Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 185 of 211
Found at i:57259981 original size:161 final size:160
Alignment explanation
Indices: 57259702--57260006 Score: 436
Period size: 161 Copynumber: 1.9 Consensus size: 160
57259692 ATAGAAAATT
* * *
57259702 TAACAAAAAGAGATAGAAAAATTTTTAGGATAACAAAAATTGGCAGAGAGGAAACAAAAGGAACA
1 TAACAAAAAGAGACAGAAAAATTTTTAGGATAACAAAAATTAGCAAAGAGGAAACAAAAGGAACA
* * *
57259767 ACAAAAGAGAGAAAAGGTTTACCTAAAGGACGCTCCGATGAAGGGGAGGAGTGCTAGTGGTCGGA
66 ACAAAAGAGAGAAAAGGTTTACCTAAAGGAAGCTACGATGAAGGGGAGGAGTGCTAGTGGTCAGA
57259832 GGCAAAGGAAGCAAACTCTACTTAAATGGG
131 GGCAAAGGAAGCAAACTCTACTTAAATGGG
* *
57259862 TAACAAAAAGA-AGCAGAAAAATTTTTAGGGTAAGAAAAATTAGCAAAGAGGAAAACGAAAA-GA
1 TAACAAAAAGAGA-CAGAAAAATTTTTAGGATAACAAAAATTAGCAAAGAGG-AAAC-AAAAGGA
* * * *
57259925 ACAACGGAAA-AGAGAAAATGTTTACCTGAAGGAAGCTACGATGAAGGGTAGGAGTGCTAGTGGT
63 ACAAC-AAAAGAGAGAAAAGGTTTACCTAAAGGAAGCTACGATGAAGGGGAGGAGTGCTAGTGGT
*
57259989 CAGAGTCAAAGGAAGCAA
127 CAGAGGCAAAGGAAGCAA
57260007 GGGAGTGGTT
Statistics
Matches: 128, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
159 1 0.01
160 44 0.34
161 76 0.59
162 7 0.05
ACGTcount: A:0.47, C:0.11, G:0.27, T:0.15
Consensus pattern (160 bp):
TAACAAAAAGAGACAGAAAAATTTTTAGGATAACAAAAATTAGCAAAGAGGAAACAAAAGGAACA
ACAAAAGAGAGAAAAGGTTTACCTAAAGGAAGCTACGATGAAGGGGAGGAGTGCTAGTGGTCAGA
GGCAAAGGAAGCAAACTCTACTTAAATGGG
Found at i:57262489 original size:18 final size:19
Alignment explanation
Indices: 57262447--57262496 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
57262437 AAATTACAAA
* *
57262447 AAAACTTCAAAATAATTTTT
1 AAAA-TTCAAAATAATCTAT
57262467 AAAATTCAAAAT-ATCTAT
1 AAAATTCAAAATAATCTAT
*
57262485 AAAATTCCAAAT
1 AAAATTCAAAAT
57262497 TTTATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 15 0.56
19 8 0.30
20 4 0.15
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATTCAAAATAATCTAT
Found at i:57262798 original size:26 final size:26
Alignment explanation
Indices: 57262766--57262820 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
57262756 ACTCGATTCA
*
57262766 ACTCGACTCAAATTTCATTTCACTTG
1 ACTCGACTCAAATTTCATTTCACTCG
* *
57262792 ACTCGACTTAAATTTTATTTCACTCG
1 ACTCGACTCAAATTTCATTTCACTCG
57262818 ACT
1 ACT
57262821 AAATTCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.40
Consensus pattern (26 bp):
ACTCGACTCAAATTTCATTTCACTCG
Found at i:57262806 original size:21 final size:20
Alignment explanation
Indices: 57262782--57262825 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
57262772 CTCAAATTTC
*
57262782 ATTTCACTTGACTCGACTTAA
1 ATTTCACTTCACTCGAC-TAA
* *
57262803 ATTTTATTTCACTCGACTAA
1 ATTTCACTTCACTCGACTAA
57262823 ATT
1 ATT
57262826 CAAAAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (20 bp):
ATTTCACTTCACTCGACTAA
Found at i:57263127 original size:25 final size:25
Alignment explanation
Indices: 57263065--57263122 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 25
57263055 GATTTTTTAT
*
57263065 TTTATTTAATATTAATGTAATTATA
1 TTTATTTAATATTAATGTAATTAAA
*
57263090 TTTATTTAATATTAATTTAAATTTAAA
1 TTTATTTAATATTAATGT-AA-TTAAA
57263117 TTTATT
1 TTTATT
57263123 ATATTGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 17 0.59
26 2 0.07
27 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTATTTAATATTAATGTAATTAAA
Found at i:57264351 original size:14 final size:14
Alignment explanation
Indices: 57264325--57264358 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
57264315 ATATACAATA
57264325 AGAAATGAAATAAC
1 AGAAATGAAATAAC
57264339 AGAAA-GAACATAAC
1 AGAAATGAA-ATAAC
57264353 AGAAAT
1 AGAAAT
57264359 ATAACTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.65, C:0.09, G:0.15, T:0.12
Consensus pattern (14 bp):
AGAAATGAAATAAC
Found at i:57271440 original size:20 final size:20
Alignment explanation
Indices: 57271406--57271447 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
57271396 AACTATTCAA
** *
57271406 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
57271426 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
57271446 AT
1 AT
57271448 GTGCATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:57272406 original size:13 final size:13
Alignment explanation
Indices: 57272388--57272415 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57272378 ATACCTGGAG
57272388 ATGTAATGAGCAA
1 ATGTAATGAGCAA
57272401 ATGTAATGAGCAA
1 ATGTAATGAGCAA
57272414 AT
1 AT
57272416 TTTTATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (13 bp):
ATGTAATGAGCAA
Found at i:57296010 original size:41 final size:41
Alignment explanation
Indices: 57295964--57296067 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 41
57295954 ACCGACTTTT
* * *
57295964 AGCCTGCTAGACTTATAGTCTGAAATATATCACCGGAATTA
1 AGCCTGCTAGACATAAAGTCTGAAATATATCACCGGAATCA
* * * * *
57296005 AGCCTGCTAGACGTAAAGTCTGAATTATTTTACCGGCATCA
1 AGCCTGCTAGACATAAAGTCTGAAATATATCACCGGAATCA
57296046 AGCCTGCTAGACATAAAGTCTG
1 AGCCTGCTAGACATAAAGTCTG
57296068 TATTACATTC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCTGAAATATATCACCGGAATCA
Found at i:57304026 original size:41 final size:41
Alignment explanation
Indices: 57303965--57304068 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
57303955 ACCGGCTTTT
* * * *
57303965 AGCCTGCTAGACCTACAGTCTGAAATATATCACTGGCATTA
1 AGCCTGCTAGACATAAAGTCTGAAATATATCACCGGCATCA
* * *
57304006 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACCGGCATCA
1 AGCCTGCTAGACATAAAGTCTGAAATATATCACCGGCATCA
* *
57304047 ATCCTGCTAGAAATAAAGTCTG
1 AGCCTGCTAGACATAAAGTCTG
57304069 TATTACATTC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCTGAAATATATCACCGGCATCA
Found at i:57304566 original size:12 final size:12
Alignment explanation
Indices: 57304549--57304602 Score: 63
Period size: 12 Copynumber: 4.2 Consensus size: 12
57304539 CTCAAAAACT
57304549 TATATATATACA
1 TATATATATACA
*
57304561 TATATATATTCGA
1 TATATATATAC-A
*
57304574 GTATTATACATACA
1 -TA-TATATATACA
57304588 TATATATATACA
1 TATATATATACA
57304600 TAT
1 TAT
57304603 CTTTGTCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 22 0.63
13 3 0.09
14 3 0.09
15 7 0.20
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (12 bp):
TATATATATACA
Found at i:57307168 original size:13 final size:14
Alignment explanation
Indices: 57307144--57307186 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
57307134 GTAATTTTGT
57307144 TTAAGTTATGTTAA
1 TTAAGTTATGTTAA
57307158 TTAAG-TATGTTAA
1 TTAAGTTATGTTAA
57307171 TTAA-TTA-GTTTAA
1 TTAAGTTATG-TTAA
57307184 TTA
1 TTA
57307187 CTAAATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 1 0.04
13 21 0.78
14 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (14 bp):
TTAAGTTATGTTAA
Found at i:57307663 original size:28 final size:28
Alignment explanation
Indices: 57307578--57307668 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
57307568 AAATTAACGC
**
57307578 GCTTATTGTAATTATTTCACACTTCGGT
1 GCTTATTGTAATTATTTTGCACTTCGGT
* * *
57307606 GCTTGTCATTGTAA--AATATGCACTTTGGT
1 GC-T-T-ATTGTAATTATTTTGCACTTCGGT
57307635 GCTTATTGTAATTATTTTGCACTTCGGT
1 GCTTATTGTAATTATTTTGCACTTCGGT
57307663 GCTTAT
1 GCTTAT
57307669 CGTTATTTGC
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
26 7 0.14
27 1 0.02
28 21 0.42
29 13 0.26
30 1 0.02
31 7 0.14
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (28 bp):
GCTTATTGTAATTATTTTGCACTTCGGT
Found at i:57312305 original size:22 final size:22
Alignment explanation
Indices: 57312280--57312322 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
57312270 TATCCAAACA
57312280 ATAACAATAAAAT-AGTAACAAT
1 ATAACAATAAAATGA-TAACAAT
* *
57312302 ATAATAGTAAAATGATAACAA
1 ATAACAATAAAATGATAACAA
57312323 AACAATGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (22 bp):
ATAACAATAAAATGATAACAAT
Found at i:57312319 original size:14 final size:14
Alignment explanation
Indices: 57312281--57312311 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57312271 ATCCAAACAA
*
57312281 TAACAATAAAATAG
1 TAACAATATAATAG
57312295 TAACAATATAATAG
1 TAACAATATAATAG
57312309 TAA
1 TAA
57312312 AATGATAACA
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:0.61, C:0.06, G:0.06, T:0.26
Consensus pattern (14 bp):
TAACAATATAATAG
Found at i:57327124 original size:22 final size:22
Alignment explanation
Indices: 57327099--57327141 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
57327089 TATCCAAACA
57327099 ATAACAATAAAAT-AGTAACAAT
1 ATAACAATAAAATGA-TAACAAT
* *
57327121 ATAATAGTAAAATGATAACAA
1 ATAACAATAAAATGATAACAA
57327142 AACAATGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (22 bp):
ATAACAATAAAATGATAACAAT
Found at i:57327138 original size:14 final size:14
Alignment explanation
Indices: 57327100--57327130 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57327090 ATCCAAACAA
*
57327100 TAACAATAAAATAG
1 TAACAATATAATAG
57327114 TAACAATATAATAG
1 TAACAATATAATAG
57327128 TAA
1 TAA
57327131 AATGATAACA
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:0.61, C:0.06, G:0.06, T:0.26
Consensus pattern (14 bp):
TAACAATATAATAG
Found at i:57347303 original size:6 final size:6
Alignment explanation
Indices: 57347294--57347318 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57347284 TTTTAGATAA
57347294 TCATAT TCATAT TCATAT TCATAT T
1 TCATAT TCATAT TCATAT TCATAT T
57347319 TAATGTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (6 bp):
TCATAT
Found at i:57352921 original size:102 final size:101
Alignment explanation
Indices: 57352745--57353084 Score: 445
Period size: 102 Copynumber: 3.4 Consensus size: 101
57352735 GATGAACACA
* *
57352745 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATAGTCACATGTGTAGTACTAAG
* * *
57352810 TGAAGGCTACAATATGTACTGAGAAGCTTTGGTCACG
66 TGAAGGCTACTATGTGTACCGA-AAGCTTTGGTCACG
* *
57352847 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATAGTCATATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATAGTCACATGTGTAGTACTAAG
*
57352912 TGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCATG
66 TGAAGGCTACTATGTGTACCG-AAAGCTTTGGTCACG
* *
57352949 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA--ACTTGATCACATGTGTAGTACTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGA-TAG-TCACATGTGTAGTACTA
* * * * *
57353011 TGTGAAGGCTACTACGTGAACCGTAAAAC-TTGATCACG
64 AGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGTCACG
* * *
57353049 TGTGTAGTACTATGTGAAGGCCACTATGTGTATCGA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
57353085 ATGATAAAAG
Statistics
Matches: 213, Mismatches: 21, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
99 1 0.00
100 40 0.19
101 44 0.21
102 127 0.60
103 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATAGTCACATGTGTAGTACTAAG
TGAAGGCTACTATGTGTACCGAAAGCTTTGGTCACG
Found at i:57353011 original size:50 final size:50
Alignment explanation
Indices: 57352741--57353074 Score: 339
Period size: 51 Copynumber: 6.6 Consensus size: 50
