Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 218 of 313
Found at i:67091962 original size:28 final size:27
Alignment explanation
Indices: 67091909--67091990 Score: 110
Period size: 28 Copynumber: 3.0 Consensus size: 27
67091899 TAAACACGCC
* **
67091909 ATGAAAGAAAAACCTTTTTGACGAATT
1 ATGAAAGAAAAACCTTTGTGGTGAATT
67091936 ATGAAAGAAAAAGCCTTTGTGGTGAATT
1 ATGAAAGAAAAA-CCTTTGTGGTGAATT
*
67091964 ATGAAAGAAAAATCCGTTGTGGTGAAT
1 ATGAAAGAAAAA-CCTTTGTGGTGAAT
67091991 CATCAAAGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 12 0.24
28 37 0.76
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
ATGAAAGAAAAACCTTTGTGGTGAATT
Found at i:67091998 original size:28 final size:28
Alignment explanation
Indices: 67091939--67091998 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
67091929 ACGAATTATG
* * *
67091939 AAAGAAAAAGCCTTTGTGGTGAATTATG
1 AAAGAAAAAGCCGTTGTGGTGAATCATC
*
67091967 AAAGAAAAATCCGTTGTGGTGAATCATC
1 AAAGAAAAAGCCGTTGTGGTGAATCATC
67091995 AAAG
1 AAAG
67091999 GATCGCCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (28 bp):
AAAGAAAAAGCCGTTGTGGTGAATCATC
Found at i:67102180 original size:26 final size:26
Alignment explanation
Indices: 67102148--67102324 Score: 185
Period size: 26 Copynumber: 6.8 Consensus size: 26
67102138 TTTAAGTTTT
67102148 CGCCACAAAGGCTTTCTTTCATATTA
1 CGCCACAAAGGCTTTCTTTCATATTA
* *
67102174 TGCCACAAAGCCTTTCTTTCATATTA
1 CGCCACAAAGGCTTTCTTTCATATTA
* **
67102200 TGCCACAAAGATTTTCTTTCATATTA
1 CGCCACAAAGGCTTTCTTTCATATTA
* * *
67102226 CGCTACAAAGGCCTCCTTTCATATTA
1 CGCCACAAAGGCTTTCTTTCATATTA
* * * *
67102252 CACCAGAAAGACTTTTTTTTTCATATTA
1 CGCCACAAAGGC--TTTCTTTCATATTA
* *
67102280 CGTCATAAAGGCTTTCTTTCATATTA
1 CGCCACAAAGGCTTTCTTTCATATTA
* *
67102306 TGCCATAAAGGCTTT-TTTC
1 CGCCACAAAGGCTTTCTTTC
67102325 CTAATGTGTT
Statistics
Matches: 125, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
25 4 0.03
26 102 0.82
28 19 0.15
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (26 bp):
CGCCACAAAGGCTTTCTTTCATATTA
Found at i:67102290 original size:54 final size:54
Alignment explanation
Indices: 67102164--67102323 Score: 166
Period size: 54 Copynumber: 3.0 Consensus size: 54
67102154 AAAGGCTTTC
* * * *
67102164 TTTCATATTATGCCACAAA-GCCTTTCTTTCATATTATGCCACAAAGA--TTTTC
1 TTTCATATTACGCTACAAAGGCC-TCCTTTCATATTATGCCACAAAGACTTTTTT
** *
67102216 TTTCATATTACGCTACAAAGGCCTCCTTTCATATTACACCAGAAAGACTTTTTT
1 TTTCATATTACGCTACAAAGGCCTCCTTTCATATTATGCCACAAAGACTTTTTT
* * * * *
67102270 TTTCATATTACG-TCATAAAGGCTTTCTTTCATATTATGCCATAAAGGCTTTTTT
1 TTTCATATTACGCT-ACAAAGGCCTCCTTTCATATTATGCCACAAAGACTTTTTT
67102324 CCTAATGTGT
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
52 37 0.41
53 4 0.04
54 49 0.54
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (54 bp):
TTTCATATTACGCTACAAAGGCCTCCTTTCATATTATGCCACAAAGACTTTTTT
Found at i:67107660 original size:17 final size:16
Alignment explanation
Indices: 67107617--67107669 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
67107607 AAAACATTTA
*
67107617 GAAAATTGTCATTTTTGG
1 GAAAATT-TTATTTTT-G
* *
67107635 GAAACTTTTCTTCTTTG
1 GAAAATTTTATT-TTTG
67107652 GAAAATTTTATTTTTG
1 GAAAATTTTATTTTTG
67107668 GA
1 GA
67107670 CTTTTTAGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 6 0.21
17 14 0.48
18 9 0.31
ACGTcount: A:0.26, C:0.08, G:0.17, T:0.49
Consensus pattern (16 bp):
GAAAATTTTATTTTTG
Found at i:67139976 original size:88 final size:88
Alignment explanation
Indices: 67139827--67140092 Score: 496
Period size: 88 Copynumber: 3.0 Consensus size: 88
67139817 TCAAAGGCTA
* *
67139827 TTTTGCAAGCCAAATAATCAGTCAAACAAGCTGATTGGGTCAGCATGTGGGACGGTTTTGGGTTG
1 TTTTGCAATCCAAATAATCAGCCAAACAAGCTGATTGGGTCAGCATGTGGGACGGTTTTGGGTTG
67139892 CCCAGTGCTCGGTTGGATCGATT
66 CCCAGTGCTCGGTTGGATCGATT
67139915 TTTTGCAATCCAAATAATCAGCCAAACAAGCTGATTGGGTCAGCATGTGGGACGGTTTTGGGTTG
1 TTTTGCAATCCAAATAATCAGCCAAACAAGCTGATTGGGTCAGCATGTGGGACGGTTTTGGGTTG
67139980 CCCAGTGCTCGGTTGGATCGATT
66 CCCAGTGCTCGGTTGGATCGATT
67140003 TTTTGCAATCCAAATAATCAGCCAAACAAGCTGATTGGGTCAGCATGTGGGACGGTTTTGGGTTG
1 TTTTGCAATCCAAATAATCAGCCAAACAAGCTGATTGGGTCAGCATGTGGGACGGTTTTGGGTTG
* *
67140068 CCCAGTGCTCGATTGGATCGGTT
66 CCCAGTGCTCGGTTGGATCGATT
67140091 TT
1 TT
67140093 CTCGGTTCAG
Statistics
Matches: 174, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 174 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (88 bp):
TTTTGCAATCCAAATAATCAGCCAAACAAGCTGATTGGGTCAGCATGTGGGACGGTTTTGGGTTG
CCCAGTGCTCGGTTGGATCGATT
Found at i:67142355 original size:3 final size:3
Alignment explanation
Indices: 67142347--67142412 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
67142337 CTGTGAGATA
67142347 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
67142395 TAC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC
67142413 GGGATCCTCA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:67144185 original size:30 final size:30
Alignment explanation
Indices: 67144128--67144186 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
67144118 GACTTTAGAA
* * *
67144128 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAAACACCAAATTTTT
67144158 AATATTTACAAAAA-AAACAACCAAATTTT
1 AATATTTACAAAAAGAAAC-ACCAAATTTT
67144187 GAAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAAACACCAAATTTTT
Found at i:67162389 original size:25 final size:25
Alignment explanation
Indices: 67162362--67162542 Score: 128
Period size: 25 Copynumber: 7.6 Consensus size: 25
67162352 CTAGACAAAG
* *
67162362 ATACACCACAAAGGCATCATATGGG
1 ATACGCCACAAAGGCATCATATGGA
* **
67162387 ATACGCCATAAAGGC-T-A-ACAGA
1 ATACGCCACAAAGGCATCATATGGA
* *
67162409 ATATGCCACAAAAGCATCATATGGA
1 ATACGCCACAAAGGCATCATATGGA
* * * *
67162434 ATACACCATAAAGGC-T-A-ACGAA
1 ATACGCCACAAAGGCATCATATGGA
* * *
67162456 ATATGCCACAAAGGCATCTTATAGA
1 ATACGCCACAAAGGCATCATATGGA
* *
67162481 ATACGCCATAAAGGC-T-A-ATAGA
1 ATACGCCACAAAGGCATCATATGGA
* *
67162503 ATATGCCAAAAAGGCATCATATGGA
1 ATACGCCACAAAGGCATCATATGGA
*
67162528 ATACACCACAAAGGC
1 ATACGCCACAAAGGC
67162543 TAACAGAATA
Statistics
Matches: 115, Mismatches: 32, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
22 47 0.41
23 5 0.04
24 5 0.04
25 58 0.50
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (25 bp):
ATACGCCACAAAGGCATCATATGGA
Found at i:67162504 original size:22 final size:22
Alignment explanation
Indices: 67162387--67162567 Score: 112
Period size: 22 Copynumber: 7.8 Consensus size: 22
67162377 ATCATATGGG
* *
67162387 ATACGCCATAAAGGCTAACAGA
1 ATACGCCACAAAGGCTAATAGA
* * *
67162409 ATATGCCACAAAAGCATCATATGGA
1 ATACGCCACAAAGGC-T-A-ATAGA
* * *
67162434 ATACACCATAAAGGCTAA-CGAA
1 ATACGCCACAAAGGCTAATAG-A
* *
67162456 ATATGCCACAAAGGCATCTTATAGA
1 ATACGCCACAAAGG---CTAATAGA
*
67162481 ATACGCCATAAAGGCTAATAGA
1 ATACGCCACAAAGGCTAATAGA
* * *
67162503 ATATGCCAAAAAGGCATCATATGGA
1 ATACGCCACAAAGGC-T-A-ATAGA
* *
67162528 ATACACCACAAAGGCTAACAGA
1 ATACGCCACAAAGGCTAATAGA
*
67162550 ATACGCAACAAAGGCTAA
1 ATACGCCACAAAGGCTAA
67162568 ACAGAAAACC
Statistics
Matches: 120, Mismatches: 28, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
21 1 0.01
22 64 0.53
23 4 0.03
24 4 0.03
25 46 0.38
26 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.17
Consensus pattern (22 bp):
ATACGCCACAAAGGCTAATAGA
Found at i:67162504 original size:94 final size:94
Alignment explanation
Indices: 67162336--67162564 Score: 318
Period size: 94 Copynumber: 2.4 Consensus size: 94
67162326 AGATTTGTCA
* * * * *
67162336 GAATACACCACAAGGGCTAGACAAAGATACACCACAAAGGCATCATATGGGATACGCCATAAAGG
1 GAATACACCACAAAGGCTA-ACAGA-ATACGCCACAAAGGCATCATATAGAATACGCCATAAAGG
67162401 CTAACAGAATATGCCACAAAA-GCATCATATG
64 CTAACAGAATATGCCA-AAAAGGCATCATATG
* * *
67162432 GAATACACCATAAAGGCTAAC-GAAATATGCCACAAAGGCATCTTATAGAATACGCCATAAAGGC
1 GAATACACCACAAAGGCTAACAG-AATACGCCACAAAGGCATCATATAGAATACGCCATAAAGGC
*
67162496 TAATAGAATATGCCAAAAAGGCATCATATG
65 TAACAGAATATGCCAAAAAGGCATCATATG
*
67162526 GAATACACCACAAAGGCTAACAGAATACGCAACAAAGGC
1 GAATACACCACAAAGGCTAACAGAATACGCCACAAAGGC
67162565 TAAACAGAAA
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
93 4 0.03
94 93 0.79
95 4 0.03
96 17 0.14
ACGTcount: A:0.45, C:0.22, G:0.18, T:0.15
Consensus pattern (94 bp):
GAATACACCACAAAGGCTAACAGAATACGCCACAAAGGCATCATATAGAATACGCCATAAAGGCT
AACAGAATATGCCAAAAAGGCATCATATG
Found at i:67162563 original size:47 final size:47
Alignment explanation
Indices: 67162367--67162564 Score: 281
Period size: 47 Copynumber: 4.2 Consensus size: 47
67162357 CAAAGATACA
* *
67162367 CCACAAAGGCATCATATGGGATACGCCATAAAGGCTAACAGAATATG
1 CCACAAAGGCATCATATGGAATACACCATAAAGGCTAACAGAATATG
*
67162414 CCACAAAAGCATCATATGGAATACACCATAAAGGCTAAC-GAAATATG
1 CCACAAAGGCATCATATGGAATACACCATAAAGGCTAACAG-AATATG
* * * *
67162461 CCACAAAGGCATCTTATAGAATACGCCATAAAGGCTAATAGAATATG
1 CCACAAAGGCATCATATGGAATACACCATAAAGGCTAACAGAATATG
* * *
67162508 CCAAAAAGGCATCATATGGAATACACCACAAAGGCTAACAGAATACG
1 CCACAAAGGCATCATATGGAATACACCATAAAGGCTAACAGAATATG
*
67162555 CAACAAAGGC
1 CCACAAAGGC
67162565 TAAACAGAAA
Statistics
Matches: 132, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
46 1 0.01
47 130 0.98
48 1 0.01
ACGTcount: A:0.44, C:0.22, G:0.18, T:0.16
Consensus pattern (47 bp):
CCACAAAGGCATCATATGGAATACACCATAAAGGCTAACAGAATATG
Found at i:67164987 original size:27 final size:27
Alignment explanation
Indices: 67164949--67165002 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
67164939 TAATTGAGTA
67164949 TAAATCATATTGGGTTCAAGTTTAAGG
1 TAAATCATATTGGGTTCAAGTTTAAGG
67164976 TAAATCATATTGGGTTCAAGTTTAAGG
1 TAAATCATATTGGGTTCAAGTTTAAGG
67165003 CTTAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (27 bp):
TAAATCATATTGGGTTCAAGTTTAAGG
Found at i:67167636 original size:29 final size:29
Alignment explanation
Indices: 67167579--67167640 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
67167569 GGATGGGAGG
*
67167579 GAAGTAAAAGTTTTGAGAAAAAGTGAAAA
