Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 14 of 77
Found at i:2358942 original size:173 final size:172
Alignment explanation
Indices: 2358638--2358982 Score: 609
Period size: 173 Copynumber: 2.0 Consensus size: 172
2358628 TTTTTTAATC
* * *
2358638 CGCTATTGAGTTTTTAAAATGCAAAATTAAGGTAATGAGGTCAGACATACGTGATGAATACTGTG
1 CGCTATCGAGTTTTTAAAATGCAAAATTAAGGTAATGAGGTCAAACATACATGATGAATACTGTG
*
2358703 GTCGGTATGATGAAACTAGGTGCAATCCTGGACTATTCTATTAAGTCTTTTGTAGGATTATGGTG
66 GTCAGTATGATGAAACTAGGTGCAATCCTGGACTATTCTATTAAGTCTTTTGTAGGATTATGGTG
**
2358768 TTGATGTCTAGTATGATGTGCCTAGAATACCAAAAGAGAATA
131 TTGACCTCTAGTATGATGTGCCTAGAATACCAAAAGAGAATA
*
2358810 CGCTATCGAGTTTTTAAAAATGCAAAATTAAGGTAATGAGGTCAAACATACATGATGAATATTGT
1 CGCTATCGAGTTTTT-AAAATGCAAAATTAAGGTAATGAGGTCAAACATACATGATGAATACTGT
*
2358875 GGTCAGTATGATGAAACTAGGTGCAATCCTGGACTATTCTGTTAAGTCTTTTGTAGGATTATGGT
65 GGTCAGTATGATGAAACTAGGTGCAATCCTGGACTATTCTATTAAGTCTTTTGTAGGATTATGGT
2358940 GTTGACCTCTAGTATGATGTGCCTAGAATACCAAAAGAGAATA
130 GTTGACCTCTAGTATGATGTGCCTAGAATACCAAAAGAGAATA
2358983 ACGTTGTAAT
Statistics
Matches: 164, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
172 14 0.09
173 150 0.91
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (172 bp):
CGCTATCGAGTTTTTAAAATGCAAAATTAAGGTAATGAGGTCAAACATACATGATGAATACTGTG
GTCAGTATGATGAAACTAGGTGCAATCCTGGACTATTCTATTAAGTCTTTTGTAGGATTATGGTG
TTGACCTCTAGTATGATGTGCCTAGAATACCAAAAGAGAATA
Found at i:2361586 original size:19 final size:19
Alignment explanation
Indices: 2361558--2361662 Score: 81
Period size: 19 Copynumber: 5.5 Consensus size: 19
2361548 TTCAATAAAG
2361558 ATTCACAAAAGATTCAAAA
1 ATTCACAAAAGATTCAAAA
* * **
2361577 ATTCATAAAAAAACCCAAAA
1 ATTCA-CAAAAGATTCAAAA
* * *
2361597 ATTTCATAAAATATTC-AAG
1 A-TTCACAAAAGATTCAAAA
*
2361616 ATTCA-AAAAGATTAAAAA
1 ATTCACAAAAGATTCAAAA
*
2361634 ATTCACAAATA-ATTCAAAG
1 ATTCACAAA-AGATTCAAAA
2361653 ATTCACAAAA
1 ATTCACAAAA
2361663 AAATTTCAAG
Statistics
Matches: 67, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
17 7 0.10
18 12 0.18
19 26 0.39
20 18 0.27
21 4 0.06
ACGTcount: A:0.58, C:0.14, G:0.04, T:0.24
Consensus pattern (19 bp):
ATTCACAAAAGATTCAAAA
Found at i:2361673 original size:20 final size:20
Alignment explanation
Indices: 2361604--2361675 Score: 53
Period size: 19 Copynumber: 3.7 Consensus size: 20
2361594 AAAATTTCAT
2361604 AAAATATTCAAGATT--CAAA
1 AAAAT-TTCAAGATTCACAAA
* ** *
2361623 AAGATTAAAAAATTCAC-AA
1 AAAATTTCAAGATTCACAAA
*
2361642 ATAA-TTCAAAGATTCACAAA
1 AAAATTTC-AAGATTCACAAA
2361662 AAAATTTCAAGATT
1 AAAATTTCAAGATT
2361676 AGGAAAGATA
Statistics
Matches: 38, Mismatches: 10, Indels: 9
0.67 0.18 0.16
Matches are distributed among these distances:
18 7 0.18
19 16 0.42
20 12 0.32
21 3 0.08
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (20 bp):
AAAATTTCAAGATTCACAAA
Found at i:2361736 original size:18 final size:18
Alignment explanation
Indices: 2361715--2361782 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
2361705 CAAGATTCAT
2361715 AAAGATTCAAAGATTTGC
1 AAAGATTCAAAGATTTGC
**
2361733 AAAGA-TCTAAAGGCTTGC
1 AAAGATTC-AAAGATTTGC
*
2361751 AAATG-TTC-AAGATTCGC
1 AAA-GATTCAAAGATTTGC
* *
2361768 AAAGGTTCCAAGATT
1 AAAGATTCAAAGATT
2361783 CGTAAAAGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
16 1 0.03
17 14 0.35
18 22 0.55
19 3 0.08
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (18 bp):
AAAGATTCAAAGATTTGC
Found at i:2361783 original size:18 final size:18
Alignment explanation
Indices: 2361749--2361796 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
2361739 CTAAAGGCTT
*
2361749 GCAAATGTT-CAAGATTC
1 GCAAAAGTTCCAAGATTC
*
2361766 GCAAAGGTTCCAAGATTC
1 GCAAAAGTTCCAAGATTC
*
2361784 GTAAAAGTTCCAA
1 GCAAAAGTTCCAA
2361797 AATAATTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (18 bp):
GCAAAAGTTCCAAGATTC
Found at i:2362129 original size:25 final size:24
Alignment explanation
Indices: 2362100--2362154 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
2362090 TTTAATCTTG
* * *
2362100 ATTTTGATTTTGATTTTTTTATTT
1 ATTTTGATATTAATTTTTTGATTT
2362124 AGTTTTGATATTAATTTTTTGATTT
1 A-TTTTGATATTAATTTTTTGATTT
2362149 ATTTTG
1 ATTTTG
2362155 GTTAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (24 bp):
ATTTTGATATTAATTTTTTGATTT
Found at i:2363156 original size:13 final size:12
Alignment explanation
Indices: 2363138--2363203 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 12
2363128 CGATTGTAAG
2363138 TTTTTTTCTTTT
1 TTTTTTTCTTTT
2363150 CTTTTTTTCTTTT
1 -TTTTTTTCTTTT
**
2363163 TTTTATTTGATTT
1 TTTT-TTTCTTTT
*
2363176 TTATTTTCTTATT
1 TTTTTTTCTT-TT
2363189 TTATTTTTCTATTT
1 TT-TTTTTCT-TTT
2363203 T
1 T
2363204 GTTGTTTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
12 8 0.19
13 25 0.58
14 9 0.21
15 1 0.02
ACGTcount: A:0.09, C:0.08, G:0.02, T:0.82
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:2363203 original size:21 final size:21
Alignment explanation
Indices: 2363141--2363213 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 21
2363131 TTGTAAGTTT
2363141 TTTTCTT-TTCTT-TTTTTCT-
1 TTTTCTTATT-TTATTTTTCTA
* *
2363160 TTTTTTTATTTGA-TTTT-TA
1 TTTTCTTATTTTATTTTTCTA
2363179 TTTTCTTATTTTATTTTTCTA
1 TTTTCTTATTTTATTTTTCTA
* *
2363200 TTTTGTTGTTTTAT
1 TTTTCTTATTTTAT
2363214 ATATTATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 1 0.02
19 22 0.51
20 6 0.14
21 14 0.33
ACGTcount: A:0.10, C:0.07, G:0.04, T:0.79
Consensus pattern (21 bp):
TTTTCTTATTTTATTTTTCTA
Found at i:2363226 original size:13 final size:14
Alignment explanation
Indices: 2363208--2363247 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
2363198 TATTTTGTTG
2363208 TTTTATATATTAT-
1 TTTTATATATTATA
2363221 TTTTATAT-TTATA
1 TTTTATATATTATA
2363234 TTTTA-ATATT-TA
1 TTTTATATATTATA
2363246 TT
1 TT
2363248 ATAGTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTATATATTATA
Found at i:2363237 original size:14 final size:14
Alignment explanation
Indices: 2363208--2363246 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2363198 TATTTTGTTG
*
2363208 TTTTATATAT-TAT
1 TTTTATATTTATAT
2363221 TTTTATATTTATAT
1 TTTTATATTTATAT
*
2363235 TTTAATATTTAT
1 TTTTATATTTAT
2363247 TATAGTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATATTTATAT
Found at i:2363350 original size:20 final size:19
Alignment explanation
Indices: 2363327--2363365 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
2363317 TTGCATGATT
*
2363327 TTTTTATATATATTTGTATG
1 TTTTCATATATA-TTGTATG
*
2363347 TTTTCATATTTATTGTATG
1 TTTTCATATATATTGTATG
2363366 ATCTATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (19 bp):
TTTTCATATATATTGTATG
Found at i:2363432 original size:20 final size:20
Alignment explanation
Indices: 2363407--2363476 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
2363397 ATTATATTTA
2363407 ATTGCATGATAATTAATATT
1 ATTGCATGATAATTAATATT
2363427 ATTGCATGATAATTAATATT
1 ATTGCATGATAATTAATATT
* *
2363447 ATTGCATGATAGTTTATTATT
1 ATTGCATGATA-ATTAATATT
2363468 ATTGCATGA
1 ATTGCATGA
2363477 CGATTTATGT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
20 31 0.66
21 16 0.34
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.46
Consensus pattern (20 bp):
ATTGCATGATAATTAATATT
Found at i:2363484 original size:21 final size:20
Alignment explanation
Indices: 2363389--2363476 Score: 99
Period size: 20 Copynumber: 4.5 Consensus size: 20
2363379 ATTTCGCATA
* *
2363389 ATTGCATGAT-TATATT-TA
1 ATTGCATGATATTTATTATT
* *
2363407 ATTGCATGATAATTAATATT
1 ATTGCATGATATTTATTATT
* *
2363427 ATTGCATGATAATTAATATT
1 ATTGCATGATATTTATTATT
2363447 ATTGCATGATAGTTTATTATT
1 ATTGCATGATA-TTTATTATT
2363468 ATTGCATGA
1 ATTGCATGA
2363477 CGATTTATGT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.16
19 3 0.05
20 32 0.52
21 16 0.26
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (20 bp):
ATTGCATGATATTTATTATT
Found at i:2364743 original size:21 final size:21
Alignment explanation
Indices: 2364704--2364748 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2364694 TACTAACCCT
* * *
2364704 TTATGTTATTGTTTGTATATA
1 TTATGTTATTCTTTATATACA
*
2364725 TTATGTTGTTCTTTATATACA
1 TTATGTTATTCTTTATATACA
2364746 TTA
1 TTA
2364749 CGTGCATACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.60
Consensus pattern (21 bp):
TTATGTTATTCTTTATATACA
Found at i:2367767 original size:11 final size:10
Alignment explanation
Indices: 2367752--2367799 Score: 62
Period size: 11 Copynumber: 4.7 Consensus size: 10
2367742 GGATTAAGGG
2367752 AAAAAAATGA
1 AAAAAAATGA
*
2367762 GAAAAAAAGTGC
1 -AAAAAAA-TGA
2367774 AAAAAAAT-A
1 AAAAAAATGA
2367783 AAAAAAATGA
1 AAAAAAATGA
2367793 AAAAAAA
1 AAAAAAA
2367800 CAACAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 8 0.24
10 9 0.27
11 14 0.42
12 2 0.06
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.08
Consensus pattern (10 bp):
AAAAAAATGA
Found at i:2367768 original size:10 final size:9
Alignment explanation
Indices: 2367751--2367798 Score: 51
Period size: 9 Copynumber: 4.9 Consensus size: 9
2367741 TGGATTAAGG
2367751 GAAAAAAAT
1 GAAAAAAAT
2367760 GAGAAAAAAAGT
1 --GAAAAAAA-T
2367772 GCAAAAAAAT
1 G-AAAAAAAT
*
2367782 AAAAAAAAT
1 GAAAAAAAT
2367791 GAAAAAAA
1 GAAAAAAA
2367799 ACAACAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 15 0.45
10 2 0.06
11 15 0.45
12 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.08
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:2367812 original size:31 final size:31
Alignment explanation
Indices: 2367752--2367810 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
2367742 GGATTAAGGG
***
2367752 AAAAAAATGAGAAAAAAAGTGCAAAAAAATA
1 AAAAAAATGAGAAAAAAACAACAAAAAAATA
2367783 AAAAAAATGA-AAAAAAACAACAAAAAAA
1 AAAAAAATGAGAAAAAAACAACAAAAAAA
2367811 ATGAGGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.80, C:0.05, G:0.08, T:0.07
Consensus pattern (31 bp):
AAAAAAATGAGAAAAAAACAACAAAAAAATA
Found at i:2367821 original size:22 final size:21
Alignment explanation
Indices: 2367774--2367814 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
2367764 AAAAAAGTGC
*
2367774 AAAAAAATAAAAAAAATGAAA
1 AAAAAAACAAAAAAAATGAAA
2367795 AAAAACAACAAAAAAAATGA
1 AAAAA-AACAAAAAAAATGA
