Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 22 of 230
Found at i:5958402 original size:24 final size:24
Alignment explanation
Indices: 5958375--5958425 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
5958365 ATTATGCCTA
5958375 AAAAAACAAAAAA-AACAAAAAAAT
1 AAAAAACAAAAAAGAA-AAAAAAAT
* *
5958399 AAAAAATAAAAAAGAAAGAAAAAT
1 AAAAAACAAAAAAGAAAAAAAAAT
5958423 AAA
1 AAA
5958426 GATGAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.86, C:0.04, G:0.04, T:0.06
Consensus pattern (24 bp):
AAAAAACAAAAAAGAAAAAAAAAT
Found at i:5958411 original size:17 final size:16
Alignment explanation
Indices: 5958373--5958425 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
5958363 ATATTATGCC
5958373 TAAAAAAACAAAAAAAA
1 TAAAAAAA-AAAAAAAA
* *
5958390 -CAAAAAAATAAAAAA
1 TAAAAAAAAAAAAAAA
*
5958405 TAAAAAAGAAAGAAAAA
1 TAAAAAA-AAAAAAAAA
5958422 TAAA
1 TAAA
5958426 GATGAAAACC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 7 0.24
16 11 0.38
17 11 0.38
ACGTcount: A:0.85, C:0.04, G:0.04, T:0.08
Consensus pattern (16 bp):
TAAAAAAAAAAAAAAA
Found at i:5958432 original size:17 final size:17
Alignment explanation
Indices: 5958375--5958425 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 17
5958365 ATTATGCCTA
* *
5958375 AAAAAACAAA-AAAAAC
1 AAAAAAGAAAGAAAAAT
*
5958391 AAAAAA-ATA-AAAAAT
1 AAAAAAGAAAGAAAAAT
5958406 AAAAAAGAAAGAAAAAT
1 AAAAAAGAAAGAAAAAT
5958423 AAA
1 AAA
5958426 GATGAAAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.43
16 8 0.27
17 9 0.30
ACGTcount: A:0.86, C:0.04, G:0.04, T:0.06
Consensus pattern (17 bp):
AAAAAAGAAAGAAAAAT
Found at i:5959501 original size:78 final size:78
Alignment explanation
Indices: 5959267--5960260 Score: 1188
Period size: 78 Copynumber: 12.7 Consensus size: 78
5959257 TTTCAAGATT
* * *
5959267 TATTTTTCAATTTCTATTTTTGCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
1 TATTTTTCAATTTCTGTTTTT-C-AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
5959332 GGTCACATCCTGAGG
64 GGTCACATCCTGAGG
* *
5959347 TATTTTTCAATTTCTGGTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
5959411 TCACATCCTGAGG
66 TCACATCCTGAGG
* * *
5959424 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGAG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
*
5959489 TCACATCTTGAGG
66 TCACATCCTGAGG
*
5959502 TATTTTTCAATTTCTGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCATCGGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
5959565 TCACATCCTGAGG
66 TCACATCCTGAGG
* *
5959578 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCCCGGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
5959643 TCACATCCTGAGG
66 TCACATCCTGAGG
* * * *
5959656 TATTTTTCAATTTCTATTTTTTAAAAAAAACCAACTCATAATGCGGGAGGTGAGTTGAGCCTCGG
1 TATTTTTCAATTTCT-GTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
*
5959721 GT--CATCCTGAGA
65 GTCACATCCTGAGG
** * *
5959733 TAACTTTCAATTTTTATTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
*
5959797 T--CATCCCGAGG
66 TCACATCCTGAGG
* *
5959808 TATTTTTCAATTTCTATTTTTCAAAAAAAAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TATTTTTCAATTTCTGTTTTTC----AAAAAAA-TCAACTCATAATGCGAGAGGTGAGTTGAGCC
* *
5959873 TCCGGT--CATCCCGAGG
61 TCGGGTCACATCCTGAGG
* ** *
5959889 TATTTTTCAATTTTTACTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 TATTTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
*
5959954 GTCACATGCC-GAGA
65 GTCACAT-CCTGAGG
* *
5959968 TATATTT-AA-TTCATGTTTTTTC--AAACATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
1 TATTTTTCAATTTC-TG-TTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
*
5960029 GGTCACATGCTGAGG
64 GGTCACATCCTGAGG
* * *
5960044 TATTTCTTTTAAATTTCTGTTTTTCAAAAAAAAAAT-AACTCATATTGCAAGAGGTGAGTTGAGC
1 TA--T-TTTTCAATTTCTGTTTTTC---AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGC
*
5960108 TTCGGGTCACATGCC-GAGG
60 CTCGGGTCACAT-CCTGAGG
* * *
5960127 TATTTATTTTAAATTTCTGTTTTTAAAAAAAAATCAACTCATAATGCGAGAGGCGAGTTGAGCCT
1 TA--T-TTTTCAATTTCTGTTTTT-CAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
* *
5960192 CGAGT--CATGCTGAGG
62 CGGGTCACATCCTGAGG
* * * *
5960207 TA-TTTTCAATATCTATTTTTC--AAAGATCAACTCATAAT-CTGAGAAGTGAGTTGA
1 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGC-GAGAGGTGAGTTGA
5960261 ACTTCGGATC
Statistics
Matches: 812, Mismatches: 71, Indels: 69
0.85 0.07 0.07
Matches are distributed among these distances:
72 1 0.00
73 28 0.03
75 69 0.08
76 141 0.17
77 134 0.17
78 150 0.18
79 73 0.09
80 40 0.05
81 76 0.09
82 30 0.04
83 64 0.08
84 6 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (78 bp):
TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
TCACATCCTGAGG
Found at i:5959581 original size:154 final size:152
Alignment explanation
Indices: 5959267--5960260 Score: 1162
Period size: 154 Copynumber: 6.4 Consensus size: 152
5959257 TTTCAAGATT
*
5959267 TATTTTTCAATTTCTATTTTTGCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
1 TATTTTTCAATTTCTATTTTT-C-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* *
5959332 GGTCACATCCTGAGGTATTTTTCAATTTCTGGTTTTCAAAAAATCAACTCATAATGCGAGAGGTG
64 GGTCACATCCCGAGGTATTTTTCAATTTCTGTTTTTC-AAAAATCAACTCATAATGCGAGAGGTG
*
5959397 AGTTGAGCCTTGGGTCACATCCTGAGG
128 AGTTGAGCCTCGGGT--CATCCTGAGG
* * *
5959424 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGAG
1 TATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
**
5959489 TCACATCTTGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGT
66 TCACATCCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGT
*
5959554 TGAGCATCGGGTCACATCCTGAGG
131 TGAGCCTCGGGT--CATCCTGAGG
* * * *
5959578 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCCCGGG
1 TATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* * * * *
5959643 TCACATCCTGAGGTATTTTTCAATTTCTATTTTTTAAAAAAAACCAACTCATAATGCGGGAGGTG
66 TCACATCCCGAGGTATTTTTCAATTTCT-GTTTTT--CAAAAATCAACTCATAATGCGAGAGGTG
*
5959708 AGTTGAGCCTCGGGTCATCCTGAGA
128 AGTTGAGCCTCGGGTCATCCTGAGG
** * *
5959733 TAACTTTCAATTTTTATTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* *
5959797 T--CATCCCGAGGTATTTTTCAATTTCTATTTTTCAAAAAAAAAAACTCAACTCATATTGCGAGA
66 TCACATCCCGAGGTATTTTTCAATTTCTGTTTTTC------AAAAA-TCAACTCATAATGCGAGA
* *
5959860 GGTGAGTTGAGCCTCCGGTCATCCCGAGG
124 GGTGAGTTGAGCCTCGGGTCATCCTGAGG
* *
5959889 TATTTTTCAATTTTTACTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 TATTTTTCAATTTCTATTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* * * *
5959954 GTCACATGCCGAGATATATTT-AA-TTCATGTTTTTTCAAACATCAACTCATAATGCGAGAGGTG
65 GTCACATCCCGAGGTATTTTTCAATTTC-TG-TTTTTCAAAAATCAACTCATAATGCGAGAGGTG
*
5960017 AGTTGAGCCTCGGGTCACATGCTGAGG
128 AGTTGAGCCTCGGGT--CATCCTGAGG
* * *
5960044 TATTTCTTTTAAATTTCTGTTTTTCAAAAAAAAAAT-AACTCATATTGCAAGAGGTGAGTTGAGC
1 TA--T-TTTTCAATTTCTATTTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * *
5960108 TTCGGGTCACATGCCGAGGTATTTATTTTAAATTTCTGTTTTTAAAAAAAAATCAACTCATAATG
60 CTCGGGTCACATCCCGAGGTA--T-TTTTCAATTTCTGTTTTT---CAAAAATCAACTCATAATG
* * *
5960173 CGAGAGGCGAGTTGAGCCTCGAGTCATGCTGAGG
119 CGAGAGGTGAGTTGAGCCTCGGGTCATCCTGAGG
* * * *
5960207 TA-TTTTCAATATCTATTTTTC--AAAGATCAACTCATAAT-CTGAGAAGTGAGTTGA
1 TATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGC-GAGAGGTGAGTTGA
5960261 ACTTCGGATC
Statistics
Matches: 737, Mismatches: 67, Indels: 68
0.85 0.08 0.08
Matches are distributed among these distances:
151 5 0.01
152 24 0.03
153 35 0.05
154 190 0.26
155 141 0.19
156 61 0.08
157 60 0.08
158 60 0.08
159 65 0.09
160 29 0.04
161 1 0.00
162 8 0.01
163 16 0.02
164 3 0.00
165 39 0.05
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (152 bp):
TATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
TCACATCCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGT
TGAGCCTCGGGTCATCCTGAGG
Found at i:5960654 original size:59 final size:59
Alignment explanation
Indices: 5960574--5960705 Score: 160
Period size: 59 Copynumber: 2.2 Consensus size: 59
5960564 AATGTAAAAA
* * * * * * *
5960574 TAAAAATTACATTTTAACCCTATACTTTTTGAAATTTACATTTTGA-CTCTAAACTTTTC
1 TAAAAATTACATTTCAACCCTAAACTTTCTCAAAATTACACTTTGACCCCTAAAC-TTTC
*
5960633 T-AAAATTACATTTCAACCCCTAAACTTTCTCAAAATTGCACTTTGACCCCTAAACTTTC
1 TAAAAATTACATTTCAA-CCCTAAACTTTCTCAAAATTACACTTTGACCCCTAAACTTTC
5960692 TAAAAATTACATTT
1 TAAAAATTACATTT
5960706 GGCCCCATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
58 14 0.23
59 29 0.47
60 19 0.31
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (59 bp):
TAAAAATTACATTTCAACCCTAAACTTTCTCAAAATTACACTTTGACCCCTAAACTTTC
Found at i:5960656 original size:30 final size:29
Alignment explanation
Indices: 5960574--5960705 Score: 131
Period size: 29 Copynumber: 4.5 Consensus size: 29
5960564 AATGTAAAAA
* *
5960574 TAAAAATTACATTTTAACCCTATACTTTT
1 TAAAAATTACATTTTAACCCTAAACTTTC
* * * *
5960603 TGAAATTTACATTTTGACTCTAAACTTTTC
1 TAAAAATTACATTTTAACCCTAAAC-TTTC
*
5960633 T-AAAATTACATTTCAACCCCTAAACTTTC
1 TAAAAATTACATTTTAA-CCCTAAACTTTC
* * * *
5960662 TCAAAATTGCACTTTGACCCCTAAACTTTC
1 TAAAAATTACA-TTTTAACCCTAAACTTTC
5960692 TAAAAATTACATTT
1 TAAAAATTACATTT
5960706 GGCCCCATAT
Statistics
Matches: 84, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