1 GAAGTAAAAGTTTAGAGAAAAAGTGAAAA
*
67167608 GAAGTAAAAGTATTAGGGAAAAAGT-AAAA
1 GAAGTAAAAGT-TTAGAGAAAAAGTGAAAA
67167637 -AAGT
1 GAAGT
67167641 TTAGAGATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 4 0.13
29 15 0.50
30 11 0.37
ACGTcount: A:0.56, C:0.00, G:0.24, T:0.19
Consensus pattern (29 bp):
GAAGTAAAAGTTTAGAGAAAAAGTGAAAA
Found at i:67171512 original size:15 final size:15
Alignment explanation
Indices: 67171488--67171533 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
67171478 TATTCGAAGC
*
67171488 AAACATAAAAAGAAA
1 AAACAAAAAAAGAAA
67171503 AAACAAAAAAA-ACAA
1 AAACAAAAAAAGA-AA
67171518 AAACAAAAAAAGAAA
1 AAACAAAAAAAGAAA
67171533 A
1 A
67171534 GGTTTTTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 1 0.04
15 26 0.93
16 1 0.04
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (15 bp):
AAACAAAAAAAGAAA
Found at i:67184269 original size:94 final size:95
Alignment explanation
Indices: 67184123--67184476 Score: 344
Period size: 94 Copynumber: 3.8 Consensus size: 95
67184113 TATACCCCTA
* * * * * *
67184123 AAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCTGAAGTTGCAGTGGAGC
1 AAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGC
*
67184188 AAGATAAAGCTACAAATCT-TATATCACAT-
66 AAGATGAAGCTACAAATCTCTATA-CACATG
* * * * *
67184217 AAGTTGTAGTAGGTCGGATTGAAGTTACAATATCGAATCTTATCTTCCTGAAGTTATAGTGGAGC
1 AAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGC
* *
67184282 AAGATGAAGCTACAAAT-TCTATACCCCTG
66 AAGATGAAGCTACAAATCTCTATACACATG
* * *
67184311 AA-TTGTAGTGGGTCGGATTGAAGCTACGATAGCGAATCTTATCTCCCTGAAGTTGTAGCGGAAC
1 AAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGC
* * * *
67184375 AAGATGAGGCTACAAATC-CTAGATC-CTTA
66 AAGATGAAGCTACAAATCTCTATA-CACATG
* * * * * * * * * *
67184404 AAATTGCAATGGAAT-GGATTGAAACTACAATAGCAAATCTTATCTTCTTGAAGTTGCAATGGAG
1 AAGTTGTAGTGG-GTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAG
*
67184468 TAAGATGAA
65 CAAGATGAA
67184477 ACTGTAACAC
Statistics
Matches: 214, Mismatches: 40, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
93 82 0.38
94 131 0.61
95 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (95 bp):
AAGTTGTAGTGGGTCGGATTGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGC
AAGATGAAGCTACAAATCTCTATACACATG
Found at i:67184445 original size:187 final size:188
Alignment explanation
Indices: 67184107--67184476 Score: 433
Period size: 187 Copynumber: 2.0 Consensus size: 188
67184097 ATGAAACCAT
67184107 AAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCT
1 AAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCT
* * * * * * *
67184172 GAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCTTATATCACATAAGTTGTAGTAGGTCGGATT
66 GAAGTTGCAGCGGAACAAGATAAAGCTACAAATCCTAGATCACATAAATTGCAATAGGTCGGATT
** * * * *
67184237 GAAGTTACAATATCGAATCTTATCTTCCTGAAGTTATAGTGGAGCAAGATGAAGCTAC
131 GAAACTACAATAGCAAATCTTATCTTCCTGAAGTTACAATGGAGCAAGATGAAGCTAC
* * * * * * * *
67184295 AAATTCTATACCCCTGAA-TTGTAGTGGGTCGGATTGAAGCTACGATAGCGAATCTTATCTCCCT
1 AAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCT
* * * *
67184359 GAAGTTGTAGCGGAACAAGATGAGGCTACAAATCCTAGATC-CTTAAAATTGCAAT-GGAAT-GG
66 GAAGTTGCAGCGGAACAAGATAAAGCTACAAATCCTAGATCACAT-AAATTGCAATAGG--TCGG
* * *
67184421 ATTGAAACTACAATAGCAAATCTTATCTTCTTGAAGTTGCAATGGAGTAAGATGAA
128 ATTGAAACTACAATAGCAAATCTTATCTTCCTGAAGTTACAATGGAGCAAGATGAA
67184477 ACTGTAACAC
Statistics
Matches: 151, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
186 4 0.03
187 130 0.86
188 17 0.11
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (188 bp):
AAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACAATAGCAAATATTATCTCCCT
GAAGTTGCAGCGGAACAAGATAAAGCTACAAATCCTAGATCACATAAATTGCAATAGGTCGGATT
GAAACTACAATAGCAAATCTTATCTTCCTGAAGTTACAATGGAGCAAGATGAAGCTAC
Found at i:67188291 original size:41 final size:41
Alignment explanation
Indices: 67188233--67188400 Score: 189
Period size: 41 Copynumber: 4.1 Consensus size: 41
67188223 AGATTCACTC
* * * *
67188233 GCACTTCA-CCTGATAGGCTTATAGTCTAATTCTGTTCACCG
1 GCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
* * * *
67188274 GCACTTAGCTTGCTAGGCCTATAGCCTGATTTAGTTCATCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
*
67188315 GCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
* *
67188356 GCACTTAGCCTGCT-GGACGTATAGTCC-GATTCAATTCACCG
1 GCACTTAGCCTGCTAGG-CTTATAG-CCTGATTCAGTTCACCG
67188397 GCAC
1 GCAC
67188401 NAAACGACTA
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 3 0.03
41 103 0.95
42 2 0.02
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.30
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
Found at i:67200448 original size:91 final size:91
Alignment explanation
Indices: 67200339--67200551 Score: 372
Period size: 91 Copynumber: 2.3 Consensus size: 91
67200329 TTAAATATCT
67200339 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAA
1 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAA
* *
67200404 ATTATATTTAATATTAATTATTTTAA
66 ATTATATGTAATAATAATTATTTTAA
*
67200430 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAA
1 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAA
67200495 ATTATATGTAATAATAATTATTTTAA
66 ATTATATGTAATAATAATTATTTTAA
* * *
67200521 ATTATACAAATTCATATAAGATAATTTATTA
1 ATTGTATAAATTCATATAAGAAAATTTATTA
67200552 GTTGTAATTA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 116 1.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (91 bp):
ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAA
ATTATATGTAATAATAATTATTTTAA
Found at i:67200471 original size:44 final size:45
Alignment explanation
Indices: 67200339--67200472 Score: 132
Period size: 44 Copynumber: 3.0 Consensus size: 45
67200329 TTAAATATCT
67200339 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGA
1 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTA-GA
* * * * * **
67200385 AAT-TATATA-TCATTATTAA-ATTATATTTAATATTAATTATTTTA-A
1 ATTGTATAAATTCA-TA-TAAGA--AAATTTATTATCAAGAATTTTAGA
67200430 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTA
1 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTA
67200473 TGAAATTATA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
44 20 0.30
45 14 0.21
46 13 0.19
47 20 0.30
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (45 bp):
ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTAGA
Found at i:67200520 original size:26 final size:28
Alignment explanation
Indices: 67200466--67200526 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
67200456 TATTATCAAG
* *
67200466 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
67200494 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
67200520 AATTATA
1 AATTATA
67200527 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:67200526 original size:44 final size:43
Alignment explanation
Indices: 67200384--67200526 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
67200374 GAATTTTATG
* *
67200384 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
67200428 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
67200475 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
67200519 AAATTATA
1 AAATTATA
67200527 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:67200644 original size:59 final size:58
Alignment explanation
Indices: 67200578--67200886 Score: 188
Period size: 59 Copynumber: 5.2 Consensus size: 58
67200568 ATTTTATTAA
*
67200578 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGT
* * **
67200637 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TT-AA-TA-ATTTTATTA-
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAAATTATATTTTA-TAG
*
67200697 A
58 T
* * * *
67200698 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGT
* * ** *
67200757 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTA-TT-AA-TA-ATTTTATTA-
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAAATTATATTTTA-TAG
*
67200817 A
58 T
* * * * *
67200818 ATTATATATTTTATTTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGT
67200877 ATCATATATT
1 ATCATATATT
67200887 ATGATTTGAG
Statistics
Matches: 187, Mismatches: 35, Indels: 56
0.67 0.13 0.20
Matches are distributed among these distances:
54 19 0.10
55 8 0.04
56 6 0.03
57 6 0.03
58 8 0.04
59 42 0.22
60 17 0.09
61 31 0.17
62 8 0.04
63 8 0.04
64 4 0.02
65 10 0.05
66 20 0.11
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGT
Found at i:67200691 original size:120 final size:120
Alignment explanation
Indices: 67200567--67200979 Score: 729
Period size: 120 Copynumber: 3.4 Consensus size: 120
67200557 AATTATTTTA
* * * * *
67200567 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
*
67200631 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAT
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAT
67200687 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
67200752 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAT
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAT
*
67200807 AATTTTATTAAATTATATATTTTATTTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
* *
67200872 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTTTTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAT
67200927 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
67200980 TAAATATGAT
Statistics
Matches: 282, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
120 280 0.99
121 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAT
Found at i:67200707 original size:61 final size:61
Alignment explanation
Indices: 67200640--67200947 Score: 257
Period size: 61 Copynumber: 5.1 Consensus size: 61
67200630 TTATAGTATC
67200640 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAATAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAATAATTTTATTAAATT
* * * * * * *
67200701 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTAT-ATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAATAATTTTATTA-AAT
