Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 8 of 132
Found at i:2089955 original size:25 final size:26
Alignment explanation
Indices: 2089920--2089976 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
2089910 TTTATTTATT
2089920 TATTATTAATTAATAATATCATTAAA
1 TATTATTAATTAATAATATCATTAAA
* *
2089946 -ATTATTAATTAATGATATTATTAAA
1 TATTATTAATTAATAATATCATTAAA
2089971 TATTAT
1 TATTAT
2089977 ATTAAACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 23 0.82
26 5 0.18
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
TATTATTAATTAATAATATCATTAAA
Found at i:2090629 original size:17 final size:16
Alignment explanation
Indices: 2090609--2090677 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 16
2090599 GACTTTCTTT
2090609 TTAAATTTATAA-TAACA
1 TTAAATTTA-AATTAA-A
2090626 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
2090642 TTCAAATTTAAATTTAAA
1 TT-AAATTTAAA-TTAAA
* *
2090660 TTGAATTTAAAATAAA
1 TTAAATTTAAATTAAA
2090676 TT
1 TT
2090678 TAAGATTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
16 11 0.23
17 29 0.62
18 7 0.15
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:2090635 original size:6 final size:6
Alignment explanation
Indices: 2090626--2090680 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
2090616 TATAATAACA
* *
2090626 TTAAAT TTAAA- TTAAAT TCAAAT TTAAAT TTAAA- TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
2090671 ATAAAT TTAA
1 TTAAAT TTAA
2090681 GATTAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
5 13 0.32
6 27 0.68
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:2090641 original size:11 final size:11
Alignment explanation
Indices: 2090625--2090687 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
2090615 TTATAATAAC
2090625 ATTAAATTTAA
1 ATTAAATTTAA
*
2090636 ATTAAATTCAA
1 ATTAAATTTAA
2090647 ATTTAAATTTAA
1 A-TTAAATTTAA
*
2090659 ATTGAATTTAA
1 ATTAAATTTAA
*
2090670 AATAAATTTAA
1 ATTAAATTTAA
2090681 GATTAAA
1 -ATTAAA
2090688 ATAAATTTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
11 29 0.66
12 15 0.34
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:2091429 original size:30 final size:30
Alignment explanation
Indices: 2091393--2091656 Score: 226
Period size: 30 Copynumber: 8.8 Consensus size: 30
2091383 AGAGGTCCCC
* * * *
2091393 AAACTTTTCTAAAATTATATTTTGAGCCTT
1 AAACTTTTCCAAAATTACATTTTAACCCTT
*
2091423 AAACTTTTCCAAAATTACATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCTT
* ** * *
2091453 AAAATTTTATAAAATTACATTTTGA-CCTAC
1 AAACTTTTCCAAAATTACATTTTAACCCT-T
* *
2091483 AAACTTTTCCAAAATTATATTTTAACCCAT
1 AAACTTTTCCAAAATTACATTTTAACCCTT
** *
2091513 AAACTTTTTTAAAATTACATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCTT
* * *
2091543 AAACTTTTCCAAAATCATATTTTGACCCTCT
1 AAACTTTTCCAAAATTACATTTTAACCCT-T
* * * *
2091574 AAACGTTACCAAAATCACATTTTAACCCTC
1 AAACTTTTCCAAAATTACATTTTAACCCTT
* * * *
2091604 GAACTTTTCCAAAATCATATTTTGACCCTT
1 AAACTTTTCCAAAATTACATTTTAACCCTT
* * *
2091634 GAACTTCTT-TAAAATTTCATTTT
1 AAACTT-TTCCAAAATTACATTTT
2091657 CATCTCGAGT