2367815 GGAAAAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.83, C:0.05, G:0.05, T:0.07
Consensus pattern (21 bp):
AAAAAAACAAAAAAAATGAAA
Found at i:2369338 original size:17 final size:18
Alignment explanation
Indices: 2369298--2369385 Score: 58
Period size: 17 Copynumber: 5.1 Consensus size: 18
2369288 TTTTGCAAAT
2369298 TTGAAAGTC-TTGTGAATC
1 TTGAAA-TCTTTGTGAATC
*
2369316 TAGAAATCTTTGTGAA-C
1 TTGAAATCTTTGTGAATC
* **
2369333 TTGAAACCTTTGCAAATC
1 TTGAAATCTTTGTGAATC
* * * * *
2369351 -TGGAACCTCTATGAAAC
1 TTGAAATCTTTGTGAATC
2369368 TTGAAATC-TTGTGAATC
1 TTGAAATCTTTGTGAATC
2369385 T
1 T
2369386 AGAACTTATG
Statistics
Matches: 51, Mismatches: 16, Indels: 7
0.69 0.22 0.09
Matches are distributed among these distances:
17 33 0.65
18 18 0.35
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (18 bp):
TTGAAATCTTTGTGAATC
Found at i:2369380 original size:69 final size:67
Alignment explanation
Indices: 2369289--2369468 Score: 179
Period size: 69 Copynumber: 2.6 Consensus size: 67
2369279 ACCTAAAATT
* * * *
2369289 TTTGCAAATTTGAAAGTCTTGTGAATCTAGAAATCTTTGTGAACTT-GAAACCTTTGCAAATCTG
1 TTTGAAAACTTGAAA-TCTTGTGAATCTAG-AATCTTTGTGAACTTAG-AACCTTTACAAATCTA
2369353 GAACC
63 GAACC
*
2369358 TCTATG-AAACTTGAAATCTTGTGAATCTAGAA-CTTATGTGAAACTTAGAATCTTTACAAATCT
1 T-T-TGAAAACTTGAAATCTTGTGAATCTAGAATCTT-TGTG-AACTTAGAACCTTTACAAATCT
2369421 AGAACC
62 AGAACC
* ** *
2369427 TTTGCAAAACTTGAAACCTTGCAAATCTTGAAT-TTTGTGAAC
1 TTTG-AAAACTTGAAATCTTGTGAATCTAGAATCTTTGTGAAC
2369469 CTTTGAATTT
Statistics
Matches: 95, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
67 8 0.08
68 11 0.12
69 63 0.66
70 11 0.12
71 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (67 bp):
TTTGAAAACTTGAAATCTTGTGAATCTAGAATCTTTGTGAACTTAGAACCTTTACAAATCTAGAA
CC
Found at i:2369400 original size:34 final size:33
Alignment explanation
Indices: 2369298--2369467 Score: 105
Period size: 35 Copynumber: 4.9 Consensus size: 33
2369288 TTTTGCAAAT
2369298 TTGAAAGTCTTGTGAATCTAGAAATCTTTGTG-AAC
1 TTGAAA-TCTTGTGAATCTAG-AA-CTTTGTGAAAC
* * * *
2369333 TTGAAACCTT-TGCAAATCTGGAACCTCTATGAAAC
1 TTGAAATCTTGTG--AATCTAGAA-CTTTGTGAAAC
2369368 TTGAAATCTTGTGAATCTAGAACTTATGTGAAAC
1 TTGAAATCTTGTGAATCTAGAACTT-TGTGAAAC
* **
2369402 TT-AGAATCTT-TACAAATCTAGAACCTTTGCAAAAC
1 TTGA-AATCTTGT--GAATCTAGAA-CTTTGTGAAAC
* ** * *
2369437 TTGAAACCTTGCAAATCTTGAATTTTGTGAA
1 TTGAAATCTTGTGAATCTAGAACTTTGTGAA
2369468 CCTTTGAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
33 12 0.11
34 42 0.40
35 46 0.43
36 6 0.06
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGAAATCTTGTGAATCTAGAACTTTGTGAAAC
Found at i:2369448 original size:17 final size:18
Alignment explanation
Indices: 2369423--2369458 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2369413 ACAAATCTAG
2369423 AACCTTTGCAAAACTTGA
1 AACCTTTGCAAAACTTGA
*
2369441 AACC-TTGCAAATCTTGA
1 AACCTTTGCAAAACTTGA
2369458 A
1 A
2369459 TTTTGTGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (18 bp):
AACCTTTGCAAAACTTGA
Found at i:2369952 original size:26 final size:26
Alignment explanation
Indices: 2369909--2369964 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
2369899 AAGCCCAAAA
*
2369909 TTTTTTAATCTTTATTTTGATTTTGAT
1 TTTTTTAA-CTTTATTTTGATTTTAAT
*
2369936 TTTTTTAA-TTTAGTTTTGGTTTTAAT
1 TTTTTTAACTTTA-TTTTGATTTTAAT
2369962 TTT
1 TTT
2369965 GTGTTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 14 0.54
27 8 0.31
ACGTcount: A:0.18, C:0.02, G:0.09, T:0.71
Consensus pattern (26 bp):
TTTTTTAACTTTATTTTGATTTTAAT
Found at i:2370437 original size:31 final size:30
Alignment explanation
Indices: 2370378--2370437 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
2370368 TTGGGTCTTC
2370378 TAAGTTTTTGTTTTGATTTTGAGTATTTTTA
1 TAAGTTTTTGTTTTGATTTTGAG-ATTTTTA
*
2370409 TAAGTTTTGTGATTTTTATTTTGA-ATTTT
1 TAAGTTTT-TG-TTTTGATTTTGAGATTTT
2370438 CCATCACTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 13 0.50
32 2 0.08
33 11 0.42
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.65
Consensus pattern (30 bp):
TAAGTTTTTGTTTTGATTTTGAGATTTTTA
Found at i:2370787 original size:22 final size:21
Alignment explanation
Indices: 2370757--2370798 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
2370747 TTTCTTATTT
* *
2370757 TATTTTATTTTTATATATTATA
1 TATTATATTTTAATAT-TTATA
2370779 TATTATATTTTAATATTTAT
1 TATTATATTTTAATATTTAT
2370799 TATAGTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTATATTTTAATATTTATA
Found at i:2370993 original size:20 final size:21
Alignment explanation
Indices: 2370965--2371039 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
2370955 ATTATATTTA
2370965 ATTGCATGATA-ATTAATATT
1 ATTGCATGATAGATTAATATT
* * *
2370985 ATTGTATGATAGTTTATTATT
1 ATTGCATGATAGATTAATATT
* *
2371006 ATTGCAAGATATATTATATTATT
1 ATTGCATGATAGATTA-A-TATT
*
2371029 ATTACATGATA
1 ATTGCATGATA
2371040 ATTTCTGTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
20 10 0.24
21 19 0.45
23 13 0.31
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (21 bp):
ATTGCATGATAGATTAATATT
Found at i:2371016 original size:21 final size:23
Alignment explanation
Indices: 2370955--2371031 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 23
2370945 TAATTGAATG
* *
2370955 ATTATATT-TAATTGCATGATA-
1 ATTATATTATTATTGCAAGATAT
* *
2370976 ATTA-A-TATTATTGTATGATA-
1 ATTATATTATTATTGCAAGATAT
*
2370996 GTT-TATTATTATTGCAAGATAT
1 ATTATATTATTATTGCAAGATAT
2371018 ATTATATTATTATT
1 ATTATATTATTATT
2371032 ACATGATAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.02
20 15 0.33
21 17 0.38
22 2 0.04
23 10 0.22
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (23 bp):
ATTATATTATTATTGCAAGATAT
Found at i:2371868 original size:23 final size:22
Alignment explanation
Indices: 2371837--2371987 Score: 99
Period size: 23 Copynumber: 6.7 Consensus size: 22
2371827 AAAAAATTCA
* *
2371837 AAAAGTTCAAAAATTCTCACTTG
1 AAAATTTCAAATATTCTCA-TTG
* *
2371860 AAAATTTCAAAGATTCTCATTTT
1 AAAATTTCAAATATTCTCA-TTG
* * *
2371883 AAACTTTTTAAATATTCTCA-TA
1 AAA-ATTTCAAATATTCTCATTG
* * *
2371905 AAAAATTCAAAGATTCACATCTG
1 AAAATTTCAAATATTCTCAT-TG
*
2371928 AAAAGTTCAAATATTCTCATTTG
1 AAAATTTCAAATATTCTCA-TTG
* * **
2371951 AAACTTTTAAATATTCTCATCC
1 AAAATTTCAAATATTCTCATTG
*
2371973 AAAATTT-AAAGATTC
1 AAAATTTCAAATATTC
2371988 ATATTTGAAA
Statistics
Matches: 100, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
21 18 0.18
22 11 0.11
23 57 0.57
24 14 0.14
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.37
Consensus pattern (22 bp):
AAAATTTCAAATATTCTCATTG
Found at i:2371987 original size:67 final size:68
Alignment explanation
Indices: 2371836--2372003 Score: 205
Period size: 67 Copynumber: 2.5 Consensus size: 68
2371826 CAAAAAATTC
* * * * *
2371836 AAAAAGTTCAAAAATTCTCA-CTTGAAAATTTCAAAGATTCTCATTTTAAACTTTTTAAATATTC
1 AAAAAATTCAAAGATTCACATC-TGAAAACTTCAAAGATTCTCATTTGAAACTTTTTAAATATTC
2371900 TCAT
65 TCAT
* *
2371904 AAAAAATTCAAAGATTCACATCTGAAAAGTTCAAATATTCTCATTTGAAAC-TTTTAAATATTCT
1 AAAAAATTCAAAGATTCACATCTGAAAACTTCAAAGATTCTCATTTGAAACTTTTTAAATATTCT
2371968 CAT
66 CAT
** * * *
2371971 CCAAAATTTAAAGATTCATATTTGAAAACTTCA
1 AAAAAATTCAAAGATTCACATCTGAAAACTTCA
2372004 TTTTTAAAAT
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
67 43 0.49
68 43 0.49
69 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.37
Consensus pattern (68 bp):
AAAAAATTCAAAGATTCACATCTGAAAACTTCAAAGATTCTCATTTGAAACTTTTTAAATATTCT
CAT
Found at i:2372316 original size:12 final size:11
Alignment explanation
Indices: 2372298--2372383 Score: 61
Period size: 12 Copynumber: 7.4 Consensus size: 11
2372288 TTCATTTCCC
2372298 TTTTTTTCTCT
1 TTTTTTTCTCT
2372309 TGTTTTTTC-CT
1 T-TTTTTTCTCT
2372320 TTTTTCTTCTCT
1 TTTTT-TTCTCT
*
2372332 TATTTTTCT-T
1 TTTTTTTCTCT
2372342 TCTTTCTTTCTTTCT
1 T-TTT-TTTC--TCT
*
2372357 TGTTTTTTTTCT
1 T-TTTTTTCTCT
2372369 TTCTTTTTCT-T
1 TT-TTTTTCTCT
2372380 TTTT
1 TTTT
2372384 CTTGCTTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
10 8 0.13
11 17 0.28
12 27 0.44
14 4 0.07
15 5 0.08
ACGTcount: A:0.01, C:0.17, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:2372317 original size:22 final size:23
Alignment explanation
Indices: 2372292--2372338 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2372282 TAAGTCTTCA
*
2372292 TTTCCCTTTTT-TTCTCTTGTTT
1 TTTCCCTTTTTCTTCTCTTATTT
*
2372314 TTTCCTTTTTTCTTCTCTTATTT
1 TTTCCCTTTTTCTTCTCTTATTT
2372337 TT
1 TT
2372339 CTTTCTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTCCCTTTTTCTTCTCTTATTT
Found at i:2372339 original size:22 final size:23
Alignment explanation
Indices: 2372292--2372353 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
2372282 TAAGTCTTCA
* *
2372292 TTTCCCTTTTT-TTCTCTTGTTT
1 TTTCCTTTTTTCTTCTCTTGATT
2372314 TTTCCTTTTTTCTTCTCTT-ATT
1 TTTCCTTTTTTCTTCTCTTGATT
2372336 TTT-CTTTCTTTCTT-TCTT
1 TTTCCTTT-TTTCTTCTCTT
2372354 TCTTGTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 8 0.22
22 21 0.58
23 7 0.19
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTCCTTTTTTCTTCTCTTGATT
Found at i:2372345 original size:4 final size:4
Alignment explanation
Indices: 2372318--2372403 Score: 65
Period size: 4 Copynumber: 22.0 Consensus size: 4
2372308 TTGTTTTTTC
* *
2372318 CTTT -TTT CTTCT CTTAT TTTT CTTT CTTT CTTT CTTT CTTGT -TTT TTTT
1 CTTT CTTT CTT-T CTT-T CTTT CTTT CTTT CTTT CTTT CTT-T CTTT CTTT
* * *
2372367 CTTT C-TT -TTT CTTT -TTT CTTG CTTT TTTT CTTG CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
2372404 TTCTTTTTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
3 11 0.17
4 46 0.71
5 8 0.12
ACGTcount: A:0.01, C:0.19, G:0.03, T:0.77
Consensus pattern (4 bp):
CTTT
Found at i:2372385 original size:29 final size:29
Alignment explanation
Indices: 2372298--2372412 Score: 128
Period size: 29 Copynumber: 3.9 Consensus size: 29
2372288 TTCATTTCCC
*
2372298 TTTTTTTCTCTTGT-TTTTTCCTTTTTTCTTC
1 TTTTTTT-TCTT-TCTTTTT-CTTTTTTCTTG
2372329 TCTTATTTTTCTTTC--TTTCTTTCTTTCTTG
1 T-TT-TTTTTCTTTCTTTTTCTTT-TTTCTTG
2372359 TTTTTTTTCTTTCTTTTTCTTTTTTCTTG
1 TTTTTTTTCTTTCTTTTTCTTTTTTCTTG
* *
2372388 CTTTTTTTCTTGCTTTTTCTTTTTT
1 TTTTTTTTCTTTCTTTTTCTTTTTT
2372413 TTTTTGTACA
Statistics