57352731 TATCGATGAA
* * ***
57352741 CACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * ** * * *
57352792 CACATGTGTAGTACTAAGTGAAGGCTACAATATGTACTG-AGAAGCTTTGGT
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGGT
* * * *** *
57352843 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATAGT
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * *
57352894 CATATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGT
** *
57352945 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
*
57352995 CACATGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
* *
57353045 CACGTGTGTAGTACTATGTGAAGGCCACTA
1 CACATGTGTAGTACTATGTGAAGGCTACTA
57353075 TGTGTATCGA
Statistics
Matches: 232, Mismatches: 44, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
49 4 0.02
50 82 0.35
51 139 0.60
52 6 0.03
53 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (50 bp):
CACATGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
Found at i:57353345 original size:37 final size:38
Alignment explanation
Indices: 57353276--57353348 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
57353266 ATGTGTGAAA
* **
57353276 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
57353314 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
57353349 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:57355269 original size:25 final size:26
Alignment explanation
Indices: 57355187--57355277 Score: 87
Period size: 29 Copynumber: 3.3 Consensus size: 26
57355177 TTTGATTTCA
*
57355187 ATTTATTTTCACAAAT-TTGTTATTCATTT
1 ATTTATTTT-A-AAATGTTCTTATT-A-TT
*
57355216 ATTTATTTTAAACCATGTTCTCATATATT
1 ATTTATTTTAAA--ATGTTCTTAT-TATT
57355245 ATTTATTTTAAAATGTT-TTATTATT
1 ATTTATTTTAAAATGTTCTTATTATT
57355270 ATTTATTT
1 ATTTATTT
57355278 CAAGTTTTCC
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
25 12 0.22
26 3 0.05
27 7 0.13
28 1 0.02
29 25 0.45
30 6 0.11
31 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (26 bp):
ATTTATTTTAAAATGTTCTTATTATT
Found at i:57355360 original size:29 final size:28
Alignment explanation
Indices: 57355328--57355435 Score: 98
Period size: 29 Copynumber: 3.8 Consensus size: 28
57355318 TATTATCCAT
*
57355328 TTTTTATATATATTATTTATTTTGAATTG
1 TTTTT-TACATATTATTTATTTTGAATTG
* *
57355357 TTTTTATACATATCATTTATTTTTTAATCTG
1 TTTTT-TACATATTATTTA-TTTTGAAT-TG
*
57355388 TTTTGT--ATATTATTTA-TTTGAAATT-
1 TTTTTTACATATTATTTATTTTG-AATTG
57355413 TCTTTTTACATATTATTTATTTT
1 T-TTTTTACATATTATTTATTTT
57355436 AAACTTTTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
25 1 0.02
26 8 0.12
27 3 0.05
28 19 0.29
29 20 0.31
30 8 0.12
31 6 0.09
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (28 bp):
TTTTTTACATATTATTTATTTTGAATTG
Found at i:57355364 original size:25 final size:25
Alignment explanation
Indices: 57355336--57355553 Score: 121
Period size: 26 Copynumber: 8.4 Consensus size: 25
57355326 ATTTTTTATA
57355336 TATATTATTTATTTTGAATTGTTTT
1 TATATTATTTATTTTGAATTGTTTT
*
57355361 TATACATATCATTTATTTTTTAATCTGTTTT
1 TAT--AT-T-ATTTA-TTTTGAAT-TGTTTT
*
57355392 GTATATTATTTA-TTTGAAATTTCTTTT
1 -TATATTATTTATTTTG-AA-TTGTTTT
**
57355419 TACATATTATTTATTTT-AA-ACTTTT
1 T--ATATTATTTATTTTGAATTGTTTT
* *
57355444 TATA-TA-TTATTTTAAATTGTCTTC
1 TATATTATTTATTTTGAATTGT-TTT
* * *
57355468 TATGTTATTTATTTTAAATT-TCATTG
1 TATATTATTTATTTTGAATTGT--TTT
57355494 TATATTATTTATTTT-AATTTGTTTT
1 TATATTATTTATTTTGAA-TTGTTTT
* *
57355519 GCATATTA-TTACTTTGAATTG-TTT
1 -TATATTATTTATTTTGAATTGTTTT
*
57355543 TATACTATTTA
1 TATATTATTTA
57355554 CTTCAAATTG
Statistics
Matches: 154, Mismatches: 16, Indels: 47
0.71 0.07 0.22
Matches are distributed among these distances:
21 7 0.05
22 4 0.03
23 9 0.06
24 11 0.07
25 25 0.16
26 42 0.27
27 12 0.08
28 17 0.11
29 9 0.06
30 9 0.06
31 6 0.04
32 3 0.02
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.62
Consensus pattern (25 bp):
TATATTATTTATTTTGAATTGTTTT
Found at i:57355431 original size:56 final size:54
Alignment explanation
Indices: 57355329--57355455 Score: 152
Period size: 57 Copynumber: 2.3 Consensus size: 54
57355319 ATTATCCATT
*
57355329 TTTTATATATATTATTTATTTTGAATTGTTTTTATACATATCATTTATTTTTTAATC
1 TTTT-TATATATTATTTATTTTGAATTGTTTTTATACATATCATTTA--TTTTAAAC
* *
57355386 TGTTTTGTATATTATTTA-TTTGAAATT-TCTTTT-TACATATTATTTATTTTAAAC
1 T-TTTTATATATTATTTATTTTG-AATTGT-TTTTATACATATCATTTATTTTAAAC
57355440 TTTTTATATATTATTT
1 TTTTTATATATTATTT
57355456 TAAATTGTCT
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
53 14 0.22
54 8 0.13
56 17 0.27
57 21 0.33
58 3 0.05
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.64
Consensus pattern (54 bp):
TTTTTATATATTATTTATTTTGAATTGTTTTTATACATATCATTTATTTTAAAC
Found at i:57355552 original size:75 final size:74
Alignment explanation
Indices: 57355393--57355562 Score: 175
Period size: 75 Copynumber: 2.3 Consensus size: 74
57355383 ATCTGTTTTG
* * * *
57355393 TATATTATTTATTTGAAATTTCTTTTTACATATTATTTATTTTAAACTTTTTATATATTATTTTA
1 TATATTATTTATTTCAAATTTCATTGTA-ATATTATTTATTTTAAACTTTTTATATATTACTTTA
57355458 AATTGTCTTC
65 AATTGTCTTC
* * **
57355468 TATGTTATTTATTTTAAATTTCATTGT-ATATTATTTATTTTAATTTGTTTTGCATATTATTACT
1 TATATTATTTATTTCAAATTTCATTGTAATATTATTTATTTTAAACT-TTTT--ATA-TATTACT
*
57355532 TTGAATTGT-TT-
62 TTAAATTGTCTTC
* *
57355543 TATACTATTTACTTCAAATT
1 TATATTATTTATTTCAAATT
57355563 GTTCTATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
73 17 0.22
74 4 0.05
75 39 0.49
76 5 0.06
77 14 0.18
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (74 bp):
TATATTATTTATTTCAAATTTCATTGTAATATTATTTATTTTAAACTTTTTATATATTACTTTAA
ATTGTCTTC
Found at i:57368909 original size:43 final size:43
Alignment explanation
Indices: 57368852--57368937 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
57368842 ATACAAGTGG
*
57368852 GCGAGTTGTATGCCTCAGCATGTTGGTACATCTATTTCAAAGT
1 GCGAGTTGTATGCCTCAGCATGTTGATACATCTATTTCAAAGT
57368895 GCGAGTTGTATGCCTCAGCATGTTGATACATCTATTTCAAAGT
1 GCGAGTTGTATGCCTCAGCATGTTGATACATCTATTTCAAAGT
57368938 AGTGATGATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (43 bp):
GCGAGTTGTATGCCTCAGCATGTTGATACATCTATTTCAAAGT
Found at i:57375129 original size:16 final size:17
Alignment explanation
Indices: 57375110--57375153 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
57375100 TTAATCATAT
*
57375110 TTAAACATA-ATTATTA
1 TTAAACATATATTATAA
*
57375126 TTAAAGATATATTATAA
1 TTAAACATATATTATAA
57375143 TTAAA-ATATAT
1 TTAAACATATAT
57375154 AATTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAACATATATTATAA
Found at i:57375226 original size:61 final size:60
Alignment explanation
Indices: 57375160--57375346 Score: 188
Period size: 61 Copynumber: 3.1 Consensus size: 60
57375150 ATATAATTTA
57375160 ATAAAATTCTTAGTAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTA-TAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
* * * * * * * * *
57375221 GTAAAA-T-ATA-AATTAACATAATTATTAT-TAAATTTA-TTATAATTAAAATATATAAT-TT
1 ATAAAATTCTTATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCATAATATATGATACT
57375279 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATTCTT-ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
57375341 ATAAAA
1 ATAAAA
57375347 GATAATTTGA
Statistics
Matches: 96, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 4 0.04
58 4 0.04
59 29 0.30
60 16 0.17
61 34 0.35
62 5 0.05
63 4 0.04
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (60 bp):
ATAAAATTCTTATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
Found at i:57375285 original size:59 final size:58
Alignment explanation
Indices: 57375116--57375411 Score: 167
Period size: 59 Copynumber: 4.9 Consensus size: 58
57375106 ATATTTAAAC
* *
57375116 ATAATTATTATTAAAGATATATTATAATTAAAATATATAATTTAATAAAATTCTTAGTAATT-A
1 ATAATTATTATT-AA-ATTTATTATAATTAAAATATATGATTTAATAAAA-T-TTA--AATTAA
* * * * * * * *
57375179 AT-ATTCTTATATGAATTTACTCA-AATCATAATATATGATACT-GTAAAATATAAATTAA
1 ATAATTATTAT-TAAATTTA-TTATAATTAAAATATATGAT-TTAATAAAATTTAAATTAA
*
57375237 CATAATTATTATTAAATTTATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
1 -ATAATTATTATTAAATTTATTATAATTAAAATATATGATTTAATAAAA-T-TT-A-AATTAA
* * * * * * ** *
57375299 AT-ATTCTTATATGAATTTACTCA-AATCATAATATATGATACT-ATAAAAGATAATTTGAA
1 ATAATTATTAT-TAAATTTA-TTATAATTAAAATATATGAT-TTAATAAAATTTAAATT-AA
* * *
57375358 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAA
1 ATAATTATTATTAAATTTATTATAATTAAAATATATGATTTAATAAAATTTAAA
57375412 ATAATTATAA
Statistics
Matches: 172, Mismatches: 41, Indels: 44
0.67 0.16 0.17
Matches are distributed among these distances:
57 7 0.04
58 7 0.04
59 62 0.36
60 22 0.13
61 51 0.30
62 16 0.09
63 7 0.04
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (58 bp):
ATAATTATTATTAAATTTATTATAATTAAAATATATGATTTAATAAAATTTAAATTAA
Found at i:57375328 original size:120 final size:121
Alignment explanation
Indices: 57375113--57375407 Score: 486
Period size: 120 Copynumber: 2.4 Consensus size: 121
57375103 ATCATATTTA
*
57375113 AACATAATTATTATTAAAGATATATTATAATTAAAATATATAATTTAATAAAATTCTTAGTAATT
1 AACATAATTATTATT-AA-ATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
* *
57375178 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT-
64 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
*
57375235 AACATAATTATTATTAAATTTATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
57375300 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* * *
57375356 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
57375408 TAAAATAATT
Statistics
Matches: 163, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
120 144 0.88
121 4 0.02
122 15 0.09
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:57375506 original size:47 final size:45
Alignment explanation
Indices: 57375455--57375598 Score: 102
Period size: 47 Copynumber: 3.1 Consensus size: 45
57375445 TTGTATAATT
57375455 TAAAATAATGATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAAT-ATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
57375502 TAAAAT--TCTTGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAATATT-ATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
57375546 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAA-TATTATT-AATATAATTTAATAATAATATATAATTTCA
57375593 TAAAAT
1 TAAAAT
57375599 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 12 0.17
45 12 0.17
46 10 0.14
47 17 0.24
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (45 bp):
TAAAATAATATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:57375517 original size:101 final size:93
Alignment explanation
Indices: 57375348--57375630 Score: 306
Period size: 91 Copynumber: 3.0 Consensus size: 93
57375338 ACTATAAAAG
* * * *
57375348 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATT-TAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTCT--
* *
57375411 AATAATTATAACTAATAAATTATATTATATGAATTTGT
63 --T-A--ATAA-T-ATAAATTTTATTATATGAATTTAT
