Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 18 of 126
Found at i:5946526 original size:20 final size:20
Alignment explanation
Indices: 5946503--5946554 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
5946493 TTAAAATATT
* *
5946503 AAAATTAATATAAAGTTATA
1 AAAATTAATAAAAAATTATA
5946523 AAAATT-ATAAAAAAATTATA
1 AAAATTAAT-AAAAAATTATA
5946543 AAAATTTAATAA
1 AAAA-TTAATAA
5946555 TTTATAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.07
20 19 0.70
21 4 0.15
22 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAATTAATAAAAAATTATA
Found at i:5946538 original size:11 final size:11
Alignment explanation
Indices: 5946522--5946546 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5946512 ATAAAGTTAT
5946522 AAAAATTATAA
1 AAAAATTATAA
5946533 AAAAATTATAA
1 AAAAATTATAA
5946544 AAA
1 AAA
5946547 TTTAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:5952521 original size:14 final size:15
Alignment explanation
Indices: 5952488--5952525 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
5952478 TGAACCGATT
5952488 TTTTTATTTTATAAA
1 TTTTTATTTTATAAA
5952503 TTTTTATTTT-T-AA
1 TTTTTATTTTATAAA
5952516 TGTTTTATTT
1 T-TTTTATTT
5952526 AATTGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 9 0.41
15 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTTATTTTATAAA
Found at i:5953354 original size:157 final size:158
Alignment explanation
Indices: 5953102--5953407 Score: 368
Period size: 157 Copynumber: 1.9 Consensus size: 158
5953092 TCGGAGTTCC
*
5953102 AAAATTGAAGGACGTTTTGAAAGATTTTGAAGAGGATATCCGATCGTGTGAATTATACGAAAAAT
1 AAAATTGAAGGACGTTTTGAAAGATTTTGAAGAGGATATCCGATCGTATGAATTATACGAAAAAT
** * * * * *
5953167 TGCACCCAACACGTTAGGGCATGGTGTTTCGAGGTCTTCACACAAAAGGGCGTTACCTCGTTTTG
66 CACACCCAACACGTTAGAGCACGATGTTTCGAGGTCTTCACACAAAAGGACATTACCTCGTTTTG
*
5953232 TTTTAAAAATCCTTTGTATATAGATACAT
131 TTTT-AAAATCATTTGTATATAGATACAT
* * * * *
5953261 AAAATTGGAGGATGTTTTGAAAGCTTTTGAAGAGGATATTCGAT-TTACATGAA-T-TACG-AAA
1 AAAATTGAAGGACGTTTTGAAAGATTTTGAAGAGGATATCCGATCGT--ATGAATTATACGAAAA
* * * * * **
5953322 ATCACACCCAGCACGTTAGAGCGCGATTTTTCGAGGTTTTTACATGAAAGGACATTACCTCGTTT
64 ATCACACCCAACACGTTAGAGCACGATGTTTCGAGGTCTTCACACAAAAGGACATTACCTCGTTT
5953387 TGTTTTAAAATCATTTGTATA
129 TGTTTTAAAATCATTTGTATA
5953408 GTTACATATT
Statistics
Matches: 124, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
156 14 0.11
157 60 0.48
158 5 0.04
159 41 0.33
160 4 0.03
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (158 bp):
AAAATTGAAGGACGTTTTGAAAGATTTTGAAGAGGATATCCGATCGTATGAATTATACGAAAAAT
CACACCCAACACGTTAGAGCACGATGTTTCGAGGTCTTCACACAAAAGGACATTACCTCGTTTTG
TTTTAAAATCATTTGTATATAGATACAT
Found at i:5954095 original size:30 final size:29
Alignment explanation
Indices: 5954061--5954132 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
5954051 ATTCGGGGGT
* **
5954061 AAAATGGTAATTTTCGAAGTGTCGGGGTCA
1 AAAATGGTAATTTTAGAAGT-TCAAGGTCA
5954091 AAAATGG-AATTTTTAGAAGTTCAAGGTCA
1 AAAATGGTAA-TTTTAGAAGTTCAAGGTCA
5954120 AAAAT-GTAATTTT
1 AAAATGGTAATTTT
5954133 TGGAAGTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 5 0.14
29 16 0.43
30 16 0.43
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (29 bp):
AAAATGGTAATTTTAGAAGTTCAAGGTCA
Found at i:5954118 original size:29 final size:30
Alignment explanation
Indices: 5954086--5954199 Score: 128
Period size: 29 Copynumber: 3.9 Consensus size: 30
5954076 GAAGTGTCGG
* *
5954086 GGTCAAAAATGGAATTTTTAGAAG-TTCAA
1 GGTCAAAAATGTAATTTTTGGAAGTTTCAA
* *
5954115 GGTCAAAAATGTAATTTTTGGAAGTTTGAG
1 GGTCAAAAATGTAATTTTTGGAAGTTTCAA
*
5954145 GGT--AAAATGTAATTTTTGGAAGTTTTAA
1 GGTCAAAAATGTAATTTTTGGAAGTTTCAA
* *
5954173 GGTC-AAAATATAATTTATGGACAGTTT
1 GGTCAAAAATGTAATTTTTGGA-AGTTT
5954200 AGGGACCTCC
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
28 26 0.35
29 37 0.50
30 11 0.15
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (30 bp):
GGTCAAAAATGTAATTTTTGGAAGTTTCAA
Found at i:5954159 original size:57 final size:57
Alignment explanation
Indices: 5954091--5954203 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 57
5954081 GTCGGGGTCA
* *
5954091 AAAATGGAATTTTTAGAAG-TTCAAGGTCAAAAATGTAATTTTTGGA-AGTTTGAGGGT
1 AAAATGGAATTTTTAGAAGTTTCAAGGTC-AAAATATAATTTATGGACAGTTT-AGGGT
* * *
5954148 AAAATGTAATTTTTGGAAGTTTTAAGGTCAAAATATAATTTATGGACAGTTTAGGG
1 AAAATGGAATTTTTAGAAGTTTCAAGGTCAAAATATAATTTATGGACAGTTTAGGG
5954204 ACCTCCAAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 36 0.73
58 13 0.27
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.36
Consensus pattern (57 bp):
AAAATGGAATTTTTAGAAGTTTCAAGGTCAAAATATAATTTATGGACAGTTTAGGGT
Found at i:5955344 original size:21 final size:21
Alignment explanation
Indices: 5955320--5955370 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
5955310 TAATATTTAC
5955320 TTATTATTAAAACATTTCA-TA
1 TTATTATTAAAACATTT-ATTA
*
5955341 TTATTATTAAAGCATTTATTA
1 TTATTATTAAAACATTTATTA
*
5955362 TAATTATTA
1 TTATTATTA
5955371 TACATGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (21 bp):
TTATTATTAAAACATTTATTA
Found at i:5955360 original size:18 final size:18
Alignment explanation
Indices: 5955295--5955367 Score: 65
Period size: 21 Copynumber: 3.7 Consensus size: 18
5955285 TCAAATTCTT
*
5955295 TTTATTATTATTTAATAATA
1 TTTATTATTA-TTAA-AACA
5955315 TTTACTTATTATTAAAACA
1 TTTA-TTATTATTAAAACA
*
5955334 TTTCATATTATTATTAAAGCA
1 -TT--TATTATTATTAAAACA
*
5955355 TTTATTATAATTA
1 TTTATTATTATTA
5955368 TTATACATGT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 10 0.22
19 3 0.07
20 12 0.26
21 19 0.41
22 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.53
Consensus pattern (18 bp):
TTTATTATTATTAAAACA
Found at i:5956119 original size:22 final size:22
Alignment explanation
Indices: 5956066--5956119 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
5956056 CATTTTAAAT
*
5956066 TTAATTAAATTTAAATTCAAAA
1 TTAATTAAAATTAAATTCAAAA
* *
5956088 TAAATTTAAAATT-AATTCAAAC
1 TTAA-TTAAAATTAAATTCAAAA
5956110 TTAATATAAA
1 TTAAT-TAAA
5956120 TTCAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 18 0.69
23 7 0.27
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAATTAAAATTAAATTCAAAA
Found at i:5956303 original size:19 final size:20
Alignment explanation
Indices: 5956266--5956303 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
5956256 TATCCCAAAG
*
5956266 CAAAAAGTAAATCCTAAAAC
1 CAAAAAGTAAATCCGAAAAC
*
5956286 CAAAAA-TAATTCCGAAAA
1 CAAAAAGTAAATCCGAAAA
5956304 GTCCAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.61, C:0.18, G:0.05, T:0.16
Consensus pattern (20 bp):
CAAAAAGTAAATCCGAAAAC
Found at i:5959582 original size:17 final size:18
Alignment explanation
Indices: 5959550--5959586 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
5959540 TAAAAGTAAA
5959550 TATTAATTTTTAAAATAT
1 TATTAATTTTTAAAATAT
5959568 TATTAATTTTT-AAATAT
1 TATTAATTTTTAAAATAT
5959585 TA
1 TA
5959587 ATCTTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTAATTTTTAAAATAT
Found at i:5959582 original size:32 final size:34
Alignment explanation
Indices: 5959546--5959617 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
5959536 TTTATAAAAG
* **
5959546 TAAATATTAAT-TT-TTAAAATATTATTAATTTT
1 TAAATATTAATCTTATTAAAATAATATTAACATT
*
5959578 TAAATATTAATCTTATTAATATAATATTAACATT
1 TAAATATTAATCTTATTAAAATAATATTAACATT
5959612 TAAATA
1 TAAATA
5959618 GTTTTGGATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 11 0.32
33 2 0.06
34 21 0.62
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (34 bp):
TAAATATTAATCTTATTAAAATAATATTAACATT
Found at i:5960382 original size:11 final size:11
Alignment explanation
Indices: 5960364--5960392 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
5960354 ATGTTTATAA
5960364 TATTTTTTTA-
1 TATTTTTTTAT
5960374 TATTTTTTTAT
1 TATTTTTTTAT
5960385 TATTTTTT
1 TATTTTTT
5960393 GTCTTGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TATTTTTTTAT
Found at i:5961231 original size:22 final size:22
Alignment explanation
Indices: 5961206--5961249 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
5961196 ATTTATAATT
5961206 TTTATAAAATTAAT-AAAACATA
1 TTTA-AAAATTAATAAAAACATA
* *
5961228 TTTAAAATTTTATAAAAACATA
1 TTTAAAAATTAATAAAAACATA
5961250 AAATGTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAAATTAATAAAAACATA
Found at i:5961744 original size:40 final size:40
Alignment explanation
Indices: 5961700--5961788 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
5961690 TTTACCTTTT
* *
5961700 GCGGCGTTTTTCCATAAACGTCGCAAAAGGTAAAACAATA
1 GCGGCGTTTTTCCATAAACGCCGCAAAAGGTAAAACAACA
* *
5961740 GCGGCGTTTTTTCATAAACGCCGCAAAAGGTAAAGCAACA
1 GCGGCGTTTTTCCATAAACGCCGCAAAAGGTAAAACAACA
*
5961780 GTGGCGTTT
1 GCGGCGTTT
5961789 ATAGAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (40 bp):
GCGGCGTTTTTCCATAAACGCCGCAAAAGGTAAAACAACA
Found at i:5961844 original size:41 final size:41
Alignment explanation
Indices: 5961755--5962044 Score: 258
Period size: 41 Copynumber: 7.1 Consensus size: 41
5961745 GTTTTTTCAT
* * ** * * *
5961755 AAACGCCGCAAAAGGT-AAAGCAACAGTGGCGTTTATAGAAA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTAT-GAGA
* * *
5961796 AAACGCCGCTAAAGGTCAAAGCATTAGCGGCGTTTATGATA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTATGAGA
* * * * *
5961837 AAGCGCCGCTAAATGTCAGAGCATTAGCGACGCTTAAGGGA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTATGAGA
* *
5961878 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCACTTATGGGA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTATGAGA
* * * *
5961919 AAGCGCCGTTAAAGGTCAGAGCATTAGCGACGCTTATGCGA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTATGAGA
* * * * * * *
5961960 AAGCACCGCTAAAGATCAGAGGATTAGTGGCACTAATGAGA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTATGAGA
* * * * * *
5962001 AAATGTCGCTAAATGTCAGAGCATTAACGGCGTTTATGGGA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTATGAGA
5962042 AAA
1 AAA
5962045 ATGCTTCTAA
Statistics
Matches: 203, Mismatches: 45, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
41 186 0.92
42 17 0.08
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (41 bp):
AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTATGAGA
Found at i:5961844 original size:82 final size:82
Alignment explanation
Indices: 5961715--5961954 Score: 207
Period size: 82 Copynumber: 2.9 Consensus size: 82
5961705 GTTTTTCCAT
* * * * * *
5961715 AAACGTCGCAAAAGGT-AAAACAATAGCGGCGTTTTTTCATAAA-CGCCGCAAAAGGT-AAAGCA
1 AAACGCCGCTAAAGGTCAAAGCATTAGCGGCG-TTTATGATAAAGCGCCGCAAAAGGTCAAAGCA
* * *
5961777 ACAGTGGCGTTTATAGAAA
65 ACAGCGACGCTTA-AGAAA
* * * *
5961796 AAACGCCGCTAAAGGTCAAAGCATTAGCGGCGTTTATGATAAAGCGCCGCTAAATGTCAGAGCAT
1 AAACGCCGCTAAAGGTCAAAGCATTAGCGGCGTTTATGATAAAGCGCCGCAAAAGGTCAAAGCAA
* **
5961861 TAGCGACGCTTAAGGGA
66 CAGCGACGCTTAAGAAA
* ** ** ** * *
5961878 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCACTTATGGGAAAGCGCCGTTAAAGGTCAGAGCAT
1 AAACGCCGCTAAAGGTCAAAGCATTAGCGGCGTTTATGATAAAGCGCCGCAAAAGGTCAAAGCAA
*
5961943 TAGCGACGCTTA
66 CAGCGACGCTTA
5961955 TGCGAAAGCA
Statistics
Matches: 133, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
81 23 0.17
82 97 0.73
83 13 0.10
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (82 bp):
AAACGCCGCTAAAGGTCAAAGCATTAGCGGCGTTTATGATAAAGCGCCGCAAAAGGTCAAAGCAA
CAGCGACGCTTAAGAAA
Found at i:5961969 original size:82 final size:82
Alignment explanation
Indices: 5961795--5962026 Score: 293
Period size: 82 Copynumber: 2.8 Consensus size: 82
5961785 GTTTATAGAA
* * ** *
5961795 AAAACGCCGCTAAAGGTCAAAGCATTAGCGGCGTTTATGATAAAGCGCCGCTAAATGTCAGAGCA
