Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 44 of 204
Found at i:12832044 original size:23 final size:23
Alignment explanation
Indices: 12832011--12832054 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
12832001 AAAGAAATTT
* **
12832011 AACAAAGTACGCTGCAAGGGCCA
1 AACAAAATACGCCACAAGGGCCA
12832034 AACAAAATACGCCACAAGGGC
1 AACAAAATACGCCACAAGGGC
12832055 ATCCTACAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.27, G:0.23, T:0.07
Consensus pattern (23 bp):
AACAAAATACGCCACAAGGGCCA
Found at i:12838571 original size:23 final size:23
Alignment explanation
Indices: 12838547--12838590 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
12838537 AATATTAGAA
12838547 TAAT-ATTTTAAA-TAAAA-AAT
1 TAATAATTTTAAATTAAAATAAT
12838567 TAATAATTTTAAATTAAAATAAT
1 TAATAATTTTAAATTAAAATAAT
12838590 T
1 T
12838591 TGCTTTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 8 0.38
22 5 0.24
23 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATAATTTTAAATTAAAATAAT
Found at i:12842415 original size:20 final size:22
Alignment explanation
Indices: 12842372--12842415 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
12842362 TAACTTATGC
*
12842372 AGCAAAATTAATGTAATAAGAT
1 AGCAAAATTAATGTAATAAAAT
*
12842394 AGCAAAATT-ATG-GATAAAAT
1 AGCAAAATTAATGTAATAAAAT
12842414 AG
1 AG
12842416 GCTTGGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 3 0.15
22 9 0.45
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.25
Consensus pattern (22 bp):
AGCAAAATTAATGTAATAAAAT
Found at i:12843401 original size:17 final size:18
Alignment explanation
Indices: 12843381--12843416 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
12843371 GCACTAAGAT
12843381 AAAAATGTAATGACAATAA
1 AAAAATGTAATGACAAT-A
12843400 AAAAATGTAATGACAAT
1 AAAAATGTAATGACAAT
12843417 GTATACTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.06, G:0.11, T:0.22
Consensus pattern (18 bp):
AAAAATGTAATGACAATA
Found at i:12843895 original size:18 final size:21
Alignment explanation
Indices: 12843853--12843902 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
12843843 TTATCTTTTT
*
12843853 CAGCAACTTCTTCTTCTTCAG
1 CAGCAACTTCCTCTTCTTCAG
*
12843874 CAGCAACTTCCTCTTCTACAG
1 CAGCAACTTCCTCTTCTTCAG
12843895 CA-CAACTT
1 CAGCAACTT
12843903 TCTTCTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.24, C:0.36, G:0.08, T:0.32
Consensus pattern (21 bp):
CAGCAACTTCCTCTTCTTCAG
Found at i:12843906 original size:18 final size:19
Alignment explanation
Indices: 12843853--12843908 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
12843843 TTATCTTTTT
*
12843853 CAGCAACTTCTTCTTCTTCAG
1 CAGCAAC-T-TTCTTCTACAG
12843874 CAGCAACTTCCTCTTCTACAG
1 CAGCAACTT--TCTTCTACAG
12843895 CA-CAACTTTCTTCT
1 CAGCAACTTTCTTCT
12843909 CAACAACAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
18 6 0.19
19 1 0.03
20 7 0.22
21 18 0.56
ACGTcount: A:0.21, C:0.36, G:0.07, T:0.36
Consensus pattern (19 bp):
CAGCAACTTTCTTCTACAG
Found at i:12847464 original size:12 final size:12
Alignment explanation
Indices: 12847447--12847471 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12847437 AGTACAATGA
12847447 CTAAACATGCAT
1 CTAAACATGCAT
12847459 CTAAACATGCAT
1 CTAAACATGCAT
12847471 C
1 C
12847472 GTTAAAGAAG
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (12 bp):
CTAAACATGCAT
Found at i:12850406 original size:45 final size:45
Alignment explanation
Indices: 12850341--12850431 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
12850331 GTCGTGCACG
*
12850341 GGATCCGGAAACCCATCGTCGATCGATGTAGCATAAAACGGTGCA
1 GGATCCGGAAACCCACCGTCGATCGATGTAGCATAAAACGGTGCA
* *
12850386 GGATCCGGAAAGCCACCGTCGATCGATGTAGCATGAAACGGTGCA
1 GGATCCGGAAACCCACCGTCGATCGATGTAGCATAAAACGGTGCA
12850431 G
1 G
12850432 AGTGCTAAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.24, G:0.30, T:0.16
Consensus pattern (45 bp):
GGATCCGGAAACCCACCGTCGATCGATGTAGCATAAAACGGTGCA
Found at i:12855589 original size:11 final size:12
Alignment explanation
Indices: 12855573--12855614 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
12855563 ATGAGTGCAG
12855573 ATCCAAAA-AAA
1 ATCCAAAACAAA
12855584 ATCCAAAACAAA
1 ATCCAAAACAAA
12855596 AT-CAAAATCAAA
1 ATCCAAAA-CAAA
12855608 AT-CAAAA
1 ATCCAAAA
12855615 TTAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 13 0.45
12 16 0.55
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (12 bp):
ATCCAAAACAAA
Found at i:12855603 original size:6 final size:6
Alignment explanation
Indices: 12855581--12855620 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
12855571 AGATCCAAAA
*
12855581 AAAATCC AAAA-C AAAATC AAAATC AAAATC AAAATT AAAA
1 AAAAT-C AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
12855621 AAAAAAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
5 5 0.16
6 22 0.71
7 4 0.13
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:12855671 original size:45 final size:45
Alignment explanation
Indices: 12855593--12855686 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
12855583 AATCCAAAAC
*
12855593 AAAATCAAAATCAAAATCAAAATTAAAAAAAAAAAAAGA-AAGAGA
1 AAAATCAAAATCAAAATCAAAATGAAAAAAAAAAAAAGATAAG-GA
* ** *
12855638 AAAATCAAAATCAAAGTCAAAATGAAATGAAAAAAGAGATAAGGA
1 AAAATCAAAATCAAAATCAAAATGAAAAAAAAAAAAAGATAAGGA
12855683 AAAA
1 AAAA
12855687 AGGAAAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 40 0.93
46 3 0.07
ACGTcount: A:0.71, C:0.06, G:0.11, T:0.12
Consensus pattern (45 bp):
AAAATCAAAATCAAAATCAAAATGAAAAAAAAAAAAAGATAAGGA
Found at i:12855703 original size:7 final size:8
Alignment explanation
Indices: 12855678--12855702 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
12855668 AAAAAGAGAT
12855678 AAGGAAAA
1 AAGGAAAA
12855686 AAGGAAAA
1 AAGGAAAA
12855694 AAGGAAAA
1 AAGGAAAA
12855702 A
1 A
12855703 GAAAAGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (8 bp):
AAGGAAAA
Found at i:12856493 original size:23 final size:20
Alignment explanation
Indices: 12856467--12856518 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
12856457 AGAAAGGACC
12856467 AATTCAAAAAAAAAGAGATGAAA
1 AATT-AAAAAAAAA-A-ATGAAA
*
12856490 AATTAAAATAAAAAATGAAA
1 AATTAAAAAAAAAAATGAAA
*
12856510 AAGTAAAAA
1 AATTAAAAA
12856519 TGGAGAGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 13 0.50
21 1 0.04
22 8 0.31
23 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (20 bp):
AATTAAAAAAAAAAATGAAA
Found at i:12857963 original size:100 final size:100
Alignment explanation
Indices: 12857789--12858473 Score: 1010
Period size: 100 Copynumber: 6.8 Consensus size: 100
12857779 AATACCAATT
* * * *
12857789 TTACTTCCCAGGCGATGTAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACGT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* * *
12857854 TGCAGTTAAACAGCTTAAAGCTACAACAGCAAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* ** * * *
12857889 CTACTTCCCTGGCGGTCCAGTGGAACAGATTAAAGCCATATCGGTGAATCTGGCTTCCCCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
12857954 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * * *
12857989 TTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACCTCGGTGCATCTTGCTTCCCCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* * *
12858054 TCCTGTTAAAAAGATTAAAGCTACAACAACGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* *
12858089 TTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
*
12858154 TGCAGTTAAAAAGATTAAAGCTACAACAGGGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
** *
12858189 TTACTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
*
12858254 TGCAGTTAAAAAGATTAAAGCTACAACGGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * * * * *
12858289 TTACTTCTCAAGTGATGCAGTAGAACAGATTAAAGCCACATCAGTGAATCTTGCTTTCCTGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
12858354 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * *
12858389 TTACTTCTCAAGCGGTGCAGCGGAACAGATTAACGCCACAACGGTGAATCTTGCTTCCCCGACAT
1 TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
*
12858454 TGCAGTTAAACAGATTAAAG
66 TGCAGTTAAAAAGATTAAAG
12858474 TTACGAGTTA
Statistics
Matches: 525, Mismatches: 60, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 525 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (100 bp):
TTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
Found at i:12859876 original size:23 final size:20
Alignment explanation
Indices: 12859850--12859894 Score: 54
Period size: 23 Copynumber: 2.1 Consensus size: 20
12859840 ATATAGATCC
12859850 TTTTATTTTATTATATGATATTA
1 TTTTATTTT-TT-TATG-TATTA
*
12859873 TTTTATGTTTTTATGTATTA
1 TTTTATTTTTTTATGTATTA
12859893 TT
1 TT
12859895 ACTTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 4 0.19
22 2 0.10
23 8 0.38
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (20 bp):
TTTTATTTTTTTATGTATTA
Found at i:12872662 original size:78 final size:77
Alignment explanation
Indices: 12872533--12872684 Score: 277
Period size: 78 Copynumber: 2.0 Consensus size: 77
12872523 ATTTACACGG
*
12872533 TTTGAAACATGGTCTACGACATGGCCGTGTCTCCCAAAATAGTTTCAAGCACGGTTTAGCACACG
1 TTTGAAACATGGTCTACGACACGGCCGTGTCTCCCAAAATAGTTTCAAGCACGGTTTAGCACACG
12872598 ACCGTGTGACCGA
66 ACC-TGTGACCGA
12872611 TTTGAAACATGGTCTACGACACGGCCGTGTCTCCCAAAATAGTTTCAAGCACGGTTTAGCACACG
1 TTTGAAACATGGTCTACGACACGGCCGTGTCTCCCAAAATAGTTTCAAGCACGGTTTAGCACACG
*
12872676 GCCTGTGAC
66 ACCTGTGAC
12872685 ACGACCATGT
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
77 6 0.08
78 66 0.92
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (77 bp):
TTTGAAACATGGTCTACGACACGGCCGTGTCTCCCAAAATAGTTTCAAGCACGGTTTAGCACACG
ACCTGTGACCGA
Found at i:12879277 original size:8 final size:8
Alignment explanation
Indices: 12879264--12879290 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
12879254 CTATATACTA
12879264 TTTTATAT
1 TTTTATAT
12879272 TTTTATAT
1 TTTTATAT
12879280 TTTTATAT
1 TTTTATAT
12879288 TTT
1 TTT