*
67200759 C
61 T
*
67200760 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAATAATTTTATTAAATT
* * * * * *
67200821 ATATATT-TTATTT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTAT-ATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAATAATTTTATTA-AAT
*
67200879 C
61 T
* * *
67200880 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTTTTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAATAATTTTATTAAATT
67200941 ATATATT
1 ATATATT
67200948 TTAATTATAA
Statistics
Matches: 188, Mismatches: 35, Indels: 48
0.69 0.13 0.18
Matches are distributed among these distances:
57 22 0.12
58 15 0.08
59 36 0.19
60 36 0.19
61 43 0.23
62 14 0.07
63 22 0.12
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.51
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAATAATTTTATTAAATT
Found at i:67200721 original size:18 final size:18
Alignment explanation
Indices: 67200675--67200722 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
67200665 TATAAGAATA
*
67200675 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
67200691 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
67200708 TTAATTATAATATAT
1 TTAATTATAATATAT
67200723 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:67200727 original size:15 final size:15
Alignment explanation
Indices: 67200692--67200743 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
67200682 TTAATAATTT
*
67200692 TATTAAATTAT-ATA
1 TATTTAATTATAATA
67200706 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
67200720 TATTTAATAATAAT-
1 TATTTAATTATAATA
67200734 TATGTTAATT
1 TAT-TTAATT
67200744 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:67200842 original size:16 final size:17
Alignment explanation
Indices: 67200803--67200844 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
67200793 TATTGATTAT
67200803 TAATA-ATTTTATTAAA
1 TAATATATTTTATTAAA
* *
67200819 TTATATATTTTATT-TA
1 TAATATATTTTATTAAA
67200835 TAATATATTT
1 TAATATATTT
67200845 AATAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATATATTTTATTAAA
Found at i:67200944 original size:59 final size:57
Alignment explanation
Indices: 67200641--67200944 Score: 178
Period size: 59 Copynumber: 5.1 Consensus size: 57
67200631 TATAGTATCA
*
67200641 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAATAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATT-ATTTTTAA-AATTTTATTAAAT
* * * * * * *
67200700 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTATATTTTA-TAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTAT-TT--TTAAAATTTTATTA-AAT
*
67200759 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATT-ATTTTTAA-AATTTTATTAAAT
* * * * * * *
67200820 TATATATTTTATTT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTATATTTTA-TAGTAT
1 TATAT-TATGATTTGAGTAAAT-TCATATAAGAAT-ATTAT-TT--TTAAAATTTTATTA-AAT
67200879 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTTTTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATT-ATTTTTAA-AATTTTATTAAAT
67200940 TATAT
1 TATAT
67200945 ATTTTAATTA
Statistics
Matches: 182, Mismatches: 31, Indels: 64
0.66 0.11 0.23
Matches are distributed among these distances:
56 6 0.03
57 26 0.14
58 18 0.10
59 31 0.17
60 24 0.13
61 26 0.14
62 19 0.10
63 26 0.14
64 6 0.03
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (57 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTTTAAAATTTTATTAAAT
Found at i:67200962 original size:16 final size:16
Alignment explanation
Indices: 67200941--67200982 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
67200931 TTATTAAATT
*
67200941 ATATATTTTAATTATA
1 ATATATTTTAATAATA
67200957 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
67200972 AT-TATGTTTAA
1 ATATAT-TTTAA
67200983 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:67200967 original size:15 final size:15
Alignment explanation
Indices: 67200932--67200973 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
67200922 TTAAGAATTT
*
67200932 TATTAAATTAT-ATA
1 TATTTAATTATAATA
67200946 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
67200960 TATTTAATAATAAT
1 TATTTAATTATAAT
67200974 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:67201161 original size:39 final size:40
Alignment explanation
Indices: 67201113--67201214 Score: 109
Period size: 45 Copynumber: 2.5 Consensus size: 40
67201103 CATTATGCTG
*
67201113 TTACACCTCTATTCCATTCAACCAAACACA-AGA-TTACTA
1 TTACGCCTCTATTCCATTCAACCAAACA-ATAGATTTACTA
* *
67201152 TTACGCCTCTATTCCATTACATTCAACCAAACAATTGATTTGCTA
1 TTACGCCTCTATT-C----CATTCAACCAAACAATAGATTTACTA
67201197 TTACGCCTCTATTCCATT
1 TTACGCCTCTATTCCATT
67201215 ACGCCTCTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
39 12 0.23
40 5 0.09
43 1 0.02
44 17 0.32
45 18 0.34
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.34
Consensus pattern (40 bp):
TTACGCCTCTATTCCATTCAACCAAACAATAGATTTACTA
Found at i:67201207 original size:45 final size:44
Alignment explanation
Indices: 67201127--67201216 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
67201117 ACCTCTATTC
67201127 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
* *
67201171 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCATTA
67201216 C
1 C
67201217 GCCTCTAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.38
45 25 0.60
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
Found at i:67201217 original size:16 final size:16
Alignment explanation
Indices: 67201196--67201244 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
67201186 TTGATTTGCT
67201196 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
67201212 ATTACGCCTCTAATCC
1 ATTACGCCTCTATTCC
*
67201228 ATTACGCCTTTATTCC
1 ATTACGCCTCTATTCC
67201244 A
1 A
67201245 ATACAGCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.22, C:0.35, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:67201402 original size:26 final size:27
Alignment explanation
Indices: 67201364--67201416 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
67201354 TGTCTCGACT
*
67201364 TTTAACTGACGAA-CCTTAGTTCGCAA
1 TTTAACTGACGAACCCCTAGTTCGCAA
67201390 TTTAACT-AGCGAACCCCTAGTTCGCAA
1 TTTAACTGA-CGAACCCCTAGTTCGCAA
67201417 CTTGATTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 1 0.04
26 11 0.46
27 12 0.50
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (27 bp):
TTTAACTGACGAACCCCTAGTTCGCAA
Found at i:67204716 original size:274 final size:275
Alignment explanation
Indices: 67204213--67204719 Score: 697
Period size: 274 Copynumber: 1.8 Consensus size: 275
67204203 ATGTTGCATC
* * *
67204213 TAGAGCTTGTATTTTGGTAGTGCTGCAAACAAATTGGTGACATTTTAGTAGGGACAGCTCAGGGT
1 TAGAGCATGAATTTTGGTAGTGCTGCAAACAAATCGGTGACATTTTAGTAGGGACA-CTCAGGGT
* **
67204278 ACAAAGTTGTATGACCTTTCGGTTTAGCTGCTGGATCATCTTTTTAATCTGCCTTTAAGAATTTT
65 ACAAAGTTGTATGACCTTTCGATTTAGCTGCTGGATCATCTTTTTAATCCACCTTTAAGAATTTT
* * * *
67204343 GAGCATGGGTTTGCTGGAATTAGTTTGTGCATTAAAGAGATGAGATGGCTAATATTTAGTATTTA
130 GAGCACGGGTTTGCAGGAAGTAGTTTGTACATTAAAGAGATGAGATGGCTAATATTTAGTATTTA
* * * * *
67204408 GCGTCAAATGGTACTATCAAAGGTTATTATTGATGAAAACATTCACTTCCAGACATCTGAGATAA
195 GCATCAAAGGGTACAAACAAAGGTTATCATTGATGAAAACATTCACTTCCAGACATCTGAGATAA
67204473 CATATCATGTAGTATT
260 CATATCATGTAGTATT
* *
67204489 TAGAGCATGAATTTTGGTAGTGCTGCAAACAAATCGGTGAC-TTTTATTAGGGAC-TTCA-GGTA
1 TAGAGCATGAATTTTGGTAGTGCTGCAAACAAATCGGTGACATTTTAGTAGGGACACTCAGGGTA
67204551 CAAAAGTTGTATGACCTTT-GATTTAGCTGCT-GACTCATC-TTTTAATTCCACCTTTAAGAA-T
66 C-AAAGTTGTATGACCTTTCGATTTAGCTGCTGGA-TCATCTTTTTAA-TCCACCTTTAAGAATT
* * * *
67204612 TT-AGCACGGCTAGTTTTGCAGGCAGTATTTTGTACCTTAAAGAGATGAGATGGCTAATATTTTG
128 TTGAGCACGG---G-TTTGCAGGAAGTAGTTTGTACATTAAAGAGATGAGATGGCTAATATTTAG
67204676 TATTTAGCATCAAAGGGTACAAACAAAGGTTATCATTGATGAAA
189 TATTTAGCATCAAAGGGTACAAACAAAGGTTATCATTGATGAAA
67204720 CCTTACATCT
Statistics
Matches: 203, Mismatches: 21, Indels: 16
0.85 0.09 0.07
Matches are distributed among these distances:
270 6 0.03
271 11 0.05
272 33 0.16
273 21 0.10
274 82 0.40
275 12 0.06
276 38 0.19
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (275 bp):
TAGAGCATGAATTTTGGTAGTGCTGCAAACAAATCGGTGACATTTTAGTAGGGACACTCAGGGTA
CAAAGTTGTATGACCTTTCGATTTAGCTGCTGGATCATCTTTTTAATCCACCTTTAAGAATTTTG
AGCACGGGTTTGCAGGAAGTAGTTTGTACATTAAAGAGATGAGATGGCTAATATTTAGTATTTAG
CATCAAAGGGTACAAACAAAGGTTATCATTGATGAAAACATTCACTTCCAGACATCTGAGATAAC
ATATCATGTAGTATT
Found at i:67207256 original size:284 final size:284
Alignment explanation
Indices: 67206744--67207307 Score: 1065
Period size: 284 Copynumber: 2.0 Consensus size: 284
67206734 TACCCGTTGC
67206744 AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
1 AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
67206809 AAAAGCTTACTGTTACTTGCAACTCTCTATAGTATAATCTAGTTTTGTAGTTATATTATTAAAAA
66 AAAAGCTTACTGTTACTTGCAACTCTCTATAGTATAATCTAGTTTTGTAGTTATATTATTAAAAA
* *
67206874 AAGATGTATGAATTTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTCA
131 AAGAGGTATGAATGTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTCA
* *
67206939 TTTCTATTGCCTTGACTTATGCACGTCAACTTCAAGACATGACTTTATCCATCACAAATTCTTGC
196 TTTCTATTGCCATGACTTATGCACGTAAACTTCAAGACATGACTTTATCCATCACAAATTCTTGC
67207004 AGGATGTTTGCTTGTCATCTACAA
261 AGGATGTTTGCTTGTCATCTACAA
67207028 AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
1 AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
*
67207093 AAAAGCTTACTGTTACTTGCAACTCTCTATAGTATAATCTAGTTTTGTAGTTATATTGTTAAAAA
66 AAAAGCTTACTGTTACTTGCAACTCTCTATAGTATAATCTAGTTTTGTAGTTATATTATTAAAAA
67207158 AAGAGGTATGAATGTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTCA
131 AAGAGGTATGAATGTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTCA
* *
67207223 TTTCTATTGCCATGACTTATGCATGTAAACTTCAGGACATGACTTTATCCATCACAAATTCTTGC
196 TTTCTATTGCCATGACTTATGCACGTAAACTTCAAGACATGACTTTATCCATCACAAATTCTTGC
67207288 AGGATGTTTGCTTGTCATCT