1 AAAACACCGCTAAAGGTCAGAGCATTAGCGGCACTTATGAGAAAGCGCCGCTAAATGTCAGAGCA
*
5961860 TTAGCGACGCTTAAGGG
66 TTAGCGACGCTTAAGCG
* * * *
5961877 AAAACGCCGCTAAAGGTCAGAGCATTAGCGGCACTTATGGGAAAGCGCCGTTAAAGGTCAGAGCA
1 AAAACACCGCTAAAGGTCAGAGCATTAGCGGCACTTATGAGAAAGCGCCGCTAAATGTCAGAGCA
*
5961942 TTAGCGACGCTTATGCG
66 TTAGCGACGCTTAAGCG
* * * * * ** *
5961959 AAAGCACCGCTAAAGATCAGAGGATTAGTGGCACTAATGAGAAAATGTCGCTAAATGTCAGAGCA
1 AAAACACCGCTAAAGGTCAGAGCATTAGCGGCACTTATGAGAAAGCGCCGCTAAATGTCAGAGCA
5962024 TTA
66 TTA
5962027 ACGGCGTTTA
Statistics
Matches: 129, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
82 129 1.00
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.19
Consensus pattern (82 bp):
AAAACACCGCTAAAGGTCAGAGCATTAGCGGCACTTATGAGAAAGCGCCGCTAAATGTCAGAGCA
TTAGCGACGCTTAAGCG
Found at i:5962003 original size:123 final size:123
Alignment explanation
Indices: 5961799--5962043 Score: 296
Period size: 123 Copynumber: 2.0 Consensus size: 123
5961789 ATAGAAAAAA
* * * *
5961799 CGCCGCTAAAGGTCAAAGCATTAGCGGCGTTTATGATAAAGCGCCGCTAAATGTCAGAGCATTAG
1 CGCCGCTAAAGGTCAAAGCATTAGCGACGCTTATGAGAAAGCACCGCTAAATGTCAGAGCATTAG
* * *
5961864 CGACGCTTAAGGGAAAACGCCGCTAAAGGTCAGAGCATTAGCGGCACTTATGGGAAAG
66 CGACACTTAAGAGAAAACGCCGCTAAAGGTCAGAGCATTAACGGCACTTATGGGAAAG
* * * *
5961922 CGCCGTTAAAGGTCAGAGCATTAGCGACGCTTATGCGAAAGCACCGCTAAA-GATCAGAGGATTA
1 CGCCGCTAAAGGTCAAAGCATTAGCGACGCTTATGAGAAAGCACCGCTAAATG-TCAGAGCATTA
* * * * * **
5961986 GTGGCAC-TAATGAGAAAATGTCGCTAAATGTCAGAGCATTAACGGCGTTTATGGGAAA
65 GCGACACTTAA-GAGAAAACGCCGCTAAAGGTCAGAGCATTAACGGCACTTATGGGAAA
5962044 AATGCTTCTA
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
122 4 0.04
123 98 0.96
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (123 bp):
CGCCGCTAAAGGTCAAAGCATTAGCGACGCTTATGAGAAAGCACCGCTAAATGTCAGAGCATTAG
CGACACTTAAGAGAAAACGCCGCTAAAGGTCAGAGCATTAACGGCACTTATGGGAAAG
Found at i:5962943 original size:56 final size:57
Alignment explanation
Indices: 5962829--5962943 Score: 128
Period size: 56 Copynumber: 2.0 Consensus size: 57
5962819 AATTAGTTAT
* * * * * *
5962829 TTGACTCAAATCTTCTTATATAGTAATAATGTATATTAATAAATATTTAATAGTTAA
1 TTGACTCAAATCTCCTTATATACTAATAATATATATTAATAAATATTCAAAAGGTAA
*
5962886 TTGACTC-AATCTCCTCT-TATACTAAT-ATATATATTAATGTAATATTCAAAAGGTAA
1 TTGACTCAAATCTCCT-TATATACTAATAATATATATTAAT-AAATATTCAAAAGGTAA
5962942 TT
1 TT
5962944 CACTAAAACT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
55 11 0.22
56 30 0.61
57 8 0.16
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (57 bp):
TTGACTCAAATCTCCTTATATACTAATAATATATATTAATAAATATTCAAAAGGTAA
Found at i:5964583 original size:43 final size:42
Alignment explanation
Indices: 5964517--5964600 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 42
5964507 AATGTTACCA
* * * *
5964517 GCGTTTGTGGGAAAGCGCTGCTAAAGATCATGGTCTTTAGCG
1 GCGTTTGTGAGAAAGCGCCGCTAAAGACCATGATCTTTAGCG
5964559 GCGTTTGTGAGATAAGCGCCGCTAAAGACCATGATCTTTAGC
1 GCGTTTGTGAGA-AAGCGCCGCTAAAGACCATGATCTTTAGC
5964601 ATTTAGGGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 11 0.30
43 26 0.70
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (42 bp):
GCGTTTGTGAGAAAGCGCCGCTAAAGACCATGATCTTTAGCG
Found at i:5964621 original size:60 final size:60
Alignment explanation
Indices: 5964548--5964661 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
5964538 TAAAGATCAT
* * *
5964548 GGTCTTTAGCGGCGTTTGT-GAGATAAGCGCCGCTAAAGACCATGATCTTTAGCATTTAGG
1 GGTCTTTAGCGGCGTATGTGGA-AAAAGCGCCACTAAAGACCATGATCTTTAGCATTTAGG
* *
5964608 GGTCTTTAGCGGCGTATGTGGAAAAAGCGCTACTAAAGACCATGTTCTTTAGCA
1 GGTCTTTAGCGGCGTATGTGGAAAAAGCGCCACTAAAGACCATGATCTTTAGCA
5964662 GCGTTTGTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 46 0.96
61 2 0.04
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (60 bp):
GGTCTTTAGCGGCGTATGTGGAAAAAGCGCCACTAAAGACCATGATCTTTAGCATTTAGG
Found at i:5964671 original size:43 final size:43
Alignment explanation
Indices: 5964610--5964702 Score: 123
Period size: 43 Copynumber: 2.2 Consensus size: 43
5964600 CATTTAGGGG
* * *
5964610 TCTTTAGCGGCGTATGTGGAAAAAGCGCTACTAAAGACCATGT
1 TCTTTAGCAGCGTATGTGGAAAAAGCACCACTAAAGACCATGT
* * *
5964653 TCTTTAGCAGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGT
1 TCTTTAGCAGCGTATGTGGAAAAAGCACCACTAAAGACCATGT
*
5964696 TATTTAG
1 TCTTTAG
5964703 TGGCTTTTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (43 bp):
TCTTTAGCAGCGTATGTGGAAAAAGCACCACTAAAGACCATGT
Found at i:5964736 original size:43 final size:42
Alignment explanation
Indices: 5964641--5964772 Score: 113
Period size: 43 Copynumber: 3.1 Consensus size: 42
5964631 AAAGCGCTAC
* * * * ** *
5964641 TAAAGACCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCACCGC
1 TAAAGACCATGATATTTAGCGGCGTTTGT-GTAAAAGCGTCGT
* * *
5964684 TAAAGACCATGTTATTTAGTGGCTTTTGTG-AGATAAGCGTCGT
1 TAAAGACCATGATATTTAGCGGCGTTTGTGTA-A-AAGCGTCGT
* * *
5964727 TAAATACCATGATCTTTAGCGGCGTTTGTGTAAAAGGGTCGT
1 TAAAGACCATGATATTTAGCGGCGTTTGTGTAAAAGCGTCGT
5964769 TAAA
1 TAAA
5964773 AGCGACGTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 14 0.19
43 57 0.78
44 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (42 bp):
TAAAGACCATGATATTTAGCGGCGTTTGTGTAAAAGCGTCGT
Found at i:5965215 original size:28 final size:28
Alignment explanation
Indices: 5965183--5965252 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
5965173 ATAACTTTTT
*
5965183 TTTTATATATTTTTATGTTATTTATA-AA
1 TTTTATATATTTTTAT-TAATTTATATAA
*
5965211 TTTTAT-TAGTTTTTATTAATTTTTATAA
1 TTTTATATA-TTTTTATTAATTTATATAA
* *
5965239 TTTAATAGATTTTT
1 TTTTATATATTTTT
5965253 TATATTTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 9 0.26
28 25 0.71
29 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (28 bp):
TTTTATATATTTTTATTAATTTATATAA
Found at i:5965225 original size:19 final size:19
Alignment explanation
Indices: 5965182--5965234 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
5965172 AATAACTTTT
*
5965182 TTTTTATATA-TTTTTATG
1 TTTTTATAAATTTTTTATG
5965200 TTATTTATAAATTTTATTA-G
1 TT-TTTATAAATTTT-TTATG
*
5965220 TTTTTATTAATTTTT
1 TTTTTATAAATTTTT
5965235 ATAATTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 3 0.10
19 18 0.60
20 6 0.20
21 3 0.10
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (19 bp):
TTTTTATAAATTTTTTATG
Found at i:5965430 original size:9 final size:9
Alignment explanation
Indices: 5965182--5965501 Score: 100
Period size: 9 Copynumber: 33.8 Consensus size: 9
5965172 AATAACTTTT
5965182 TTTTTATATA
1 TTTTTATA-A
*
5965192 TTTTTAT-G
1 TTTTTATAA
5965200 TTATTTATAA
1 TT-TTTATAA
* *
5965210 ATTTTATTAG
1 TTTTTA-TAA
5965220 TTTTTATTAA
1 TTTTTA-TAA
5965230 TTTTTATAA
1 TTTTTATAA
*
5965239 -TTTAATAGA
1 TTTTTATA-A
5965248 TTTTT-TATA
1 TTTTTATA-A
*
5965257 TTTTCTAAAA
1 TTTT-TATAA
**
5965267 TAATTATAA
1 TTTTTATAA
* *
5965276 GTTTTTCTGA
1 -TTTTTATAA
*
5965286 TTTTTATAT
1 TTTTTATAA
5965295 TTTTTA-AA
1 TTTTTATAA
* *
5965303 CTTATATCAA
1 TTTTTAT-AA
*
5965313 TTTTAATAA
1 TTTTTATAA
5965322 -TTTTACTTAA
1 TTTTTA--TAA
5965332 TTTTTTATAA
1 -TTTTTATAA
*
5965342 GATTTTA-AGA
1 -TTTTTATA-A
*
5965352 TTTTTTTACA
1 TTTTTATA-A
*
5965362 TTATTATAAAA
1 TT-TT-TATAA
*
5965373 TTTTAAATAA
1 TTTT-TATAA
**
5965383 TTTAAATAA
1 TTTTTATAA
*
5965392 GTTTTATTAA
1 TTTTTA-TAA
*
5965402 TTTTTAATTTA
1 TTTTT-A-TAA
*
5965413 TTATTATAA
1 TTTTTATAA
5965422 TTTTTATAA
1 TTTTTATAA
**
5965431 CATTTATAA
1 TTTTTATAA
5965440 TTTTATATCAA
1 TTTT-TAT-AA
*
5965451 TTTTAAT-A
1 TTTTTATAA
5965459 TTTTTA-AA
1 TTTTTATAA
*
5965467 TATTTAATAA
1 T-TTTTATAA
* *
5965477 TGTTTATGA
1 TTTTTATAA
5965486 TTTTTA-ATA
1 TTTTTATA-A
5965495 TTTTTAT
1 TTTTTAT
5965502 GAGATAATAT
Statistics
Matches: 226, Mismatches: 57, Indels: 54
0.67 0.17 0.16
Matches are distributed among these distances:
8 25 0.11
9 91 0.40
10 83 0.37
11 20 0.09
12 7 0.03
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:5965725 original size:2 final size:2
Alignment explanation
Indices: 5965718--5965756 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
5965708 AAAGGCTTTT
5965718 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5965757 GAACACTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5970104 original size:23 final size:22
Alignment explanation
Indices: 5970076--5970133 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 22
5970066 AAAGCACGGA
5970076 AATTTAAAAGTTTTTTTTTAAAT
1 AATTTAAAAGTTTTTTTTT-AAT
5970099 AATTTAAAA--TTTTTTTTAAT
1 AATTTAAAAGTTTTTTTTTAAT
*
5970119 ATATCTAAAAGTTTT
1 A-ATTTAAAAGTTTT
5970134 CTAAAGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 4 0.13
21 15 0.48
23 12 0.39
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (22 bp):
AATTTAAAAGTTTTTTTTTAAT
Found at i:5970111 original size:20 final size:21
Alignment explanation
Indices: 5970088--5970144 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
5970078 TTTAAAAGTT
*
5970088 TTTTTTTAAATA-ATTTAAAA
1 TTTTTTTAAATATATCTAAAA
*
5970108 TTTTTTTTAATATATCTAAAA
1 TTTTTTTAAATATATCTAAAA
* * *
5970129 GTTTTCTAAAGATATC
1 TTTTTTTAAATATATC
5970145 ATGTTTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.37
21 19 0.63
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTTTTAAATATATCTAAAA
Found at i:5970190 original size:17 final size:19
Alignment explanation
Indices: 5970168--5970202 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
5970158 TATTATTTTT
5970168 TAAAATT-ATA-AAAAATA
1 TAAAATTAATATAAAAATA
5970185 TAAAATTAATATAAAAAT
1 TAAAATTAATATAAAAAT
5970203 GCATATCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATTAATATAAAAATA
Found at i:5970580 original size:26 final size:25
Alignment explanation
Indices: 5970542--5970608 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 25
5970532 TTTTCTCATA
5970542 AAAAATTATTAAA-TTATTAAAAATT
1 AAAAATTATTAAACTTA-TAAAAATT
* *
5970567 AAAATTTATATAAACTTATAAATATT
1 AAAAATTAT-TAAACTTATAAAAATT
5970593 AATAGAATATATTAAA
1 AA-A-AAT-TATTAAA
5970609 ATCTAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 8 0.24
26 13 0.38
27 4 0.12
28 6 0.18
29 3 0.09
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (25 bp):
AAAAATTATTAAACTTATAAAAATT
Found at i:5970917 original size:9 final size:9
Alignment explanation
Indices: 5970881--5971038 Score: 54
Period size: 9 Copynumber: 16.9 Consensus size: 9
5970871 ATTTTTTTCC
*
5970881 ATAAAAAAT
1 ATAAAAATT
*
5970890 ATAAGAAGTT
1 ATAA-AAATT
5970900 ATAAAAAATT
1 AT-AAAAATT
5970910 ATAAAAA-T
1 ATAAAAATT
5970918 AT-AAAATT
1 ATAAAAATT
*
5970926 CTAATAAATT
1 ATAA-AAATT
*
5970936 GTAAAAA-T
1 ATAAAAATT
*
5970944 AT-AAACTT
1 ATAAAAATT
5970952 ATTAAAACATAT
1 A-TAAAA-AT-T
* **
5970964 TTGAAATTTT
1 AT-AAAAATT
5970974 ATAAAAATT
1 ATAAAAATT
** *
5970983 ATTCAAAGT
1 ATAAAAATT
**
5970992 ATTTAAATT
1 ATAAAAATT
**
5971001 GATATAACCTT
1 -ATA-AAAATT
*
5971012 ATAAAAAAT
1 ATAAAAATT
5971021 ATAAAAATT
1 ATAAAAATT
5971030 CATAAAAAT
1 -ATAAAAAT
5971039 ATGAACTTGA
Statistics
Matches: 108, Mismatches: 27, Indels: 27
0.67 0.17 0.17
Matches are distributed among these distances:
7 7 0.06
8 9 0.08
9 43 0.40
10 37 0.34
11 8 0.07
12 4 0.04
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:5970920 original size:18 final size:19
Alignment explanation
Indices: 5970881--5970923 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
5970871 ATTTTTTTCC
*
5970881 ATAAAAAATATAAGAAGTT
1 ATAAAAAATATAAGAAGAT
5970900 ATAAAAAATTATAA-AA-AT
1 ATAAAAAA-TATAAGAAGAT
5970918 ATAAAA
1 ATAAAA
5970924 TTCTAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 10 0.45
20 5 0.23
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
ATAAAAAATATAAGAAGAT
Found at i:5970941 original size:26 final size:27