Matches: 75, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
28 10 0.13
29 36 0.48
30 17 0.23
31 2 0.03
32 6 0.08
33 4 0.05
ACGTcount: A:0.01, C:0.17, G:0.03, T:0.78
Consensus pattern (29 bp):
TTTTTTTTCTTTCTTTTTCTTTTTTCTTG
Found at i:2372393 original size:12 final size:12
Alignment explanation
Indices: 2372314--2372416 Score: 85
Period size: 12 Copynumber: 8.9 Consensus size: 12
2372304 TCTCTTGTTT
*
2372314 TTTCCTTTTTTC
1 TTTCTTTTTTTC
2372326 TTCTCTTATTTTTC
1 TT-TCTT-TTTTTC
*
2372340 TTTCTTTCTTTC
1 TTTCTTTTTTTC
2372352 TTTCTTGTTTTT-
1 TTTCTT-TTTTTC
*
2372364 TTTC-TTTCTT-
1 TTTCTTTTTTTC
2372374 TTTC-TTTTTTC
1 TTTCTTTTTTTC
*
2372385 TTGCTTTTTTTC
1 TTTCTTTTTTTC
*
2372397 TTGC--TTTTTC
1 TTTCTTTTTTTC
2372407 TTT-TTTTTTT
1 TTTCTTTTTTT
2372417 TGTACATATT
Statistics
Matches: 77, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
10 21 0.27
11 9 0.12
12 28 0.36
13 11 0.14
14 8 0.10
ACGTcount: A:0.01, C:0.17, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:2372417 original size:12 final size:12
Alignment explanation
Indices: 2372298--2372417 Score: 73
Period size: 13 Copynumber: 9.6 Consensus size: 12
2372288 TTCATTTCCC
*
2372298 TTTTTTTCTCTTG
1 TTTTTTTCT-TTT
*
2372311 TTTTTTCCTTTT
1 TTTTTTTCTTTT
* *
2372323 TTCTTCTCTTATT
1 TTTTTTTCTT-TT
*
2372336 TTTCTTTCTTTCT
1 TTTTTTTCTTT-T
*
2372349 TTCTTTCTTGTTTT
1 TT-TTT-TTCTTTT
2372363 TTTTCTTTCTTTT
1 TTTT-TTTCTTTT
**
2372376 TCTTTTTTCTTGC
1 T-TTTTTTCTTTT
2372389 TTTTTTTC--TT
1 TTTTTTTCTTTT
**
2372399 GCTTTTTCTTTT
1 TTTTTTTCTTTT
2372411 TTTTTTT
1 TTTTTTT
2372418 GTACATATTT
Statistics
Matches: 80, Mismatches: 19, Indels: 17
0.69 0.16 0.15
Matches are distributed among these distances:
10 6 0.08
12 24 0.30
13 36 0.45
14 9 0.11
15 5 0.06
ACGTcount: A:0.01, C:0.17, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:2372750 original size:15 final size:15
Alignment explanation
Indices: 2372711--2372763 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
2372701 CATTAATTTT
* *
2372711 TTTTCTTTTTTTTA-
1 TTTTCTTTTTCTAAC
2372725 TTTCTCTTTTTCTTAAC
1 TTT-TCTTTTTC-TAAC
*
2372742 TTTTCTTTTTCTATC
1 TTTTCTTTTTCTAAC
2372757 TTTTCTT
1 TTTTCTT
2372764 CATATTTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 3 0.09
15 17 0.52
16 10 0.30
17 3 0.09
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTCTTTTTCTAAC
Found at i:2375627 original size:34 final size:34
Alignment explanation
Indices: 2375589--2375663 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
2375579 TTAACAAATA
2375589 ATCATAAAATAAAAACCATCAAAGTAAGGTTATT
1 ATCATAAAATAAAAACCATCAAAGTAAGGTTATT
2375623 ATCATAAAATAAAAACCATCAAAGTAAGGTTATT
1 ATCATAAAATAAAAACCATCAAAGTAAGGTTATT
*
2375657 GTCATAA
1 ATCATAA
2375664 CGGTTTTAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (34 bp):
ATCATAAAATAAAAACCATCAAAGTAAGGTTATT
Found at i:2377140 original size:208 final size:207
Alignment explanation
Indices: 2376759--2377191 Score: 672
Period size: 208 Copynumber: 2.1 Consensus size: 207
2376749 TTAATTTTGT
*
2376759 TTTAATCTCTTTAATTATCTCATAATTATTAATAATTAAAAAGGAACAAAGTAAAAAAAATCTTT
1 TTTAAT-TATTTAATTATCTCATAATTATTAATAATTAAAAAGGAACAAAGTAAAAAAAATCTTT
*
2376824 TTATCAAAAAAATTTCTTAGATACCCCAATACTTTGGTAATATTTTTAGAAGAATTTTCTCATCT
65 TTATCAAAAAAATTTCTTAGATACCCCAATACTTTGGTAATATTTTTAGAAGAATTTTCTCACCT
* * * * *
2376889 GAGGATTTCTTAAGAATTTCTATTGGGATTCTCTCAAAATCTCATCTTTGGAGATTTCATTTACT
130 AAAGATTTCTTAAGAATTTCTACTGGAATTCTCTCAAAATCTCATCTTCGGAGATTTCATTTACT
2376954 TTTTCCTTTCTTA
195 TTTTCCTTTCTTA
* * *
2376967 TTTAATTATTTTAATTATCTTATAATTATTAATAATTAAAAAGGAACAAAGTAGAGAAAATCTTT
1 TTTAATTA-TTTAATTATCTCATAATTATTAATAATTAAAAAGGAACAAAGTAAAAAAAATCTTT
* * * * *
2377032 TTATTAAAAAAACTTT-TTAGATACTCCGATACTTTGGTAGTATTTTTAGAAGAATTTTCTGACC
65 TTATCAAAAAAA-TTTCTTAGATACCCCAATACTTTGGTAATATTTTTAGAAGAATTTTCTCACC
*
2377096 TAAAGATTTCTTAAGAATTTCTACTGGAATT-TCCTCAGAATCTCATCTTCGGAGATTTCATTTA
129 TAAAGATTTCTTAAGAATTTCTACTGGAATTCT-CTCAAAATCTCATCTTCGGAGATTTCATTTA
2377160 CTTTTTCCTTTCTTA
193 CTTTTTCCTTTCTTA
2377175 TTTAATTATTTAATTAT
1 TTTAATTATTTAATTAT
2377192 TTTTTATCCT
Statistics
Matches: 206, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
207 11 0.05
208 192 0.93
209 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (207 bp):
TTTAATTATTTAATTATCTCATAATTATTAATAATTAAAAAGGAACAAAGTAAAAAAAATCTTTT
TATCAAAAAAATTTCTTAGATACCCCAATACTTTGGTAATATTTTTAGAAGAATTTTCTCACCTA
AAGATTTCTTAAGAATTTCTACTGGAATTCTCTCAAAATCTCATCTTCGGAGATTTCATTTACTT
TTTCCTTTCTTA
Found at i:2377544 original size:3 final size:3
Alignment explanation
Indices: 2377538--2377584 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
2377528 TCATATTATT
2377538 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
2377585 TATTATTTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:2380991 original size:3 final size:3
Alignment explanation
Indices: 2380983--2381011 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2380973 TTTTGCATTG
2380983 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2381012 TATTGAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2382556 original size:58 final size:57
Alignment explanation
Indices: 2382494--2382701 Score: 215
Period size: 58 Copynumber: 3.6 Consensus size: 57
2382484 AATGATTAAG
* * *
2382494 GAAAAAGTTGAAGTATTAATTTTTCTTTAAACAAAAAAATTTTTTAAAAATATTTTGA
1 GAAAAAGTTGAAGTATCAATTTTTCCTTAAA-AAAAAAATTTTTAAAAAATATTTTGA
** * * * * *
2382552 GAAAAAGTCAAAATATCAATTTTTTCTTTAAAAAAATA-TTTCAAAAAATATTTTGA
1 GAAAAAGTTGAAGTATCAATTTTTCCTTAAAAAAAAAATTTTTAAAAAATATTTTGA
* * * *
2382608 GGAAAAGTTGAAGTGTCAA-TTTTCCTTAAATAAGAAAATATTTCAAAAAATA-TTTGA
1 GAAAAAGTTGAAGTATCAATTTTTCCTTAAA-AAAAAAAT-TTTTAAAAAATATTTTGA
*
2382665 GAAAAAAGTTGAAAGTATCAAATTTTCCTTAAAAAAA
1 G-AAAAAGTTG-AAGTATCAATTTTTCCTTAAAAAAA
2382702 GCATCAATTT
Statistics
Matches: 122, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
55 9 0.07
56 35 0.29
57 12 0.10
58 44 0.36
59 11 0.09
60 11 0.09
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.36
Consensus pattern (57 bp):
GAAAAAGTTGAAGTATCAATTTTTCCTTAAAAAAAAAATTTTTAAAAAATATTTTGA
Found at i:2382629 original size:114 final size:114
Alignment explanation
Indices: 2382496--2382701 Score: 265
Period size: 114 Copynumber: 1.8 Consensus size: 114
2382486 TGATTAAGGA
* * **
2382496 AAAAGTTGAAGTATTAATTTTTCTTTAAACAAAAAAAT-TTTTTAAAAATATTTTGAG-AAAAAG
1 AAAAGTTGAAGTATCAA-TTTTCCTTAAACAAAAAAATATTTCAAAAAATA-TTTGAGAAAAAAG
* *
2382559 -TCAAAATATCAATTTTTTCTTTAAAAAAATATTTCAAAAAATATTTTGAGG
64 TTCAAAATATCAA-ATTTTCCTTAAAAAAATATTTCAAAAAATATTTTGAGG
* * *
2382610 AAAAGTTGAAGTGTCAATTTTCCTTAAATAAGAAAATATTTCAAAAAATATTTGAGAAAAAAGTT
1 AAAAGTTGAAGTATCAATTTTCCTTAAACAAAAAAATATTTCAAAAAATATTTGAGAAAAAAGTT
* *
2382675 GAAAGTATCAAATTTTCCTTAAAAAAA
66 CAAAATATCAAATTTTCCTTAAAAAAA
2382702 GCATCAATTT
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
113 23 0.29
114 45 0.58
115 10 0.13
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (114 bp):
AAAAGTTGAAGTATCAATTTTCCTTAAACAAAAAAATATTTCAAAAAATATTTGAGAAAAAAGTT
CAAAATATCAAATTTTCCTTAAAAAAATATTTCAAAAAATATTTTGAGG
Found at i:2382719 original size:22 final size:23
Alignment explanation
Indices: 2382676--2382720 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2382666 AAAAAAGTTG
*
2382676 AAAGTATCAAATTTTCCTTAAAA
1 AAAGCATCAAATTTTCCTTAAAA
*
2382699 AAAGCATCAATTTTTCC-TAAAA
1 AAAGCATCAAATTTTCCTTAAAA
2382721 TAAAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAGCATCAAATTTTCCTTAAAA
Found at i:2387031 original size:41 final size:40
Alignment explanation
Indices: 2386939--2387035 Score: 106
Period size: 41 Copynumber: 2.4 Consensus size: 40
2386929 AATATTAATG
* *
2386939 TTTCCTCCACAAAATTAAAAAATTTAATGAAATCAATAAT
1 TTTCCTCCACAAAATTAAAAAATTTAACGAAATCAAGAAT
* * * *
2386979 TTTGCTACCACAAAATTGAAAATTTTAACGAAA-CTAAGAGT
1 TTTCCT-CCACAAAATTAAAAAATTTAACGAAATC-AAGAAT
2387020 TTTACCTCCACAAAAT
1 TTT-CCTCCACAAAAT
2387036 AATTTCTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 6 0.13
41 39 0.83
42 2 0.04
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (40 bp):
TTTCCTCCACAAAATTAAAAAATTTAACGAAATCAAGAAT
Found at i:2392165 original size:29 final size:29
Alignment explanation
Indices: 2392133--2392188 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
2392123 ATAATTTAAT
* *
2392133 AATTATTTAAATTTTTAATATTTTATTAC
1 AATTAATTAAATTATTAATATTTTATTAC
*
2392162 AATTAATTAAATTATTAATTTTTTATT
1 AATTAATTAAATTATTAATATTTTATT
2392189 GTAACTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (29 bp):
AATTAATTAAATTATTAATATTTTATTAC
Found at i:2410010 original size:42 final size:43
Alignment explanation
Indices: 2409960--2410051 Score: 111
Period size: 41 Copynumber: 2.2 Consensus size: 43
2409950 TTAAATATAA
* *
2409960 TTAATGAAAAAT-ATTAATTTT-TTTGTCACAAAATTAAAAACT
1 TTAATGAAAAATCACTAATTTTGCTT-TCACAAAATTAAAAACT
* *
2410002 TTAATG--AAATCACTAATTTTGCTTTCACAAAATTGAAAATT
1 TTAATGAAAAATCACTAATTTTGCTTTCACAAAATTAAAAACT
2410043 TTAATGAAA
1 TTAATGAAA
2410052 CTAAGAGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
40 4 0.10
41 29 0.69
42 8 0.19
43 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (43 bp):
TTAATGAAAAATCACTAATTTTGCTTTCACAAAATTAAAAACT
Found at i:2412340 original size:5 final size:5
Alignment explanation
Indices: 2412330--2412372 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
2412320 TTCAGCCCCT
*
2412330 CCGAG CCGAG CCGAG CCGAG CCGAG CCGCA- CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG-AG CCGAG CCGAG CCG
2412373 CGATCCGAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 1 0.03
5 32 0.94
6 1 0.03
ACGTcount: A:0.21, C:0.44, G:0.35, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:2412341 original size:15 final size:15
Alignment explanation
Indices: 2412330--2412384 Score: 67
Period size: 15 Copynumber: 3.5 Consensus size: 15
2412320 TTCAGCCCCT
2412330 CCGAGCCGAGCCG-A
1 CCGAGCCGAGCCGCA
2412344 GCCGAGCCGAGCCGCA
1 -CCGAGCCGAGCCGCA
*
2412360 CCAAGCCGAGCCGCGA
1 CCGAGCCGAGCCGC-A
2412376 TCCGAGCCG
1 -CCGAGCCG
2412385 CTCCAGGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 26 0.74
16 2 0.06
17 7 0.20
ACGTcount: A:0.20, C:0.44, G:0.35, T:0.02
Consensus pattern (15 bp):