261 AGGATGTTTGCTTGTCATCT
67207308 GCAAGAGTTG
Statistics
Matches: 273, Mismatches: 7, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
284 273 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (284 bp):
AACTTGATAGTCTGAGTTTCTTTCATGTCAGGAGAAACATAGTTTTCTTACTCATGAAGGATTGC
AAAAGCTTACTGTTACTTGCAACTCTCTATAGTATAATCTAGTTTTGTAGTTATATTATTAAAAA
AAGAGGTATGAATGTTGTCTAAATTAGCTGAAGCTATTTGCAGTTGGTCACCCCATGCATTTTCA
TTTCTATTGCCATGACTTATGCACGTAAACTTCAAGACATGACTTTATCCATCACAAATTCTTGC
AGGATGTTTGCTTGTCATCTACAA
Found at i:67212995 original size:71 final size:71
Alignment explanation
Indices: 67212915--67213047 Score: 171
Period size: 71 Copynumber: 1.9 Consensus size: 71
67212905 TTATGAGTTG
* * *
67212915 CAAGTAATTCTTTC-ATGTACTACGAGCTACTTAATTTTTTAGAAGCC-TTTCATATTTTAAGTT
1 CAAGTAATTCTTTCTAT-TACTACAAACTACTTAATTTCTTAGAA-CCTTTTCATATTTTAAGTT
67212978 TTGTATTT
64 TTGTATTT
* * * *
67212986 CAAGTAATTCTTTCTATTGCTACAAATTAGTTAATTTCTTAGAACCTTTTCATGTTTTAAGT
1 CAAGTAATTCTTTCTATTACTACAAACTACTTAATTTCTTAGAACCTTTTCATATTTTAAGT
67213048 AATTCTTTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
70 2 0.04
71 49 0.92
72 2 0.04
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (71 bp):
CAAGTAATTCTTTCTATTACTACAAACTACTTAATTTCTTAGAACCTTTTCATATTTTAAGTTTT
GTATTT
Found at i:67213390 original size:263 final size:263
Alignment explanation
Indices: 67213053--67213580 Score: 880
Period size: 263 Copynumber: 2.0 Consensus size: 263
67213043 TAAGTAATTC
* * *
67213053 TTTTATATTTCTAGTAATTATTTCATGTGTTAGAATATAATTAATTTCTTGGAATCTTCTCATGT
1 TTTTATATTTCTAGTAATTATTTCATATGTTAGAATATAATTAATTTCTTAGAATCTTCTCATAT
67213118 TTTAATTAGCGCTTTCAGGATTTAAGTAATTCTTCCATGTATTAT-AGATTACATAACTTCTTAG
66 TTTAATTAGCGCTTTCAGGATTTAAGTAATTCTTCCATGTATT-TCAGATTACATAACTTCTTAG
*
67213182 AAACTCTTTCATGTTTTAAGTAATTTCTTCATGCG-TGTAATTTTTTAGAAACTTTTTCAAATGC
130 AAACTCTTTCATGTTTTAAGTAATTTCTTCATGCGTTGTAATTTCTTAGAAACTTTTTCAAATGC
* *
67213246 TTTAAGTAACACTTTCAAGTTTTAAGTAATTCTTTCATGTATTACTAATTACTTACTTTCTTAAC
195 TTTAAGTAACACTTTCAAGTTTTAAGTAATTCTTACATGTATTACGAATTACTTACTTTCTTAA-
67213311 ACTCT
259 ACTCT
*
67213316 TTTTATATTTCTAGTAATTATTTCATATGTTAGAATATAATTAATTTCTTAGTATCTTCTCATAT
1 TTTTATATTTCTAGTAATTATTTCATATGTTAGAATATAATTAATTTCTTAGAATCTTCTCATAT
* * * * * *
67213381 TTTAATTAGCGCTTTCAGGGTTTAAGTAGTTCTTCCATGTGTTTCATATTACGTAACTTTTTAGA
66 TTTAATTAGCGCTTTCAGGATTTAAGTAATTCTTCCATGTATTTCAGATTACATAACTTCTTAGA
* *
67213446 AATTCTTTCATGTTTTAAGTAATTTCTTCATGCGTTGTAATTTCTTAGAAACTTTTTCAAATGTT
131 AACTCTTTCATGTTTTAAGTAATTTCTTCATGCGTTGTAATTTCTTAGAAACTTTTTCAAATGCT
*
67213511 TTAAGTAACACTTTCAAGTTTTAAGTAATTCTTACATGTATTACGAATTACTTACTTTCTTTAAC
196 TTAAGTAACACTTTCAAGTTTTAAGTAATTCTTACATGTATTACGAATTACTTACTTTCTTAAAC
67213576 TCT
261 TCT
67213579 TT
1 TT
67213581 CATATTTGAA
Statistics
Matches: 247, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
262 1 0.00
263 158 0.64
264 88 0.36
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.48
Consensus pattern (263 bp):
TTTTATATTTCTAGTAATTATTTCATATGTTAGAATATAATTAATTTCTTAGAATCTTCTCATAT
TTTAATTAGCGCTTTCAGGATTTAAGTAATTCTTCCATGTATTTCAGATTACATAACTTCTTAGA
AACTCTTTCATGTTTTAAGTAATTTCTTCATGCGTTGTAATTTCTTAGAAACTTTTTCAAATGCT
TTAAGTAACACTTTCAAGTTTTAAGTAATTCTTACATGTATTACGAATTACTTACTTTCTTAAAC
TCT
Found at i:67213582 original size:56 final size:57
Alignment explanation
Indices: 67213516--67213703 Score: 177
Period size: 56 Copynumber: 3.3 Consensus size: 57
67213506 ATGTTTTAAG
* * *
67213516 TAACACTTTCAAGTTTTAAGTAATTCTTACATGTATTACGAATTACTTACTTTCTT-
1 TAACTCTTTCAAGTTTTAAGTAATTCTTTCATGTATTACGAATTACTTAATTTCTTA
* * * *
67213572 TAACTCTTTCATA-TTTGAAGTAACTCTTTCATGTATTATGGATTA-TTAATTTCTTA
1 TAACTCTTTCA-AGTTTTAAGTAATTCTTTCATGTATTACGAATTACTTAATTTCTTA
* * * * * * * *
67213628 AAACTCTTCCATGTTTTAAGTAATACTTTCATATTTTACGAATAACTTAATTTATTA
1 TAACTCTTTCAAGTTTTAAGTAATTCTTTCATGTATTACGAATTACTTAATTTCTTA
* *
67213685 GAA-TCATTTCATGTTTTAA
1 TAACTC-TTTCAAGTTTTAA
67213704 TTGTCTTTTT
Statistics
Matches: 106, Mismatches: 21, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
55 9 0.08
56 72 0.68
57 25 0.24
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.47
Consensus pattern (57 bp):
TAACTCTTTCAAGTTTTAAGTAATTCTTTCATGTATTACGAATTACTTAATTTCTTA
Found at i:67218612 original size:21 final size:20
Alignment explanation
Indices: 67218588--67218644 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
67218578 GTGAGGGAGG
67218588 CACACGACCGTGTGTAGGTGA
1 CACA-GACCGTGTGTAGGTGA
*
67218609 CACATACCTGTGTGTAGGTGA
1 CACAGACC-GTGTGTAGGTGA
*
67218630 CACAAGTCCGTGTGT
1 CAC-AGACCGTGTGT
67218645 CCAGGGAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 3 0.10
21 25 0.81
22 3 0.10
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (20 bp):
CACAGACCGTGTGTAGGTGA
Found at i:67222138 original size:16 final size:17
Alignment explanation
Indices: 67222098--67222138 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
67222088 CATGATTCGC
67222098 TTATTAAACTAATTTAT
1 TTATTAAACTAATTTAT
*
67222115 TTGTTAAA-TAA-TTAT
1 TTATTAAACTAATTTAT
67222130 TTATATAAA
1 TTAT-TAAA
67222139 ATTGAGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 7 0.33
16 7 0.33
17 7 0.33
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TTATTAAACTAATTTAT
Found at i:67244417 original size:19 final size:20
Alignment explanation
Indices: 67244395--67244433 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
67244385 TTTTTAAAGA
67244395 GTTGCATATT-TTTAATTTT
1 GTTGCATATTGTTTAATTTT
* *
67244414 GTTGGATATTGTTTTATTTT
1 GTTGCATATTGTTTAATTTT
67244434 TAGGCCTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.18, C:0.03, G:0.15, T:0.64
Consensus pattern (20 bp):
GTTGCATATTGTTTAATTTT
Found at i:67252345 original size:62 final size:63
Alignment explanation
Indices: 67252247--67252383 Score: 199
Period size: 61 Copynumber: 2.2 Consensus size: 63
67252237 GCCTAATAAT
*
67252247 AAATTTATCCCT-TCAATATTTACACATTCTCTCAATTTGATCCTAAATCTAAAAAAATTAAAC
1 AAATTTAGCCCTCTCAATATTTACACATTCTCTCAATTTGATCCTAAAT-TAAAAAAATTAAAC
* * * *
67252310 AAATTTAGCCCTCT-AATGTTT-CACATTCTCTCAATTTGATCGTAAATTTAAAAAATTCAAC
1 AAATTTAGCCCTCTCAATATTTACACATTCTCTCAATTTGATCCTAAATTAAAAAAATTAAAC
67252371 AAATTTAGCCCTC
1 AAATTTAGCCCTC
67252384 AACGTATACA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
61 25 0.37
62 25 0.37
63 17 0.25
64 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.36
Consensus pattern (63 bp):
AAATTTAGCCCTCTCAATATTTACACATTCTCTCAATTTGATCCTAAATTAAAAAAATTAAAC
Found at i:67255931 original size:11 final size:11
Alignment explanation
Indices: 67255906--67255945 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
67255896 ATTTCCCTTA
*
67255906 CTTTCCCTT-C
1 CTTTCCTTTCC
67255916 CTTTCCTTTCC
1 CTTTCCTTTCC
67255927 CTTTCCTTTCC
1 CTTTCCTTTCC
*
67255938 CTCTCCTT
1 CTTTCCTT
67255946 ACCCCAACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (11 bp):
CTTTCCTTTCC
Found at i:67255945 original size:16 final size:15
Alignment explanation
Indices: 67255906--67255937 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
67255896 ATTTCCCTTA
67255906 CTTTCCCTTCCTTTC
1 CTTTCCCTTCCTTTC
67255921 CTTTCCCTTTCCTTTC
1 CTTTCCC-TTCCTTTC
67255937 C
1 C
67255938 CTCTCCTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (15 bp):
CTTTCCCTTCCTTTC
Found at i:67256280 original size:15 final size:16
Alignment explanation
Indices: 67256243--67256285 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
67256233 AGTAATATCC
67256243 TATCCAAATCTGAAAT
1 TATCCAAATCTGAAAT
* * *
67256259 TACCCAATTCT-AGAT
1 TATCCAAATCTGAAAT
67256274 TATCCAAATCTG
1 TATCCAAATCTG
67256286 GAAAAAAAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (16 bp):
TATCCAAATCTGAAAT
Found at i:67261851 original size:18 final size:17
Alignment explanation
Indices: 67261828--67261872 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
67261818 GGTATATTTA
67261828 TTTTCTTTTTCTAGTTTT
1 TTTTCTTTTT-TAGTTTT
* *
67261846 TTTTCTCTCTTTATTTTT
1 TTTTCT-TTTTTAGTTTT
67261864 TTTTCTTTT
1 TTTTCTTTT
67261873 CGAAGTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 2 0.09
18 18 0.78
19 3 0.13
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTCTTTTTTAGTTTT
Found at i:67265320 original size:35 final size:37
Alignment explanation
Indices: 67265281--67265349 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
67265271 CCTATTATTA
67265281 TTATTAT-TATT-ATAAC-TATTTATATATATATCATC
1 TTATTATATATTAATAACTTA-TTATATATATATCATC
*
67265316 TTATTATATATTAATATCTTATTATATATATATC
1 TTATTATATATTAATAACTTATTATATATATATC
67265350 TATATATCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 7 0.23
36 4 0.13
37 17 0.57
38 2 0.07
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (37 bp):
TTATTATATATTAATAACTTATTATATATATATCATC
Found at i:67265336 original size:18 final size:20
Alignment explanation
Indices: 67265300--67265349 Score: 72
Period size: 18 Copynumber: 2.7 Consensus size: 20
67265290 TTATAACTAT
67265300 TTATATA-TATATCATCTTA
1 TTATATATTATATCATCTTA
67265319 TTATATATTA-AT-ATCTTA
1 TTATATATTATATCATCTTA
67265337 TTATATA-TATATC
1 TTATATATTATATC
67265350 TATATATCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.07
18 15 0.54
19 9 0.32
20 2 0.07
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATATATTATATCATCTTA
Found at i:67265544 original size:39 final size:39
Alignment explanation
Indices: 67265494--67265570 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
67265484 ATATGTACAT
* * *
67265494 ACTTGCACTGTTTTATTTTACAATATACATACTTATATA
1 ACTTACACTGTTTTATTTTACAATAGACAAACTTATATA
67265533 ACTTACACTGTTTTATTTTACAATAGACAAACTTATAT
1 ACTTACACTGTTTTATTTTACAATAGACAAACTTATAT
67265571 CATTTATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44
Consensus pattern (39 bp):
ACTTACACTGTTTTATTTTACAATAGACAAACTTATATA
Found at i:67267629 original size:18 final size:20
Alignment explanation
