT
1 TTAA-GGATAAATTGCATTAATAGTCACAT
122586501 TTAAGGATAAATTGCATTAATAGTCAC
1 TTAAGGATAAATTGCATTAATAGTCAC
122586528 CTAACTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (29 bp):
TTAAGGATAAATTGCATTAATAGTCACAT
Found at i:122587400 original size:58 final size:58
Alignment explanation
Indices: 122587293--122587500 Score: 201
Period size: 58 Copynumber: 3.6 Consensus size: 58
122587283 TTGACATTGA
* ** ** * *
122587293 ATTTTTTT-TAATTTGGTATTTAATTTTTATTTTGGTTCAATTCGGTACCTGAATTTAAC
1 ATTTTTTTCTAATTTGGTATCTAAACTTT-TTTTGGCCCAATTTGGTACCTGAACTT-AC
*
122587352 ATTTTTTTCTAATTTGGTATCTAAACTTTTTTT-GCCCAATTTGATACCTGAACTTGAC
1 ATTTTTTTCTAATTTGGTATCTAAACTTTTTTTGGCCCAATTTGGTACCTGAACTT-AC
* * * *
122587410 ACTTTTTTCTAGTTTGGTA-CATAAA-TTTTTTTGAGCCTAATTTGGTACCTGAACTTGC
1 ATTTTTTTCTAATTTGGTATC-TAAACTTTTTTTG-GCCCAATTTGGTACCTGAACTTAC
* *
122587468 -TTTTTTTCCTAATTTGGTACCTAAGCTTTTTTT
1 ATTTTTTT-CTAATTTGGTATCTAAACTTTTTTT
122587501 TAGGTTCAAT
Statistics
Matches: 125, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
57 14 0.11
58 54 0.43
59 40 0.32
60 17 0.14
ACGTcount: A:0.22, C:0.14, G:0.12, T:0.52
Consensus pattern (58 bp):
ATTTTTTTCTAATTTGGTATCTAAACTTTTTTTGGCCCAATTTGGTACCTGAACTTAC
Found at i:122593805 original size:10 final size:10
Alignment explanation
Indices: 122593790--122593867 Score: 63
Period size: 10 Copynumber: 7.4 Consensus size: 10
122593780 AATCTTTATT
122593790 TTTATTTTTA
1 TTTATTTTTA
*
122593800 TTTATTATTTT
1 TTTATT-TTTA
122593811 TTTATTTTCT-
1 TTTATTTT-TA
122593821 TTTATTATTTA
1 TTTATT-TTTA
122593832 -TTATTTATTA
1 TTTATTT-TTA
122593842 TTTATTATTTTA
1 TTTA-T-TTTTA
122593854 TTT-TATTTTA
1 TTTAT-TTTTA
122593864 TTTA
1 TTTA
122593868 AATATTAATA
Statistics
Matches: 58, Mismatches: 1, Indels: 17
0.76 0.01 0.22
Matches are distributed among these distances:
9 1 0.02
10 33 0.57
11 15 0.26
12 7 0.12
13 2 0.03
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:122593807 original size:7 final size:7
Alignment explanation
Indices: 122593785--122593851 Score: 79
Period size: 7 Copynumber: 9.9 Consensus size: 7
122593775 AACCCAATCT
122593785 TTATTT-
1 TTATTTA
122593791 TTATTT-
1 TTATTTA
122593797 TTATTTA
1 TTATTTA
*
122593804 TTATTTTT
1 TTA-TTTA
122593812 TTATTT-
1 TTATTTA
122593818 TCT-TTTA
1 T-TATTTA
122593825 TTATTTA
1 TTATTTA
122593832 TTATTTA
1 TTATTTA
122593839 TTATTTA
1 TTATTTA
122593846 TTATTT
1 TTATTT
122593852 TATTTTATTT
Statistics
Matches: 55, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
6 17 0.31
7 32 0.58
8 6 0.11
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.78
Consensus pattern (7 bp):
TTATTTA
Found at i:122593814 original size:21 final size:21
Alignment explanation
Indices: 122593788--122593867 Score: 94
Period size: 21 Copynumber: 3.8 Consensus size: 21
122593778 CCAATCTTTA
122593788 TTTTTATTTTTATTTATTATT
1 TTTTTATTTTTATTTATTATT
122593809 TTTTTATTTTCT-TTTATTA-T
1 TTTTTATTTT-TATTTATTATT
*
122593829 TTATTATTTATTATTTATTATT
1 TTTTTATTT-TTATTTATTATT
122593851 TTATTT-TATTTTATTTA
1 TT-TTTAT-TTTTATTTA
122593868 AATATTAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
20 10 0.20
21 25 0.49
22 12 0.24
23 4 0.08
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTATTTTTATTTATTATT
Found at i:122593823 original size:5 final size:5
Alignment explanation
Indices: 122593784--122593866 Score: 57
Period size: 5 Copynumber: 16.4 Consensus size: 5
122593774 CAACCCAATC
* *
122593784 TTTATT TTTAT TTT-T ATTTAT TATTTT TTTAT TTTCT TTTAT TATT-T
1 TTTA-T TTTAT TTTAT -TTTAT T-TTAT TTTAT TTTAT TTTAT T-TTAT
* *
122593831 ATTA- TTTAT TATT-T ATTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TT
122593867 AAATATTAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
4 8 0.13
5 40 0.66
6 13 0.21
ACGTcount: A:0.20, C:0.01, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:122593836 original size:28 final size:27
Alignment explanation
Indices: 122593784--122593856 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 27
122593774 CAACCCAATC
122593784 TTTATTTTTATTTTTATTTATTATTTT
1 TTTATTTTTATTTTTATTTATTATTTT
122593811 TTTATTTTCT-TTTATTATTTATTA-TTT
1 TTTATTTT-TATTT-TTATTTATTATTTT
*
122593838 ATTATTTATTA-TTTTATTT
1 TTTATTT-TTATTTTTATTT
122593857 TATTTTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
26 6 0.15
27 23 0.56
28 12 0.29
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTATTTTTATTTTTATTTATTATTTT
Found at i:122594043 original size:41 final size:42
Alignment explanation
Indices: 122593934--122594036 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
122593924 AAAAATGGTA
* * * *
122593934 CCAAACAGTTCTATTCCAACCCAAAATGCCATATCCCTGCTG
1 CCAAACAGTTCTATTCTAGCCCAGAATGCCATATCCCTGCAG
* *
122593976 CCAAACAGTTCTATTCTAGCCCAGAATGCTATATCTCTGCAG
1 CCAAACAGTTCTATTCTAGCCCAGAATGCCATATCCCTGCAG
122594018 CCAAACAG-TCTATT-TAGCC
1 CCAAACAGTTCTATTCTAGCC
122594037 TTAGAATCCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 5 0.09
41 6 0.11
42 44 0.80
ACGTcount: A:0.30, C:0.32, G:0.12, T:0.26
Consensus pattern (42 bp):
CCAAACAGTTCTATTCTAGCCCAGAATGCCATATCCCTGCAG
Found at i:122594939 original size:118 final size:118
Alignment explanation
Indices: 122594731--122594961 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
122594721 TGTTTTCCAT
* *
122594731 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
122594796 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
**
122594849 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
122594914 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
122594962 ACCGGAAATA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:122595093 original size:1 final size:1
Alignment explanation
Indices: 122595087--122595133 Score: 58
Period size: 1 Copynumber: 47.0 Consensus size: 1
122595077 AATAAAATTT
** * *
122595087 AAAAAAAATCAAAAAAAAAAAAAGAAAAAAAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
122595134 TAAGTACTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.91, C:0.02, G:0.04, T:0.02
Consensus pattern (1 bp):
A