CCGAGCCGAGCCGCA
Found at i:2412419 original size:16 final size:16
Alignment explanation
Indices: 2412400--2412430 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2412390 GGTTTTTTTT
*
2412400 TTTTTTTTTTTTTGAA
1 TTTTTTTTTATTTGAA
2412416 TTTTTTTTTATTTGA
1 TTTTTTTTTATTTGA
2412431 CTTTGATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTTTTTTTATTTGAA
Found at i:2412905 original size:157 final size:156
Alignment explanation
Indices: 2412462--2413061 Score: 1056
Period size: 157 Copynumber: 3.8 Consensus size: 156
2412452 TTTTTCTTTA
2412462 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACTCCT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGT-AAAACAGTAGTTTTTCTTGCATACTCCT
2412527 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
65 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
* * *
2412592 AATTAATTACTTGGCTGATTTTGATTTTTTT
130 AATTAATTAATTGGTTGATCTTGA----TTT
* *
2412623 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAACAGTAGTTTTTCTTGCATACTCCTG
2412688 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
2412753 ATTAATTAATTGGTTGATCTTGATTT
131 ATTAATTAATTGGTTGATCTTGATTT
2412779 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACTCCT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGT-AAAACAGTAGTTTTTCTTGCATACTCCT
2412844 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
65 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
2412909 AATTAATTAATTGGTTGATCTTGATTT
130 AATTAATTAATTGGTTGATCTTGATTT
* * * *
2412936 TTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAACAGTAGTTTTTCTTGCATACTCCTG
*
2413001 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTTTTAGAGTCAATTGAGAATAATTTTC
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
2413062 AACAACTAAC
Statistics
Matches: 426, Mismatches: 12, Indels: 7
0.96 0.03 0.02
Matches are distributed among these distances:
156 125 0.29
157 153 0.36
160 113 0.27
161 35 0.08
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (156 bp):
TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAACAGTAGTTTTTCTTGCATACTCCTG
AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
ATTAATTAATTGGTTGATCTTGATTT
Found at i:2416755 original size:25 final size:25
Alignment explanation
Indices: 2416712--2416759 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2416702 GTGAAGAATG
* * *
2416712 AAAAAAAAAGATGATGAAAAAAAAA
1 AAAAAAAAAAAAGAAGAAAAAAAAA
2416737 AAAAAAAAAAAAGAAGAAAAAAA
1 AAAAAAAAAAAAGAAGAAAAAAA
2416760 TGAGAAAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.04
Consensus pattern (25 bp):
AAAAAAAAAAAAGAAGAAAAAAAAA
Found at i:2418043 original size:42 final size:41
Alignment explanation
Indices: 2417971--2418462 Score: 664
Period size: 42 Copynumber: 12.0 Consensus size: 41
2417961 GTCTAGGAGT
*
2417971 ATTTACTTTTCCAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
2418011 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
2418053 ATTTACTTTTCAAAGTTTCGT--TGCCTCTATTTAGAGGAGCA
1 ATTTACTTTTCAAAG--TCGTGGTGCCTCTGTTTAGAGGAGCA
*
2418094 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
2418136 ATTTACTTTTCCAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
2418176 ATTTATTTTTTTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
2418218 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
2418258 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
2418299 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
2418341 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
2418383 ATTTACTTTCCAAAGTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGT-CGTGGTGCCTCTGTTTAGAGGAGCA
* * *
2418423 ATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
2418463 TTCGGCCAAA
Statistics
Matches: 413, Mismatches: 19, Indels: 39
0.88 0.04 0.08
Matches are distributed among these distances:
39 10 0.02
40 113 0.27
41 105 0.25
42 181 0.44
43 4 0.01
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (41 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:2418204 original size:82 final size:82
Alignment explanation
Indices: 2417971--2418462 Score: 749
Period size: 82 Copynumber: 6.0 Consensus size: 82
2417961 GTCTAGGAGT
* *
2417971 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGC
1 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGC
2418036 CTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
* *
2418053 ATTTACTTTTCAAAGTTTCGTTGCCTCTATTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTG
1 ATTTACTTTTCCAAG-TTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTG
2418118 CCTCTGTTTAGAGGAGCA
65 CCTCTGTTTAGAGGAGCA
**
2418136 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTTAAAGTCGTGGTGC
1 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGC
2418201 CTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
* *
2418218 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGC
1 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGC
*
2418282 CTCTGTTGAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
* *
2418299 ATTTATTTTTCCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
1 ATTTACTTTTCC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
*
2418363 TGCCTCTGTTGAGAGGAGCA
63 TGCCTCTGTTTAGAGGAGCA
* * * * *
2418383 ATTTAC-TTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTA-CTTTCAAAAGTCGTTGAG
1 ATTTACTTTTCC-AAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTG
*
2418446 TCTCTGTTTAGAGGAGC
65 CCTCTGTTTAGAGGAGC
2418463 TTCGGCCAAA
Statistics
Matches: 379, Mismatches: 25, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
81 72 0.19
82 153 0.40
83 115 0.30
84 39 0.10
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (82 bp):
ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGC
CTCTGTTTAGAGGAGCA
Found at i:2418327 original size:165 final size:163
Alignment explanation
Indices: 2417971--2418462 Score: 781
Period size: 165 Copynumber: 3.0 Consensus size: 163
2417961 GTCTAGGAGT
*
2417971 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGC
1 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAAGTCGTGGTGC
* *
2418036 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTTCGTTGCCTCTATTTAGAGGAGCAATTTATT
66 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TTCGTTGCCTCTGTTTAGAGGAGCAATTTACT
2418101 TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
130 TTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
**
2418136 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTTAAAGTCGTGGTGC
1 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAAGTCGTGGTGC
2418201 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTT
66 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTT
*
2418266 TTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
131 TTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
2418299 ATTTATTTTTCCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
1 ATTTACTTTTCC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAAGTCGTGG
* * *
2418363 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTA
63 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA
* * *
2418428 C-TTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
128 CTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
2418463 TTCGGCCAAA
Statistics
Matches: 306, Mismatches: 17, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
163 45 0.15
164 40 0.13
165 221 0.72
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (163 bp):
ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAAGTCGTGGTGC
CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTT
TTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:2418487 original size:9 final size:9
Alignment explanation
Indices: 2418473--2418561 Score: 94
Period size: 9 Copynumber: 9.9 Consensus size: 9
2418463 TTCGGCCAAA
2418473 AAAAAAAAC
1 AAAAAAAAC
2418482 AAAAAAAA-
1 AAAAAAAAC
2418490 AAAAACAAA-
1 AAAAA-AAAC
2418499 AACAAAAAAC
1 AA-AAAAAAC
*
2418509 AAAAAAATC
1 AAAAAAAAC
*
2418518 AAAAAAATC
1 AAAAAAAAC
*
2418527 AAAAAAATC
1 AAAAAAAAC
*
2418536 AAAAAAAAT
1 AAAAAAAAC
2418545 AAAAACAAA-
1 AAAAA-AAAC
2418554 AAAAAAAA
1 AAAAAAAA
2418562 AATCAAAAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
8 8 0.11
9 57 0.78
10 8 0.11
ACGTcount: A:0.87, C:0.09, G:0.00, T:0.04
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:2418522 original size:48 final size:47
Alignment explanation
Indices: 2418469--2418570 Score: 143
Period size: 49 Copynumber: 2.1 Consensus size: 47
2418459 GAGCTTCGGC
2418469 CAAAAAAA-AAAACAAAAAAAAAAAAACAAAAACAAAAAACAAAAAAAT
1 CAAAAAAACAAAA-AAAAAAAAAAAAACAAAAACAAAAAA-AAAAAAAT
** *
2418517 CAAAAAAATCAAAAAAATCAAAAAAAATAAAAACAAAAAAAAAAAAAT
1 CAAAAAAA-CAAAAAAAAAAAAAAAAACAAAAACAAAAAAAAAAAAAT
2418565 CAAAAA
1 CAAAAA
2418571 TGAAAATGTC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
48 22 0.45
49 23 0.47
50 4 0.08
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (47 bp):
CAAAAAAACAAAAAAAAAAAAAAAAACAAAAACAAAAAAAAAAAAAT
Found at i:2418569 original size:9 final size:8
Alignment explanation
Indices: 2418470--2418570 Score: 101
Period size: 7 Copynumber: 13.2 Consensus size: 8
2418460 AGCTTCGGCC
2418470 AAAA-AAA
1 AAAACAAA
2418477 AAAAC-AA
1 AAAACAAA
2418484 AAAA-AAA
1 AAAACAAA
2418491 AAAAC--A
1 AAAACAAA
2418497 AAAAC-AA
1 AAAACAAA
2418504 AAAACAAA
1 AAAACAAA
2418512 AAAATCAAA
1 AAAA-CAAA
2418521 AAAATCAAA
1 AAAA-CAAA
2418530 AAAATCAAA
1 AAAA-CAAA
*
2418539 AAAA-ATA
1 AAAACAAA
2418546 AAAACAAA
1 AAAACAAA
2418554 AAAA-AAA
1 AAAACAAA
*
2418561 AAATCAAA
1 AAAACAAA
2418569 AA
1 AA
2418571 TGAAAATGTC
Statistics
Matches: 83, Mismatches: 3, Indels: 15
0.82 0.03 0.15
Matches are distributed among these distances:
6 6 0.07
7 34 0.41
8 17 0.20
9 26 0.31
ACGTcount: A:0.86, C:0.09, G:0.00, T:0.05
Consensus pattern (8 bp):
AAAACAAA
Found at i:2418570 original size:1 final size:1
Alignment explanation
Indices: 2418470--2418563 Score: 80
Period size: 1 Copynumber: 94.0 Consensus size: 1
2418460 AGCTTCGGCC
* * * * ** ** *
2418470 AAAAAAAAAAACAAAAAAAAAAAAACAAAAACAAAAAACAAAAAAATCAAAAAAATCAAAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
2418535 CAAAAAAAATAAAAACAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2418564 TCAAAAATGA
Statistics
Matches: 72, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.87, C:0.09, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:2418576 original size:18 final size:16
Alignment explanation
Indices: 2418469--2418570 Score: 113
Period size: 16 Copynumber: 6.4 Consensus size: 16
2418459 GAGCTTCGGC
2418469 CAAAAAAAAAAACAAA-
1 CAAAAAAAAAAA-AAAT
*
2418485 -AAAAAAAAAACAAAAA
1 CAAAAAAAAAA-AAAAT
*
2418501 CAAAAAACAAAAAAAT
1 CAAAAAAAAAAAAAAT
2418517 CAAAAAAATCAAAAAAAT
1 CAAAAAAA--AAAAAAAT
*
2418535 CAAAAAAAATAAAAA-
1 CAAAAAAAAAAAAAAT
2418550 C-AAAAAAAAAAAAAT
1 CAAAAAAAAAAAAAAT
2418565 CAAAAA
1 CAAAAA
2418571 TGAAAATGTC
Statistics
Matches: 74, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
14 12 0.16
15 15 0.20
16 22 0.30
17 9 0.12
18 16 0.22
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAT
Found at i:2418705 original size:20 final size:20
Alignment explanation
Indices: 2418680--2418737 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
2418670 AGGTCCGGGT
2418680 CCGGATCAATTGGGCCTGAC
1 CCGGATCAATTGGGCCTGAC
2418700 CCGGATCAATTGGGCCTGAC
1 CCGGATCAATTGGGCCTGAC
* *
2418720 CCAGATCATTTGGGCCTG
1 CCGGATCAATTGGGCCTG
2418738 CCCCAAATGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.19, C:0.29, G:0.29, T:0.22
Consensus pattern (20 bp):
CCGGATCAATTGGGCCTGAC
Found at i:2419053 original size:12 final size:12
Alignment explanation
Indices: 2419026--2419058 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2419016 AATTATCTAG
2419026 ATTTTT-TTTTA
1 ATTTTTATTTTA
2419037 A-TTTTATTTTA
1 ATTTTTATTTTA
2419048 ATTTTTATTTT
1 ATTTTTATTTT
2419059 GGAGGGCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.20
11 7 0.35
12 9 0.45
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:2419409 original size:31 final size:32
Alignment explanation
Indices: 2419374--2419445 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 32
2419364 AATTTCCAGA
*
2419374 TTCCGGCGAAAATTCCGGCG-ACTTTTGAATT
1 TTCCGGCGAAAATTCCGGCGAACTTTTGAAGT
* *
2419405 TTCCGACGACAATTCCGGCGAACTTTTGAAGT
1 TTCCGGCGAAAATTCCGGCGAACTTTTGAAGT
2419437 TTCCGGCGA
1 TTCCGGCGA
2419446 CAGACCCAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 18 0.50
32 18 0.50
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (32 bp):
TTCCGGCGAAAATTCCGGCGAACTTTTGAAGT
Found at i:2419440 original size:32 final size:31
Alignment explanation
Indices: 2419374--2419447 Score: 112
Period size: 32 Copynumber: 2.4 Consensus size: 31
2419364 AATTTCCAGA
* *
2419374 TTCCGGCGAAAATTCCGGCGACTTTTGAATT
1 TTCCGGCGACAATTCCGGCGACTTTTGAAGT
*
2419405 TTCCGACGACAATTCCGGCGAACTTTTGAAGT
1 TTCCGGCGACAATTCCGGCG-ACTTTTGAAGT
2419437 TTCCGGCGACA
1 TTCCGGCGACA
2419448 GACCCAGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
31 18 0.47
32 20 0.53
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (31 bp):
TTCCGGCGACAATTCCGGCGACTTTTGAAGT
Found at i:2419551 original size:19 final size:19
Alignment explanation
Indices: 2419510--2419553 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2419500 CCGGCCAATT
*
2419510 TCCGGCGAAATTCCTAGAT
1 TCCGGCGAAATTCCTAGAA
*
2419529 TCCGGCGAATTTTCC-AGAA
1 TCCGGCGAA-ATTCCTAGAA
2419548 TCCGGC
1 TCCGGC
2419554 ACCGGCGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (19 bp):
TCCGGCGAAATTCCTAGAA
Found at i:2419783 original size:5 final size:5
Alignment explanation
Indices: 2419773--2419815 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
2419763 TTCAGCCCCT
* *
2419773 CCGAG CCGAG CCGAG CCGAG CAGAG CCGCA- CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG-AG CCGAG CCGAG CCG
2419816 CGATCCGAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 1 0.03
5 30 0.94
6 1 0.03
ACGTcount: A:0.23, C:0.42, G:0.35, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:2419791 original size:15 final size:15
Alignment explanation
Indices: 2419773--2419827 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
2419763 TTCAGCCCCT
2419773 CCGAGCCGAGCCG-A
1 CCGAGCCGAGCCGCA
*
2419787 GCCGAGCAGAGCCGCA
1 -CCGAGCCGAGCCGCA
*
2419803 CCAAGCCGAGCCGCGA
1 CCGAGCCGAGCCGC-A
2419819 TCCGAGCCG
1 -CCGAGCCG
2419828 CTCCAGGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 24 0.73
16 2 0.06
17 7 0.21
ACGTcount: A:0.22, C:0.42, G:0.35, T:0.02
Consensus pattern (15 bp):
CCGAGCCGAGCCGCA
Found at i:2420494 original size:316 final size:316
Alignment explanation
Indices: 2419920--2420834 Score: 1721
Period size: 316 Copynumber: 2.9 Consensus size: 316
2419910 TTTTTCTTTA
* *
2419920 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACTCCT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATACTCCT
*
2419985 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCGAT
65 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
2420050 AATTAATTACTTGGCTGATTTTGATTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAA
130 AATTAATTACTTGGCTGATTTTGATTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAA
2420115 GTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAG
195 GTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAG
2420180 TATTAGAGTCAATTGAGAATAATTTTCGATAATTAATTAATTGGTTGATCTTGATTT
260 TATTAGAGTCAATTGAGAATAATTTTCGATAATTAATTAATTGGTTGATCTTGATTT
2420237 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
2420302 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
2420367 ATTAATTACTTGGCTGATTTTGATTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAG
131 ATTAATTACTTGGCTGATTTTGATTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAG
2420432 TGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGT
196 TGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGT
2420497 ATTAGAGTCAATTGAGAATAATTTTCGATAATTAATTAATTGGTTGATCTTGATTT
261 ATTAGAGTCAATTGAGAATAATTTTCGATAATTAATTAATTGGTTGATCTTGATTT
2420553 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
2420618 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
* * * *
2420683 ATTAATTAATTGGTTGATCTTGA----TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAG
131 ATTAATTACTTGGCTGATTTTGATTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAG
*
2420744 TGAAACAGTAGTTTTTCTTGCATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGT
196 TGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGT
2420809 ATTAGAGTCAATTGAGAATAATTTTC
261 ATTAGAGTCAATTGAGAATAATTTTC
2420835 AACAACTAAC
Statistics
Matches: 590, Mismatches: 8, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
312 127 0.22
316 428 0.73
317 35 0.06
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (316 bp):
TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
ATTAATTACTTGGCTGATTTTGATTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAG
TGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGT
ATTAGAGTCAATTGAGAATAATTTTCGATAATTAATTAATTGGTTGATCTTGATTT
Found at i:2420851 original size:472 final size:476
Alignment explanation
Indices: 2419902--2420851 Score: 1719
Period size: 472 Copynumber: 2.0 Consensus size: 476
2419892 ATTTTGATCT
**
2419902 TGATTTTTTTTTTCTTTATTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAG
1 TGATTTTGATTTTCTTTATTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAG
2419967 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
66 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
* *
2420032 TTGAGAATAATTTCCGATAATTAATTACTTGGCTGATTTTGATTTTTTTTTCTTTAATTAATCCG
131 TTGAGAATAATTTCCGATAATTAATTAATTGGCTGATCTTGA---TTTTTTCTTTAATTAATCCG
2420097 ACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTC
193 ACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTC
2420162 TCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATAATTAATTAATTGGTTG
258 TCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATAATTAATTAATTGGTTG
*
2420227 ATCTTGATTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
323 ATCTTGATTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
2420292 CATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
388 CATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
* * * *
2420357 ATTTTCGATAATTAATTACTTGGC
453 ATTTTCAACAACTAACTACTTGGC
* *
2420381 TGATTTTGATTTT-TTT-TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAG
1 TGATTTTGATTTTCTTTATTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAG
2420443 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
66 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
* *
2420508 TTGAGAATAATTTTCGATAATTAATTAATTGGTTGATCTTGA-TTTTTCTTTAATTAATCCGACG
131 TTGAGAATAATTTCCGATAATTAATTAATTGGCTGATCTTGATTTTTTCTTTAATTAATCCGACG
2420572 ACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCA
196 ACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCA
2420637 ATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATAATTAATTAATTGGTTGATC
261 ATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATAATTAATTAATTGGTTGATC
2420702 TTGATTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
326 TTGATTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
*
2420767 ACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATT
391 ACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATT
2420832 TTCAACAACTAACTACTTGG
456 TTCAACAACTAACTACTTGG
2420852 TAAAATTTTA
Statistics
Matches: 457, Mismatches: 14, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
472 296 0.65
476 112 0.25
477 35 0.08
478 3 0.01
479 11 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (476 bp):
TGATTTTGATTTTCTTTATTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAG
TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
TTGAGAATAATTTCCGATAATTAATTAATTGGCTGATCTTGATTTTTTCTTTAATTAATCCGACG
ACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCA
ATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATAATTAATTAATTGGTTGATC
TTGATTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
ACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATT
TTCAACAACTAACTACTTGGC
Found at i:2420852 original size:156 final size:156
Alignment explanation
Indices: 2419920--2420834 Score: 1650
Period size: 156 Copynumber: 5.8 Consensus size: 156
2419910 TTTTTCTTTA
* *