* * * *
57375449 ATAATTTAAAATAATGATTATTACATATAATTTAATAATAATATATAATTTCATAAAATTCTTGA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAA
*
57375514 T-A-ATAAATTTTCTTATATGAATTTAT
66 TAATATAAATTTTATTATATGAATTTAT
* *
57375540 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAA
* *
57375605 TAATA-AAATGTTCTTATATGAATTTA
66 TAATATAAATTTTATTATATGAATTTA
57375631 CTAAAATCAA
Statistics
Matches: 160, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
91 81 0.51
92 21 0.13
93 1 0.01
94 1 0.01
95 2 0.01
98 1 0.01
100 3 0.02
101 49 0.31
102 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAA
TAATATAAATTTTATTATATGAATTTAT
Found at i:57375518 original size:91 final size:90
Alignment explanation
Indices: 57375423--57375630 Score: 308
Period size: 91 Copynumber: 2.3 Consensus size: 90
57375413 TAATTATAAC
* * * * *
57375423 TAATAAATTATATTATATGAATTTGTATAATTTAAAATAATGATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATGAATATTAAATATAATTTAATAAT
*
57375488 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
*
57375514 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATGAATATTAAATATAATTTAATAAT
*
57375579 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
57375605 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
57375631 CTAAAATCAA
Statistics
Matches: 106, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
91 85 0.80
92 21 0.20
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATGAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:57375590 original size:44 final size:43
Alignment explanation
Indices: 57375448--57375590 Score: 110
Period size: 44 Copynumber: 3.2 Consensus size: 43
57375438 TATGAATTTG
* * *
57375448 TATAATTTAAAATAATGATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
57375492 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
57375539 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
57375583 TATAATTT
1 TATAATTT
57375591 CATAAAATTC
Statistics
Matches: 73, Mismatches: 17, Indels: 18
0.68 0.16 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.44
45 7 0.10
46 7 0.10
47 21 0.29
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:57375605 original size:47 final size:47
Alignment explanation
Indices: 57375473--57375611 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
57375463 TGATTATTAC
* *
57375473 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
57375520 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
57375564 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
57375611 A
1 A
57375612 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:57379648 original size:106 final size:106
Alignment explanation
Indices: 57379463--57379730 Score: 475
Period size: 106 Copynumber: 2.5 Consensus size: 106
57379453 AGAGCAAGTG
*
57379463 AAAGCAGCAACCATGTGATAACTTTTTCAT-TTGTGTTTGGAAAGAAAGGAAGTACAAAAGTAGA
1 AAAGCAGCAACCATGTGATAACTTTTTCATGAT-TGTTTGGAAAGAAAGGAAGTACAAAAGTAGA
57379527 ACACTAAGCTGATTCAGAATATATGTTGGAATGAATCAAAAC
65 ACACTAAGCTGATTCAGAATATATGTTGGAATGAATCAAAAC
*
57379569 AAAGCAGCAACCATGTGATAAATTTTTCATGATTGTTTGGAAAGAAAGGAAGTACAAAAGTAGAA
1 AAAGCAGCAACCATGTGATAACTTTTTCATGATTGTTTGGAAAGAAAGGAAGTACAAAAGTAGAA
* *
57379634 TACTAAGCTGATTCAGAATATATGTTGGAATGAATCGAAAC
66 CACTAAGCTGATTCAGAATATATGTTGGAATGAATCAAAAC
*
57379675 AAAGCAGCAACCATGTAATAACTTTTTCATGATTGTTTGGAAAGAAAGGAAGTACA
1 AAAGCAGCAACCATGTGATAACTTTTTCATGATTGTTTGGAAAGAAAGGAAGTACA
57379731 TCCACAATTG
Statistics
Matches: 155, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
106 154 0.99
107 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (106 bp):
AAAGCAGCAACCATGTGATAACTTTTTCATGATTGTTTGGAAAGAAAGGAAGTACAAAAGTAGAA
CACTAAGCTGATTCAGAATATATGTTGGAATGAATCAAAAC
Found at i:57379662 original size:53 final size:52
Alignment explanation
Indices: 57379499--57379663 Score: 122
Period size: 53 Copynumber: 3.1 Consensus size: 52
57379489 TCATTTGTGT
57379499 TTGGAAAGAAAGGAAGTACAAAAGTAGAACACTAAGCTGATTCAGAATATATG
1 TTGGAAAGAAAGGAAGTACAAAAGTAGAA-ACTAAGCTGATTCAGAATATATG
* ** * * * * * ** ***
57379552 TTGGAATG-AATCAA-AAC-AAAGCAGCAACCATG-TGATAAATTTTTCATGATTG
1 TTGGAAAGAAAGGAAGTACAAAAGTAGAAACTAAGCTGATTCA-GAAT-AT-A-TG
57379604 TTTGGAAAGAAAGGAAGTACAAAAGTAGAATACTAAGCTGATTCAGAATATATG
1 -TTGGAAAGAAAGGAAGTACAAAAGTAGAA-ACTAAGCTGATTCAGAATATATG
57379658 TTGGAA
1 TTGGAA
57379664 TGAATCGAAA
Statistics
Matches: 76, Mismatches: 26, Indels: 20
0.62 0.21 0.16
Matches are distributed among these distances:
48 5 0.07
49 5 0.07
50 9 0.12
51 3 0.04
52 6 0.08
53 20 0.26
54 6 0.08
55 3 0.04
56 9 0.12
57 5 0.07
58 5 0.07
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (52 bp):
TTGGAAAGAAAGGAAGTACAAAAGTAGAAACTAAGCTGATTCAGAATATATG
Found at i:57379715 original size:53 final size:53
Alignment explanation
Indices: 57379552--57379716 Score: 119
Period size: 53 Copynumber: 3.1 Consensus size: 53
57379542 AGAATATATG
* * *
57379552 TTGGAATGAATCAAAACAAAGCAGCAACCATGTGATAAATTTTTCATGATTGT
1 TTGGAATGAATCGAAACAAAGCAGCAACCATGTAATAACTTTTTCATGATTGT
* ** * * ** *
57379605 TTGGAAAGAAAGGAAGTACAAA--AGTAGA--A--TACTAAGCTGATTCA-GAATATAT
1 TTGGAATGAATCGAA--ACAAAGCAGCA-ACCATGTAATAA-CTTTTTCATG-AT-TGT
57379657 GTTGGAATGAATCGAAACAAAGCAGCAACCATGTAATAACTTTTTCATGATTGT
1 -TTGGAATGAATCGAAACAAAGCAGCAACCATGTAATAACTTTTTCATGATTGT
57379711 TTGGAA
1 TTGGAA
57379717 AGAAAGGAAG
Statistics
Matches: 79, Mismatches: 19, Indels: 28
0.63 0.15 0.22
Matches are distributed among these distances:
50 5 0.06
51 12 0.15
52 4 0.05
53 35 0.44
54 4 0.05
55 13 0.16
56 6 0.08
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (53 bp):
TTGGAATGAATCGAAACAAAGCAGCAACCATGTAATAACTTTTTCATGATTGT
Found at i:57380714 original size:21 final size:22
Alignment explanation
Indices: 57380671--57380725 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
57380661 AAGCAGATGG
57380671 AGCCACTGCAAATAAATTATAT
1 AGCCACTGCAAATAAATTATAT
* *
57380693 AGCCACTGCAAA-CAATTGTAT
1 AGCCACTGCAAATAAATTATAT
57380714 AGCCACATGCAA
1 AGCCAC-TGCAA
57380726 TAGGGGGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.42, C:0.24, G:0.13, T:0.22
Consensus pattern (22 bp):
AGCCACTGCAAATAAATTATAT
Found at i:57381407 original size:21 final size:20
Alignment explanation
Indices: 57381383--57381421 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57381373 GAGCATTATA
57381383 ATATTAATATATAATTTTTGC
1 ATATTAAT-TATAATTTTTGC
*
57381404 ATATTAATTTTAATTTTT
1 ATATTAATTATAATTTTT
57381422 AATTAGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
ATATTAATTATAATTTTTGC
Found at i:57386695 original size:7 final size:7
Alignment explanation
Indices: 57386683--57386708 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
57386673 CAATTTAGTC
57386683 CTTAATT
1 CTTAATT
57386690 CTTAATT
1 CTTAATT
57386697 CTTAATT
1 CTTAATT
57386704 CTTAA
1 CTTAA
57386709 AAATTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (7 bp):
CTTAATT
Found at i:57386744 original size:15 final size:16
Alignment explanation
Indices: 57386711--57386750 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
57386701 ATTCTTAAAA
57386711 ATTTAAAATTTTATTTT
1 ATTT-AAATTTTATTTT
57386728 ATTTAAATTTT-TTTT
1 ATTTAAATTTTATTTT
*
57386743 ATTAAAAT
1 ATTTAAAT
57386751 ACATACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.50
16 7 0.32
17 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTAAATTTTATTTT
Found at i:57386846 original size:16 final size:16
Alignment explanation
Indices: 57386804--57386847 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
57386794 GAAATTTATG
57386804 TATTAAAATAATAATCT
1 TATTAAAA-AATAATCT
*
57386821 TA-TAATAAAATAATTT
1 TATTAA-AAAATAATCT
57386837 TATTAAAAAAT
1 TATTAAAAAAT
57386848 CTACAACCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
TATTAAAAAATAATCT
Found at i:57389727 original size:17 final size:17
Alignment explanation
Indices: 57389705--57389739 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
57389695 GGAGTACTAC
57389705 AATAATAAT-ATAATCAT
1 AATAATAATCAT-ATCAT
57389722 AATAATAATCATATCAT
1 AATAATAATCATATCAT
57389739 A
1 A
57389740 GGAATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (17 bp):
AATAATAATCATATCAT
Found at i:57391608 original size:44 final size:44
Alignment explanation
Indices: 57391560--57391960 Score: 326
Period size: 44 Copynumber: 8.9 Consensus size: 44
57391550 GAATTGTTGC
* *
57391560 TTCAATTTGCTCCACTGCAACTTCAGAGAGATAAGATTAGTAGT
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGT
* * * *
57391604 TTCAATCTGCTCCATTGCAACTTTAGGGAGATAAAATGTATAACTCGTAGCT
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGAT--AA-G-AT---TTGTAG-T
* * * *
57391656 TT-AATCTGTTCCACTACAAC-TCTAG-GAAAATAAGATTCGCTA-T
1 TTCAATCTGCTCCACTGCAACTTC-AGAG-AGATAAGATTTG-TAGT
* * * * * *
57391699 CTTCCATCTACTCCACTGCAACTTCAGGGATATAAGATTTGTGGC
1 -TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGT
* ** * *
57391744 TTCAATCTGTTTTACTGTAACTTCAGAGAGATAAGATTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGT
* * *
57391788 TTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGCTTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGT
* *
57391832 TTCAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTAGT
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG-TAGT
* * * * *
57391877 TTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTGTGGCT
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAG-T
* * * *
57391922 TT-AATATACTCCTCTGCAACTTCAGGGAGATAAGATTTG
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG
57391961 CCACGATAAC
Statistics
Matches: 294, Mismatches: 45, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.00
44 180 0.61
45 70 0.24
46 5 0.02
47 3 0.01
48 3 0.01
49 2 0.01
50 2 0.01
51 25 0.09
52 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGT
Found at i:57391822 original size:88 final size:89
Alignment explanation
Indices: 57391553--57392107 Score: 377
Period size: 89 Copynumber: 6.0 Consensus size: 89
57391543 GATATAGGAA
* * * * *
57391553 TTGTTGCTTCAATTTGCTCCACTGCAACTTCAGAGAGATAAGATTAG-TAGTTTCAATCTGCTCC
1 TTGTGGCTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTAGCTTCAATCTGCTCC
* * *
57391617 ATTGCAACTTTAGGGAGATAAAATGTAT
66 ACTGCAACTTCAGGGA-A-ATAA-G-AT
* * * * * * * * * *
57391645 AACTCGTAGCTTTAATCTGTTCCACTACAAC-TCTAG-GAAAATAAGATTCGCTATCTTCCATCT
1 ---TTGTGGCTTCAATCTGCTCTACTGCAACTTC-AGAG-AGATAAGATTTGCTAGCTTCAATCT
* *
57391708 ACTCCACTGCAACTTCAGGGATATAAGAT
61 GCTCCACTGCAACTTCAGGGAAATAAGAT
* * * *
57391737 TTGTGGCTTCAATCTGTTTTACTGTAACTTCAGAGAGATAAGATTTG-TAGCTTCAATCTGCTCT
1 TTGTGGCTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTAGCTTCAATCTGCTCC
* * *
57391801 ACTGCAACTTCAGAGAGATAAGCT
66 ACTGCAACTTCAGGGAAATAAGAT
* * * *
57391825 TTGTAGCTTCAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTAGTTTCAATCTGTTCC
1 TTGTGGCTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTAGCTTCAATCTGCTCC
*
57391890 ACTGCAACTTTAGGGAAATAAGAT
66 ACTGCAACTTCAGGGAAATAAGAT
* * * * *
57391914 TTGTGGCTTTAATATACTCCT-CTGCAACTTCAGGGAGATAAGATTTGCCACGATAACTTCAATC
1 TTGTGGCTTCAATCTGCT-CTACTGCAACTTCAGAGAGATAAGATTTG---C--TAGCTTCAATC
* * ** *
57391978 TG-TCCCATTGTAACTTCAGGGGTATATGATT
60 TGCT-CCACTGCAACTTCAGGGAAATAAGA-T
* * * * * * *
57392009 TGTCGTTTGTAGCTTTAATCTACTCCATTGCAACTTC-GAGGAAATAAGATTCGCTATCTTCAAT
1 T-T-G--TG--GCTTCAATCTGCTCTACTGCAACTTCAGA-GAGATAAGATTTGCTAGCTTCAAT
* * *
57392073 CTGCTCTACTGCAACTTCAGGGAGATAATAT
59 CTGCTCCACTGCAACTTCAGGGAAATAAGAT
57392104 TTGT
1 TTGT
57392108 AACTTGTAGC
Statistics
Matches: 365, Mismatches: 72, Indels: 50
0.75 0.15 0.10
Matches are distributed among these distances:
88 76 0.21
89 105 0.29
90 5 0.01
91 1 0.00
92 3 0.01
93 3 0.01
94 37 0.10
95 38 0.10
96 58 0.16
97 2 0.01
98 1 0.00
99 2 0.01
100 2 0.01
101 32 0.09
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (89 bp):
TTGTGGCTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTAGCTTCAATCTGCTCC
ACTGCAACTTCAGGGAAATAAGAT
Found at i:57391945 original size:177 final size:180
Alignment explanation
Indices: 57391553--57392107 Score: 439
Period size: 177 Copynumber: 3.0 Consensus size: 180
57391543 GATATAGGAA
* * * * *
57391553 TTGTTGCTTCAATTTGCTCCACTGCAACTTCAGAGAGATAAGATTAGTAGTTTCAATCTGCTCCA
1 TTGTGGCTTCAATAT-CTCCTCTGCAACTTCAGAGAGATAAGATTTGTAGCTTCAATCTGCTCCA
* * * * *
57391618 TTGCAACTTTAGGGAGATAAAATGTATAACTCGTAGCTTTAATCTGTTCCACTACAACTCTAGGA
65 CTGCAACTTCAGAGAGAT-AAATGTAT-A-TCGTAGCTTCAATCTGCTCCACTACAACTCTAGGA
* *
57391683 AAATAAGATTCGCTATCTTCCATCTACTCCACTGCAACTTCAGGGATATAAGAT
127 AAATAAGATTCGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGAT
* * ** * *
57391737 TTGTGGCTTCAATCTGTTTTACTGTAACTTCAGAGAGATAAGATTTGTAGCTTCAATCTGCTCTA
1 TTGTGGCTTCAATATCTCCT-CTGCAACTTCAGAGAGATAAGATTTGTAGCTTCAATCTGCTCCA
* * *
57391802 CTGCAACTTCAGAGAGAT-AA-GCT-T-T-GTAGCTTCAATCTGCTCTACTGCAACTTTA-GAGA
65 CTGCAACTTCAGAGAGATAAATG-TATATCGTAGCTTCAATCTGCTCCACTACAACTCTAGGA-A
* * ** *
57391861 GATAAGATTTGCTAGT-TTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGAT
128 AATAAGATTCGCTA-TCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGAT
* * *
57391914 TTGTGGCTTTAATATACTCCTCTGCAACTTCAGGGAGATAAGATTTGCCACGATAACTTCAATCT
1 TTGTGGCTTCAATAT-CTCCTCTGCAACTTCAGAGAGATAAGATTT-----G-TAGCTTCAATCT
* * * * * * * * * *
57391979 G-TCCCATTGTAACTTCAG-GGGTATATGATTTGTCGT-TTGTAGCTTTAATCTACTCCATTGCA
59 GCT-CCACTGCAACTTCAGAGAG-ATA--A-ATGT-ATATCGTAGCTTCAATCTGCTCCACTACA
* * * * *
57392041 ACTTCGAGG-AAATAAGATTCGCTATCTTCAATCTGCTCTACTGCAACTTCAGGGAGATAATAT
118 AC-TCTAGGAAAATAAGATTCGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGAT
57392104 TTGT
1 TTGT
57392108 AACTTGTAGC
Statistics
Matches: 296, Mismatches: 51, Indels: 42
0.76 0.13 0.11
Matches are distributed among these distances:
176 2 0.01
177 106 0.36
178 4 0.01
181 2 0.01
182 7 0.02
183 27 0.09
184 68 0.23
186 1 0.00
187 1 0.00
188 1 0.00
189 3 0.01
190 71 0.24
191 2 0.01
192 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (180 bp):
TTGTGGCTTCAATATCTCCTCTGCAACTTCAGAGAGATAAGATTTGTAGCTTCAATCTGCTCCAC
TGCAACTTCAGAGAGATAAATGTATATCGTAGCTTCAATCTGCTCCACTACAACTCTAGGAAAAT
AAGATTCGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGAT
Found at i:57392160 original size:21 final size:21
Alignment explanation
Indices: 57392117--57392161 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
57392107 TAACTTGTAG
*
57392117 CTTTAATCTGTTCCACTATAA
1 CTTTAATCTGTTCCACTACAA
*
57392138 CTTTAATCTGTTCCACTGCAA
1 CTTTAATCTGTTCCACTACAA
57392159 CTT
1 CTT
57392162 CAGGGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.27, G:0.07, T:0.42
Consensus pattern (21 bp):
CTTTAATCTGTTCCACTACAA
Found at i:57392272 original size:102 final size:102
Alignment explanation
Indices: 57392138--57392324 Score: 286
Period size: 102 Copynumber: 1.8 Consensus size: 102
57392128 TCCACTATAA
* * * *
57392138 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCATCTTCAATCTGCTCCACTACAA
1 CTTTAATATGTTCCACTGCAACTTCAGAGAAATAAGATTCGCATATTCAATCTGCTCCACTACAA
57392203 CT-TCAGGAAGATAAGATTTGAGATTTATAACTTGTAG
66 CTCT-AGGAAGATAAGATTTGAGATTTATAACTTGTAG
* * *
57392240 CTTTAATATGTTCCATTGCAACTTTAGAGAAATAAGATTCGCATATTCAATCTGCTCCACTGCAA
1 CTTTAATATGTTCCACTGCAACTTCAGAGAAATAAGATTCGCATATTCAATCTGCTCCACTACAA
*
57392305 CTCTAGGGAGATAAGATTTG
66 CTCTAGGAAGATAAGATTTG
57392325 TGGCTTTAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
102 75 0.99
103 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (102 bp):
CTTTAATATGTTCCACTGCAACTTCAGAGAAATAAGATTCGCATATTCAATCTGCTCCACTACAA
CTCTAGGAAGATAAGATTTGAGATTTATAACTTGTAG
Found at i:57395799 original size:28 final size:28
Alignment explanation
Indices: 57395768--57395821 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
57395758 CCCGAAGGTA
*
57395768 CATTTTACTAAATTGAGCTTTAGTTGTT
1 CATTTTACTAAATTGAACTTTAGTTGTT
* **
57395796 CATTTTGCTGGATTGAACTTTAGTTG
1 CATTTTACTAAATTGAACTTTAGTTG
57395822 AAATTTTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.22, C:0.11, G:0.19, T:0.48
Consensus pattern (28 bp):
CATTTTACTAAATTGAACTTTAGTTGTT
Found at i:57401162 original size:17 final size:17
Alignment explanation
Indices: 57401140--57401174 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
57401130 GGAGTACTAC
57401140 AATAATAAT-ATAATCAT
1 AATAATAATCAT-ATCAT
57401157 AATAATAATCATATCAT
1 AATAATAATCATATCAT
57401174 A
1 A
57401175 GGAATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (17 bp):
AATAATAATCATATCAT
Found at i:57401358 original size:3 final size:3
Alignment explanation
Indices: 57401352--57401396 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
57401342 TATATTGATG
*
57401352 ATA ATA A-A ATA ATA ATAA ATA A-A ATA ATA CTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
57401396 A
1 A
57401397 AGGCAAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.81
4 3 0.08
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:57401504 original size:4 final size:4
Alignment explanation
Indices: 57401495--57401535 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
57401485 AACTAAGTAC
57401495 ATAA ATAA ATAA ATAA ATAAA ATAA A-ATA A-AA ATAA ATAA A
1 ATAA ATAA ATAA ATAA AT-AA ATAA ATA-A ATAA ATAA ATAA A
57401536 CTAGGAAGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 3 0.09
4 27 0.79
5 4 0.12
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:57402985 original size:48 final size:48
Alignment explanation
Indices: 57402894--57402985 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
57402884 TTGGGGAGAG
* * * *
57402894 TAAAAGTTTTGGGGAGAAAGTAAAAGGAAAAAGGTTTTGAAGAGGAAA
1 TAAAAGCTTTGGGAAGAAAGAAAAAGGAAAAAAGTTTTGAAGAGGAAA
57402942 TAAAAGCTTTGGGAAGAAAGAAAAAGGAAAAAAAGTTTT-AAGAG
1 TAAAAGCTTTGGGAAGAAAGAAAAAGG-AAAAAAGTTTTGAAGAG
57402986 TTTGGGGAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 29 0.74
49 10 0.26
ACGTcount: A:0.51, C:0.01, G:0.28, T:0.20
Consensus pattern (48 bp):
TAAAAGCTTTGGGAAGAAAGAAAAAGGAAAAAAGTTTTGAAGAGGAAA
Found at i:57406582 original size:31 final size:30
Alignment explanation
Indices: 57406540--57406635 Score: 104
Period size: 31 Copynumber: 3.2 Consensus size: 30
57406530 TTAGATCTTA
* * *
57406540 AACTTGGTAATTGTTCTTACATTAGGCCCTC
1 AACTTGATAATTATTCTCACATTAGG-CCTC
* *
57406571 AACTTGATAATTATTCTCACATTGAGGCTTG
1 AACTTGATAATTATTCTCACATT-AGGCCTC
* *
57406602 AACTTGATAATTATTCTCACACTAGGGC-C
1 AACTTGATAATTATTCTCACATTAGGCCTC
57406631 AACTT
1 AACTT
57406636 TAGGATTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
29 5 0.09
30 3 0.05
31 44 0.80
32 3 0.05
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (30 bp):
AACTTGATAATTATTCTCACATTAGGCCTC
Found at i:57419065 original size:71 final size:71
Alignment explanation
Indices: 57418972--57419116 Score: 182
Period size: 71 Copynumber: 2.0 Consensus size: 71
57418962 TATTCTTCTA
* * * * * *
57418972 ATTTTGGTCACCTGCTAGTAATTTATTATTATTGCATACCCATTTTAGTCACTCAATTTTAATAA
1 ATTTTAGTCAACTGCTAGTAATTTAGTATTATTGCATACCCATTTTAATCACACAACTTTAATAA
57419037 AATTTT
66 AATTTT
* * * * *
57419043 ATTTTAGTCAACTGCTAGTAATTTAGTGTTATTGTATGCTCATTTTAATCAGACAACTTTAATAA
1 ATTTTAGTCAACTGCTAGTAATTTAGTATTATTGCATACCCATTTTAATCACACAACTTTAATAA
*
57419108 ATTTTT
66 AATTTT
57419114 ATT
1 ATT
57419117 CTGGTAATTT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (71 bp):
ATTTTAGTCAACTGCTAGTAATTTAGTATTATTGCATACCCATTTTAATCACACAACTTTAATAA
AATTTT
Found at i:57425506 original size:3 final size:3
Alignment explanation
Indices: 57425451--57425487 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
57425441 CTGTTGGTAC
* *
57425451 TAT TAT TAT TGT TAT CAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
57425488 TGATACAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:57429993 original size:51 final size:50
Alignment explanation
Indices: 57429877--57430200 Score: 416
Period size: 51 Copynumber: 6.3 Consensus size: 50
57429867 CTTACGTATG
* * * *
57429877 ATCACTTATCACTTGTCCCTGATTAGATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAACTACCACTT
* *
57429927 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCT-AAACTACCACTT
* * *
57429978 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCT-AAACTACCACTT
57430029 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAGA-TACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAA-ACTACCACTT
*
57430079 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAA-CT---AC----CACTT
* *
57430137 ATCACTTGTTACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAA-CTACCACTT
*
57430188 ATCACTTATCACT
1 ATCACTTGTCACT
57430201 GATCAGAAGT
Statistics
Matches: 247, Mismatches: 16, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
49 1 0.00
50 82 0.33
51 114 0.46
54 2 0.01
55 2 0.01
58 46 0.19
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (50 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAACTACCACTT
Found at i:57430057 original size:152 final size:156
Alignment explanation
Indices: 57429877--57430200 Score: 485
Period size: 152 Copynumber: 2.1 Consensus size: 156
57429867 CTTACGTATG
* * * *
57429877 ATCACTTATCACTTGTCCCTGATTAGATAAGTGTAGCTAAGCTACCACTTATCACTTGCCACTTG
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGATACCACTTATCACTTACCACTTG
*
57429942 TCACTGATCAGATAAGTGTAGCT-G-A-AAC-TATCACTTATCACTTGCCACTTGTCACTGATCA
66 TCACTGATCAGATAAGTGTAGCTAGCACAACTTATCACTTATCACTTGCCACTTGTCACTAATCA
* *
57430003 GATAAGTGTAGCTGAAGCTATCACTT
131 GATAAGTGTAGCTAAAGCTACCACTT
* *
57430029 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAGATACCACTTATCACTTATCACTTG
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGATACCACTTATCACTTACCACTTG
* **
57430094 TCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTGTTACTTGTCACTAA
66 TCACTGATCAGATAAGTGTAGCT--AGC-ACAACTTATCACTTATCACTTGCCACTTGTCACTAA
57430159 TCAGATAAGTGTAGCTAAAGCTACCACTT
128 TCAGATAAGTGTAGCTAAAGCTACCACTT