12879291 CGAGTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTATAT
Found at i:12882164 original size:14 final size:14
Alignment explanation
Indices: 12882145--12882175 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12882135 ATACTAATGC
12882145 TAGCAGTGAAACAA
1 TAGCAGTGAAACAA
*
12882159 TAGCAGTGAAATAA
1 TAGCAGTGAAACAA
12882173 TAG
1 TAG
12882176 ACTAAGTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.10, G:0.23, T:0.19
Consensus pattern (14 bp):
TAGCAGTGAAACAA
Found at i:12886881 original size:21 final size:19
Alignment explanation
Indices: 12886840--12886882 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
12886830 TGATTATATG
* *
12886840 TATTAATTAAAATATACTA
1 TATTAATTAAAATAAAATA
12886859 TATTATATTATAAATAAAATA
1 TATTA-ATTA-AAATAAAATA
12886880 TAT
1 TAT
12886883 AAGGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 4 0.20
21 11 0.55
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TATTAATTAAAATAAAATA
Found at i:12887162 original size:19 final size:19
Alignment explanation
Indices: 12887140--12887178 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12887130 AAATAAAGCT
12887140 AAAGTACAACAACAAAACA
1 AAAGTACAACAACAAAACA
* * *
12887159 AAAGTAGACCAACAAGACA
1 AAAGTACAACAACAAAACA
12887178 A
1 A
12887179 CAACAAAGGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.64, C:0.21, G:0.10, T:0.05
Consensus pattern (19 bp):
AAAGTACAACAACAAAACA
Found at i:12890432 original size:4 final size:4
Alignment explanation
Indices: 12890408--12890460 Score: 54
Period size: 4 Copynumber: 13.2 Consensus size: 4
12890398 AACTTGAGTC
* * * *
12890408 TTTA TTTA CTTA ATTA CTTA TTTA TTTG TTT- TTTA TTTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA
12890456 TTTA T
1 TTTA T
12890461 GTACAAGCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
3 3 0.07
4 35 0.83
5 4 0.10
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:12891120 original size:28 final size:28
Alignment explanation
Indices: 12891080--12891133 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
12891070 TATCCATACT
12891080 ATATGCACATGTTAAGGATGAGAAATTG
1 ATATGCACATGTTAAGGATGAGAAATTG
*
12891108 ATATGCATATGTTAAGGATGAGAAAT
1 ATATGCACATGTTAAGGATGAGAAAT
12891134 CGACTCCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.30
Consensus pattern (28 bp):
ATATGCACATGTTAAGGATGAGAAATTG
Found at i:12892934 original size:26 final size:26
Alignment explanation
Indices: 12892905--12892954 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
12892895 GGGATTTGGG
*
12892905 TGTTTTATT-TTTTATTTTTTCCTTTT
1 TGTTTTATTCTCTT-TTTTTTCCTTTT
*
12892931 TGTTTTCTTCTCTTTTTTTTCCTT
1 TGTTTTATTCTCTTTTTTTTCCTT
12892955 ATGGCCGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (26 bp):
TGTTTTATTCTCTTTTTTTTCCTTTT
Found at i:12900281 original size:14 final size:14
Alignment explanation
Indices: 12900258--12900296 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
12900248 ATATGCGGAA
12900258 ACAT-GAAATTAGG
1 ACATAGAAATTAGG
12900271 ACATAGAAATTAGG
1 ACATAGAAATTAGG
*
12900285 ACAAAGAAATTA
1 ACATAGAAATTA
12900297 TTAAAATGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.54, C:0.08, G:0.18, T:0.21
Consensus pattern (14 bp):
ACATAGAAATTAGG
Found at i:12900455 original size:14 final size:14
Alignment explanation
Indices: 12900436--12900463 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12900426 TAAAGTTATA
12900436 TTTAATAATTCATT
1 TTTAATAATTCATT
12900450 TTTAATAATTCATT
1 TTTAATAATTCATT
12900464 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:12912956 original size:6 final size:6
Alignment explanation
Indices: 12912945--12912974 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
12912935 TTTCCTTTGT
12912945 AGCTTG AGCTTG AGCTTG AGCTTG AGCTTG
1 AGCTTG AGCTTG AGCTTG AGCTTG AGCTTG
12912975 GGCTCTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (6 bp):
AGCTTG
Found at i:12922873 original size:16 final size:16
Alignment explanation
Indices: 12922854--12922884 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12922844 GCATTTTCAG
*
12922854 AAAACCTTGTTTTAGT
1 AAAACCATGTTTTAGT
12922870 AAAACCATGTTTTAG
1 AAAACCATGTTTTAG
12922885 CTAACGGTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (16 bp):
AAAACCATGTTTTAGT
Found at i:12927341 original size:29 final size:27
Alignment explanation
Indices: 12927275--12927341 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
12927265 GAGTTTCACG
* *
12927275 TGTATAATTACACCAAATTAAAGTTTA
1 TGTATAATTACACCAAATCAAAGTTCA
*
12927302 TGTATACAATTACACATTAAATCAAAGTTCA
1 TGTAT--AATTACAC--CAAATCAAAGTTCA
12927333 TGTATAATT
1 TGTATAATT
12927342 TTGAGATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
29 12 0.36
31 16 0.48
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.37
Consensus pattern (27 bp):
TGTATAATTACACCAAATCAAAGTTCA
Found at i:12929195 original size:110 final size:110
Alignment explanation
Indices: 12928960--12929704 Score: 962
Period size: 110 Copynumber: 6.7 Consensus size: 110
12928950 GATACATAAT
** *
12928960 TTCATGTATCGTGATCTT-TCATTTCAATTCATACACTATCGAAGGCTACACCATGAATAT-AAG
1 TTCATGTATCGTGATCTTCT-ATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAAT
*
12929023 ACAAACATATCATGCCATGGGTCTTAACCATATGGTCTTACACACA
65 ACAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * *
12929069 TTCATTTATCGTGATCTTCTATTTCGATTCATACACTATCAAAGGCTACACCATGAATATAAATA
1 TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * * * **
12929134 CAAGCATATCATGCTATAGTTCTTAACCACATGGTCTTACATGCA
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * * *
12929179 TTCATGTATCATGATCTACTGTTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAGTA
1 TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* *
12929244 CAAACATATCATGCCATGGGTCTTAACCACATGGTGTTGCACACA
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * * *
12929289 TTCATTTATCGTGATCTTCCATTTTGATTCATACACTACCAAAGGCTACACCATGAATATAAATA
1 TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
** * * * *
12929354 TGAACATATGATGCTATGGCTCTTAAACACATGGTCTTACACACA
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * * * *
12929399 TTCATGTATTGTGATATACTATTTTGATTCATACACTATCGAAGGCTACACCATAAATATAAAAA
1 TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * *
12929464 CAAACATATCATGACATGGGTTTTAAACACATGGTCTTACACACA
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* *
12929509 TTCATGTATCGTGATCTATC-ATTTCGATTCATACACTATTGAAGGCTACACCATGAATATAAAT
1 TTCATGTATCGTGATCT-TCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAAT
12929573 A-AAGACATATCATGCCATGGGTCTTAATCC-CATGGTCTTACACACA
65 ACAA-ACATATCATGCCATGGGTCTTAA-CCACATGGTCTTACACACA
* * *
12929619 TTCATGTATCGTGATCTGAC-ATTTTGATTCATACATTATTGAATCGAAGGTTACACCATGAATA
1 TTCATGTATCGTGATCT-TCTATTTTGATTCATAC---ACT--ATCGAAGGCTACACCATGAATA
**
12929683 TAAATACAGGCATATCATGCCA
60 TAAATACAAACATATCATGCCA
12929705 ATATGGTTAG
Statistics
Matches: 549, Mismatches: 76, Indels: 16
0.86 0.12 0.02
Matches are distributed among these distances:
109 57 0.10
110 449 0.82
111 2 0.00
113 2 0.00
115 38 0.07
116 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (110 bp):
TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
Found at i:12932078 original size:11 final size:12
Alignment explanation
Indices: 12932064--12932099 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
12932054 TTTTAAATTG
12932064 TTAAATTTAT-A
1 TTAAATTTATAA
12932075 TT-AATTTATAA
1 TTAAATTTATAA
12932086 TTAAATTT-TAA
1 TTAAATTTATAA
12932097 TTA
1 TTA
12932100 TTTTAACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 7 0.30
11 11 0.48
12 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTAAATTTATAA
Found at i:12947937 original size:28 final size:28
Alignment explanation
Indices: 12947887--12947964 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
12947877 TATTTAGATT
*
12947887 TTATTTAGTTTTCTTTT-TCTTTTTC-TTC
1 TTATTT-GTTTTCTTTTAT-TTTTTCATAC
12947915 TTATTTGTATTTCTTTTA-TTTTTCATAC
1 TTATTTGT-TTTCTTTTATTTTTTCATAC
* *
12947943 TTATATGTTTTATTTTATTTTT
1 TTATTTGTTTTCTTTTATTTTT
12947965 ATTTTTAACT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
27 16 0.37
28 27 0.63
ACGTcount: A:0.14, C:0.09, G:0.04, T:0.73
Consensus pattern (28 bp):
TTATTTGTTTTCTTTTATTTTTTCATAC
Found at i:12947958 original size:27 final size:27
Alignment explanation
Indices: 12947901--12947964 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
12947891 TTAGTTTTCT
* * * *
12947901 TTTTCTTTTTCTTCTTATTTGTATTTC
1 TTTTATTTTTCTACTTATATGTATTTA
12947928 TTTTATTTTTCATACTTATATGT-TTTA
1 TTTTATTTTTC-TACTTATATGTATTTA
12947955 TTTTATTTTT
1 TTTTATTTTT
12947965 ATTTTTAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 23 0.72
28 9 0.28
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.73
Consensus pattern (27 bp):
TTTTATTTTTCTACTTATATGTATTTA
Found at i:12950370 original size:49 final size:49
Alignment explanation
Indices: 12950287--12950381 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
12950277 ATCTATTTAT
* *
12950287 AGGTTGAAAAACCTTATTCTAATCAATGTCAAATAGAAGCAGTGTAGTA
1 AGGTTGAAAAACCTTATTCTAATCAATATCAAATAGAAGAAGTGTAGTA
* * *
12950336 AGGTTGAAACACCTTATTCTAATTAATATTAAATAGAAGAAGTGTA
1 AGGTTGAAAAACCTTATTCTAATCAATATCAAATAGAAGAAGTGTA
12950382 CTTCTATATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (49 bp):
AGGTTGAAAAACCTTATTCTAATCAATATCAAATAGAAGAAGTGTAGTA
Found at i:12950950 original size:35 final size:36
Alignment explanation
Indices: 12950910--12950978 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
12950900 ATTTATGAAC
*
12950910 AAATAAAAGGAGCGAATAATATTAAAAAT-TTTACT
1 AAATAAAAGGAACGAATAATATTAAAAATATTTACT
* *
12950945 AAATAAAAGGAATGAATAATGTTAAAAATATTTA
1 AAATAAAAGGAACGAATAATATTAAAAATATTTA
12950979 TTCTCATAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 26 0.87
36 4 0.13
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.29
Consensus pattern (36 bp):
