Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 194 of 335
Found at i:58336431 original size:24 final size:24
Alignment explanation
Indices: 58336322--58336490 Score: 213
Period size: 25 Copynumber: 7.0 Consensus size: 24
58336312 GGAGGAAATG
*
58336322 TAAAAGGGCTTATGCCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
58336346 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
58336371 GATAAAGGGCTTATGCCCCAGTT-T
1 TA-AAAGGGCTTATGCCCCAGTTAT
58336395 TGATAAAGGGCTTATGCCCCAGTTAT
1 T-A-AAAGGGCTTATGCCCCAGTTAT
58336421 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
58336445 TAAAAGGGCTT-TGCCCCAGTTA-
1 TAAAAGGGCTTATGCCCCAGTTAT
*
58336467 -AAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
58336491 ATGATAAAGC
Statistics
Matches: 134, Mismatches: 4, Indels: 14
0.88 0.03 0.09
Matches are distributed among these distances:
21 6 0.04
22 6 0.04
23 18 0.13
24 35 0.26
25 67 0.50
26 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:58336721 original size:31 final size:31
Alignment explanation
Indices: 58336684--58336744 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
58336674 CGTTTACAGT
*
58336684 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
58336715 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
58336745 GCCTAGTACA
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:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:58339486 original size:68 final size:63
Alignment explanation
Indices: 58339376--58339628 Score: 194
Period size: 68 Copynumber: 3.9 Consensus size: 63
58339366 ATACAGATGG
** * *
58339376 TATGTAGCTAGGTCACATGTAT-AGTGCTGA-GTGTACATCATGT-GTACAAGAGAGCTACAAGA
1 TATGTAGCTAGGTCACATGGGTGA-TACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GA
58339438 CATTA
61 -A-TA
58339443 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGAATA
1 T-ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAC-GAATA
* * * * * * *
58339508 TATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGA-A
58339573 TA
62 TA
* * * *
58339575 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
58339629 CGAACTATAT
Statistics
Matches: 154, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 20 0.13
65 11 0.07
66 19 0.12
67 33 0.21
68 49 0.32
69 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (63 bp):
TATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAATA
Found at i:58342202 original size:25 final size:25
Alignment explanation
Indices: 58342172--58342249 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
58342162 TAGGATTTTA
58342172 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* * *
58342197 TGTGAT-AAGGCTG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGCG-TATG
58342219 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
58342244 TGTGAT
1 TGTGAT
58342250 AAGGCCGAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 9 0.22
23 8 0.20
24 8 0.20
25 15 0.38
ACGTcount: A:0.28, C:0.09, G:0.32, T:0.31
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGTATG
Found at i:58342222 original size:47 final size:47
Alignment explanation
Indices: 58342171--58342553 Score: 559
Period size: 47 Copynumber: 8.1 Consensus size: 47
58342161 TTAGGATTTT
*
58342171 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
58342218 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *** *
58342265 ATGTGATGAATATGAACCCGTATATATATGTATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
58342316 ATGTAATGAATGTGAACATACGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
58342363 ATGTAATGAATGTGAACATCCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
58342410 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
58342457 ATGTGATGAATGTGAACATGCATATGTGAGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
58342504 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
58342551 ATG
1 ATG
58342554 CGAAACGTGT
Statistics
Matches: 307, Mismatches: 25, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
47 265 0.86
49 2 0.01
51 40 0.13
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:58342579 original size:46 final size:46
Alignment explanation
Indices: 58342527--58342617 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
58342517 GAACATGTAT
* * *
58342527 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * *
58342573 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
58342618 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:58342875 original size:37 final size:37
Alignment explanation
Indices: 58342767--58342875 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
58342757 GGAAATATAT
*
58342767 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAGG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTGG
* *
58342804 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTGG
* *
58342841 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
58342876 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTGG
Found at i:58345451 original size:49 final size:49
Alignment explanation
Indices: 58345379--58345572 Score: 203
Period size: 50 Copynumber: 3.9 Consensus size: 49
58345369 GCAGAAGCTA
* *
58345379 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
58345428 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
** * * * *
58345478 TCTAATACACGTAGTAGCCTGCACTTAGTACTACATACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
58345526 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
58345573 TCACAATAGA
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 38 0.32
50 40 0.33
51 39 0.32
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:58345563 original size:101 final size:99
Alignment explanation
Indices: 58345390--58345576 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 99
58345380 CTGGTACGCA
* * *
58345390 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
58345455 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * * *
58345489 TAGTAGCCTGCACTTAGTACTACATACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
58345553 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
58345577 AATAGATCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
98 4 0.05
99 29 0.38
101 43 0.57
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:58348670 original size:65 final size:65
Alignment explanation
Indices: 58348566--58348696 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
58348556 AGTTCCATGC
*
58348566 ATCAGATAATAATAACATGGCATGTAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
*
58348631 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAGCCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
58348696 A
1 A
58348697 ACCCTAGGGG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.25
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
Found at i:58348755 original size:27 final size:26
Alignment explanation
Indices: 58348699--58348755 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
58348689 CAGCCTTAAC
* * *
58348699 CCTAGGGGTATATCAGTAATTTTTCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
58348725 CCTAGGGGTAAATCTGTATATTTTCCA
1 CCTAGGGGTAAATCAGTA-ATTTTCCA
58348752 CCTA
1 CCTA
58348756 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.39
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:58355558 original size:40 final size:40
Alignment explanation
Indices: 58355513--58355679 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
58355503 CGGAATATAA
58355513 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
58355553 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
58355593 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
58355633 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58355672 CCGGATAT
1 CCGGATAT
58355680 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58363565 original size:40 final size:40
Alignment explanation
Indices: 58363520--58363687 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
58363510 CGGAATATAA
58363520 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
58363560 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
58363600 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
58363640 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58363680 CCGGATAT
1 CCGGATAT
58363688 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58366230 original size:10 final size:11
Alignment explanation
Indices: 58366215--58366259 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
58366205 TTACAAGATC
58366215 TATATATA-TT
1 TATATATATTT
58366225 TATATATATTT
1 TATATATATTT
*
58366236 TAAAATAATATTT
1 T-ATAT-ATATTT
58366249 TATATATATTT
1 TATATATATTT
58366260 ATCTTATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 8 0.27
11 9 0.30
12 6 0.20