Statistics
Matches: 187, Mismatches: 43, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
29 2 0.01
30 155 0.83
31 30 0.16
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (30 bp):
AAACTTTTCCAAAATTACATTTTAACCCTT
Found at i:2091475 original size:60 final size:59
Alignment explanation
Indices: 2091389--2091656 Score: 254
Period size: 60 Copynumber: 4.5 Consensus size: 59
2091379 CTCAAGAGGT
* * *
2091389 CCCC-AAACTTTTCTAAAATTATATTTTGAGCCTTAAACTTTTCCAAAATTACATTTTAA
1 CCCCTAAACTTTTATAAAATTACATTTTGA-CCTTAAACTTTTCCAAAATTATATTTTAA
* *
2091448 CCCCTAAAATTTTATAAAATTACATTTTGACCTACAAACTTTTCCAAAATTATATTTTAA
1 CCCCTAAACTTTTATAAAATTACATTTTGACCT-TAAACTTTTCCAAAATTATATTTTAA
* * * * * *
2091508 CCCATAAACTTTTTTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCATATTTTGA
1 CCCCTAAACTTTTATAAAATTACATTTTGA-CCTTAAACTTTTCCAAAATTATATTTTAA
* * * * ** * *
2091568 CCCTCTAAAC-GTTACCAAAATCACATTTTAACCCTCGAACTTTTCCAAAATCATATTTTGA
1 CCC-CTAAACTTTTA-TAAAATTACATTTTGA-CCTTAAACTTTTCCAAAATTATATTTTAA
* * *
2091629 CCCTTGAACTTCTT-TAAAATTTCATTTT
1 CCCCTAAACTT-TTATAAAATTACATTTT
2091657 CATCTCGAGT
Statistics
Matches: 175, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
59 7 0.04
60 115 0.66
61 51 0.29
62 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.40
Consensus pattern (59 bp):
CCCCTAAACTTTTATAAAATTACATTTTGACCTTAAACTTTTCCAAAATTATATTTTAA
Found at i:2091545 original size:90 final size:90
Alignment explanation
Indices: 2091392--2091618 Score: 269
Period size: 90 Copynumber: 2.5 Consensus size: 90
2091382 AAGAGGTCCC
* * * *
2091392 CAAACTTTTCTAAAATTATATTTTGAGCCTTAAACTTTTCCAAAATTACATTTTAACCCCTAAAA
1 CAAACTTTTCCAAAATTATATTTTAACCCATAAACTTTTCCAAAATTACATTTTAACCCCTAAAA
* *
2091457 TTTTATAAAATTACATTTTGA-CCT
66 TTTTACAAAATCACATTTTGACCCT
**
2091481 ACAAACTTTTCCAAAATTATATTTTAACCCATAAACTTTTTTAAAATTACATTTTAACCCCTAAA
1 -CAAACTTTTCCAAAATTATATTTTAACCCATAAACTTTTCCAAAATTACATTTTAACCCCTAAA
* * *
2091546 CTTTTCCAAAATCATATTTTGACCCT
65 ATTTTACAAAATCACATTTTGACCCT
* * * * *
2091572 CTAAACGTTACCAAAATCACATTTTAACCC-TCGAACTTTTCCAAAAT
1 C-AAACTTTTCCAAAATTATATTTTAACCCAT-AAACTTTTCCAAAAT
2091619 CATATTTTGA
Statistics
Matches: 116, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
90 77 0.66
91 39 0.34
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.38
Consensus pattern (90 bp):
CAAACTTTTCCAAAATTATATTTTAACCCATAAACTTTTCCAAAATTACATTTTAACCCCTAAAA
TTTTACAAAATCACATTTTGACCCT
Found at i:2099687 original size:3 final size:3
Alignment explanation
Indices: 2099679--2099707 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2099669 CATGGAAGTG
2099679 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
2099708 CTCGAGTTGA
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:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2108270 original size:15 final size:15
Alignment explanation
Indices: 2108250--2108279 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2108240 AACAAAAAGT
2108250 CGTTAAAGATAACGC
1 CGTTAAAGATAACGC
2108265 CGTTAAAGATAACGC
1 CGTTAAAGATAACGC