Found at i:122602565 original size:89 final size:89
Alignment explanation
Indices: 122602466--122602643 Score: 347
Period size: 89 Copynumber: 2.0 Consensus size: 89
122602456 AGATTTATCC
*
122602466 CATTATATTATAATTATTTATTCAATGTTTATTAAAATTGTAATATATATTTATTAAAATAATTA
1 CATTATATTATAATTATTTATTCAATGTTTATAAAAATTGTAATATATATTTATTAAAATAATTA
122602531 ATATAGACTAAATCCTACACTTTA
66 ATATAGACTAAATCCTACACTTTA
122602555 CATTATATTATAATTATTTATTCAATGTTTATAAAAATTGTAATATATATTTATTAAAATAATTA
1 CATTATATTATAATTATTTATTCAATGTTTATAAAAATTGTAATATATATTTATTAAAATAATTA
122602620 ATATAGACTAAATCCTACACTTTA
66 ATATAGACTAAATCCTACACTTTA
122602644 GATAAGTAGA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (89 bp):
CATTATATTATAATTATTTATTCAATGTTTATAAAAATTGTAATATATATTTATTAAAATAATTA
ATATAGACTAAATCCTACACTTTA
Found at i:122605092 original size:30 final size:30
Alignment explanation
Indices: 122605056--122605112 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
122605046 TTATAACTTT
*
122605056 GTAATTATTCTTATATTGAGAC-TAAATTAA
1 GTAATTATTC-TATATTAAGACTTAAATTAA
122605086 GTAATTATTCTATATTAAGACTTAAAT
1 GTAATTATTCTATATTAAGACTTAAAT
122605113 CTTTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (30 bp):
GTAATTATTCTATATTAAGACTTAAATTAA
Found at i:122609670 original size:18 final size:18
Alignment explanation
Indices: 122609649--122609691 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
122609639 TCTTGAACTC
122609649 CTTCTTCCTCTGGTTCCT
1 CTTCTTCCTCTGGTTCCT
*
122609667 CTTCTTCCTCTGGTTCTT
1 CTTCTTCCTCTGGTTCCT
122609685 CTTCTTC
1 CTTCTTC
122609692 TTCTTCCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.00, C:0.37, G:0.09, T:0.53
Consensus pattern (18 bp):
CTTCTTCCTCTGGTTCCT
Found at i:122618717 original size:21 final size:21
Alignment explanation
Indices: 122618692--122618732 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
122618682 AGAAAAGACC
122618692 TTACTATTTTT-TCATGTTTTG
1 TTACT-TTTTTCTCATGTTTTG
*
122618713 TTACTTTTTTCTCATTTTTT
1 TTACTTTTTTCTCATGTTTT
122618733 TCCTTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.71
Consensus pattern (21 bp):
TTACTTTTTTCTCATGTTTTG
Found at i:122618738 original size:19 final size:20
Alignment explanation
Indices: 122618692--122618731 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
122618682 AGAAAAGACC
122618692 TTACTATTTTTTCATGTTTTG
1 TTACT-TTTTTTCATGTTTTG
122618713 TTACTTTTTTCTCAT-TTTT
1 TTACTTTTTT-TCATGTTTT
122618732 TTCCTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.70
Consensus pattern (20 bp):
TTACTTTTTTTCATGTTTTG
Found at i:122621193 original size:24 final size:23
Alignment explanation
Indices: 122621147--122621193 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
122621137 TTTAAAATTT
* * *
122621147 TAAAAAAATTATTAAATTTCATA
1 TAAAAAAAGTATGAAATTACATA
122621170 TAAAAAAAGTATGAAATATACATA
1 TAAAAAAAGTATGAAAT-TACATA
122621194 GATTGTCACG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAAAAAAGTATGAAATTACATA
Found at i:122621485 original size:17 final size:17
Alignment explanation
Indices: 122621453--122621491 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
122621443 ACAGATGTCT
**
122621453 ATAATAATTATTTAAAC
1 ATAATAATTAAATAAAC
122621470 ATAATAATTAAATAAAC
1 ATAATAATTAAATAAAC
122621487 A-AATA
1 ATAATA
122621492 TGGGTTGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAATAATTAAATAAAC
Found at i:122626094 original size:15 final size:16
Alignment explanation
Indices: 122626064--122626102 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
122626054 TAATATAAAT
122626064 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
122626081 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
122626096 ATAATTT
1 ATAATTT
122626103 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:122626156 original size:30 final size:29
Alignment explanation
Indices: 122626087--122626156 Score: 70
Period size: 30 Copynumber: 2.4 Consensus size: 29
122626077 TTTAATAATT
* *
122626087 TATATTTTTATAATTTTAAAAAATTAAAT
1 TATAATTTTATAATTTTAAAAAATTAAAG
* * *
122626116 TA-AATATTTATCATTTTTGAAAGATTAAAG
1 TATAAT-TTTAT-AATTTTAAAAAATTAAAG
122626146 TATAATTTTAT
1 TATAATTTTAT
122626157 TGTTATTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
28 2 0.06
29 7 0.21
30 21 0.64
31 3 0.09
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (29 bp):
TATAATTTTATAATTTTAAAAAATTAAAG
Found at i:122638348 original size:8 final size:7
Alignment explanation
Indices: 122638319--122638346 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
122638309 ACTTCGTCTA
122638319 AAAATTT
1 AAAATTT
122638326 AAAATTT
1 AAAATTT
122638333 AAAATTT
1 AAAATTT
122638340 AAAATTT
1 AAAATTT
122638347 TAGTCTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAAATTT
Found at i:122649097 original size:4 final size:4
Alignment explanation
Indices: 122649088--122649130 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
122649078 TGCGTGTCCG
122649088 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
122649131 TAAAATTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:122655055 original size:106 final size:106
Alignment explanation
Indices: 122654893--122655164 Score: 411
Period size: 106 Copynumber: 2.6 Consensus size: 106
122654883 ATCTATTCGT
** * * *
122654893 GACCTTTATATTCCTCACATATTTATC-CTATTAAATTTGAGAAATTATATAAGCCTTTTTCTAT
1 GACCTTTATACACCTCACATATTTATCTC-ATAAAACTTGAGAAATTATATAAGCCTTTTTCAAT
*
122654957 GATTTAATTGAGAATGATATGGACTATACATGATCTACATGC
65 GACTTAATTGAGAATGATATGGACTATACATGATCTACATGC
* *
122654999 GACCTTTATACACCTCACATATTTATCTCATGAAACTTGAAAAATTATATAAGCCTTTTTCAATG
1 GACCTTTATACACCTCACATATTTATCTCATAAAACTTGAGAAATTATATAAGCCTTTTTCAATG
** *
122655064 ACTTAATTGAGAATGATATGGGTTATGCATGATCTACATGC
66 ACTTAATTGAGAATGATATGGACTATACATGATCTACATGC
* *
122655105 GACCTTTATACACCTCACATACTTATATCATAAAACTTGAGAAATTATATAAGCCTTTTT
1 GACCTTTATACACCTCACATATTTATCTCATAAAACTTGAGAAATTATATAAGCCTTTTT
122655165 TTACAACTTA
Statistics
Matches: 151, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
106 150 0.99
107 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (106 bp):