57430188 ATCACTTATCACT
1 ATCACTTATCACT
57430201 GATCAGAAGT
Statistics
Matches: 152, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
152 82 0.54
155 1 0.01
157 1 0.01
158 2 0.01
159 66 0.43
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (156 bp):
ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGATACCACTTATCACTTACCACTTG
TCACTGATCAGATAAGTGTAGCTAGCACAACTTATCACTTATCACTTGCCACTTGTCACTAATCA
GATAAGTGTAGCTAAAGCTACCACTT
Found at i:57430078 original size:101 final size:101
Alignment explanation
Indices: 57429877--57430200 Score: 445
Period size: 101 Copynumber: 3.1 Consensus size: 101
57429867 CTTACGTATG
* * * *
57429877 ATCACTTATCACTTGTCCCTGATTAGATAAGTGTAGCTAAGCTACCACTTATCACTTGCCACTTG
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTATCACTTATCACTTGTCACTTG
* *
57429942 TCACTGATCAGATAAGTGTAGCTGAAA-CTATCACTT
66 TCACTGATCAGATAAGTGTAGCT-AAAGATACCACTT
**
57429978 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGTCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTATCACTTATCACTTGTCACTT
57430043 GTCACTGATCAGATAAGTGTAGCT-AAGATACCACTT
65 GTCACTGATCAGATAAGTGTAGCTAAAGATACCACTT
57430079 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAG------C-TATCACTTATCACTT
* * *
57430144 GTTACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTT
58 GTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGATACCACTT
57430188 ATCACTTATCACT
1 ATCACTTATCACT
57430201 GATCAGAAGT
Statistics
Matches: 199, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
100 2 0.01
101 80 0.40
102 48 0.24
107 1 0.01
108 44 0.22
109 24 0.12
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (101 bp):
ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTATCACTTATCACTTGTCACTTG
TCACTGATCAGATAAGTGTAGCTAAAGATACCACTT
Found at i:57432171 original size:10 final size:10
Alignment explanation
Indices: 57432156--57432187 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
57432146 TTAACACTCC
57432156 ATAAATATTT
1 ATAAATATTT
57432166 ATAAATATTT
1 ATAAATATTT
57432176 ATAAATATTT
1 ATAAATATTT
57432186 AT
1 AT
57432188 GGCTCGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATAAATATTT
Found at i:57433867 original size:24 final size:24
Alignment explanation
Indices: 57433835--57433881 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
57433825 TTCCATTACT
57433835 ATTATTATTA-CATTATTTACTATC
1 ATTATTATTATCA-TATTTACTATC
*
57433859 ATTATTATTATCATATTTTCTAT
1 ATTATTATTATCATATTTACTAT
57433882 ACATATACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTATTATTATCATATTTACTATC
Found at i:57433872 original size:12 final size:12
Alignment explanation
Indices: 57433835--57433872 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
57433825 TTCCATTACT
57433835 ATTATTATTA-C
1 ATTATTATTATC
*
57433846 ATTATTTACTATC
1 ATTA-TTATTATC
57433859 ATTATTATTATC
1 ATTATTATTATC
57433871 AT
1 AT
57433873 ATTTTCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 4 0.17
12 14 0.61
13 5 0.22
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:57445634 original size:44 final size:44
Alignment explanation
Indices: 57445569--57446096 Score: 673
Period size: 44 Copynumber: 11.9 Consensus size: 44
57445559 GGTTGAAAGG
* *
57445569 AAGCAGATCTTGTCTTAATGTATTGGCGTGAAGTAGATCCAAGA
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
* * * **
57445613 AAGCATATCTTGTCTTCATGTACTGGCATGAAGTAGATTAAAGA
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
* * *
57445657 TAGCAGATCTTGTCTTCCCATG--CTGGTGGTGAAGTAGATCGAAGA
1 AAGCAGATCTTGTCTT--CATGTATTGG-CGTGAAGTAGATCGAAGA
* *
57445702 AAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCAAAGA
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
* *
57445746 TAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
*
57445790 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGA
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
* *
57445834 AAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATTGAAGA
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
*
57445878 AAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGA
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
* * *
57445922 AAGCAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGA
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
* * *** * * *
57445966 TACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
1 AAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGA
* * * *
57446011 AAGCAAATCTTATCTTCATGTATTGGTGTGAAGTAGATCAAAGA
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
* * *
57446055 TAGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGA
1 AAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGA
57446097 GGATACAAGT
Statistics
Matches: 416, Mismatches: 61, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
43 4 0.01
44 332 0.80
45 76 0.18
46 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (44 bp):
AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
Found at i:57446196 original size:221 final size:221
Alignment explanation
Indices: 57445569--57446166 Score: 557
Period size: 221 Copynumber: 2.7 Consensus size: 221
57445559 GGTTGAAAGG
* * * * * *
57445569 AAGCAGATCTTGTCTTAATGTATTGGCGTGAAGTAGATCCAAGAAAGCATATCTTGTCTTCATGT
1 AAGCAAATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGT
* * ** * * *
57445634 ACTGGCATGAAGTAGATTAAAGATAGCAGATCTTGTCTTCCCATG-CTGGT-G-GTGAAGTAGAT
66 ATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTATC-T-CCATGAAT--TAGCGTGAAGTAGAT
* * * * * * * * * **
57445696 CGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCAAAGATAGTAGATCTTGTCT
127 CGAAGAAACCAGATCCTATCTCCATGAAATGGCATGAAGTAGATCAAAGACACCAGATCTTGTCT
*** * * *
57445761 TCATGTATTGG-CGTGAAGTAGATCGAAGA
192 TCCCATACTGGTGGCGAAGTAGATCGAAGA
* * *
57445790 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGAAAACAGATCTTGTCTTCATGT
1 AAGCAAATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGT
* * * *
57445855 ATTGGCGTGAAGTAGATTGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAA
66 ATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTATCTCCATGAATTAGCGTGAAGTAGATCGAA
* * * * * * *
57445920 GAAAGCAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATACCAGATCTTGTCTTCCC
131 GAAACCAGATCCTATCTCCATGAAATGGCATGAAGTAGATCAAAGACACCAGATCTTGTCTTCCC
57445985 ATACTGGTGGCGAAGTAGATCGAAGA
196 ATACTGGTGGCGAAGTAGATCGAAGA
* * ** *
57446011 AAGCAAATCTTATCTTCATGTATTGGTGTGAAGTAGATCAAAGATAGTAGATCTTGTCTTCCTGT
1 AAGCAAATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGT
* * * *
57446076 ATTGGCAGTGAAGTAGATCGAGGATA-CA-AGTCTTATCTCCCTGAAGTTA-CAGTGGAGTAGA-
66 ATTGGC-GTGAAGTAGATCGAAGAAAGCAGA-TCTTATCTCCATGAA-TTAGC-GTGAAGTAGAT
* *
57446137 CAGAAGTAACCA-ATCCTATCTCCTTGAAAT
127 C-GAAGAAACCAGATCCTATCTCCATGAAAT
57446167 TGCAATGGAG
Statistics
Matches: 324, Mismatches: 44, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
218 1 0.00
219 5 0.02
220 81 0.25
221 201 0.62
222 36 0.11
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (221 bp):
AAGCAAATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGT
ATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTATCTCCATGAATTAGCGTGAAGTAGATCGAA
GAAACCAGATCCTATCTCCATGAAATGGCATGAAGTAGATCAAAGACACCAGATCTTGTCTTCCC
ATACTGGTGGCGAAGTAGATCGAAGA
Found at i:57447645 original size:24 final size:24
Alignment explanation
Indices: 57447613--57447659 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
57447603 TTCCATTACT
57447613 ATTATTATTA-CATTATTTACTATC
1 ATTATTATTATCA-TATTTACTATC
*
57447637 ATTATTATTATCATATTTTCTAT
1 ATTATTATTATCATATTTACTAT
57447660 ACATATACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTATTATTATCATATTTACTATC
Found at i:57447650 original size:12 final size:12
Alignment explanation
Indices: 57447613--57447650 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
57447603 TTCCATTACT
57447613 ATTATTATTA-C
1 ATTATTATTATC
*
57447624 ATTATTTACTATC
1 ATTA-TTATTATC
57447637 ATTATTATTATC
1 ATTATTATTATC
57447649 AT
1 AT
57447651 ATTTTCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 4 0.17
12 14 0.61
13 5 0.22
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:57448164 original size:59 final size:59
Alignment explanation
Indices: 57448095--57448264 Score: 322
Period size: 59 Copynumber: 2.9 Consensus size: 59
57448085 TCAAGTTTGT
*
57448095 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
57448154 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
57448213 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
57448265 AATAATTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 109 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:57448296 original size:16 final size:16
Alignment explanation
Indices: 57448275--57448316 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
57448265 AATAATTTGA
*
57448275 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
57448291 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
57448307 TAGTTTTAAT
1 TAATTTTAAT
57448317 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:57448300 original size:22 final size:23
Alignment explanation
Indices: 57448290--57448345 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
57448280 TTACTAACAA
* * *
57448290 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
57448312 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
57448335 TTAATTTTAAT
1 TTAATTTTAAT
57448346 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:57453018 original size:34 final size:34
Alignment explanation
Indices: 57452980--57453051 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 34
57452970 TATGTCATAA
* *
57452980 TTTTA-TATACCTTTTAAAAATTTAGAATTTATAT
1 TTTTACTATAACTTTTAAAAATTTAAAATTT-TAT
* * *
57453014 TTTTACTTTAATTTTTAAAATTTTAAAATTTTAT
1 TTTTACTATAACTTTTAAAAATTTAAAATTTTAT
57453048 TTTT
1 TTTT
57453052 TAAATTTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 12 0.38
35 20 0.62
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (34 bp):
TTTTACTATAACTTTTAAAAATTTAAAATTTTAT
Found at i:57453056 original size:22 final size:22
Alignment explanation
Indices: 57453024--57453066 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
57453014 TTTTACTTTA
*
57453024 ATTTTTAAAATTTTAAAATTTT
1 ATTTTTAAAATTTCAAAATTTT
*
57453046 ATTTTTTAAATTTCAAAATTT
1 ATTTTTAAAATTTCAAAATTT
57453067 AAGTTATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTTTAAAATTTCAAAATTTT
Found at i:57454775 original size:126 final size:125
Alignment explanation
Indices: 57454544--57454825 Score: 372
Period size: 126 Copynumber: 2.2 Consensus size: 125
57454534 TTATTTCGAG
* *
57454544 TTGATGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATCAGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTGCTACCAGGATGCTATCAGAGAAGAAATTGT
* * * * *
57454608 GAAATCGTGTCCTTGTGGACGCCATTTCGGCACAGTTGGTCATGTCA-GAAATATTTTTTTT