29 40 0.48
30 40 0.48
31 4 0.05
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (29 bp):
TAAAAATTACATTTTAACCCTAAACTTTC
Found at i:5960711 original size:29 final size:29
Alignment explanation
Indices: 5960574--5960711 Score: 127
Period size: 30 Copynumber: 4.7 Consensus size: 29
5960564 AATGTAAAAA
* * * *
5960574 TAAAAATTACATTTTAACCCTATACTTTT
1 TAAAAATTACATTTGACCCCTAAACTTTC
* * *
5960603 TGAAATTTACATTTTGA-CTCTAAACTTTTC
1 TAAAAATTACA-TTTGACCCCTAAAC-TTTC
*
5960633 T-AAAATTACATTTCAACCCCTAAACTTTC
1 TAAAAATTACATTT-GACCCCTAAACTTTC
* *
5960662 TCAAAATTGCACTTTGACCCCTAAACTTTC
1 TAAAAATTACA-TTTGACCCCTAAACTTTC
*
5960692 TAAAAATTACATTTGGCCCC
1 TAAAAATTACATTTGACCCC
5960712 ATATTTTCCT
Statistics
Matches: 89, Mismatches: 14, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
28 3 0.03
29 37 0.42
30 46 0.52
31 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.38
Consensus pattern (29 bp):
TAAAAATTACATTTGACCCCTAAACTTTC
Found at i:5961306 original size:31 final size:29
Alignment explanation
Indices: 5961244--5961311 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 29
5961234 GAGCTTTCGA
5961244 AAGAGAAAGAAAAGAAAAGGAAAGGGGAG
1 AAGAGAAAGAAAAGAAAAGGAAAGGGGAG
5961273 AAGAG-AAGAAAAGAGAGAAAGCGAAA-GGGAG
1 AAGAGAAAG-AAA-AGA-AAAG-GAAAGGGGAG
5961304 AAGAGAAA
1 AAGAGAAA
5961312 AATAGGAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
28 3 0.09
29 8 0.24
30 3 0.09
31 14 0.41
32 6 0.18
ACGTcount: A:0.62, C:0.01, G:0.37, T:0.00
Consensus pattern (29 bp):
AAGAGAAAGAAAAGAAAAGGAAAGGGGAG
Found at i:5961453 original size:11 final size:11
Alignment explanation
Indices: 5961439--5961468 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
5961429 GAAGAAAAGT
*
5961439 AGAAAAGAGAA
1 AGAAAAAAGAA
5961450 AGAAAAAAGAA
1 AGAAAAAAGAA
5961461 AGAAAAAA
1 AGAAAAAA
5961469 ATAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AGAAAAAAGAA
Found at i:5962274 original size:18 final size:17
Alignment explanation
Indices: 5962233--5962505 Score: 73
Period size: 18 Copynumber: 15.5 Consensus size: 17
5962223 AAAATAATAA
5962233 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
*
5962250 TCATGTTCTC-AAAATTT
1 TCGTGTT-TCAAAAATTT
* *
5962267 CTCGTGTTT----TATAT
1 -TCGTGTTTCAAAAATTT
* **
5962281 TCG-GTTTAAAAAAAACT
1 TCGTGTTT-CAAAAATTT
5962298 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
* *
5962315 CCGTGTTTTTAAAAAATAATT
1 TCGTG--TTTCAAAAAT--TT
*
5962336 T-GTGTTTCAAAAA-AT
1 TCGTGTTTCAAAAATTT
*
5962351 CCTGTGTTTTCAAAAATTT
1 TC-GTG-TTTCAAAAATTT
* * **
5962370 TCATGTTTTAGGAATTT
1 TCGTGTTTCAAAAATTT
* *
5962387 TCGTGTTTTTTTAAAAAAAACTT
1 TCGTG----TTT--CAAAAATTT
5962410 T-GTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
*
5962426 CCGTGTTTTCGAAAAA-TT
1 TCGTG-TTTC-AAAAATTT
* *
5962444 TCTGTGTTTCAAAAAAATC
1 TC-GTGTTTC-AAAAATTT
* *
5962463 CCGTGTTTTAAAAAATTT
1 TCGTG-TTTCAAAAATTT
* *
5962481 TAGTGTGTT-AGAAATTT
1 TCGTGT-TTCAAAAATTT
5962498 TCGTGTTT
1 TCGTGTTT
5962506 TTTTAAAAAA
Statistics
Matches: 186, Mismatches: 41, Indels: 59
0.65 0.14 0.21
Matches are distributed among these distances:
12 4 0.02
13 3 0.02
14 3 0.02
15 1 0.01
16 9 0.05
17 61 0.33
18 64 0.34
19 24 0.13
20 3 0.02
21 5 0.03
22 3 0.02
23 6 0.03
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:5962341 original size:37 final size:35
Alignment explanation
Indices: 5962290--5962507 Score: 156
Period size: 36 Copynumber: 6.0 Consensus size: 35
5962280 TTCGGTTTAA
* *
5962290 AAAAAACTTCGTGTTTCAAAAATTTCCGTGTTTTT
1 AAAAAATTTTGTGTTTCAAAAATTTCCGTGTTTTT
*
5962325 AAAAAATAATTTGTGTTTCAAAAA-ATCC-TGTGTTTT
1 AAAAAAT--TTTGTGTTTCAAAAATTTCCGTGT-TTTT
* * * ** *
5962361 CAAAAATTTTCATGTTTTAGGAATTTTCGTGTTTTTTT
1 AAAAAATTTT-GTGTTTCAAAAATTTCCGTG--TTTTT
* *
5962399 AAAAAAAACTTTGTGTTTCAAAAATTTCCGTGTTTTC
1 --AAAAAATTTTGTGTTTCAAAAATTTCCGTGTTTTT
* * *
5962436 GAAAAATTTCTGTGTTTCAAAAAAATCCCGTG-TTTT
1 AAAAAATTT-TGTGTTTC-AAAAATTTCCGTGTTTTT
* *
5962472 AAAAAATTTTAGTGTGTT-AGAAATTTTCGTGTTTTT
1 AAAAAATTTT-GTGT-TTCAAAAATTTCCGTGTTTTT
5962508 TTAAAAAAAT
Statistics
Matches: 140, Mismatches: 28, Indels: 29
0.71 0.14 0.15
Matches are distributed among these distances:
34 3 0.02
35 34 0.24
36 42 0.30
37 33 0.24
38 4 0.03
39 16 0.11
40 8 0.06
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
AAAAAATTTTGTGTTTCAAAAATTTCCGTGTTTTT
Found at i:5962408 original size:111 final size:111
Alignment explanation
Indices: 5962285--5962537 Score: 359
Period size: 111 Copynumber: 2.3 Consensus size: 111
5962275 TTATATTCGG
*
5962285 TTTAAAAAAAACTTCGTGTTTCAAAAATTTCCGTGTTTTTAAAAAATAATT-TGTGTTTC-AAAA
1 TTTAAAAAAAACTTCGTGTTTCAAAAATTTCCGTGTTTTCAAAAAAT--TTCTGTGTTTCAAAAA
* * * *
5962348 AATCCTGTGTTTTCAAAAATTTTCA-TGTTTTAGGAATTTTCGTGTTTT
64 AATCCCGTGTTTTAAAAAATTTT-AGTGTGTTAGAAATTTTCGTGTTTT
* *
5962396 TTTAAAAAAAACTTTGTGTTTCAAAAATTTCCGTGTTTTCGAAAAATTTCTGTGTTTCAAAAAAA
1 TTTAAAAAAAACTTCGTGTTTCAAAAATTTCCGTGTTTTCAAAAAATTTCTGTGTTTCAAAAAAA
5962461 TCCCGTGTTTTAAAAAATTTTAGTGTGTTAGAAATTTTCGTGTTTT
66 TCCCGTGTTTTAAAAAATTTTAGTGTGTTAGAAATTTTCGTGTTTT
* * *
5962507 TTTAAAAAAATTCCTCGTATTTCAAAAATTT
1 TTTAAAAAAA-ACTTCGTGTTTCAAAAATTT
5962538 TTGACTTTTC
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
109 2 0.02
110 9 0.07
111 100 0.79
112 16 0.13
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (111 bp):
TTTAAAAAAAACTTCGTGTTTCAAAAATTTCCGTGTTTTCAAAAAATTTCTGTGTTTCAAAAAAA
TCCCGTGTTTTAAAAAATTTTAGTGTGTTAGAAATTTTCGTGTTTT
Found at i:5962431 original size:17 final size:17
Alignment explanation
Indices: 5962411--5962458 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 17
5962401 AAAAAACTTT
5962411 GTGTTTCAAAAATTTCC
1 GTGTTTCAAAAATTTCC
*
5962428 GTGTTTTCGAAAAATTTCT
1 GTG-TTTC-AAAAATTTCC
5962447 GTGTTTCAAAAA
1 GTGTTTCAAAAA
5962459 AATCCCGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 8 0.29
18 8 0.29
19 12 0.43
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (17 bp):
GTGTTTCAAAAATTTCC
Found at i:5962440 original size:19 final size:19
Alignment explanation
Indices: 5962414--5962480 Score: 77
Period size: 18 Copynumber: 3.7 Consensus size: 19
5962404 AAACTTTGTG
5962414 TTTC-AAAAATTTCCGTGT
1 TTTCAAAAAATTTCCGTGT
* *
5962432 TTTCGAAAAATTTCTGTG-
1 TTTCAAAAAATTTCCGTGT
* *
5962450 TTTCAAAAAAATCCCGTGT
1 TTTCAAAAAATTTCCGTGT
5962469 TTT-AAAAAATTT
1 TTTCAAAAAATTT
5962481 TAGTGTGTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 25 0.62
19 15 0.38
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.42
Consensus pattern (19 bp):
TTTCAAAAAATTTCCGTGT
Found at i:5962514 original size:55 final size:55
Alignment explanation
Indices: 5962344--5962538 Score: 180
Period size: 56 Copynumber: 3.5 Consensus size: 55
5962334 TTTGTGTTTC
*
5962344 AAAAAATCCTGTGTTTTCAAAAATTTTCA-TGTTTTAGGAATTTTCGTGTTTTTTT
1 AAAAAATCCTGTGTTTTCAAAAATTTT-AGTGTTTTAGAAATTTTCGTGTTTTTTT
** * ** * * * **
5962399 AAAAAAAACTTTGTGTTTCAAAAATTTCCGTGTTTTCGAAAAATTTC-TGTGTTTCA
1 AAAAAATCCTGTGT-TTTCAAAAATTTTAGTGTTTTAG-AAATTTTCGTGTTTTTTT
* * *
5962455 AAAAAATCCCGTGTTTTAAAAAATTTTAGTGTGTTAGAAATTTTCGTGTTTTTTT
1 AAAAAATCCTGTGTTTTCAAAAATTTTAGTGTTTTAGAAATTTTCGTGTTTTTTT
*
5962510 AAAAAAATTCCTCGT-ATTTCAAAAATTTT
1 -AAAAAA-TCCT-GTGTTTTCAAAAATTTT
5962539 TGACTTTTCG
Statistics
Matches: 106, Mismatches: 27, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
54 7 0.07
55 35 0.33
56 41 0.39
57 21 0.20
58 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (55 bp):
AAAAAATCCTGTGTTTTCAAAAATTTTAGTGTTTTAGAAATTTTCGTGTTTTTTT
Found at i:5962577 original size:18 final size:18
Alignment explanation
Indices: 5962543--5962577 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5962533 AATTTTTGAC
*
5962543 TTTTCGCGTTTTCAAAAT
1 TTTTCGCGTTTTAAAAAT
*
5962561 TTTTCGTGTTTTAAAAA
1 TTTTCGCGTTTTAAAAA
5962578 AATAAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTTCGCGTTTTAAAAAT
Found at i:5962634 original size:18 final size:18
Alignment explanation
Indices: 5962581--5962687 Score: 64
Period size: 17 Copynumber: 6.1 Consensus size: 18
5962571 TTAAAAAAAT
* *
5962581 AAAAAAATCTCATGTTTC
1 AAAAAAATTTCGTGTTTC
* * *
5962599 -ACAAATTTTCGTATTTTC
1 AAAAAAATTTCGT-GTTTC
5962617 AAAAAAATTTCGTGTTTC
1 AAAAAAATTTCGTGTTTC
* * *
5962635 -AAGAATTTTCGTGCTTC
1 AAAAAAATTTCGTGTTTC
5962652 ---AAAATTCTCGTGTTT-
1 AAAAAAATT-TCGTGTTTC
*
5962667 AAAAAAATTCTCATGTTTC
1 AAAAAAATT-TCGTGTTTC
5962686 AA
1 AA
5962688 TTAGATCACG
Statistics
Matches: 67, Mismatches: 15, Indels: 13
0.71 0.16 0.14
Matches are distributed among these distances:
15 4 0.06
16 7 0.10
17 22 0.33
18 22 0.33
19 12 0.18
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (18 bp):
AAAAAAATTTCGTGTTTC
Found at i:5962646 original size:17 final size:16
Alignment explanation
Indices: 5962593--5962670 Score: 68
Period size: 17 Copynumber: 4.6 Consensus size: 16
5962583 AAAAATCTCA
5962593 TGTTTCACAAATTTTCG
1 TGTTTCA-AAATTTTCG
* *
5962610 TATTTTCAAAAAAATTTCG
1 T-GTTTC--AAAATTTTCG
5962629 TGTTTCAAGAATTTTCG
1 TGTTTCAA-AATTTTCG
* *
5962646 TGCTTCAAAATTCTCG
1 TGTTTCAAAATTTTCG
5962662 TGTTT-AAAA
1 TGTTTCAAAA
5962671 AAATTCTCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