GACCTTTATACACCTCACATATTTATCTCATAAAACTTGAGAAATTATATAAGCCTTTTTCAATG
ACTTAATTGAGAATGATATGGACTATACATGATCTACATGC
Found at i:122655532 original size:13 final size:14
Alignment explanation
Indices: 122655504--122655536 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
122655494 ATAAAAATGG
*
122655504 AATTGTAAATATTA
1 AATTTTAAATATTA
122655518 AATTTTAAA-ATTA
1 AATTTTAAATATTA
122655531 AATTTT
1 AATTTT
122655537 CATGTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
AATTTTAAATATTA
Found at i:122656338 original size:35 final size:35
Alignment explanation
Indices: 122656299--122656369 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
122656289 TCTAGGATCA
*
122656299 CATATCCTTGAAGATTCCCTTCCATATTTGCCAAG
1 CATATCCTTGAAGATTACCTTCCATATTTGCCAAG
* *
122656334 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCCTTGAAGATTACCTTCCATATTTGCCAAG
122656369 C
1 C
122656370 TCCGGAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (35 bp):
CATATCCTTGAAGATTACCTTCCATATTTGCCAAG
Found at i:122661508 original size:35 final size:35
Alignment explanation
Indices: 122661469--122661540 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
122661459 GTCTAGGATC
*
122661469 GCATATCTTTGAAGATTCCCTTCCATATTTGCCAA
1 GCATATCTTTGAAGATTACCTTCCATATTTGCCAA
* *
122661504 GCATATCTTTGAATATTACTTTCCATATTTGCCAA
1 GCATATCTTTGAAGATTACCTTCCATATTTGCCAA
122661539 GC
1 GC
122661541 TCCGGAGATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (35 bp):
GCATATCTTTGAAGATTACCTTCCATATTTGCCAA
Found at i:122670742 original size:283 final size:284
Alignment explanation
Indices: 122670229--122670783 Score: 898
Period size: 283 Copynumber: 2.0 Consensus size: 284
122670219 AGAACTCAGA
122670229 TATGTGTTGGCAATCAGTGTTGATTGGCATAATTAAAAACCTAGATTATGTATCGTGTCGAGGTT
1 TATGTGTTGGCAATCAGTGTTGATTGGCATAATTAAAAACCTAGATTATGTATCGTGTCGAGGTT
* *
122670294 TATAAGTGGTTACGGCAGTAGATCATGCATTTTACTTATGATCAATCGATATGTGAGTAAGATGC
66 TATAAGTGGTTACGGCAGTAGATCATGCATTTTACGTATGACCAATCGATATGTGAGTAAGATGC
* *
122670359 TTGTTGAAAATTTGATCAGTGGACTTATTTAATCGTCGGCCGTTACAACGGCTATAACTATCAGT
131 TTGTTGAAAATTTGATCAGTAGACTTATTTAATCGTCGGCCGTTACAACGGCTATAACTAGCAGT
* * *
122670424 TTAGATTCTTATTCTATGCTTATTCCAACATATCAGGCTTTGTTCGCCATCTTTGTTGAGTAAAC
196 TTAGATTCTTATTCTATGCTTATTCCAACATATCAGGCTTTGTTCGACATATTTGTTAAGTAAAC
*
122670489 AAGGCTAGGATATGACTTATAGAT
261 AAGACTAGGATATGACTTATAGAT
* * * *
122670513 TATGTGTTGGCAATTAGTGTTGATTGGCCTAATTAAGAACTTAGATTATGTATCGTGTCGAGGTT
1 TATGTGTTGGCAATCAGTGTTGATTGGCATAATTAAAAACCTAGATTATGTATCGTGTCGAGGTT
* *
122670578 TATAAGTGGTTA-GGCAGTAGATCATGCATTTT-CGGTATGACCGATTGATATGTGAGTAAGATG
66 TATAAGTGGTTACGGCAGTAGATCATGCATTTTAC-GTATGACCAATCGATATGTGAGTAAGATG
* * *
122670641 CTTGTTGAAAATTTGATCAGTAGACTTATTTAATTGTCGGTCGTTACAACGGCTATAACTAGCGG
130 CTTGTTGAAAATTTGATCAGTAGACTTATTTAATCGTCGGCCGTTACAACGGCTATAACTAGCAG
* * **
122670706 TTTAGATTCTTATTTTATGCTTATTCCAATATATCAGGCTTTGTTCGATGTATTTGTTAAGTAAA
195 TTTAGATTCTTATTCTATGCTTATTCCAACATATCAGGCTTTGTTCGACATATTTGTTAAGTAAA
122670771 CAAGACTAGGATA
260 CAAGACTAGGATA
122670784 GGAAACATAG
Statistics
Matches: 249, Mismatches: 21, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
282 1 0.00
283 175 0.70
284 73 0.29
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (284 bp):
TATGTGTTGGCAATCAGTGTTGATTGGCATAATTAAAAACCTAGATTATGTATCGTGTCGAGGTT
TATAAGTGGTTACGGCAGTAGATCATGCATTTTACGTATGACCAATCGATATGTGAGTAAGATGC
TTGTTGAAAATTTGATCAGTAGACTTATTTAATCGTCGGCCGTTACAACGGCTATAACTAGCAGT
TTAGATTCTTATTCTATGCTTATTCCAACATATCAGGCTTTGTTCGACATATTTGTTAAGTAAAC
AAGACTAGGATATGACTTATAGAT
Found at i:122672259 original size:15 final size:15
Alignment explanation
Indices: 122672241--122672271 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
122672231 TGCTCTTAAT
*
122672241 CCTTTTTTTCTTTTA
1 CCTTTTATTCTTTTA
122672256 CCTTTTATTCTTTTA
1 CCTTTTATTCTTTTA
122672271 C
1 C
122672272 TAATTATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.68
Consensus pattern (15 bp):
CCTTTTATTCTTTTA
Found at i:122682912 original size:8 final size:8
Alignment explanation
Indices: 122682899--122682923 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
122682889 TAGCCATACC
122682899 AATTTTAA
1 AATTTTAA
122682907 AATTTTAA
1 AATTTTAA
122682915 AATTTTAA
1 AATTTTAA
122682923 A
1 A
122682924 TTGTAGAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AATTTTAA
Found at i:122689879 original size:23 final size:23
Alignment explanation
Indices: 122689853--122689897 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
122689843 TAGATCAGTT
122689853 GGAAAGTTCATTAACTAAAAGTA
1 GGAAAGTTCATTAACTAAAAGTA
122689876 GGAAAGTTCATTAACTAAAAGT
1 GGAAAGTTCATTAACTAAAAGT
122689898 CGAGTACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.27
Consensus pattern (23 bp):
GGAAAGTTCATTAACTAAAAGTA
Found at i:122700110 original size:25 final size:26
Alignment explanation
Indices: 122700077--122700125 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
122700067 TCAAAAAGTA
122700077 ATTTAATTTTT-TCAGTTAAAAATTTT
1 ATTTAATTTTTATCA-TTAAAAATTTT
*
122700103 ATTT-ATTTTTATTATTAAAAATT
1 ATTTAATTTTTATCATTAAAAATT
122700126 AACATGATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
ATTTAATTTTTATCATTAAAAATTTT
Found at i:122701596 original size:11 final size:11
Alignment explanation
Indices: 122701569--122701613 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
122701559 TGGCATTAAA
*
122701569 AAAATATATAC
1 AAAATATATAT
*
122701580 ATAATATATAT
1 AAAATATATAT
*
122701591 AAAATACATAT
1 AAAATATATAT
*
122701602 AATATATATAT
1 AAAATATATAT
122701613 A
1 A
122701614 CGTATTAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATATAT
Found at i:122702093 original size:11 final size:12
Alignment explanation
Indices: 122702077--122702111 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
122702067 AAGAAAAAAA
122702077 AAGAGAG-AGGG
1 AAGAGAGAAGGG
122702088 AAGAGAGAAGGG
1 AAGAGAGAAGGG
122702100 -AGAGAGAAGGG
1 AAGAGAGAAGGG
122702111 A
1 A
122702112 GGGGGAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAGGG
Found at i:122702263 original size:13 final size:13
Alignment explanation
Indices: 122702211--122702263 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
122702201 GAAAAGGTAA
*
122702211 ATTTTTTTTTTAAT
1 ATTTTTTTATT-AT
*
122702225 ATTTGTTTTGTATAT
1 ATTT-TTTTAT-TAT
*
122702240 ATATTTTTATTAT
1 ATTTTTTTATTAT
122702253 ATTTTTTTATT
1 ATTTTTTTATT
122702264 GTGATGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
13 13 0.39
14 9 0.27
15 10 0.30
16 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (13 bp):
ATTTTTTTATTAT
Found at i:122702319 original size:11 final size:11
Alignment explanation
Indices: 122702303--122702351 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
122702293 GAAAAAAGGA
122702303 AAAAATAAAAT
1 AAAAATAAAAT
122702314 AAAAATAAAAT
1 AAAAATAAAAT
* *
122702325 AAGAGTAAAAT
1 AAAAATAAAAT
* *
122702336 AATAAAGAAGAT
1 AA-AAATAAAAT
122702348 AAAA
1 AAAA
122702352 TCACCTTTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
11 24 0.77
12 7 0.23
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:122703021 original size:114 final size:114
Alignment explanation
Indices: 122702821--122703048 Score: 456
Period size: 114 Copynumber: 2.0 Consensus size: 114
122702811 GGGCAATTTG
122702821 GGCTTCTACAAATACTATGTATTAGTTTCTAATCCCAACATGTGCTTGTGCTATTTGATGAATTC
1 GGCTTCTACAAATACTATGTATTAGTTTCTAATCCCAACATGTGCTTGTGCTATTTGATGAATTC
122702886 TCTCCCATTCTTTCTAATTTGTTATCCACAACATTTTGTATAGATTGAA
66 TCTCCCATTCTTTCTAATTTGTTATCCACAACATTTTGTATAGATTGAA
122702935 GGCTTCTACAAATACTATGTATTAGTTTCTAATCCCAACATGTGCTTGTGCTATTTGATGAATTC
1 GGCTTCTACAAATACTATGTATTAGTTTCTAATCCCAACATGTGCTTGTGCTATTTGATGAATTC
122703000 TCTCCCATTCTTTCTAATTTGTTATCCACAACATTTTGTATAGATTGAA
66 TCTCCCATTCTTTCTAATTTGTTATCCACAACATTTTGTATAGATTGAA
122703049 TTCTATTCTA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.42
Consensus pattern (114 bp):
GGCTTCTACAAATACTATGTATTAGTTTCTAATCCCAACATGTGCTTGTGCTATTTGATGAATTC
TCTCCCATTCTTTCTAATTTGTTATCCACAACATTTTGTATAGATTGAA
Found at i:122706634 original size:27 final size:27
Alignment explanation
Indices: 122706596--122706669 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
122706586 TTCAGAACAG
*
122706596 TAATTGAGCCTTTCTCTGAGGCGCGAC
1 TAATCGAGCCTTTCTCTGAGGCGCGAC
122706623 TAATCGAGCCTTTCTCTGAGGCGCGAC
1 TAATCGAGCCTTTCTCTGAGGCGCGAC
*
122706650 TAATCGAGCCTTTCTTTGAG
1 TAATCGAGCCTTTCTCTGAG
122706670 TTGATGTCCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (27 bp):
TAATCGAGCCTTTCTCTGAGGCGCGAC
Found at i:122709000 original size:16 final size:15
Alignment explanation
Indices: 122708971--122709005 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
122708961 GTAGCAAAGT
122708971 TTAATCAAAATAAAA
1 TTAATCAAAATAAAA
*
122708986 TTAACTCAAATTAAAA
1 TTAA-TCAAAATAAAA
122709002 TTAA
1 TTAA
122709006 AATTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (15 bp):
TTAATCAAAATAAAA
Found at i:122710237 original size:13 final size:13
Alignment explanation
Indices: 122710221--122710281 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 13
122710211 TAAATTAAAA
*
122710221 TTTTTAAAAACAC
1 TTTTTAAAAATAC
* *
122710234 TTTTTAAAAGTAT
1 TTTTTAAAAATAC
* * *
122710247 TTTTTCACAATAT
1 TTTTTAAAAATAC
122710260 TTTTTAAAAATAC
1 TTTTTAAAAATAC
122710273 TTTTTAAAA
1 TTTTTAAAA
122710282 GCATTGTAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (13 bp):
TTTTTAAAAATAC
Found at i:122714703 original size:31 final size:31
Alignment explanation
Indices: 122714649--122714728 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 31
122714639 ATATTAAATT
*
122714649 AATAATAATAAAGTTATACTTTAAAT-TTCTTAAA
1 AATAATAA-AAA-TTATAATTT-AATCTT-TTAAA
122714683 AATAATAAAAATT-TAATTTAATCTTTTAAA
1 AATAATAAAAATTATAATTTAATCTTTTAAA
122714713 AA-ATATAAAAA-TATAA
1 AATA-ATAAAAATTATAA
122714729 ACTATTAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
29 2 0.05
30 20 0.48
31 7 0.17
32 2 0.05
33 3 0.07
34 8 0.19
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (31 bp):
AATAATAAAAATTATAATTTAATCTTTTAAA
Found at i:122716912 original size:43 final size:44
Alignment explanation
Indices: 122716853--122716936 Score: 134
Period size: 43 Copynumber: 1.9 Consensus size: 44
122716843 AGATTGTTCT
* *
122716853 TTTTCTCTTTTATTTTTTTTAAGACGAAAAAGAATTACATCTTC
1 TTTTCTCTTTTATTTTTTTTAAAACAAAAAAGAATTACATCTTC
*
122716897 TTTT-TCTTTTATTTTTTTTAAAATAAAAAAGAATTACATC
1 TTTTCTCTTTTATTTTTTTTAAAACAAAAAAGAATTACATC
122716937 AAGATAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 33 0.89
44 4 0.11
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.51
Consensus pattern (44 bp):
TTTTCTCTTTTATTTTTTTTAAAACAAAAAAGAATTACATCTTC
Found at i:122722096 original size:32 final size:33
Alignment explanation
Indices: 122722030--122722105 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
122722020 TGAATCAGTT
*
122722030 AAAAAGAGTTAAATCTCAAATTGAAGAGGAAAA
1 AAAAAGGGTTAAATCTCAAATTGAAGAGGAAAA
122722063 AAAAAGGGTTAAATCTCAAATTGAAGAGGAAAA
1 AAAAAGGGTTAAATCTCAAATTGAAGAGGAAAA
122722096 AAAAAGGGTT
1 AAAAAGGGTT
122722106 CAATTCTGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.55, C:0.05, G:0.21, T:0.18
Consensus pattern (33 bp):
AAAAAGGGTTAAATCTCAAATTGAAGAGGAAAA
Found at i:122722244 original size:20 final size:21
Alignment explanation
Indices: 122722216--122722254 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
122722206 ACATCATTTA
*
122722216 TATTTTAGAAAAA-TATTAAT
1 TATTATAGAAAAATTATTAAT
122722236 TATTATAGAAAAATTATTA
1 TATTATAGAAAAATTATTA
122722255 GGATGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
TATTATAGAAAAATTATTAAT
Found at i:122724155 original size:16 final size:16
Alignment explanation
Indices: 122724124--122724161 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
122724114 TAAAATTTGT
*
122724124 ATTTAATTTTTGAATA
1 ATTTTATTTTTGAATA
122724140 CATTTTATTTTT-AATA
1 -ATTTTATTTTTGAATA
122724156 ATTTTA
1 ATTTTA
122724162 ATTCATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 4 0.20
17 10 0.50
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (16 bp):