13 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TATATATATTT
Found at i:58366268 original size:15 final size:15
Alignment explanation
Indices: 58366248--58366279 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
58366238 AAATAATATT
*
58366248 TTATATATATTTATC
1 TTATATACATTTATC
58366263 TTATATACATTTATC
1 TTATATACATTTATC
58366278 TT
1 TT
58366280 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:58366307 original size:25 final size:28
Alignment explanation
Indices: 58366279--58366337 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
58366269 ACATTTATCT
*
58366279 TCTAAA-TTAAAATCC-AAAATT-ATAC
1 TCTAAATTTAAAACCCTAAAATTGATAC
*
58366304 TCTAAATTTAAAACCCTAAACTTGATAC
1 TCTAAATTTAAAACCCTAAAATTGATAC
58366332 TCTAAA
1 TCTAAA
58366338 CCCTAAACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.21
26 8 0.28
27 5 0.17
28 10 0.34
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (28 bp):
TCTAAATTTAAAACCCTAAAATTGATAC
Found at i:58366558 original size:2 final size:2
Alignment explanation
Indices: 58366553--58366580 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
58366543 ACACACACAC
58366553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58366581 GTTTATATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58367173 original size:14 final size:14
Alignment explanation
Indices: 58367154--58367187 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
58367144 ATTAAACCTG
58367154 CTTAAACCATATAT-
1 CTTAAACCATA-ATC
58367168 CTTAAACCATAATC
1 CTTAAACCATAATC
58367182 CTTAAA
1 CTTAAA
58367188 ATATAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 17 0.89
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
CTTAAACCATAATC
Found at i:58367449 original size:41 final size:41
Alignment explanation
Indices: 58367352--58367489 Score: 226
Period size: 41 Copynumber: 3.4 Consensus size: 41
58367342 GTTATGGGGT
* *
58367352 TTTTAACGGTGTTTTACCTAAAGCGCCGCTAATGCTCTGG-
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGGA
*
58367392 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATACTCTGGA
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGGA
58367433 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCT-GA
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGGA
58367473 TTTTTAGCGGCGTTTTA
1 -TTTTAGCGGCGTTTTA
58367490 GTAAAAAACG
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
40 39 0.42
41 53 0.58
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGGA
Found at i:58367518 original size:41 final size:41
Alignment explanation
Indices: 58367351--58367529 Score: 195
Period size: 41 Copynumber: 4.4 Consensus size: 41
58367341 GGTTATGGGG
* * *
58367351 TTTTTAACGGTGTTTTACCTAAAGCGCCGCTAATGCTCTG-
1 TTTTTAGCGGCGTTTTACCTAAAACGCCGCTAATGCTCTGA
* * *
58367391 GTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATACTCTGGA
1 TTTTTAGCGGCGTTTTACCTAAAACGCCGCTAATGCTCT-GA
*
58367433 -TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGA
1 TTTTTAGCGGCGTTTTACCTAAAACGCCGCTAATGCTCTGA
* ** *
58367473 TTTTTAGCGGCGTTTTA-GTAAAAAACGCCGCTGTTGTTCTG-
1 TTTTTAGCGGCGTTTTACCT--AAAACGCCGCTAATGCTCTGA
*
58367514 TTTTTACCGGCGTTTT
1 TTTTTAGCGGCGTTTT
58367530 TTTTGGAACG
Statistics
Matches: 123, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
40 38 0.31
41 69 0.56
42 16 0.13
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCTAAAACGCCGCTAATGCTCTGA
Found at i:58367830 original size:92 final size:92
Alignment explanation
Indices: 58367673--58367858 Score: 372
Period size: 92 Copynumber: 2.0 Consensus size: 92
58367663 ACCTAGGGTT
58367673 TATATTTGGAAAAATACCCATAGGAGAAATTTGTGTATTTTGATGTTTTATGATAGAATATGGGG
1 TATATTTGGAAAAATACCCATAGGAGAAATTTGTGTATTTTGATGTTTTATGATAGAATATGGGG
58367738 TTTTAAATTATGTTAGACAACTTGTGC
66 TTTTAAATTATGTTAGACAACTTGTGC
58367765 TATATTTGGAAAAATACCCATAGGAGAAATTTGTGTATTTTGATGTTTTATGATAGAATATGGGG
1 TATATTTGGAAAAATACCCATAGGAGAAATTTGTGTATTTTGATGTTTTATGATAGAATATGGGG
58367830 TTTTAAATTATGTTAGACAACTTGTGC
66 TTTTAAATTATGTTAGACAACTTGTGC
58367857 TA
1 TA
58367859 CTCGGTTTTG
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 94 1.00
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.40
Consensus pattern (92 bp):
TATATTTGGAAAAATACCCATAGGAGAAATTTGTGTATTTTGATGTTTTATGATAGAATATGGGG
TTTTAAATTATGTTAGACAACTTGTGC
Found at i:58368551 original size:46 final size:46
Alignment explanation
Indices: 58368501--58368673 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
58368491 TGGTTGAGCA
58368501 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
58368547 TCCGAACTCGTTGGGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
58368592 CATCCGAACTCATTGATTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
58368640 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58368674 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.57
47 26 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:58368658 original size:93 final size:93
Alignment explanation
Indices: 58368498--58368668 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
58368488 GGATGGTTGA
* * * *
58368498 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGGGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
58368563 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* *
58368591 GCATCCGAACTCATTGATTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58368656 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
58368669 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:58376043 original size:6 final size:6
Alignment explanation
Indices: 58376032--58376102 Score: 85
Period size: 6 Copynumber: 11.8 Consensus size: 6
58376022 AACCAAAATG
*
58376032 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC A-ATATT AGTAA-C
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGA-ATC AG-AATC
58376080 AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT
58376103 TAGGTGACAG
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
5 5 0.09
6 48 0.84
7 3 0.05
8 1 0.02
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:58376059 original size:24 final size:24
Alignment explanation
Indices: 58376032--58376099 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 24
58376022 AACCAAAATG
58376032 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
*
58376056 AGAATCAGAATCA-ATATTAGTAAC
1 AGAATCAGAATCAGA-ATCAGTAAC
58376080 AGAATCAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
58376100 AATTAGGTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:58376060 original size:18 final size:18
Alignment explanation
Indices: 58376037--58376124 Score: 81
Period size: 18 Copynumber: 4.8 Consensus size: 18
58376027 AAATGAGAAT
58376037 CAGAATCAGAATCAGTAA
1 CAGAATCAGAATCAGTAA
* *
58376055 CAGAATCAGAATCAATAT
1 CAGAATCAGAATCAGTAA
*
58376073 TAGTAA-CAGAATCAG-AA
1 CAG-AATCAGAATCAGTAA
* *
58376090 TCAGAATCAGAATTAGGTGA
1 -CAGAATCAGAATCA-GTAA
*
58376110 CAGAATCAAAATCAG
1 CAGAATCAGAATCAG
58376125 AATGTGAATG
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
17 3 0.05
18 36 0.65
19 15 0.27
20 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (18 bp):
CAGAATCAGAATCAGTAA
Found at i:58376293 original size:27 final size:27
Alignment explanation
Indices: 58376254--58376318 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
58376244 GCCAAAATAA
* * *
58376254 ATATCGTGACAGAGTCACCAG-ATACAG
1 ATATTGTGGCAGAGCCACCAGAAT-CAG
*
58376281 ATATTGTGGCAGAGCCACTAGAATCAG
1 ATATTGTGGCAGAGCCACCAGAATCAG
*
58376308 ATAATGTGGCA
1 ATATTGTGGCA
58376319 AACCCACCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
ATATTGTGGCAGAGCCACCAGAATCAG
Found at i:58376531 original size:22 final size:22
Alignment explanation
Indices: 58376483--58376541 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
58376473 GTAAATACGT
*
58376483 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
58376505 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
58376527 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
58376542 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:58376642 original size:27 final size:26
Alignment explanation
Indices: 58376603--58376685 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
58376593 TCGATCAGTC
* *
58376603 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
58376629 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
58376656 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
58376683 AAC
1 AAC
58376686 GCTTCCTCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 8 0.15
27 44 0.85
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:58376914 original size:27 final size:27
Alignment explanation
Indices: 58376884--58377071 Score: 241
Period size: 27 Copynumber: 7.0 Consensus size: 27
58376874 GGGGCAAAAT
* * * *