15 4 0.08
16 13 0.26
17 15 0.30
18 8 0.16
19 9 0.18
20 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.44
Consensus pattern (16 bp):
TGTTTCAAAATTTTCG
Found at i:5962672 original size:17 final size:17
Alignment explanation
Indices: 5962618--5962684 Score: 57
Period size: 16 Copynumber: 4.0 Consensus size: 17
5962608 CGTATTTTCA
5962618 AAAAAATT-TCGTGTTT
1 AAAAAATTCTCGTGTTT
* * * *
5962634 CAAGAATTTTCGTGCTT
1 AAAAAATTCTCGTGTTT
*
5962651 -CAAAATTCTCGTGTTT
1 AAAAAATTCTCGTGTTT
*
5962667 AAAAAAATTCTCATGTTT
1 -AAAAAATTCTCGTGTTT
5962685 CAATTAGATC
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
16 18 0.46
17 7 0.18
18 14 0.36
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (17 bp):
AAAAAATTCTCGTGTTT
Found at i:5966246 original size:17 final size:18
Alignment explanation
Indices: 5966224--5966258 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
5966214 TCGAACGGGG
*
5966224 GAAAAGAA-AAAGGGAAA
1 GAAAAGAAGAAAGAGAAA
5966241 GAAAAGAAGAAAGAGAAA
1 GAAAAGAAGAAAGAGAAA
5966259 ATTAGGGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
GAAAAGAAGAAAGAGAAA
Found at i:5967008 original size:18 final size:18
Alignment explanation
Indices: 5966965--5967009 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
5966955 TTTTGATTAG
*
5966965 TGAATGGAAGAGTGAATT
1 TGAATTGAAGAGTGAATT
5966983 TGATATTGAA-AGTGAATTT
1 TGA-ATTGAAGAGTGAA-TT
5967002 TGAATTGA
1 TGAATTGA
5967010 GAATTGGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.38, C:0.00, G:0.27, T:0.36
Consensus pattern (18 bp):
TGAATTGAAGAGTGAATT
Found at i:5968754 original size:29 final size:27
Alignment explanation
Indices: 5968684--5968752 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 27
5968674 ATTAAAATTC
*
5968684 AATCAACAT-ATTTTAATTATTAAATG
1 AATCAATATAATTTTAATTATTAAATG
* *
5968710 AATTAATTTAATTTTACATTATTATAATG
1 AATCAATATAATTTTA-ATTATTA-AATG
5968739 AATCAA-ATAATTTT
1 AATCAATATAATTTT
5968753 TATTTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 6 0.17
27 6 0.17
28 14 0.40
29 9 0.26
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (27 bp):
AATCAATATAATTTTAATTATTAAATG
Found at i:5982088 original size:4 final size:4
Alignment explanation
Indices: 5982079--5982256 Score: 347
Period size: 4 Copynumber: 44.2 Consensus size: 4
5982069 TTCTAGAACA
5982079 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5982127 TATG TATG TATG TATGG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TAT-G TATG TATG TATG TATG TATG TATG TATG TATG
5982176 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5982224 TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG T
5982257 GAAAGAGTAC
Statistics
Matches: 173, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
4 169 0.98
5 4 0.02
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:5994963 original size:15 final size:16
Alignment explanation
Indices: 5994934--5994974 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
5994924 TTTTAAAAAA
5994934 TTATATTGTTTTTAA-T
1 TTATA-TGTTTTTAACT
5994950 TTA-ATGTTTATTAACT
1 TTATATGTTT-TTAACT
5994966 TTATATGTT
1 TTATATGTT
5994975 ATTCTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.23
15 5 0.23
16 7 0.32
17 5 0.23
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (16 bp):
TTATATGTTTTTAACT
Found at i:5997394 original size:30 final size:32
Alignment explanation
Indices: 5997339--5997412 Score: 111
Period size: 31 Copynumber: 2.4 Consensus size: 32
5997329 AATATATAAT
*
5997339 AAATATTTATTTTTTATTTTATTTAAT-TTTA
1 AAATATATATTTTTTATTTTATTTAATGTTTA
5997370 AAATATATATTTTTTATTTT-TTTAATGTTTA
1 AAATATATATTTTTTATTTTATTTAATGTTTA
5997401 AAATA-AT-TTTTT
1 AAATATATATTTTT
5997413 GGTGTTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 5 0.12
30 8 0.20
31 28 0.68
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (32 bp):
AAATATATATTTTTTATTTTATTTAATGTTTA
Found at i:6004688 original size:120 final size:122
Alignment explanation
Indices: 6004513--6004749 Score: 293
Period size: 120 Copynumber: 2.0 Consensus size: 122
6004503 ACTTTGAAGT
* * *
6004513 TTTAAGATGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAGATGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCAAGTTAGAGCACGATT
* * * * *
6004578 TCTTGAATTTCC-AAACGCAAAATATTGCTTTATTTAGAAA-TTCTT-TTTTGAAAC
66 TCTCGAATATCCAAAACGCAAAATATTGCCTTAATTAAAAATTTCTTCTTTTGAAAC
* ** * * *
6004632 TTTAA-ATGATATTTTGCTATTTAGGTTTAACGAGAAAATCGAAACCCCGTAAGTTAGAGTACGA
1 TTTAAGATGATATTTGGCTATTT-GGTCAAACGAG-AAATCGAAACCCAGCAAGTTAGAGCACGA
*
6004696 TTTCTCGAATATCCAAAACGCGAAATATTGCCTTAATTAAAAATTTCTTCTTTT
64 TTTCTCGAATATCCAAAACGCAAAATATTGCCTTAATTAAAAATTTCTTCTTTT
6004750 TTTAAAAAGA
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
118 16 0.16
119 14 0.14
120 35 0.36
121 24 0.24
122 5 0.05
123 4 0.04
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (122 bp):
TTTAAGATGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCAAGTTAGAGCACGATT
TCTCGAATATCCAAAACGCAAAATATTGCCTTAATTAAAAATTTCTTCTTTTGAAAC
Found at i:6005319 original size:26 final size:26
Alignment explanation
Indices: 6005283--6005334 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
6005273 ATAAAACAAA
* * *
6005283 AATTTGAAATAAATAATATGTAAAAC
1 AATTTAAAATAAATAACATATAAAAC
6005309 AATTTAAAATAAATAACATATAAAAC
1 AATTTAAAATAAATAACATATAAAAC
6005335 TTAAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.29
Consensus pattern (26 bp):
AATTTAAAATAAATAACATATAAAAC
Found at i:6005338 original size:23 final size:24
Alignment explanation
Indices: 6005289--6005341 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
6005279 CAAAAATTTG
* *
6005289 AAATAAATAATATGTAAAACAATTTA
1 AAATAAATAACATATAAAAC-A-TTA
6005315 AAATAAATAACATATAAAAC-TTA
1 AAATAAATAACATATAAAACATTA
6005338 AAAT
1 AAAT
6005342 TAATGATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.28
26 18 0.72
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (24 bp):
AAATAAATAACATATAAAACATTA
Found at i:6009457 original size:32 final size:32
Alignment explanation
Indices: 6009416--6009480 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
6009406 TGAGTATTGC
6009416 AAATTATCTACAAATGCTTTCCATCTAAAACA
1 AAATTATCTACAAATGCTTTCCATCTAAAACA
*
6009448 AAATTATCTACAAATGCTTTCCATCTGAAACA
1 AAATTATCTACAAATGCTTTCCATCTAAAACA
6009480 A
1 A
6009481 GCTTGTCTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.31
Consensus pattern (32 bp):
AAATTATCTACAAATGCTTTCCATCTAAAACA
Found at i:6017004 original size:43 final size:43
Alignment explanation
Indices: 6016942--6017075 Score: 205
Period size: 43 Copynumber: 3.1 Consensus size: 43
6016932 TCTGTGTGTT
*
6016942 TTATTTTTTATTCTTATTGCTTTGCGATCTTTTTATATTGTCA
1 TTATTTTTTATTCTTATTGCTTTGCGATCTTTCTATATTGTCA
* * * *
6016985 CTATTTCTTATTCTTATTGCTTTGCGATCCTTCTATATTATCA
1 TTATTTTTTATTCTTATTGCTTTGCGATCTTTCTATATTGTCA
* *
6017028 TTATTTTTTATTCTTATTGCTTTGCTATCTTTCTAAATTGTCA
1 TTATTTTTTATTCTTATTGCTTTGCGATCTTTCTATATTGTCA
6017071 TTATT
1 TTATT
6017076 GACGTTTAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.18, C:0.15, G:0.07, T:0.60
Consensus pattern (43 bp):
TTATTTTTTATTCTTATTGCTTTGCGATCTTTCTATATTGTCA
Found at i:6018274 original size:18 final size:18
Alignment explanation
Indices: 6018251--6018299 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
6018241 TCTAAATTAA
6018251 AAAATACAAAAAATGAA-T
1 AAAATACAAAAAAT-AATT
**
6018269 AAAATAGTAAAAATAATT
1 AAAATACAAAAAATAATT
6018287 AAAATACAAAAAA
1 AAAATACAAAAAA
6018300 AAAAGAAGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAATACAAAAAATAATT
Found at i:6020912 original size:14 final size:14
Alignment explanation
Indices: 6020893--6020920 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6020883 GTCGTGCGCA
6020893 TCGATAATACTATG
1 TCGATAATACTATG
6020907 TCGATAATACTATG
1 TCGATAATACTATG
6020921 AACTATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
TCGATAATACTATG
Found at i:6020951 original size:27 final size:27
Alignment explanation
Indices: 6020917--6020969 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
6020907 TCGATAATAC
6020917 TATGAACTATATAACAGACATGAACTA
1 TATGAACTATATAACAGACATGAACTA
6020944 TATGAACTATATAACAGACATGAACT
1 TATGAACTATATAACAGACATGAACT
6020970 TAATGCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.26
Consensus pattern (27 bp):
TATGAACTATATAACAGACATGAACTA
Found at i:6029532 original size:19 final size:20
Alignment explanation
Indices: 6029503--6029541 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
6029493 CCCTGTTTTA
6029503 CCTTCTGCCTCTTCTGTTCC
1 CCTTCTGCCTCTTCTGTTCC
6029523 CCTT-TGCCTCTTCTGTTCC
1 CCTTCTGCCTCTTCTGTTCC
6029542 TTCCTTCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.00, C:0.44, G:0.10, T:0.46
Consensus pattern (20 bp):
CCTTCTGCCTCTTCTGTTCC
Found at i:6029650 original size:33 final size:33
Alignment explanation
Indices: 6029613--6029680 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
6029603 TTTCTTTTCT
*
6029613 TTTCTGCCGATTTGCTCCCTTTGTTTCTCACAG
1 TTTCTGCCGATTTGCTCCCTCTGTTTCTCACAG
*
6029646 TTTCTGCCGATTTGCTCCCTCTGTTTCTCATAG
1 TTTCTGCCGATTTGCTCCCTCTGTTTCTCACAG
6029679 TT
1 TT