ATTTTATTTTTGAATA
Found at i:122727291 original size:38 final size:39
Alignment explanation
Indices: 122727248--122727321 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
122727238 TGTTATTAAA
*
122727248 TTTTAATAGGATTATTATT-AAATAT-AATTTAATAATAT
1 TTTTAATAGAATTATTATTAAAATATGAA-TTAATAATAT
*
122727286 TTTTAATATAATTATTATTAAAATATGAATTAATAA
1 TTTTAATAGAATTATTATTAAAATATGAATTAATAA
122727322 AAATATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
38 17 0.53
39 13 0.41
40 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (39 bp):
TTTTAATAGAATTATTATTAAAATATGAATTAATAATAT
Found at i:122730141 original size:33 final size:33
Alignment explanation
Indices: 122730092--122730159 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
122730082 CGCCCAATGC
* *
122730092 TACTTGGTCAAGAGTTAGAATTCGAGAACTTCG
1 TACTAGGTCAACAGTTAGAATTCGAGAACTTCG
*
122730125 TACTAGGTCAACAGTTAGGATTCGAGAACTTCG
1 TACTAGGTCAACAGTTAGAATTCGAGAACTTCG
122730158 TA
1 TA
122730160 TATGTTTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (33 bp):
TACTAGGTCAACAGTTAGAATTCGAGAACTTCG
Found at i:122732502 original size:31 final size:31
Alignment explanation
Indices: 122732456--122732518 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
122732446 GAAAATCCTA
*
122732456 AAGCTCATGCCCCAATGT-AGGAACAATTGCC
1 AAGCTCAAGCCCCAATGTGAGG-ACAATTGCC
*
122732487 AAGCTCAAGCTCCAATGTGAGGACAATTGCC
1 AAGCTCAAGCCCCAATGTGAGGACAATTGCC
122732518 A
1 A
122732519 GGTTTAGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 26 0.90
32 3 0.10
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (31 bp):
AAGCTCAAGCCCCAATGTGAGGACAATTGCC
Found at i:122733941 original size:62 final size:61
Alignment explanation
Indices: 122733855--122733971 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 61
122733845 CTTTAAGTTA
* * * *
122733855 AAGCCCTAATGTGAGAATAGTTACCAAGTTCAGAGACTTACTTGA-ACAGAAAAAAAAGGCTC
1 AAGCCCTAATCTGAGAACAATTACCAAGTTCAGAGACTAACTT-ATACA-AAAAAAAAGGCTC
* *
122733917 AAGCCCTAATCTGGGAACAATTACCAAGTTCAGGGACTAACTTATACAAAAAAAA
1 AAGCCCTAATCTGAGAACAATTACCAAGTTCAGAGACTAACTTATACAAAAAAAA
122733972 TTCAAACCCC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 8 0.17
62 40 0.83
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.21
Consensus pattern (61 bp):
AAGCCCTAATCTGAGAACAATTACCAAGTTCAGAGACTAACTTATACAAAAAAAAAGGCTC
Found at i:122735627 original size:20 final size:20
Alignment explanation
Indices: 122735602--122735642 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
122735592 TACAACATAT
122735602 TACAATATATTCTTATTGCA
1 TACAATATATTCTTATTGCA
*
122735622 TACAATATATTTTTATTGCA
1 TACAATATATTCTTATTGCA
122735642 T
1 T
122735643 GTCGTATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (20 bp):
TACAATATATTCTTATTGCA
Found at i:122742438 original size:51 final size:51
Alignment explanation
Indices: 122742334--122742540 Score: 328
Period size: 50 Copynumber: 4.1 Consensus size: 51
122742324 ACTTCTGATC
* * *
122742334 AGTGACAAGTGATAAGTGGTAGCCTCAG-TACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
122742384 AGTGACAAGTAATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
122742435 AGTGATAAATGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
122742485 AGTGATAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
122742536 AGTGA
1 AGTGA
122742541 TAAATGTGAT
Statistics
Matches: 146, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
50 74 0.51
51 72 0.49
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:122742472 original size:101 final size:101
Alignment explanation
Indices: 122742334--122742546 Score: 347
Period size: 101 Copynumber: 2.1 Consensus size: 101
122742324 ACTTCTGATC
* * *
122742334 AGTGACAAGTGATAAGTGGTAGCCTCAGTACACTTATCTGATCAGTGATAAGTGACAAGTAATAA
1 AGTGATAAATGATAAGTGGTAGCCTCAGTACACTTATCTGATCAGTGACAAGTGACAAGTAATAA
*
122742399 GTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
66 GTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
* * *
122742435 AGTGATAAATGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCCTCAG-TACACTTATCTGATCAGTGACAAGTGACAAGTAATA
122742499 AGTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
65 AGTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
122742536 AGTGATAAATG
1 AGTGATAAATG
122742547 TGATCAGTGT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 4 0.04
101 100 0.96
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (101 bp):
AGTGATAAATGATAAGTGGTAGCCTCAGTACACTTATCTGATCAGTGACAAGTGACAAGTAATAA
GTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
Found at i:122742541 original size:51 final size:50
Alignment explanation
Indices: 122742334--122742543 Score: 312
Period size: 51 Copynumber: 4.2 Consensus size: 50
122742324 ACTTCTGATC
* * * * *
122742334 AGTGACAAGTGATAAGTGGTAGCCTCAGTACACTTATCTGATCAGTGATA
1 AGTGATAAGTGATAAGTGGTAGCTTAACTACACTTATCTGATCAGTGACA
* * *
122742384 AGTGACAAGTAATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGC-TTAACTACACTTATCTGATCAGTGACA
* *
122742435 AGTGATAAATGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTAACTACACTTATCTGATCAGTGACA
122742485 AGTGATAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGC-TTAACTACACTTATCTGATCAGTGACA
122742536 AGTGATAA
1 AGTGATAA
122742544 ATGTGATCAG
Statistics
Matches: 147, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
50 71 0.48
51 76 0.52
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (50 bp):
AGTGATAAGTGATAAGTGGTAGCTTAACTACACTTATCTGATCAGTGACA
Found at i:122750204 original size:51 final size:51
Alignment explanation
Indices: 122750123--122750330 Score: 328
Period size: 51 Copynumber: 4.1 Consensus size: 51
122750113 ACTTCTAATC
* * *
122750123 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
122750174 AGTGACAAGTAATAAGTGGTAGCTTTAGCTACACTTATTTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
122750225 AGTGATAAATGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
122750275 AGTGAGAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
122750326 AGTGA
1 AGTGA