65 GAAATCGCGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGT-AGGAAATAATTATTTT
* *
57454669 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGGTACCAGGATGTTAT-ATGAGAAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGCTACCAGGATGCTATCA-GAGAAGAAATTG
** **
57454733 TGAAATCGCGCCCTCGTGGACGTGATTTCGTTACAGTTGGTCATGTAGGAAATAATTATTTT
64 TGAAATCGCGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGTAGGAAATAATTATTTT
* *
57454795 TTGACGTTTCTGAGCAAATAGTGTCAAATCG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCG
57454826 TGCCCTTGTG
Statistics
Matches: 138, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
125 30 0.22
126 107 0.78
127 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTGCTACCAGGATGCTATCAGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGTAGGAAATAATTATTTT
Found at i:57456240 original size:6 final size:6
Alignment explanation
Indices: 57456215--57456257 Score: 68
Period size: 6 Copynumber: 6.8 Consensus size: 6
57456205 CCAAACACAC
57456215 CAGTATA CAGTAA TCAGTAA CAGTAA CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
57456258 TTCAACACAC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 24 0.69
7 11 0.31
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (6 bp):
CAGTAA
Found at i:57456301 original size:45 final size:44
Alignment explanation
Indices: 57456235--57456386 Score: 223
Period size: 45 Copynumber: 3.4 Consensus size: 44
57456225 TAATCAGTAA
* * *
57456235 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAC
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGC-AAAT
* * *
57456280 CTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCAAGT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTG-CAAAT
57456325 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCAAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTG-CAAAT
57456370 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
57456387 GTCGGCAAAT
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 96 0.99
46 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (44 bp):
CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCAAAT
Found at i:57457814 original size:9 final size:9
Alignment explanation
Indices: 57457770--57457814 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
57457760 CATTTAAATA
57457770 AATAATTAT
1 AATAATTAT
57457779 AATAATTAT
1 AATAATTAT
57457788 AATAATTAT
1 AATAATTAT
57457797 -ATACA-TAT
1 AATA-ATTAT
*
57457805 AATATTTAT
1 AATAATTAT
57457814 A
1 A
57457815 TATATAACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
AATAATTAT
Found at i:57460930 original size:64 final size:62
Alignment explanation
Indices: 57460861--57461354 Score: 677
Period size: 64 Copynumber: 7.7 Consensus size: 62
57460851 TATCAAATTA
* * *
57460861 GGTTAGGGTTTTTAATTAAATTAGATTA-GGTTGGGGTTTAGGGTT-TTTAATTAAATTAGGTTA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT----TTATTAAATTAAATTAGGTTA
57460924 G
62 G
* *
57460925 GGTTAGGGTTTTTAACTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGTTAAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT-ATTAAATTAAATTAGGTT-AG
*
57460989 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT-ATTAAATTAAATTAGGTTAG
* *
57461052 GGTTAGGGTTTTTAACTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT-ATTAAATTAAATTAGGTTAG
*
57461115 AGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAG
1 -GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT-ATTAAATTAAATTAGGTTAG
* * *
57461179 GGTTTGGGTTTTTAATTAAATTAGATTAGGTTAGGGTTGAAGGTTTTTAATTAAATTAGATTAGG
1 GGTTAGGGTTTTTAATT--A--A-ATTAGGTTAGGGTT-AGGGTTTTT-ATTAAATTAAATTAGG
57461244 TTAG
59 TTAG
* *
57461248 GGTTTATGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAATTAAATTAGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT-ATTAAATTAAATTAGGTTAG
57461312 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
57461355 ATCAAATAAT
Statistics
Matches: 393, Mismatches: 25, Indels: 26
0.89 0.06 0.06
Matches are distributed among these distances:
61 2 0.01
62 1 0.00
63 130 0.33
64 175 0.45
65 25 0.06
66 1 0.00
67 1 0.00
68 15 0.04
69 30 0.08
70 13 0.03
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (62 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTATTAAATTAAATTAGGTTAG
Found at i:57460944 original size:29 final size:29
Alignment explanation
Indices: 57460879--57461361 Score: 507
Period size: 29 Copynumber: 15.3 Consensus size: 29
57460869 TTTTTAATTA
* *
57460879 AATTAGATTAGGTTGGGGTTTAGGGTTTTT
1 AATTAAATTAGGTTAGGG-TTAGGGTTTTT
57460909 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
*
57460938 AACTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
*
57460967 AATTAAATTAGATTAGGTTAAGGTTTAGGGTTTTT
1 AATT--A--A-ATTAGGTT-AGGGTTAGGGTTTTT
57461002 AATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AATTAAATTAGGTTAGGGTTAGGG--TTT--TT
57461035 AAATTAAATTAGGTTAGGGTTAGGGTTTTT
1 -AATTAAATTAGGTTAGGGTTAGGGTTTTT
*
57461065 AACTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
*
57461094 AATTAAATTAGATTAGGTTAGAGTTTAGGGTTTTT
1 AATT--A--A-ATTAGGTTAG-GGTTAGGGTTTTT
57461129 AATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AATTAAATTAGGTTAGGGTTAGGG--TTT--TT
*
57461162 AAATTAAATTAGGTTAGGGTTTGGGTTTTT
1 -AATTAAATTAGGTTAGGGTTAGGGTTTTT
*
57461192 AATTAAATTAGATTAGGTTAGGGTTGAAGGTTTTT
1 AATT--A--A-ATTAGGTTAGGGTT-AGGGTTTTT
*
57461227 AATTAAATTAGATTAGGTTAGGGTTTATGGTTTTT
1 AATT--A--A-ATTAGGTTAGGG-TTAGGGTTTTT
*
57461262 AATTAAATTAGGTTAGGGTTAGGATTTTTAATT
1 AATTAAATTAGGTTAGGGTTAGG--GTTT--TT
57461295 AAATTAAATTAGGTTAGGGTTAGGGTTTTT
1 -AATTAAATTAGGTTAGGGTTAGGGTTTTT
57461325 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
*
57461354 AATCAAAT
1 AATTAAAT
57461362 AATATCAAAA
Statistics
Matches: 401, Mismatches: 18, Indels: 69
0.82 0.04 0.14
Matches are distributed among these distances:
29 133 0.33
30 52 0.13
31 15 0.04
32 9 0.02
33 12 0.03
34 102 0.25
35 76 0.19
36 2 0.00
ACGTcount: A:0.30, C:0.01, G:0.25, T:0.45
Consensus pattern (29 bp):
AATTAAATTAGGTTAGGGTTAGGGTTTTT
Found at i:57461063 original size:127 final size:127
Alignment explanation
Indices: 57460863--57461361 Score: 772
Period size: 127 Copynumber: 3.9 Consensus size: 127
57460853 TCAAATTAGG
* * *
57460863 TTAGGGTTTTTAATTAAATTAGATTA-GGTTGGGGTTTAGGGTT--TTTAATTAAATTAGGTTAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT----TTAATTAAATTAAATTAGGTTAG
57460925 GGTTAGGGTTTTTAACTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGTTAAGG
62 GGTTAGGGTTTTTAACTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGTTAAGG
57460990 T
127 T
57460991 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTT
57461056 AGGGTTTTTAACTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGTT-AGAGT
66 AGGGTTTTTAACTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGTTAAG-GT
57461118 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTT
* * * *
57461183 TGGGTTTTTAATTAAATTAGATTAGGTTAGGGTTGAAGGTTTTTAATTAAATTAGATTAGGTTAG
66 AGGGTTTTTAACT--A--A-ATTAGGTTAGGGTT-AGGGTTTTTAATTAAATTAGATTAGGTTAA
57461248 GGT
125 GGT
* *
57461251 TTATGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAATTAAATTAGGTTAGGGTT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTT
* *
57461316 AGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAAT
66 AGGGTTTTTAACTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAAT
57461362 AATATCAAAA
Statistics
Matches: 348, Mismatches: 12, Indels: 23
0.91 0.03 0.06
Matches are distributed among these distances:
125 2 0.01
126 2 0.01
127 172 0.49
128 39 0.11
129 12 0.03
131 2 0.01
132 14 0.04
133 104 0.30
134 1 0.00
ACGTcount: A:0.29, C:0.01, G:0.25, T:0.45
Consensus pattern (127 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTT
AGGGTTTTTAACTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGTTAAGGT
Found at i:57463767 original size:21 final size:21
Alignment explanation
Indices: 57463723--57463771 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
57463713 TAATATGGAG
*
57463723 TTGAGAGATTTTTTGAAGGAAAT
1 TTGAG-GA-TTTTGGAAGGAAAT
57463746 TGTGAGGATTTTGGAAGG-AAT
1 T-TGAGGATTTTGGAAGGAAAT
57463767 TTGAG
1 TTGAG
57463772 AGTTTAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 9 0.38
23 3 0.12
24 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.37
Consensus pattern (21 bp):
TTGAGGATTTTGGAAGGAAAT
Found at i:57463798 original size:52 final size:52
Alignment explanation
Indices: 57463726--57463825 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
57463716 TATGGAGTTG
* * * * *
57463726 AGAGATTTTTTGAAGGAAATTGTGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
* *
57463778 AGAGAATTTTGGAAGTAAATTGAGAGAATTTTTGAAGGAAATTGAGAG
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
57463826 AATTTTTGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
Found at i:57463803 original size:22 final size:22
Alignment explanation
Indices: 57463778--57463846 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
57463768 TGAGAGTTTA
* *
57463778 AGAGAATTTTGGAAGTAAATTG
1 AGAGAATTTTTGAAGGAAATTG
57463800 AGAGAATTTTTGAAGGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
*
57463822 AGAGAATTTTTGAAGGAATTTG
1 AGAGAATTTTTGAAGGAAATTG
57463844 AGA
1 AGA
57463847 TGGGGTTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.32
Consensus pattern (22 bp):
AGAGAATTTTTGAAGGAAATTG
Found at i:57468858 original size:29 final size:29
Alignment explanation
Indices: 57468817--57468880 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
57468807 GTTTGCAATT
57468817 TGAA-TTGGTTAAGGCAGAAGATTGTTGG
1 TGAACTTGGTTAAGGCAGAAGATTGTTGG
57468845 TGAACTTGGTTAAGGCAGAAGATTGTTGG
1 TGAACTTGGTTAAGGCAGAAGATTGTTGG
57468874 TGAACTT
1 TGAACTT
57468881 TAGACGTTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.11
29 31 0.89
ACGTcount: A:0.28, C:0.06, G:0.33, T:0.33
Consensus pattern (29 bp):
TGAACTTGGTTAAGGCAGAAGATTGTTGG
Found at i:57472070 original size:25 final size:26
Alignment explanation
Indices: 57472027--57472109 Score: 71
Period size: 29 Copynumber: 3.0 Consensus size: 26
57472017 AAACTTAGAC
57472027 AAATAATTATAAATATATAAATATATAT
1 AAATAATTA-AAAT-TATAAATATATAT
*
57472055 AAAT-ATTAAAATTATAAGA-ATTTAT
1 AAATAATTAAAATTATAA-ATATATAT
* *
57472080 AAATAATGATTAAATTTTTAAATATATAT
1 AAAT-A--ATTAAAATTATAAATATATAT
57472109 A
1 A
57472110 TACACATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
25 14 0.31
26 5 0.11
27 4 0.09
28 5 0.11
29 17 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
AAATAATTAAAATTATAAATATATAT
Found at i:57472243 original size:20 final size:17
Alignment explanation
Indices: 57472206--57472245 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
57472196 AATTATTTTA
57472206 TTAATTTTTTATAATTC
1 TTAATTTTTTATAATTC
57472223 TTAATATTTTTATTAATTTC
1 TTAAT-TTTTTA-TAA-TTC
57472243 TTA
1 TTA
57472246 TAATTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 3 0.15
20 6 0.30