Alignment explanation
Indices: 5970884--5970948 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
5970874 TTTTTCCATA
5970884 AAAAATATAAGAAGTTATAAAAAATTAT
1 AAAAATATAA-AAGTTATAAAAAATTAT
* * *
5970912 AAAAATATAAAA-TTCTAATAAATTGT
1 AAAAATATAAAAGTTATAAAAAATTAT
5970938 AAAAATATAAA
1 AAAAATATAAA
5970949 CTTATTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 22 0.65
27 2 0.06
28 10 0.29
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (27 bp):
AAAAATATAAAAGTTATAAAAAATTAT
Found at i:5982271 original size:15 final size:16
Alignment explanation
Indices: 5982240--5982273 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
5982230 TTTTCTCCAT
*
5982240 AATTTTAACACATTTA
1 AATTTTAACAAATTTA
5982256 AATTTTAA-AAATTTA
1 AATTTTAACAAATTTA
5982271 AAT
1 AAT
5982274 GAAATCTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTTAACAAATTTA
Found at i:5983754 original size:2 final size:2
Alignment explanation
Indices: 5983747--5983784 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
5983737 CCTGATAAGG
5983747 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5983785 CATGCATGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5999551 original size:16 final size:16
Alignment explanation
Indices: 5999505--5999568 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
5999495 CGTCAAACCT
5999505 TTATAATA-TATAAAA
1 TTATAATATTATAAAA
*
5999520 -TATAAT-TTATATAA
1 TTATAATATTATAAAA
*
5999534 TTATAATATTAAAAAA
1 TTATAATATTATAAAA
*
5999550 TTAT-ATAATTATAATA
1 TTATAAT-ATTATAAAA
5999566 TTA
1 TTA
5999569 AAAAATTACT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
14 12 0.30
15 8 0.20
16 20 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATAATATTATAAAA
Found at i:5999553 original size:24 final size:24
Alignment explanation
Indices: 5999526--5999576 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
5999516 AAAATATAAT
5999526 TTATATAATTATAATATTAAAAAA
1 TTATATAATTATAATATTAAAAAA
5999550 TTATATAATTATAATATTAAAAAA
1 TTATATAATTATAATATTAAAAAA
5999574 TTA
1 TTA
5999577 CTTTAGCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATATAATTATAATATTAAAAAA
Found at i:6000086 original size:25 final size:25
Alignment explanation
Indices: 6000037--6000089 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
6000027 TTATTATTTT
*
6000037 AAATATATATAAATATAAATTTATA
1 AAATATATACAAATATAAATTTATA
*
6000062 AAATATATACAATTA-AAATTATATA
1 AAATATATACAAATATAAATT-TATA
6000087 AAA
1 AAA
6000090 AGCCTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
AAATATATACAAATATAAATTTATA
Found at i:6000125 original size:11 final size:10
Alignment explanation
Indices: 6000106--6000216 Score: 56
Period size: 10 Copynumber: 11.2 Consensus size: 10
6000096 TAATATTTTG
6000106 AAAAATATAT
1 AAAAATATAT
6000116 AAAAAT-TAT
1 AAAAATATAT
*
6000125 AATATATATAAT
1 AA-AAATAT-AT
*
6000137 CAATAAAAAGT-T
1 -AA-AAATA-TAT
*
6000149 AAAAATTTAT
1 AAAAATATAT
6000159 AAAAATATAT
1 AAAAATATAT
6000169 --AAATATAT
1 AAAAATATAT
6000177 AAAAGA-ATA-
1 AAAA-ATATAT
*
6000186 AAAAAAAT-T
1 AAAAATATAT
* *
6000195 ATAAATGTAT
1 AAAAATATAT
*
6000205 AAATATATAT
1 AAAAATATAT
6000215 AA
1 AA
6000217 TAACTAAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
8 9 0.12
9 17 0.22
10 37 0.48
11 4 0.05
12 3 0.04
13 6 0.08
14 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (10 bp):
AAAAATATAT
Found at i:6000172 original size:18 final size:18
Alignment explanation
Indices: 6000106--6000180 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 18
6000096 TAATATTTTG
*
6000106 AAAAATATATAAAAATTAT
1 AAAAATATAT-AAATTTAT
* **
6000125 -AATATATAT-AATCAAT
1 AAAAATATATAAATTTAT
*
6000141 AAAAAGT-TAAAAATTTAT
1 AAAAA-TATATAAATTTAT
*
6000159 AAAAATATATAAATATAT
1 AAAAATATATAAATTTAT
6000177 AAAA
1 AAAA
6000181 GAATAAAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
16 4 0.10
17 6 0.14
18 32 0.76
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (18 bp):
AAAAATATATAAATTTAT
Found at i:6002031 original size:59 final size:58
Alignment explanation
Indices: 6001954--6002091 Score: 161
Period size: 58 Copynumber: 2.4 Consensus size: 58
6001944 ATTTTTACTC
*
6001954 TCGATGGCAAAACT-GTAATTTCAAGAAAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
1 TCGATGGTAAAA-TGGTAATTTCAAGAAAAATCGGGGTT-AAAATGGAATTTTGGAAAGT
*** **
6002013 TCGATGGTAAAATGGTAATTTTTTGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGT
1 TCGATGGTAAAATGGTAATTTCAAGAAAAATCGGGGTTAAAATGGAATTTTGGAAAGT
* ** *
6002071 TTGGGGGTAAAACGGTAATTT
1 TCGATGGTAAAATGGTAATTT
6002092 TTGGAAGTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 38 0.56
59 30 0.44
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (58 bp):
TCGATGGTAAAATGGTAATTTCAAGAAAAATCGGGGTTAAAATGGAATTTTGGAAAGT
Found at i:6002080 original size:58 final size:59
Alignment explanation
Indices: 6001981--6002093 Score: 183
Period size: 58 Copynumber: 1.9 Consensus size: 59
6001971 ATTTCAAGAA
* *
6001981 AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGATGGTAAAATGGTAATTTTTTGTG
1 AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAACGGTAATTTTTTGTG
* *
6002040 AAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTT
1 AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAACGGTAATTTTT
6002094 GGAAGTTTCG
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 39 0.78
59 11 0.22
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.35
Consensus pattern (59 bp):
AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAACGGTAATTTTTTGTG
Found at i:6002096 original size:30 final size:30
Alignment explanation
Indices: 6001984--6002120 Score: 112
Period size: 29 Copynumber: 4.7 Consensus size: 30
6001974 TCAAGAAAAA
*
6001984 TCGGGGTTAAAAATGG-AA-TTTTGGAAAGT
1 TCGGGGGT-AAAATGGTAATTTTTGGAAAGT
**
6002013 TCGATGGTAAAATGGTAATTTTTTGTGAAA--
1 TCGGGGGTAAAATGGTAA-TTTTTG-GAAAGT
*
6002043 TCGGGGTTAAAATGG-AA-TTTTGGAAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGAAAGT
* *
6002071 TTGGGGGTAAAACGGTAATTTTTGG-AAGTT
1 TCGGGGGTAAAATGGTAATTTTTGGAAAG-T
6002101 TC-GGGGTCAAAAT-GTAATTT
1 TCGGGGGT-AAAATGGTAATTT
6002121 AAAGTTTTGG
Statistics
Matches: 87, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
26 4 0.05
27 5 0.06
28 19 0.22
29 26 0.30
30 24 0.28
31 5 0.06
32 4 0.05
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.35
Consensus pattern (30 bp):
TCGGGGGTAAAATGGTAATTTTTGGAAAGT
Found at i:6002145 original size:27 final size:26
Alignment explanation
Indices: 6002096--6002147 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
6002086 TAATTTTTGG
* *
6002096 AAGTTTCGGGGTCAAAATGTAATTTA
1 AAGTTTCGGGATCAAAATATAATTTA
*
6002122 AAGTTTTGGGATCATAAATATAATTT
1 AAGTTTCGGGATCA-AAATATAATTT
6002148 TTGAATAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (26 bp):
AAGTTTCGGGATCAAAATATAATTTA
Found at i:6003194 original size:25 final size:23
Alignment explanation
Indices: 6003154--6003199 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
6003144 TTTCATTTTT
*
6003154 TTATTTTATTATTATAAATATTA
1 TTATTTTATTACTATAAATATTA
6003177 TTATTATTAATTACTATAAATAT
1 TTATT-TT-ATTACTATAAATAT
6003200 CAATAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 2 0.10
25 13 0.65
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATTTTATTACTATAAATATTA
Found at i:6003214 original size:25 final size:24
Alignment explanation
Indices: 6003160--6003214 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
6003150 TTTTTTATTT
* * * *
6003160 TATTATTATAAATATTATTATTAT
1 TATTACTATAAATATAATAATTAA
6003184 TAATTACTATAAATATCAATAATTAA
1 T-ATTACTATAAATAT-AATAATTAA
6003210 TATTA
1 TATTA
6003215 TTAGTGATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 17 0.68
26 7 0.28
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
TATTACTATAAATATAATAATTAA
Found at i:6004527 original size:6 final size:6
Alignment explanation
Indices: 6004509--6004612 Score: 76
Period size: 6 Copynumber: 17.5 Consensus size: 6
6004499 TTAAATTGAT
*
6004509 TTTAAA TTT--A TTTGAA TTTAAA TTT--A TCTTAAA TTTAATTA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA--A TTTAAA
* * * *
6004556 TTT-AC CTTAAA TTTAATTA TTTAAA TTT-AC CTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAA--A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
6004604 TTTAAA TTT
1 TTTAAA TTT
6004613 TAAAACAAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
4 6 0.08
5 8 0.10
6 50 0.64
7 2 0.03
8 12 0.15
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:6004528 original size:16 final size:16
Alignment explanation
Indices: 6004509--6004612 Score: 86
Period size: 17 Copynumber: 6.2 Consensus size: 16
6004499 TTAAATTGAT
*
6004509 TTTAAATTTATTTGAA
1 TTTAAATTTATTTAAA
6004525 TTTAAATTTATCTTAAA
1 TTTAAATTTAT-TTAAA
6004542 TTT-AA-TTATTTAAA
1 TTTAAATTTATTTAAA
** *
6004556 TTTACCTTAAATTTAATTA
1 TTTAAATT-TATTTAA--A
*
6004575 TTTAAATTTACCTTAAA
1 TTTAAATTTA-TTTAAA
6004592 TTTAAATTTAAATTTAAA
1 TTTAAATTT--ATTTAAA
6004610 TTT
1 TTT
6004613 TAAAACAAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
14 8 0.11
15 4 0.06
16 14 0.20
17 23 0.33
18 9 0.13
19 12 0.17
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.54
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:6004540 original size:11 final size:11
Alignment explanation
Indices: 6004526--6004595 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 11
6004516 TTATTTGAAT
6004526 TTAAATTTATC
1 TTAAATTTATC
*
6004537 TTAAATTTAATTAT
1 TTAAATTT-A-T-C
*
6004551 TTAAATTTACC
1 TTAAATTTATC
*
6004562 TTAAATTTAATTAT
1 TTAAATTT-A-T-C
*
6004576 TTAAATTTACC
1 TTAAATTTATC
6004587 TTAAATTTA
1 TTAAATTTA
6004596 AATTTAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
11 25 0.54
12 2 0.04
13 3 0.07
14 16 0.35
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (11 bp):
TTAAATTTATC
Found at i:6004558 original size:25 final size:25
Alignment explanation
Indices: 6004510--6004607 Score: 146
Period size: 25 Copynumber: 3.9 Consensus size: 25
6004500 TAAATTGATT
* *
6004510 TTAAATTTATTTGAATTTAAATTTATC
1 TTAAATTTAATT--ATTTAAATTTACC
6004537 TTAAATTTAATTATTTAAATTTACC
1 TTAAATTTAATTATTTAAATTTACC
6004562 TTAAATTTAATTATTTAAATTTACC
1 TTAAATTTAATTATTTAAATTTACC
6004587 TTAAATTTAA--ATTTAAATTTA
1 TTAAATTTAATTATTTAAATTTA
6004608 AATTTTAAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
23 11 0.16
25 47 0.68
27 11 0.16
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (25 bp):
TTAAATTTAATTATTTAAATTTACC
Found at i:6005459 original size:3 final size:3
Alignment explanation
Indices: 6005451--6005483 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6005441 ATTAGTAACG
6005451 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6005484 GAAAAAAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6006606 original size:161 final size:161
Alignment explanation
Indices: 6006326--6006642 Score: 485
Period size: 161 Copynumber: 2.0 Consensus size: 161
6006316 GCTTTCAATT
* *
6006326 TAGTCCTTTGACTATTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTGGATTATTTTTGCAT
1 TAGTCCTTTGACTATTTGACTGTACCAGAGGCTGCCACGTGTCATCTTTTGGATTATTTATGCAT
*
6006391 TTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTATTTTTATTACGAA
66 TTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTA-TTTAATTACGAA
* * *
6006456 ATTGGCCCAATAATTTTTCAAGGTTTATAAAC
130 ATTGGACCAAGAATTTTTCAAGATTTATAAAC
* * *
6006488 TAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCATGTGTCA-CTTTTGGCTTATTTATGCAT
1 TAGTCCTTTGACTATTTGACTGTACCAGAGGCTGCCACGTGTCATCTTTTGGATTATTTATGCAT
* ***
6006552 TTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAAT-CCCAAATCAACTTTTATTTAATTACGAA