AAATAAAAGGAACGAATAATATTAAAAATATTTACT
Found at i:12957997 original size:26 final size:26
Alignment explanation
Indices: 12957968--12958099 Score: 138
Period size: 26 Copynumber: 5.1 Consensus size: 26
12957958 GCCAACATAC
* **
12957968 CAATATCGCAACAAAACTGCCAGTAA
1 CAATATCGCAGCAAGGCTGCCAGTAA
12957994 CAATATCGCAGCAAGGCTGCCAGTAA
1 CAATATCGCAGCAAGGCTGCCAGTAA
* * *
12958020 CAGTATCACAGTAAGGCTGCCAGTAA
1 CAATATCGCAGCAAGGCTGCCAGTAA
* * **
12958046 TAATATTGCAGCAAGGCTGCCAAAAA
1 CAATATCGCAGCAAGGCTGCCAGTAA
* * * *
12958072 CAGTATCACAACAAAGCTGCCAGTAA
1 CAATATCGCAGCAAGGCTGCCAGTAA
12958098 CA
1 CA
12958100 GTATACTTCC
Statistics
Matches: 85, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 85 1.00
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.17
Consensus pattern (26 bp):
CAATATCGCAGCAAGGCTGCCAGTAA
Found at i:12958062 original size:52 final size:52
Alignment explanation
Indices: 12957971--12958099 Score: 177
Period size: 52 Copynumber: 2.5 Consensus size: 52
12957961 AACATACCAA
* * **
12957971 TATCGCAACAAAACTGCCAGTAACAATATCGCAGCAAGGCTGCCAGTAACAG
1 TATCACAACAAAGCTGCCAGTAACAATATCGCAGCAAGGCTGCCAAAAACAG
** * * *
12958023 TATCACAGTAAGGCTGCCAGTAATAATATTGCAGCAAGGCTGCCAAAAACAG
1 TATCACAACAAAGCTGCCAGTAACAATATCGCAGCAAGGCTGCCAAAAACAG
12958075 TATCACAACAAAGCTGCCAGTAACA
1 TATCACAACAAAGCTGCCAGTAACA
12958100 GTATACTTCC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.17
Consensus pattern (52 bp):
TATCACAACAAAGCTGCCAGTAACAATATCGCAGCAAGGCTGCCAAAAACAG
Found at i:12958100 original size:26 final size:26
Alignment explanation
Indices: 12957984--12958103 Score: 141
Period size: 26 Copynumber: 4.6 Consensus size: 26
12957974 CGCAACAAAA
*
12957984 CTGCCAGTAACAATATCGCAGCAAGG
1 CTGCCAGTAACAGTATCGCAGCAAGG
* *
12958010 CTGCCAGTAACAGTATCACAGTAAGG
1 CTGCCAGTAACAGTATCGCAGCAAGG
* * *
12958036 CTGCCAGTAATAATATTGCAGCAAGG
1 CTGCCAGTAACAGTATCGCAGCAAGG
** * * *
12958062 CTGCCAAAAACAGTATCACAACAAAG
1 CTGCCAGTAACAGTATCGCAGCAAGG
12958088 CTGCCAGTAACAGTAT
1 CTGCCAGTAACAGTAT
12958104 ACTTCCTCCA
Statistics
Matches: 76, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (26 bp):
CTGCCAGTAACAGTATCGCAGCAAGG
Found at i:12965403 original size:26 final size:26
Alignment explanation
Indices: 12965374--12965429 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
12965364 CCAACACACC
12965374 GTATCGCAGCAAAGCTGCCAGTAACA
1 GTATCGCAGCAAAGCTGCCAGTAACA
*
12965400 GTATCGCAGCAAGGCTGCCAGTAACA
1 GTATCGCAGCAAAGCTGCCAGTAACA
12965426 GTAT
1 GTAT
12965430 ACTTCCTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (26 bp):
GTATCGCAGCAAAGCTGCCAGTAACA
Found at i:12970143 original size:117 final size:117
Alignment explanation
Indices: 12969950--12970232 Score: 354
Period size: 117 Copynumber: 2.4 Consensus size: 117
12969940 CTTATTTCCC
* * * * * *
12969950 TGGCATTGTAACAGAGCAGATTGAAGCCACAACAGCGAATCTTATCTCCTTGGCGTTAAGACATG
1 TGGCATTATAGCAGAGCAGATTGAAGCCACAACGGTGAATCTTATCTCCCTGACGTTAAGACATG
* *
12970015 GATTAGCTGAAGTGGAG-TGAATTGAAGCTGTGGGCAGCGAATCCTATCTCTT
66 GATTAGCTGAAGTGGAGCAG-ATTGAAGCTATGGGCAGCGAATCCTATCTCTT
* * * * *
12970067 TGGCATTATAGCAGAGCAGATTGAAGCCACGATGGTGAATCGTATCTCCCTGACGTTAAGGCTTG
1 TGGCATTATAGCAGAGCAGATTGAAGCCACAACGGTGAATCTTATCTCCCTGACGTTAAGACATG
* * *
12970132 GATTAGTTGAAGTGGAGCAGATTGAAGCTATGGGCAGTGAGTCCTATCTCTT
66 GATTAGCTGAAGTGGAGCAGATTGAAGCTATGGGCAGCGAATCCTATCTCTT
* ** * *
12970184 TGGCATTACAGTGGTGCAGATTGAAACCACAACGGTGAATCTTA-CTCCC
1 TGGCATTATAGCAGAGCAGATTGAAGCCACAACGGTGAATCTTATCTCCC
12970233 CTGGCGGTGT
Statistics
Matches: 141, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
116 5 0.04
117 135 0.96
118 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (117 bp):
TGGCATTATAGCAGAGCAGATTGAAGCCACAACGGTGAATCTTATCTCCCTGACGTTAAGACATG
GATTAGCTGAAGTGGAGCAGATTGAAGCTATGGGCAGCGAATCCTATCTCTT
Found at i:12970408 original size:50 final size:49
Alignment explanation
Indices: 12970251--12970724 Score: 186
Period size: 50 Copynumber: 9.5 Consensus size: 49
12970241 GTAGTGGAAC
* * * *
12970251 AGATTGAAGGTACGATGGTGAATCTTGTTTCCCCAACATTACAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTT-TTTCCCCAACATTGCAATTAAAA
** * ** ** * * ** *
12970301 AGATTGAAGCCGCAACGGCG-ATCTTACTCCCCTGGCGA-TGTAGTGGAAT
1 AGATTGAAGCTACGACGGCGAATCTTTTTCCCC-AAC-ATTGCAATTAAAA
12970350 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTT-TTTCCCCAACATTGCAATTAAAA
** * ** ** ** ** * * ** *
12970400 AGATTGAAGCCGCAACGATGAA-CTTACTCCCCTGGCGGTGTAGTGGAAT
1 AGATTGAAGCTACGACGGCGAATCTTTTTCCCC-AACATTGCAATTAAAA
* *
12970449 AGATTGAAGCTACGACGGTGAATCTTATTTCCCCAAAATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTT-TTTCCCCAACATTGCAATTAAAA
** ** ** * * ** *
12970499 AGATTGAAG--ACGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAAT
1 AGATTGAAGCTACG--ACGGCGAATCTTTTTCCCC-AACATTGCAATTAAAA
* *
12970549 TGATTGAAGCTACGACGG-GAAATCTCGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCG-AATCT-TTTTCCCCAACATTGCAATTAAAA
** * ** ** * * * ** *
12970599 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAAC
1 AGATTGAAGCTACGACGGCGAATCTTTTTCCCC-AACATTGCAATTAAAA
* * * *
12970649 AGATTGAAGCTACGACGACGAATCTTGTTTCTCCAATATTGAAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTT-TTTCCCCAACATTGCAATTAAAA
** *
12970699 AGATTGAAGCCGCAACGGCGAATCTT
1 AGATTGAAGCTACGACGGCGAATCTT
12970725 ACTTCCTTGG
Statistics
Matches: 285, Mismatches: 121, Indels: 36
0.64 0.27 0.08
Matches are distributed among these distances:
48 13 0.05
49 68 0.24
50 181 0.64
51 20 0.07
52 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (49 bp):
AGATTGAAGCTACGACGGCGAATCTTTTTCCCCAACATTGCAATTAAAA
Found at i:12970573 original size:100 final size:100
Alignment explanation
Indices: 12970201--12970780 Score: 869
Period size: 100 Copynumber: 5.8 Consensus size: 100
12970191 ACAGTGGTGC
* * * *
12970201 AGATTGAAACCACAACGGTGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGGTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* *
12970266 TGGTGAATCTTGTTTCCCCAACATTACAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* *
12970301 AGATTGAAGCCGCAACGGCG-ATCTTACTCCCCTGGCGATGTAGTGGAATAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
*
12970365 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
** *
12970400 AGATTGAAGCCGCAACGATGAA-CTTACTCCCCTGGCGGTGTAGTGGAATAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* *
12970464 CGGTGAATCTTATTTCCCCAAAATTGCAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* **
12970499 AGATTGAAGACGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAATTGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
*
12970564 CGG-GAAATCTCGTTTCCCCAACATTGCAATTAAAA
66 CGGTG-AATCTTGTTTCCCCAACATTGCAATTAAAA
*
12970599 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
** * * *
12970664 CGACGAATCTTGTTTCTCCAATATTGAAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * * *
12970699 AGATTGAAGCCGCAACGGCGAATCTTACTTCCTTGGCAGTATAGTGGAACAGATTGAAGCTATGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
12970764 CGGTGAATCTTGTTTCC
66 CGGTGAATCTTGTTTCC
12970781 TGACATATCA
Statistics
Matches: 438, Mismatches: 38, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
99 184 0.42
100 253 0.58
101 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (100 bp):
AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
Found at i:12970753 original size:50 final size:49
Alignment explanation
Indices: 12970599--12970758 Score: 135
Period size: 50 Copynumber: 3.2 Consensus size: 49
12970589 GCAATTAAAA
* *
12970599 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAAC
1 AGATTGAAGCCGCAACGGCGAATCTTACT-TCCTGGCAGTATAGTGGAAC
** * * * * * * * ** *
12970649 AGATTGAAGCTACGACGACGAATCTT-GTTTCT-CCAATATTGAAATTAAAA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCTGGCAGTA-T--AGTGGAAC
12970699 AGATTGAAGCCGCAACGGCGAATCTTACTTCCTTGGCAGTATAGTGGAAC
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCC-TGGCAGTATAGTGGAAC
12970749 AGATTGAAGC
1 AGATTGAAGC
12970759 TATGACGGTG
Statistics
Matches: 78, Mismatches: 26, Indels: 12
0.67 0.22 0.10
Matches are distributed among these distances:
47 3 0.04
48 3 0.04
49 1 0.01
50 62 0.79
51 3 0.04
52 2 0.03
53 4 0.05
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (49 bp):
AGATTGAAGCCGCAACGGCGAATCTTACTTCCTGGCAGTATAGTGGAAC
Found at i:12971109 original size:45 final size:45
Alignment explanation
Indices: 12970795--12971147 Score: 196
Period size: 45 Copynumber: 8.0 Consensus size: 45
12970785 ATATCAGTTA
* * *
12970795 AGCAGACTGAATAAA-CAAGTCTTATCCCCCT-AAAGTTGCAGTGG
1 AGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAAA-TTGCAGTGG
* * ** *
12970839 GGCAGACTGAAGATGGCGAA-TCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGACTCAAGAAAGC-AAGTCTTATCTCCCTGAAATTGCAGTGG
* * * * *
12970884 AGCAGATTAAAGCCAA-TAA-TCTTATCTCCCTGAAATTGTAGTGG
1 AGCAGACTCAAG-AAAGCAAGTCTTATCTCCCTGAAATTGCAGTGG
** * * ** * * *
12970928 AGTGGATTAAAGGGA-TAGGTCTTATCTCTCT-AAAGTTGC--TGAG
1 AGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAAA-TTGCAGTG-G
* * * * * * *
12970971 AGCAG-GTC---ATATCAGGTCTTATCACCCTGAAGTTGCAGAGG
1 AGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAAATTGCAGTGG
* * **
12971012 AGCTGACCCAAGAAAGTGAGTCTTATCTCCCTGAAATTGCAGTGG
1 AGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAAATTGCAGTGG
*
12971057 AGCAGACTCAAGAAAGCAAGTCTTATCCCCCTGAAATTGCAGTGG
1 AGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAAATTGCAGTGG
* * * * *
12971102 GGCAGACTGAAG-AAGCAAATCCTATCTCCCT-AAAGTTGTAGTGG
1 AGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAAA-TTGCAGTGG
12971146 AG
1 AG
12971148 TGGATTAGAA
Statistics
Matches: 237, Mismatches: 56, Indels: 32
0.73 0.17 0.10
Matches are distributed among these distances:
39 1 0.00
40 17 0.07
41 7 0.03
42 5 0.02
43 13 0.05
44 85 0.36
45 105 0.44
46 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (45 bp):
AGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAAATTGCAGTGG
Found at i:12999705 original size:10 final size:10
Alignment explanation
Indices: 12999690--12999719 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
12999680 TGTGAACCAT
12999690 TTTTTTTCAA
1 TTTTTTTCAA
12999700 TTTTTTTCAA
1 TTTTTTTCAA
12999710 TTTTTTTCAA
1 TTTTTTTCAA
12999720 ACGTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTTTCAA
Found at i:13001314 original size:27 final size:27
Alignment explanation
Indices: 13001245--13001481 Score: 271
Period size: 27 Copynumber: 8.8 Consensus size: 27
13001235 TCATCTCCTA
** *
13001245 GGGGTATAACAGTCATTTTATCCTAT-
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
13001271 GAGGTATTTCAGACATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
13001298 GGGGTATTTCAGTCATTCTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
13001325 GGGGTATTTCGGTCATTTTACACTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
13001352 GAGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
13001379 GGGGTATTTC-GATCATTTTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* ** * *
13001406 GAGGTATTTTGGTAATTTTACCATATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
13001433 GGGGTATTTCAGTTATTTTATCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
13001460 GGGCTATTTTACTCATTTTACC
1 GGGGTATTTCAGTCATTTTACC
13001482 TATTTTAGGG
Statistics
Matches: 179, Mismatches: 29, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
26 22 0.12
27 156 0.87
28 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:13004904 original size:27 final size:26
Alignment explanation
Indices: 13004874--13005060 Score: 178
Period size: 27 Copynumber: 6.9 Consensus size: 26
13004864 GGTATAACAG
13004874 TCATTTTATCCTATGGGGGTATTTCGA
1 TCATTTTA-CCTATGGGGGTATTTCGA
* * *
13004901 TCATTTTACACTATGTGAGTATTTCGG
1 TCATTTTAC-CTATGGGGGTATTTCGA
* *
13004928 TTATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTA-CCTATGGGGGTATTTCGA
* *
13004955 TCATTTTATCCTATAGGGGTATTTCGG
1 TCATTTTA-CCTATGGGGGTATTTCGA
* *
13004982 TTATTTTACCCTATGGGGTTATTTCGA
1 TCATTTTA-CCTATGGGGGTATTTCGA
* *
13005009 TCATTTTACCTTATGAGGGTATTT-TA
1 TCATTTTACC-TATGGGGGTATTTCGA
* *
13005035 GTCATTTTACCTTATAGGGATATTTC
1 -TCATTTTACC-TATGGGGGTATTTC
13005061 AGTTATTTTA
Statistics
Matches: 130, Mismatches: 25, Indels: 9
0.79 0.15 0.05
Matches are distributed among these distances:
26 4 0.03
27 125 0.96
28 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.19, T:0.45
Consensus pattern (26 bp):
TCATTTTACCTATGGGGGTATTTCGA
Found at i:13005005 original size:81 final size:81
Alignment explanation
Indices: 13004872--13005070 Score: 233
Period size: 81 Copynumber: 2.5 Consensus size: 81
13004862 AGGGTATAAC
* * * * *
13004872 AGTCATTTTATCCTATGGGGGTATTTCGATCATTTTACACTATGTGAGTATTTCGGTTATTCTAC
1 AGTCATTTTATCCTATAGGGGTATTTCGGTTATTTTACACTATGTGAGTATTTCGATCATTCTAC
*
13004937 CCTATGGGGGTATTTCG
66 CCTATGAGGGTATTT-G
* * *
13004954 A-TCATTTTATCCTATAGGGGTATTTCGGTTATTTTACCCTATG-GGGTTATTTCGATCATTTTA
1 AGTCATTTTATCCTATAGGGGTATTTCGGTTATTTTACACTATGTGAG-TATTTCGATCATTCTA
* *
13005017 CCTTATGAGGGTATTTT
65 CCCTATGAGGGTATTTG
* *
13005034 AGTCATTTTA-CCTTATAGGGATATTTCAGTTATTTTA
1 AGTCATTTTATCC-TATAGGGGTATTTCGGTTATTTTA
13005071 GCTATTTTTG
Statistics
Matches: 101, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
80 5 0.05
81 95 0.94
82 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (81 bp):
AGTCATTTTATCCTATAGGGGTATTTCGGTTATTTTACACTATGTGAGTATTTCGATCATTCTAC
CCTATGAGGGTATTTG
Found at i:13005042 original size:54 final size:53
Alignment explanation
Indices: 13004862--13005060 Score: 220
Period size: 54 Copynumber: 3.7 Consensus size: 53
13004852 TTCATCTCCT
** *
13004862 AGGGTATAACAGTCATTTTATCCTATGGGGGTATTTCGATCATTTTACACTATG
1 AGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTAC-CTATG
* * * * *
13004916 TGAGTATTTCGGTTATTCTACCCTATGGGGGTATTTCGATCATTTTATCCTAT-
1 AGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTA-CCTATG
* * *
13004969 AGGGGTATTTCGGTTATTTTACCCTATGGGGTTATTTCGATCATTTTACCTTATG
1 A-GGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACC-TATG
* * * *
13005024 AGGGTATTTTAGTCATTTTACCTTATAGGGATATTTC
1 AGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTC
13005061 AGTTATTTTA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
53 2 0.02
54 119 0.97
55 2 0.02
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.44
Consensus pattern (53 bp):
AGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCTATG
Found at i:13011327 original size:76 final size:78
Alignment explanation
Indices: 13011198--13011340 Score: 209
Period size: 76 Copynumber: 1.9 Consensus size: 78
13011188 TTGGACTTGG
* *
13011198 TTAAAGGTATGAATGTTATATATATGTATATGTGAGTTGGAACATATATGTATATACATGAATAA
1 TTAAAGGTATGAATGTTATATATATGTATATGTAAGTTCGAACATATATGTATATACATGAATAA
13011263 GTCTTGAATATAT
66 GTCTTGAATATAT
* * * * *
13011276 TTAAAGGTATGAATG-T-TATGTATGTATATGTAATTTCGAATATGTATGTATATACATGTATAA
1 TTAAAGGTATGAATGTTATATATATGTATATGTAAGTTCGAACATATATGTATATACATGAATAA
13011339 GT
66 GT
13011341 TTTTGTATTG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
76 42 0.72
77 1 0.02
78 15 0.26
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.41
Consensus pattern (78 bp):
TTAAAGGTATGAATGTTATATATATGTATATGTAAGTTCGAACATATATGTATATACATGAATAA
GTCTTGAATATAT
Found at i:13019374 original size:34 final size:34
Alignment explanation
Indices: 13019299--13019376 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
13019289 GAACAAAACC
* *
13019299 AAATGATGCAAAATGAAACCAGATACGATGTCTA
1 AAATGATGCAAAACGAAACCAAATACGATGTCTA
* * * * *
13019333 CAGTGATGCAATACGAAACCAAATATGATGTTTA
1 AAATGATGCAAAACGAAACCAAATACGATGTCTA
13019367 AAATGATGCA
1 AAATGATGCA
13019377 TGACATGAGT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (34 bp):
AAATGATGCAAAACGAAACCAAATACGATGTCTA
Found at i:13022784 original size:19 final size:19
Alignment explanation
Indices: 13022762--13022826 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
13022752 GCATCTCGCG
13022762 CTGACGTGGACGCGATTTC
1 CTGACGTGGACGCGATTTC
* * * *
13022781 CTGACGCGTACTCTGATATCGC
1 CTGACGTGGACGC-GAT-T-TC
13022803 GCTGACGTGGACGCGATTTC
1 -CTGACGTGGACGCGATTTC
13022823 CTGA
1 CTGA
13022827 AAAAAGGACC
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 14 0.41
20 4 0.12
21 2 0.06
22 4 0.12
23 10 0.29
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (19 bp):
CTGACGTGGACGCGATTTC
Found at i:13024735 original size:20 final size:20
Alignment explanation
Indices: 13024710--13024756 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
13024700 TAGTAGAGAG
13024710 AAATCATGATACGTGTCAAC
1 AAATCATGATACGTGTCAAC
13024730 AAATCATGATACGTGTCAAC
1 AAATCATGATACGTGTCAAC
13024750 AAATCAT
1 AAATCAT
13024757 TGACAAAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.26
Consensus pattern (20 bp):
AAATCATGATACGTGTCAAC
Found at i:13026128 original size:21 final size:21
Alignment explanation
Indices: 13026102--13026141 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
13026092 TGGGAATTTC
13026102 CACACGGGC-AGGCCACACATT
1 CACACGGGCTA-GCCACACATT
13026123 CACACGGGCTAGCCACACA
1 CACACGGGCTAGCCACACA
13026142 CCCATGTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (21 bp):
CACACGGGCTAGCCACACATT
Found at i:13026289 original size:23 final size:24
Alignment explanation
Indices: 13026237--13026289 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
13026227 GTCTATAAAT
* *
13026237 ATCAATTAGAAGAAGATCTAAGGA
1 ATCACTTAGAAGAAGATCTAAGAA
*
13026261 AGCACTTAG-AGAAGAT-TGAAGAA
1 ATCACTTAGAAGAAGATCT-AAGAA
13026284 ATCACT
1 ATCACT
13026290 CGAAGAACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 1 0.04
23 16 0.67
24 7 0.29
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (24 bp):
ATCACTTAGAAGAAGATCTAAGAA
Found at i:13044174 original size:19 final size:18
Alignment explanation
Indices: 13044138--13044177 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13044128 TTTCCACTCG
*
13044138 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
13044156 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
13044175 TTT
1 TTT
13044178 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:13045261 original size:14 final size:15
Alignment explanation
Indices: 13045242--13045279 Score: 69
Period size: 14 Copynumber: 2.6 Consensus size: 15
13045232 CTTCTTCTTC
13045242 TTTTTTTCACGAAAT
1 TTTTTTTCACGAAAT
13045257 TTTTTTTCACG-AAT
1 TTTTTTTCACGAAAT
13045271 TTTTTTTCA
1 TTTTTTTCA
13045280 ACTTGATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.21, C:0.13, G:0.05, T:0.61
Consensus pattern (15 bp):
TTTTTTTCACGAAAT
Found at i:13045339 original size:11 final size:11
Alignment explanation
Indices: 13045323--13045377 Score: 65
Period size: 11 Copynumber: 4.6 Consensus size: 11
13045313 ACTAAATTTT
13045323 TTTTTTTTGAA
1 TTTTTTTTGAA
*
13045334 TTTTTTTTCGATT
1 TTTTTTTT-GA-A
13045347 TTTTTTTTGAAAA
1 TTTTTTTTG--AA
13045360 TTTTTTTTGAA
1 TTTTTTTTGAA
13045371 TTTTTTT
1 TTTTTTT
13045378 CGAAGATGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 17 0.45
12 3 0.08
13 17 0.45
14 1 0.03
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:13045339 original size:12 final size:12
Alignment explanation
Indices: 13045322--13045377 Score: 76
Period size: 12 Copynumber: 4.6 Consensus size: 12
13045312 AACTAAATTT
13045322 TTTTTTTTTGAA
1 TTTTTTTTTGAA
* *
13045334 TTTTTTTTCGAT
1 TTTTTTTTTGAA
13045346 TTTTTTTTTGAAA
1 TTTTTTTTTG-AA
*
13045359 ATTTTTTTTGAA
1 TTTTTTTTTGAA
13045371 TTTTTTT
1 TTTTTTT
13045378 CGAAGATGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
12 27 0.73
13 10 0.27
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:13047815 original size:34 final size:34
Alignment explanation
Indices: 13047772--13047837 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
13047762 AGTAAAATAT
*