58376884 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58376911 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58376938 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
58376965 GATAATTCTACCCTACGAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
58376992 GGTAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
58377019 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58377046 GGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
58377072 TAGTAATTTC
Statistics
Matches: 140, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:58377118 original size:27 final size:27
Alignment explanation
Indices: 58377088--58377655 Score: 647
Period size: 27 Copynumber: 21.0 Consensus size: 27
58377078 TTTCACAATT
*
58377088 GAGGGTAAAATAGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * * *
58377115 GAGGGTAAAACGATAATTTTGTAAACC
1 GAGGGTAAAATGGTAATTCTGTAAATC
*** *
58377142 GAGGGTAAACCAGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * * **
58377169 GAGGGTAAAACGATAATTTTACAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
****
58377196 GAGGGTAAAACAAAAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
58377223 GAGGGTAAAATAGTAATTCTATAAA-C
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
58377249 TGAGGGTAAAACGATAATTCTGTAAATC
1 -GAGGGTAAAATGGTAATTCTGTAAATC
58377277 GAGGGTAAAATGGTAATTCTGTAAA-C
1 GAGGGTAAAATGGTAATTCTGTAAATC
*
58377303 TGAGGGTAAAACGGTAATTCTGTAAATC
1 -GAGGGTAAAATGGTAATTCTGTAAATC
** * ** *
58377331 GAGGGTAAAACAGTAATTTTACAAATT
1 GAGGGTAAAATGGTAATTCTGTAAATC
*
58377358 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
*
58377385 GAGGGTAAAATAGTAATTCTGTAAA-C
1 GAGGGTAAAATGGTAATTCTGTAAATC
*
58377411 TGAGGGTAAAATGGTAATTCTTTAAATC
1 -GAGGGTAAAATGGTAATTCTGTAAATC
* *
58377439 GAGGGTAAAATGGTAATTTTGTAAATT
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * *
58377466 GAAGGTAAAATAGTAATTTTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
58377493 GGGGGTAAAATAGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
*
58377520 GAGGGTAAAATGGTAATTCTGTAAATT
1 GAGGGTAAAATGGTAATTCTGTAAATC
*
58377547 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * **
58377574 GAGGGTAAAACGGTAATTTTAAAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * *
58377601 GAGGGTAAAACGATAATTTTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
*
58377628 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
58377655 G
1 G
58377656 GGAGTACTTT
Statistics
Matches: 467, Mismatches: 68, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
26 3 0.01
27 461 0.99
28 3 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTGTAAATC
Found at i:58379614 original size:40 final size:39
Alignment explanation
Indices: 58379569--58379775 Score: 216
Period size: 40 Copynumber: 5.2 Consensus size: 39
58379559 CGGAATACGA
*
58379569 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58379609 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58379649 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* ** * *
58379689 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * * *
58379729 CCGGATATAATTACAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
58379768 CCGGATAT
1 CCGGATAT
58379776 CATTCAATTG
Statistics
Matches: 139, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 28 0.20
40 111 0.80
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:58387571 original size:40 final size:39
Alignment explanation
Indices: 58387526--58387733 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
58387516 CGGAATACGA
*
58387526 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58387566 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58387606 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* ** * *
58387646 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * * *
58387686 CCGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCA-CTGCACAAATGCCTTCGGGTCTTAGC
58387726 CCGGATAT
1 CCGGATAT
58387734 CATTCAATTG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:58387666 original size:80 final size:81
Alignment explanation
Indices: 58387526--58387731 Score: 233
Period size: 80 Copynumber: 2.6 Consensus size: 81
58387516 CGGAATACGA
* *
58387526 CCGGATATAACCA-CATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAA
1 CCGGATATAACAACCA-GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAA
*
58387589 TGCCTTCGGGTATTAGC
65 TGCCTTCGGGTATTAAC
* *
58387606 CCGGATTTAACAACTC-GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAA
1 CCGGATATAACAAC-CAGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAA
* *
58387668 TTGCCTTCGGGTCTTAAC
64 ATGCCTTCGGGTATTAAC
** ** * *
58387686 CCGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACCAGCACGAATGCCTTCGGGTCTTAGCCCGGAT
58387732 ATCATTCAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
79 1 0.01
80 101 0.94
81 1 0.01
82 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACCAGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:58392374 original size:26 final size:26
Alignment explanation
Indices: 58392296--58392374 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 26
58392286 TTAAAACTGA
* * *
58392296 TAAAATTACTGAAATACCTTTATAGGTG
1 TAAAATTACTGATATACC--TCTAGGAG
* * * *
58392324 GAAAATCTACAGATTTACCCCTAGGAG
1 TAAAAT-TACTGATATACCTCTAGGAG
58392351 TAAAATTACTGATATACCTCTAGG
1 TAAAATTACTGATATACCTCTAGG
58392375 GTTAAGGTTA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
26 15 0.38
27 10 0.26
28 5 0.13
29 9 0.23
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (26 bp):
TAAAATTACTGATATACCTCTAGGAG
Found at i:58394304 original size:32 final size:33
Alignment explanation
Indices: 58394267--58394330 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
58394257 AATAACGGGT
58394267 ACTGGGCC-GAAACCCTTTTCAAA-ATACAGTAA
1 ACTGGGCCTGAAACCCTTTTCAAATA-ACAGTAA
* *
58394299 ACTGGGCCTTAACCCCTTTTCAAATAACAGTA
1 ACTGGGCCTGAAACCCTTTTCAAATAACAGTA
58394331 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 8 0.29
33 19 0.68
34 1 0.04
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (33 bp):
ACTGGGCCTGAAACCCTTTTCAAATAACAGTAA
Found at i:58394693 original size:27 final size:26
Alignment explanation
Indices: 58394637--58394694 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
58394627 CAACCTTAAC
* * * *
58394637 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTATGGGTAAATCAGTAATTTTCCA
*
58394663 CCTATGGGTAAATCTGTAAATTTTCCA
1 CCTATGGGTAAATCAGT-AATTTTCCA
58394690 CCTAT
1 CCTAT
58394695 AAAGGTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (26 bp):
CCTATGGGTAAATCAGTAATTTTCCA
Found at i:58402315 original size:16 final size:17
Alignment explanation
Indices: 58402287--58402318 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
58402277 TTTTTCCCCA
58402287 TTTTCTTTCTTCTTCTT
1 TTTTCTTTCTTCTTCTT
58402304 TTTTCTTT-TTCTTCT
1 TTTTCTTTCTTCTTCT
58402319 AGTCAAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTCTTTCTTCTTCTT
Found at i:58406467 original size:13 final size:13
Alignment explanation
Indices: 58406449--58406483 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
58406439 GCTTATTGCC
*
58406449 TATATTTTTATTA
1 TATATTATTATTA
58406462 TATATTATTATTA
1 TATATTATTATTA
58406475 T-TATTATTA
1 TATATTATTA
58406484 CCCGTATGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATATTATTATTA
Found at i:58411940 original size:46 final size:46
Alignment explanation
Indices: 58411873--58412042 Score: 189
Period size: 46 Copynumber: 3.7 Consensus size: 46
58411863 TGTAACCCGC
* *
58411873 CCATAAGTGAACTCGAACTCAACTCAATGAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * * *
58411919 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCAT
* *** * * *
58411965 ACATCTCTCGAACTCGGACTGAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
58412012 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
58412043 TTTGGATGCC
Statistics
Matches: 97, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
46 64 0.66
47 33 0.34
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:58419798 original size:40 final size:40
Alignment explanation
Indices: 58419743--58419924 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
58419733 TATTCGAATG
58419743 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
58419783 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
58419823 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
58419863 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
58419903 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
58419925 TACTTGGGTT
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.11
40 116 0.87
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:58426249 original size:25 final size:25
Alignment explanation