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (17 bp):
TTAATTTTTTATAATTC
Found at i:57487517 original size:25 final size:25
Alignment explanation
Indices: 57487489--57487538 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
57487479 TTGTAGATGA
* *
57487489 TAGTTTGTTTTTTCTTCGGAACAAG
1 TAGTTTGCTTTTTCTTCAGAACAAG
57487514 TAGTTTGCTTTTTCTTCAGAACAAG
1 TAGTTTGCTTTTTCTTCAGAACAAG
57487539 GAAAAGAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.46
Consensus pattern (25 bp):
TAGTTTGCTTTTTCTTCAGAACAAG
Found at i:57489176 original size:50 final size:50
Alignment explanation
Indices: 57489101--57489201 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
57489091 ACCTTATTCT
* ** *
57489101 AATCAATGTCAAATAGAAGAAGAGTAGTTTTATATTGATTCTAGTTGTGC
1 AATCAATGTCAAATAGAAGAAGAGTAATTTTATACGGATTCTACTTGTGC
57489151 AATCAATGTCAAATAGAAGAAGAGTAATTTTATACGGATTCTACTTGTGC
1 AATCAATGTCAAATAGAAGAAGAGTAATTTTATACGGATTCTACTTGTGC
57489201 A
1 A
57489202 GCCTGGTCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.34
Consensus pattern (50 bp):
AATCAATGTCAAATAGAAGAAGAGTAATTTTATACGGATTCTACTTGTGC
Found at i:57491614 original size:4 final size:4
Alignment explanation
Indices: 57491597--57491723 Score: 236
Period size: 4 Copynumber: 31.8 Consensus size: 4
57491587 TTGCCTTAAA
* *
57491597 GTAT GCAT GCAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
57491645 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
57491693 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
57491724 ATATTTGGAG
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 121 1.00
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:57500948 original size:9 final size:9
Alignment explanation
Indices: 57500934--57501173 Score: 154
Period size: 9 Copynumber: 26.9 Consensus size: 9
57500924 TAAGTATAAT
57500934 TAAGTTATG
1 TAAGTTATG
57500943 TAAGTTATG
1 TAAGTTATG
* * *
57500952 ATATGATATA
1 -TAAGTTATG
*
57500962 T-ATTTATG
1 TAAGTTATG
57500970 T-A-TTATG
1 TAAGTTATG
57500977 TAAGTTATG
1 TAAGTTATG
57500986 TAAGTTATG
1 TAAGTTATG
*
57500995 TGAGTTATG
1 TAAGTTATG
*
57501004 TGAGTTATG
1 TAAGTTATG
57501013 TAAGTTATG
1 TAAGTTATG
* *
57501022 ATATGATATATA
1 -TAAG-T-TATG
57501034 TAAGTTATG
1 TAAGTTATG
*
57501043 TATG-TATG
1 TAAGTTATG
*
57501051 TGAGTTATG
1 TAAGTTATG
57501060 TAAGTTATG
1 TAAGTTATG
* * *
57501069 ATATGATATA
1 -TAAGTTATG
*
57501079 T-ATTTATG
1 TAAGTTATG
57501087 T-A-TTATG
1 TAAGTTATG
57501094 TAAGTTATG
1 TAAGTTATG
* *
57501103 TGAGTTATA
1 TAAGTTATG
*
57501112 TAAATTATG
1 TAAGTTATG
*
57501121 TAAGTTAGG
1 TAAGTTATG
*
57501130 TAAGTTTTG
1 TAAGTTATG
* * *
57501139 ATATGATATA
1 -TAAGTTATG
*
57501149 T-ATTTATG
1 TAAGTTATG
57501157 TAAGTTATG
1 TAAGTTATG
*
57501166 TAAATTAT
1 TAAGTTAT
57501174 ATATTAATTT
Statistics
Matches: 176, Mismatches: 43, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
7 12 0.07
8 22 0.12
9 114 0.65
10 21 0.12
11 4 0.02
12 3 0.02
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:57501057 original size:47 final size:47
Alignment explanation
Indices: 57500986--57501110 Score: 179
Period size: 47 Copynumber: 2.7 Consensus size: 47
57500976 GTAAGTTATG
57500986 TAAGTTATGTGA-GTTATGTGAGTTATGTAAGTTATGATATGATATATA
1 TAAGTTATGT-ATG-TATGTGAGTTATGTAAGTTATGATATGATATATA
57501034 TAAGTTATGTATGTATGTGAGTTATGTAAGTTATGATATGATATATA
1 TAAGTTATGTATGTATGTGAGTTATGTAAGTTATGATATGATATATA
* *
57501081 T---TTATGTAT-TATGTAAGTTATGTGAGTTAT
1 TAAGTTATGTATGTATGTGAGTTATGTAAGTTAT
57501111 ATAAATTATG
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
43 19 0.26
44 8 0.11
47 36 0.49
48 11 0.15
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (47 bp):
TAAGTTATGTATGTATGTGAGTTATGTAAGTTATGATATGATATATA
Found at i:57501142 original size:117 final size:117
Alignment explanation
Indices: 57500936--57501151 Score: 369
Period size: 117 Copynumber: 1.8 Consensus size: 117
57500926 AGTATAATTA
* * *
57500936 AGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGTGAGTT
1 AGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATATAAATT
* *
57501001 ATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATGTATGTATGTG
66 ATGTAAGTTAGGTAAGTTATGATATGATATATATAAGTTATGTATGTATGTG
*
57501053 AGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTGAGTTATATAAATT
1 AGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATATAAATT
*
57501118 ATGTAAGTTAGGTAAGTTTTGATATGATATATAT
66 ATGTAAGTTAGGTAAGTTATGATATGATATATAT
57501152 TTATGTAAGT
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 92 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (117 bp):
AGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATATAAATT
ATGTAAGTTAGGTAAGTTATGATATGATATATATAAGTTATGTATGTATGTG
Found at i:57501584 original size:28 final size:28
Alignment explanation
Indices: 57501523--57501578 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
57501513 CAATTAATCA
*
57501523 AATT-AATATAAAATCGATAATTTATTC
1 AATTAAATAAAAAATCGATAATTTATTC
*
57501550 AATTAAATAAAAAATTGATAATTTATTC
1 AATTAAATAAAAAATCGATAATTTATTC
57501578 A
1 A
57501579 CATAAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (28 bp):
AATTAAATAAAAAATCGATAATTTATTC
Found at i:57501611 original size:38 final size:37
Alignment explanation
Indices: 57501567--57501760 Score: 156
Period size: 38 Copynumber: 5.7 Consensus size: 37
57501557 TAAAAAATTG
*
57501567 ATAATTTATTCACATAAAATCAAATAAACTAATCAAAC
1 ATAATTTATTCA-ATTAAATCAAATAAACTAATCAAAC
* *
57501605 ATAATTTATTCAATTAAATC----GAA--AATC---G
1 ATAATTTATTCAATTAAATCAAATAAACTAATCAAAC
*
57501633 ATAATTTATTCACATTAAACCAAATAAACTAATCAAAC
1 ATAATTTATTCA-ATTAAATCAAATAAACTAATCAAAC
* *
57501671 ATAATTTATTCAATTAAAT----TGAA--AATC-GAC
1 ATAATTTATTCAATTAAATCAAATAAACTAATCAAAC
* *
57501701 --AATTTATTCACATTAAACCGAATAAACTAATCAAAC
1 ATAATTTATTCA-ATTAAATCAAATAAACTAATCAAAC
57501737 ATAATTTATTCAATT-AATCAAATA
1 ATAATTTATTCAATTAAATCAAATA
57501761 TATAAAGTGA
Statistics
Matches: 122, Mismatches: 14, Indels: 42
0.69 0.08 0.24
Matches are distributed among these distances:
28 22 0.18
29 13 0.11
30 2 0.02
31 8 0.07
33 10 0.08
35 8 0.07
36 9 0.07
37 16 0.13
38 34 0.28
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.32
Consensus pattern (37 bp):
ATAATTTATTCAATTAAATCAAATAAACTAATCAAAC
Found at i:57501630 original size:66 final size:66
Alignment explanation
Indices: 57501539--57501753 Score: 358
Period size: 66 Copynumber: 3.3 Consensus size: 66
57501529 TATAAAATCG
* * * *
57501539 ATAATTTATTCAATTAAATAAAAAATTGATAATTTATTCACATAAAATCAAATAAACTAATCAAA
1 ATAATTTATTCAATTAAATAGAAAATCGATAATTTATTCACATTAAACCAAATAAACTAATCAAA
57501604 C
66 C
*
57501605 ATAATTTATTCAATTAAATCGAAAATCGATAATTTATTCACATTAAACCAAATAAACTAATCAAA
1 ATAATTTATTCAATTAAATAGAAAATCGATAATTTATTCACATTAAACCAAATAAACTAATCAAA
57501670 C
66 C
* * *
57501671 ATAATTTATTCAATTAAATTGAAAATCGACAATTTATTCACATTAAACCGAATAAACTAATCAAA
1 ATAATTTATTCAATTAAATAGAAAATCGATAATTTATTCACATTAAACCAAATAAACTAATCAAA
57501736 C
66 C
57501737 ATAATTTATTCAATTAA
1 ATAATTTATTCAATTAA
57501754 TCAAATATAT
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 141 1.00
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (66 bp):
ATAATTTATTCAATTAAATAGAAAATCGATAATTTATTCACATTAAACCAAATAAACTAATCAAA
C
Found at i:57504623 original size:126 final size:124
Alignment explanation
Indices: 57504330--57504639 Score: 460
Period size: 124 Copynumber: 2.5 Consensus size: 124
57504320 TTAGAAAGTA
*
57504330 AATACATAGTTGCGGCGTTTTTGGTCTAAATGCCGCTATTGCTTACCTTTTGCGGCGTTTCAACC
1 AATACATAGTTGCGGCGTTTTTGGTCCAAATGCCGCTATTGCTTACCTTTTGCGGCGTTTCAACC
* **
57504395 AAAAACGCCACTAAAAATTTAAATTTCTATATTGAAACGGTGCCGTTTTGAAAAATTTT
66 AAAAACGCCACTAAAAAATTAAATTTCTATACCGAAACGGTGCCGTTTTGAAAAATTTT
* * * * *
57504454 AATACATAGTTGCAGCGTTTTTGGTCCAAACGCCGCTATTGCTTACCTTTTGCGGTGTTTCCAGC
1 AATACATAGTTGCGGCGTTTTTGGTCCAAATGCCGCTATTGCTTACCTTTTGCGGCGTTTCAACC
* * **
57504519 AAAAACGCCACTAAAAAATTAAATTTTTGTACCGAAAAACGGTGCCGTTTTGAAATTTTTT
66 AAAAACGCCACTAAAAAATTAAATTTCTATACCG--AAACGGTGCCGTTTTGAAAAATTTT
*
57504580 AATACATAGTTGTGGCGTTTTCT-GTCCAAATGCCGCTATTGCTTACCTTTTGCGGCGTTT
1 AATACATAGTTGCGGCGTTTT-TGGTCCAAATGCCGCTATTGCTTACCTTTTGCGGCGTTT
57504640 TTCTCATAAA
Statistics
Matches: 166, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
124 88 0.53
126 77 0.46
127 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (124 bp):
AATACATAGTTGCGGCGTTTTTGGTCCAAATGCCGCTATTGCTTACCTTTTGCGGCGTTTCAACC
AAAAACGCCACTAAAAAATTAAATTTCTATACCGAAACGGTGCCGTTTTGAAAAATTTT
Found at i:57504651 original size:126 final size:123
Alignment explanation
Indices: 57504330--57504658 Score: 435
Period size: 126 Copynumber: 2.6 Consensus size: 123
57504320 TTAGAAAGTA
* *
57504330 AATACATAGTTGCGGCGTTTTTGGTCTAAATGCCGCTATTGCTTACCTTTTGCGGCGTTTCAACC
1 AATACATAGTTGCGGCGTTTTTGGTCCAAATGCCGCTATTGCTTACCTTTTGCGGCGTTT-TACC
* **
57504395 AAAAACGCCACTAAAAATTTAAATTTCTATATTGAAACGGTGCCGTTTTGAAAAATTTT
65 AAAAACGCCACTAAAAAATTAAATTTCTATACCGAAACGGTGCCGTTTTGAAAAATTTT
* * * * *
57504454 AATACATAGTTGCAGCGTTTTTGGTCCAAACGCCGCTATTGCTTACCTTTTGCGGTGTTTCCAGC
1 AATACATAGTTGCGGCGTTTTTGGTCCAAATGCCGCTATTGCTTACCTTTTGCGGCGTTT-TACC
* * **
57504519 AAAAACGCCACTAAAAAATTAAATTTTTGTACCGAAAAACGGTGCCGTTTTGAAATTTTTT
65 AAAAACGCCACTAAAAAATTAAATTTCTATACCG--AAACGGTGCCGTTTTGAAAAATTTT
* *
57504580 AATACATAGTTGTGGCGTTTTCT-GTCCAAATGCCGCTATTGCTTACCTTTTGCGGCGTTTTTCT
1 AATACATAGTTGCGGCGTTTT-TGGTCCAAATGCCGCTATTGCTTACCTTTTGCGGCGTTTTAC-
* *
57504644 CATAAACGCCGCTAA
64 CAAAAACGCCACTAA
57504659 TGATTGACTT
Statistics
Matches: 179, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
124 88 0.49
126 90 0.50
127 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (123 bp):
AATACATAGTTGCGGCGTTTTTGGTCCAAATGCCGCTATTGCTTACCTTTTGCGGCGTTTTACCA
AAAACGCCACTAAAAAATTAAATTTCTATACCGAAACGGTGCCGTTTTGAAAAATTTT
Found at i:57504793 original size:21 final size:22
Alignment explanation
Indices: 57504758--57504803 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
57504748 TGATTGGAAA
*
57504758 TTAAGATTTTAAAATTTAA-AT
1 TTAAGATTTTAAAATATAATAT
57504779 TTAA-ATTTTAGAAATATAATAT
1 TTAAGATTTTA-AAATATAATAT
57504801 TTA
1 TTA
57504804 TGATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 11 0.50
22 5 0.23
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
TTAAGATTTTAAAATATAATAT
Found at i:57505382 original size:7 final size:7
Alignment explanation
Indices: 57505358--57505518 Score: 89
Period size: 7 Copynumber: 23.1 Consensus size: 7
57505348 TTAAAACTGG
57505358 ACCCTAA
1 ACCCTAA
*
57505365 ACACGTAA
1 AC-CCTAA
57505373 ACCCTAA
1 ACCCTAA
57505380 ACCCTAA
1 ACCCTAA
* *
57505387 ACCATTA
1 ACCCTAA
*
57505394 ACCTTAA
1 ACCCTAA
*
57505401 ACCTTAA
1 ACCCTAA
*
57505408 ACCTTAA
1 ACCCTAA
57505415 ACCCTAA
1 ACCCTAA
*
57505422 A-CCTAT
1 ACCCTAA
57505428 ACCCT-A
1 ACCCTAA
*
57505434 A-TCTATA
1 ACCCTA-A
57505441 ACCACTAA
1 ACC-CTAA
* *
57505449 ACTCTTA
1 ACCCTAA
*
57505456 ACACTAA
1 ACCCTAA
* *
57505463 ATCATAA