66 TTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAAC-TTTATTTAATTACGAA
6006616 ATTGGACCAAGAATTTTTCAAGATTTA
130 ATTGGACCAAGAATTTTTCAAGATTTA
6006643 CAATTTAATC
Statistics
Matches: 141, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
160 46 0.33
161 53 0.38
162 42 0.30
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (161 bp):
TAGTCCTTTGACTATTTGACTGTACCAGAGGCTGCCACGTGTCATCTTTTGGATTATTTATGCAT
TTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTATTTAATTACGAAA
TTGGACCAAGAATTTTTCAAGATTTATAAAC
Found at i:6006824 original size:59 final size:58
Alignment explanation
Indices: 6006732--6007042 Score: 443
Period size: 58 Copynumber: 5.3 Consensus size: 58
6006722 CAAAAAATCT
* *
6006732 AAAAATTACTATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCTACTTTCACC
1 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCTA-TTTCACC
* *
6006791 AAAAATTACCATTTTACCCCTGAACTTTTCAAAATTCCA-TTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAA-CCCTATTTCACC
* * *
6006849 AAAAATTACCATTTTACTCCC-AAACTTTTCAAAATTCCATTTTTAACCCTGATTTCACA
1 AAAAATTACCATTTTAC-CCCTGAACTTTCCAAAATTCCATTTTTAACCCT-ATTTCACC
*
6006908 AAAAATTACCATTTTACCCCTGAAC-TTCCAAAATTCCA-TTTTAACCTTGATTTCACC
1 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCT-ATTTCACC
* *
6006965 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACC
1 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAA-CCCTATTTCACC
6007024 -AAAATTACCATTTTACCCC
1 AAAAATTACCATTTTACCCC
6007043 CAGGTATCCA
Statistics
Matches: 230, Mismatches: 14, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
57 42 0.18
58 97 0.42
59 89 0.39
60 2 0.01
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCTATTTCACC
Found at i:6006862 original size:58 final size:59
Alignment explanation
Indices: 6006732--6007042 Score: 463
Period size: 59 Copynumber: 5.3 Consensus size: 59
6006722 CAAAAAATCT
* * *
6006732 AAAAATTACTATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAA-CCCTACTTTCACC
1 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACC
*
6006791 AAAAATTACCATTTTACCCCTGAACTTTTCAAAATTCCA-TTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * * *
6006849 AAAAATTACCATTTTACTCCC-AAACTTTTCAAAATTCCATTTTTAACCCTGATTTCACA
1 AAAAATTACCATTTTAC-CCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
**
6006908 AAAAATTACCATTTTACCCCTGAAC-TTCCAAAATTCCA-TTTTAACCTTGATTTCACC
1 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
*
6006965 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACC
1 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
6007024 -AAAATTACCATTTTACCCC
1 AAAAATTACCATTTTACCCC
6007043 CAGGTATCCA
Statistics
Matches: 232, Mismatches: 14, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
57 42 0.18
58 94 0.41
59 96 0.41
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:6010237 original size:39 final size:39
Alignment explanation
Indices: 6010134--6010564 Score: 148
Period size: 39 Copynumber: 10.9 Consensus size: 39
6010124 ATTACTTCAA
6010134 TTCAATCTGCCCCAT-AGTCGGGGTAAGAGATTGGATGATC
1 TTCAATCTGCCCCATGA-TCGGGGTAAGAGATTGGATGA-C
* * ** *
6010174 TTCAATTTGCCCTC-TGGTTAGGGTAAGCGATTGGATTG-C
1 TTCAATCTGCCC-CATGATCGGGGTAAGAGATTGGA-TGAC
* *
6010213 TTTAATCTGCCCCATGATCGGGGTAAGAGATTGAATGATC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGA-C
* * * *** * *
6010253 TTCAATCTACACTC-TGGTTAAGGTAAAATATTGGATTG-C
1 TTCAATCTGC-CCCATGATCGGGGTAAGAGATTGGA-TGAC
* * * *
6010292 TTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGGTGGTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGAT-GAC
* * ** *
6010332 TTCAATCTGCCTTC-TGGTTAGGGTAAAAGATTGGATTG-C
1 TTCAATCTGCC-CCATGATCGGGGTAAGAGATTGGA-TGAC
* * * ** * * *
6010371 TTCAATCTACCCTATGGTTAGTGTAAGAGATCGGATGGTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGAT-GAC
* * ** * *
6010411 TTCAATTTACCCTC-T-AGTTAGAGTAAAAGATTGGATTG-C
1 TTCAATCTGCCC-CATGA-TCGGGGTAAGAGATTGGA-TGAC
* * * * *
6010450 TTCAATCTACCCCATGGTCGGGATAAGAGATCGGATGGTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGAT-GAC
** * * *
6010490 TTCAATCTGCCCTC-TGATTAGAGTAAAAAATTGGATTG-C
1 TTCAATCTGCCC-CATGATCGGGGTAAGAGATTGGA-TGAC
** ** *
6010529 TTCAATCTGCGTCATGGGCAGGGTAAGAGATTGGAT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGAT
6010565 AGTCTTTAAT
Statistics
Matches: 291, Mismatches: 74, Indels: 54
0.69 0.18 0.13
Matches are distributed among these distances:
38 11 0.04
39 134 0.46
40 134 0.46
41 12 0.04
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (39 bp):
TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGAC
Found at i:6010251 original size:79 final size:79
Alignment explanation
Indices: 6010050--6010600 Score: 625
Period size: 79 Copynumber: 6.9 Consensus size: 79
6010040 AATGGATTAT
* * * * *
6010050 TTCAATCTGCCTCATGGTCGGGGTAAGAGATCGAATGGTCTTCAATATGCCCTTTGGTTAGGATA
1 TTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTA
*
6010115 AAAGATTGGATTACTTC
66 AAAGATTGGA-T--TGC
* * * *
6010132 AATTCAATCTGCCCCATAGTCGGGGTAAGAGATTGGATGATCTTCAATTTGCCCTCTGGTTAGGG
1 --TTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGG
**
6010197 TAAGCGATTGGATTGC
64 TAAAAGATTGGATTGC
* * * * * * * *
6010213 TTTAATCTGCCCCATGATCGGGGTAAGAGATTGAATGATCTTCAATCTACACTCTGGTTAAGGTA
1 TTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTA
*
6010278 AAATATTGGATTGC
66 AAAGATTGGATTGC
* *
6010292 TTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGGTGGTCTTCAATCTGCCTTCTGGTTAGGGTA
1 TTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTA
6010357 AAAGATTGGATTGC
66 AAAGATTGGATTGC
* * ** * * * * *
6010371 TTCAATCTACCCTATGGTTAGTGTAAGAGATCGGATGGTCTTCAATTTACCCTCTAGTTAGAGTA
1 TTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTA
6010436 AAAGATTGGATTGC
66 AAAGATTGGATTGC
* * * *
6010450 TTCAATCTACCCCATGGTCGGGATAAGAGATCGGATGGTCTTCAATCTGCCCTCTGATTAGAGTA
1 TTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTA
*
6010515 AAAAATTGGATTGC
66 AAAGATTGGATTGC
** * * * * * * * * *
6010529 TTCAATCTGCGTCATGGGCAGGGTAAGAGATTGGATAGTCTTTAATTTACCATCTGATTAGGGTA
1 TTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTA
6010594 AAAGATT
66 AAAGATT
6010601 TGATAATCCT
Statistics
Matches: 399, Mismatches: 68, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
79 331 0.83
81 2 0.01
83 1 0.00
84 65 0.16
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (79 bp):
TTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTA
AAAGATTGGATTGC
Found at i:6010840 original size:50 final size:50
Alignment explanation
Indices: 6010738--6010857 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 50
6010728 ATCCTTGCGA
* * * * *
6010738 CTTCAATCTGCCCCTCTATAGCTTTAGGTGAATGAGATTTGTCATTACGG
1 CTTCAATCTGCCCCTCTACACCTTTAGGTGAATGAGATTCGCCATCACGG
* *
6010788 CTTGAATCTGCCCCTCTACACCTTTAGGT-ATATGAGATTCGCCATCATGG
1 CTTCAATCTGCCCCTCTACACCTTTAGGTGA-ATGAGATTCGCCATCACGG
**
6010838 CTTCAATCTGTTCCTCTACA
1 CTTCAATCTGCCCCTCTACA
6010858 GCTTCAGGGG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 1 0.02
50 58 0.98
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.35
Consensus pattern (50 bp):
CTTCAATCTGCCCCTCTACACCTTTAGGTGAATGAGATTCGCCATCACGG
Found at i:6015547 original size:31 final size:31
Alignment explanation
Indices: 6015501--6015576 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
6015491 CGTCTTTCTC
*
6015501 AAACTTT-T-AATGCATGAAAATGCGATGCA
1 AAACTTTATGAATGCATGAAAATGCGATACA
*
6015530 AAACTTTATGAATGCATGAAAATGCGATACG
1 AAACTTTATGAATGCATGAAAATGCGATACA
*
6015561 AAATTTTATGAATGCA
1 AAACTTTATGAATGCA
6015577 CGAATGCATA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
29 7 0.17
30 1 0.02
31 34 0.81
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (31 bp):
AAACTTTATGAATGCATGAAAATGCGATACA
Found at i:6018116 original size:63 final size:62
Alignment explanation
Indices: 6018027--6018202 Score: 259
Period size: 63 Copynumber: 2.8 Consensus size: 62
6018017 TTTGAGTTTT
* *
6018027 ATTTATTTATCTATATTAATAAAATAATAAATAAATAATAAAATAAAATAAATATTATTTTAC
1 ATTTATTTATTTATATT-ATAAAATAATAAATAAATAATAAAATAAAATAAATATTATTTAAC
* * *
6018090 ATTTATTTATTTATATTCATACAATAATAAATAAATAATAAAATAAAATTAATATTATTTAAT
1 ATTTATTTATTTATATT-ATAAAATAATAAATAAATAATAAAATAAAATAAATATTATTTAAC
6018153 ATTTATTTATTTATATTA-AAAATAATAAATAAA-AATAAAA-AAAATGAAAT
1 ATTTATTTATTTATATTATAAAATAATAAATAAATAATAAAATAAAAT-AAAT
6018203 TGAGTTTCGA
Statistics
Matches: 104, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
59 5 0.05
60 10 0.10
61 14 0.13
62 1 0.01
63 74 0.71
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (62 bp):
ATTTATTTATTTATATTATAAAATAATAAATAAATAATAAAATAAAATAAATATTATTTAAC
Found at i:6019874 original size:15 final size:15
Alignment explanation
Indices: 6019854--6019886 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6019844 AACGGTTAAT
6019854 AGGAGAACTCAAAAG
1 AGGAGAACTCAAAAG
6019869 AGGAGAACTCAAAAG
1 AGGAGAACTCAAAAG
6019884 AGG
1 AGG
6019887 CCAAGGGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.12, G:0.30, T:0.06
Consensus pattern (15 bp):
AGGAGAACTCAAAAG
Found at i:6021383 original size:28 final size:29
Alignment explanation
Indices: 6021324--6021383 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
6021314 AATCATTATA
* *
6021324 AATATATTTTTTTCTACTTTTTAAATAATT
1 AATATATTTTCTTCTACCTTTTAAAT-ATT
*
6021354 AATATATTTTCTTGTACCTTTTAAAT-TT
1 AATATATTTTCTTCTACCTTTTAAATATT
6021382 AA
1 AA
6021384 CCATTTTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 4 0.15
30 23 0.85
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (29 bp):
AATATATTTTCTTCTACCTTTTAAATATT
Found at i:6025474 original size:28 final size:27
Alignment explanation
Indices: 6025429--6025483 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
6025419 AGTTAAACTT
6025429 AAATTTTAAAAAATAAAAGGTA-AAGGA
1 AAATTTTAAAAAATAAAA-GTACAAGGA
6025456 AAATTCTTAAAAAATAAAAGTACAAGGA
1 AAATT-TTAAAAAATAAAAGTACAAGGA
6025484 TTAAATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.62, C:0.04, G:0.13, T:0.22
Consensus pattern (27 bp):
AAATTTTAAAAAATAAAAGTACAAGGA
Found at i:6031256 original size:3 final size:3
Alignment explanation
Indices: 6031248--6031280 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6031238 ATTGAACCTA
6031248 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6031281 TTACTGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6047717 original size:2 final size:2
Alignment explanation
Indices: 6047710--6047761 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
6047700 CCAAGGCTTA
6047710 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6047751 AT AT AT AT AT A
1 AT AT AT AT AT A
6047762 ACAACTTAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6049764 original size:21 final size:20
Alignment explanation
Indices: 6049719--6049764 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
6049709 AAATTATAAT
6049719 TAAAAAATTAAATAAATTTA
1 TAAAAAATTAAATAAATTTA
*
6049739 CAAAAAATTGTAAA-AAATTTA
1 TAAAAAA-T-TAAATAAATTTA
6049760 TAAAA
1 TAAAA
6049765 TATAAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 6 0.27
21 12 0.55
22 4 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
TAAAAAATTAAATAAATTTA
Found at i:6051706 original size:12 final size:12
Alignment explanation
Indices: 6051689--6051713 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6051679 ATTTTATAAC
6051689 ATAAATATTGTT
1 ATAAATATTGTT
6051701 ATAAATATTGTT
1 ATAAATATTGTT
6051713 A
1 A
6051714 ATAGCCTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:6056401 original size:59 final size:59
Alignment explanation