2108280 AGCTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (15 bp):
CGTTAAAGATAACGC
Found at i:2108286 original size:15 final size:15
Alignment explanation
Indices: 2108253--2108286 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2108243 AAAAAGTCGT
* *
2108253 TAAAGATAACGCCGT
1 TAAAGATAACGCAGC
2108268 TAAAGATAACGCAGC
1 TAAAGATAACGCAGC
2108283 TAAA
1 TAAA
2108287 AATTGCAACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (15 bp):
TAAAGATAACGCAGC
Found at i:2108443 original size:42 final size:42
Alignment explanation
Indices: 2108308--2108464 Score: 244
Period size: 42 Copynumber: 3.7 Consensus size: 42
2108298 TCATGAGGAA
*
2108308 AAACGCCGCTAAAGAACAT-GTCTTTAGCGGCGCTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCTCAC
**
2108349 AAACGCTACTAAAGAACATGGTCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGC-TTTCTCAC
* *
2108392 AAATGCCGCTAAAGGACATGGTCTTTAGCGGCGCTTTCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCTCAC
*
2108434 AAACGCCGCTAAAGAACATGATCTTTAGCGG
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGG
2108465 TATTTTTCCC
Statistics
Matches: 104, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
41 17 0.16
42 50 0.48
43 37 0.36
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCTCAC
Found at i:2108472 original size:85 final size:84
Alignment explanation
Indices: 2108308--2108488 Score: 254
Period size: 85 Copynumber: 2.1 Consensus size: 84
2108298 TCATGAGGAA
* *
2108308 AAACGCCGCTAAAGAACATGTCTTTAGCGGCGCTTTCCCACAAACGCTACTAAAGAACATGGTCT
1 AAACGCCGCTAAAGAACATGTCTTTAGCGGCGCTTTCCCACAAACGCCACTAAAGAACATGATCT
* *
2108373 TTAGCGGCGCTTTTCTCAC
66 TTAGCGGCACTTTTCCCAC
* * * *
2108392 AAATGCCGCTAAAGGACATGGTCTTTAGCGGCGCTTTCTCACAAACGCCGCTAAAGAACATGATC
1 AAACGCCGCTAAAGAACAT-GTCTTTAGCGGCGCTTTCCCACAAACGCCACTAAAGAACATGATC
* *
2108457 TTTAGCGGTATTTTTCCCAC
65 TTTAGCGGCACTTTTCCCAC
*
2108477 AAACGCCACTAA
1 AAACGCCGCTAA
2108489 CATTAACAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 17 0.20
85 67 0.80
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (84 bp):
AAACGCCGCTAAAGAACATGTCTTTAGCGGCGCTTTCCCACAAACGCCACTAAAGAACATGATCT
TTAGCGGCACTTTTCCCAC
Found at i:2111288 original size:31 final size:31
Alignment explanation
Indices: 2111246--2111330 Score: 118
Period size: 31 Copynumber: 2.7 Consensus size: 31
2111236 TTTTCAACAA
*
2111246 ATTTATATAAATTTTTACA-ATTTAATAATTT
1 ATTTATATAAATTTTGACATA-TTAATAATTT
*
2111277 ATTTATGTAAATTTTGACATATTAATAATTT
1 ATTTATATAAATTTTGACATATTAATAATTT
* *
2111308 ATTTATATAGATTTTGATATATT
1 ATTTATATAAATTTTGACATATT
2111331 GATGTATTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 47 0.98
32 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (31 bp):
ATTTATATAAATTTTGACATATTAATAATTT
Found at i:2117837 original size:14 final size:14
Alignment explanation
Indices: 2117801--2117829 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2117791 AAATCTTTCC
2117801 AAGAATGAACTCTT
1 AAGAATGAACTCTT
2117815 AAGAATGAACTCTT
1 AAGAATGAACTCTT
2117829 A
1 A