Indices: 58426203--58426250 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
58426193 CACTTATAAT
* *
58426203 GTGAAAATGACCATTTTGCCCCTAA
1 GTGAAAATGACCATTATCCCCCTAA
58426228 GTGAAAATGACCATTATCCCCCT
1 GTGAAAATGACCATTATCCCCCT
58426251 GGGGATGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATCCCCCTAA
Found at i:58426318 original size:11 final size:10
Alignment explanation
Indices: 58426293--58426331 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
58426283 CTATTTTATA
58426293 CATGATATGC
1 CATGATATGC
58426303 CATGATATGCC
1 CATGATATG-C
58426314 CATGATATGC
1 CATGATATGC
58426324 CATGATAT
1 CATGATAT
58426332 ATTCATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:58426434 original size:24 final size:24
Alignment explanation
Indices: 58426376--58426445 Score: 95
Period size: 25 Copynumber: 2.9 Consensus size: 24
58426366 GGAAGAAGTG
* *
58426376 CAAAAGGGCTTTGCCCTAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAA
58426400 CGAAAAGGGCTTTGCCCCAGTTTAA
1 C-AAAAGGGCTTTGCCCCAGTTTAA
* *
58426425 CAAAAAGGCTTTACCCCAGTT
1 CAAAAGGGCTTTGCCCCAGTT
58426446 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAA
Found at i:58426457 original size:24 final size:23
Alignment explanation
Indices: 58426402--58426458 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
58426392 TAGTTTACCG
*
58426402 AAAAG-GGCTTTGCCCCAGTTTA
1 AAAAGAGGCTTTACCCCAGTTTA
* *
58426424 ACAAAAAGGCTTTACCCCAGTTATT
1 A-AAAGAGGCTTTACCCCAGTT-TA
58426449 AAAAGAGGCT
1 AAAAGAGGCT
58426459 AGGCCTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 1 0.04
23 3 0.11
24 22 0.79
25 2 0.07
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (23 bp):
AAAAGAGGCTTTACCCCAGTTTA
Found at i:58434169 original size:25 final size:25
Alignment explanation
Indices: 58434141--58434191 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
58434131 CCCTTATAAT
* *
58434141 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
58434166 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
58434191 G
1 G
58434192 GATGTGTTAT
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:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:58434256 original size:21 final size:21
Alignment explanation
Indices: 58434230--58434269 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
58434220 ACTGTTTTAT
58434230 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
58434251 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
58434270 ATTCATATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:58434279 original size:18 final size:18
Alignment explanation
Indices: 58434256--58434295 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
58434246 TATGCACATG
58434256 ATATGCCATGATATATTC
1 ATATGCCATGATATATTC
58434274 ATATGCCATGATATATTC
1 ATATGCCATGATATATTC
58434292 ATAT
1 ATAT
58434296 ATGCATGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (18 bp):
ATATGCCATGATATATTC
Found at i:58434287 original size:10 final size:10
Alignment explanation
Indices: 58434231--58434269 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
58434221 CTGTTTTATA
58434231 CATGATATGC
1 CATGATATGC
58434241 CATGATATGC
1 CATGATATGC
58434251 ACATGATATGC
1 -CATGATATGC
58434262 CATGATAT
1 CATGATAT
58434270 ATTCATATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:58434392 original size:24 final size:24
Alignment explanation
Indices: 58434332--58434401 Score: 104
Period size: 25 Copynumber: 2.9 Consensus size: 24
58434322 GGAGGAAGTG
*
58434332 CAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAGGCTTTGCCCCAGTTTAC
* *
58434356 CGAAAAGGACTTTGCCCCAGTTTAT
1 CAAAAAGG-CTTTGCCCCAGTTTAC
58434381 CAAAAAGGCTTTGCCCCAGTT
1 CAAAAAGGCTTTGCCCCAGTT
58434402 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (24 bp):
CAAAAAGGCTTTGCCCCAGTTTAC
Found at i:58450028 original size:36 final size:36
Alignment explanation
Indices: 58449987--58450057 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
58449977 TATCTGGGAT
** *
58449987 ATGGCATTGGCATTGTTATGTCAGCCAGTGTAAGAA
1 ATGGCATCAGCATCGTTATGTCAGCCAGTGTAAGAA
* *
58450023 ATGGCATCAGCATCGTTATGTGAGCTAGTGTAAGA
1 ATGGCATCAGCATCGTTATGTCAGCCAGTGTAAGA
58450058 CCATGTCTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (36 bp):
ATGGCATCAGCATCGTTATGTCAGCCAGTGTAAGAA
Found at i:58450303 original size:21 final size:21
Alignment explanation
Indices: 58450277--58450316 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
58450267 TAAGTCCTGG
*
58450277 CTATACCTTGTGAT-TATAAGT
1 CTATA-CTTATGATGTATAAGT
58450298 CTATACTTATGATGTATAA
1 CTATACTTATGATGTATAA
58450317 ATAGGTGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (21 bp):
CTATACTTATGATGTATAAGT
Found at i:58453366 original size:72 final size:70
Alignment explanation
Indices: 58453273--58453419 Score: 222
Period size: 72 Copynumber: 2.1 Consensus size: 70
58453263 AGTTATACCA
* * *
58453273 AAGAATATTTTGATTACAAATTCAACCTCTCTATCCGATGGTAATCCCAACAATTCTTCAAGAAA
1 AAGAATACTTCGATTACAAATTCAACCTCTCTATCCAATGGTAATCCCAACAATTCTTC-AGAAA
*
58453338 TACTTC
65 TACGTC
* *
58453344 AGAGAATACTTCGATTATAAATTCAACCTCTCTATCCAATGGTAATCCCAATAATTCTTCAGAAA
1 A-AGAATACTTCGATTACAAATTCAACCTCTCTATCCAATGGTAATCCCAACAATTCTTCAGAAA
58453409 TACGTC
65 TACGTC
58453415 AAGAA
1 AAGAA
58453420 ACTCACAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
70 4 0.06
71 12 0.17
72 53 0.77
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (70 bp):
AAGAATACTTCGATTACAAATTCAACCTCTCTATCCAATGGTAATCCCAACAATTCTTCAGAAAT
ACGTC
Found at i:58457895 original size:34 final size:34
Alignment explanation
Indices: 58457811--58457888 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
58457801 ACTCTTTGTT
58457811 TGCATACT-ATACTGAAATGGGCTAAGGCCCAGAC
1 TGCAT-CTGATACTGAAATGGGCTAAGGCCCAGAC
* * *
58457845 TGCCTCTGGTACTGAAATGGGCTCAGGCCCAGAC
1 TGCATCTGATACTGAAATGGGCTAAGGCCCAGAC
58457879 TG-ATACTGAT
1 TGCAT-CTGAT
58457889 TTTGAAAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 3 0.08
34 34 0.92
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (34 bp):
TGCATCTGATACTGAAATGGGCTAAGGCCCAGAC
Found at i:58471113 original size:37 final size:36
Alignment explanation
Indices: 58471063--58471149 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
58471053 TACGAAGTCT
*
58471063 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGAACATAATCTCCACACGTAGTCATCGGGTC
58471099 GTACCCGAACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGAACATAATCTCCACACGTAGTCATCGGGTC
58471136 TCACCCGGAACATA
1 T-ACCC-GAACATA
58471150 TTTCCAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 39 0.83
38 7 0.15
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (36 bp):
TACCCGAACATAATCTCCACACGTAGTCATCGGGTC
Found at i:58471287 original size:49 final size:49
Alignment explanation
Indices: 58471218--58471565 Score: 536
Period size: 49 Copynumber: 7.1 Consensus size: 49
58471208 TTTACCACAT
*
58471218 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
58471267 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
58471316 ATATATATATACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
58471365 ATATACATATACTTTCACATTCATCCCATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * * *
58471414 ATATACCTACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
58471463 ATATATATACA-TTTCCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTT-CACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
58471512 ATATGCATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
58471561 ATATA
1 ATATA
58471566 TACATTTTCA
Statistics
Matches: 275, Mismatches: 22, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
48 3 0.01
49 269 0.98
50 3 0.01
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:58475507 original size:40 final size:40
Alignment explanation
Indices: 58475452--58475673 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
58475442 TATTCGAATG
58475452 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
58475492 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
58475532 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
58475572 ATATTCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
58475612 ATATCCGGGCTAAGACCCGAAGGTATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
58475652 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
58475674 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.08
40 150 0.90
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:58477626 original size:68 final size:70
Alignment explanation
Indices: 58477554--58477751 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
58477544 ACACCCTGTA
* * * *
58477554 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
58477616 ATAAAT
65 ATAAAT
*
58477622 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
58477687 ATAAAT
65 ATAAAT