Indices: 67267593--67267637 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 20
67267583 TTATAACTAT
67267593 TTATATA-TATATCATCTTA
1 TTATATATTATATCATCTTA
67267612 TTATATATTA-AT-ATCTTA
1 TTATATATTATATCATCTTA
67267630 TTATATAT
1 TTATATAT
67267638 ATCTCTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.56
19 9 0.36
20 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATATATTATATCATCTTA
Found at i:67271267 original size:8 final size:8
Alignment explanation
Indices: 67271254--67271306 Score: 70
Period size: 8 Copynumber: 6.2 Consensus size: 8
67271244 CAGACTAAAA
67271254 AAAAAATC
1 AAAAAATC
67271262 AAAAAATC
1 AAAAAATC
67271270 AAAAAAAAATC
1 ---AAAAAATC
67271281 AAAAAATC
1 AAAAAATC
*
67271289 AAAAAATA
1 AAAAAATC
67271297 AAAAAATC
1 AAAAAATC
67271305 AA
1 AA
67271307 GGTCAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
8 32 0.80
11 8 0.20
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATC
Found at i:67271267 original size:11 final size:11
Alignment explanation
Indices: 67271251--67271286 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
67271241 GTTCAGACTA
67271251 AAAAAAAAATC
1 AAAAAAAAATC
67271262 ---AAAAAATC
1 AAAAAAAAATC
67271270 AAAAAAAAATC
1 AAAAAAAAATC
67271281 AAAAAA
1 AAAAAA
67271287 TCAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 8 0.36
11 14 0.64
ACGTcount: A:0.83, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAAATC
Found at i:67271275 original size:19 final size:19
Alignment explanation
Indices: 67271251--67271294 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
67271241 GTTCAGACTA
67271251 AAAAAAAAATCAAAAAATC
1 AAAAAAAAATCAAAAAATC
67271270 AAAAAAAAATCAAAAAATC
1 AAAAAAAAATCAAAAAATC
67271289 AAAAAA
1 AAAAAA
67271295 TAAAAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (19 bp):
AAAAAAAAATCAAAAAATC
Found at i:67271327 original size:13 final size:13
Alignment explanation
Indices: 67271320--67271356 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
67271310 CAAAAATAGG
67271320 AGAAAAAAAAAGA
1 AGAAAAAAAAAGA
67271333 AGAAAAAAAAAGA
1 AGAAAAAAAAAGA
*
67271346 A-AAAGAAAAAG
1 AGAAAAAAAAAG
67271357 GAGAGGTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAGA
Found at i:67271341 original size:16 final size:16
Alignment explanation
Indices: 67271322--67271355 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
67271312 AAAATAGGAG
*
67271322 AAAAAAA-AAGAAGAA
1 AAAAAAAGAAAAAGAA
67271337 AAAAAAAGAAAAAGAA
1 AAAAAAAGAAAAAGAA
67271353 AAA
1 AAA
67271356 GGAGAGGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAAGAA
Found at i:67273531 original size:88 final size:88
Alignment explanation
Indices: 67273379--67274153 Score: 1374
Period size: 88 Copynumber: 8.8 Consensus size: 88
67273369 ATCGAAAATA
*
67273379 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACA-ACAGATCTTGCCTTCCTACATT
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAGA-AGATCTTGCCTTCCTGCATT
67273443 GACAGCGAAGCAGGTCGAAGACAC
65 GACAGCGAAGCAGGTCGAAGACAC
67273467 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAGAAGATCTTGCCTTCCTGCATTG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAGAAGATCTTGCCTTCCTGCATTG
*
67273532 ACAGCGAAGTAGGTCGAAGACAC
66 ACAGCGAAGCAGGTCGAAGACAC
67273555 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAGAAGATCTTGCCTTCCTGCATTG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAGAAGATCTTGCCTTCCTGCATTG
*
67273620 ACAGCGAAGTAGGTCGAAGACAC
66 ACAGCGAAGCAGGTCGAAGACAC
67273643 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAGAAGATCTTGCCTTCCTGCATTG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAGAAGATCTTGCCTTCCTGCATTG
*
67273708 ACAGCGAAGTAGGTCGAAGACAC
66 ACAGCGAAGCAGGTCGAAGACAC
67273731 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAGAAGATCTTGCCTTCCTGCATTG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAGAAGATCTTGCCTTCCTGCATTG
*
67273796 ACAGCGAAGTAGGTCGAAGACAC
66 ACAGCGAAGCAGGTCGAAGACAC
* *
67273819 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT-AGAGACAAAAGATCTTGCTTTCCTGCATT
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGA-AGACAGAAGATCTTGCCTTCCTGCATT
67273883 GACAGCGAAGCAGGTCGAAGACAC
65 GACAGCGAAGCAGGTCGAAGACAC
*
67273907 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAGAAGATCTTGCCTTCCTGCATTG
67273972 ACAGCGAAGCAGGTCGAAGACAC
66 ACAGCGAAGCAGGTCGAAGACAC
* *
67273995 AAACCTTGCCTCTCTCAGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAGAAGATCTTGCCTTCCTGCATTG
* *
67274060 AAAGTGAAGCAGGTCGAAGACAC
66 ACAGCGAAGCAGGTCGAAGACAC
* * * *
67274083 AAACCTTGCCTCTCTCGGTTGTGAGGGAGCTGGTTGAAGACAGTAGATATTGCCTTCCTGCATCG
1 AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAGAAGATCTTGCCTTCCTGCATTG
67274148 ACAGCG
66 ACAGCG
67274154 GGGCAGATCA
Statistics
Matches: 667, Mismatches: 17, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
87 1 0.00
88 664 1.00
89 2 0.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (88 bp):
AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAGAAGATCTTGCCTTCCTGCATTG
ACAGCGAAGCAGGTCGAAGACAC
Found at i:67274341 original size:95 final size:95
Alignment explanation
Indices: 67274174--67274402 Score: 395
Period size: 95 Copynumber: 2.4 Consensus size: 95
67274164 AATATGGCAG
67274174 ATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAAATCGAAGATGGCAAATTTTACCTCC
1 ATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAAATCGAAGATGGCAAATTTTACCTCC
* *
67274239 CTGTGACTACAGTGGAGTACATTGAAGCCA
66 CTATGACTACAGTAGAGTACATTGAAGCCA
* * *
67274269 ATAATTCTTTCTCTCTGGTTGGCAGTGGAATAGATTGAAAATCGAATATGGCAAATTTTACCTCC
1 ATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAAATCGAAGATGGCAAATTTTACCTCC
**
67274334 CTATGACTACAGTAGAGTACATTGAAGCTG
66 CTATGACTACAGTAGAGTACATTGAAGCCA
67274364 ATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAA
1 ATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAA
67274403 GATTTCAGAT
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 125 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (95 bp):
ATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAAATCGAAGATGGCAAATTTTACCTCC
CTATGACTACAGTAGAGTACATTGAAGCCA
Found at i:67274481 original size:44 final size:44
Alignment explanation
Indices: 67274387--67274506 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 44
67274377 CCTGGTTGGC
* * *
67274387 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTGCAGATCTTATCACCCTAAGCAGT
* * *
67274431 AGTGGAGTAGGTTGAAGATTGCAGAT-TCTGTCACCTTAAGCAGT
1 AGTGGAGTAGATTGAAGATTGCAGATCT-TATCACCCTAAGCAGT
* * *
67274475 AGTGGAGCAGATCGAAGA-TGCGAAATCTTATC
1 AGTGGAGTAGATTGAAGATTGC-AGATCTTATC
67274507 TTCCCAAGGT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
43 4 0.06
44 57 0.92
45 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGATTGCAGATCTTATCACCCTAAGCAGT
Found at i:67274828 original size:25 final size:25
Alignment explanation
Indices: 67274795--67274844 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
67274785 CCCGGGCCCA
*
67274795 AACCTAAAACAAATTAAACCCAAAC
1 AACCCAAAACAAATTAAACCCAAAC
*
67274820 AACCCAAAACAAATTACACCCAAAC
1 AACCCAAAACAAATTAAACCCAAAC
67274845 CTCAACCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.58, C:0.32, G:0.00, T:0.10
Consensus pattern (25 bp):
AACCCAAAACAAATTAAACCCAAAC
Found at i:67275453 original size:16 final size:15
Alignment explanation
Indices: 67275432--67275462 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
67275422 CACGGCGGCG
67275432 CCGGCGCCGTCGACC
1 CCGGCGCCGTCGACC
67275447 NCCGGCGCCGTCGACC
1 -CCGGCGCCGTCGACC
67275463 GGTGGCCGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.52, G:0.32, T:0.06
Consensus pattern (15 bp):
CCGGCGCCGTCGACC
Found at i:67276020 original size:3 final size:3
Alignment explanation
Indices: 67276006--67276053 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
67275996 ACAAATTTCA
* *
67276006 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
67276052 TA
1 TA
67276054 GTTTTATTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:67290017 original size:37 final size:36
Alignment explanation
Indices: 67289971--67290040 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
67289961 CACTTTAATG
*
67289971 TTAAATTAATA-AAATACTATTAAGATAAGTATTAAAT
1 TTAAATTAATATAAA-ACTATTAAAATAA-TATTAAAT
* *
67290008 TTAATTTAATATTAAACTATTAAAATAATATTA
1 TTAAATTAATATAAAACTATTAAAATAATATTA
67290041 TTTTGGAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 5 0.17
37 22 0.76
38 2 0.07
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAAATTAATATAAAACTATTAAAATAATATTAAAT
Found at i:67297245 original size:17 final size:17
Alignment explanation
Indices: 67297204--67297237 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
67297194 TTGTCTCATA
*
67297204 AAAGAGTATACCAAACC
1 AAAGAGTTTACCAAACC
*
67297221 AAACAGTTTACCAAACC
1 AAAGAGTTTACCAAACC
67297238 TTAGAGTTCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.26, G:0.09, T:0.15
Consensus pattern (17 bp):
AAAGAGTTTACCAAACC
Found at i:67301707 original size:53 final size:53
Alignment explanation
Indices: 67301550--67301708 Score: 203
Period size: 53 Copynumber: 3.0 Consensus size: 53
67301540 TTAATTTTTC
* * *
67301550 CCATATGATGCCATAACCCACCAGTTATGATCTTACACGATATGGTCTTATTT
1 CCATATGATGACATAAACCACCAGTTATGATCTTACACGATATGGTCTTCTTT
* * * *
67301603 CCATATGATGACATAAACCACTAGTTATGGTCTTACACGATTTGGTTTTCTTT
1 CCATATGATGACATAAACCACCAGTTATGATCTTACACGATATGGTCTTCTTT
* * * *
67301656 CCATATGGT-ATCATAATCCACCAGTTACGATCTTACATGATATGGTCTTCTTT
1 CCATATGATGA-CATAAACCACCAGTTATGATCTTACACGATATGGTCTTCTTT
67301709 AGTGCCATGG
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 1 0.01
53 89 0.99
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (53 bp):
CCATATGATGACATAAACCACCAGTTATGATCTTACACGATATGGTCTTCTTT
Found at i:67307340 original size:4 final size:4
Alignment explanation