13047772 TTTTCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCGTAAAATGATTTACGGGAAAATATTTTAC
*
13047805 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACGGGAAAATATTTT
13047838 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:13057340 original size:29 final size:29
Alignment explanation
Indices: 13057279--13057341 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 29
13057269 TATACATATC
* *
13057279 TTTTTAGTTTATGCATCAATTATTTCGGTA
1 TTTTTAG-TTATGCATCAATCATTTCGCTA
*
13057309 TTTTTAG-TATGCATCCATCATTTCGTCTA
1 TTTTTAGTTATGCATCAATCATTTCG-CTA
13057338 TTTT
1 TTTT
13057342 GATATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 16 0.55
29 6 0.21
30 7 0.24
ACGTcount: A:0.21, C:0.14, G:0.11, T:0.54
Consensus pattern (29 bp):
TTTTTAGTTATGCATCAATCATTTCGCTA
Found at i:13059424 original size:4 final size:4
Alignment explanation
Indices: 13059415--13059451 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
13059405 AAGATGAAGG
*
13059415 TTTA TTTA TTTA TATA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
13059452 AATCAATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:13082514 original size:24 final size:25
Alignment explanation
Indices: 13082425--13082590 Score: 103
Period size: 25 Copynumber: 6.7 Consensus size: 25
13082415 AGCGAGCATG
* **
13082425 TAATCGGGAAGCTCTTTCGAGCCATA
1 TAATCGGGAAGCTCATAAGAGCCA-A
* *
13082451 TAATC-GGAAGCTCATGTA-AGCCACG
1 TAATCGGGAAGCTCAT-AAGAGCCA-A
*
13082476 TAAT-AGGAAGCTCATAAGAG-CAA
1 TAATCGGGAAGCTCATAAGAGCCAA
* **
13082499 TAATCGGGAAGTTCATGCGAGCCAA
1 TAATCGGGAAGCTCATAAGAGCCAA
* * *
13082524 T-ATCGGGTAGCTTC-GAAGAGCCAT
1 TAATCGGGAAGC-TCATAAGAGCCAA
*
13082548 TAATCGGGAAGCTCGTAAGAGCC-A
1 TAATCGGGAAGCTCATAAGAGCCAA
* *
13082572 TAAATTGGGATGCTCATAA
1 T-AATCGGGAAGCTCATAA
13082591 TAGCTAAATA
Statistics
Matches: 109, Mismatches: 22, Indels: 19
0.73 0.15 0.13
Matches are distributed among these distances:
23 4 0.04
24 33 0.30
25 66 0.61
26 6 0.06
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.22
Consensus pattern (25 bp):
TAATCGGGAAGCTCATAAGAGCCAA
Found at i:13082581 original size:25 final size:25
Alignment explanation
Indices: 13082481--13082586 Score: 83
Period size: 24 Copynumber: 4.3 Consensus size: 25
13082471 CCACGTAATA
* *
13082481 GGAAGCTCATAAGAGCAAT-AATCG
1 GGAAGCTCGTAAGAGCCATAAATCG
* * ** *
13082505 GGAAGTTCATGCGAGCCA-ATATCG
1 GGAAGCTCGTAAGAGCCATAAATCG
* *
13082529 GGTAGCTTCG-AAGAGCCATTAATCG
1 GGAAGC-TCGTAAGAGCCATAAATCG
*
13082554 GGAAGCTCGTAAGAGCCATAAATTG
1 GGAAGCTCGTAAGAGCCATAAATCG
*
13082579 GGATGCTC
1 GGAAGCTC
13082587 ATAATAGCTA
Statistics
Matches: 62, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
24 31 0.50
25 31 0.50
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (25 bp):
GGAAGCTCGTAAGAGCCATAAATCG
Found at i:13082673 original size:24 final size:24
Alignment explanation
Indices: 13082622--13082673 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
13082612 GTGAGAGTCA
*
13082622 AATATCAGGAAGCTCAAGAGTGCC
1 AATATCAGGAAGCTCAAGAGAGCC
* * *
13082646 AATATCAGGATGCTCACGAGAGCT
1 AATATCAGGAAGCTCAAGAGAGCC
13082670 AATA
1 AATA
13082674 ATTGGACGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (24 bp):
AATATCAGGAAGCTCAAGAGAGCC
Found at i:13090386 original size:50 final size:49
Alignment explanation
Indices: 13090232--13090417 Score: 150
Period size: 50 Copynumber: 3.8 Consensus size: 49
13090222 ATGTAACGGA
* * * *
13090232 AAGCTCATAGGAGTC-ATAATCGGGAAGCTCATGCGAGCC-AATATTGGG
1 AAGCTCATAAGAGCCAATAATCGGGAAGCTCATGAGAGCCAAATA-TCGG
* * * * * *
13090280 TAGCTC-TGAAGAGCCATTAATCGGGAAGCTCGTAAGAGCCATATGTCGAG
1 AAGCTCAT-AAGAGCCAATAATCGGGAAGCTCATGAGAGCCAAATATCG-G
* *
13090330 ATGCTCATAAGAGCGAAATAA-CGGGAAGCTCATGAGAGCCAAATATCAGG
1 AAGCTCATAAGAGC-CAATAATCGGGAAGCTCATGAGAGCCAAATATC-GG
* *
13090380 AAGCTCA-AGAGAGCCAAT-ATCAGGATGCTCATGAGAGC
1 AAGCTCATA-AGAGCCAATAATCGGGAAGCTCATGAGAGC
13090418 TACTAACAGG
Statistics
Matches: 107, Mismatches: 22, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
47 1 0.01
48 11 0.10
49 42 0.39
50 47 0.44
51 6 0.06
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.19
Consensus pattern (49 bp):
AAGCTCATAAGAGCCAATAATCGGGAAGCTCATGAGAGCCAAATATCGG
Found at i:13090403 original size:24 final size:25
Alignment explanation
Indices: 13090254--13090417 Score: 113
Period size: 25 Copynumber: 6.6 Consensus size: 25
13090244 GTCATAATCG
* **
13090254 GGAAGCTCATGCGAGCC-AATATTG
1 GGAAGCTCATGAGAGCCAAATATCA
* * *
13090278 GGTAGCTC-TGAAGAGCC-ATTAATCG
1 GGAAGCTCATG-AGAGCCAAAT-ATCA
* * * *
13090303 GGAAGCTCGTAAGAGCCATATGTC-
1 GGAAGCTCATGAGAGCCAAATATCA
* * * * *
13090327 GAGATGCTCATAAGAGCGAAATAACG
1 G-GAAGCTCATGAGAGCCAAATATCA
13090353 GGAAGCTCATGAGAGCCAAATATCA
1 GGAAGCTCATGAGAGCCAAATATCA
*
13090378 GGAAGCTCAAGAGAGCC-AATATCA
1 GGAAGCTCATGAGAGCCAAATATCA
*
13090402 GGATGCTCATGAGAGC
1 GGAAGCTCATGAGAGC
13090418 TACTAACAGG
Statistics
Matches: 111, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
23 2 0.02
24 36 0.32
25 70 0.63
26 3 0.03
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (25 bp):
GGAAGCTCATGAGAGCCAAATATCA
Found at i:13090427 original size:24 final size:24
Alignment explanation
Indices: 13090332--13090433 Score: 96
Period size: 24 Copynumber: 4.2 Consensus size: 24
13090322 ATGTCGAGAT
* *
13090332 GCTCATAAGAGCGAAATAACGGGAA
1 GCTCATGAGAGC-AAATAACAGGAA
*
13090357 GCTCATGAGAGCCAAATATCAGGAA
1 GCTCATGAGAG-CAAATAACAGGAA
* * * *
13090382 GCTCAAGAGAGCCAATATCAGGAT
1 GCTCATGAGAGCAAATAACAGGAA
* * *
13090406 GCTCATGAGAGCTACTAACAGGAC
1 GCTCATGAGAGCAAATAACAGGAA
13090430 GCTC
1 GCTC
13090434 TTGTGAGCTA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
24 34 0.52
25 30 0.46
26 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (24 bp):
GCTCATGAGAGCAAATAACAGGAA
Found at i:13092250 original size:25 final size:25
Alignment explanation
Indices: 13092222--13092292 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 25
13092212 TGATTATCTT
13092222 AATATTAAATTTAATTTAATAGATA-
1 AATATTAAATTTAATTTAATA-ATAG
** *
13092247 AATATTCTA-TTAATTTAATATTAG
1 AATATTAAATTTAATTTAATAATAG
*
13092271 AATGATTAAGTTTAATTATAAT
1 AAT-ATTAAATTTAATT-TAAT
13092293 TAAACTCTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
23 2 0.06
24 14 0.39
25 10 0.28
26 6 0.17
27 4 0.11
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (25 bp):
AATATTAAATTTAATTTAATAATAG
Found at i:13098427 original size:29 final size:29
Alignment explanation
Indices: 13098385--13098441 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
13098375 AGCCCGGTGA
* *
13098385 CAAGTGTTATTCGAGTTGTTGGTTCGAAC
1 CAAGTGATATTCGAGTTATTGGTTCGAAC
13098414 CAAGTGATATTCGAGTTATTGGTTCGAA
1 CAAGTGATATTCGAGTTATTGGTTCGAA
13098442 GGCACCATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (29 bp):
CAAGTGATATTCGAGTTATTGGTTCGAAC
Found at i:13109010 original size:24 final size:25
Alignment explanation
Indices: 13108951--13109011 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
13108941 TCCGGGCTTA
*
13108951 ATAACGGGAAGCTCACGAAGAGCCT
1 ATAACGGGTAGCTCACGAAGAGCCT
**
13108976 ATAACATGTAGCTC-CGAAGAGCACT
1 ATAACGGGTAGCTCACGAAGAGC-CT
13109001 -TAACGGGTAGC
1 ATAACGGGTAGC
13109012 ACCAAATAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 17 0.57
25 13 0.43
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.16
Consensus pattern (25 bp):
ATAACGGGTAGCTCACGAAGAGCCT
Found at i:13118655 original size:16 final size:17
Alignment explanation
Indices: 13118634--13118671 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
13118624 TTCTATATGA
*
13118634 ATTTTACT-TTTATTTT
1 ATTTTACTATATATTTT
13118650 ATTTTACTACTATATTTT
1 ATTTTACTA-TATATTTT
13118668 ATTT
1 ATTT
13118672 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTACTATATATTTT
Found at i:13120458 original size:23 final size:22
Alignment explanation
Indices: 13120411--13120456 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
13120401 TGAACTGGAA
13120411 TTCATTGGTATTCAACTTTTTT
1 TTCATTGGTATTCAACTTTTTT
13120433 TTCATTGGTATTCAACTTTTTT
1 TTCATTGGTATTCAACTTTTTT
13120455 TT
1 TT
13120457 TCTGAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.13, G:0.09, T:0.61
Consensus pattern (22 bp):
TTCATTGGTATTCAACTTTTTT
Found at i:13137049 original size:26 final size:27
Alignment explanation
Indices: 13137013--13137065 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
13137003 TTGTCTAGAA
13137013 GGTTTTGATCTTTCAAGAAAAT-GTTT
1 GGTTTTGATCTTTCAAGAAAATAGTTT
*
13137039 GGTTTTGATCTTTCAAGTAAATAGTTT
1 GGTTTTGATCTTTCAAGAAAATAGTTT
13137066 TTCTCTTAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.47
Consensus pattern (27 bp):
GGTTTTGATCTTTCAAGAAAATAGTTT
Found at i:13144569 original size:37 final size:37
Alignment explanation
Indices: 13144514--13144645 Score: 160
Period size: 37 Copynumber: 3.6 Consensus size: 37
13144504 CTTAGTGTCG
* *
13144514 TGGCGTGTTATTGATTGGATTAGCTCTTTTGAGCGAT
1 TGGCGTGTTATTGGTTGGATTAGCTCTTATGAGCGAT
* *
13144551 TGGCGTGTTATTGGTTGGATTATCTCTTATGAGCGTT
1 TGGCGTGTTATTGGTTGGATTAGCTCTTATGAGCGAT
* ** *
13144588 TGGCGTGCTAGCGGGTGGATTAGCAT-TTATGAGCGAT
1 TGGCGTGTTATTGGTTGGATTAGC-TCTTATGAGCGAT
*
13144625 TTGCGTGTT-TTGGTTGGATTA
1 TGGCGTGTTATTGGTTGGATTA
13144646 CTTGTGTACT
Statistics
Matches: 79, Mismatches: 15, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
36 9 0.11
37 69 0.87
38 1 0.01
ACGTcount: A:0.15, C:0.11, G:0.33, T:0.42
Consensus pattern (37 bp):
TGGCGTGTTATTGGTTGGATTAGCTCTTATGAGCGAT
Found at i:13147252 original size:59 final size:61
Alignment explanation
Indices: 13147181--13147297 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 61
13147171 ATCACTGTAA
* * *
13147181 TATTAAATTAATATAATATTTA-T-CAAGATAAATA-TAAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTACTACAAGATAAACATTAA-ATTAAATTTAATATTAAATCT
* *
13147240 TATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTTAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