*
58477693 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
58477752 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:58477665 original size:41 final size:41
Alignment explanation
Indices: 58477620--58477737 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
58477610 TGAAAGATAA
58477620 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
58477661 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58477691 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58477732 ATGTAG
1 ATGTAG
58477738 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:58477677 original size:71 final size:71
Alignment explanation
Indices: 58477588--58477751 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
58477578 GAGATGTATC
58477588 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58477653 AGGACA
66 AGGACA
58477659 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58477724 AGGACA
66 AGGACA
58477730 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
58477752 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:58485195 original size:68 final size:70
Alignment explanation
Indices: 58485123--58485320 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
58485113 ACACCCTGTA
* * * *
58485123 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
58485185 ATAAAT
65 ATAAAT
*
58485191 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
58485256 ATAAAT
65 ATAAAT
*
58485262 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
58485321 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:58485234 original size:41 final size:41
Alignment explanation
Indices: 58485189--58485306 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
58485179 TGAAAGATAA
58485189 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
58485230 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58485260 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58485301 ATGTAG
1 ATGTAG
58485307 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:58485246 original size:71 final size:71
Alignment explanation
Indices: 58485157--58485320 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
58485147 GAGATGTATC
58485157 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58485222 AGGACA
66 AGGACA
58485228 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58485293 AGGACA
66 AGGACA
58485299 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
58485321 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:58487094 original size:41 final size:41
Alignment explanation
Indices: 58487049--58487166 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
58487039 TGAAAGATAA
58487049 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
58487090 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58487120 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58487161 ATGTAG
1 ATGTAG
58487167 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:58487103 original size:71 final size:71
Alignment explanation
Indices: 58487017--58487180 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
58487007 GAGATGTATC
58487017 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58487082 AGGACA
66 AGGACA
58487088 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58487153 AGGACA
66 AGGACA
58487159 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
58487181 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:58494615 original size:68 final size:70
Alignment explanation
Indices: 58494543--58494740 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
58494533 ACACCCTGTA
* * * *
58494543 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
58494605 ATAAAT
65 ATAAAT
*
58494611 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
58494676 ATAAAT
65 ATAAAT
*
58494682 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
58494741 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:58494654 original size:41 final size:41
Alignment explanation
Indices: 58494609--58494726 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
58494599 TGAAAGATAA
58494609 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
58494650 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58494680 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58494721 ATGTAG
1 ATGTAG
58494727 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:58494666 original size:71 final size:71
Alignment explanation
Indices: 58494577--58494740 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
58494567 GAGATGTATC
58494577 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58494642 AGGACA
66 AGGACA
58494648 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58494713 AGGACA
66 AGGACA
58494719 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
58494741 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:58507293 original size:75 final size:75
Alignment explanation
Indices: 58507148--58507293 Score: 193
Period size: 75 Copynumber: 1.9 Consensus size: 75
58507138 ATTACTCGGT
* * ** *
58507148 GATATTGAATGTGAGCCCAGCTCTAGTTAGATAAACCAACGGTGTTTGGGCCTAGTGCTAGTCGG
1 GATATTGAATGTGAGCCCAGCTCTAGTTAGATAAACCAACGATGTTTGGGCCCAGCACTAGTCAG
58507213 CTATACTGAC
66 CTATACTGAC
* * ** *
58507223 GATATTGAGTGTGAGCCCAGCTCTAGTTGGATAAACCAATTATGTTTGTGCCCAGCACTAGTCAG
1 GATATTGAATGTGAGCCCAGCTCTAGTTAGATAAACCAACGATGTTTGGGCCCAGCACTAGTCAG
*
58507288 TTATAC
66 CTATAC
58507294 CGATGATTGT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 60 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (75 bp):
GATATTGAATGTGAGCCCAGCTCTAGTTAGATAAACCAACGATGTTTGGGCCCAGCACTAGTCAG
CTATACTGAC
Found at i:58507531 original size:24 final size:24
Alignment explanation
Indices: 58507502--58507549 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
58507492 TGAATTTGAT
*
58507502 AAAACACGTATAATTTTATATTAA
1 AAAACACGTATAATTGTATATTAA
58507526 AAAACACGTATAATTGTATATTAA
1 AAAACACGTATAATTGTATATTAA
58507550 GTACTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (24 bp):
AAAACACGTATAATTGTATATTAA
Found at i:58509047 original size:18 final size:18
Alignment explanation
Indices: 58509024--58509058 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
58509014 TGGCGGACAC
*
58509024 ATAAACTGAGAAAATACG
1 ATAAACCGAGAAAATACG
58509042 ATAAACCGAGAAAATAC
1 ATAAACCGAGAAAATAC
58509059 ATGTCATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (18 bp):
ATAAACCGAGAAAATACG
Found at i:58516540 original size:20 final size:20
Alignment explanation
Indices: 58516503--58516545 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
58516493 ATTGAAATTC
* *
58516503 AAATTACTGATTATATGATT
1 AAATTACTGATTACATGAAT
58516523 AAATTACT-ATTTACATGAAT
1 AAATTACTGA-TTACATGAAT
58516543 AAA
1 AAA
58516546 AGTGAAATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (20 bp):
AAATTACTGATTACATGAAT
Found at i:58516896 original size:23 final size:23
Alignment explanation
Indices: 58516853--58516955 Score: 106
Period size: 23 Copynumber: 4.5 Consensus size: 23
58516843 TCAACTCGTA
*
58516853 AGAGCTTACT-ATTTTCAGCTCATT
1 AGAGCTTACTGA--TTCAGCTCAAT
*
58516877 GGAGCTTACTGATTCAGCTC-AT
1 AGAGCTTACTGATTCAGCTCAAT
58516899 ATGAGCTTACT-ATTCAGCTCAAT
1 A-GAGCTTACTGATTCAGCTCAAT
* *
58516922 AAAGCTTAC-CATTTCAGCTCAAT
1 AGAGCTTACTGA-TTCAGCTCAAT
58516945 AGAGCTTACTG
1 AGAGCTTACTG
58516956 TTTATCAGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
22 18 0.27
23 39 0.58
24 9 0.13
25 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (23 bp):
AGAGCTTACTGATTCAGCTCAAT
Found at i:58516928 original size:45 final size:46
Alignment explanation
Indices: 58516853--58516954 Score: 120
Period size: 45 Copynumber: 2.2 Consensus size: 46
58516843 TCAACTCGTA
* ** *
58516853 AGAGCTTACTATTTTCAGCTCATTGGAGCTTACTGA-TTCAGCTC-AT
1 AGAGCTTACTA-TTTCAGCTCAATAAAGCTTAC-CATTTCAGCTCAAT
58516899 ATGAGCTTACTA-TTCAGCTCAATAAAGCTTACCATTTCAGCTCAAT
1 A-GAGCTTACTATTTCAGCTCAATAAAGCTTACCATTTCAGCTCAAT
58516945 AGAGCTTACT
1 AGAGCTTACT
58516955 GTTTATCAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
44 1 0.02
45 34 0.69
46 4 0.08
47 10 0.20
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (46 bp):
AGAGCTTACTATTTCAGCTCAATAAAGCTTACCATTTCAGCTCAAT
Found at i:58519626 original size:46 final size:46
Alignment explanation
Indices: 58519473--58519636 Score: 138
Period size: 46 Copynumber: 3.5 Consensus size: 46
58519463 TGTATAAGCT
* * * *
58519473 AGTGTAAGACATGTTTGGGACATGCATC-GCCCA-C-ATTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAG--CATCGA-GACGAGAGCC
* * * *
58519519 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGAGACGAGAGCC
* * *
58519567 AGTGTAAGGCATGTCTGGGACATGCTTCAGCCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACG-AGAGCC
*
58519613 AGTGTAAGACATGTCTGAGACATG
1 AGTGTAAGACATGTCTGGGACATG