6029681 CTCCACACGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.09, C:0.29, G:0.15, T:0.47
Consensus pattern (33 bp):
TTTCTGCCGATTTGCTCCCTCTGTTTCTCACAG
Found at i:6031694 original size:59 final size:58
Alignment explanation
Indices: 6031618--6031911 Score: 170
Period size: 59 Copynumber: 4.9 Consensus size: 58
6031608 ATTATTAAGA
6031618 ATTTTATTA-AATCATATATTTTAATTAAAATATATTCAATAATAATTATTTCAAATTAT
1 ATTTTA-TAGAATCATATATTTTAATTAAAATATATTCAATAATAATTATTT-AAATTAT
* * * ** * * * * * *
6031677 ATTTTATAGCATCATATATTATGATTTTAGTAAATTCATATAAGAA-TATTGATTATTAAGA
1 ATTTTATAGAATCATATATTTTAATTAAAATATATTCA-ATAATAATTATTTA-AATT-A-T
* *
6031738 ATTTTATTA-AATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT
1 ATTTTA-TAGAATCATATATTTTAATTAAAATATATTCAATAATAATTAT-TTAAATTAT
* ** * * ** * * * *
6031797 ATTTTCTAGTTTCATATATTATGATTTAGCA-A-ATTCATATAAGAA-TATTGATTATTAAGA
1 ATTTTATAGAATCATATATT-TTAATTAAAATATATTCA-ATAATAATTATTTA-AATT-A-T
* *
6031857 ATTTTATTA-AATTATATATTTTAATTAAAATATATTTAATAATAATTATATTAAA
1 ATTTTA-TAGAATCATATATTTTAATTAAAATATATTCAATAATAATTAT-TTAAA
6031912 ATATGATTAA
Statistics
Matches: 167, Mismatches: 49, Indels: 36
0.66 0.19 0.14
Matches are distributed among these distances:
57 2 0.01
58 15 0.09
59 62 0.37
60 40 0.24
61 42 0.25
62 6 0.04
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (58 bp):
ATTTTATAGAATCATATATTTTAATTAAAATATATTCAATAATAATTATTTAAATTAT
Found at i:6031766 original size:18 final size:17
Alignment explanation
Indices: 6031738--6031772 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6031728 ATTATTAAGA
*
6031738 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6031755 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6031773 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6031780 original size:120 final size:120
Alignment explanation
Indices: 6031567--6031911 Score: 604
Period size: 120 Copynumber: 2.9 Consensus size: 120
6031557 TTTATAAAGT
*
6031567 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCA
1 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTA
*
6031632 TATATTTTAATTAAAATATATTCAATAATAATTAT-TTCAAATTATATTTTATAGC
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGC
6031687 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTA
* *
6031752 TATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTCTAGT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGC
* *
6031807 TTCATATATTATGA-TTTAGCAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTA
*
6031871 TATATTTTAATTAAAATATATTTAATAATAATTATATTAAA
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
6031912 ATATGATTAA
Statistics
Matches: 217, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
119 89 0.41
120 126 0.58
121 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGC
Found at i:6031885 original size:18 final size:18
Alignment explanation
Indices: 6031857--6031907 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
6031847 ATTATTAAGA
6031857 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
6031874 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
*
6031890 A-TTTAATAATAATTATAT
1 ATTTTAATTA-AATTATAT
6031908 TAAAATATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 5 0.17
18 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:6031934 original size:26 final size:25
Alignment explanation
Indices: 6031842--6031934 Score: 62
Period size: 26 Copynumber: 3.4 Consensus size: 25
6031832 CATATAAGAA
* *
6031842 TATTGATTATTAAGAATTTTATTAAAT
1 TATTTATTATTAA-AA-TATATTAAAT
* *
6031869 TATATATTTTAATTAAAATATATTTAATAA
1 TAT-T-TATT-ATTAAAATATA-TTAA-AT
*
6031899 TAATTA-TATTAAAATATGATTAAAT
1 TATTTATTATTAAAATAT-ATTAAAT
6031924 TATTTATTATT
1 TATTTATTATT
6031935 GATATTAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
25 6 0.12
26 18 0.35
27 5 0.10
28 5 0.10
29 9 0.18
30 8 0.16
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (25 bp):
TATTTATTATTAAAATATATTAAAT
Found at i:6032105 original size:44 final size:45
Alignment explanation
Indices: 6032048--6032144 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
6032038 CTATTACACC
* *
6032048 TCCATTCCATTCAACCAAACACA-AGAA-TACTATTACGTCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* * *
6032092 TCTATTACATTCAACCAAATAATTGAATTACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
6032137 TCCATTAC
1 TCCATTAC
6032145 CCCTCTATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.47
45 23 0.51
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:6032149 original size:16 final size:16
Alignment explanation
Indices: 6032124--6032156 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6032114 TTGAATTACT
*
6032124 ATTACGCCTCTATTCC
1 ATTACCCCTCTATTCC
6032140 ATTACCCCTCTATTCC
1 ATTACCCCTCTATTCC
6032156 A
1 A
6032157 ATAGAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.39, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACCCCTCTATTCC
Found at i:6032605 original size:4 final size:4
Alignment explanation
Indices: 6032596--6032626 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
6032586 CATGATAAGA
6032596 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
6032627 TAAAATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:6044775 original size:6 final size:6
Alignment explanation
Indices: 6044764--6044792 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6044754 GGAAGAGATC
6044764 GAAATA GAAATA GAAATA GAAATA GAAAT
1 GAAATA GAAATA GAAATA GAAATA GAAAT
6044793 GGGAAGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
GAAATA
Found at i:6050229 original size:25 final size:25
Alignment explanation
Indices: 6050201--6050341 Score: 92
Period size: 25 Copynumber: 5.6 Consensus size: 25
6050191 AATAACGGGT
* *
6050201 AGCTCTAAAGAGCTATTAATCAGGA
1 AGCTCCAAAGAGCCATTAATCAGGA
* * **
6050226 AGCTCCAAATAACCA-TATATTGGGA
1 AGCTCCAAAGAGCCATTA-ATCAGGA
* * *
6050251 AG-TTCAAGCGAGCCA-T-ATCGGGA
1 AGCTCCAA-AGAGCCATTAATCAGGA
* *
6050274 AGCTCCATAGAGCAATTAATCAGGA
1 AGCTCCAAAGAGCCATTAATCAGGA
* *
6050299 AGCTCATAAAGAGCCTTTAATCAGGA
1 AGCTC-CAAAGAGCCATTAATCAGGA
*
6050325 AGCTCACGAAGAGCCAT
1 AGCTC-CAAAGAGCCAT
6050342 ATATCAGAAC
Statistics
Matches: 87, Mismatches: 23, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
23 13 0.15
24 10 0.11
25 34 0.39
26 30 0.34
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (25 bp):
AGCTCCAAAGAGCCATTAATCAGGA
Found at i:6050318 original size:26 final size:26
Alignment explanation
Indices: 6050271--6050339 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
6050261 AGCCATATCG
* **
6050271 GGAAGCTC-CATAGAGCAATTAATCA
1 GGAAGCTCACAAAGAGCCTTTAATCA
*
6050296 GGAAGCTCATAAAGAGCCTTTAATCA
1 GGAAGCTCACAAAGAGCCTTTAATCA
*
6050322 GGAAGCTCACGAAGAGCC
1 GGAAGCTCACAAAGAGCC
6050340 ATATATCAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 8 0.22
26 29 0.78
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCTTTAATCA
Found at i:6050347 original size:26 final size:26
Alignment explanation
Indices: 6050290--6050356 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
6050280 ATAGAGCAAT
* *
6050290 TAATCAGGAAGCTCATAAAGAGCCTT
1 TAATCAGGAAGCTCACAAAGAGCCTA
*
6050316 TAATCAGGAAGCTCACGAAGAGCC-A
1 TAATCAGGAAGCTCACAAAGAGCCTA
6050341 TATATCA-GAACGCTCA
1 TA-ATCAGGAA-GCTCA
6050357 TAAGAGTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 5 0.14
26 31 0.86
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.19
Consensus pattern (26 bp):
TAATCAGGAAGCTCACAAAGAGCCTA
Found at i:6052661 original size:14 final size:14
Alignment explanation
Indices: 6052642--6052674 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6052632 CAAATTACAT
6052642 GTTAGAATAGTATC
1 GTTAGAATAGTATC
6052656 GTTAGAATAGTATC
1 GTTAGAATAGTATC
*
6052670 ATTAG
1 GTTAG
6052675 CAAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:6056502 original size:51 final size:51
Alignment explanation
Indices: 6056389--6056503 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 51
6056379 TCCTCTCTAA
*
6056389 TCCTCTCAATTCCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
* *
6056440 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
6056491 TCC-CATCAATTTC
1 TCCTC-TCAATTTC
6056504 ATTTTTTAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 1 0.02
51 59 0.98
ACGTcount: A:0.29, C:0.30, G:0.00, T:0.42
Consensus pattern (51 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
Found at i:6056546 original size:21 final size:21
Alignment explanation
Indices: 6056522--6056561 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6056512 AAATAATTTT
*
6056522 AAATAATTTTATATTTTTTAA
1 AAATAATTTTAAATTTTTTAA
6056543 AAATAATTTTAAATTTTTT
1 AAATAATTTTAAATTTTTT
6056562 TATATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATAATTTTAAATTTTTTAA
Found at i:6056546 original size:31 final size:30
Alignment explanation
Indices: 6056504--6056569 Score: 105
Period size: 31 Copynumber: 2.2 Consensus size: 30
6056494 CATCAATTTC
6056504 ATTTTTTAAAATAATTTTAAATAATTTTAT
1 ATTTTTTAAAATAATTTTAAATAATTTTAT
**
6056534 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
1 ATTTTTT-AAAATAATTTTAAATAATTTTAT