13147298 GATAATCACT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
59 19 0.39
61 1 0.02
62 26 0.53
63 3 0.06
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:13147336 original size:25 final size:25
Alignment explanation
Indices: 13147282--13147336 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
13147272 AAACATTAAA
*
13147282 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
13147307 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
13147331 TATTAA
1 T-TTAA
13147337 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:13148966 original size:14 final size:15
Alignment explanation
Indices: 13148942--13148970 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13148932 CTATGCATGC
13148942 AAAATATCAAAGACA
1 AAAATATCAAAGACA
13148957 AAAATA-CAAAGACA
1 AAAATATCAAAGACA
13148971 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATATCAAAGACA
Found at i:13153745 original size:43 final size:43
Alignment explanation
Indices: 13153684--13153791 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 43
13153674 CACACCATTT
* * *
13153684 TATGGACAAACTACCAGTAATTGCAGTCAAGTTGCCAGAAATA
1 TATGGACAAACCACCAGTAATTGCAGTCAAGCTACCAGAAATA
* * *
13153727 TATGGACAAGCCACCAGTAATTGCATTCAAGCTACCAGGAATA
1 TATGGACAAACCACCAGTAATTGCAGTCAAGCTACCAGAAATA
*
13153770 TGTGGACAAACCACCAGTAATT
1 TATGGACAAACCACCAGTAATT
13153792 ACAAATAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (43 bp):
TATGGACAAACCACCAGTAATTGCAGTCAAGCTACCAGAAATA
Found at i:13153852 original size:40 final size:40
Alignment explanation
Indices: 13153766--13153880 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 40
13153756 AGCTACCAGG
* * * *
13153766 AATA-TGTGGACAAACCACCAGTAATTACAAATAAATTGAT
1 AATATTGTGGACAAGCCACCAGT-ATTGCAAATAAATAGAC
* * *
13153806 AGTATTGTGGACAAGCCACCAGTATTGCATATAAATAGCC
1 AATATTGTGGACAAGCCACCAGTATTGCAAATAAATAGAC
* *
13153846 AATATTGTGGATAAGCCACCAGTATTGCAGATAAA
1 AATATTGTGGACAAGCCACCAGTATTGCAAATAAA
13153881 CTGTCAGTAC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 47 0.73
41 17 0.27
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (40 bp):
AATATTGTGGACAAGCCACCAGTATTGCAAATAAATAGAC
Found at i:13153871 original size:20 final size:20
Alignment explanation
Indices: 13153806--13153872 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
13153796 ATAAATTGAT
*
13153806 AGTATTGTGGACAAGCCACC
1 AGTATTGTGGATAAGCCACC
*** **
13153826 AGTATTGCATATAA-ATAGCC
1 AGTATTGTGGATAAGCCA-CC
*
13153846 AATATTGTGGATAAGCCACC
1 AGTATTGTGGATAAGCCACC
13153866 AGTATTG
1 AGTATTG
13153873 CAGATAAACT
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (20 bp):
AGTATTGTGGATAAGCCACC
Found at i:13153878 original size:20 final size:20
Alignment explanation
Indices: 13153818--13153879 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
13153808 TATTGTGGAC
*
13153818 AAGCCACCAGTATTGCATAT
1 AAGCCACCAGTATTGCAGAT
** * **
13153838 AA-ATAGCCAATATTGTGGAT
1 AAGCCA-CCAGTATTGCAGAT
13153858 AAGCCACCAGTATTGCAGAT
1 AAGCCACCAGTATTGCAGAT
13153878 AA
1 AA
13153880 ACTGTCAGTA
Statistics
Matches: 29, Mismatches: 11, Indels: 4
0.66 0.25 0.09
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (20 bp):
AAGCCACCAGTATTGCAGAT
Found at i:13157281 original size:3 final size:3
Alignment explanation
Indices: 13157268--13157323 Score: 51
Period size: 3 Copynumber: 18.0 Consensus size: 3
13157258 ATATTTTTGC
* * *
13157268 TAT TAAT TAT TAT TAT TGT TAT TAT TAC TATT TAT TAT TGT TAT TGA-
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T-AT
13157315 TAT TAT TAT
1 TAT TAT TAT
13157324 ATTTGGTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 1 0.02
3 36 0.84
4 6 0.14
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:13157333 original size:28 final size:28
Alignment explanation
Indices: 13157255--13157327 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
13157245 TTAGTCCTGT
* * *
13157255 TTGATATTTTTGCTATTAATTATTATTA
1 TTGATATTATTACTATTTATTATTATTA
* *
13157283 TTGTTATTATTACTATTTATTATTGTTA
1 TTGATATTATTACTATTTATTATTATTA
13157311 TTGATATTATTA-TATTT
1 TTGATATTATTACTATTT
13157328 GGTTATATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 5 0.13
28 34 0.87
ACGTcount: A:0.27, C:0.03, G:0.07, T:0.63
Consensus pattern (28 bp):
TTGATATTATTACTATTTATTATTATTA
Found at i:13157630 original size:4 final size:4
Alignment explanation
Indices: 13157621--13157671 Score: 93
Period size: 4 Copynumber: 12.8 Consensus size: 4
13157611 TATTTTTATT
*
13157621 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAA ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
13157669 ATA
1 ATA
13157672 ATATACCATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:13157672 original size:12 final size:12
Alignment explanation
Indices: 13157625--13157677 Score: 79
Period size: 12 Copynumber: 4.3 Consensus size: 12
13157615 TTTATTATAC
*
13157625 ATACATACATAC
1 ATACATACATAA
*
13157637 ATACATACATAC
1 ATACATACATAA
13157649 ATACATACATAA
1 ATACATACATAA
13157661 ATACATACATAA
1 ATACATACATAA
13157673 TATAC
1 -ATAC
13157678 CATTGATTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
12 35 0.90
13 4 0.10
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (12 bp):
ATACATACATAA
Found at i:13169696 original size:48 final size:45
Alignment explanation
Indices: 13169580--13169706 Score: 130
Period size: 45 Copynumber: 2.8 Consensus size: 45
13169570 AGAGCAGATC
* * *
13169580 ATAGCAAACATTATCTCCCTGAAGTTGCAGTGGAGCTGACTAAAG
1 ATAGCGAACCTTATCTCCCTGAAGTTGCAGTGGAACTGACTAAAG
* * * * *
13169625 ATAGCGAATCTTATTTCGCTGAAGTTGTAGTGGAACTGATTAAAG
1 ATAGCGAACCTTATCTCCCTGAAGTTGCAGTGGAACTGACTAAAG
*
13169670 CTATAAATC-AACCTTATCTCCCTGAAGTTGCAGTGGA
1 --AT--AGCGAACCTTATCTCCCTGAAGTTGCAGTGGA
13169707 GCAGGTTGAA
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
45 37 0.57
47 2 0.03
48 24 0.37
49 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
ATAGCGAACCTTATCTCCCTGAAGTTGCAGTGGAACTGACTAAAG
Found at i:13169776 original size:44 final size:43
Alignment explanation
Indices: 13169728--13169836 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 43
13169718 TTACAAGTCT
* *
13169728 TATCTACCTAAAGTTGCAGTGGAACAAACTGAATAAACCAATCG
1 TATCT-CCTAAAGTTGCAGTGGAACAAACTGAAGAAACCAATCC
* * * * *
13169772 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAACCAATCC
1 TATCT-CCTAAAGTTGCAGTGGAACAAACTGAAGAAACCAATCC
*
13169816 TATCTCCTTAAAGTTGTAGTG
1 TATCTCC-TAAAGTTGCAGTG
13169837 AAGCGGTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 2 0.04
44 51 0.96
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (43 bp):
TATCTCCTAAAGTTGCAGTGGAACAAACTGAAGAAACCAATCC
Found at i:13171458 original size:22 final size:22
Alignment explanation
Indices: 13171404--13171463 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
13171394 ATATTTTTGC
*
13171404 TATTAATTAATTATTATTGTTAT
1 TATT-ATTATTTATTATTGTTAT
*
13171427 TATTACTATTTATTATTGTTAT
1 TATTATTATTTATTATTGTTAT
13171449 TGA-TATTATTATATT
1 T-ATTATTATT-TATT
13171464 TGGTTATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 23 0.72
23 9 0.28
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (22 bp):
TATTATTATTTATTATTGTTAT
Found at i:13171470 original size:28 final size:28
Alignment explanation
Indices: 13171391--13171464 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
13171381 TTAGTCATGT
* * * *
13171391 TTGATATTTTTGCTATTAATTAATTATTA
1 TTGATATTATTACTATTTATT-ATTGTTA
*
13171420 TTGTTATTATTACTATTTATTATTGTTA
1 TTGATATTATTACTATTTATTATTGTTA
13171448 TTGATATTATTA-TATTT
1 TTGATATTATTACTATTT
13171465 GGTTATATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 5 0.13
28 17 0.44
29 17 0.44
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (28 bp):
TTGATATTATTACTATTTATTATTGTTA
Found at i:13181008 original size:14 final size:15
Alignment explanation
Indices: 13180977--13181013 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
13180967 AGTACTTTCA
13180977 ATTTTTTC-TTACTT
1 ATTTTTTCATTACTT
13180991 -TTTTTTCATTA-TT
1 ATTTTTTCATTACTT
13181004 ATTTTTTCAT
1 ATTTTTTCAT
13181014 ATTTTCCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTTTCATTACTT
Found at i:13182638 original size:16 final size:17
Alignment explanation
Indices: 13182603--13182640 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
13182593 AACTCAATTT
* *
13182603 AAAACAATCTTAAACTC
1 AAAATAATCTTAAACCC
13182620 AAAATAATC-TAAACCC
1 AAAATAATCTTAAACCC
13182636 AAAAT
1 AAAAT
13182641 CATCCTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATAATCTTAAACCC
Found at i:13188652 original size:46 final size:46
Alignment explanation
Indices: 13188578--13188687 Score: 141
Period size: 46 Copynumber: 2.4 Consensus size: 46
13188568 AGAAAAGACG
* *
13188578 AATGAACTGTGAAAATTCTCTGCGATGAACAATGAAGATTCCTTGC
1 AATGAACAGTGAAAATTCTCTGCAATGAACAATGAAGATTCCTTGC
* * * * *
13188624 AATGAACAGTGAAGATTCTTTTCAATGAACAATGAGGATTCTTTGC
1 AATGAACAGTGAAAATTCTCTGCAATGAACAATGAAGATTCCTTGC
13188670 AATGAACAGT-AAATATTC
1 AATGAACAGTGAAA-ATTC
13188688 ATTGCAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 2 0.04
46 53 0.96
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (46 bp):
AATGAACAGTGAAAATTCTCTGCAATGAACAATGAAGATTCCTTGC
Found at i:13188687 original size:23 final size:23
Alignment explanation
Indices: 13188578--13188694 Score: 126
Period size: 23 Copynumber: 5.1 Consensus size: 23
13188568 AGAAAAGACG
* * *
13188578 AATGAACTGTGAAAATTCTCTGC
1 AATGAACAGTGAAGATTCTTTGC
* * *
13188601 GATGAACAATGAAGATTCCTTGC
1 AATGAACAGTGAAGATTCTTTGC
*
13188624 AATGAACAGTGAAGATTCTTTTC
1 AATGAACAGTGAAGATTCTTTGC
* *
13188647 AATGAACAATGAGGATTCTTTGC
1 AATGAACAGTGAAGATTCTTTGC
* * *
13188670 AATGAACAGTAAATATTCATTGC
1 AATGAACAGTGAAGATTCTTTGC
13188693 AA
1 AA
13188695 AAAAAATTAC
Statistics
Matches: 76, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 76 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.30