1 ACCCTAA
57505470 ACCCTAA
1 ACCCTAA
*
57505477 ACCTTAA
1 ACCCTAA
57505484 A-CCTCAA
1 ACCCT-AA
* *
57505491 ACCATAG
1 ACCCTAA
*
57505498 A-CCTAC
1 ACCCTAA
57505504 ACCCTAA
1 ACCCTAA
*
57505511 ACTCTAA
1 ACCCTAA
57505518 A
1 A
57505519 AATATATATT
Statistics
Matches: 117, Mismatches: 28, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
5 2 0.02
6 12 0.10
7 89 0.76
8 11 0.09
9 3 0.03
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:57505615 original size:21 final size:21
Alignment explanation
Indices: 57505566--57505615 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
57505556 ATCTTAAATA
***
57505566 CTAAACTCTAAACTTTAAACC
1 CTAAACTCTAAACCAAAAACC
* *
57505587 CCACACTCTAAACCAAAAACC
1 CTAAACTCTAAACCAAAAACC
57505608 CTAAACTC
1 CTAAACTC
57505616 AAAGCTATAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (21 bp):
CTAAACTCTAAACCAAAAACC
Found at i:57505669 original size:15 final size:15
Alignment explanation
Indices: 57505649--57505691 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
57505639 AACAATATAT
57505649 CATAAACCCTAAAAC
1 CATAAACCCTAAAAC
* *
57505664 CATAAACACT-AAAT
1 CATAAACCCTAAAAC
57505678 CATAAACCCTAAAA
1 CATAAACCCTAAAA
57505692 AACTCAGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (15 bp):
CATAAACCCTAAAAC
Found at i:57505669 original size:29 final size:29
Alignment explanation
Indices: 57505636--57505691 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
57505626 TCCAAAAATA
*
57505636 ATAAACAATATATCATAAACCCTAAAACC
1 ATAAACAATAAATCATAAACCCTAAAACC
*
57505665 ATAAACACTAAATCATAAACCCTAAAA
1 ATAAACAATAAATCATAAACCCTAAAA
57505692 AACTCAGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (29 bp):
ATAAACAATAAATCATAAACCCTAAAACC
Found at i:57505683 original size:14 final size:14
Alignment explanation
Indices: 57505631--57505690 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
57505621 TATAATCCAA
* *
57505631 AAATAATAAACAAT
1 AAATCATAAACACT
* *
57505645 ATATCATAAACCCT
1 AAATCATAAACACT
*
57505659 AAAACCATAAACACT
1 -AAATCATAAACACT
*
57505674 AAATCATAAACCCT
1 AAATCATAAACACT
57505688 AAA
1 AAA
57505691 AAACTCAGCA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
14 25 0.69
15 11 0.31
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATCATAAACACT
Found at i:57510851 original size:16 final size:16
Alignment explanation
Indices: 57510812--57510851 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
57510802 TATATTTATT
*
57510812 TATTTTTAATCAAATA
1 TATTTTTTATCAAATA
* *
57510828 TACTTTTTATTAAATA
1 TATTTTTTATCAAATA
57510844 TATTTTTT
1 TATTTTTT
57510852 TGGACTTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTTTTATCAAATA
Found at i:57514531 original size:13 final size:13
Alignment explanation
Indices: 57514515--57514540 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57514505 GAAATTTTTA
57514515 GCTTTTCAAAAGT
1 GCTTTTCAAAAGT
57514528 GCTTTTCAAAAGT
1 GCTTTTCAAAAGT
57514541 ACTTCTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GCTTTTCAAAAGT
Found at i:57515469 original size:18 final size:19
Alignment explanation
Indices: 57515429--57515470 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
57515419 TTTGTTGGAG
57515429 AAAATATAAAAATTAAACT
1 AAAATATAAAAATTAAACT
57515448 AAAA-ATAATAAATTAAAC-
1 AAAATATAA-AAATTAAACT
57515466 AAAAT
1 AAAAT
57515471 TTTGGATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATATAAAAATTAAACT
Found at i:57521858 original size:25 final size:24
Alignment explanation
Indices: 57521830--57521877 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
57521820 AATAGTCCAA
* *
57521830 ACAATCCAAATTACCAGCCTAAATT
1 ACAAACCAAATTA-CAGCCCAAATT
*
57521855 ACAAACCCAATTACAGCCCAAAT
1 ACAAACCAAATTACAGCCCAAAT
57521878 AAATTAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (24 bp):
ACAAACCAAATTACAGCCCAAATT
Found at i:57523286 original size:26 final size:26
Alignment explanation
Indices: 57523239--57523288 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
57523229 TTTTATAAAT
* **
57523239 TGTTTTATATTATTTTAGATATTAAG
1 TGTTTTAAATTATTCCAGATATTAAG
*
57523265 TGTTTTAAATTATTCCATATATTA
1 TGTTTTAAATTATTCCAGATATTA
57523289 TTTATGTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (26 bp):
TGTTTTAAATTATTCCAGATATTAAG
Found at i:57526707 original size:38 final size:38
Alignment explanation
Indices: 57526665--57526740 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
57526655 GAAACAAAGA
*
57526665 ATGATTGGATGATCAAAATGTTTATGAATGTAGACTTT
1 ATGATTGGATGATCAAAATATTTATGAATGTAGACTTT
57526703 ATGATTGGATGATCAAAATATTTATGAATGTAGACTTT
1 ATGATTGGATGATCAAAATATTTATGAATGTAGACTTT
57526741 CCAATAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (38 bp):
ATGATTGGATGATCAAAATATTTATGAATGTAGACTTT
Found at i:57530159 original size:24 final size:24
Alignment explanation
Indices: 57530109--57530163 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
57530099 ATATAATTTT
*
57530109 TTAAAAATATAATATATATAAATA
1 TTAAAAATATAATATATATAAAAA
* *
57530133 TTAAAAATA-AATATTTTTAACAAA
1 TTAAAAATATAATATATATAA-AAA
57530157 TTAAAAA
1 TTAAAAA
57530164 ATTTATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
TTAAAAATATAATATATATAAAAA
Found at i:57530631 original size:28 final size:27
Alignment explanation
Indices: 57530567--57530619 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
57530557 ATATAAAATA
* *
57530567 TTAGTTTTTATTTTTTAAGGGTCCAATT
1 TTAG-TTTTAATTTTTAAGGATCCAATT
*
57530595 TTATTTTTAATTTTTAAGGATCCAA
1 TTAGTTTTAATTTTTAAGGATCCAA
57530620 AATTTTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (27 bp):
TTAGTTTTAATTTTTAAGGATCCAATT
Found at i:57532199 original size:15 final size:15
Alignment explanation
Indices: 57532181--57532237 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
57532171 TATCAATATT
57532181 AATATTTTAATAATA
1 AATATTTTAATAATA
*
57532196 AATAATTATTACAATTATA
1 AAT-ATT-TT--AATAATA
*
57532215 AATATATTAATAATA
1 AATATTTTAATAATA
*
57532230 AATGTTTT
1 AATATTTT
57532238 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 15 0.45
16 3 0.09
17 4 0.12
18 2 0.06
19 9 0.27
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:57542489 original size:66 final size:67
Alignment explanation
Indices: 57542412--57542545 Score: 180
Period size: 67 Copynumber: 2.0 Consensus size: 67
57542402 TTTCCATTTC
** * * *
57542412 AGAGAGAACACTTTCGCGAACCTCA-TCCTTATAGCGGGATTACCAGTCCAGGCTAAATCCCTTG
1 AGAGAGAACACTCCCGCGAACATCATTCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
57542476 CA
66 CA
* * * *
57542478 AGAGAGCACACTCCCGTGAACATTATTCCTTACAGTGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGAACACTCCCGCGAACATCATTCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
57542543 CA
66 CA
57542545 A
1 A
57542546 CGACAATTAC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
66 19 0.33
67 39 0.67
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (67 bp):
AGAGAGAACACTCCCGCGAACATCATTCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
CA
Found at i:57552292 original size:18 final size:18
Alignment explanation
Indices: 57552271--57552305 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57552261 TATTTTATTA
*
57552271 TATCATTTTATTTATTTG
1 TATCATTTTATATATTTG
*
57552289 TATCTTTTTATATATTT
1 TATCATTTTATATATTT
57552306 TCAAACTCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.69
Consensus pattern (18 bp):
TATCATTTTATATATTTG
Found at i:57552342 original size:15 final size:16
Alignment explanation
Indices: 57552317--57552359 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
57552307 CAAACTCTAG
57552317 ATTATTTATTATTC-AT
1 ATTA-TTATTATTCAAT
57552333 ATTATTATTA-TCAAT
1 ATTATTATTATTCAAT
57552348 ATTATTATTATT
1 ATTATTATTATT
57552360 ATCTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.08
15 18 0.72
16 5 0.20
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTATTATTATTCAAT
Found at i:57554824 original size:49 final size:49
Alignment explanation
Indices: 57554770--57554908 Score: 215
Period size: 49 Copynumber: 2.8 Consensus size: 49
57554760 CTTATTTTCT
* ** **
57554770 CGATGCCATAGTCCAATTATGGTCTTACACGTGGTCACATAACATATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATAC
*
57554819 TGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATAC
*
57554868 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATA
57554909 TCACTTATTG
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 82 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATAC
Found at i:57556114 original size:23 final size:23
Alignment explanation
Indices: 57556088--57556232 Score: 200
Period size: 23 Copynumber: 6.3 Consensus size: 23
57556078 ATAAGTGCCA
57556088 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
57556111 CACTGATACGTAGCAGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
57556134 CATTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
57556157 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
57556180 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
57556203 CACTGATATGTAACCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
57556226 CACTGAT
1 CACTGAT
57556233 CAATAACACT
Statistics
Matches: 104, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 104 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:57556148 original size:46 final size:46
Alignment explanation
Indices: 57556088--57556231 Score: 234
Period size: 46 Copynumber: 3.1 Consensus size: 46
57556078 ATAAGTGCCA
* * *
57556088 CACTGATATGTAGCCGAAGCTACCACTGATACGTAGCAGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
*
57556134 CATTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
* *
57556180 CACTGAAATGTAGCCAAAGCTACCACTGATATGTAACCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
57556226 CACTGA
1 CACTGA
57556232 TCAATAACAC
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 91 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
Found at i:57558787 original size:3 final size:3
Alignment explanation
Indices: 57558747--57558772 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
57558737 TTACTTTATT
57558747 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
57558773 TAAAACCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:57563229 original size:43 final size:42
Alignment explanation
Indices: 57563124--57563238 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 42
57563114 TAGGATTCCG
* *
57563124 GTATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCGTC
1 GTATATGATTACGTGTAAGACCATGTCTGGGACATCGGCATC
* *
57563166 GTATATGATTTCGTGTAAGACCCTGTCTGGGACAGT-GGCATC
1 GTATATGATTACGTGTAAGACCATGTCTGGGACA-TCGGCATC
* * *
57563208 GATATTTGATTACATTTAAGACCATGTCTGG
1 G-TATATGATTACGTGTAAGACCATGTCTGG
57563239 AACGTTGGCA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 37 0.60
43 25 0.40
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
GTATATGATTACGTGTAAGACCATGTCTGGGACATCGGCATC
Done.