6056565 ATTTT
1 ATTTT
6056570 CATCAATGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 7 0.21
31 26 0.79
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTTTTTAAAATAATTTTAAATAATTTTAT
Found at i:6057662 original size:7 final size:7
Alignment explanation
Indices: 6057650--6057674 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6057640 AGTCGATTGA
6057650 TATTTAG
1 TATTTAG
6057657 TATTTAG
1 TATTTAG
6057664 TATTTAG
1 TATTTAG
6057671 TATT
1 TATT
6057675 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:6058850 original size:71 final size:71
Alignment explanation
Indices: 6058762--6058946 Score: 316
Period size: 71 Copynumber: 2.6 Consensus size: 71
6058752 TATTTAAATT
* *
6058762 TATTATTTTATATAATAAATTAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATATAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
6058827 TTTTGA
66 TTTTGA
* * *
6058833 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATATAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
6058898 TTTTGA
66 TTTTGA
6058904 TATTATTTGATATAATAAAATAGAAGTTCTATTTGATGTAATA
1 TATTATTTGATATAATAAAATAGAAGTT-TATTTGATGTAATA
6058947 AAAACCCTAA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 93 0.88
72 13 0.12
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (71 bp):
TATTATTTGATATAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
TTTTGA
Found at i:6058968 original size:18 final size:18
Alignment explanation
Indices: 6058945--6058998 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 18
6058935 TTTGATGTAA
6058945 TAAAAACCCTAATTTAAT
1 TAAAAACCCTAATTTAAT
6058963 TAAAAACCCTAACATAATTTAAT
1 TAAAAA-CC---C-TAATTTAAT
6058986 TAAAAACCCTAAT
1 TAAAAACCCTAAT
6058999 CCTAACCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
18 10 0.32
19 3 0.10
22 3 0.10
23 15 0.48
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAAACCCTAATTTAAT
Found at i:6058980 original size:23 final size:23
Alignment explanation
Indices: 6058954--6058997 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
6058944 ATAAAAACCC
6058954 TAATTTAATTAAAAACCCTAACA
1 TAATTTAATTAAAAACCCTAACA
6058977 TAATTTAATTAAAAACCCTAA
1 TAATTTAATTAAAAACCCTAA
6058998 TCCTAACCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (23 bp):
TAATTTAATTAAAAACCCTAACA
Found at i:6059003 original size:29 final size:29
Alignment explanation
Indices: 6058967--6059215 Score: 390
Period size: 29 Copynumber: 8.6 Consensus size: 29
6058957 TTTAATTAAA
*
6058967 AACCCTAACATAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
6058996 AATCCTAACCTAATTTAATTAGAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
6059025 AACACTAACCTAATTTAATTAAAAAGCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
6059054 AACCCTAACCTAATTTAATTAAAAACCTT
1 AACCCTAACCTAATTTAATTAAAAACCCT
6059083 AACCCTAACCTAATTTAATTAAAAACCCAT
1 AACCCTAACCTAATTTAATTAAAAACCC-T
** *
6059113 TGCCATAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
6059142 AACCCAAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
6059171 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
6059200 AGCCCTAACCTAATTT
1 AACCCTAACCTAATTT
6059216 TACATAATTT
Statistics
Matches: 199, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
29 173 0.87
30 26 0.13
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.29
Consensus pattern (29 bp):
AACCCTAACCTAATTTAATTAAAAACCCT
Found at i:6059152 original size:117 final size:116
Alignment explanation
Indices: 6058967--6059215 Score: 401
Period size: 117 Copynumber: 2.1 Consensus size: 116
6058957 TTTAATTAAA
* * *
6058967 AACCCTAACATAATTTAATTAAAAACCCTAATCCTAACCTAATTTAATTAGAAACCCTAACACTA
1 AACCCTAACCTAATTTAATTAAAAACCCTAATCCTAACCTAATTTAATTAAAAACCCTAACACAA
* *
6059032 ACCTAATTTAATTAAAAAGCCTAACCCTAACCTAATTTAATTAAAAACCTT
66 ACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* *
6059083 AACCCTAACCTAATTTAATTAAAAACCC-ATTGCCATAACCTAATTTAATTAAAAACCCTAACCC
1 AACCCTAACCTAATTTAATTAAAAACCCTAAT-CC-TAACCTAATTTAATTAAAAACCCTAACAC
6059147 AAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
64 AAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
*
6059200 AGCCCTAACCTAATTT
1 AACCCTAACCTAATTT
6059216 TACATAATTT
Statistics
Matches: 123, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
115 2 0.02
116 29 0.24
117 92 0.75
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.29
Consensus pattern (116 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAATCCTAACCTAATTTAATTAAAAACCCTAACACAA
ACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:6059273 original size:55 final size:55
Alignment explanation
Indices: 6059210--6059335 Score: 234
Period size: 55 Copynumber: 2.3 Consensus size: 55
6059200 AGCCCTAACC
*
6059210 TAATTTTACATAATTTGATAATTTTACTAATCATTAACACAATTTTTAGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTAGACTTAA
*
6059265 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTAGACTTAA
6059320 TAATTTTACATAATTT
1 TAATTTTACATAATTT
6059336 TACATAATGT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 69 1.00
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTAGACTTAA
Found at i:6059334 original size:10 final size:10
Alignment explanation
Indices: 6059319--6059343 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6059309 TTTGGACTTA
6059319 ATAATTTTAC
1 ATAATTTTAC
6059329 ATAATTTTAC
1 ATAATTTTAC
6059339 ATAAT
1 ATAAT
6059344 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:6062739 original size:124 final size:125
Alignment explanation
Indices: 6062432--6062779 Score: 601
Period size: 124 Copynumber: 2.8 Consensus size: 125
6062422 CCCAAACTTG
*
6062432 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
6062497 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTTAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* **
6062557 CAACTGTAGCAAAATCGCGTCCACGAGAACACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
6062622 TAGAAGCAATTTTATACTATTTGCTTAGAAACGTC-AAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTTAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* *
6062681 CTACTGTAGCAAAATCGCGTCCACAAGGGCCCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
6062746 TAGAAGCGATTTTATACTATTTG-TTCAGAAACGT
66 TAGAAGCGATTTTATACTATTTGCTT-AGAAACGT
6062780 TAACTCGAAA
Statistics
Matches: 210, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
123 2 0.01
124 114 0.54
125 94 0.45
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTTAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:6063320 original size:35 final size:34
Alignment explanation
Indices: 6063274--6063345 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 34
6063264 ATTTTCCAAT
6063274 AACTAAAAATAAAATCAAT-CAAA-TATAAAGAAAAA
1 AACTAAAAATAAAAT-AATCCAAACTA-AAA-AAAAA
6063309 AACTAAAAATAAAATAATCCAAACTAAAAAAAAA
1 AACTAAAAATAAAATAATCCAAACTAAAAAAAAA
6063343 AAC
1 AAC
6063346 AGTAAAACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
34 11 0.31
35 22 0.63
36 2 0.06
ACGTcount: A:0.72, C:0.11, G:0.01, T:0.15
Consensus pattern (34 bp):
AACTAAAAATAAAATAATCCAAACTAAAAAAAAA
Found at i:6063503 original size:15 final size:15
Alignment explanation
Indices: 6063485--6063515 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6063475 CCTTACTAAT
6063485 TTGTTAGTTTAACTA
1 TTGTTAGTTTAACTA
6063500 TTGTTAGTTTAACTA
1 TTGTTAGTTTAACTA
6063515 T
1 T
6063516 AATCAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (15 bp):
TTGTTAGTTTAACTA
Found at i:6063866 original size:14 final size:15
Alignment explanation
Indices: 6063847--6063875 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6063837 CTTTCAATTA
6063847 GTTGATTTT-TTTTT
1 GTTGATTTTCTTTTT
6063861 GTTGATTTTCTTTTT
1 GTTGATTTTCTTTTT
6063876 CTGATCGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.03, G:0.14, T:0.76
Consensus pattern (15 bp):
GTTGATTTTCTTTTT
Found at i:6068501 original size:6 final size:6
Alignment explanation
Indices: 6068490--6068543 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
6068480 TTTTTTAAAA
* * *
6068490 ATATTT ATATTT ATATTA AT-TTT A-ATTT AATATTT TTATAT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT -ATATTT ATATTT ATATTT
6068537 -TATTT AT
1 ATATTT AT
6068544 TAAATTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
5 11 0.29
6 23 0.61
7 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATATTT
Found at i:6068529 original size:25 final size:26
Alignment explanation
Indices: 6068499--6068556 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
6068489 AATATTTATA
*
6068499 TTTATATTA-ATTTTAATTTA-ATATT
1 TTTATATTATATTTT-ATTTATAAATT
6068524 TTTATA-TATATTTTATTTATTAAATT
1 TTTATATTATATTTTATTTA-TAAATT
6068550 TTTATAT
1 TTTATAT
6068557 ATACAGAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
24 7 0.25
25 11 0.39
26 10 0.36
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTATATTATATTTTATTTATAAATT
Found at i:6069280 original size:30 final size:31
Alignment explanation
Indices: 6069244--6069302 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
6069234 CTAAAACTAT
6069244 AAAAAAAAGATAAAATTTCA-AAAAAAATAC
1 AAAAAAAAGATAAAATTTCATAAAAAAATAC