Consensus pattern (23 bp):
AATGAACAGTGAAGATTCTTTGC
Found at i:13198751 original size:15 final size:15
Alignment explanation
Indices: 13198731--13198760 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13198721 AAGTTGGTGC
13198731 ATATATATCAATCGT
1 ATATATATCAATCGT
13198746 ATATATATCAATCGT
1 ATATATATCAATCGT
13198761 GTCCAACTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
ATATATATCAATCGT
Found at i:13200938 original size:42 final size:42
Alignment explanation
Indices: 13200856--13200955 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 42
13200846 GTGCTAAACA
** * ** * *
13200856 AAAACCCATACTGGTTGAACGGAAGCTCGTAGGAGTTGAACG
1 AAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
*
13200898 AAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
1 AAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
* * *
13200940 GAAATCCATTAGGGTT
1 AAAACCCATAAGGGTT
13200956 GAACAGAAAC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (42 bp):
AAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
Found at i:13206487 original size:42 final size:42
Alignment explanation
Indices: 13206420--13206519 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
13206410 GTGCTAAACA
* * ** *
13206420 GAAACCCATAGGGGTTGAACGGAAGCTCGTAGGAGCTGAACG
1 GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
*
13206462 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
* *
13206504 AAAACCCATTAGGGTT
1 GAAACCCATAAGGGTT
13206520 GAATAGAAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.37, C:0.19, G:0.28, T:0.16
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
Found at i:13219680 original size:28 final size:28
Alignment explanation
Indices: 13219595--13219685 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
13219585 CAAATAATAT
13219595 ATAAATTTAAA-AT-TTAAAATAAATTTG-A
1 ATAAA-TTAAAGATGTTAAAAT--ATTTGAA
* * **
13219623 ATAAATTAACGATGTTGAAAAAAGCTGAA
1 ATAAATTAAAGATGTT-AAAATATTTGAA
13219652 ATAAATTAAAGATGTTAAAATATTTGAA
1 ATAAATTAAAGATGTTAAAATATTTGAA
*
13219680 AGAAAT
1 ATAAAT
13219686 AAAATATCTA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
27 4 0.08
28 24 0.48
29 18 0.36
30 4 0.08
ACGTcount: A:0.55, C:0.02, G:0.11, T:0.32
Consensus pattern (28 bp):
ATAAATTAAAGATGTTAAAATATTTGAA
Found at i:13232346 original size:196 final size:196
Alignment explanation
Indices: 13232116--13232505 Score: 744
Period size: 196 Copynumber: 2.0 Consensus size: 196
13232106 AGGTGCTAAA
* *
13232116 CCAAACACCCCAAATCATCCGTAAAGGTGAAGAACGATTATACGTACGGTTTGCATTGATACAGT
1 CCAAACACCCCAAATCATCCGTAAAGGCGAAGAACGATTATACGTACGGTTTGCATCGATACAGT
13232181 GTAAAGAATCTAACTAGTTTGGATTTGTAAAATAGTTATAATTCTAACGATTGGTTTGAACTCAT
66 GTAAAGAATCTAACTAGTTTGGATTTGTAAAATAGTTATAATTCTAACGATTGGTTTGAACTCAT
13232246 AAGTGGGTGTTTGGGGGCTGGTTTAATGGTAAATTTATTGTATTTATATTTAATTTTGGTTTAGA
131 AAGTGGGTGTTTGGGGGCTGGTTTAATGGTAAATTTATTGTATTTATATTTAATTTTGGTTTAGA
13232311 C
196 C
*
13232312 CCAAACACCCCAAATCATCCGTAAAGGCGAAGAACGATTATACGTACGGTTTGTATCGATACAGT
1 CCAAACACCCCAAATCATCCGTAAAGGCGAAGAACGATTATACGTACGGTTTGCATCGATACAGT
13232377 GTAAAGAATCTAACTAGTTTGGATTTGTAAAATAGTTATAATTCTAACGATTGGTTTGAACTCAT
66 GTAAAGAATCTAACTAGTTTGGATTTGTAAAATAGTTATAATTCTAACGATTGGTTTGAACTCAT
*
13232442 AAGTGGGTGTTTTGGGGCTGGTTTAATGGTAAATTTATTGTATTTATATTTAATTTTGGTTTAG
131 AAGTGGGTGTTTGGGGGCTGGTTTAATGGTAAATTTATTGTATTTATATTTAATTTTGGTTTAG
13232506 GTTCGCCTAA
Statistics
Matches: 190, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
196 190 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (196 bp):
CCAAACACCCCAAATCATCCGTAAAGGCGAAGAACGATTATACGTACGGTTTGCATCGATACAGT
GTAAAGAATCTAACTAGTTTGGATTTGTAAAATAGTTATAATTCTAACGATTGGTTTGAACTCAT
AAGTGGGTGTTTGGGGGCTGGTTTAATGGTAAATTTATTGTATTTATATTTAATTTTGGTTTAGA
C
Found at i:13236021 original size:13 final size:13
Alignment explanation
Indices: 13236003--13236074 Score: 65
Period size: 16 Copynumber: 5.0 Consensus size: 13
13235993 CTTTTTCTTA
13236003 TTTATTATTTATT
1 TTTATTATTTATT
13236016 TTTATTATATTTAATT
1 TTTA-T-TATTT-ATT
13236032 ATTTAATTA-TTATT
1 -TTT-ATTATTTATT
13236046 TTTATTATTATATT
1 TTTATTATT-TATT
13236060 TAGTTATTATTTATT
1 T--TTATTATTTATT
13236075 AGGCTTTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
12 4 0.08
13 8 0.16
14 9 0.18
15 11 0.22
16 13 0.26
17 4 0.08
18 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.69
Consensus pattern (13 bp):
TTTATTATTTATT
Found at i:13236023 original size:20 final size:20
Alignment explanation
Indices: 13235994--13236075 Score: 76
Period size: 23 Copynumber: 3.8 Consensus size: 20
13235984 TACCTTTTTC
*
13235994 TTTTTCTTATTTATTATTTA
1 TTTTTATTATTTATTATTTA
13236014 TTTTTATTATATTTAATTATTTAA
1 TTTTTA-T-TATTT-ATTATTT-A
*
13236038 TTATTATT-TTTATTATTATA
1 TTTTTATTATTTATTATT-TA
13236058 TTTAGTTATTATTTATTA
1 TTT--TTATTATTTATTA
13236076 GGCTTTATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
20 14 0.27
21 5 0.10
22 11 0.22
23 15 0.29
24 6 0.12
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (20 bp):
TTTTTATTATTTATTATTTA
Found at i:13236084 original size:25 final size:24
Alignment explanation
Indices: 13236030--13236095 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 24
13236020 TTATATTTAA
**
13236030 TTATTTAATTATTATTTTTATTAT
1 TTATTTAATTATTATTTTTAGGAT
* *
13236054 TATATTTAGTTATTATTTATTAGGCT
1 T-TATTTAATTATTATTT-TTAGGAT
* *
13236080 TTATTTTATTTTTATT
1 TTATTTAATTATTATT
13236096 CTTATTGTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
24 1 0.03
25 27 0.82
26 5 0.15
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.68
Consensus pattern (24 bp):
TTATTTAATTATTATTTTTAGGAT
Found at i:13241592 original size:3 final size:3
Alignment explanation
Indices: 13241584--13241635 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
13241574 ATTCAATCTT
*
13241584 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13241632 TTA T
1 TTA T
13241636 AATAAAATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13242846 original size:6 final size:6
Alignment explanation
Indices: 13242835--13242860 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13242825 CAAAAAAAAA
13242835 CCTCTT CCTCTT CCTCTT CCTCTT CC
1 CCTCTT CCTCTT CCTCTT CCTCTT CC
13242861 AACTTCTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (6 bp):
CCTCTT
Found at i:13243064 original size:143 final size:148
Alignment explanation
Indices: 13242897--13243208 Score: 463
Period size: 143 Copynumber: 2.1 Consensus size: 148
13242887 CACTGGAGAG
* * * *
13242897 AATCTAAACTTTCTCATTTTAAAAAAAAACATTATTTTTCTTAAATATTAAAGCTTTTA-TTT-T
1 AATCTAAACTTTCTCCTTTAAAAAAAAAACATTATTTTTCTTAAAGATTAAAGCTTTTACTTTAA
*
13242960 TAGTT-AAAAAATCAAAACTTTGTTTTAAAAATTTAAATTTTCCTTTAAAATAACTAAAAAA-AT
66 TAGTTAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAATAT
13243023 AGATTTTTATTT-TTCAA
131 AGATTTTTATTTCTTCAA
*
13243040 AATCTAAACTTTCTCCTTTAAAAAAAAAACATTGTTTTTCTTAAAGATTAAAGCTTTTACTTTAA
1 AATCTAAACTTTCTCCTTTAAAAAAAAAACATTATTTTTCTTAAAGATTAAAGCTTTTACTTT-A
* *
13243105 GATAGTTGAAAAAAAAATCAAAACTTTGTTTTAAAATTTTTAACTTTCCTTTAAAATAACTAAAA
65 -ATAGTT---AAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAA
*
13243170 AATATATATTTTTATTTCTTCAA
126 AATATAGATTTTTATTTCTTCAA
13243193 AATCTAAACTTTCTCC
1 AATCTAAACTTTCTCC
13243209 CTTTTTTTTA
Statistics
Matches: 150, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
143 55 0.37
144 3 0.02
147 5 0.03
151 53 0.35
152 13 0.09
153 21 0.14
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (148 bp):
AATCTAAACTTTCTCCTTTAAAAAAAAAACATTATTTTTCTTAAAGATTAAAGCTTTTACTTTAA
TAGTTAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAATAT
AGATTTTTATTTCTTCAA
Found at i:13244221 original size:48 final size:48
Alignment explanation
Indices: 13244163--13244260 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
13244153 TTGTATAGGT
13244163 TTAAGTATTGAATATTGAAAGCACTTATAAGTTCGTTGAGGAACGTTA
1 TTAAGTATTGAATATTGAAAGCACTTATAAGTTCGTTGAGGAACGTTA
13244211 TTAAGTATTGAATATTGAAAGCACTTATAAGTTCGTTGAGGAACGTTA
1 TTAAGTATTGAATATTGAAAGCACTTATAAGTTCGTTGAGGAACGTTA
13244259 TT
1 TT
13244261 TGTGAGAGTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (48 bp):
TTAAGTATTGAATATTGAAAGCACTTATAAGTTCGTTGAGGAACGTTA
Found at i:13254750 original size:18 final size:17
Alignment explanation
Indices: 13254727--13254784 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
13254717 AATATTGTTA
13254727 AAAGAGTTGTAATTTTTT
1 AAAGAGTTGT-ATTTTTT
13254745 AAAGAGATTGGTATTTTTT
1 AAAGAG-TT-GTATTTTTT
* **
13254764 GAAGAGGGGTCATTTTTT
1 AAAGAGTTGT-ATTTTTT
13254782 AAA
1 AAA
13254785 AAGAGTGGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 2 0.06
18 15 0.45
19 14 0.42
20 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (17 bp):
AAAGAGTTGTATTTTTT
Found at i:13255322 original size:23 final size:24
Alignment explanation
Indices: 13255266--13255322 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
13255256 AATAGTGGAT
13255266 TAATTAAATACATTAAGGTTAATTAA
1 TAATTAAA-ACATTAA-GTTAATTAA
13255292 -AATTAAAACA-TAA-TTAATTAA
1 TAATTAAAACATTAAGTTAATTAA
13255313 CTAATTAAAA
1 -TAATTAAAA
13255323 ACTTAATCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 8 0.28
23 11 0.38
24 3 0.10
25 7 0.24
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (24 bp):
TAATTAAAACATTAAGTTAATTAA
Found at i:13259977 original size:21 final size:21
Alignment explanation
Indices: 13259946--13260000 Score: 89
Period size: 20 Copynumber: 2.8 Consensus size: 21
13259936 GGTGAGAAGT
13259946 AAAAG-TTTAGGGGAAAAATA
1 AAAAGTTTTAGGGGAAAAATA
13259966 AAAAGTTTTA-GGGAAAAATA
1 AAAAGTTTTAGGGGAAAAATA
13259986 AAAAGTTTT-GGGGAA
1 AAAAGTTTTAGGGGAA
13260001 TAAAAGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.88
21 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.24
Consensus pattern (21 bp):
AAAAGTTTTAGGGGAAAAATA
Found at i:13259982 original size:19 final size:20