2419920 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACTCCT
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATACTCCT
*
2419985 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCGAT
65 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
* * *
2420050 AATTAATTACTTGGCTGATTTTGATTTTTTT
130 AATTAATTAATTGGTTGATCTTGA----TTT
2420081 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
2420146 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
2420211 ATTAATTAATTGGTTGATCTTGATTT
131 ATTAATTAATTGGTTGATCTTGATTT
2420237 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
2420302 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
* * *
2420367 ATTAATTACTTGGCTGATTTTGATTTTTTT
131 ATTAATTAATTGGTTGATCTTGA----TTT
2420397 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
2420462 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
2420527 ATTAATTAATTGGTTGATCTTGATTT
131 ATTAATTAATTGGTTGATCTTGATTT
2420553 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
2420618 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
2420683 ATTAATTAATTGGTTGATCTTGATTT
131 ATTAATTAATTGGTTGATCTTGATTT
* *
2420709 TTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTG
1 TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
2420774 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
2420835 AACAACTAAC
Statistics
Matches: 736, Mismatches: 14, Indels: 13
0.96 0.02 0.02
Matches are distributed among these distances:
156 436 0.59
160 265 0.36
161 35 0.05
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (156 bp):
TTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTG
AGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATA
ATTAATTAATTGGTTGATCTTGATTT
Found at i:2423465 original size:89 final size:89
Alignment explanation
Indices: 2423314--2423486 Score: 310
Period size: 89 Copynumber: 1.9 Consensus size: 89
2423304 CAAAAAGATG
* *
2423314 AAAGAATTGAAAGAGGAAATGTAATGATAATGCATTATGCAAATCATGTTATTGAAATAATGAGT
1 AAAGAATTAAAAGAGGAAATGTAATGATAATGCATTATGCAAATCATGTTATTGAAATAATGAAT
2423379 AAATTAGCCCAAACATAAAGAATA
66 AAATTAGCCCAAACATAAAGAATA
*
2423403 AAAGAATTAAAAGAGGAAATGTAATGATAATGCATTATGCAAATCATTTTATTGAAATAATGAAT
1 AAAGAATTAAAAGAGGAAATGTAATGATAATGCATTATGCAAATCATGTTATTGAAATAATGAAT
*
2423468 GAATTAGCCCAAACATAAA
66 AAATTAGCCCAAACATAAA
2423487 AGATATCCCT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 80 1.00
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.27
Consensus pattern (89 bp):
AAAGAATTAAAAGAGGAAATGTAATGATAATGCATTATGCAAATCATGTTATTGAAATAATGAAT
AAATTAGCCCAAACATAAAGAATA
Found at i:2429993 original size:20 final size:21
Alignment explanation
Indices: 2429959--2429998 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
2429949 TTAAAAATCA
2429959 TATCATGCAAAATATATTATT
1 TATCATGCAAAATATATTATT
2429980 TATCATGC-AAATATATTAT
1 TATCATGCAAAATATATTAT
2429999 AAATTATACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (21 bp):
TATCATGCAAAATATATTATT
Found at i:2430113 original size:20 final size:21
Alignment explanation
Indices: 2430065--2430119 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
2430055 TGCAAGAATG
2430065 TCATGCAAATATA-TAATCAT
1 TCATGCAAATATATTAATCAT
*
2430085 GCAAT--AAATATATTAAT-AT
1 TC-ATGCAAATATATTAATCAT
2430104 TCATGCAAATATATTA
1 TCATGCAAATATATTA
2430120 GTAAATGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 2 0.07
19 10 0.34
20 15 0.52
21 2 0.07
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.36
Consensus pattern (21 bp):
TCATGCAAATATATTAATCAT
Found at i:2430197 original size:24 final size:25
Alignment explanation
Indices: 2430169--2430262 Score: 102
Period size: 24 Copynumber: 3.6 Consensus size: 25
2430159 AATGCCATGC
2430169 AAATATATTAATAAATCACACAAAT
1 AAATATATTAATAAATCACACAAAT
*
2430194 -AATATATTAAT-AATCATACAAAT
1 AAATATATTAATAAATCACACAAAT
2430217 AAATATATTAATAACATGCAATCACACACAT
1 AAATATATTAATAA-AT-C-A-CACA-A-AT
2430248 AAATATATTAGATAA
1 AAATATATTA-ATAA
2430263 TCATGCAAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
23 11 0.19
24 22 0.38
25 1 0.02
26 2 0.03
27 1 0.02
28 1 0.02
29 3 0.05
30 1 0.02
31 12 0.21
32 4 0.07
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (25 bp):
AAATATATTAATAAATCACACAAAT
Found at i:2430240 original size:31 final size:33
Alignment explanation
Indices: 2430205--2430270 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 33
2430195 ATATATTAAT
*
2430205 AATCATACAAATAAATATATTA-ATAA-CATGC
1 AATCACACAAATAAATATATTAGATAATCATGC
*
2430236 AATCACACACATAAATATATTAGATAATCATGC
1 AATCACACAAATAAATATATTAGATAATCATGC
2430269 AA
1 AA
2430271 ATATATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 20 0.65
32 4 0.13
33 7 0.23
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (33 bp):
AATCACACAAATAAATATATTAGATAATCATGC
Found at i:2430367 original size:17 final size:17
Alignment explanation
Indices: 2430345--2430400 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 17
2430335 TGCAAATAAA
2430345 CATGCAATATCATTCAT
1 CATGCAATATCATTCAT
*
2430362 CATGCAA-AT-A---AG
1 CATGCAATATCATTCAT
*
2430374 CATGCAATAACATTCAT
1 CATGCAATATCATTCAT
*
2430391 CTTGCAATAT
1 CATGCAATAT
2430401 ATAGAATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 10
0.66 0.11 0.23
Matches are distributed among these distances:
12 8 0.28
13 1 0.03
14 1 0.03
15 1 0.03
16 2 0.07
17 16 0.55
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (17 bp):
CATGCAATATCATTCAT
Found at i:2430377 original size:29 final size:29
Alignment explanation
Indices: 2430334--2430397 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
2430324 ATATATAATA
*
2430334 ATGCAAATAAACATGCAATATCATTCATC
1 ATGCAAATAAACATGCAATAACATTCATC
*
2430363 ATGCAAATAAGCATGCAATAACATTCATC
1 ATGCAAATAAACATGCAATAACATTCATC
*
2430392 TTGCAA
1 ATGCAA
2430398 TATATAGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (29 bp):
ATGCAAATAAACATGCAATAACATTCATC
Found at i:2430624 original size:21 final size:21
Alignment explanation
Indices: 2430598--2430651 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
2430588 AACCAAACAG
* *
2430598 AAAAATAAAATTAAATAAGCT
1 AAAAATAAAATCAAATAAGAT
* *
2430619 AAAAATCAAAATCAATTTAGAT
1 AAAAAT-AAAATCAAATAAGAT
2430641 AAAAATAAAAT
1 AAAAATAAAAT
2430652 AAAACAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (21 bp):
AAAAATAAAATCAAATAAGAT
Found at i:2430684 original size:23 final size:22
Alignment explanation
Indices: 2430643--2430690 Score: 78
Period size: 24 Copynumber: 2.1 Consensus size: 22
2430633 ATTTAGATAA
2430643 AAATAAAATAAAACAAAAAAAT
1 AAATAAAATAAAACAAAAAAAT
2430665 AAATAAAAATACAAACAAAAAAAT
1 AAAT-AAAATA-AAACAAAAAAAT
2430689 AA
1 AA
2430691 TCTAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 4 0.17
23 6 0.25
24 14 0.58
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.12
Consensus pattern (22 bp):
AAATAAAATAAAACAAAAAAAT
Found at i:2430708 original size:24 final size:23
Alignment explanation
Indices: 2430643--2430709 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
2430633 ATTTAGATAA
*
2430643 AAAT-AAAATAAAACAAAAAAAT
1 AAATAAAAAAAAAACAAAAAAAT
*
2430665 AAATAAAAATACAAACAAAAAAAT
1 AAATAAAAA-AAAAACAAAAAAAT
* *
2430689 AATCTAAAAAAAAAAGAAAAA
1 AA-ATAAAAAAAAAACAAAAA
2430710 GAAAACCTGC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 4 0.11
23 4 0.11
24 23 0.62
25 6 0.16
ACGTcount: A:0.81, C:0.06, G:0.01, T:0.12
Consensus pattern (23 bp):
AAATAAAAAAAAAACAAAAAAAT
Found at i:2434885 original size:19 final size:19
Alignment explanation
Indices: 2434863--2434925 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
2434853 TATGAAATTA
* *
2434863 TAAACGACCCATGAAACCC
1 TAAACCACCTATGAAACCC
*
2434882 TAAACCACCTATGAAATCC
1 TAAACCACCTATGAAACCC
2434901 TAAACCACCTATCG-AACCC
1 TAAACCACCTAT-GAAACCC
2434920 TAAACC
1 TAAACC
2434926 CAAAACCTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 38 0.97
20 1 0.03
ACGTcount: A:0.41, C:0.37, G:0.06, T:0.16
Consensus pattern (19 bp):
TAAACCACCTATGAAACCC
Found at i:2434905 original size:38 final size:38
Alignment explanation
Indices: 2434853--2434925 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
2434843 ATGCATTTTT
* *
2434853 TATGAAATTATAAACGACCCAT-GAAACCCTAAACCACC
1 TATGAAATCATAAACCACCCATCG-AACCCTAAACCACC
* *
2434891 TATGAAATCCTAAACCACCTATCGAACCCTAAACC
1 TATGAAATCATAAACCACCCATCGAACCCTAAACC
2434926 CAAAACCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 29 0.97
39 1 0.03
ACGTcount: A:0.42, C:0.32, G:0.07, T:0.19
Consensus pattern (38 bp):
TATGAAATCATAAACCACCCATCGAACCCTAAACCACC
Found at i:2435000 original size:23 final size:25
Alignment explanation
Indices: 2434968--2435016 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
2434958 AAACCCTTAA
2434968 CCAAACCTAACCC-TAGCCTAAAAC
1 CCAAACCTAACCCTTAGCCTAAAAC
*
2434992 CCAAA-CTAACCCTTAGCCTTAAAC
1 CCAAACCTAACCCTTAGCCTAAAAC
2435016 C
1 C
2435017 ATACCTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.39, C:0.41, G:0.04, T:0.16
Consensus pattern (25 bp):
CCAAACCTAACCCTTAGCCTAAAAC
Found at i:2435075 original size:48 final size:48
Alignment explanation
Indices: 2434951--2435114 Score: 156
Period size: 48 Copynumber: 3.5 Consensus size: 48
2434941 CCATAATCCT
* * *
2434951 AAACCCTAAACCCTTAACCAAA-CCT-AACCCTAGCCTAAAACCCAAAC
1 AAACCCTAAACCCTAAACCAAACCCTAAACCCTAACCT-AGACCCAAAC
* * * * * * * *
2434998 TAACCCTTAGCCTTAAACCATACCTTAAACCCTACCCTTGACCCCAAAC
1 AAACCCTAAACCCTAAACCAAACCCTAAACCCTAACCTAGA-CCCAAAC
* *
2435047 -AACCCTAAATCCTAAACCAAACCCTAAACCCTAACCTAGACCTAAAC
1 AAACCCTAAACCCTAAACCAAACCCTAAACCCTAACCTAGACCCAAAC
*
2435094 AAACCC-AAACCCTAATCCAAA
1 AAACCCTAAACCCTAAACCAAA
2435115 TCCCAAAATC
Statistics
Matches: 92, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
47 35 0.38
48 40 0.43
49 17 0.18
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.16
Consensus pattern (48 bp):
AAACCCTAAACCCTAAACCAAACCCTAAACCCTAACCTAGACCCAAAC
Found at i:2435463 original size:19 final size:18
Alignment explanation
Indices: 2435439--2435501 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
2435429 CTTAAACAAT
2435439 CCTAAATCCTAAACCAAAC
1 CCTAAA-CCTAAACCAAAC
* * *
2435458 CCTAAACCTTAACTTAGAC