2117830 GTATTGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (14 bp):
AAGAATGAACTCTT
Found at i:2124863 original size:26 final size:24
Alignment explanation
Indices: 2124842--2124899 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
2124832 TGATTATTAA
2124842 TTTTT-TAAAAAGAGTTAAATTATT
1 TTTTTATAAAAAGA-TTAAATTATT
*
2124866 TTTTTAATAAAAATATTAAATTATT
1 TTTTT-ATAAAAAGATTAAATTATT
*
2124891 TTTTAATAA
1 TTTTTATAA
2124900 CTCGTATGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 9 0.30
25 14 0.47
26 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (24 bp):
TTTTTATAAAAAGATTAAATTATT
Found at i:2124892 original size:24 final size:26
Alignment explanation
Indices: 2124847--2124899 Score: 83
Period size: 24 Copynumber: 2.1 Consensus size: 26
2124837 ATTAATTTTT
2124847 TAAAAAGAGTTAAATTATTTTTTTAA
1 TAAAAAGAGTTAAATTATTTTTTTAA
*
2124873 TAAAAATA-TTAAATTA-TTTTTTAA
1 TAAAAAGAGTTAAATTATTTTTTTAA
2124897 TAA
1 TAA
2124900 CTCGTATGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 11 0.42
25 8 0.31
26 7 0.27
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (26 bp):
TAAAAAGAGTTAAATTATTTTTTTAA
Found at i:2128612 original size:18 final size:18
Alignment explanation
Indices: 2128586--2128641 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
2128576 GTATAAAAAG
2128586 TAACAGAATTAACCGAAT
1 TAACAGAATTAACCGAAT
* *
2128604 TAACTGAATTACCCGAAT
1 TAACAGAATTAACCGAAT
* *
2128622 TAA-AAAATTAACCAAAT
1 TAACAGAATTAACCGAAT
2128639 TAA
1 TAA
2128642 AGTATTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 13 0.41
18 19 0.59
ACGTcount: A:0.52, C:0.16, G:0.07, T:0.25
Consensus pattern (18 bp):
TAACAGAATTAACCGAAT
Found at i:2128641 original size:9 final size:9
Alignment explanation
Indices: 2128586--2128624 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
2128576 GTATAAAAAG
*
2128586 TAACAGAAT
1 TAACCGAAT
2128595 TAACCGAAT
1 TAACCGAAT
*
2128604 TAACTGAAT
1 TAACCGAAT
*
2128613 TACCCGAAT
1 TAACCGAAT
2128622 TAA
1 TAA
2128625 AAAATTAACC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (9 bp):
TAACCGAAT
Found at i:2130570 original size:17 final size:17
Alignment explanation
Indices: 2130548--2130581 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2130538 TTTTGAGAAG
2130548 TGAAAACACATCCTACA
1 TGAAAACACATCCTACA
*
2130565 TGAAAACACATCTTACA
1 TGAAAACACATCCTACA
2130582 AGGCGTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.26, G:0.06, T:0.21
Consensus pattern (17 bp):
TGAAAACACATCCTACA
Found at i:2131343 original size:13 final size:14
Alignment explanation
Indices: 2131325--2131353 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2131315 TGTACTAAAA
2131325 ATAATAA-TATTTG
1 ATAATAATTATTTG
2131338 ATAATAATTATTTG
1 ATAATAATTATTTG
2131352 AT
1 AT
2131354 TTTATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATAATAATTATTTG
Found at i:2141396 original size:19 final size:19
Alignment explanation
Indices: 2141356--2141396 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2141346 TATTCTTAAA
* * *
2141356 ATTAAAAAGTATTTAAAGT
1 ATTAAAAAATATTAAAAAT