Indices: 6056338--6057002 Score: 834
Period size: 59 Copynumber: 11.2 Consensus size: 59
6056328 ACCCGAGGGC
* * ** * *
6056338 AAAATGGTAATTTT-GGTGTAATCGGGGTTTAAAAATGGAATTATAAAAGATTCAGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGG-TTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* * * * ** *
6056397 AAAATGGCAATTTTTGGTGAAATCGGGGTTAAAAACGAAATTTTAAAAGCTTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* ** *
6056456 AAAACGGTAATTTTCGGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAGTTTTGGGGGT
1 AAAATGGTAATTTTC-GGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
6056516 AAAATGGTAATTTTCGGTGAAATC-GGGTTAAAAAATGGAATTTTGGAAGTTTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTT-AAAAATGGAATTTTGGAAGTTTCGGGGGT
** * * * *
6056575 AAAATGGTAATTTTCGGTGAAATTAGGGTTAAAAATGAAATTTTAGAAGCTTCGAGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* * * * *
6056634 AAAACGGTAATTTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAGTTTCAGGGGT
1 AAAATGGTAA-TTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
*
6056694 AAAATAGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTC-GGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
*** * *
6056752 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACAAAATTTTAGAAGCTTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* * * * *
6056811 AAAACGGTAATTTTCGATGAAATTGGGGTTAAAAACGGAATTTTGGAAGTTTCAGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* *
6056870 AAAATAGTAATTTTTGGTGAAATCGGGG-TAAAAATGGAATTTTGGAAGTTTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* * ** *
6056928 AAAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAAAGGAATTTTAAAAGATTCGGGGGGT
1 -AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTC-GGGGGT
6056989 AAAATGGTAATTTT
1 AAAATGGTAATTTT
6057003 GGAAAGTTTT
Statistics
Matches: 527, Mismatches: 70, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
58 85 0.16
59 288 0.55
60 148 0.28
61 6 0.01
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (59 bp):
AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
Found at i:6056637 original size:178 final size:177
Alignment explanation
Indices: 6056338--6057002 Score: 953
Period size: 178 Copynumber: 3.7 Consensus size: 177
6056328 ACCCGAGGGC
* * * ** * *
6056338 AAAATGGTAATTTT-GGTGTAATCGGGGTTTAAAAATGGAATTATAAAAGATTCAGGGGTAAAAT
1 AAAATAGTAATTTTCGGTGAAATCGGGG-TTAAAAATGGAATTTTGGAAGTTTCGGGGGTAAAAT
* *
6056402 GGCAATTTTTGGTGAAATCGGGGTTAAAAACGAAATTTTAAAAGCTTCGGGGGTAAAACGGTAAT
65 GGTAATTTTCGGTGAAATCGGGGTTAAAAACGAAATTTTAAAAGCTTCGGGGGTAAAACGGTAAT
**
6056467 TTTCGGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAGTTTTGGGGGT
130 TTTC-GGTGAAATTAGGGTTAAAAATGGAATTTTGGAAGTTTCAGGGGT
*
6056516 AAAATGGTAATTTTCGGTGAAATC-GGGTTAAAAAATGGAATTTTGGAAGTTTCGGGGGTAAAAT
1 AAAATAGTAATTTTCGGTGAAATCGGGGTT-AAAAATGGAATTTTGGAAGTTTCGGGGGTAAAAT
** * * *
6056580 GGTAATTTTCGGTGAAATTAGGGTTAAAAATGAAATTTTAGAAGCTTCGAGGGTAAAACGGTAAT
65 GGTAATTTTCGGTGAAATCGGGGTTAAAAACGAAATTTTAAAAGCTTCGGGGGTAAAACGGTAA-
* * *
6056645 TTTTTGGT-AAAATCGAGGTTAAAAATGGAATTTTGGAAGTTTCAGGGGT
129 TTTTCGGTGAAATTAG-GGTTAAAAATGGAATTTTGGAAGTTTCAGGGGT
6056694 AAAATAGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTC-GGGGTAAAATG
1 AAAATAGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGTAAAATG
* *
6056758 GTAATTTTCGGTGAAATCGGGGTTAAAAACAAAATTTTAGAAGCTTCGGGGGTAAAACGGTAATT
66 GTAATTTTCGGTGAAATCGGGGTTAAAAACGAAATTTTAAAAGCTTCGGGGGTAAAACGGTAATT
* * *
6056823 TTCGATGAAATTGGGGTTAAAAACGGAATTTTGGAAGTTTCAGGGGT
131 TTCGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAGTTTCAGGGGT
*
6056870 AAAATAGTAATTTTTGGTGAAATCGGGG-TAAAAATGGAATTTTGGAAGTTTCGGGGGTAAAAAT
1 AAAATAGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT-AAAAT
* * * * *
6056934 GGTAATTTTCGGTGAAATTGGGGTTAAAAAAGGAATTTTAAAAGATTCGGGGGGTAAAATGGTAA
65 GGTAATTTTCGGTGAAATCGGGGTTAAAAACGAAATTTTAAAAGCTTC-GGGGGTAAAACGGTAA
6056999 TTTT
129 TTTT
6057003 GGAAAGTTTT
Statistics
Matches: 441, Mismatches: 37, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
175 24 0.05
176 70 0.16
177 128 0.29
178 202 0.46
179 17 0.04
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (177 bp):
AAAATAGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGTAAAATG
GTAATTTTCGGTGAAATCGGGGTTAAAAACGAAATTTTAAAAGCTTCGGGGGTAAAACGGTAATT
TTCGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAGTTTCAGGGGT
Found at i:6057024 original size:30 final size:30
Alignment explanation
Indices: 6056996--6057125 Score: 190
Period size: 30 Copynumber: 4.3 Consensus size: 30
6056986 GGTAAAATGG
* *
6056996 TAATTTTGG-AAAGTTTTGGGGTCGAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
6057025 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
6057055 TAATTTTGGAAAAGTTTTGAGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* * *
6057085 TAATTTTGGAAAAGTTTCGAGGTCAAAAGA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
6057115 TAATTTCTGGA
1 TAATTT-TGGA
6057126 CAATTTAGGG
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 9 0.10
30 81 0.86
31 4 0.04
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTTGGGGTCAAAATA
Found at i:6057035 original size:119 final size:117
Alignment explanation
Indices: 6056338--6057002 Score: 830
Period size: 119 Copynumber: 5.6 Consensus size: 117
6056328 ACCCGAGGGC
* * * * *
6056338 AAAATGGTAATTTT-GGTGTAATCGGGGTTTAAAAATGGAATTATAAAAGATTCAGGGGTAAAAT
1 AAAATGGTAATTTTCGGTGAAATTGGGG-TTAAAAATGGAATTTTAGAAGATTCGGGGGTAAAAT
* * * ** *
6056402 GGCAATTTTTGGTGAAATCGGGGTTAAAAACGAAATTTTAAAAGCTTCGGGGGT
65 GGTAATTTTTGGTGAAATCGGGG-TAAAAATGGAATTTTGGAAGTTTCGGGGGT
* * * * *
6056456 AAAACGGTAATTTTCGGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAGTTTTGGGGGTAAAAT
1 AAAATGGTAATTTTC-GGTGAAATTGGGGTTAAAAATGGAATTTTAGAAGATTCGGGGGTAAAAT
* *
6056521 GGTAATTTTCGGTGAAATCGGGTTAAAAAATGGAATTTTGGAAGTTTCGGGGGT
65 GGTAATTTTTGGTGAAATCGGGGT-AAAAATGGAATTTTGGAAGTTTCGGGGGT
* * * * *
6056575 AAAATGGTAATTTTCGGTGAAATTAGGGTTAAAAATGAAATTTTAGAAGCTTCGAGGGTAAAACG
1 AAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAGATTCGGGGGTAAAATG
* * *
6056640 GTAATTTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTGGAAGTTTCAGGGGT
66 GTAA-TTTTTGGTGAAATCG-GGGTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* * * *
6056694 AAAATAGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTC-GGGGTAAAATG
1 AAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAGATTCGGGGGTAAAATG
* *** * *
6056758 GTAATTTTCGGTGAAATCGGGGTTAAAAACAAAATTTTAGAAGCTTCGGGGGT
66 GTAATTTTTGGTGAAATCGGGG-TAAAAATGGAATTTTGGAAGTTTCGGGGGT
* * * * * * *
6056811 AAAACGGTAATTTTCGATGAAATTGGGGTTAAAAACGGAATTTTGGAAGTTTCAGGGGTAAAATA
1 AAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAGATTCGGGGGTAAAATG
6056876 GTAATTTTTGGTGAAATCGGGGTAAAAATGGAATTTTGGAAGTTTCGGGGGT
66 GTAATTTTTGGTGAAATCGGGGTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* *
6056928 AAAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAAAGGAATTTTAAAAGATTCGGGGGGTAAAA
1 -AAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAGATTC-GGGGGTAAAA
6056993 TGGTAATTTT
64 TGGTAATTTT
6057003 GGAAAGTTTT
Statistics
Matches: 473, Mismatches: 65, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
116 2 0.00
117 110 0.23
118 153 0.32
119 194 0.41
120 14 0.03
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (117 bp):
AAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAGATTCGGGGGTAAAATG
GTAATTTTTGGTGAAATCGGGGTAAAAATGGAATTTTGGAAGTTTCGGGGGT
Found at i:6059075 original size:18 final size:17
Alignment explanation
Indices: 6059036--6059130 Score: 63
Period size: 18 Copynumber: 5.5 Consensus size: 17
6059026 TTTAAATTTG
6059036 TTTTATAATTTAAATTTAAA
1 TTTTA-AATTTAAA--TAAA
*
6059056 TTTTAAATTTAAGGTAAA
1 TTTTAAATTTAA-ATAAA
* *
6059074 -TTTAAA-ATAATTAAA
1 TTTTAAATTTAAATAAA
6059089 -TTTAAATTTAAGAT-AA
1 TTTTAAATTTAA-ATAAA
*
6059105 TTTAAATATTTAAATAAA
1 TTTTAA-ATTTAAATAAA
*
6059123 TTTAAAAT
1 TTTTAAAT
6059131 CAAATTAACT
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
15 10 0.16
16 8 0.13
17 15 0.24
18 18 0.29
19 7 0.11
20 5 0.08
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TTTTAAATTTAAATAAA
Found at i:6059081 original size:7 final size:6
Alignment explanation
Indices: 6059037--6059099 Score: 56
Period size: 6 Copynumber: 9.8 Consensus size: 6
6059027 TTAAATTTGT
**
6059037 TTTATAA TTTAAA TTTAAA TTTTAAA TTT-AA GGTAAA TTTAAAA TAATTAAA
1 TTTA-AA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA TTT-AAA T--TTAAA
6059089 TTTAAA TTTAA
1 TTTAAA TTTAA
6059100 GATAATTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
5 3 0.06
6 24 0.51
7 14 0.30
8 4 0.09
9 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:6059136 original size:12 final size:10
Alignment explanation
Indices: 6059059--6059128 Score: 51
Period size: 10 Copynumber: 7.0 Consensus size: 10
6059049 ATTTAAATTT
*
6059059 TAAATTTAAGG
1 TAAATTTAA-A
6059070 TAAATTTAAA
1 TAAATTTAAA
6059080 -ATAA-TTAAA
1 TA-AATTTAAA
6059089 TTTAAATTTAAGA
1 --TAAATTTAA-A
6059102 T-AATTTAAA
1 TAAATTTAAA
6059111 T--ATTTAAA
1 TAAATTTAAA
6059119 TAAATTTAAA
1 TAAATTTAAA
6059129 ATCAAATTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 17
0.74 0.01 0.25
Matches are distributed among these distances:
8 8 0.16
9 8 0.16
10 16 0.32
11 12 0.24
12 5 0.10
13 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:6059507 original size:68 final size:70
Alignment explanation
Indices: 6059420--6060144 Score: 408
Period size: 68 Copynumber: 10.5 Consensus size: 70
6059410 AAGACTTCGC
* *
6059420 TATCCAACTTTACTTCAATTTCAAGAGGATGACATTGCC-CT-TACTTCAATTTCAGAGATGAAG
1 TATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGCCACTCTACTTCAATTTCAGAGATGAAG
*
6059483 ACGTTT
65 ACGTGT
* * * * * * ** *
6059489 TATCCATTCTACTTCAATTTCAAGGGGACG-TGTTATCCGCTCTACTTCAATTTTCA-AGGGGAT
1 TATCCACTCTACTTCAATTTCAAGAGGATGACGTT-GCCACTCTACTTCAA-TTTCAGAGATGAA
6059552 GAC--G-
64 GACGTGT
* * * * * *
6059556 T-TGCTCT-TACTTCAATTTCGGAGATGAAGACGTTTATCCACTCTACTTCAATTTCA-AG--G-
1 TATCCACTCTACTTCAATTTC-AAGAGGATGACG-TT-GCCACTCTACTTCAATTTCAGAGATGA
*
6059615 GGACGTGT
63 AGACGTGT
* * *
6059623 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTG-CTCT-TACTTCAATTTCGGAGATGAAGA
1 TATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCCACTCTACTTCAATTTCAGAGATGAAGA
*
6059686 CCTGT
66 CGTGT
* *
6059691 TATCCACTCTACTTCAATTTCAAGGGGATGAAGACGCGTTATCCACTCTACTTCAATTTCAG-G-
1 TATCCACTCTACTTCAATTTCAAGAGGAT---GA--CGTT-GCCACTCTACTTCAATTTCAGAGA
*
6059754 -G-GGA--TG-
60 TGAAGACGTGT
* ** * * * *
6059760 AAT-TGCTCTTACTTCAATTTCAGAGATGAAGACGTTTTATCCGCTCTACTTCAATTTCAAGAGA
1 TATCCACTC-TACTTCAATTTCA-AGAGGATGACG--TT-GCCACTCTACTTCAATTTC-AGAGA
6059824 TGAGAGA-GTGT
60 TGA-AGACGTGT
* * *
6059835 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTG-CTCT-TACTTCAATTTCGGA-ATGAAGA
1 TATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCCACTCTACTTCAATTTCAGAGATGAAGA
*
6059897 CGTTT
66 CGTGT
* * * * ** *
6059902 TATCCACTCTACTTCAATTTCAAGGGGACG-TGTTATCCACTCTACTTCAATTTCA-AGGGGATG
1 TATCCACTCTACTTCAATTTCAAGAGGATGACGTT-GCCACTCTACTTCAATTTCAGAGATGAAG
6059965 AC--G-
65 ACGTGT
* * * * * * *
6059968 T-TGCTCT-TACTTCAATTTCGGAGATGAAGACCTGTTATCCACTCTACTTCAATTTCAAGGGGA
1 TATCCACTCTACTTCAATTTC-AAGAGGATGA-C-GTT-GCCACTCTACTTCAATTTC-A-GAGA
*
6060031 TGAAGACGCGT
60 TGAAGACGTGT
* * * * *
6060042 TATCCAAACTCTACTTCACTTTAAAGAGGATGAGGGTG-CTCT-TACTTCAA-TTCAGAGATGAA
1 TATCC--ACTCTACTTCAATTTCAAGAGGATGACGTTGCCACTCTACTTCAATTTCAGAGATGAA
6060104 GACGTGT
64 GACGTGT
*
6060111 TATCCAACTCTACTTCAATTTCGAGAGGATGACG