122750331 TAAATGTGAT
Statistics
Matches: 144, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
50 47 0.33
51 97 0.67
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:122750290 original size:101 final size:102
Alignment explanation
Indices: 122750123--122750336 Score: 349
Period size: 101 Copynumber: 2.1 Consensus size: 102
122750113 ACTTCTAATC
* * *
122750123 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAGTAATA
1 AGTGATAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTAATA
* *
122750188 AGTGGTAGCTTTAGCTACACTTATTTGATCAGTGACA
66 AGTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
* * *
122750225 AGTGATAAATGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACAAGTGAGAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTAATA
122750289 AGTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
66 AGTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
122750326 AGTGATAAATG
1 AGTGATAAATG
122750337 TGATCAGTGT
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 84 0.81
102 20 0.19
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (102 bp):
AGTGATAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTAATA
AGTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
Found at i:122754594 original size:29 final size:29
Alignment explanation
Indices: 122754562--122754621 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
122754552 ATTTAAATTT
122754562 ATTTCAAATTCGTAATCTCTAAAAATATA
1 ATTTCAAATTCGTAATCTCTAAAAATATA
*
122754591 ATTTCGAATTCGTAATCTCTAAAAATATA
1 ATTTCAAATTCGTAATCTCTAAAAATATA
122754620 AT
1 AT
122754622 GACCAAACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.38
Consensus pattern (29 bp):
ATTTCAAATTCGTAATCTCTAAAAATATA
Found at i:122755307 original size:43 final size:43
Alignment explanation
Indices: 122755246--122755332 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
122755236 TTGAAGTGCA
* * * *
122755246 TTATCCTTTTATTTAAGGGTTTGAGAGAACCTATTAATAGTTT
1 TTATCCTCTTATTTAAGGGTTTGAGAAAACCTATCAATAATTT
122755289 TTATCCTCTTATTTAAGGGTTTGAGAAAACCTATCAATAATTT
1 TTATCCTCTTATTTAAGGGTTTGAGAAAACCTATCAATAATTT
122755332 T
1 T
122755333 AGGCATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (43 bp):
TTATCCTCTTATTTAAGGGTTTGAGAAAACCTATCAATAATTT
Found at i:122766034 original size:21 final size:20
Alignment explanation
Indices: 122765990--122766069 Score: 51
Period size: 23 Copynumber: 3.9 Consensus size: 20
122765980 CTTTCTTTGT
122765990 ATATATTTTTAGATTTTTTT--
1 ATATA-TTTT-GATTTTTTTAA
122766010 -TATATTTTGTATTTTTTTAA
1 ATATATTTTG-ATTTTTTTAA
* **
122766030 ATATAAATTTTGGAATTTTAAAA
1 ATAT--ATTTT-GATTTTTTTAA
122766053 AT-TATTTTGATTTTTTT
1 ATATATTTTGATTTTTTT
122766070 TTGTAATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
17 1 0.02
18 12 0.26
19 10 0.21
20 5 0.11
21 3 0.06
22 1 0.02
23 14 0.30
24 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (20 bp):
ATATATTTTGATTTTTTTAA
Found at i:122772858 original size:26 final size:25
Alignment explanation
Indices: 122772819--122772867 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
122772809 TATATTTTAG
*
122772819 ATTAAAAGAGTAAAATAATTTTTTTT
1 ATTAAAAAAGT-AAATAATTTTTTTT
* *
122772845 ATTAAAAAATTAAATTATTTTTT
1 ATTAAAAAAGTAAATAATTTTTT
122772868 GATTAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (25 bp):
ATTAAAAAAGTAAATAATTTTTTTT
Found at i:122772872 original size:24 final size:22
Alignment explanation
Indices: 122772835--122772879 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
122772825 AGAGTAAAAT
122772835 AATTTTTTTTATTAAAAAATTA
1 AATTTTTTTTATTAAAAAATTA
*
122772857 AATTATTTTTTGATTAAATAATT
1 AATT-TTTTTT-ATTAAAAAATT
122772880 TGACAATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 6 0.30
24 10 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
AATTTTTTTTATTAAAAAATTA
Found at i:122773803 original size:25 final size:25
Alignment explanation
Indices: 122773775--122773825 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
122773765 GAATGCGTAT
*
122773775 ATTAATAGTGTTTTATTAGAGTGAA
1 ATTAATAGTATTTTATTAGAGTGAA
*
122773800 ATTAATAGTATTTTGTTAGAGTGAA
1 ATTAATAGTATTTTATTAGAGTGAA
122773825 A
1 A
122773826 CTATTGGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (25 bp):
ATTAATAGTATTTTATTAGAGTGAA
Found at i:122777395 original size:21 final size:21
Alignment explanation
Indices: 122777354--122777395 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
122777344 GCTAAGAATC
*
122777354 GGGATACTTTGAATCCGTATA
1 GGGATACTTTGAATCCATATA
*
122777375 GGGATATTTTGAA-CCTATATA
1 GGGATACTTTGAATCC-ATATA
122777396 ACGAAGGATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (21 bp):
GGGATACTTTGAATCCATATA
Found at i:122779016 original size:29 final size:30
Alignment explanation
Indices: 122778959--122779022 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 30
122778949 ACTTATTTTA
122778959 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
122778989 TTGTTAATTTT-TTTTTATTTTAACGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
122779018 TTGTT
1 TTGTT
122779023 TGTTAAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 21 0.66
30 11 0.34
ACGTcount: A:0.22, C:0.05, G:0.12, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:122780137 original size:33 final size:33
Alignment explanation
Indices: 122780095--122780160 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
122780085 CAGACATCTA
122780095 TCACCTACTTTCACTACTATCAGAGAGACCTCC
1 TCACCTACTTTCACTACTATCAGAGAGACCTCC
122780128 TCACCTACTTTCACTACTATCAGAGAGACCTCC
1 TCACCTACTTTCACTACTATCAGAGAGACCTCC
122780161 AATGGCTGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.36, G:0.09, T:0.27
Consensus pattern (33 bp):
TCACCTACTTTCACTACTATCAGAGAGACCTCC
Found at i:122788596 original size:69 final size:72
Alignment explanation
Indices: 122788518--122788651 Score: 229
Period size: 69 Copynumber: 1.9 Consensus size: 72
122788508 TAAGATAGAT
122788518 TGGAATCACTATGCAATTTACTCAAATTATGGC-TTTATAACTT-TTTTT-TAATTGAAAAAAAA
1 TGGAATCACTATGCAATTTACTCAAATTATGGCTTTTATAACTTCTTTTTATAATTGAAAAAAAA