**
6069274 AAAAAAAATTTAAAATTTCATAAAAAAAT
1 AAAAAAAAGATAAAATTTCATAAAAAAAT
6069303 TATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (31 bp):
AAAAAAAAGATAAAATTTCATAAAAAAATAC
Found at i:6069317 original size:20 final size:20
Alignment explanation
Indices: 6069267--6069318 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
6069257 AATTTCAAAA
6069267 AAAATA-CA-AAAAAAATTT
1 AAAATATCATAAAAAAATTT
*
6069285 AAAATTTCATAAAAAAATTAT
1 AAAATATCATAAAAAAATT-T
6069306 AAAATATC-TAAAA
1 AAAATATCATAAAA
6069319 CACATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 5 0.17
19 2 0.07
20 14 0.48
21 8 0.28
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATATCATAAAAAAATTT
Found at i:6069325 original size:21 final size:22
Alignment explanation
Indices: 6069267--6069331 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 22
6069257 AATTTCAAAA
6069267 AAAATA-CA-AAAAAAATT--T
1 AAAATATCATAAAAAAATTAAT
*
6069285 AAAATTTCATAAAAAAATT-AT
1 AAAATATCATAAAAAAATTAAT
*
6069306 AAAATATC-TAAAACACATTAAT
1 AAAATATCATAAAA-AAATTAAT
6069328 AAAA
1 AAAA
6069332 AATGTATCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
18 5 0.13
19 2 0.05
20 14 0.36
21 12 0.31
22 6 0.15
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAATATCATAAAAAAATTAAT
Found at i:6073061 original size:91 final size:90
Alignment explanation
Indices: 6072902--6073083 Score: 285
Period size: 91 Copynumber: 2.0 Consensus size: 90
6072892 ATCCATATAC
* * *
6072902 ATTCTGTGACAAAAAGCATATAAATATAATGTTCATCGTCACATTATCTTTAATTCTTGGAGTTT
1 ATTCTGTGACAAAAAGCATATAAATATAACGTTCATCGTCACATTATATTTAATTCTTAGAG-TT
*
6072967 TTTTTTTTACATTTGTTGGAACATTT
65 TTTTTTTTACATTTATTGGAACATTT
*
6072993 ATTCTGTGACAAAAAGCATATAAATGTAACGTTCATCGTCACATTATATATTAAATTCTTAGAG-
1 ATTCTGTGACAAAAAGCATATAAATATAACGTTCATCGTCACATTATAT-TT-AATTCTTAGAGT
6073057 TTTTTTTTTACATTTATTGGAACATTT
64 TTTTTTTTTACATTTATTGGAACATTT
6073084 GATTGCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
91 72 0.86
92 2 0.02
93 10 0.12
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.45
Consensus pattern (90 bp):
ATTCTGTGACAAAAAGCATATAAATATAACGTTCATCGTCACATTATATTTAATTCTTAGAGTTT
TTTTTTTACATTTATTGGAACATTT
Found at i:6074985 original size:17 final size:17
Alignment explanation
Indices: 6074963--6074995 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6074953 TTCAAGCTTT
6074963 TTTTTTATATTTTTAAA
1 TTTTTTATATTTTTAAA
6074980 TTTTTTATATTTTTAA
1 TTTTTTATATTTTTAA
6074996 TTCATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTTATATTTTTAAA
Found at i:6075004 original size:13 final size:13
Alignment explanation
Indices: 6074986--6075010 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6074976 TAAATTTTTT
6074986 ATATTTTTAATTC
1 ATATTTTTAATTC
6074999 ATATTTTTAATT
1 ATATTTTTAATT
6075011 AATAAGTCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
ATATTTTTAATTC
Found at i:6081529 original size:28 final size:28
Alignment explanation
Indices: 6081493--6081547 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
6081483 ATGCCTACAA
*
6081493 GTAGTCATTCATCTTGAACCTAAATCTT
1 GTAGGCATTCATCTTGAACCTAAATCTT
* *
6081521 GTAGGCATTCATCTTGACCCTGAATCT
1 GTAGGCATTCATCTTGAACCTAAATCT
6081548 GATCATTGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (28 bp):
GTAGGCATTCATCTTGAACCTAAATCTT
Found at i:6089552 original size:6 final size:6
Alignment explanation
Indices: 6089532--6089570 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
6089522 TAGACATTAT
** *
6089532 AAAGGA AAAAAA AAAGGA AAAGGA AAAGAA AAAGGA AAA
1 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAA
6089571 TAGAAAATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:6089555 original size:18 final size:18
Alignment explanation
Indices: 6089532--6089570 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
6089522 TAGACATTAT
6089532 AAAGGAAAAAAAAAAGGA
1 AAAGGAAAAAAAAAAGGA
*
6089550 AAAGGAAAAGAAAAAGGA
1 AAAGGAAAAAAAAAAGGA
6089568 AAA
1 AAA
6089571 TAGAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAGGAAAAAAAAAAGGA
Found at i:6093964 original size:18 final size:18
Alignment explanation
Indices: 6093935--6093983 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
6093925 AATAAGTACT
*
6093935 TATATA-AATTAAATGAA
1 TATATATAATTAAATAAA
*
6093952 TATATATAATTAATTAAA
1 TATATATAATTAAATAAA
* *
6093970 TAAAAATAATTAAA
1 TATATATAATTAAA
6093984 CATGTACCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
TATATATAATTAAATAAA
Found at i:6103220 original size:15 final size:16
Alignment explanation
Indices: 6103200--6103236 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
6103190 ACAAAATCAA
6103200 ATAAAA-TTACATAAT
1 ATAAAAGTTACATAAT
*
6103215 ATAAAAGTTACATTAT
1 ATAAAAGTTACATAAT
6103231 ATAAAA
1 ATAAAA
6103237 ATTAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAAAAGTTACATAAT
Found at i:6103415 original size:60 final size:60
Alignment explanation
Indices: 6103351--6103472 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 60
6103341 ATACTAAACT
* * * * *
6103351 AAACACAACAATTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
6103411 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
6103471 AA
1 AA
6103473 TATTCATACA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 4 0.07
60 52 0.93
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:6103529 original size:88 final size:83
Alignment explanation
Indices: 6103449--6103838 Score: 553
Period size: 80 Copynumber: 4.7 Consensus size: 83
6103439 AATTACTAAC
*
6103449 AAATTAATTATAAAATAATTACAATATTCATACAAACAATATTACAATATTCATACAAAATACTA
1 AAATTAATTATAAAATAATTACAATATTCATACAAACAA-ATTATAATATTCATACAAAATACTA
*
6103514 ATCCAAAACTATAAATACA
65 ATCAAAAACTATAAATACA
6103533 AAATTAATTATAAAATAATTACAATATTCATAC-AAC--ATTATAATATTCATACAAAATACTAA
1 AAATTAATTATAAAATAATTACAATATTCATACAAACAAATTATAATATTCATACAAAATACTAA
*
6103595 TAAAAAACTATAAATACA
66 TCAAAAACTATAAATACA
* * *
6103613 AAATTAATTATAAAATAATTACAAAATTACA-ACATTCATACAAAATTACAATATTTATACAAAA
1 AAATTAATTATAAAATAATTACAATATT-CATACA---A-AC-AAATTATAATATTCATACAAAA
* *
6103677 TATTAATCAAAAACTATAAATATA
60 TACTAATCAAAAACTATAAATACA
*
6103701 AAATTAATTATAAAATAATTACAATATTCATACAAA-AAATTATACTATTCATACAAAATACTAA
1 AAATTAATTATAAAATAATTACAATATTCATACAAACAAATTATAATATTCATACAAAATACTAA
* *
6103765 TCCAAAACAATAAATACA
66 TCAAAAACTATAAATACA
*
6103783 AAATTAATTATAAAATAATTATAATATTCATAC--A-AAATTATAATATTCATACAAAA
1 AAATTAATTATAAAATAATTACAATATTCATACAAACAAATTATAATATTCATACAAAA
6103839 AGTTACAATA
Statistics
Matches: 277, Mismatches: 19, Indels: 24
0.87 0.06 0.08
Matches are distributed among these distances:
80 92 0.33
81 2 0.01
82 71 0.26
83 3 0.01
84 35 0.13
85 3 0.01
87 2 0.01
88 69 0.25
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (83 bp):
AAATTAATTATAAAATAATTACAATATTCATACAAACAAATTATAATATTCATACAAAATACTAA
TCAAAAACTATAAATACA
Found at i:6103577 original size:19 final size:19
Alignment explanation
Indices: 6103550--6103586 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6103540 TTATAAAATA
6103550 ATTACAATATTCATACAAC
1 ATTACAATATTCATACAAC
*
6103569 ATTATAATATTCATACAA
1 ATTACAATATTCATACAA
6103587 AATACTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTACAATATTCATACAAC
Found at i:6103595 original size:19 final size:19
Alignment explanation
Indices: 6103555--6103596 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
6103545 AAATAATTAC
*
6103555 AATATTCATACAACATTAT
1 AATATTCATACAACAATAT
6103574 AATATTCATACAA-AATACT
1 AATATTCATACAACAATA-T
6103593 AATA
1 AATA
6103597 AAAAACTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATTCATACAACAATAT
Found at i:6103654 original size:19 final size:19
Alignment explanation
Indices: 6103632--6103677 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
6103622 ATAAAATAAT
6103632 TACAAAATTACAACATTCA
1 TACAAAATTACAACATTCA
* *
6103651 TACAAAATTACAATATTTA
1 TACAAAATTACAACATTCA
6103670 TACAAAAT
1 TACAAAAT
6103678 ATTAATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.30
Consensus pattern (19 bp):
TACAAAATTACAACATTCA
Found at i:6103692 original size:168 final size:165
Alignment explanation
Indices: 6103449--6103838 Score: 558
Period size: 168 Copynumber: 2.4 Consensus size: 165
6103439 AATTACTAAC
* *
6103449 AAATTAATTATAAAATAATTACAATATTCATACAAACAATATTACAATATTCATACAAAATACTA
1 AAATTAATTATAAAATAATTACAAAATTCATACAAACAAAATTACAATATTCATACAAAATACTA
* *
6103514 ATCCAAAACTATAAATACAAAATTAATTATAAAATAATTACAATATTCATAC-AACATTATAATA
66 ATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAAATTATAATA
*
6103578 TTCATACAAAATACTAATAAAAAACTATAAATACA
131 TTCATACAAAATACTAATAAAAAACAATAAATACA
*
6103613 AAATTAATTATAAAATAATTACAAAATTACA-ACATTCATACAAAATTACAATATTTATACAAAA
1 AAATTAATTATAAAATAATTACAAAATT-CATACA---A-ACAAAATTACAATATTCATACAAAA
* *
6103677 TATTAATCAAAAACTATAAATATAAAATTAATTATAAAATAATTACAATATTCATACAAAAAATT
61 TACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATATTCATAC-AAAAATT
* **
6103742 ATACTATTCATACAAAATACTAATCCAAAACAATAAATACA
125 ATAATATTCATACAAAATACTAATAAAAAACAATAAATACA
* * *
6103783 AAATTAATTATAAAATAATTATAATATTCAT----ACAAAATTATAATATTCATACAAAA
1 AAATTAATTATAAAATAATTACAAAATTCATACAAACAAAATTACAATATTCATACAAAA