1 TATCC-ACTCTACTTCAATTTCAAGAGGATGACG
6060145 GTTGATTCTT
Statistics
Matches: 509, Mismatches: 91, Indels: 113
0.71 0.13 0.16
Matches are distributed among these distances:
64 27 0.05
65 29 0.06
66 16 0.03
67 74 0.15
68 146 0.29
69 83 0.16
70 25 0.05
71 17 0.03
72 12 0.02
73 11 0.02
74 11 0.02
75 23 0.05
76 16 0.03
77 9 0.02
78 10 0.02
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (70 bp):
TATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCCACTCTACTTCAATTTCAGAGATGAAGA
CGTGT
Found at i:6059970 original size:100 final size:103
Alignment explanation
Indices: 6059420--6060132 Score: 987
Period size: 101 Copynumber: 6.9 Consensus size: 103
6059410 AAGACTTCGC
* * * * *
6059420 TATCCAACTTTACTTCAATTTCAAGAGGATGACATTGCCCTTACTTCAATTTCAGAGATGAAGAC
1 TATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGAC
*
6059485 GTTTTATCCATTCTACTTCAATTTCAAGG-G-GACGTGT
65 GTTTTATCCACTCTACTTCAATTTCAAGGAGAGACGTGT
*
6059522 TATCCGCTCTACTTCAATTTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGAC
1 TATCCACTCTACTTCAA-TTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGAC
6059587 G-TTTATCCACTCTACTTCAATTTCAAGG-G-GACGTGT
65 GTTTTATCCACTCTACTTCAATTTCAAGGAGAGACGTGT
*
6059623 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGACC
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGACG
* *
6059688 TGTTATCCACTCTACTTCAATTTCAAGGGGATGAAGACGCGT
66 TTTTATCCACTCTACTTCAATTTCAA--GGA-G-AGACGTGT
* * *
6059730 TATCCACTCTACTTCAATTTCAGGGGGATGA-ATTGCTCTTACTTCAATTTCAGAGATGAAGACG
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGACG
* *
6059794 TTTTATCCGCTCTACTTCAATTTCAAGAGATGAGAGAGTGT
66 TTTTATCCACTCTACTTCAATTTCAAG-GA-GAGA-CGTGT
6059835 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCGGA-ATGAAGACG
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGACG
6059899 TTTTATCCACTCTACTTCAATTTCAAGG-G-GACGTGT
66 TTTTATCCACTCTACTTCAATTTCAAGGAGAGACGTGT
*
6059935 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGACC
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGACG
* *
6060000 TGTTATCCACTCTACTTCAATTTCAAGGGGATGAAGACGCGT
66 TTTTATCCACTCTACTTCAATTTCAA--GGA-G-AGACGTGT
* * * * * *
6060042 TATCCAAACTCTACTTCACTTTAAAGAGGATGAGGGTGCTCTTACTTCAA-TTCAGAGATGAAGA
1 TATCC--ACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGA
*
6060106 CGTGTTATCCAACTCTACTTCAATTTC
64 CGTTTTATCC-ACTCTACTTCAATTTC
6060133 GAGAGGATGA
Statistics
Matches: 556, Mismatches: 34, Indels: 35
0.89 0.05 0.06
Matches are distributed among these distances:
100 106 0.19
101 119 0.21
102 50 0.09
103 4 0.01
104 5 0.01
105 74 0.13
106 75 0.13
107 47 0.08
108 22 0.04
109 54 0.10
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (103 bp):
TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGACG
TTTTATCCACTCTACTTCAATTTCAAGGAGAGACGTGT
Found at i:6060020 original size:312 final size:314
Alignment explanation
Indices: 6059420--6060142 Score: 1203
Period size: 312 Copynumber: 2.3 Consensus size: 314
6059410 AAGACTTCGC
* *
6059420 TATCCAACTTTACTTCAATTTCAAGAGGATGACATTGCCCTTACTTCAATTTCAGAGATGAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGAC
* * *
6059485 GTTTTATCCATTCTACTTCAATTTCAAG-G--G-GACGTGTTATCCGCTCTACTTCAATTTTCAA
66 GTTTTATCCACTCTACTTCAATTTCAAGAGATGAGAAGTGTTATCCACTCTACTTCAATTTTCAA
6059546 GGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGACGTTTATCCACTCTACTTCAATTTC
131 GGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGACGTTTATCCACTCTACTTCAATTTC
6059611 AAGGGGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCG
196 AAGGGGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCG
6059676 GAGATGAAGACCTGTTATCCACTCTACTTCAATTTCAAGGGGATGAAGACGCGT
261 GAGATGAAGACCTGTTATCCACTCTACTTCAATTTCAAGGGGATGAAGACGCGT
* *
6059730 TATCC-ACTCTACTTCAATTTCAGGGGGATGA-ATTGCTCTTACTTCAATTTCAGAGATGAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGAC
*
6059793 GTTTTATCCGCTCTACTTCAATTTCAAGAGATGAGAGAGTGTTATCCACTCTACTTCAA-TTTCA
66 GTTTTATCCACTCTACTTCAATTTCAAGAGATGAGA-AGTGTTATCCACTCTACTTCAATTTTCA
6059857 AGGGGATGACGTTGCTCTTACTTCAATTTCGGA-ATGAAGACGTTTTATCCACTCTACTTCAATT
130 AGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGACG-TTTATCCACTCTACTTCAATT
6059921 TCAAGGGGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTT
194 TCAAGGGGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTT
6059986 CGGAGATGAAGACCTGTTATCCACTCTACTTCAATTTCAAGGGGATGAAGACGCGT
259 CGGAGATGAAGACCTGTTATCCACTCTACTTCAATTTCAAGGGGATGAAGACGCGT
* * ***
6060042 TATCCAAACTCTACTTCACTTTAAAGAGGATGAGGGTGCTCTTACTTCAA-TTCAGAGATGAAGA
1 TATCC-AACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGA
* *
6060106 CGTGTTATCCAACTCTACTTCAATTTCGAGAGGATGA
65 CGTTTTATCC-ACTCTACTTCAATTTCAAGA-GATGA
6060143 CGGTTGATTC
Statistics
Matches: 385, Mismatches: 17, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
308 57 0.15
309 24 0.06
310 5 0.01
311 10 0.03
312 187 0.49
313 20 0.05
314 45 0.12
315 32 0.08
316 5 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (314 bp):
TATCCAACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGAC
GTTTTATCCACTCTACTTCAATTTCAAGAGATGAGAAGTGTTATCCACTCTACTTCAATTTTCAA
GGGGATGACGTTGCTCTTACTTCAATTTCGGAGATGAAGACGTTTATCCACTCTACTTCAATTTC
AAGGGGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCG
GAGATGAAGACCTGTTATCCACTCTACTTCAATTTCAAGGGGATGAAGACGCGT
Found at i:6060073 original size:41 final size:39
Alignment explanation
Indices: 6059990--6060074 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 39
6059980 CAATTTCGGA
* *
6059990 GATGAAGACCTGTTATCCACTCTACTTCAATTTCAAGGG
1 GATGAAGACCTGTTATCCACTCTACTTCAATTTAAAGAG
*
6060029 GATGAAGACGC-GTTATCCAAACTCTACTTCACTTTAAAGAG
1 GATGAAGAC-CTGTTATCC--ACTCTACTTCAATTTAAAGAG
6060070 GATGA
1 GATGA
6060075 GGGTGCTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
39 16 0.40
40 1 0.03
41 23 0.57
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (39 bp):
GATGAAGACCTGTTATCCACTCTACTTCAATTTAAAGAG
Found at i:6072354 original size:59 final size:59
Alignment explanation
Indices: 6072235--6072898 Score: 779
Period size: 59 Copynumber: 11.2 Consensus size: 59
6072225 ACCCGAGGGC
* * ** *
6072235 AAAATGGTAA--TTTGGTGTAATCGGGGTTTAAAAATGGAATTATAAAAGATTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGG-TTAAAAATGGAATTTTGGAAGTTTCGGGGGT
** * * * *
6072293 AAAATGACAATTTTTGGTGAAATCGGGGTTAAAAATGAAATTTTAGAAGCTTCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* *
6072352 AAAACGGTAATTTTCGGTGAGAGTGAAATC-AGG-T-AAAATGGAATTTTGGAAGTTT-GGGGGT
1 AAAATGGTAATTTT---T--G-GTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* * *
6072413 AAAATGGTAA-TTTTGGTGAAATCGAGGTTTAAAAACGAAATTTTGGAAGTTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCG-GGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* * * *
6072472 AAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGAAATTTTAGAAGCTTC-GGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* **
6072530 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAGTTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* *
6072589 AAAATAGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* * * * * *
6072648 AAAATGGTTATTTTCGGTGAAATCGAGGTTAAAAATGAAATTTTAGAAGCTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* * *
6072707 AAAATGGTAATTTTCGATGAAATCGGGGTTAAAAACGGAATTTTGGAAGTTT-GGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* * *
6072765 AAAATAGTAATTTTCGATGAAATCGGGGTTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGG-TTAAAAATGGAATTTTGGAAGTTTCGGGGGT
* * * * ** *
6072825 AAAATGGTAATTTTCGATGAAATAGGGGTTAAAAATAGAATTTTAAAAGATTCGAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCG-GGGGT
6072885 AAAATGGTAATTTT
1 AAAATGGTAATTTT
6072899 GGAAAAGTTT
Statistics
Matches: 530, Mismatches: 58, Indels: 34
0.85 0.09 0.05
Matches are distributed among these distances:
54 8 0.02
55 1 0.00
56 1 0.00
57 2 0.00
58 112 0.21
59 279 0.53
60 82 0.15
61 14 0.03
62 19 0.04
63 1 0.00
64 3 0.01
65 8 0.02
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTCGGGGGT
Found at i:6072749 original size:177 final size:176
Alignment explanation
Indices: 6072235--6072898 Score: 903
Period size: 177 Copynumber: 3.8 Consensus size: 176
6072225 ACCCGAGGGC
* * * ** *
6072235 AAAATGGTAA-TTTGGTGTAATCGGGGTTTAAAAATGGAATTATAAAAGATTCGGGGGTAAAATG
1 AAAATAGTAATTTTGGTGAAATCGGGGTTTAAAAATGGAATTTTGGAAGTTTCGGGGGTAAAATG
** * * * *
6072299 ACAATTTTTGGTGAAATCGGGGTTAAAAATGAAATTTTAGAAGCTTCAGGGGTAAAACGGTAATT
66 GTAATTTTCGGTGAAATCGAGGTTAAAAATGAAATTTTAGAAGCTTCGGGGGTAAAATGGTAATT
6072364 TTCGGTGAGAGTGAAATC-AGG-T-AAAATGGAATTTTGGAAGTTTGGGGGT
131 TTC-----GA-TGAAATCGAGGTTAAAAATGGAATTTTGGAAGTTTGGGGGT
* * * *
6072413 AAAATGGTAATTTTGGTGAAATCGAGGTTTAAAAACGAAATTTTGGAAGTTTCGGGGGTAAAATG
1 AAAATAGTAATTTTGGTGAAATCGGGGTTTAAAAATGGAATTTTGGAAGTTTCGGGGGTAAAATG
*
6072478 GTAATTTTTGGTGAAATC-AGGGTTAAAAATGAAATTTTAGAAGCTTC-GGGGTAAAATGGTAAT
66 GTAATTTTCGGTGAAATCGA-GGTTAAAAATGAAATTTTAGAAGCTTCGGGGGTAAAATGGTAAT
* * *
6072541 TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAGTTTTAGGGGT
130 TTTCGATGAAATCGAGGTTAAAAATGGAATTTTGGAAG-TTTGGGGGT
6072589 AAAATAGTAATTTTCGGTGAAATCGGGG-TTAAAAATGGAATTTTGGAAGTTTCGGGGGTAAAAT
1 AAAATAGTAATTTT-GGTGAAATCGGGGTTTAAAAATGGAATTTTGGAAGTTTCGGGGGTAAAAT
*
6072653 GGTTATTTTCGGTGAAATCGAGGTTAAAAATGAAATTTTAGAAGCTTCGGGGGTAAAATGGTAAT
65 GGTAATTTTCGGTGAAATCGAGGTTAAAAATGAAATTTTAGAAGCTTCGGGGGTAAAATGGTAAT
* *
6072718 TTTCGATGAAATCGGGGTTAAAAACGGAATTTTGGAAGTTTGGGGGT
130 TTTCGATGAAATCGAGGTTAAAAATGGAATTTTGGAAGTTTGGGGGT
*
6072765 AAAATAGTAATTTTCGATGAAATCGGGGTTTAAAAATGGAATTTTGGAAGTTTCGGGGGTAAAAT
1 AAAATAGTAATTTT-GGTGAAATCGGGGTTTAAAAATGGAATTTTGGAAGTTTCGGGGGTAAAAT
* * * * *
6072830 GGTAATTTTCGATGAAATAGGGGTTAAAAAT-AGAATTTTAAAAGATTCGAGGGGTAAAATGGTA
65 GGTAATTTTCGGTGAAATCGAGGTTAAAAATGA-AATTTTAGAAGCTTCG-GGGGTAAAATGGTA
6072894 ATTTT
128 ATTTT
6072899 GGAAAAGTTT
Statistics
Matches: 441, Mismatches: 33, Indels: 24
0.89 0.07 0.05
Matches are distributed among these distances:
172 7 0.02
173 4 0.01
174 1 0.00
175 18 0.04
176 135 0.31
177 140 0.32
178 47 0.11
179 89 0.20
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (176 bp):
AAAATAGTAATTTTGGTGAAATCGGGGTTTAAAAATGGAATTTTGGAAGTTTCGGGGGTAAAATG
GTAATTTTCGGTGAAATCGAGGTTAAAAATGAAATTTTAGAAGCTTCGGGGGTAAAATGGTAATT
TTCGATGAAATCGAGGTTAAAAATGGAATTTTGGAAGTTTGGGGGT
Found at i:6072914 original size:30 final size:30
Alignment explanation
Indices: 6072880--6073025 Score: 143
Period size: 30 Copynumber: 4.7 Consensus size: 30
6072870 AAAGATTCGA
*
6072880 GGGGTAAAATGGTAATTTTGGAAAAGTTTT-
1 GGGGTAAAAT-ATAATTTTGGAAAAGTTTTG
* *
6072910 GGGGTCGAAATGTAATTTTGGAAAAGTTTTGG
1 GGGGT-AAAATATAATTTTGGAAAAGTTTT-G
* *
6072942 GGGGTTTAAAATACAATTTTGGAAAAGTTTTA
1 GGGG--TAAAATATAATTTTGGAAAAGTTTTG
* *
6072974 GGGTTAAAATATAATTTTGGAAAAG-TTTC
1 GGGGTAAAATATAATTTTGGAAAAGTTTTG
*
6073003 GGGGTCAAAAGATAATTTCTGGA
1 GGGGT-AAAATATAATTT-TGGA
6073026 CAATTTAGGG
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
29 7 0.07
30 55 0.56
31 8 0.08
32 7 0.07
33 21 0.21
34 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.35
Consensus pattern (30 bp):
GGGGTAAAATATAATTTTGGAAAAGTTTTG
Found at i:6072960 original size:93 final size:93
Alignment explanation
Indices: 6072849--6073025 Score: 225
Period size: 93 Copynumber: 1.9 Consensus size: 93
6072839 CGATGAAATA
* * *
6072849 GGGGTTAAAAATAGAATTTT-AAAAGATTCGAGGGGTAAAATGGTAATTTTGGAAAAGTTTTGGG
1 GGGGTTAAAAATACAATTTTGAAAAG-TTCGAGGGGTAAAAT-ATAATTTTGGAAAAGTTTCGGG
*
6072913 GTCGAAATG-TAATTT-TGGAAAAGTTTTGG
64 GTC-AAAAGATAATTTCTGGAAAAGTTTTGG
* ** *
6072942 GGGGTTTAAAATACAATTTTGGAAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTCGGGG
1 GGGGTTAAAAATACAATTTT-GAAAAGTTCGAGGGGTAAAATATAATTTTGGAAAAGTTTCGGGG
6073007 TCAAAAGATAATTTCTGGA
65 TCAAAAGATAATTTCTGGA
6073026 CAATTTAGGG
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
92 4 0.06
93 47 0.65
94 16 0.22
95 5 0.07
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (93 bp):
GGGGTTAAAAATACAATTTTGAAAAGTTCGAGGGGTAAAATATAATTTTGGAAAAGTTTCGGGGT
CAAAAGATAATTTCTGGAAAAGTTTTGG
Found at i:6074955 original size:6 final size:6
Alignment explanation
Indices: 6074939--6075013 Score: 63
Period size: 6 Copynumber: 13.0 Consensus size: 6
6074929 TTAAATTTGT
**
6074939 TTTATAA TTTAAA TTTAAA TTTTAAA -TT-AA GGTAAA TTTAAA TTTAAGA
1 TTTA-AA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A
6074988 --TAAA TTTAAA TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
6075014 ATCAATTTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
4 7 0.12
5 6 0.11
6 33 0.58
7 11 0.19
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:6074997 original size:23 final size:22
Alignment explanation
Indices: 6074944--6075004 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 22
6074934 TTTGTTTTAT
*
6074944 AATTTAAATTTAAATTTTAAATT
1 AATTTAAATTTAAA-TTTAAATA
**
6074967 AAGGTAAATTTAAATTTAAGATA
1 AATTTAAATTTAAATTTAA-ATA
6074990 AATTTAAATTTAAAT
1 AATTTAAATTTAAAT
6075005 AAATTTAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 5 0.16
23 27 0.84
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (22 bp):
AATTTAAATTTAAATTTAAATA
Found at i:6075007 original size:27 final size:28
Alignment explanation
Indices: 6074977--6075032 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
6074967 AAGGTAAATT
*
6074977 TAAATTTAAGATAAATTTAA-ATTTAAA
1 TAAATTTAAAATAAATTTAACATTTAAA
* *
6075004 TAAATTTAAAATCAATTTAACCTTTAAA
1 TAAATTTAAAATAAATTTAACATTTAAA
6075032 T
1 T
6075033 TAAAGCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (28 bp):
TAAATTTAAAATAAATTTAACATTTAAA
Found at i:6075015 original size:17 final size:17
Alignment explanation
Indices: 6074944--6075013 Score: 89
Period size: 17 Copynumber: 4.5 Consensus size: 17
6074934 TTTGTTTTAT
6074944 AATTTAAATTTAA-AT-
1 AATTTAAATTTAAGATA
*
6074959 --TTTAAA-TTAAGGTA
1 AATTTAAATTTAAGATA
6074973 AATTTAAATTTAAGATA
1 AATTTAAATTTAAGATA
6074990 AATTTAAATTTAA-ATA
1 AATTTAAATTTAAGATA
6075006 AATTTAAA
1 AATTTAAA
6075014 ATCAATTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
12 4 0.08
13 7 0.15
16 17 0.35
17 20 0.42
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (17 bp):
AATTTAAATTTAAGATA
Found at i:6076669 original size:43 final size:43
Alignment explanation
Indices: 6076619--6076709 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 43
6076609 TTAATTAATT
*
6076619 TTAAAATT-T-GAAAAATATATAA-AATATTTTAAAATTAAAATAA
1 TTAAAATTATAGAAAAATATAAAACAATA-TTTAAAA--AAAATAA
* *
6076662 TTAAAATTATATAAAAATATAAAACAATATTTAAAAAAATTAA
1 TTAAAATTATAGAAAAATATAAAACAATATTTAAAAAAAATAA
6076705 TTAAA
1 TTAAA
6076710 TGTTGATATG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
43 19 0.45
44 1 0.02
45 18 0.43
46 4 0.10
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (43 bp):
TTAAAATTATAGAAAAATATAAAACAATATTTAAAAAAAATAA
Found at i:6086173 original size:23 final size:23
Alignment explanation
Indices: 6086140--6086185 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
6086130 TATTGCTGTA
*
6086140 ATGCCAGCTCCTCCTGCAGATAC
1 ATGCCAACTCCTCCTGCAGATAC
6086163 ATGCCAACTCCTCCTGCAGATAC
1 ATGCCAACTCCTCCTGCAGATAC
6086186 GTTCTCATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.22
Consensus pattern (23 bp):
ATGCCAACTCCTCCTGCAGATAC
Found at i:6086709 original size:24 final size:23
Alignment explanation
Indices: 6086677--6086733 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 23
6086667 TTAAATTGAT
*
6086677 TTTAAATTTA-TTTAAATTTAATTA
1 TTTAAATTTACCTTAAATTTAA--A
6086701 TTTAAATTTACCTTAAATTTAAA
1 TTTAAATTTACCTTAAATTTAAA
6086724 TTTAAATTTA
1 TTTAAATTTA
6086734 AATTTAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 11 0.35
24 10 0.32
25 10 0.32
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAAATTTACCTTAAATTTAAA
Found at i:6086749 original size:31 final size:30
Alignment explanation
Indices: 6086686--6086754 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 30
6086676 TTTTAAATTT
*
6086686 ATTTAAATTTAATTATTTAAATTTACCTTAA
1 ATTTAAATTTAA-TATTTAAATTTAACTTAA
*
6086717 ATTTAAATTTAA-ATTTAAATTTAATTACTAA
1 ATTTAAATTTAATATTTAAATTTAACT--TAA
6086748 ATTTAAA
1 ATTTAAA
6086755 CATTAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 12 0.35
31 22 0.65
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
ATTTAAATTTAATATTTAAATTTAACTTAA
Found at i:6086750 original size:13 final size:11
Alignment explanation
Indices: 6086667--6086753 Score: 65
Period size: 11 Copynumber: 7.9 Consensus size: 11
6086657 TTATTTAGAG
* *
6086667 TTAAATTGATT
1 TTAAATTTAAT
6086678 TTAAATTT-AT
1 TTAAATTTAAT
6086688 TTAAATTTAA-
1 TTAAATTTAAT
6086698 TT--ATTTAAAT
1 TTAAATTT-AAT
** *
6086708 TTACCTTAAAT
1 TTAAATTTAAT
6086719 TTAAATTTAAAT
1 TTAAATTT-AAT
6086731 TTAAATTTAAT
1 TTAAATTTAAT
6086742 TACTAAATTTAA
1 T--TAAATTTAA
6086754 ACATTAAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
8 4 0.07
9 2 0.03
10 13 0.21
11 20 0.33
12 13 0.21
13 9 0.15
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:6086769 original size:6 final size:6
Alignment explanation
Indices: 6086677--6086754 Score: 74
Period size: 6 Copynumber: 13.0 Consensus size: 6
6086667 TTAAATTGAT
* *
6086677 TTTAAA TTT--A TTTAAA TTTAATTA TTTAAA TTT-AC CTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAA--A TTTAAA TTTAAA TTTAAA TTTAAA
6086724 TTTAAA TTTAAA TTT-AA TTACTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TT--TAAA TTTAAA
6086755 CATTAAAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
4 4 0.07
5 7 0.12
6 38 0.63
7 1 0.02
8 10 0.17
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:6087390 original size:19 final size:19
Alignment explanation
Indices: 6087367--6087413 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
6087357 ACCTCGTCAA
6087367 CATTAATATTAATATTAAAT
1 CATTAATATT-ATATTAAAT
* *
6087387 -ATTAGTTATTATATTAAGT
1 CATTA-ATATTATATTAAAT
6087406 CATTAATA
1 CATTAATA
6087414 ATATTTTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 5
0.73 0.10 0.17
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (19 bp):
CATTAATATTATATTAAAT
Found at i:6088177 original size:21 final size:21
Alignment explanation
Indices: 6088147--6088191 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6088137 GAGAAGAGAG
*
6088147 AAAATGAAAAAGAGGAAATATA
1 AAAATGAAAAAAAGGAAAT-TA
*
6088169 AAAAT-AAAAAAATGAAATTA
1 AAAATGAAAAAAAGGAAATTA
6088189 AAA
1 AAA
6088192 CCCTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (21 bp):
AAAATGAAAAAAAGGAAATTA
Found at i:6088664 original size:30 final size:29
Alignment explanation
Indices: 6088634--6088794 Score: 115
Period size: 29 Copynumber: 5.5 Consensus size: 29
6088624 GGATGATCCA
6088634 AAAATTACCATTTTACCCCTGAACTTTCC
1 AAAATTACCATTTTACCCCTGAACTTTCC
6088663 AAAATT-CCATTTTTAACCCC-G-A-TTTCACC
1 AAAATTACCA-TTTT-ACCCCTGAACTTT--CC
* *
6088692 AAAAATTATCATTTTACCCCTAAACTTTCC
1 -AAAATTACCATTTTACCCCTGAACTTTCC
* *
6088722 AAAA--GCCTATCTTTAACCCT-AA-TTTCACC
1 AAAATTACC-AT-TTTACCCCTGAACTTT--CC
*
6088751 AAAAATCACCATTTTACCCCTCGAACTTTCC
1 -AAAATTACCATTTTACCCCT-GAACTTTCC
6088782 AAAATT-CCATTTT
1 AAAATTACCATTTT
6088795 TAGCCCCGAT
Statistics
Matches: 105, Mismatches: 8, Indels: 38
0.70 0.05 0.25
Matches are distributed among these distances:
27 7 0.07
28 8 0.08
29 39 0.37
30 34 0.32
31 7 0.07
32 7 0.07
33 3 0.03
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCTGAACTTTCC
Found at i:6088723 original size:59 final size:59
Alignment explanation
Indices: 6088631--6088806 Score: 255
Period size: 59 Copynumber: 3.0 Consensus size: 59
6088621 CCTGGATGAT
6088631 CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * **
6088690 CCAAAAATTATCATTTTACCCCTAAACTTTCCAAAA-GCCTATCTTTAACCCTAATTTCA
1 CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCC-ATTTTTAACCCCGATTTCA
* *
6088749 CCAAAAATCACCATTTTACCCCTCGAACTTTCCAAAATTCCATTTTTAGCCCCGATTT
1 CCAAAAATTACCATTTTACCCCT-GAACTTTCCAAAATTCCATTTTTAACCCCGATTT
6088807 TGCTAAAGTT
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
58 2 0.02
59 71 0.71
60 25 0.25
61 2 0.02
ACGTcount: A:0.32, C:0.31, G:0.03, T:0.34
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:6088906 original size:28 final size:28
Alignment explanation
Indices: 6088850--6088909 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
6088840 GATTTAACCA
* *
6088850 AAAATTACCATTTTGCCCTCGCTTGTCC
1 AAAATTACCATTTTGCCCTCGCGTATCC
*
6088878 AAAATTACCATTTTG-CCTCCGGGTATCC
1 AAAATTACCATTTTGCCCT-CGCGTATCC
6088906 AAAA
1 AAAA
6088910 GTCTCATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (28 bp):
AAAATTACCATTTTGCCCTCGCGTATCC
Found at i:6096033 original size:57 final size:58
Alignment explanation
Indices: 6095928--6096277 Score: 462
Period size: 57 Copynumber: 6.1 Consensus size: 58
6095918 AGAAGCCTAT
*
6095928 TTTTAACCCCGATTTCATCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA
1 TTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA
* *
6095986 TTTTAACCCCGATTTTACC-AAAATTACCATTTTA-CCCTCAAATTTTCCAAAATTCCA
1 TTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCA
* * *
6096043 TTTTTAACCTCAATTT-ACCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCA
1 -TTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA
* * *
6096101 TTTTAACCCCAATTTCACCAAAAAATACCA-TTTACCCCTAAACTTTCCAAAATTCTA
1 TTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA
* * * *
6096158 TTTTAACCCCGATTTCA-TAAAAATTACCA-TTTACCCCCAAACTTTCTAAAA-GCCTA
1 TTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCC-A
* * *
6096214 TCTTTAACCCCGATTTCACCAAAAATCACCATTTTACCCCTCGAACTTTCTAAAATTCCA
1 T-TTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCA
6096274 TTTT
1 TTTT
6096278 TAGCCTCAGT
Statistics
Matches: 258, Mismatches: 23, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
55 1 0.00
56 36 0.14
57 106 0.41
58 84 0.33
59 15 0.06
60 14 0.05
61 2 0.01
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (58 bp):
TTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA
Found at i:6096121 original size:115 final size:116
Alignment explanation
Indices: 6095926--6096279 Score: 452
Period size: 115 Copynumber: 3.1 Consensus size: 116
6095916 CCAGAAGCCT
* *
6095926 ATTTTTAACCCCGATTTCATCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTA
1 ATTTTTAACCCCAATTT-ACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTA
* *
6095991 ACCCCGATTTTACC-AAAATTACCATTTTACCCTCAAATTTTCCAAAATTCC
65 ACCCCGATTTCACCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCC
* *
6096042 ATTTTTAACCTCAATTTACCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTAA
1 ATTTTTAACCCCAATTTACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAA
* * *
6096107 CCCCAATTTCACCAAAAAATACCA-TTTACCC-CTAAACTTTCCAAAATTCT
66 CCCCGATTTCACCAAAAATTACCATTTTACCCTC-AAACTTTCCAAAATTCC
* * * * *
6096157 A-TTTTAACCCCGATTT-CATAAAAATTACCA-TTTACCCCCAAACTTTCTAAAA-GCCTATCTT
1 ATTTTTAACCCCAATTTAC-CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCC-AT-TT
* * *
6096218 TAACCCCGATTTCACCAAAAATCACCATTTTACCCCTCGAACTTTCTAAAATTCC
63 TAACCCCGATTTCACCAAAAATTACCATTTTA-CCCTCAAACTTTCCAAAATTCC
6096273 ATTTTTA
1 ATTTTTA
6096280 GCCTCAGTTT
Statistics
Matches: 207, Mismatches: 22, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