122788580 AAAACAA
66 AAAACAA
* *
122788587 TGGAGTCACTATGCAATTTACTCAAATTATGGCTTTTTTAACTTCTTTTTATAATTGAAAAAAAA
1 TGGAATCACTATGCAATTTACTCAAATTATGGCTTTTATAACTTCTTTTTATAATTGAAAAAAAA
122788652 TATACAATAA
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
69 32 0.53
70 9 0.15
71 5 0.08
72 14 0.23
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.39
Consensus pattern (72 bp):
TGGAATCACTATGCAATTTACTCAAATTATGGCTTTTATAACTTCTTTTTATAATTGAAAAAAAA
AAAACAA
Found at i:122789488 original size:22 final size:21
Alignment explanation
Indices: 122789463--122789506 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
122789453 TAAAAATTAG
* *
122789463 TTTTATAATTAATATTTATATA
1 TTTTATAAATAA-ATTTAAATA
122789485 TTTTATAAATAAATTTAAATA
1 TTTTATAAATAAATTTAAATA
122789506 T
1 T
122789507 AATTTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTATAAATAAATTTAAATA
Found at i:122790153 original size:21 final size:22
Alignment explanation
Indices: 122790124--122790164 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
122790114 TTTAATTAGT
*
122790124 ATTTTAGTTA-AAAAAATAACA
1 ATTTAAGTTACAAAAAATAACA
122790145 ATTTAAGTTACAAAAAATAA
1 ATTTAAGTTACAAAAAATAA
122790165 AAATATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (22 bp):
ATTTAAGTTACAAAAAATAACA
Found at i:122797538 original size:21 final size:21
Alignment explanation
Indices: 122797512--122797552 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
122797502 AGACAAGCGA
* *
122797512 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
122797533 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
122797553 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:122803902 original size:21 final size:21
Alignment explanation
Indices: 122803876--122803916 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
122803866 ATCCTTCGTT
122803876 ATATAGGTTCAAAATATCCCA
1 ATATAGGTTCAAAATATCCCA
122803897 ATATAGGTTCAAAATATCCC
1 ATATAGGTTCAAAATATCCC
122803917 GATTCTTAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (21 bp):
ATATAGGTTCAAAATATCCCA
Found at i:122808319 original size:30 final size:32
Alignment explanation
Indices: 122808247--122808319 Score: 96
Period size: 30 Copynumber: 2.3 Consensus size: 32
122808237 ATTTTAAATT
*
122808247 AATATTAATAAATTTATATTTTAGTCCTTCAAA
1 AATAATAA-AAATTTATATTTTAGTCCTTCAAA
*
122808280 AATAATAAAAATTTA-ATTTTA-TCCTTTAAA
1 AATAATAAAAATTTATATTTTAGTCCTTCAAA
*
122808310 AATTATAAAA
1 AATAATAAAA
122808320 TATAAATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 17 0.46
31 6 0.16
32 7 0.19
33 7 0.19
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.42
Consensus pattern (32 bp):
AATAATAAAAATTTATATTTTAGTCCTTCAAA
Found at i:122817625 original size:21 final size:21
Alignment explanation
Indices: 122817593--122817633 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
122817583 TTAACATGTT
*
122817593 CCACTACCAGAT-AGATGAAG
1 CCACTACAAGATGAGATGAAG
122817613 CCACATACAAGATGAGATGAA
1 CCAC-TACAAGATGAGATGAA
122817634 TTTATATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.15
Consensus pattern (21 bp):
CCACTACAAGATGAGATGAAG
Found at i:122821039 original size:18 final size:18
Alignment explanation
Indices: 122821006--122821040 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
122820996 CATGGAAATT
122821006 TAAAATAAAAATAAAAAA
1 TAAAATAAAAATAAAAAA
122821024 TAAAA-AAAAATGAAAAA
1 TAAAATAAAAAT-AAAAA
122821041 GAAAGAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (18 bp):
TAAAATAAAAATAAAAAA
Found at i:122827543 original size:150 final size:150
Alignment explanation
Indices: 122827272--122827724 Score: 834
Period size: 150 Copynumber: 3.0 Consensus size: 150
122827262 CGGAGGGCGA
* * *
122827272 TCAGAATAATCAACCATGGGACTTTCTCCCTCAGTTGACCTTCTATCACTAATCACATCCTCTAA
1 TCAGAATCATCAACCATGGGACTTTCTCCCTCAGTTGACCTTCTACCACTAACCACATCCTCTAA
122827337 GCCTGAAGAATCAACAACTTGACTTAAATCCTCACTGTCTTCATTGCAGTTGTTTCCAGCAGTTT
66 GCCTGAAGAATCAACAACTTGACTTAAATCCTCACTGTCTTCATTGCAGTTGTTTCCAGCAGTTT
122827402 CCTTAACCTTAGAGCTATTC
131 CCTTAACCTTAGAGCTATTC
*
122827422 TCAGAATCATCAACCATGGGACTTTCTCCCACAGTTGACCTTCTACCACTAACCACATCCTCTAA
1 TCAGAATCATCAACCATGGGACTTTCTCCCTCAGTTGACCTTCTACCACTAACCACATCCTCTAA
122827487 GCCTGAAGAATCAACAACTTGACTTAAATCCTCACTGTCTTCATTGCAGTTGTTTCCAGCAGTTT
66 GCCTGAAGAATCAACAACTTGACTTAAATCCTCACTGTCTTCATTGCAGTTGTTTCCAGCAGTTT
122827552 CCTTAACCTTAGAGCTATTC
131 CCTTAACCTTAGAGCTATTC
* *
122827572 TCAGAATCATCAACCATGGGACTTTCTCCCTCAGTTGACGTTCGACCACTAACCACATCCTCTAA
1 TCAGAATCATCAACCATGGGACTTTCTCCCTCAGTTGACCTTCTACCACTAACCACATCCTCTAA
*
122827637 GCCTGAAGAATCAACAACTTGACTTAAATCCTCACTGTCTTCATTGCAGTCGTTTCCAGCAGTTT
66 GCCTGAAGAATCAACAACTTGACTTAAATCCTCACTGTCTTCATTGCAGTTGTTTCCAGCAGTTT
*
122827702 CCTTAACCGTAGAGCTATTC
131 CCTTAACCTTAGAGCTATTC
122827722 TCA
1 TCA
122827725 ATACGTTTAA
Statistics
Matches: 294, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 294 1.00
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (150 bp):
TCAGAATCATCAACCATGGGACTTTCTCCCTCAGTTGACCTTCTACCACTAACCACATCCTCTAA
GCCTGAAGAATCAACAACTTGACTTAAATCCTCACTGTCTTCATTGCAGTTGTTTCCAGCAGTTT
CCTTAACCTTAGAGCTATTC
Found at i:122829901 original size:3 final size:3
Alignment explanation
Indices: 122829893--122829918 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
122829883 AAGACCAGAA
122829893 GCC GCC GCC GCC GCC GCC GCC GCC GC
1 GCC GCC GCC GCC GCC GCC GCC GCC GC
122829919 TAGCTTCCGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.35, T:0.00
Consensus pattern (3 bp):
GCC
Found at i:122830886 original size:31 final size:31
Alignment explanation
Indices: 122830848--122830908 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
122830838 AAAAACCCAT
122830848 TGACTTAAATAAAATTTTCTAAATAATTCAG
1 TGACTTAAATAAAATTTTCTAAATAATTCAG
* * *
122830879 TGACTTAATTAAAATTTTTTGAATAATTCA
1 TGACTTAAATAAAATTTTCTAAATAATTCA
122830909 ATGATCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.43
Consensus pattern (31 bp):
TGACTTAAATAAAATTTTCTAAATAATTCAG
Found at i:122832097 original size:18 final size:18