Indices: 67307331--67307357 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
67307321 TAGCTTGATG
67307331 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
67307358 TAATTTGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:67309275 original size:11 final size:11
Alignment explanation
Indices: 67309259--67309300 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
67309249 TGGGTGAAAT
67309259 TATTTTAATAA
1 TATTTTAATAA
*
67309270 TATTTTATTAAGA
1 TATTTTAAT-A-A
67309283 TATTTTAATAA
1 TATTTTAATAA
67309294 TATTTTA
1 TATTTTA
67309301 TTTATTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 16 0.59
12 2 0.07
13 9 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
TATTTTAATAA
Found at i:67313939 original size:19 final size:18
Alignment explanation
Indices: 67313893--67313931 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
67313883 GAGTTAAATG
* *
67313893 GTTCACATAAAATAGATA
1 GTTCGCATAAAATAGACA
67313911 GTTCGCATAAAATA-ACA
1 GTTCGCATAAAATAGACA
67313928 GTTC
1 GTTC
67313932 ATGCATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (18 bp):
GTTCGCATAAAATAGACA
Found at i:67314066 original size:23 final size:23
Alignment explanation
Indices: 67314040--67314099 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
67314030 AACATATAGG
*
67314040 GGACTCTATCGCCACCTATAAGT
1 GGACTCTATCACCACCTATAAGT
67314063 GGACTCTATCACCACCTATAAGT
1 GGACTCTATCACCACCTATAAGT
67314086 GGACTCTATCACCA
1 GGACTCTATCACCA
67314100 TACATTGGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (23 bp):
GGACTCTATCACCACCTATAAGT
Found at i:67317745 original size:46 final size:46
Alignment explanation
Indices: 67317695--67317782 Score: 176
Period size: 46 Copynumber: 1.9 Consensus size: 46
67317685 AATAGTTGCA
67317695 TAGGAATCAAATTGCTAAAAGATAATATCTAATAATAATATCTTAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTAATAATAATATCTTAT
67317741 TAGGAATCAAATTGCTAAAAGATAATATCTAATAATAATATC
1 TAGGAATCAAATTGCTAAAAGATAATATCTAATAATAATATC
67317783 CTAAATTCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (46 bp):
TAGGAATCAAATTGCTAAAAGATAATATCTAATAATAATATCTTAT
Found at i:67322494 original size:16 final size:16
Alignment explanation
Indices: 67322473--67322535 Score: 83
Period size: 16 Copynumber: 3.9 Consensus size: 16
67322463 GCAACAACTC
*
67322473 TTGTTTAGAATAGTTG
1 TTGTTTAGAATAATTG
67322489 TTGTTTAGAATAATTG
1 TTGTTTAGAATAATTG
*
67322505 TTGTTTGAGAATAACT-
1 TTGTTT-AGAATAATTG
*
67322521 ATGTTTAGAATAATT
1 TTGTTTAGAATAATT
67322536 ATGTTCAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
15 8 0.19
16 26 0.62
17 8 0.19
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.48
Consensus pattern (16 bp):
TTGTTTAGAATAATTG
Found at i:67322610 original size:16 final size:16
Alignment explanation
Indices: 67322589--67322643 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
67322579 TAGTTGTTAT
67322589 TTGAGAACAACTCTTG
1 TTGAGAACAACTCTTG
**
67322605 TTGAGAACAACTAATG
1 TTGAGAACAACTCTTG
* *
67322621 TTTAAAACAACTCTTG
1 TTGAGAACAACTCTTG
*
67322637 TTTAGAA
1 TTGAGAA
67322644 TAATGTCATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (16 bp):
TTGAGAACAACTCTTG
Found at i:67324858 original size:25 final size:26
Alignment explanation
Indices: 67324802--67324859 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
67324792 AAAAAATGTT
*
67324802 TTTTTTAATTATTATAAAAATACAAT
1 TTTTTTAATTATTATAAAAATACAAA
*
67324828 TATTTTTAATT-TT-TAAAAATATAACA
1 T-TTTTTAATTATTATAAAAATACAA-A
67324854 TTTTTT
1 TTTTTT
67324860 GTAATTCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 15 0.54
26 4 0.14
27 9 0.32
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTTTTAATTATTATAAAAATACAAA
Found at i:67324864 original size:27 final size:25
Alignment explanation
Indices: 67324801--67324870 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 25
67324791 AAAAAAATGT
67324801 TTTTTTTAATTATTATAAAAATACAA
1 TTTTTTTAATTATTA-AAAAATACAA
*
67324827 TTATTTTTAATTTTTAAAAATATA-ACA
1 TT-TTTTTAATTATTAAAAA-ATACA-A
*
67324854 TTTTTTGTAATTCTTAA
1 TTTTTT-TAATTATTAA
67324871 TTTTTTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 11 0.29
27 27 0.71
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.54
Consensus pattern (25 bp):
TTTTTTTAATTATTAAAAAATACAA
Found at i:67324887 original size:10 final size:10
Alignment explanation
Indices: 67324872--67324905 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
67324862 AATTCTTAAT
67324872 TTTTTTAAAA
1 TTTTTTAAAA
*
67324882 TTTTTTATAA
1 TTTTTTAAAA
67324892 TTTTTTGAAAA
1 TTTTTT-AAAA
67324903 TTT
1 TTT
67324906 ATAAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:67328291 original size:13 final size:13
Alignment explanation
Indices: 67328273--67328318 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
67328263 AGTTTTTTAT
67328273 TGCTTTTGAGAAA
1 TGCTTTTGAGAAA
*
67328286 TGCTTTTCAGAAA
1 TGCTTTTGAGAAA
*
67328299 TGCTTTTGAGAAG
1 TGCTTTTGAGAAA
67328312 TGCTTTT
1 TGCTTTT
67328319 AAAAAATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (13 bp):
TGCTTTTGAGAAA
Found at i:67328325 original size:26 final size:26
Alignment explanation
Indices: 67328273--67328325 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
67328263 AGTTTTTTAT
* *
67328273 TGCTTTTGAGAAATGCTTTTCAGAAA
1 TGCTTTTGAGAAATGCTTTTAAAAAA
*
67328299 TGCTTTTGAGAAGTGCTTTTAAAAAA
1 TGCTTTTGAGAAATGCTTTTAAAAAA
67328325 T
1 T
67328326 TTGAGTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
TGCTTTTGAGAAATGCTTTTAAAAAA
Found at i:67328508 original size:21 final size:20
Alignment explanation
Indices: 67328484--67328523 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
67328474 TATTATAACT
* *
67328484 TAATGTTAATATTTTAATATA
1 TAATATTAAT-TTTAAATATA
67328505 TAATATTAATTTTAAATAT
1 TAATATTAATTTTAAATAT
67328524 TTCTAAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TAATATTAATTTTAAATATA
Found at i:67328590 original size:8 final size:8
Alignment explanation
Indices: 67328577--67328604 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
67328567 TATATAAACT
67328577 ATATTTAA
1 ATATTTAA
67328585 ATATTTAA
1 ATATTTAA
67328593 ATATTTAA
1 ATATTTAA
67328601 ATAT
1 ATAT
67328605 AAAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTTAA
Found at i:67328610 original size:16 final size:16
Alignment explanation
Indices: 67328577--67328610 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
67328567 TATATAAACT
**
67328577 ATATTTAAATATTTAA
1 ATATTTAAATATAAAA
67328593 ATATTTAAATATAAAA
1 ATATTTAAATATAAAA
67328609 AT
1 AT
67328611 TAAATATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATTTAAATATAAAA
Found at i:67328944 original size:22 final size:21
Alignment explanation
Indices: 67328919--67328962 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
67328909 AAGCATATGA
*
67328919 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
67328941 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
67328962 A
1 A
67328963 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:67329236 original size:64 final size:64
Alignment explanation
Indices: 67329158--67329288 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
67329148 GCAATATGCC
*
67329158 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTGTTTTAAGATGAACAAGAATGGAACT
1 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTATTTTAAGATGAACAAGAATGGAACT
67329222 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTATTTTAAGATGAACAAGAATGGAACT
1 AAATTAGTGGACAGTCCACATCATTAACATTGCATACTATTTTAAGATGAACAAGAATGGAACT
67329286 AAA
1 AAA
67329289 GTGTCTACCG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (64 bp):
AAATTAGTGGACAGTCCACATCATTAACATTGCATACTATTTTAAGATGAACAAGAATGGAACT
Found at i:67329634 original size:30 final size:30
Alignment explanation
Indices: 67329598--67329655 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
67329588 GCCAGTGGCT
*
67329598 CTCATCTTACTCGCTAGCATAGTAGTGTTA
1 CTCATCTTACTCGCCAGCATAGTAGTGTTA
67329628 CTCATCTTACTCGCCAGCATAGTAGTGT
1 CTCATCTTACTCGCCAGCATAGTAGTGT
67329656 CGCCTCACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.34
Consensus pattern (30 bp):
CTCATCTTACTCGCCAGCATAGTAGTGTTA
Found at i:67333144 original size:41 final size:41
Alignment explanation
Indices: 67333094--67333269 Score: 280
Period size: 41 Copynumber: 4.3 Consensus size: 41
67333084 AATTCATCAT
* *
67333094 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
67333135 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
67333176 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
67333217 ATTTAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
67333258 ATTCATATCACC
1 ATTCAGATCACC
67333270 AATTCCAAAC
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 123 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:67333237 original size:82 final size:82
Alignment explanation
Indices: 67333100--67333269 Score: 331
Period size: 82 Copynumber: 2.1 Consensus size: 82
67333090 TCATATTCGG
67333100 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
67333165 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
67333182 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
67333247 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
67333264 ATCACC
1 ATCACC
67333270 AATTCCAAAC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:67333505 original size:19 final size:19
Alignment explanation
Indices: 67333481--67333517 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
67333471 TTGTTCGATC
*
67333481 CACACATATATATATATTA
1 CACACATATACATATATTA
67333500 CACACATATACATATATT
1 CACACATATACATATATT
67333518 CGCACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:67344915 original size:20 final size:20
Alignment explanation
Indices: 67344890--67344929 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
67344880 TTGGGTACAC
67344890 TTTATGATTATTT-GTAATCT