58519637 AATCGGCTAC
Statistics
Matches: 98, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
46 46 0.47
47 30 0.31
48 20 0.20
49 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACGAGAGCC
Found at i:58519650 original size:46 final size:46
Alignment explanation
Indices: 58519519--58519673 Score: 133
Period size: 46 Copynumber: 3.4 Consensus size: 46
58519509 TATGAGAGCT
* *
58519519 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGACG-AGTGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTA-CGAGACGTA--GCC
* * *
58519567 AGTGTAAG-GCATGTCTGGGACATGCTTCAGCCT-CGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-GGCTACGAGACGT-AGCC
* * * *
58519613 AGTGTAAGA-CATGTCTGAGACATGAATCGGCTACGAGATGT-GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGACGTAGCC
58519657 AGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCT
58519674 AGGGTAAGAC
Statistics
Matches: 89, Mismatches: 11, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
44 11 0.12
45 10 0.11
46 43 0.48
47 16 0.18
48 9 0.10
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGACGTAGCC
Found at i:58521555 original size:23 final size:23
Alignment explanation
Indices: 58521529--58521639 Score: 84
Period size: 23 Copynumber: 4.8 Consensus size: 23
58521519 CAAAGAACCA
58521529 TATCGGGAAGCTCACGAAAAGCC
1 TATCGGGAAGCTCACGAAAAGCC
* *
58521552 TATCGGGAAGCTC-CGGATAGCC
1 TATCGGGAAGCTCACGAAAAGCC
* * **
58521574 ATATATCGGGAAGTTCAAG-CGAGCAC
1 ---TATCGGGAAGCTCACGAAAAGC-C
* *
58521600 TATCGGGAAGCTCACAAAAAACC
1 TATCGGGAAGCTCACGAAAAGCC
*
58521623 TATCAGGAAGCTC-CGAA
1 TATCGGGAAGCTCACGAA
58521640 TAGCTATATA
Statistics
Matches: 68, Mismatches: 14, Indels: 13
0.72 0.15 0.14
Matches are distributed among these distances:
22 10 0.15
23 39 0.57
24 2 0.03
25 15 0.22
26 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.16
Consensus pattern (23 bp):
TATCGGGAAGCTCACGAAAAGCC
Found at i:58521604 original size:71 final size:71
Alignment explanation
Indices: 58521529--58521660 Score: 210
Period size: 71 Copynumber: 1.9 Consensus size: 71
58521519 CAAAGAACCA
* * * * *
58521529 TATCGGGAAGCTCACGAAAAGCCTATCGGGAAGCTCCGGATAGCCATATATCGGGAAGTTCAAGC
1 TATCGGGAAGCTCACAAAAAACCTATCAGGAAGCTCCGAATAGCCATATATCGAGAAGTTCAAGC
58521594 GAGCAC
66 GAGCAC
*
58521600 TATCGGGAAGCTCACAAAAAACCTATCAGGAAGCTCCGAATAGCTATATATCGAGAAGTTC
1 TATCGGGAAGCTCACAAAAAACCTATCAGGAAGCTCCGAATAGCCATATATCGAGAAGTTC
58521661 TTAAGGGCTA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (71 bp):
TATCGGGAAGCTCACAAAAAACCTATCAGGAAGCTCCGAATAGCCATATATCGAGAAGTTCAAGC
GAGCAC
Found at i:58523810 original size:8 final size:7
Alignment explanation
Indices: 58523788--58523866 Score: 62
Period size: 8 Copynumber: 11.6 Consensus size: 7
58523778 CCTTTTATAC
58523788 TAAATAA
1 TAAATAA
*
58523795 TTAATAA
1 TAAATAA
58523802 TGAAATAA
1 T-AAATAA
58523810 T-AATAA
1 TAAATAA
*
58523816 AATAATAA
1 TA-AATAA
58523824 TAAAATAA
1 T-AAATAA
58523832 TAAA-AA
1 TAAATAA
58523838 T-AATAA
1 TAAATAA
58523844 TGAAATAA
1 T-AAATAA
58523852 T-AAT-A
1 TAAATAA
58523857 -AAATAA
1 TAAATAA
58523863 TAAA
1 TAAA
58523867 ATATCTCATT
Statistics
Matches: 58, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
5 6 0.10
6 15 0.26
7 13 0.22
8 23 0.40
9 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (7 bp):
TAAATAA
Found at i:58523811 original size:3 final size:3
Alignment explanation
Indices: 58523790--58523869 Score: 82
Period size: 3 Copynumber: 28.3 Consensus size: 3
58523780 TTTTATACTA
*
58523790 AAT AATT AAT AAT GA- AAT AAT AAT AA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
58523833 AAA AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
58523870 TCTCATTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
2 10 0.16
3 51 0.80
4 3 0.05
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:58523812 original size:11 final size:11
Alignment explanation
Indices: 58523796--58523865 Score: 108
Period size: 11 Copynumber: 6.5 Consensus size: 11
58523786 ACTAAATAAT
*
58523796 TAATAATGAAA
1 TAATAATAAAA
58523807 TAATAATAAAA
1 TAATAATAAAA
58523818 TAATAATAAAA
1 TAATAATAAAA
58523829 TAAT-A-AAAA
1 TAATAATAAAA
*
58523838 TAATAATGAAA
1 TAATAATAAAA
58523849 TAATAATAAAA
1 TAATAATAAAA
58523860 TAATAA
1 TAATAA
58523866 AATATCTCAT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
9 8 0.15
10 2 0.04
11 44 0.81
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:58523815 original size:14 final size:14
Alignment explanation
Indices: 58523789--58523857 Score: 72
Period size: 14 Copynumber: 4.9 Consensus size: 14
58523779 CTTTTATACT
58523789 AAATAATTAATAATG
1 AAATAA-TAATAATG
*
58523804 AAATAATAATAA-A
1 AAATAATAATAATG
58523817 ATAATAATAAAATAAT-
1 A-AATAAT--AATAATG
58523833 AAA-AATAATAATG
1 AAATAATAATAATG
58523846 AAATAATAATAA
1 AAATAATAATAA
58523858 AATAATAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
12 6 0.13
13 4 0.09
14 23 0.49
15 8 0.17
16 6 0.13
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
AAATAATAATAATG
Found at i:58523840 original size:31 final size:31
Alignment explanation
Indices: 58523804--58523867 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
58523794 ATTAATAATG
58523804 AAATAATAATAAAATAATAATAAAATAATAA
1 AAATAATAATAAAATAATAATAAAATAATAA
*
58523835 AAATAATAATGAAATAATAATAAAATAATAA
1 AAATAATAATAAAATAATAATAAAATAATAA
58523866 AA
1 AA
58523868 TATCTCATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (31 bp):
AAATAATAATAAAATAATAATAAAATAATAA
Found at i:58523892 original size:20 final size:21
Alignment explanation
Indices: 58523839--58523914 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
58523829 TAATAAAAAT
* *
58523839 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
58523858 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
58523879 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
58523900 TAATCATAAAATATC
1 -AATAATAAAATATC
58523915 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:58524516 original size:41 final size:42
Alignment explanation
Indices: 58524481--58524571 Score: 125
Period size: 41 Copynumber: 2.2 Consensus size: 42
58524471 CCATGTTTTT
*
58524481 GCACACGGGTTA-GGACACGGACGTGTCATGGCCATG-TGAA
1 GCACACGGGCTAGGGACACGGACGTGTCATGGCCATGTTGAA
* *
58524521 GGACACGGGCTAGGGACACGGGCGTGTCATGGCCATG-TGAA
1 GCACACGGGCTAGGGACACGGACGTGTCATGGCCATGTTGAA
*
58524562 GGACACGGGC
1 GCACACGGGC
58524572 CGAAAACCCC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 10 0.21
41 37 0.79
ACGTcount: A:0.23, C:0.23, G:0.40, T:0.14
Consensus pattern (42 bp):
GCACACGGGCTAGGGACACGGACGTGTCATGGCCATGTTGAA
Found at i:58530744 original size:40 final size:41
Alignment explanation
Indices: 58530650--58530899 Score: 291
Period size: 40 Copynumber: 6.3 Consensus size: 41
58530640 ACCCAATTAT
* *** *
58530650 CTTCGGGATTTAG-CCGGATA-TAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* * * * *
58530688 CGTCGGGTCTTAGCCCGGATA-TGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
58530728 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
*
58530768 CTTCGGGACTTAGCCCAGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
58530808 CTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* * * * * *
58530848 CTTCGAGACTTAGCCC-GAAATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
58530888 CTTCGGGACTTA
1 CTTCGGGACTTA
58530900 ACCCCGTTAA
Statistics
Matches: 187, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
38 10 0.05
39 19 0.10
40 158 0.84
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
Found at i:58537606 original size:24 final size:24
Alignment explanation
Indices: 58537574--58537797 Score: 333
Period size: 24 Copynumber: 9.3 Consensus size: 24
58537564 CTAGTTATAA
58537574 ATCAAAAGGGCTTATGCCCCAGTT
1 ATCAAAAGGGCTTATGCCCCAGTT
*
58537598 ATCAAAAGGGCTTATGCCCTAGTT
1 ATCAAAAGGGCTTATGCCCCAGTT
* *
58537622 ATAAAAAGGGCTTATGCCTCAGTT
1 ATCAAAAGGGCTTATGCCCCAGTT
*
58537646 ATCAAAAGGTCTTATGCCCCAGTT
1 ATCAAAAGGGCTTATGCCCCAGTT
* *
58537670 ATAAAAAGGTCTTATGCCCCAGTT
1 ATCAAAAGGGCTTATGCCCCAGTT
*
58537694 ATAAAAAGGGCTTATGCCCCAGTT
1 ATCAAAAGGGCTTATGCCCCAGTT
58537718 A-CTAAAAGGGCTTATGCCCCAGTT
1 ATC-AAAAGGGCTTATGCCCCAGTT
*
58537742 ATCAAAAGGGCTTATGCCCCAATT
1 ATCAAAAGGGCTTATGCCCCAGTT
* *
58537766 ATTAAAAGGGCTTTTGCCCCAGTT
1 ATCAAAAGGGCTTATGCCCCAGTT
*
58537790 ATTAAAAG
1 ATCAAAAG
58537798 AGGTTAGGCC
Statistics
Matches: 184, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
24 183 0.99
25 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (24 bp):
ATCAAAAGGGCTTATGCCCCAGTT
Found at i:58545703 original size:24 final size:24
Alignment explanation
Indices: 58545640--58545787 Score: 83
Period size: 23 Copynumber: 6.2 Consensus size: 24
58545630 GGACTCACCA
* * *