6103839 AGTTACAATA
Statistics
Matches: 203, Mismatches: 15, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
162 23 0.11
164 30 0.15
165 2 0.01
167 1 0.00
168 77 0.38
169 2 0.01
170 68 0.33
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (165 bp):
AAATTAATTATAAAATAATTACAAAATTCATACAAACAAAATTACAATATTCATACAAAATACTA
ATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAAATTATAATA
TTCATACAAAATACTAATAAAAAACAATAAATACA
Found at i:6103742 original size:21 final size:21
Alignment explanation
Indices: 6103712--6103859 Score: 85
Period size: 21 Copynumber: 7.2 Consensus size: 21
6103702 AATTAATTAT
6103712 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
* *
6103734 AAAAAATTATACTATTCATAC
1 AAAAAATTACAATATTCATAC
* * *
6103755 --AAAA-TACTA-ATCCAAAAC
1 AAAAAATTACAATATTC-ATAC
* * * *
6103773 AATAAA-TACAAAATTAATTAT
1 AAAAAATTACAATATTCA-TAC
*
6103794 AAAATAATTATAATATTCATAC
1 AAAA-AATTACAATATTCATAC
*
6103816 --AAAATTATAATATTCATAC
1 AAAAAATTACAATATTCATAC
* * *
6103835 AAAAAGTTACAATATACACAC
1 AAAAAATTACAATATTCATAC
6103856 AAAA
1 AAAA
6103860 TTACTCATTG
Statistics
Matches: 95, Mismatches: 22, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
17 3 0.03
18 5 0.05
19 21 0.22
20 10 0.11
21 40 0.42
22 8 0.08
23 8 0.08
ACGTcount: A:0.57, C:0.13, G:0.01, T:0.29
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:6103823 original size:19 final size:19
Alignment explanation
Indices: 6103799--6103862 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
6103789 ATTATAAAAT
6103799 AATTATAATATTCATACAA
1 AATTATAATATTCATACAA
6103818 AATTATAATATTCATACAAA
1 AATTATAATATTCATAC-AA
* * *
6103838 AAGTTACAATATACACACAA
1 AA-TTATAATATTCATACAA
6103858 AATTA
1 AATTA
6103863 CTCATTGACG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
19 20 0.50
20 8 0.20
21 12 0.30
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (19 bp):
AATTATAATATTCATACAA
Found at i:6103909 original size:27 final size:27
Alignment explanation
Indices: 6103871--6103940 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
6103861 TACTCATTGA
*
6103871 CGCCTCCCTATGAGTCACTTTTAATGG
1 CGCCTCCCTATGAGGCACTTTTAATGG
* *
6103898 CGCCTCCTTATGAGGCACTTTTGATGG
1 CGCCTCCCTATGAGGCACTTTTAATGG
*
6103925 TGCCTCCCTATGAGGC
1 CGCCTCCCTATGAGGC
6103941 GCCACCCGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.16, C:0.30, G:0.23, T:0.31
Consensus pattern (27 bp):
CGCCTCCCTATGAGGCACTTTTAATGG
Found at i:6104028 original size:22 final size:22
Alignment explanation
Indices: 6103992--6104034 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6103982 TTTATTAAAT
6103992 TTTAAAAAAAATAAT-ATTTTA
1 TTTAAAAAAAATAATAATTTTA
*
6104013 TTTAAAAAAATTTAATAATTTT
1 TTTAAAAAAA-ATAATAATTTT
6104035 TTATTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTAAAAAAAATAATAATTTTA
Found at i:6105252 original size:15 final size:14
Alignment explanation
Indices: 6105204--6105249 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
6105194 TTATTGTAGA
6105204 TTTAATTTTTATAT
1 TTTAATTTTTATAT
*
6105218 TTTAATTTAATTA-GT
1 TTTAATTT--TTATAT
6105233 TTTAATTTTTATAT
1 TTTAATTTTTATAT
6105247 TTT
1 TTT
6105250 TAAAATTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 3 0.11
14 12 0.44
15 9 0.33
16 3 0.11
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (14 bp):
TTTAATTTTTATAT
Found at i:6113896 original size:24 final size:24
Alignment explanation
Indices: 6113859--6113906 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
6113849 ACAATTCAAC
* *
6113859 TTACTTAGGGTTGAGGTAAGTTAT
1 TTACTTAAGATTGAGGTAAGTTAT
6113883 TTACTTAAGATTGAGGTAAGTTAT
1 TTACTTAAGATTGAGGTAAGTTAT
6113907 ACTATGAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (24 bp):
TTACTTAAGATTGAGGTAAGTTAT
Found at i:6120185 original size:43 final size:43
Alignment explanation
Indices: 6120137--6120224 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
6120127 TCAACCACAT
* * *
6120137 ATCAAATTTAAAGATCAACAAAAGATTGATGCACAAGTAAAGC
1 ATCAAATGTAAACATCAACAAAAGATGGATGCACAAGTAAAGC
6120180 ATCAAATGTAAACATCAACAAAAGATGGATGCACAAGTAAAGC
1 ATCAAATGTAAACATCAACAAAAGATGGATGCACAAGTAAAGC
6120223 AT
1 AT
6120225 GAAGTTACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (43 bp):
ATCAAATGTAAACATCAACAAAAGATGGATGCACAAGTAAAGC
Found at i:6122017 original size:15 final size:15
Alignment explanation
Indices: 6121997--6122027 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6121987 TGAGATTGTG
6121997 AATGAGGAAAATATT
1 AATGAGGAAAATATT
6122012 AATGAGGAAAATATT
1 AATGAGGAAAATATT
6122027 A
1 A
6122028 TATTCCACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.19, T:0.26
Consensus pattern (15 bp):
AATGAGGAAAATATT
Found at i:6122367 original size:30 final size:30
Alignment explanation
Indices: 6122333--6122395 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
6122323 ACTTATTTTA
6122333 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
** * *
6122363 TTGTTGTTTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
6122393 TTG
1 TTG
6122396 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.22, C:0.03, G:0.16, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:6123987 original size:17 final size:17
Alignment explanation
Indices: 6123940--6123979 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6123930 GAATTTAGAA
* *
6123940 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTATT
6123956 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTATT
6123973 GAATTTT
1 GAATTTT
6123980 TTGGTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (17 bp):
GAATTTTGTGATTTATT
Found at i:6125274 original size:46 final size:46
Alignment explanation
Indices: 6125204--6125342 Score: 233
Period size: 46 Copynumber: 3.0 Consensus size: 46
6125194 CATGGCAAAG
*
6125204 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
6125250 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCTTACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
6125296 TGTGAAAAGTAGGTATGGTATTCCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
6125342 T
1 T
6125343 ATAGCCTTGT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:6128410 original size:17 final size:17
Alignment explanation
Indices: 6128388--6128427 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6128378 GATATTGATA
6128388 AAATTT-AATGATATCAC
1 AAATTTCAAT-ATATCAC
*
6128405 AAATTTCAATATATGAC
1 AAATTTCAATATATCAC
6128422 AAATTT
1 AAATTT
6128428 GGATGACGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (17 bp):
AAATTTCAATATATCAC
Found at i:6132452 original size:7 final size:7
Alignment explanation
Indices: 6132440--6132477 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
6132430 AGTGATAGAG
6132440 ATGGATC
1 ATGGATC
6132447 ATGGATC
1 ATGGATC
6132454 ATGGATC
1 ATGGATC
6132461 ATGGATC
1 ATGGATC
6132468 ATGGATC
1 ATGGATC
6132475 ATG
1 ATG
6132478 TATGCCAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (7 bp):
ATGGATC
Found at i:6137029 original size:13 final size:13
Alignment explanation
Indices: 6137011--6137051 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
6137001 TATCATATTT
6137011 TATATTTCAAAAA
1 TATATTTCAAAAA
6137024 TATATTT-ATAAAA
1 TATATTTCA-AAAA
6137037 -ATATTTCAAAAA
1 TATATTTCAAAAA
6137049 TAT
1 TAT
6137052 TTTATTGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATTTCAAAAA
Found at i:6148578 original size:23 final size:24
Alignment explanation
Indices: 6148552--6148605 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
6148542 GACGGCTGGT
6148552 GAGAGGAAGACAAGT-G-GAGAAAG
1 GAGAGGAA-ACAAGTGGAGAGAAAG
* *
6148575 GAGATTGAAACACGTGGAGAGAAAG
1 GAGA-GGAAACAAGTGGAGAGAAAG
6148600 GAGAGG
1 GAGAGG
6148606 TGGGGAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 9 0.36
24 5 0.20
25 11 0.44
ACGTcount: A:0.44, C:0.06, G:0.43, T:0.07
Consensus pattern (24 bp):
GAGAGGAAACAAGTGGAGAGAAAG
Found at i:6153778 original size:18 final size:17
Alignment explanation
Indices: 6153750--6153784 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6153740 ATTATTAAGA
*
6153750 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6153767 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6153785 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6153922 original size:18 final size:17
Alignment explanation
Indices: 6153894--6153928 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6153884 ATTATTAAGA
*
6153894 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6153911 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6153929 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6154139 original size:44 final size:45
Alignment explanation
Indices: 6154090--6154184 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
6154080 TTACACCTCT
* *
6154090 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
6154134 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
6154179 ATTACA
1 ATTACA
6154185 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:6154184 original size:16 final size:16
Alignment explanation
Indices: 6154163--6154195 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6154153 TTGATTTGCT