2141375 ATTAAAAAATATTAAAAAT
1 ATTAAAAAATATTAAAAAT
2141394 ATT
1 ATT
2141397 TTTTATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTAAAAAATATTAAAAAT
Found at i:2145370 original size:3 final size:3
Alignment explanation
Indices: 2145364--2145396 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2145354 ATCAATAATA
2145364 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2145397 AACAAGGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2146975 original size:29 final size:29
Alignment explanation
Indices: 2146882--2147284 Score: 358
Period size: 29 Copynumber: 13.8 Consensus size: 29
2146872 TTAGAAAAGT
* * *
2146882 TTTAGGGGT-AAAATGTTATTTTAGGAAA
1 TTTAGGGGTAAAAATGTAATTTTTGGAAG
* * * ** *
2146910 ATTCGAGGTAAAAACATGATTTTTGGAAG
1 TTTAGGGGTAAAAATGTAATTTTTGGAAG
* * *
2146939 -TTCGAGGTAAAAAAGTAA-TTTTGAGAAG
1 TTTAGGGGTAAAAATGTAATTTTTG-GAAG
* * *
2146967 TTTTA-AGGTAAAAATGTGATTTTTAGAAG
1 -TTTAGGGGTAAAAATGTAATTTTTGGAAG
* *
2146996 TTCAGGGGTAAAAATGTAATTTTTAAGAAG
1 TTTAGGGGTAAAAATGTAATTTTT-GGAAG
*
2147026 TTTTA-GGGTAAAAATGTGATTTTTGGAAG
1 -TTTAGGGGTAAAAATGTAATTTTTGGAAG
* * *
2147055 TTTAAGGG-CAAAATATAATTTTTTGGAAAG
1 TTTAGGGGTAAAAATGTAA-TTTTTGG-AAG
*
2147085 TTTAGGGGTAAAAATATAATTTTTGGAAAG
1 TTTAGGGGTAAAAATGTAATTTTTGG-AAG
2147115 TTTAGGGGT-AAAATGTAATTTTTGGAAG
1 TTTAGGGGTAAAAATGTAATTTTTGGAAG
2147143 TTTAGGGGTAAAAATGTAATTTTTGAGAAG
1 TTTAGGGGTAAAAATGTAATTTTTG-GAAG
2147173 TTTAGGGGTAAAAATGTAA-TTTTGGAAAG
1 TTTAGGGGTAAAAATGTAATTTTTGG-AAG
* *
2147202 TTT-GAGTGTAAAAATGTAATTTTTGTAAG
1 TTTAG-GGGTAAAAATGTAATTTTTGGAAG
* *
2147231 TTCT-GAGGCAAAAATGTAATTTTTTGGAAAG
1 TT-TAGGGGTAAAAATGTAA-TTTTTGG-AAG
* * *
2147262 TTTAGGTGTCAAAATGCAATTTT
1 TTTAGGGGTAAAAATGTAATTTT
2147285 GAATAAGCTT
Statistics
Matches: 316, Mismatches: 38, Indels: 40
0.80 0.10 0.10
Matches are distributed among these distances:
27 5 0.02
28 53 0.17
29 131 0.41
30 100 0.32
31 27 0.09
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (29 bp):
TTTAGGGGTAAAAATGTAATTTTTGGAAG
Found at i:2147041 original size:59 final size:59
Alignment explanation
Indices: 2146928--2147284 Score: 349
Period size: 59 Copynumber: 6.1 Consensus size: 59
2146918 TAAAAACATG
* * * *
2146928 ATTTTTGGAAGTTC-GAGGTAAAAAAGTAA-TTTTGAGAAGTTTTAAGGTAAAAATGTG
1 ATTTTTGGAAGTTCAGGGGTAAAAATGTAATTTTTGAGAAGTTTTAGGGTAAAAATGTA
* * *
2146985 ATTTTTAGAAGTTCAGGGGTAAAAATGTAATTTTTAAGAAGTTTTAGGGTAAAAATGTG
1 ATTTTTGGAAGTTCAGGGGTAAAAATGTAATTTTTGAGAAGTTTTAGGGTAAAAATGTA
* * * * *
2147044 ATTTTTGGAAGTTTAAGGG-CAAAATATAATTTTTTG-GAAAG-TTTAGGGGTAAAAATATA
1 ATTTTTGGAAGTTCAGGGGTAAAAATGTAA-TTTTTGAG-AAGTTTTA-GGGTAAAAATGTA
*
2147103 ATTTTTGGAAAGTTTAGGGGT-AAAATGTAATTTTTG-GAAG-TTTAGGGGTAAAAATGTA
1 ATTTTTGG-AAGTTCAGGGGTAAAAATGTAATTTTTGAGAAGTTTTA-GGGTAAAAATGTA
* * * *
2147161 ATTTTTGAGAAGTTTAGGGGTAAAAATGTAATTTTGGA-AAGTTTGAGTGTAAAAATGTA
1 ATTTTTG-GAAGTTCAGGGGTAAAAATGTAATTTTTGAGAAGTTTTAGGGTAAAAATGTA
* * * * * *
2147220 ATTTTTGTAAGTTCTGAGGCAAAAATGTAATTTTTTG-GAAAG-TTTAGGTGTCAAAATGCA
1 ATTTTTGGAAGTTCAGGGGTAAAAATGTAA-TTTTTGAG-AAGTTTTAGG-GTAAAAATGTA