Alignment explanation
Indices: 13259946--13260023 Score: 87
Period size: 20 Copynumber: 4.1 Consensus size: 20
13259936 GGTGAGAAGT
13259946 AAAAG-TTTAGGGGAAAAATA
1 AAAAGTTTTA-GGGAAAAATA
13259966 AAAAGTTTTAGGGAAAAATA
1 AAAAGTTTTAGGGAAAAATA
*
13259986 AAAAGTTTT-GGG--GAAT-
1 AAAAGTTTTAGGGAAAAATA
13260002 AAAAGTTTTGAGGG-AAAATA
1 AAAAGTTTT-AGGGAAAAATA
13260022 AA
1 AA
13260024 TAAGGGGAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
16 9 0.18
17 3 0.06
18 3 0.06
19 6 0.12
20 26 0.51
21 4 0.08
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (20 bp):
AAAAGTTTTAGGGAAAAATA
Found at i:13260007 original size:16 final size:17
Alignment explanation
Indices: 13259986--13260017 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13259976 GGGAAAAATA
13259986 AAAAGTTTTG-GGGAAT
1 AAAAGTTTTGAGGGAAT
13260002 AAAAGTTTTGAGGGAA
1 AAAAGTTTTGAGGGAA
13260018 AATAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (17 bp):
AAAAGTTTTGAGGGAAT
Found at i:13260393 original size:9 final size:9
Alignment explanation
Indices: 13260375--13260411 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
13260365 TATAGTTTGA
*
13260375 TATTCAAAT
1 TATTCGAAT
13260384 TATTCGAAT
1 TATTCGAAT
*
13260393 TATTCGAGT
1 TATTCGAAT
13260402 TATTCGAAT
1 TATTCGAAT
13260411 T
1 T
13260412 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:13261654 original size:489 final size:489
Alignment explanation
Indices: 13260677--13261837 Score: 1271
Period size: 489 Copynumber: 2.3 Consensus size: 489
13260667 CCAACTAAAC
* * *
13260677 AAATTGTATAATTAATTGTACAACCATTGATTCAATTGAATCAATCTATGTAAACACAATATTGA
1 AAATTGTATAATTAA-TGTACAATCATTGATTCAATTGAATC-ATCCATGTAAACACAACATTGA
* * *
13260742 GTATACATGTTTGAAATTCAATATCATATAGCGAAATATCAAAATTTTGGACTACTGATGTTTAA
64 GTATACATGTTTG-AATT--ATATCATATAG-TAAATAT-AAAATTTTGGACCACTTATGTTTAA
* * * *
13260807 TTTTAAATATTTGATCAATTTAAGATTATTTATCAATTATACATTCCTTTAACTACAAACATAAA
124 TTTCAAATATTTGATTAATTTAAGAGTATTTATCAATTATGCATTCCTTTAACTACAAACATAAA
** * * ** *
13260872 TGATTCTTATAGCATTGAACCAATTGAATCAGATTTATATACGAATGTACTAACATTGTGGTGTA
189 TGATGATTATAGCATTAAACCAATTGAATCAGATCTATATACGAACATACTAACAATGTGGTGTA
* * * **
13260937 CAAGTAATTTGAATAACATTGATCAATTTTACATTTCTCTAATACTAACATAACTGAATGGGTTA
254 CAAGTAATGTGAATAACAATGACCAATTTTACATTTCTCTAATACTAACATAACTGAATGACTTA
* * * * * * *
13261002 TTATATTAATTGTACACTCATTAATCTAATTGAATAAATCTATGTATGAAGGTGATGACATTATA
319 TGACATTAATTGTACAATAATTAATCTAATTGAATAAATCTATATATGAAGGTAATAACATTATA
* * * *
13261067 GTGTGTAAGTATGTCTAAAAGTATTTATCAATTGTATATTCCTCTAATTACTAGGAAAATCCAAT
384 GTCTATAAGTATGTCTAAAAGTATTGATCAATTGTATATTCCTCTAATTACTAGGAAAATCCAAC
*
13261132 TAATCATGACATTAACCATACATCCAATGATCCAATTGAAT
449 AAATCATGACATTAACCATACATCCAATGATCCAATTGAAT
* * * * * *
13261173 AAATTGTATAATTAATCGTACAATCATTTATTCAATTGAATTATTCCGTGAAAACATAACATTTA
1 AAATTGTATAATTAAT-GTACAATCATTGATTCAATTGAATCA-TCCATGTAAACACAACATTGA
* * * *
13261238 GTATACATGTTTGAATT-TAACATA-A-TAAAT-TGAAACTTTGGACCAGTTATGTTTAATTTCA
64 GTATACATGTTTGAATTATATCATATAGTAAATATAAAATTTTGGACCACTTATGTTTAATTTCA
* * * ** *
13261299 AATATTTGATTAATTTAAGAGCATTTATCAATTATGCATTCCTTTCACTACTAATTTAATTGAAT
129 AATATTTGATTAATTTAAGAGTATTTATCAATTATGCATTCCTTTAACTACAAACATAAATG-AT
* * *
13261364 GATTATGGCATTAAACCAATTGAAT-TGAGTCTATATTCGAACATACTAACAATGTGGTGTACAA
193 GATTATAGCATTAAACCAATTGAATCAGA-TCTATATACGAACATACTAACAATGTGGTGTACAA
* * * * ** **
13261428 GTAATGTGAA-AAGTAATGACCACTTTTACATTTTTCTAATTTCTAATGTATTTGAATGACTTAT
257 GTAATGTGAATAA-CAATGACCAATTTTACATTTCTCTAA-TACTAACATAACTGAATGACTTAT
* * * * * *
13261492 GACATTACTTGTAGAATAATTCATCTAATTGAATGAATCTATATATGAAGGTAATAACATTGTAT
320 GACATTAATTGTACAATAATTAATCTAATTGAATAAATCTATATATGAAGGTAATAACATTATAG
* * * *
13261557 TCTATAAGTATTTTTAAAAGTATTGATCAATTGTATATTCCTCTAACTT-CTAGTG-TAATCGAA
385 TCTATAAGTATGTCTAAAAGTATTGATCAATTGTATATTCCTCTAA-TTACTAG-GAAAATCCAA
** * *** *
13261620 CAAATTGTGTCATTAATTGTACAAT-CATTGATCCAATTGAAT
448 CAAATCATGACATTAACCATAC-ATCCAATGATCCAATTGAAT
** * * *
13261662 AAATTGTATAATCGAT-TATAATCATTGATCCAATTGAATCGATCCATGTAAACACAACATTGGG
1 AAATTGTATAATTAATGTACAATCATTGATTCAATTGAATC-ATCCATGTAAACACAACATTGAG
* *
13261726 TATACATCTTTAGAACTTAATATCATATAGTGAAATATATCAAATTTTGGACCACCTATGTTTAA
65 TATACATGTTT-GAA-TT-ATATCATATAGT-AAATATA--AAATTTTGGACCACTTATGTTTAA
*
13261791 TTTCAAATATTTGAATAATTTAAGAGTATTTATCAATTATGCATTCC
124 TTTCAAATATTTGATTAATTTAAGAGTATTTATCAATTATGCATTCC
13261838 ACTAACTAGA
Statistics
Matches: 548, Mismatches: 97, Indels: 39
0.80 0.14 0.06
Matches are distributed among these distances:
487 128 0.23
488 88 0.16
489 170 0.31
490 5 0.01
491 7 0.01
492 7 0.01
493 1 0.00
494 4 0.01
495 7 0.01
496 65 0.12
497 66 0.12
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.38
Consensus pattern (489 bp):
AAATTGTATAATTAATGTACAATCATTGATTCAATTGAATCATCCATGTAAACACAACATTGAGT
ATACATGTTTGAATTATATCATATAGTAAATATAAAATTTTGGACCACTTATGTTTAATTTCAAA
TATTTGATTAATTTAAGAGTATTTATCAATTATGCATTCCTTTAACTACAAACATAAATGATGAT
TATAGCATTAAACCAATTGAATCAGATCTATATACGAACATACTAACAATGTGGTGTACAAGTAA
TGTGAATAACAATGACCAATTTTACATTTCTCTAATACTAACATAACTGAATGACTTATGACATT
AATTGTACAATAATTAATCTAATTGAATAAATCTATATATGAAGGTAATAACATTATAGTCTATA
AGTATGTCTAAAAGTATTGATCAATTGTATATTCCTCTAATTACTAGGAAAATCCAACAAATCAT
GACATTAACCATACATCCAATGATCCAATTGAAT
Found at i:13267767 original size:30 final size:30
Alignment explanation
Indices: 13267733--13267806 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
13267723 TCCACTTGAC
* *
13267733 TTAGATAGCCACAGAGGAGTTCGAATATCA
1 TTAGATAGCCACAAAGGAGTCCGAATATCA
* *
13267763 TTAGATAGCCACAAAGGCGTCCGCATATCA
1 TTAGATAGCCACAAAGGAGTCCGAATATCA
*
13267793 TTAGATAACCACAA
1 TTAGATAGCCACAA
13267807 TGATGTCCAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (30 bp):
TTAGATAGCCACAAAGGAGTCCGAATATCA
Found at i:13268020 original size:61 final size:61
Alignment explanation
Indices: 13267924--13268171 Score: 286
Period size: 61 Copynumber: 4.1 Consensus size: 61
13267914 ATTTTGCCAT
* *
13267924 AAAGGCTTCCATATATAACAGATTCTGCCAT-TAGGGCTCACATAAAACAGAGAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCTGCC-TCTAGGGCTCACATAAAACAGAGAACAACCAC
** * * *
13267985 AAAGGCTTTGGCATATAACAGATTCTGCCTCTAGGGTTTACATAAAACAGAAAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCTGCCTCTAGGGCTCACATAAAACAGAGAACAACCAC
* * * * *
13268046 GAAGGCTTCCTCATATAACAAATTC--CACTACTAGGGCTCACATATAACAGAGAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCTGC-CT-CTAGGGCTCACATAAAACAGAGAACAACCAC
* * * * * *
13268107 AAAGGCTTTCACATATAACAGGTTCCGCCACTAGGACTCACACATAACAGAGAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCTGCCTCTAGGGCTCACATAAAACAGAGAACAACCAC
13268168 AAAG
1 AAAG
13268172 TCATCACTTT
Statistics
Matches: 158, Mismatches: 24, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
59 1 0.01
60 3 0.02
61 152 0.96
62 1 0.01
63 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.19
Consensus pattern (61 bp):
AAAGGCTTTCACATATAACAGATTCTGCCTCTAGGGCTCACATAAAACAGAGAACAACCAC
Found at i:13268123 original size:32 final size:31
Alignment explanation
Indices: 13267961--13268127 Score: 92
Period size: 32 Copynumber: 5.4 Consensus size: 31
13267951 CCATTAGGGC
*
13267961 TCACATAAAACAGAGAACAACCACAAAGGCTT
1 TCACATATAACAGA-AACAACCACAAAGGCTT
** ** ** * * *
13267993 TGGCATATAACAGATTCTGCCTC-TAGGGTT
1 TCACATATAACAGAAACAACCACAAAGGCTT
* *
13268023 T-ACATAAAACAGAAAACAACCACGAAGGCTT
1 TCACATATAACAG-AAACAACCACAAAGGCTT
* * * * * * *
13268054 CCTCATATAACA-AATTCCACTACTAGGGC--
1 TCACATATAACAGAA-ACAACCACAAAGGCTT
13268083 TCACATATAACAGAGAACAACCACAAAGGCTT
1 TCACATATAACAGA-AACAACCACAAAGGCTT
13268115 TCACATATAACAG
1 TCACATATAACAG
13268128 GTTCCGCCAC
Statistics
Matches: 93, Mismatches: 34, Indels: 16
0.65 0.24 0.11
Matches are distributed among these distances:
29 19 0.20
30 23 0.25
31 19 0.20
32 32 0.34
ACGTcount: A:0.42, C:0.25, G:0.14, T:0.20
Consensus pattern (31 bp):
TCACATATAACAGAAACAACCACAAAGGCTT
Found at i:13278343 original size:21 final size:21
Alignment explanation
Indices: 13278317--13278359 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13278307 GGTTCGCTGT
*
13278317 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
13278338 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
13278359 A
1 A
13278360 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:13278359 original size:16 final size:16
Alignment explanation
Indices: 13278340--13278372 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13278330 TGTATTGGAT
*
13278340 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
13278356 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
13278372 T
1 T
13278373 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:13278417 original size:45 final size:44
Alignment explanation
Indices: 13278351--13278445 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
13278341 GGATTAGAGG
* *
13278351 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
13278396 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
13278440 TGTAAT
1 TGTAAT
13278446 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:13278628 original size:18 final size:17
Alignment explanation
Indices: 13278607--13278641 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13278597 TTATTATTTA
*
13278607 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13278625 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13278642 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13278635 original size:28 final size:27
Alignment explanation
Indices: 13278565--13278637 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
13278555 TTTATTATCA
*
13278565 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
13278593 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
13278620 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
13278638 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Done.