1 TTTATGATT-TTTAGTAATCT
*
67344910 TTTATGGTTTTTAGTAATCT
1 TTTATGATTTTTAGTAATCT
67344930 CTCATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (20 bp):
TTTATGATTTTTAGTAATCT
Found at i:67345191 original size:20 final size:20
Alignment explanation
Indices: 67345138--67345243 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
67345128 CCTCACATTG
*
67345138 TTTTGGTACTCACCTTATAAT
1 TTTTGGTACTC-TCTTATAAT
** * *
67345159 TTTTTATATTCTCTTATACT
1 TTTTGGTACTCTCTTATAAT
* **
67345179 TTTTGGTACTCTCTCATGTTT
1 TTTTGGTACTCTCTTAT-AAT
* *
67345200 TTTTAGTACT-TCATCATAAT
1 TTTTGGTACTCTC-TTATAAT
*
67345220 TTTTGGTA-TCCTCTCATAAT
1 TTTTGGTACT-CTCTTATAAT
67345240 TTTT
1 TTTT
67345244 TGCACTATTT
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
19 1 0.02
20 41 0.62
21 24 0.36
ACGTcount: A:0.20, C:0.17, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTTGGTACTCTCTTATAAT
Found at i:67345243 original size:41 final size:39
Alignment explanation
Indices: 67345138--67345244 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 39
67345128 CCTCACATTG
* * *
67345138 TTTTGGTACTCACCTTATAATTTTTTATATTCTCTTATACT
1 TTTTGGTACTC-TCTCATAATTTTTTATATTCTC-TATAAT
**
67345179 TTTTGGTACTCTCTCATGTTTTTTTAGTACTTCATC-ATAAT
1 TTTTGGTACTCTCTCATAATTTTTTA-TA-TTC-TCTATAAT
67345220 TTTTGGTA-TCCTCTCATAATTTTTT
1 TTTTGGTACT-CTCTCATAATTTTTT
67345245 GCACTATTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
40 12 0.22
41 38 0.69
42 3 0.05
43 2 0.04
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.56
Consensus pattern (39 bp):
TTTTGGTACTCTCTCATAATTTTTTATATTCTCTATAAT
Found at i:67345245 original size:21 final size:20
Alignment explanation
Indices: 67345178--67345245 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 20
67345168 TCTCTTATAC
**
67345178 TTTTTGGTACTCTCTCATGTT
1 TTTTTGGTAC-CTCTCATAAT
* *
67345199 TTTTTAGTACTTCATCATAA-
1 TTTTTGGTACCTC-TCATAAT
67345219 TTTTTGGTATCCTCTCATAAT
1 TTTTTGGTA-CCTCTCATAAT
67345240 TTTTTG
1 TTTTTG
67345246 CACTATTTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.42
21 22 0.58
ACGTcount: A:0.18, C:0.16, G:0.10, T:0.56
Consensus pattern (20 bp):
TTTTTGGTACCTCTCATAAT
Found at i:67345505 original size:20 final size:20
Alignment explanation
Indices: 67345480--67345520 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
67345470 ATATTGGAGG
67345480 TCCCTCAT-ATTTTTTGATAA
1 TCCCTCATAATTTTTT-ATAA
67345500 TCCCTCATAATTTTTTATAA
1 TCCCTCATAATTTTTTATAA
67345520 T
1 T
67345521 ATCGTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.51
Consensus pattern (20 bp):
TCCCTCATAATTTTTTATAA
Found at i:67345699 original size:21 final size:20
Alignment explanation
Indices: 67345674--67345724 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
67345664 TCTTTAATGA
*
67345674 AATATTTTATTATTCAAAAAT
1 AATATTTT-TTACTCAAAAAT
*
67345695 AATATATTTTTACTCCAAAAT
1 AATAT-TTTTTACTCAAAAAT
*
67345716 TATATTTTT
1 AATATTTTT
67345725 AGTTTCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 19 0.73
22 3 0.12
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATTTTTTACTCAAAAAT
Found at i:67346126 original size:20 final size:20
Alignment explanation
Indices: 67346097--67346286 Score: 71
Period size: 20 Copynumber: 9.5 Consensus size: 20
67346087 AAGGTATACT
67346097 AAAATATATGAGGAAGTACAA
1 AAAAT-TATGAGGAAGTACAA
67346118 AAAATTATGAGGGAA-TA-AA
1 AAAATTATGA-GGAAGTACAA
67346137 AAAA--ATGAGGAAGTACTAA
1 AAAATTATGAGGAAGTAC-AA
* * *
67346156 ATATTCTATGA--AAATAACAA
1 AAAAT-TATGAGGAAGT-ACAA
** *
67346176 AAAATTACAAGGGAA-TACCA
1 AAAATTATGA-GGAAGTACAA
* *
67346196 AAAATTACGAGGAAATACCAA
1 AAAATTATGAGGAAGTA-CAA
* *
67346217 AAAA--ACTCGAAGAAGTACCA
1 AAAATTA-T-GAGGAAGTACAA
*
67346237 AAAATTTTGAGAGAA-TACTAA
1 AAAATTATGAG-GAAGTAC-AA
*
67346258 AAAA-TAT-ACGAAAGTACAA
1 AAAATTATGA-GGAAGTACAA
*
67346277 AAAACTATGA
1 AAAATTATGA
67346287 AATGATTACA
Statistics
Matches: 127, Mismatches: 19, Indels: 46
0.66 0.10 0.24
Matches are distributed among these distances:
16 4 0.03
17 6 0.05
19 27 0.21
20 49 0.39
21 35 0.28
22 6 0.05
ACGTcount: A:0.57, C:0.09, G:0.15, T:0.19
Consensus pattern (20 bp):
AAAATTATGAGGAAGTACAA
Found at i:67346614 original size:40 final size:40
Alignment explanation
Indices: 67346569--67346659 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
67346559 TACCAAGAAT
* * *
67346569 TATGAGGAAGTACCGAAAAA-TACAAGAAAGTATAAAAAAA
1 TATGAGGAAATACC-AAAAATTACAAGAAAATACAAAAAAA
* *
67346609 TATGAGGAAATACCAAAAATTATAAGAAAATACCAAAAAA
1 TATGAGGAAATACCAAAAATTACAAGAAAATACAAAAAAA
*
67346649 TCTGAGGAAAT
1 TATGAGGAAAT
67346660 GCAGAGAGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
39 5 0.11
40 39 0.89
ACGTcount: A:0.58, C:0.09, G:0.15, T:0.18
Consensus pattern (40 bp):
TATGAGGAAATACCAAAAATTACAAGAAAATACAAAAAAA
Found at i:67346626 original size:20 final size:20
Alignment explanation
Indices: 67346557--67346659 Score: 82
Period size: 20 Copynumber: 5.2 Consensus size: 20
67346547 TTTTTGAAAC
* *
67346557 AATACCAAGAATTATGAGGA
1 AATACCAAAAAATATGAGGA
* * * *
67346577 AGTACCGAAAAATA-CAAGA
1 AATACCAAAAAATATGAGGA
**
67346596 AAGTATAAAAAAATATGAGGA
1 AA-TACCAAAAAATATGAGGA
* * *
67346617 AATACCAAAAATTATAAGAA
1 AATACCAAAAAATATGAGGA
*
67346637 AATACCAAAAAATCTGAGGA
1 AATACCAAAAAATATGAGGA
67346657 AAT
1 AAT
67346660 GCAGAGAGAG
Statistics
Matches: 60, Mismatches: 21, Indels: 4
0.71 0.25 0.05
Matches are distributed among these distances:
19 4 0.07
20 51 0.85
21 5 0.08
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.17
Consensus pattern (20 bp):
AATACCAAAAAATATGAGGA
Found at i:67346742 original size:21 final size:21
Alignment explanation
Indices: 67346691--67346790 Score: 84
Period size: 20 Copynumber: 4.9 Consensus size: 21
67346681 AAACCTATGA
*
67346691 AAGTACCAAAAAAA-ATGAGG
1 AAGTATCAAAAAAATATGAGG
* *
67346711 ATGT-TCTAAAAAATATGAGG
1 AAGTATCAAAAAAATATGAGG
* *
67346731 AAGTGTC-AAAAATTATGAAGG
1 AAGTATCAAAAAAATATG-AGG
* *
67346752 AA-TACCAAAAAAATATGATG
1 AAGTATCAAAAAAATATGAGG
67346772 AAGTAT-AAAAAAATTATGA
1 AAGTATCAAAAAAA-TATGA
67346791 AAAAAATACC
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
19 7 0.11
20 34 0.53
21 23 0.36
ACGTcount: A:0.55, C:0.06, G:0.17, T:0.22
Consensus pattern (21 bp):
AAGTATCAAAAAAATATGAGG
Found at i:67349043 original size:26 final size:26
Alignment explanation
Indices: 67348992--67349052 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
67348982 TCCCGCTTTC
*
67348992 AATTCATTTTTTGTAAATTATTTATT
1 AATTCATTTTTTGTAAATTATATATT
67349018 AATTCATTTATTT-TAAACTT-TATATT
1 AATTCATTT-TTTGTAAA-TTATATATT
*
67349044 ACTT-ATTTT
1 AATTCATTTT
67349053 AAATTGTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
24 1 0.03
25 4 0.13
26 21 0.68
27 5 0.16
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (26 bp):
AATTCATTTTTTGTAAATTATATATT
Found at i:67349050 original size:21 final size:21
Alignment explanation
Indices: 67349025--67349072 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
67349015 ATTAATTCAT
67349025 TTATTTTAAACT-TTATATTA
1 TTATTTTAAACTGTTATATTA
* *
67349045 CTTATTTTAAATTGTTCTATTA
1 -TTATTTTAAACTGTTATATTA
67349067 TTATTT
1 TTATTT
67349073 ATTTAAGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (21 bp):
TTATTTTAAACTGTTATATTA
Found at i:67349092 original size:24 final size:24
Alignment explanation
Indices: 67349023--67349104 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
67349013 TTATTAATTC
67349023 ATTTATTTTAAA--CTT-TATATT
1 ATTTATTTTAAATTCTTCTATATT
* *
67349044 ACTTATTTTAAATTGTTCTATTATT
1 ATTTATTTTAAATTCTTCTA-TATT
*
67349069 ATTTA-TTTAAGTTCTTCATATATT
1 ATTTATTTTAAATTCTTC-TATATT
**
67349093 ATGCATTTTAAA
1 ATTTATTTTAAA
67349105 CAATATTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
21 11 0.23
23 2 0.04
24 19 0.40
25 15 0.32
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTTATTTTAAATTCTTCTATATT
Found at i:67351184 original size:38 final size:38
Alignment explanation
Indices: 67351133--67351217 Score: 134
Period size: 38 Copynumber: 2.2 Consensus size: 38
67351123 TGTAATAGAA
*
67351133 CAATTCAACACTAGCAGTCAGCATGCTTAACATGTATT
1 CAATTCAACACTAGCAGTCAACATGCTTAACATGTATT
* * *
67351171 CAATTCAATACTAGCTGTTAACATGCTTAACATGTATT
1 CAATTCAACACTAGCAGTCAACATGCTTAACATGTATT
67351209 CAATTCAAC
1 CAATTCAAC
67351218 GCTATGCTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (38 bp):
CAATTCAACACTAGCAGTCAACATGCTTAACATGTATT
Found at i:67352853 original size:15 final size:16
Alignment explanation
Indices: 67352810--67352861 Score: 72
Period size: 15 Copynumber: 3.3 Consensus size: 16
67352800 TCCTATAATG
67352810 TCACAA-TCTATAGTTT
1 TCACAAGTCTATAG-TT
*
67352826 TCACAATTCTATAGTT
1 TCACAAGTCTATAGTT
67352842 TCA-AAGTCTATAGTT
1 TCACAAGTCTATAGTT
67352857 TCACA
1 TCACA
67352862 TATAAACAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 14 0.42
16 12 0.36
17 7 0.21
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (16 bp):
TCACAAGTCTATAGTT
Found at i:67356660 original size:8 final size:8
Alignment explanation
Indices: 67356649--67356687 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
67356639 AATTGGGAAA
67356649 GAAAAAAG
1 GAAAAAAG
67356657 GAAAAAAG
1 GAAAAAAG
*
67356665 GAAAAAGGG
1 GAAAAA-AG
67356674 GAAAAAAAG
1 G-AAAAAAG
67356683 GAAAA
1 GAAAA
67356688 CGAAAGACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 18 0.67
9 4 0.15
10 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (8 bp):
GAAAAAAG
Found at i:67356667 original size:20 final size:20
Alignment explanation
Indices: 67356630--67356668 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
67356620 AAGAATAAAA
***
67356630 AAAAAAGGAAATTGGGAAAG
1 AAAAAAGGAAAAAAGGAAAG
67356650 AAAAAAGGAAAAAAGGAAA
1 AAAAAAGGAAAAAAGGAAA
67356669 AAGGGGAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (20 bp):
AAAAAAGGAAAAAAGGAAAG
Found at i:67356670 original size:9 final size:9