1 CCTAAACCTAAAC-CAAAC
*
2435477 CCTAAACC-AACCCAAAC
1 CCTAAACCTAAACCAAAC
2435494 CCTAAACC
1 CCTAAACC
2435502 AAATCCCAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
17 11 0.31
18 8 0.22
19 17 0.47
ACGTcount: A:0.43, C:0.40, G:0.02, T:0.16
Consensus pattern (18 bp):
CCTAAACCTAAACCAAAC
Found at i:2435497 original size:17 final size:17
Alignment explanation
Indices: 2435452--2435503 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
2435442 AAATCCTAAA
2435452 CCAAACCCTAAACCTTAAC
1 CCAAACCCTAAACC--AAC
** *
2435471 TTAGACCCTAAACCAAC
1 CCAAACCCTAAACCAAC
2435488 CCAAACCCTAAACCAA
1 CCAAACCCTAAACCAA
2435504 ATCCCAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 16 0.59
19 11 0.41
ACGTcount: A:0.44, C:0.40, G:0.02, T:0.13
Consensus pattern (17 bp):
CCAAACCCTAAACCAAC
Found at i:2437980 original size:18 final size:18
Alignment explanation
Indices: 2437959--2438006 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
2437949 AAAAAGAAAT
2437959 GAAAAATAAGAAAGATGA
1 GAAAAATAAGAAAGATGA
* *
2437977 GAAAAA-GA-AAAGATGT
1 GAAAAATAAGAAAGATGA
2437993 GAAAAAATAAGAAA
1 G-AAAAATAAGAAA
2438007 AAAAGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 8 0.33
17 6 0.25
18 7 0.29
19 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (18 bp):
GAAAAATAAGAAAGATGA
Found at i:2438015 original size:17 final size:18
Alignment explanation
Indices: 2437995--2438033 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2437985 AAAGATGTGA
2437995 AAAAAT-AAGAAAAAAAG
1 AAAAATGAAGAAAAAAAG
* *
2438012 AAAAATGAAGGAAAAATG
1 AAAAATGAAGAAAAAAAG
2438030 AAAA
1 AAAA
2438034 CTTTAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (18 bp):
AAAAATGAAGAAAAAAAG
Found at i:2439041 original size:32 final size:33
Alignment explanation
Indices: 2438976--2439078 Score: 138
Period size: 32 Copynumber: 3.1 Consensus size: 33
2438966 TTGAAAATGA
*
2438976 ATTTTCATTCCTCAGTTGAGGAAGTTTTTCAAAG
1 ATTTT-ATTCCTCAGTTGAGGAAATTTTTCAAAG
*
2439010 ATTTTATTCCTCGGTTGA-GAAATTTTTCAAAG
1 ATTTTATTCCTCAGTTGAGGAAATTTTTCAAAG
*
2439042 ATTTCT-TTCCTCAGTTAAGGAAATTTTTTCAAAG
1 ATTT-TATTCCTCAGTTGAGGAAA-TTTTTCAAAG
2439076 ATT
1 ATT
2439079 CCATAAGTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
32 27 0.44
33 17 0.27
34 18 0.29
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.44
Consensus pattern (33 bp):
ATTTTATTCCTCAGTTGAGGAAATTTTTCAAAG
Found at i:2439128 original size:34 final size:34
Alignment explanation
Indices: 2439037--2439130 Score: 82
Period size: 34 Copynumber: 2.8 Consensus size: 34
2439027 AGAAATTTTT
* * * ** *
2439037 CAAAGATTTCTTTCCTCAGTTAAGGAAATTTTTT
1 CAAAGATTTCATTCCTTAGTTAAAGAAAAATTTA
* ***
2439071 CAAAGATTCCATAAGTT-GATTAAAGAAAAATTTA
1 CAAAGATTTCATTCCTTAG-TTAAAGAAAAATTTA
2439105 CAAAGATTTCATTCCTTAGTTAAAGA
1 CAAAGATTTCATTCCTTAGTTAAAGA
2439131 CATTTTTTTT
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
33 1 0.02
34 42 0.95
35 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (34 bp):
CAAAGATTTCATTCCTTAGTTAAAGAAAAATTTA
Found at i:2439926 original size:13 final size:13
Alignment explanation
Indices: 2439910--2440011 Score: 62
Period size: 13 Copynumber: 7.5 Consensus size: 13
2439900 TTAATTTATG
2439910 TTTTTAAATTCTA
1 TTTTTAAATTCTA
** *
2439923 TTTTTATTTTTTA
1 TTTTTAAATTCTA
*
2439936 TTTTTTAAATTCTTGT
1 -TTTTTAAATTC-T-A
*
2439952 TTTTTATTAATTTTA
1 TTTTTA--AATTCTA
*
2439967 TTTATTTAATTCTA
1 TTT-TTAAATTCTA
* **
2439981 ATTTTATTTTCTA
1 TTTTTAAATTCTA
2439994 TTTTT-AATTCTA
1 TTTTTAAATTCTA
2440006 TTTTTA
1 TTTTTA
2440012 TTTTTTGTTT
Statistics
Matches: 64, Mismatches: 18, Indels: 14
0.67 0.19 0.15
Matches are distributed among these distances:
12 10 0.16
13 21 0.33
14 16 0.25
15 10 0.16
16 3 0.05
17 4 0.06
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.71
Consensus pattern (13 bp):
TTTTTAAATTCTA
Found at i:2439931 original size:31 final size:30
Alignment explanation
Indices: 2439893--2440015 Score: 106
Period size: 31 Copynumber: 4.3 Consensus size: 30
2439883 TTTTACTTTA
2439893 TTTTATTTTAATTTATGTTTTTAAATTCTAT
1 TTTTATTTTAATTTAT-TTTTTAAATTCTAT
2439924 TTTTA-TTT--TTTATTTTTTAAATTCT-T
1 TTTTATTTTAATTTATTTTTTAAATTCTAT
*
2439950 GTTTT-TTATTAATTTTATTTATTT-AATTCTAA
1 -TTTTATT-TTAA-TTTATTT-TTTAAATTCTAT
*
2439982 TTTTA-TTT--TCTA-TTTTT-AATTCTAT
1 TTTTATTTTAATTTATTTTTTAAATTCTAT
2440007 TTTTATTTT
1 TTTTATTTT
2440016 TTGTTTTTTC
Statistics
Matches: 79, Mismatches: 3, Indels: 25
0.74 0.03 0.23
Matches are distributed among these distances:
25 15 0.19
26 6 0.08
27 20 0.25
28 7 0.09
30 5 0.06
31 23 0.29
32 3 0.04
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (30 bp):
TTTTATTTTAATTTATTTTTTAAATTCTAT
Found at i:2439989 original size:25 final size:25
Alignment explanation
Indices: 2439961--2440015 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
2439951 TTTTTTATTA
2439961 ATTTTAT-TTATTTAATTCTAATTTT
1 ATTTTATATT-TTTAATTCTAATTTT
* *
2439986 ATTTTCTATTTTTAATTCTATTTTT
1 ATTTTATATTTTTAATTCTAATTTT
2440011 ATTTT
1 ATTTT
2440016 TTGTTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (25 bp):
ATTTTATATTTTTAATTCTAATTTT
Found at i:2444532 original size:21 final size:21
Alignment explanation
Indices: 2444508--2444550 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2444498 ATTTGTCATC
*
2444508 TTACCCAATTAGTCTGCCATT
1 TTACCAAATTAGTCTGCCATT
*
2444529 TTACCAAATTAGTCTGTCATT
1 TTACCAAATTAGTCTGCCATT
2444550 T
1 T
2444551 GATGCCTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (21 bp):
TTACCAAATTAGTCTGCCATT
Found at i:2448452 original size:22 final size:22
Alignment explanation
Indices: 2448425--2448470 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2448415 GTTACGGCGT
2448425 ATAATATATTAGGC-TGGTTCAA
1 ATAATATATTAGGCTTGG-TCAA
*
2448447 ATAATATATTGGGCTTGGTCAA
1 ATAATATATTAGGCTTGGTCAA
2448469 AT
1 AT
2448471 CTTTGATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (22 bp):
ATAATATATTAGGCTTGGTCAA
Found at i:2449191 original size:2 final size:2
Alignment explanation
Indices: 2449184--2449210 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2449174 CCCTTATTTA
2449184 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
2449211 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2453022 original size:22 final size:22
Alignment explanation
Indices: 2452995--2453038 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2452985 ATTTTTTGTC
2452995 CTTAATTTTAGAGATACAAATA
1 CTTAATTTTAGAGATACAAATA
2453017 CTTAATTTTAGAGATACAAATA
1 CTTAATTTTAGAGATACAAATA
2453039 TAAATATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (22 bp):
CTTAATTTTAGAGATACAAATA
Found at i:2456910 original size:26 final size:24
Alignment explanation
Indices: 2456876--2456926 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
2456866 CTCTGATACC
2456876 ATGTGAAAACACTAAGAAATAAAACT
1 ATGTGAAAA-ACTAAG-AATAAAACT
* *
2456902 ATGTGAAAATCTAAGAGTAAAACT
1 ATGTGAAAAACTAAGAATAAAACT
2456926 A
1 A
2456927 CATGTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 5 0.22
26 9 0.39
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.22
Consensus pattern (24 bp):
ATGTGAAAAACTAAGAATAAAACT
Found at i:2456931 original size:26 final size:27
Alignment explanation
Indices: 2456875--2456931 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
2456865 GCTCTGATAC
2456875 CATGTGAAAACACTAAGAAATAAAACT
1 CATGTGAAAACACTAAGAAATAAAACT
* *
2456902 -ATGTGAAAA-TCTAAG-AGTAAAACT
1 CATGTGAAAACACTAAGAAATAAAACT
2456926 ACATGT
1 -CATGT
2456932 ATATTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 8 0.31
25 5 0.19
26 13 0.50
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.23
Consensus pattern (27 bp):
CATGTGAAAACACTAAGAAATAAAACT
Found at i:2468138 original size:2 final size:2
Alignment explanation
Indices: 2468131--2468163 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2468121 TTACTTTTAC
2468131 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2468164 CACAAAACCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2468313 original size:16 final size:16
Alignment explanation
Indices: 2468294--2468336 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
2468284 TATTGATTAA
2468294 TATATAATTTGACTTT
1 TATATAATTTGACTTT
* * *
2468310 TATATTATATCACTTT
1 TATATAATTTGACTTT
2468326 T-TATAATTTGA
1 TATATAATTTGA
2468337 TATTTATAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (16 bp):
TATATAATTTGACTTT
Found at i:2472608 original size:26 final size:25
Alignment explanation
Indices: 2472567--2472620 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
2472557 TATTAATAGA
2472567 TTTATATATTTTTAAAAAATAATTT
1 TTTATATATTTTTAAAAAATAATTT
* *
2472592 TTTAT-TATTATTATAAAAT-ATTAT
1 TTTATATATTTTTAAAAAATAATT-T
2472616 TTTAT
1 TTTAT
2472621 GTAAGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 3 0.12
24 18 0.69
25 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTATATATTTTTAAAAAATAATTT
Found at i:2474630 original size:110 final size:111
Alignment explanation
Indices: 2474508--2474799 Score: 280
Period size: 111 Copynumber: 2.6 Consensus size: 111
2474498 AAAGAAAAAA
2474508 ATTGATATTTCAACTTTTTTTCCTAAATTTCCTAAACATTTTCATTTTAAGAGAAATTGATATTT
1 ATTGATATTTCAACTTTTTTTCCTAAATTTCCTAAACA-TTTCATTTTAAGAGAAATTGATATTT
* * *
2474573 TGATTTTTTC-TTCAAGTTTTTC-AAATAATTTT-ATTTTAAAGAGAT
65 TAATTTTTTCTTTCAA-TTTTTCAAAATAATTTTCATTTTAAAAAGAG
* * * * * * *
2474618 ATTGATATTTCAACTCTTTCTT--TGAATTCCCAAAACGACTTCATTTTAAGGAAAAATTAATA-
1 ATTGATATTTCAACT-TTTTTTCCTAAATTTCCTAAAC-ATTTCATTTTAA-GAGAAATTGATAT
**
2474680 TTTAACTTTTTTCTTTTTATTTTTCAAAATAATTTTCATTTTAAAAAGAG
63 TTTAA-TTTTTTCTTTCAATTTTTCAAAATAATTTTCATTTTAAAAAGAG
* * * *
2474730 ATT-ATATTTCAAC--ATTTTCCTTAATTTTCTAAAACAATTTCTTTTTAA-AGAAAATTTGATA
1 ATTGATATTTCAACTTTTTTTCCTAAATTTCCT-AAAC-ATTTCATTTTAAGAG-AAA-TTGATA
2474791 TTTTAATTT
62 TTTTAATTT
2474800 CTTTTTTTTT
Statistics
Matches: 146, Mismatches: 23, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
108 3 0.02
109 26 0.18
110 48 0.33
111 50 0.34
112 19 0.13
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (111 bp):
ATTGATATTTCAACTTTTTTTCCTAAATTTCCTAAACATTTCATTTTAAGAGAAATTGATATTTT
AATTTTTTCTTTCAATTTTTCAAAATAATTTTCATTTTAAAAAGAG