58545640 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCATATGAGCTTACTG-T-TTT
* *
58545666 CAGCTCGTAAGAGCTTACTGTTTT
1 CAGCTCATATGAGCTTACTGTTTT
* *
58545690 CAGCTCAT-TGGAGCTTACCG-ATT
1 CAGCTCATAT-GAGCTTACTGTTTT
*
58545713 CAGCTCGTATGAGCTTACTG--TT
1 CAGCTCATATGAGCTTACTGTTTT
* **
58545735 CAGCTTGATA-GAGCTTAC-CATTT
1 CAGC-TCATATGAGCTTACTGTTTT
* * *
58545758 CAGCTCAAAAGAGCTTACTATTTAT
1 CAGCTCATATGAGCTTACTGTTT-T
58545783 CAGCT
1 CAGCT
58545788 TAGGAGGAGC
Statistics
Matches: 98, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
22 17 0.17
23 35 0.36
24 21 0.21
25 7 0.07
26 18 0.18
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (24 bp):
CAGCTCATATGAGCTTACTGTTTT
Found at i:58545752 original size:45 final size:46
Alignment explanation
Indices: 58545650--58545776 Score: 134
Period size: 45 Copynumber: 2.7 Consensus size: 46
58545640 CAGCTCGTAT
*
58545650 GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTG
1 GAGCTTACCG--AT-TCAGCTCGTAAGAGCTTACTG-TTTCAGCTCATTA
* *
58545700 GAGCTTACCGATTCAGCTCGTATGAGCTTACTG-TTCAGCTTGA-TA
1 GAGCTTACCGATTCAGCTCGTAAGAGCTTACTGTTTCAGC-TCATTA
**
58545745 GAGCTTACC-ATTTCAGCTCAAAAGAGCTTACT
1 GAGCTTACCGA-TTCAGCTCGTAAGAGCTTACT
58545777 ATTTATCAGC
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
44 1 0.01
45 34 0.49
46 2 0.03
47 20 0.29
48 2 0.03
50 10 0.14
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (46 bp):
GAGCTTACCGATTCAGCTCGTAAGAGCTTACTGTTTCAGCTCATTA
Found at i:58546002 original size:20 final size:20
Alignment explanation
Indices: 58545979--58546031 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
58545969 GAAATGAATG
58545979 AATTACTGTTGA-TA-TAGATA
1 AATTACTGTT-ATTACTA-ATA
*
58545999 AATTACTATTATTACTAATA
1 AATTACTGTTATTACTAATA
58546019 AATTACTGGTTAT
1 AATTACT-GTTAT
58546032 ACGGATGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 1 0.04
20 21 0.75
21 6 0.21
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (20 bp):
AATTACTGTTATTACTAATA
Found at i:58546059 original size:20 final size:20
Alignment explanation
Indices: 58546022--58546060 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58546012 ACTAATAAAT
*
58546022 TACTGGTTATACGGATGAAC
1 TACTGGTTATACGAATGAAC
*
58546042 TACTGGTTATATGAATGAA
1 TACTGGTTATACGAATGAA
58546061 TTATATAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TACTGGTTATACGAATGAAC
Found at i:58547970 original size:21 final size:21
Alignment explanation
Indices: 58547946--58547989 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
58547936 ATTTTTGGGC
*
58547946 TAAATTGATT-AATTTGATGAT
1 TAAATAGATTAAATTTGAT-AT
*
58547967 TAAATAGGTTAAATTTGATAT
1 TAAATAGATTAAATTTGATAT
58547988 TA
1 TA
58547990 TAGATCAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (21 bp):
TAAATAGATTAAATTTGATAT
Found at i:58561650 original size:16 final size:16
Alignment explanation
Indices: 58561613--58561644 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58561603 AATTAAATAC
*
58561613 AATAAGAATAGAATTT
1 AATAATAATAGAATTT
58561629 AATAATAATAGAATTT
1 AATAATAATAGAATTT
58561645 TCTAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (16 bp):
AATAATAATAGAATTT
Found at i:58561690 original size:3 final size:3
Alignment explanation
Indices: 58561682--58561722 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
58561672 TTAAAATTAA
58561682 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
58561723 ATAAATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:58564112 original size:18 final size:18
Alignment explanation
Indices: 58564091--58564132 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
58564081 AAAATATATA
58564091 AAAAATCCTTAATAT-TTT
1 AAAAATCC-TAATATATTT
*
58564109 AAAAAACCTAATATATTT
1 AAAAATCCTAATATATTT
*
58564127 ATAAAT
1 AAAAAT
58564133 TTATAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAATCCTAATATATTT
Found at i:58564120 original size:17 final size:20
Alignment explanation
Indices: 58564084--58564127 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
58564074 AGCATATAAA
*
58564084 ATATATAAAAAATCCTTAAT
1 ATATTTAAAAAATCCTTAAT
58564104 AT-TTTAAAAAA-CC-TAAT
1 ATATTTAAAAAATCCTTAAT
58564121 ATATTTA
1 ATATTTA
58564128 TAAATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.27
18 6 0.27
19 8 0.36
20 2 0.09
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (20 bp):
ATATTTAAAAAATCCTTAAT
Found at i:58565497 original size:15 final size:15
Alignment explanation
Indices: 58565477--58565510 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
58565467 AGCATATACA
*
58565477 CACAACCAATTCAAC
1 CACAACCAAGTCAAC
*
58565492 CACAACCAAGTCATC
1 CACAACCAAGTCAAC
58565507 CACA
1 CACA
58565511 CATCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.41, G:0.03, T:0.12
Consensus pattern (15 bp):
CACAACCAAGTCAAC
Found at i:58566276 original size:42 final size:42
Alignment explanation
Indices: 58566229--58566338 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 42
58566219 TACCATACCA
* *
58566229 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* ** * *
58566271 ATGCCAATAGCCCATCTTTGGTTTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
58566314 ATGTCATATCCCAGATATGGTCTTA
1 ATGCCATATCCCAGATATGGTCTTA
58566339 TACGTAATCT
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
42 20 0.38
43 32 0.60
44 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:58567391 original size:19 final size:20
Alignment explanation
Indices: 58567356--58567394 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
58567346 TTTTAAGGAC
*
58567356 TTTTTAATTTAATTAAGTTT
1 TTTTTAAATTAATTAAGTTT
58567376 TTTTTAAATTAA-TAAGTTT
1 TTTTTAAATTAATTAAGTTT
58567395 GCATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTTAAATTAATTAAGTTT
Found at i:58567721 original size:9 final size:9
Alignment explanation
Indices: 58567703--58567775 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
58567693 TTTATTTAAG
58567703 TTAA-GTGT
1 TTAATGTGT
58567711 TTAATGTGT
1 TTAATGTGT
58567720 TT--TGTGT
1 TTAATGTGT
58567727 TTAATAAGTGT
1 TTAAT--GTGT
58567738 TTAAATGTGT
1 TT-AATGTGT
*
58567748 TTAATATG-
1 TTAATGTGT
58567756 TT--TGT-T
1 TTAATGTGT
58567762 TTAATGTGT
1 TTAATGTGT
58567771 TTAAT
1 TTAAT
58567776 TGCAGGTGTC
Statistics
Matches: 53, Mismatches: 2, Indels: 19
0.72 0.03 0.26
Matches are distributed among these distances:
6 4 0.08
7 7 0.13
8 9 0.17
9 18 0.34
10 6 0.11
11 6 0.11
12 3 0.06
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (9 bp):
TTAATGTGT
Found at i:58567748 original size:21 final size:22
Alignment explanation
Indices: 58567722--58567775 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
58567712 TAATGTGTTT
58567722 TGTGTTTAATAAG-TGTTTAAA
1 TGTGTTTAATAAGTTGTTTAAA
* *
58567743 TGTGTTTAATATGTTTGTTTTAA
1 TGTGTTTAATAAG-TTGTTTAAA
58567766 TGTGTTTAAT
1 TGTGTTTAAT
58567776 TGCAGGTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 12 0.41
23 17 0.59
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (22 bp):
TGTGTTTAATAAGTTGTTTAAA
Found at i:58569590 original size:7 final size:7
Alignment explanation
Indices: 58569561--58569614 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
58569551 TATAAATTTT
58569561 ATTTATA
1 ATTTATA
*
58569568 ATTTAGCA
1 ATTTA-TA
*
58569576 TATATATA
1 -ATTTATA
58569584 ATTTAT-
1 ATTTATA
58569590 ATTTATA
1 ATTTATA
58569597 ATTTATA
1 ATTTATA
*
58569604 ATTTATT
1 ATTTATA
58569611 ATTT
1 ATTT
58569615 GATCTAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 6 0.15
7 27 0.69
8 2 0.05
9 4 0.10
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (7 bp):
ATTTATA
Found at i:58570401 original size:75 final size:75
Alignment explanation
Indices: 58570278--58570427 Score: 185
Period size: 75 Copynumber: 2.0 Consensus size: 75
58570268 ATCACGTGAC
* ** * *
58570278 ACCACCATATTAATTATTAGTTCCCCATCACTATAAACTAACAATATTAGTACGAAGATGTAACA
1 ACCACCATATTAATTATCAACTCCCCATCACTACAAACTAACAATATTAGTACAAAGATGTAACA
* *
58570343 TAATTCAATT
66 GAATACAATT
* * * *
58570353 ACCACCATATTGATTATCAACTCCCCATCAAC-ACAAATTAACAATATTAGTGCAAAGATGTGAC
1 ACCACCATATTAATTATCAACTCCCCATC-ACTACAAACTAACAATATTAGTACAAAGATGTAAC
58570417 AGAATACAATT
65 AGAATACAATT
58570428 TCAAGTACCA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
75 61 0.97
76 2 0.03
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (75 bp):
ACCACCATATTAATTATCAACTCCCCATCACTACAAACTAACAATATTAGTACAAAGATGTAACA
GAATACAATT
Found at i:58582185 original size:15 final size:14
Alignment explanation
Indices: 58582141--58582207 Score: 107
Period size: 14 Copynumber: 4.7 Consensus size: 14
58582131 GTTTGCAGGT
* *
58582141 AAAATGTTTTCCGG
1 AAAATGATTTCTGG
58582155 AAAATGATTTCTGG
1 AAAATGATTTCTGG
58582169 AAAATGATTTCCTGG
1 AAAATGATTT-CTGG
58582184 AAAATGATTTCTGG
1 AAAATGATTTCTGG
58582198 AAAATGATTT
1 AAAATGATTT