112 2 0.01
113 22 0.11
114 51 0.25
115 84 0.41
116 42 0.20
117 6 0.03
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (116 bp):
ATTTTTAACCCCAATTTACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAA
CCCCGATTTCACCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCC
Found at i:6096274 original size:29 final size:29
Alignment explanation
Indices: 6095948--6096277 Score: 164
Period size: 29 Copynumber: 11.4 Consensus size: 29
6095938 GATTTCATCA
*
6095948 AAAATTACCATTTTACCCCT-AAACTTTCC
1 AAAATT-CCATTTTACCCCTCGAACTTTCC
* *
6095977 AAAATTCCATTTTAACCC-CG-ATTTTACC
1 AAAATTCCATTTTACCCCTCGAACTTT-CC
* *
6096005 AAAATTACCATTTTA-CCCTCAAATTTTCC
1 AAAATT-CCATTTTACCCCTCGAACTTTCC
*
6096034 AAAATTCCATTTTTA-ACCTC-AA-TTTACC
1 AAAATTCCA-TTTTACCCCTCGAACTTT-CC
6096062 AAAAATTACCATTTTACCCCT-GAACTTTCC
1 -AAAATT-CCATTTTACCCCTCGAACTTTCC
*
6096092 AAAATTCCATTTTAACCC-C-AA-TTTCACC
1 AAAATTCCATTTTACCCCTCGAACTTT--CC
* *
6096120 AAAAAATACCA-TTTACCCCT-AAACTTTCC
1 --AAAATTCCATTTTACCCCTCGAACTTTCC
* * *
6096149 AAAATTCTATTTTAACCC-CG-A-TTTCATA
1 AAAATTCCATTTTACCCCTCGAACTTTC--C
* *
6096177 AAAATTACCA-TTTACCCC-CAAACTTTCT
1 AAAATT-CCATTTTACCCCTCGAACTTTCC
* *
6096205 AAAA-GCCTATCTTTAACCC-CG-A-TTTCACC
1 AAAATTCC-AT-TTTACCCCTCGAACTTT--CC
* *
6096234 AAAAATCACCATTTTACCCCTCGAACTTTCT
1 -AAAAT-TCCATTTTACCCCTCGAACTTTCC
6096265 AAAATTCCATTTT
1 AAAATTCCATTTT
6096278 TAGCCTCAGT
Statistics
Matches: 237, Mismatches: 26, Indels: 76
0.70 0.08 0.22
Matches are distributed among these distances:
26 9 0.04
27 21 0.09
28 68 0.29
29 77 0.32
30 45 0.19
31 11 0.05
32 3 0.01
33 3 0.01
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAATTCCATTTTACCCCTCGAACTTTCC
Found at i:6096334 original size:38 final size:38
Alignment explanation
Indices: 6096260--6096334 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 38
6096250 CCCCTCGAAC
* * * **
6096260 TTTCTAAAATTCCATTTTTAGCCTCAGTTTTGCCAAAG
1 TTTCCAAAATTCCATTTTTAACCCCAGTTTAACCAAAG
* *
6096298 TTTCCAAAATTCTATTTTTAACCCCGGTTTAACCAAA
1 TTTCCAAAATTCCATTTTTAACCCCAGTTTAACCAAA
6096335 AATTACCATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (38 bp):
TTTCCAAAATTCCATTTTTAACCCCAGTTTAACCAAAG
Found at i:6098577 original size:120 final size:120
Alignment explanation
Indices: 6098424--6098668 Score: 481
Period size: 120 Copynumber: 2.0 Consensus size: 120
6098414 GAAAATTATG
*
6098424 AAAATTAGTGGACAAGTAAAACAGCAAAGGGAAGGTAAGACAAAGGATTGAAGAAGATGCAGTTG
1 AAAATTAGTGGACAAGTAAAACAGCAAAGGGAAGGCAAGACAAAGGATTGAAGAAGATGCAGTTG
6098489 GTGGTTATATGGATATGTAAGGAGGCTTGAGCTGCCACAAGATGCAGACTGCAGA
66 GTGGTTATATGGATATGTAAGGAGGCTTGAGCTGCCACAAGATGCAGACTGCAGA
6098544 AAAATTAGTGGACAAGTAAAACAGCAAAGGGAAGGCAAGACAAAGGATTGAAGAAGATGCAGTTG
1 AAAATTAGTGGACAAGTAAAACAGCAAAGGGAAGGCAAGACAAAGGATTGAAGAAGATGCAGTTG
6098609 GTGGTTATATGGATATGTAAGGAGGCTTGAGCTGCCACAAGATGCAGACTGCAGA
66 GTGGTTATATGGATATGTAAGGAGGCTTGAGCTGCCACAAGATGCAGACTGCAGA
6098664 AAAAT
1 AAAAT
6098669 AGAGGCTTTC
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 124 1.00
ACGTcount: A:0.40, C:0.11, G:0.30, T:0.19
Consensus pattern (120 bp):
AAAATTAGTGGACAAGTAAAACAGCAAAGGGAAGGCAAGACAAAGGATTGAAGAAGATGCAGTTG
GTGGTTATATGGATATGTAAGGAGGCTTGAGCTGCCACAAGATGCAGACTGCAGA
Found at i:6118455 original size:16 final size:17
Alignment explanation
Indices: 6118434--6118465 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6118424 TTTATATTTC
6118434 TTTTTGAAT-TTTTATT
1 TTTTTGAATATTTTATT
6118450 TTTTTGAATATTTTAT
1 TTTTTGAATATTTTAT
6118466 GGGTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (17 bp):
TTTTTGAATATTTTATT
Found at i:6120715 original size:91 final size:87
Alignment explanation
Indices: 6120559--6120818 Score: 310
Period size: 91 Copynumber: 2.9 Consensus size: 87
6120549 TTAAAAATGT
* * *
6120559 AAAAAGCCTTCAAACTATTTAAAAAAAAAAACAATTAAGCCCTTACATTTTTTGCATTCATTTGG
1 AAAAAGCCTTCAAACT-TTTTAAAAAAAAAACAATTAAGCCCTT-CTTTTTTTGCATTCAATTGG
*
6120624 GTACTTGAACTTTTAAAATGCATCG
64 GTACTTGAACTTTCAAAATGCAT-G
* *
6120649 AAAAAGCCCTCAAACTTTTTCAAAAAAAAACAATTAAGCCCTTGCTTTTATTTTGCATTCAATTG
1 AAAAAGCCTTCAAACTTTTTAAAAAAAAAACAATTAAGCCCTT-C-TTT-TTTTGCATTCAATTG
*
6120714 GGTACTTGAACTTTCAAAATGCATT
63 GGTACTTGAACTTTCAAAATGCATG
* * *
6120739 AAAAAGGTCTTCAAATTTTTTAAAAAAAAGAAGCAATTAAGCCC--CTTTTTTT-CACTCAATTG
1 AAAAA-GCCTTCAAACTTTTTAAAAAAAA-AA-CAATTAAGCCCTTCTTTTTTTGCATTCAATTG
* *
6120801 GGTACTTAAACTGTCAAA
63 GGTACTTGAACTTTCAAA
6120819 TACATCAAAA
Statistics
Matches: 150, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
87 25 0.17
88 4 0.03
89 29 0.19
90 23 0.15
91 56 0.37
92 2 0.01
93 11 0.07
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (87 bp):
AAAAAGCCTTCAAACTTTTTAAAAAAAAAACAATTAAGCCCTTCTTTTTTTGCATTCAATTGGGT
ACTTGAACTTTCAAAATGCATG
Found at i:6120865 original size:20 final size:20
Alignment explanation
Indices: 6120836--6120873 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6120826 AAAAAGCTCT
*
6120836 TTGACCGTTAATTTTAACAG
1 TTGACCGTTAATGTTAACAG
*
6120856 TTGACTGTTAATGTTAAC
1 TTGACCGTTAATGTTAAC
6120874 TGCCCCTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (20 bp):
TTGACCGTTAATGTTAACAG
Found at i:6120977 original size:18 final size:19
Alignment explanation
Indices: 6120955--6120997 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
6120945 ATAAAAAAAT
*
6120955 AAAAATCAA-TAAAAATTA
1 AAAAATAAATTAAAAATTA
*
6120973 GAAAA-AAATTAAAAATTA
1 AAAAATAAATTAAAAATTA
6120991 AAAAATA
1 AAAAATA
6120998 TATATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 2 0.10
18 17 0.85
19 1 0.05
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAAATAAATTAAAAATTA
Found at i:6120995 original size:27 final size:27
Alignment explanation
Indices: 6120935--6120995 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
6120925 ACATGTCGCA
*
6120935 AAAAAAAGTTATAAAAAAATAAAAATC
1 AAAAAAAGTTAGAAAAAAATAAAAATC
*
6120962 AATAAAAA-TTAGAAAAAAATTAAAAATT
1 AA-AAAAAGTTAGAAAAAAA-TAAAAATC
6120990 AAAAAA
1 AAAAAA
6120996 TATATATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 16 0.53
28 14 0.47
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (27 bp):
AAAAAAAGTTAGAAAAAAATAAAAATC
Found at i:6121263 original size:89 final size:89
Alignment explanation
Indices: 6121099--6121263 Score: 217
Period size: 89 Copynumber: 1.9 Consensus size: 89
6121089 AATTAGGGGC
* * * * *
6121099 AGTTCAAGTACCCAATTGATTGGAAAATAAAAGCAATGGATTAATTTCTTTTTTAAAAAAATTTG
1 AGTTCAAGTACCCAAATGAGTGCAAAATAAAAGCAATAGATTAATTACTTTTTTAAAAAAATTTG
* *
6121164 TGGAATTTTTTGATGCATTTTGAA
66 AGGAACTTTTTGATGCATTTTGAA
* *
6121188 AGTTCAAGTATCCAAATGAGTGCAAAATAAAAGCAA-AGACTTAATTACTTTTTTTGAAAAAATT
1 AGTTCAAGTACCCAAATGAGTGCAAAATAAAAGCAATAGA-TTAATTAC-TTTTTTAAAAAAATT
6121252 TGAGG-ACTTTTT
64 TGAGGAACTTTTT
6121264 ACACCCTTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
88 2 0.03
89 45 0.69
90 18 0.28
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (89 bp):
AGTTCAAGTACCCAAATGAGTGCAAAATAAAAGCAATAGATTAATTACTTTTTTAAAAAAATTTG
AGGAACTTTTTGATGCATTTTGAA
Found at i:6125875 original size:27 final size:28
Alignment explanation
Indices: 6125836--6125889 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
6125826 TTTTTTTTCA
* *
6125836 AAAAATGAGAATTTAGAA-AAAAAATCC
1 AAAAATGACAATTGAGAATAAAAAATCC
* *
6125863 AAAACTGACAATTGAGAATAATAAATC
1 AAAAATGACAATTGAGAATAAAAAATC
6125890 GAGAGTTGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.59, C:0.09, G:0.11, T:0.20
Consensus pattern (28 bp):
AAAAATGACAATTGAGAATAAAAAATCC
Found at i:6125906 original size:7 final size:7
Alignment explanation
Indices: 6125890--6125926 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
6125880 ATAATAAATC
6125890 GAGAGTT
1 GAGAGTT
*
6125897 GAGTGTT
1 GAGAGTT
6125904 GAGAGTT
1 GAGAGTT
*
6125911 GAGAATT
1 GAGAGTT
6125918 GAGAGTT
1 GAGAGTT
6125925 GA
1 GA
6125927 TTTGAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.41, T:0.30
Consensus pattern (7 bp):
GAGAGTT
Found at i:6134354 original size:2 final size:2
Alignment explanation
Indices: 6134349--6134381 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6134339 AATTTTTTTT
*
6134349 TC TC TC TC TC TC TG TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6134382 GACTATGGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.03, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6136020 original size:3 final size:3
Alignment explanation
Indices: 6136007--6136041 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
6135997 ACAAATTATT
* *
6136007 ATC ATC TTC ATC ATC ATC ATC ATC ACC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
6136042 ATACATGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:6137927 original size:19 final size:18
Alignment explanation
Indices: 6137894--6137929 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6137884 AATTTTAAAA
*
6137894 TTTAAAAAAATAAATATT
1 TTTAAAAAAAAAAATATT
6137912 TTTAAAAATAAAAAATAT
1 TTTAAAAA-AAAAAATAT
6137930 AAGACTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TTTAAAAAAAAAAATATT
Found at i:6151890 original size:82 final size:80
Alignment explanation
Indices: 6151799--6151953 Score: 220
Period size: 82 Copynumber: 1.9 Consensus size: 80
6151789 TTTTTAGGGT
* * * **
6151799 CGAAGTTAAACTGTAATTTTTATGATAGTAAAAATGTAATTTTTAAAGGATTAAATAAAAATTTT
1 CGAAATTAAACTATAATTTTTATAATAGTAAAAATAAAATTTTTAAAGGA-TAAAT-AAAATTTT
6151864 AAAATTTTTAGGGAGGA
64 AAAATTTTTAGGGAGGA
* *
6151881 CGAAATTAAATTATAATTTTTATAATAGTAAAAATAAAATTTTTAAAGGATAAATAAAATTTTAT
1 CGAAATTAAACTATAATTTTTATAATAGTAAAAATAAAATTTTTAAAGGATAAATAAAATTTTAA
*
6151946 CATTTTTA
66 AATTTTTA
6151954 AAAAATCAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
80 16 0.25
81 5 0.08
82 44 0.68
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (80 bp):
CGAAATTAAACTATAATTTTTATAATAGTAAAAATAAAATTTTTAAAGGATAAATAAAATTTTAA
AATTTTTAGGGAGGA
Found at i:6154462 original size:20 final size:20
Alignment explanation
Indices: 6154437--6154479 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6154427 AAAGAAATAA
6154437 AAGAAGTTAATAAGCAAAGC
1 AAGAAGTTAATAAGCAAAGC
* * *
6154457 AAGAAGTTGATAATCATAGC
1 AAGAAGTTAATAAGCAAAGC
6154477 AAG
1 AAG
6154480 TCGATCATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.21, T:0.19
Consensus pattern (20 bp):
AAGAAGTTAATAAGCAAAGC
Found at i:6163795 original size:21 final size:22
Alignment explanation
Indices: 6163771--6163811 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6163761 ATCTTGAGCT
*
6163771 CTAAAATT-CAATCCCTAAATA
1 CTAAAATTCCAAACCCTAAATA
6163792 CTAAAATTCCAAACCCTAAA
1 CTAAAATTCCAAACCCTAAA
6163812 CTCTTGATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (22 bp):
CTAAAATTCCAAACCCTAAATA
Found at i:6163886 original size:17 final size:18
Alignment explanation
Indices: 6163864--6163897 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6163854 GTATTAAAAT
6163864 AAAAAAAT-TTCAGCTTG
1 AAAAAAATCTTCAGCTTG
6163881 AAAAAAATCTTCAGCTT
1 AAAAAAATCTTCAGCTT
6163898 TTTAAGTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (18 bp):
AAAAAAATCTTCAGCTTG
Found at i:6163989 original size:24 final size:23
Alignment explanation
Indices: 6163957--6164013 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 23
6163947 AAGGATTTCA
6163957 GTTTTTATTTTATTACTAATATAT
1 GTTTTTATTTTATTA-TAATATAT
*
6163981 GTTTTTATTTTATTATATTATAT
1 GTTTTTATTTTATTATAATATAT
*
6164004 -TTTATATTTT
1 GTTTTTATTTT
6164014 TTAAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 9 0.29
23 7 0.23
24 15 0.48
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (23 bp):
GTTTTTATTTTATTATAATATAT
Done.