*
6154163 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
6154179 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
6154195 A
1 A
6154196 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:6154205 original size:21 final size:21
Alignment explanation
Indices: 6154176--6154218 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6154166 ACACCTCTAT
*
6154176 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
6154197 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
6154218 T
1 T
6154219 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:6154293 original size:3 final size:3
Alignment explanation
Indices: 6154285--6154316 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6154275 GTCCACAGTT
6154285 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
6154317 GCATTGTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.34, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:6158081 original size:27 final size:28
Alignment explanation
Indices: 6158051--6158184 Score: 107
Period size: 27 Copynumber: 5.0 Consensus size: 28
6158041 GCTCTAAAGT
* *
6158051 AATCTAAT-TAGAGTACCCCACAAAGGC
1 AATCTAATACAGAGTACGCCACAAAGGC
* **
6158078 AATC-CATACAGAGTATACCACAAAGGC
1 AATCTAATACAGAGTACGCCACAAAGGC
* *
6158105 AACCT-ATACAGAGTACGCCACAAAGGT
1 AATCTAATACAGAGTACGCCACAAAGGC
* * *
6158132 GAT-TCATTCAGAGTACGCCACAAAGGC
1 AATCTAATACAGAGTACGCCACAAAGGC
* * * *
6158159 TATCT-ATACAAAGTATGCCCCAAAGG
1 AATCTAATACAGAGTACGCCACAAAGG
6158185 TGATTCATTC
Statistics
Matches: 86, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
26 3 0.03
27 82 0.95
28 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (28 bp):
AATCTAATACAGAGTACGCCACAAAGGC
Found at i:6158119 original size:54 final size:54
Alignment explanation
Indices: 6158060--6158211 Score: 144
Period size: 54 Copynumber: 2.8 Consensus size: 54
6158050 TAATCTAATT
*
6158060 AGAGTACCCCACAAAGGCAATCCATACAGAGTATACCACAAAGGCAACCTATAC
1 AGAGTACCCCACAAAGGCAATCCATACAGAGTACACCACAAAGGCAACCTATAC
* ** * * * * *
6158114 AGAGTACGCCACAAAGGTGATTCATTCAGAGTACGCCACAAAGGCTATCTATAC
1 AGAGTACCCCACAAAGGCAATCCATACAGAGTACACCACAAAGGCAACCTATAC
* * ** * * *
6158168 AAAGTATGCCC-CAAAGGTGATTCATTCAGAGTACACTACAAAGG
1 AGAGTA-CCCCACAAAGGCAATCCATACAGAGTACACCACAAAGG
6158212 TTGACAGAAT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 81 0.98
55 2 0.02
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (54 bp):
AGAGTACCCCACAAAGGCAATCCATACAGAGTACACCACAAAGGCAACCTATAC
Found at i:6158200 original size:27 final size:27
Alignment explanation
Indices: 6158113--6158212 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
6158103 GCAACCTATA
6158113 CAGAGTACGCCACAAAGGTGATTCATT
1 CAGAGTACGCCACAAAGGTGATTCATT
*
6158140 CAGAGTACGCCACAAAGGCT-A-TCTATA
1 CAGAGTACGCCACAAAGG-TGATTC-ATT
* * *
6158167 CAAAGTATGCCCCAAAGGTGATTCATT
1 CAGAGTACGCCACAAAGGTGATTCATT
* *
6158194 CAGAGTACACTACAAAGGT
1 CAGAGTACGCCACAAAGGT
6158213 TGACAGAATG
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 3 0.05
27 53 0.90
28 3 0.05
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (27 bp):
CAGAGTACGCCACAAAGGTGATTCATT
Found at i:6161662 original size:7 final size:7
Alignment explanation
Indices: 6161652--6161678 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6161642 ATAAAATATA
6161652 ATTAAAT
1 ATTAAAT
6161659 ATTAAAT
1 ATTAAAT
6161666 ATTAAAT
1 ATTAAAT
6161673 ATTAAA
1 ATTAAA
6161679 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATTAAAT
Found at i:6163838 original size:20 final size:20
Alignment explanation
Indices: 6163806--6163859 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
6163796 TATATAAATA
*
6163806 ATTTTAAAAAATAAAAACAC
1 ATTTTATAAAATAAAAACAC
* *
6163826 A-TTTATAATAAT-ATAACTC
1 ATTTTATAA-AATAAAAACAC
6163845 ATTTTATAAAATAAA
1 ATTTTATAAAATAAA
6163860 TAGTCTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTTTATAAAATAAAAACAC
Found at i:6171435 original size:29 final size:29
Alignment explanation
Indices: 6171402--6171459 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
6171392 ATTTTATTGT
6171402 TAATTTTGTTATTATTTTAAAGGCATTTG
1 TAATTTTGTTATTATTTTAAAGGCATTTG
*
6171431 TAATTTTGTTATTATTTTATAGGCATTTG
1 TAATTTTGTTATTATTTTAAAGGCATTTG
6171460 CTTGTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.03, G:0.14, T:0.57
Consensus pattern (29 bp):
TAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:6176636 original size:23 final size:23
Alignment explanation
Indices: 6176609--6176655 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
6176599 CATGTTAGTT
*
6176609 TTTGATTACTTTCATTAGTCACG
1 TTTGATTACTTTCACTAGTCACG
*
6176632 TTTGATTACTTTCGCTAGTCACG
1 TTTGATTACTTTCACTAGTCACG
6176655 T
1 T
6176656 CAATATTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (23 bp):
TTTGATTACTTTCACTAGTCACG
Found at i:6177100 original size:16 final size:17
Alignment explanation
Indices: 6177063--6177094 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6177053 TTTATTTTTA
6177063 TTTTTAATTAAATATAC
1 TTTTTAATTAAATATAC
6177080 TTTTT-ATTAAATATA
1 TTTTTAATTAAATATA
6177095 TATTTTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTTAATTAAATATAC
Found at i:6177102 original size:18 final size:16
Alignment explanation
Indices: 6177061--6177101 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
6177051 TATTTATTTT
*
6177061 TATTTTTAATTAAATA
1 TATTTTTTATTAAATA
*
6177077 TACTTTTTATTAAATA
1 TATTTTTTATTAAATA
6177093 TATATTTTT
1 TAT-TTTTT
6177102 TGGACTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTTTTATTAAATA
Found at i:6186865 original size:119 final size:120
Alignment explanation
Indices: 6186740--6187028 Score: 492
Period size: 119 Copynumber: 2.4 Consensus size: 120
6186730 AATTATTTTA
*
6186740 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
* * *
6186805 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
6186859 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAA-TATTAATTATTTCAAATTATATTT
6186923 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
6186979 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
6187029 GTTTAAATAT
Statistics
Matches: 160, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
119 109 0.68
120 51 0.32
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:6186886 original size:18 final size:18
Alignment explanation
Indices: 6186860--6186915 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 18
6186850 GATTATTAGA
6186860 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
6186877 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
6186893 A-TTTAATT--ATTAT-T
1 ATTTTAATTAAATTATAT
6186907 ATTTTAATT
1 ATTTTAATT
6186916 TATATTTTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
13 1 0.03
14 2 0.06
15 16 0.46
16 5 0.14
17 5 0.14
18 6 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:6186921 original size:15 final size:14
Alignment explanation
Indices: 6186869--6186924 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
6186859 AATTTTATTA
6186869 AATTATA-TATTTT
1 AATTATATTATTTT
* *
6186882 AATTAAAATATATTT
1 AATTATATTAT-TTT
6186897 AATTATTATTATTTT
1 AATTA-TATTATTTT
6186912 AATT-TA-TATTTT
1 AATTATATTATTTT
6186924 A
1 A
6186925 CAGTATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.19
13 8 0.22
14 3 0.08
15 15 0.41
16 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTATATTATTTT
Found at i:6187008 original size:18 final size:17
Alignment explanation
Indices: 6186980--6187014 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6186970 ATTATTAAGA
*
6186980 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6186997 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6187015 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6187119 original size:147 final size:149
Alignment explanation
Indices: 6186968--6187242 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
6186958 ATAAGAATAT
*
6186968 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
6187033 AAATATGAGTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
6187096 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
6187115 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
6187180 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
6187243 CAATAATCAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 90 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:6187155 original size:18 final size:17
Alignment explanation
Indices: 6187127--6187161 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6187117 ATTATTAAGA
*
6187127 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6187144 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6187162 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6187372 original size:44 final size:45
Alignment explanation
Indices: 6187323--6187417 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
6187313 TTACACCTCT
* * *
6187323 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
6187367 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
6187412 ATTACA
1 ATTACA
6187418 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Done.