58582208 ACTTTTCTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
14 36 0.72
15 14 0.28
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:58582192 original size:29 final size:28
Alignment explanation
Indices: 58582141--58582207 Score: 116
Period size: 29 Copynumber: 2.4 Consensus size: 28
58582131 GTTTGCAGGT
*
58582141 AAAATGTTTTCCGGAAAATGATTTCTGG
1 AAAATGATTTCCGGAAAATGATTTCTGG
58582169 AAAATGATTTCCTGGAAAATGATTTCTGG
1 AAAATGATTTCC-GGAAAATGATTTCTGG
58582198 AAAATGATTT
1 AAAATGATTT
58582208 ACTTTTCTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 11 0.30
29 26 0.70
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (28 bp):
AAAATGATTTCCGGAAAATGATTTCTGG
Found at i:58582319 original size:16 final size:16
Alignment explanation
Indices: 58582298--58582348 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
58582288 CTGTTTTTAC
58582298 ATATATTAATAAATTT
1 ATATATTAATAAATTT
58582314 ATATA-T-AT--A--T
1 ATATATTAATAAATTT
58582324 ATATATTAATAAATTT
1 ATATATTAATAAATTT
*
58582340 ATATTTTAA
1 ATATATTAA
58582349 ATTGTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 12
0.68 0.02 0.29
Matches are distributed among these distances:
10 6 0.21
11 1 0.04
12 3 0.11
14 3 0.11
15 1 0.04
16 14 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATTAATAAATTT
Found at i:58583788 original size:21 final size:21
Alignment explanation
Indices: 58583764--58583805 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
58583754 TCAATATCAT
58583764 TATCCAAC-TAAATAAATTCAA
1 TATCCAACAT-AATAAATTCAA
*
58583785 TATCTAACATAATAAATTCAA
1 TATCCAACATAATAAATTCAA
58583806 CAAGCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (21 bp):
TATCCAACATAATAAATTCAA
Found at i:58583839 original size:21 final size:21
Alignment explanation
Indices: 58583774--58583839 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
58583764 TATCCAACTA
58583774 AATAAATTCAATATCTAACAT
1 AATAAATTCAATATCTAACAT
* *
58583795 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAT
58583820 AATAAATTCAATATCTAACA
1 AATAAATTCAATATCTAACA
58583840 AATTCAAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 15 0.41
22 2 0.05
23 2 0.05
24 2 0.05
25 16 0.43
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAT
Found at i:58583840 original size:32 final size:32
Alignment explanation
Indices: 58583813--58583873 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
58583803 CAACAAGCTT
* *
58583813 AAAACATAATAAATTCAATATCTAACAAATTC
1 AAAACATAATAAATTCAAAATCCAACAAATTC
* *
58583845 AAGACATAATAATTTCAAAATCCAACAAA
1 AAAACATAATAAATTCAAAATCCAACAAA
58583874 CTAAAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAACATAATAAATTCAAAATCCAACAAATTC
Found at i:58589477 original size:9 final size:9
Alignment explanation
Indices: 58589463--58589493 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
58589453 TAAACGAATT
58589463 GAGTTATTC
1 GAGTTATTC
58589472 GAGTTATTC
1 GAGTTATTC
*
58589481 AAGTTATTC
1 GAGTTATTC
58589490 GAGT
1 GAGT
58589494 CAACTCGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
GAGTTATTC
Found at i:58594382 original size:40 final size:40
Alignment explanation
Indices: 58594327--58594407 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
58594317 TGAGTGGAAG
*
58594327 TATGATATCCGTAGAAGATCATGACGAACAAAAGGAGGGA
1 TATGATATCCGTAGAAGATCATGAAGAACAAAAGGAGGGA
*
58594367 TATGATATCCGTAGAAGATCATGAAGAACTAAAGGAGGGA
1 TATGATATCCGTAGAAGATCATGAAGAACAAAAGGAGGGA
58594407 T
1 T
58594408 TGTTTCATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.42, C:0.11, G:0.27, T:0.20
Consensus pattern (40 bp):
TATGATATCCGTAGAAGATCATGAAGAACAAAAGGAGGGA
Found at i:58595813 original size:23 final size:23
Alignment explanation
Indices: 58595787--58595833 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
58595777 GATCGATCAG
58595787 AAAGTGTGGGAGAGTATGAACTA
1 AAAGTGTGGGAGAGTATGAACTA
58595810 AAAGTGTGGGAGAGTATGAACTA
1 AAAGTGTGGGAGAGTATGAACTA
58595833 A
1 A
58595834 CCGTCAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.34, T:0.21
Consensus pattern (23 bp):
AAAGTGTGGGAGAGTATGAACTA
Found at i:58597395 original size:22 final size:21
Alignment explanation
Indices: 58597348--58597395 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
58597338 GTTAACTTTT
* * *
58597348 TGTAAAAAAATTTAAACTCTA
1 TGTAAAAAAATATAAAATATA
*
58597369 AGTAAAAAAATATAAAATATA
1 TGTAAAAAAATATAAAATATA
58597390 GTGTAA
1 -TGTAA
58597396 CTTTTATTCT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (21 bp):
TGTAAAAAAATATAAAATATA
Found at i:58601361 original size:8 final size:8
Alignment explanation
Indices: 58601348--58601382 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
58601338 TTTAAAAATT
58601348 ATATAAAA
1 ATATAAAA
58601356 ATATAAAA
1 ATATAAAA
*
58601364 TTATAAAA
1 ATATAAAA
*
58601372 TTATAAAA
1 ATATAAAA
58601380 ATA
1 ATA
58601383 ATAATATAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
ATATAAAA
Found at i:58613862 original size:46 final size:46
Alignment explanation
Indices: 58613812--58613983 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
58613802 TGGTTGAGCA
*
58613812 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
58613858 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
58613905 TCC-AACTCGTTGAGTTGTGTCTGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
58613950 -CTCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58613984 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 5 0.05
46 79 0.77
47 6 0.06
49 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:58613977 original size:92 final size:93
Alignment explanation
Indices: 58613809--58613978 Score: 254
Period size: 92 Copynumber: 1.8 Consensus size: 93
58613799 GGATGGTTGA
*
58613809 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
58613874 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
58613902 GCATCC-AACTCGTTGAGTTGTGTCTGAGTTCATTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGAG
*
58613965 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
58613979 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
91 1 0.01
92 62 0.90
93 6 0.09
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58623767 original size:12 final size:12
Alignment explanation
Indices: 58623750--58623774 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58623740 ATGTAAGTGA
58623750 TCTTGATGATTT
1 TCTTGATGATTT
58623762 TCTTGATGATTT
1 TCTTGATGATTT
58623774 T
1 T
58623775 TATATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:58624572 original size:48 final size:46
Alignment explanation
Indices: 58624475--58624842 Score: 298
Period size: 48 Copynumber: 7.8 Consensus size: 46
58624465 AATTACTTAT
* * * *
58624475 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-CACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTAGA-GATGA
*
58624521 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCGTAGAGATGA
* *
58624569 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCGTAGAGATGA
* * *
58624617 GTGCCAGTGTAAGACATGTCTGGGACATGAATCGGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTAGA-GATGA
** * *
58624664 -TAGCCAGTGTAAGATGTGTATGGGACATGCATCGGC-T-GAGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTAGAGATG-A
* ** * * * *
58624708 GTGCTAGTGTAAGACATGTCTGGGACATATATCAGCACGTATATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-G-GCGTAGAGATGA
* * * * *
58624756 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTTGATGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCGTAGA-GATGA
* *
58624805 -TAGCCAGTGTAAGACCCTGTCTGGGACATAACATCGGC
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
58624843 AACTTATCCC
Statistics
Matches: 262, Mismatches: 44, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
43 1 0.00
44 27 0.10
45 4 0.02
46 24 0.09
47 64 0.24
48 88 0.34
49 51 0.19
50 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTAGAGATGA
Found at i:58630042 original size:29 final size:30
Alignment explanation
Indices: 58630007--58630074 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
58629997 TGTTTACATT
*
58630007 TTGATCACTTAATT-T-CAAAAAGTTACAAA
1 TTGATCACTAAATTGTAC-AAAAGTTACAAA
*
58630036 TTGATCACTAAATTGTACAAAAGTTACAAG
1 TTGATCACTAAATTGTACAAAAGTTACAAA
*
58630066 TTGGTCACT
1 TTGATCACT
58630075 GACTTGTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 13 0.38
30 20 0.59
31 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.34
Consensus pattern (30 bp):
TTGATCACTAAATTGTACAAAAGTTACAAA
Found at i:58631434 original size:2 final size:2
Alignment explanation
Indices: 58631427--58631459 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
58631417 GGTTATGCGC
58631427 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 A
58631460 GCCAAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.