Alignment explanation
Indices: 67356650--67356687 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
67356640 ATTGGGAAAG
67356650 AAAAAAGG-
1 AAAAAAGGA
67356658 AAAAAAGGA
1 AAAAAAGGA
**
67356667 AAAAGGGGA
1 AAAAAAGGA
67356676 AAAAAAGGA
1 AAAAAAGGA
67356685 AAA
1 AAA
67356688 CGAAAGACGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (9 bp):
AAAAAAGGA
Found at i:67356721 original size:3 final size:3
Alignment explanation
Indices: 67356715--67356748 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
67356705 GACGACGACG
67356715 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
67356749 TATGGGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:67372178 original size:20 final size:20
Alignment explanation
Indices: 67372153--67372191 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
67372143 TGAGTTATTT
67372153 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
67372173 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
67372192 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:67372613 original size:99 final size:98
Alignment explanation
Indices: 67372498--67372829 Score: 306
Period size: 99 Copynumber: 3.2 Consensus size: 98
67372488 GAGGTCCCCC
*
67372498 GTAAGACCATTTTGGGACATGGTATGGGCACTGGTATGAGAACTCTCATATAAGACCATATCTGG
1 GTAAGACCATTCTGGGACATGGTATGGGCACTGGTATGAGAACTCTCATATAAGACCATATCTGG
67372563 GATATGACATTTGCAGTACAGGAAACATCCCAT
66 GATATGACATTTGCAGTACAGGAAACATCCCAT
* * ** * **
67372596 GTAAGACCATGTCTGGGACATGGCATTGGCATTGGCATTATTGAGGTTATGAGAGGTCCCACGTA
1 GTAAGACCAT-TCTGGGACATGG---T---ATGGGC---ACT--GG-TATGAGAACTCTCATATA
* * * * * * * * * * ** **
67372661 AGACCATGTCTGGGACACGGCGTTGTTACCG-AGATGAGAGGTCCCCC
53 AGACCATATCTGGGATATGAC-AT-TTGCAGTACAGGAAACATCCCAT
*
67372708 GTAAGACCATTTTGGGACATGGTATGGGCACTGGTATGAGAACTCTCATATAAGACCATATCTGG
1 GTAAGACCATTCTGGGACATGGTATGGGCACTGGTATGAGAACTCTCATATAAGACCATATCTGG
67372773 GATATGACATTTGCAGTACAGGAAACATCCCAT
66 GATATGACATTTGCAGTACAGGAAACATCCCAT
67372806 GTAAGACCATGTCTGGGACATGGT
1 GTAAGACCAT-TCTGGGACATGGT
67372830 TTTGGCATGT
Statistics
Matches: 172, Mismatches: 45, Indels: 33
0.69 0.18 0.13
Matches are distributed among these distances:
97 4 0.02
98 30 0.17
99 53 0.31
100 2 0.01
102 3 0.02
105 10 0.06
108 3 0.02
110 2 0.01
111 41 0.24
112 20 0.12
113 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (98 bp):
GTAAGACCATTCTGGGACATGGTATGGGCACTGGTATGAGAACTCTCATATAAGACCATATCTGG
GATATGACATTTGCAGTACAGGAAACATCCCAT
Found at i:67372778 original size:210 final size:210
Alignment explanation
Indices: 67372416--67372837 Score: 826
Period size: 210 Copynumber: 2.0 Consensus size: 210
67372406 CGAAACTGGA
67372416 ATTGGCATTATTGAGGTTATGAGAGGTCCCACGTAAGACCATGTCTGGGACACGGCGTTGTTACC
1 ATTGGCATTATTGAGGTTATGAGAGGTCCCACGTAAGACCATGTCTGGGACACGGCGTTGTTACC
67372481 GAGATGAGAGGTCCCCCGTAAGACCATTTTGGGACATGGTATGGGCACTGGTATGAGAACTCTCA
66 GAGATGAGAGGTCCCCCGTAAGACCATTTTGGGACATGGTATGGGCACTGGTATGAGAACTCTCA
67372546 TATAAGACCATATCTGGGATATGACATTTGCAGTACAGGAAACATCCCATGTAAGACCATGTCTG
131 TATAAGACCATATCTGGGATATGACATTTGCAGTACAGGAAACATCCCATGTAAGACCATGTCTG
67372611 GGACATGGCATTGGC
196 GGACATGGCATTGGC
67372626 ATTGGCATTATTGAGGTTATGAGAGGTCCCACGTAAGACCATGTCTGGGACACGGCGTTGTTACC
1 ATTGGCATTATTGAGGTTATGAGAGGTCCCACGTAAGACCATGTCTGGGACACGGCGTTGTTACC
67372691 GAGATGAGAGGTCCCCCGTAAGACCATTTTGGGACATGGTATGGGCACTGGTATGAGAACTCTCA
66 GAGATGAGAGGTCCCCCGTAAGACCATTTTGGGACATGGTATGGGCACTGGTATGAGAACTCTCA
67372756 TATAAGACCATATCTGGGATATGACATTTGCAGTACAGGAAACATCCCATGTAAGACCATGTCTG
131 TATAAGACCATATCTGGGATATGACATTTGCAGTACAGGAAACATCCCATGTAAGACCATGTCTG
**
67372821 GGACATGGTTTTGGC
196 GGACATGGCATTGGC
67372836 AT
1 AT
67372838 GTTATTATCA
Statistics
Matches: 210, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
210 210 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (210 bp):
ATTGGCATTATTGAGGTTATGAGAGGTCCCACGTAAGACCATGTCTGGGACACGGCGTTGTTACC
GAGATGAGAGGTCCCCCGTAAGACCATTTTGGGACATGGTATGGGCACTGGTATGAGAACTCTCA
TATAAGACCATATCTGGGATATGACATTTGCAGTACAGGAAACATCCCATGTAAGACCATGTCTG
GGACATGGCATTGGC
Found at i:67373066 original size:20 final size:20
Alignment explanation
Indices: 67373041--67373079 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
67373031 TGAGTTATTT
67373041 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
67373061 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
67373080 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:67373820 original size:20 final size:20
Alignment explanation
Indices: 67373795--67373833 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
67373785 TGAGTTATTT
67373795 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
67373815 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
67373834 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:67380799 original size:31 final size:31
Alignment explanation
Indices: 67380764--67380939 Score: 246
Period size: 31 Copynumber: 5.7 Consensus size: 31
67380754 GCATATGTTT
*
67380764 TATACATTGTCAAATTTGATTTGTATATAGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
* *
67380795 TATACATTGTCGAATTTGATTTGTATATGGC
1 TATACATTGTCGAATTTGATTTGTATATAGA
* * *
67380826 TATATATTGTTGAATTTGATTTGTATATGGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
*
67380857 TATTCATTGTCGAATTTGATTTGTATATAGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
*
67380888 TATACATTGCCGAATTTGATTTGTATATAGA
1 TATACATTGTCGAATTTGATTTGTATATAGA
* **
67380919 TATATATTACCGAA-TTGATTT
1 TATACATTGTCGAATTTGATTT
67380940 AAGCATTGGA
Statistics
Matches: 131, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
30 7 0.05
31 124 0.95
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.47
Consensus pattern (31 bp):
TATACATTGTCGAATTTGATTTGTATATAGA
Found at i:67380934 original size:93 final size:92
Alignment explanation
Indices: 67380768--67380939 Score: 272
Period size: 93 Copynumber: 1.9 Consensus size: 92
67380758 ATGTTTTATA
* * *
67380768 CATTGTCAAATTTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATGGCTATATAT
1 CATTGTCAAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGATATATAT
***
67380833 TGTTGAATTTGATTTGTATATGGATATT
66 TACCGAA-TTGATTTGTATATGGATATT
*
67380861 CATTGTCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGATATATAT
1 CATTGTCAAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGATATATAT
67380926 TACCGAATTGATTT
66 TACCGAATTGATTT
67380940 AAGCATTGGA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 7 0.10
93 65 0.90
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.47
Consensus pattern (92 bp):
CATTGTCAAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGATATATAT
TACCGAATTGATTTGTATATGGATATT
Found at i:67381387 original size:16 final size:16
Alignment explanation
Indices: 67381366--67381398 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
67381356 TTATATGAGT
67381366 TAGTTAAATGTTTATG
1 TAGTTAAATGTTTATG
67381382 TAGTTAAATGTTTATG
1 TAGTTAAATGTTTATG
67381398 T
1 T
67381399 GTTTGAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (16 bp):
TAGTTAAATGTTTATG
Found at i:67382246 original size:19 final size:18
Alignment explanation
Indices: 67382213--67382260 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
67382203 TGTTACACGT
*
67382213 AAAGTGCATACTGGCGCAC
1 AAAGTGCAT-CTGGCACAC
*
67382232 AAAGTGCATCTTGGCACAT
1 AAAGTGCATC-TGGCACAC
*
67382251 GAAGTGCATC
1 AAAGTGCATC
67382261 CTAGCACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (18 bp):
AAAGTGCATCTGGCACAC
Found at i:67382267 original size:19 final size:19
Alignment explanation
Indices: 67382233--67382269 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
67382223 CTGGCGCACA
* *
67382233 AAGTGCATCTTGGCACATG
1 AAGTGCATCCTAGCACATG
67382252 AAGTGCATCCTAGCACAT
1 AAGTGCATCCTAGCACAT
67382270 AAGGGCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (19 bp):
AAGTGCATCCTAGCACATG
Found at i:67382766 original size:11 final size:11
Alignment explanation
Indices: 67382750--67382783 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
67382740 ATTTAATGGA
67382750 AAAATTAATTT
1 AAAATTAATTT
67382761 AAAATTAATTT
1 AAAATTAATTT
*
67382772 AATAAATAATTT
1 AA-AATTAATTT
67382784 TCATTTTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AAAATTAATTT
Found at i:67391180 original size:42 final size:42
Alignment explanation
Indices: 67391121--67391205 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
67391111 ATCTGCATCA
67391121 GCTCTAAATTTGTAATTGATAATAATTTCAAAATCCAAATTC
1 GCTCTAAATTTGTAATTGATAATAATTTCAAAATCCAAATTC
* *
67391163 GCTCTAAATTTGTAATTGATAGTAATTTCGAAATCCAAATTC
1 GCTCTAAATTTGTAATTGATAATAATTTCAAAATCCAAATTC
67391205 G
1 G
67391206 AATAATACTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (42 bp):
GCTCTAAATTTGTAATTGATAATAATTTCAAAATCCAAATTC
Found at i:67400548 original size:25 final size:24
Alignment explanation
Indices: 67400512--67400577 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 24
67400502 GGCCTGGCCC
* *
67400512 ATTTTTTGATTAAAATTAAAATTA
1 ATTTTTTTATTAAAATTAAAACTA
67400536 TATTTTTTTATTAAAATTAAAACTA
1 -ATTTTTTTATTAAAATTAAAACTA
*
67400561 A--TTGTTATTAAAATTAA
1 ATTTTTTTATTAAAATTAA
67400578 TTGTTATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 15 0.39
24 1 0.03
25 22 0.58
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (24 bp):
ATTTTTTTATTAAAATTAAAACTA
Found at i:67400571 original size:22 final size:24
Alignment explanation
Indices: 67400520--67400577 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 24
67400510 CCATTTTTTG
* *
67400520 ATTAAAATTAAAATTATATTTTTTT
1 ATTAAAATTAAAACTATA-TTTGTT
67400545 ATTAAAATTAAAACTA-A-TTGTT
1 ATTAAAATTAAAACTATATTTGTT
67400567 ATTAAAATTAA
1 ATTAAAATTAA
67400578 TTGTTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 15 0.48
24 1 0.03
25 15 0.48
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTAAAATTAAAACTATATTTGTT
Done.