Alignment explanation
Indices: 122832045--122832098 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
122832035 CGTTAAATAT
*
122832045 TTTAGTTTGATTTTTATA
1 TTTAGTTTGATATTTATA
* *
122832063 TTTAATTTAATATTT-TAA
1 TTTAGTTTGATATTTAT-A
122832081 TTTAGTTTCGATATTTAT
1 TTTAGTTT-GATATTTAT
122832099 TTTGATACAC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 1 0.04
18 20 0.71
19 6 0.21
20 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (18 bp):
TTTAGTTTGATATTTATA
Found at i:122841061 original size:31 final size:31
Alignment explanation
Indices: 122841004--122841064 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
122840994 TTACAAAATG
* ***
122841004 GTTATTAAACTATTCAAAAGTTTTTATTTAA
1 GTTACTAAACTATTCAAAAAAATTTATTTAA
122841035 GTTACTAAACTATTCAAAAAAATTTATTTA
1 GTTACTAAACTATTCAAAAAAATTTATTTA
122841065 GGTCCCTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (31 bp):
GTTACTAAACTATTCAAAAAAATTTATTTAA
Found at i:122846898 original size:28 final size:28
Alignment explanation
Indices: 122846852--122846907 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
122846842 TTTTACTATT
*
122846852 TTAATATTTATATTTTTTTAAAATTAAA
1 TTAATATTAATATTTTTTTAAAATTAAA
* *
122846880 TTAA-ATTAATATTATTTTTTAGATTAAA
1 TTAATATTAATATT-TTTTTAAAATTAAA
122846908 GTGAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (28 bp):
TTAATATTAATATTTTTTTAAAATTAAA
Found at i:122847840 original size:2 final size:2
Alignment explanation
Indices: 122847833--122847858 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
122847823 ATGTAAAATA
122847833 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
122847859 GCTTTAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122848083 original size:20 final size:20
Alignment explanation
Indices: 122848016--122848084 Score: 52
Period size: 20 Copynumber: 3.3 Consensus size: 20
122848006 TATCAAGAAA
122848016 TAAAATAATTATTTACATAAT
1 TAAAATAATTATTTACAT-AT
** *
122848037 ATAAGAATAATTGACCT-C-TGT
1 -TAA-AATAATT-ATTTACATAT
122848058 TGAAAATAATTATTTACATAT
1 T-AAAATAATTATTTACATAT
122848079 TAAAAT
1 TAAAAT
122848085 CTGTTAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 2 0.06
20 14 0.39
21 6 0.17
22 4 0.11
23 8 0.22
24 2 0.06
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (20 bp):
TAAAATAATTATTTACATAT
Found at i:122854330 original size:20 final size:20
Alignment explanation
Indices: 122854267--122854352 Score: 88
Period size: 20 Copynumber: 4.4 Consensus size: 20
122854257 ATATAAAAAT
* *
122854267 ATATATTATATATTATATTA
1 ATATATAATATATAATATTA
*
122854287 AT-T-TAATATTTAAGTATTA
1 ATATATAATATATAA-TATTA
*
122854306 ATATATAATATATCATATTA
1 ATATATAATATATAATATTA
* *
122854326 TTATATTATATATAATA-TA
1 ATATATAATATATAATATTA
122854345 ATATATAA
1 ATATATAA
122854353 AACATAAGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
18 7 0.13
19 16 0.30
20 22 0.42
21 8 0.15
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (20 bp):
ATATATAATATATAATATTA
Found at i:122854352 original size:7 final size:7
Alignment explanation
Indices: 122854264--122854352 Score: 64
Period size: 7 Copynumber: 13.3 Consensus size: 7
122854254 TTAATATAAA
122854264 AATATAT
1 AATATAT
*
122854271 ATTATAT
1 AATATAT
*
122854278 ATTATATT
1 AATATA-T
122854286 AAT-T-T
1 AATATAT
*
122854291 AATATTT
1 AATATAT
122854298 AAGTAT-T
1 AA-TATAT
122854305 AATATAT
1 AATATAT
122854312 AATATAT
1 AATATAT
*
122854319 CATAT-T
1 AATATAT
*
122854325 ATTATAT
1 AATATAT
*
122854332 TATATAT
1 AATATAT
122854339 -A-ATAT
1 AATATAT
122854344 AATATAT
1 AATATAT
122854351 AA
1 AA
122854353 AACATAAGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
5 8 0.12
6 10 0.15
7 43 0.64
8 6 0.09
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (7 bp):
AATATAT
Found at i:122855186 original size:3 final size:3
Alignment explanation
Indices: 122855178--122855214 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
122855168 TAAGTAAATA
122855178 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
122855215 GATTATGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:122858817 original size:23 final size:23
Alignment explanation
Indices: 122858773--122858817 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
122858763 ATCAACTCAA
*
122858773 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
122858796 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
122858818 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:122863738 original size:25 final size:25
Alignment explanation
Indices: 122863686--122863739 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
122863676 AGTAATTAAT
* * *
122863686 ATTTTTATTAATATATATTTAGACA
1 ATTTTTATAAATATATATATAGAAA
122863711 ATTTTTATAAATATATATAATA-AAA
1 ATTTTTATAAATATATAT-ATAGAAA
122863736 ATTT
1 ATTT
122863740 ATGTAACCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
ATTTTTATAAATATATATATAGAAA
Found at i:122865102 original size:2 final size:2
Alignment explanation
Indices: 122865095--122865125 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
122865085 ACCAATTACC
122865095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
122865126 ATGTTATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122866454 original size:16 final size:16
Alignment explanation
Indices: 122866418--122866448 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
122866408 TTAATATTAT
*
122866418 TTTAATATTAAATAAA
1 TTTAAAATTAAATAAA
122866434 TTTAAAATTAAATAA
1 TTTAAAATTAAATAA
122866449 CATTAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAAATTAAATAAA
Found at i:122871446 original size:24 final size:24
Alignment explanation
Indices: 122871394--122871454 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
122871384 CCATGATTGC
* * * *
122871394 GATTGAAAATTTGGATGTGATTAT
1 GATTGAAAATTTTGAAGTAATAAT
*
122871418 AATTGAAAATTTTGAAGTAATAAT
1 GATTGAAAATTTTGAAGTAATAAT
*
122871442 GATTGAATATTTT
1 GATTGAAAATTTT
122871455 TCAAGAAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (24 bp):
GATTGAAAATTTTGAAGTAATAAT
Done.