Found at i:2474764 original size:111 final size:112
Alignment explanation
Indices: 2474508--2474866 Score: 278
Period size: 111 Copynumber: 3.2 Consensus size: 112
2474498 AAAGAAAAAA
* * * * ** * *
2474508 ATTGATATTTCAACTTTTTTTCC-TAAATTTCCTAAACATTTTCATTTT-AAGAGAAATTGATAT
1 ATTGATATTTCAAC--TCTTTCCTTGAATTCCCAAAACAACTTCATTTTAAAGAAAAATTAATAT
* ** * *
2474571 TTTGA-TT-TTTTC-TTCAAGTTTTTCAAATAATTTTATTTTAAAGAGAT
64 TTTAACTTCTTTTCTTTTTA-TTTTTCAAATAATTTTATTTTAAAAAGAG
* * *
2474618 ATTGATATTTCAACTCTTTCTTTGAATTCCCAAAACGACTTCATTTTAAGGAAAAATTAATA-TT
1 ATTGATATTTCAACTCTTTCCTTGAATTCCCAAAACAACTTCATTTTAAAGAAAAATTAATATTT
2474682 TAACTT-TTTTCTTTTTATTTTTCAAAATAATTTTCATTTTAAAAAGAG
66 TAACTTCTTTTCTTTTTATTTTTC-AAATAATTTT-ATTTTAAAAAGAG
* * * * * *
2474730 ATT-ATATTTCAACAT-TTTCCTT-AATTTTCTAAAACAATTTCTTTTTAAAGAAAATTTGATAT
1 ATTGATATTTCAAC-TCTTTCCTTGAA-TTCCCAAAACAACTTCATTTTAAAGAAAAATTAATAT
* * * * *
2474792 TTTAATTTCTTTTTTTTTTA-TTTT-AATATAAATTTGTTTTAAGAAA-AT
64 TTTAACTTCTTTTCTTTTTATTTTTCAA-ATAATTTTATTTTAA-AAAGAG
* *
2474840 ATTGATATTTCAAATCTCTCCTT-AATT
1 ATTGATATTTCAACTCTTTCCTTGAATT
2474867 TTACAAAACA
Statistics
Matches: 203, Mismatches: 32, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
108 5 0.02
109 23 0.11
110 55 0.27
111 84 0.41
112 26 0.13
113 10 0.05
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (112 bp):
ATTGATATTTCAACTCTTTCCTTGAATTCCCAAAACAACTTCATTTTAAAGAAAAATTAATATTT
TAACTTCTTTTCTTTTTATTTTTCAAATAATTTTATTTTAAAAAGAG
Found at i:2474867 original size:111 final size:111
Alignment explanation
Indices: 2474589--2474876 Score: 286
Period size: 111 Copynumber: 2.6 Consensus size: 111
2474579 TTTCTTCAAG
* * * * **
2474589 TTTTTC-AAAT-AATTTTATTTTAAAGAGATATTGATATTTCAACTCTTTCTTTGAATTCCCAAA
1 TTTTTCAAAATAAATTTCATTTTAAAAAGATATTGATATTTCAAATCTTTCCTT-AATTTTCAAA
* *
2474652 ACGACTTCATTTTAAGGAAAAATTAATATTTAACTTTTTTCTTTTTA
65 ACAACTTCATTTTAAAGAAAAATTAATATTTAACTTTTTTCTTTTTA
* *
2474699 TTTTTCAAAATAATTTTCATTTTAAAAAGAGATT-ATATTTCAACAT-TTTCCTTAATTTTCTAA
1 TTTTTCAAAATAAATTTCATTTTAAAAAGATATTGATATTTCAA-ATCTTTCCTTAATTTTC-AA
* * * * * *
2474762 AACAATTTCTTTTTAAAGAAAATTTGATATTTTAATTTCTTTTTTTTTTA
64 AACAACTTCATTTTAAAGAAAAATTAATA-TTTAACTT-TTTTCTTTTTA
* * *
2474812 -TTTT-AATATAAATTT-GTTTTAAGAAA-ATATTGATATTTCAAATCTCTCCTTAATTTTACAA
1 TTTTTCAAAATAAATTTCATTTTAA-AAAGATATTGATATTTCAAATCTTTCCTTAATTTT-CAA
2474873 AACA
64 AACA
2474877 TTTTATTTCA
Statistics
Matches: 147, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
110 23 0.16
111 83 0.56
112 31 0.21
113 10 0.07
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.49
Consensus pattern (111 bp):
TTTTTCAAAATAAATTTCATTTTAAAAAGATATTGATATTTCAAATCTTTCCTTAATTTTCAAAA
CAACTTCATTTTAAAGAAAAATTAATATTTAACTTTTTTCTTTTTA
Found at i:2474965 original size:49 final size:48
Alignment explanation
Indices: 2474882--2474975 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 48
2474872 AAACATTTTA
2474882 TTTCAAGGAAAGATTGATATTCAATGCTTTCTTTAATTTTCAAAACAT
1 TTTCAAGGAAAGATTGATATTCAATGCTTTCTTTAATTTTCAAAACAT
* **
2474930 TTTCAAGTAAAGATTAAGAT-TTCAATTTTTTCTTTAATTTTCAAAA
1 TTTCAAGGAAAGATT--GATATTCAATGCTTTCTTTAATTTTCAAAA
2474976 AAAATAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
48 14 0.34
49 24 0.59
50 3 0.07
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.45
Consensus pattern (48 bp):
TTTCAAGGAAAGATTGATATTCAATGCTTTCTTTAATTTTCAAAACAT
Found at i:2475043 original size:6 final size:6
Alignment explanation
Indices: 2475022--2475055 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
2475012 GGATTTTAAC
2475022 ATAAAA A-AATAA ATAAAA ATAAAA ATAAAA ATAA
1 ATAAAA ATAA-AA ATAAAA ATAAAA ATAAAA ATAA
2475056 TTTATCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 2 0.08
6 22 0.85
7 2 0.08
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:2475811 original size:18 final size:18
Alignment explanation
Indices: 2475765--2475811 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
2475755 AGTAGAGATT
*
2475765 AGGTTTAAAATCAACCTA
1 AGGTTTAAAATCAACATA
* *
2475783 GGGGTTAAAATCAACATA
1 AGGTTTAAAATCAACATA
*
2475801 AGGTTTTAAAT
1 AGGTTTAAAAT
2475812 TTAAACAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.30
Consensus pattern (18 bp):
AGGTTTAAAATCAACATA
Found at i:2476202 original size:7 final size:7
Alignment explanation
Indices: 2476192--2476267 Score: 64
Period size: 7 Copynumber: 10.4 Consensus size: 7
2476182 CCAAAAAAAC
2476192 AAAAAT-
1 AAAAATA
2476198 AAAAATA
1 AAAAATA
2476205 ATTAGAAATTA
1 A--A-AAA-TA
*
2476216 AAAATTA
1 AAAAATA
*
2476223 AAAATTA
1 AAAAATA
*
2476230 AAAATTA
1 AAAAATA
2476237 AAAAATA
1 AAAAATA
*
2476244 AAAATTA
1 AAAAATA
*
2476251 AAAATTA
1 AAAAATA
2476258 AAAAATA
1 AAAAATA
2476265 AAA
1 AAA
2476268 GGCCTTAAAC
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
6 6 0.10
7 45 0.74
8 2 0.03
9 2 0.03
10 3 0.05
11 3 0.05
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.24
Consensus pattern (7 bp):
AAAAATA
Found at i:2476221 original size:14 final size:14
Alignment explanation
Indices: 2476204--2476267 Score: 101
Period size: 14 Copynumber: 4.6 Consensus size: 14
2476194 AAATAAAAAT
*
2476204 AATTAGAAATTAAA
1 AATTAAAAATTAAA
2476218 AATTAAAAATTAAA
1 AATTAAAAATTAAA
*
2476232 AATTAAAAAATAAA
1 AATTAAAAATTAAA
2476246 AATTAAAAATTAAA
1 AATTAAAAATTAAA
*
2476260 AAATAAAA
1 AATTAAAA
2476268 GGCCTTAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 46 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (14 bp):
AATTAAAAATTAAA
Found at i:2476234 original size:21 final size:21
Alignment explanation
Indices: 2476204--2476267 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
2476194 AAATAAAAAT
* *
2476204 AATTAGAAATTAAAAATTAAA
1 AATTAAAAATTAAAAAATAAA
2476225 AATTAAAAATTAAAAAATAAA
1 AATTAAAAATTAAAAAATAAA
2476246 AATTAAAAATTAAAAAATAAA
1 AATTAAAAATTAAAAAATAAA
2476267 A
1 A
2476268 GGCCTTAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (21 bp):
AATTAAAAATTAAAAAATAAA
Found at i:2476610 original size:66 final size:66
Alignment explanation
Indices: 2476490--2476647 Score: 176
Period size: 66 Copynumber: 2.4 Consensus size: 66
2476480 TTGAAAATGT
* * * * *
2476490 GCCAAAATCTGAAAATAAAACAACTTGGACTAACTTGAAGTTTGAAATTAAAACAA-CTTGGCCA
1 GCCAAAATATGAAAATAAAACAACTCGAACTAACTTGAAGTTTGAAAATAAAACAACCTAGGCC-
2476554 GA
65 GA
* * * * *
2476556 GCTAAAGTATGAAAATAAAACAACTCGAATTGAA-TTGAAGTTTGAAAATGAAACAACCTAGGTC
1 GCCAAAATATGAAAATAAAACAACTCGAACT-AACTTGAAGTTTGAAAATAAAACAACCTAGGCC
2476620 GA
65 GA
* *
2476622 GCCAAAATCTGAACATAAAACAACTC
1 GCCAAAATATGAAAATAAAACAACTC
2476648 AATCTGAGTC
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
66 69 0.91
67 7 0.09
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.22
Consensus pattern (66 bp):
GCCAAAATATGAAAATAAAACAACTCGAACTAACTTGAAGTTTGAAAATAAAACAACCTAGGCCG
A
Found at i:2481064 original size:17 final size:17
Alignment explanation
Indices: 2481042--2481074 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2481032 ATAATGGAGT
2481042 AAAGTTCTAGAATAAAA
1 AAAGTTCTAGAATAAAA
2481059 AAAGTTCTAGAATAAA
1 AAAGTTCTAGAATAAA
2481075 GTAAAATCAT
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:0.58, C:0.06, G:0.12, T:0.24
Consensus pattern (17 bp):
AAAGTTCTAGAATAAAA
Found at i:2481403 original size:2 final size:2
Alignment explanation
Indices: 2481398--2481431 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
2481388 ATTAATATTA
2481398 AT AT AT AT AGT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
2481432 TGTGCTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.90
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2481431 original size:12 final size:11
Alignment explanation
Indices: 2481392--2481430 Score: 55
Period size: 10 Copynumber: 3.6 Consensus size: 11
2481382 TTTTTAATTA
2481392 ATAT-TAATAT
1 ATATATAATAT
2481402 ATATAGTAATAT
1 ATATA-TAATAT
2481414 ATATAT-ATAT
1 ATATATAATAT
2481424 ATATATA
1 ATATATA
2481431 TTGTGCTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 14 0.54
11 1 0.04
12 11 0.42
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
ATATATAATAT
Found at i:2485815 original size:15 final size:16
Alignment explanation
Indices: 2485790--2485824 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
2485780 AAAATTAACA
*
2485790 TATTTTGAATTTGAAT
1 TATTTTGAATTTAAAT
2485806 TATTTT-AATTTAAAT
1 TATTTTGAATTTAAAT
2485821 TATT
1 TATT
2485825 AAATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (16 bp):
TATTTTGAATTTAAAT
Found at i:2485857 original size:21 final size:20
Alignment explanation
Indices: 2485803--2485859 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
2485793 TTTGAATTTG
*
2485803 AATT-ATTTTAATTTAAATT
1 AATTAATTTTAAATTAAATT
*
2485822 -ATTAAATTTAAAAATTAAATT
1 AATT-AATTT-TAAATTAAATT
2485843 AAATTAATTTTAAATTA
1 -AATTAATTTTAAATTA
2485860 TTTTGAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
18 3 0.10
20 4 0.13
21 15 0.50
22 5 0.17
23 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTAATTTTAAATTAAATT
Found at i:2490339 original size:20 final size:21
Alignment explanation
Indices: 2490314--2490355 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2490304 GTAATAAAAC
2490314 TTTTTAATT-ATCAATTTTAA
1 TTTTTAATTAATCAATTTTAA
*
2490334 TTTTTATTTAATCAATTTTAA
1 TTTTTAATTAATCAATTTTAA
2490355 T
1 T
2490356 AAATTCAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTAATTAATCAATTTTAA
Found at i:2492432 original size:3 final size:3
Alignment explanation
Indices: 2492413--2492444 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
2492403 TCCCCCAAAA
2492413 AAT AAT AA- AAT AA- AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2492445 TTACAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:2492438 original size:9 final size:9
Alignment explanation
Indices: 2492413--2492444 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
2492403 TCCCCCAAAA
2492413 AATAATAA-
1 AATAATAAT
2492421 AATAA-AAT
1 AATAATAAT
2492429 AATAATAAT
1 AATAATAAT
2492438 AATAATA
1 AATAATA
2492445 TTACAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 2 0.09
8 10 0.45
9 10 0.45
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AATAATAAT
Done.