2147280 ATTTT
1 ATTTT
2147285 GAATAAGCTT
Statistics
Matches: 256, Mismatches: 29, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
57 13 0.05
58 83 0.32
59 122 0.48
60 38 0.15
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.38
Consensus pattern (59 bp):
ATTTTTGGAAGTTCAGGGGTAAAAATGTAATTTTTGAGAAGTTTTAGGGTAAAAATGTA
Found at i:2147138 original size:88 final size:88
Alignment explanation
Indices: 2146916--2147276 Score: 364
Period size: 88 Copynumber: 4.1 Consensus size: 88
2146906 GAAAATTCGA
* * * * * *
2146916 GGTAAAAACATGATTTTTGG-AAG-TTCGAGGTAAAAAAGTAA-TTTTGAGAAGTTTTAAGGTAA
1 GGTAAAAATATAATTTTTGGAAAGTTTAGGGGTAAAAATGTAATTTTTG-GAAG-TTTAAGGGAA
* * *
2146978 AAATGTGATTTTTAG-AAGTTCAGG
64 AAATGTAATTTTTGGAAAGTTTAGG
* * * *
2147002 GGTAAAAATGTAATTTTT-AAGAAGTTTTA-GGGTAAAAATGTGATTTTTGGAAGTTTAAGGGCA
1 GGTAAAAATATAATTTTTGGA-AAG-TTTAGGGGTAAAAATGTAATTTTTGGAAGTTTAAGGGAA
*
2147065 AAATATAATTTTTTGGAAAGTTTAGG
64 AAATGTAA-TTTTTGGAAAGTTTAGG
*
2147091 GGTAAAAATATAATTTTTGGAAAGTTTAGGGGT-AAAATGTAATTTTTGGAAGTTTAGGGGTAAA
1 GGTAAAAATATAATTTTTGGAAAGTTTAGGGGTAAAAATGTAATTTTTGGAAGTTTAAGGG-AAA
2147155 AATGTAATTTTT-GAGAAGTTTAGG
65 AATGTAATTTTTGGA-AAGTTTAGG
* * * * *
2147179 GGTAAAAATGTAA-TTTTGGAAAGTTT-GAGTGTAAAAATGTAATTTTTGTAAGTTCTGAGGCAA
1 GGTAAAAATATAATTTTTGGAAAGTTTAG-GGGTAAAAATGTAATTTTTGGAAGTT-TAAGGGAA
2147242 AAATGTAATTTTTTGGAAAGTTTAGG
64 AAATGTAA-TTTTTGGAAAGTTTAGG
* *
2147268 TGTCAAAAT
1 GGTAAAAAT
2147277 GCAATTTTGA
Statistics
Matches: 231, Mismatches: 28, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
86 16 0.07
87 35 0.15
88 106 0.46
89 71 0.31
90 3 0.01
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (88 bp):
GGTAAAAATATAATTTTTGGAAAGTTTAGGGGTAAAAATGTAATTTTTGGAAGTTTAAGGGAAAA
ATGTAATTTTTGGAAAGTTTAGG
Found at i:2148083 original size:20 final size:20
Alignment explanation
Indices: 2148054--2148093 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2148044 TGCTCTTTTG
2148054 TATTTATTATGTACTTATTA
1 TATTTATTATGTACTTATTA
* *
2148074 TATTTGTTATTTACTTATTA
1 TATTTATTATGTACTTATTA
2148094 AACAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (20 bp):
TATTTATTATGTACTTATTA
Found at i:2149422 original size:99 final size:99
Alignment explanation
Indices: 2149197--2149939 Score: 425
Period size: 99 Copynumber: 7.5 Consensus size: 99
2149187 TGAGGTGCTA
* * * * * * * *
2149197 GGTTCGTCGTTGCGGCCTCAACCTTTCCCTTTATATCTTTATGGTATCGGATTCGCCATTACGAC
1 GGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGGTTTGCCGTTGCGGC
* * * * * *
2149262 TTCAATCATTCCCATCACATCTT-TTAAGGTATCG
66 CTCAACCTTTCCCTTCGCATCTTCTT-AGGTACCG
* * ** * * * * * * *
2149296 GGTTTGCCGTTGTAGCCTCAACATTTCCCTTTATATCTCCGTGGTACCGGGTTTACCATTGCAGC
1 GGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGGTTTGCCGTTGCGGC
* *
2149361 CTCGACTTTTCCCTTCGCATCTTCTTAGGTACCG
66 CTCAACCTTTCCCTTCGCATCTTCTTAGGTACCG
** * * * *
2149395 ACTTCGTCGTTACGGCCTTAACCTTTCCCTTCGTATCTTCATGGTACCGGGTTTGCCGTTACGGC
1 GGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGGTTTGCCGTTGCGGC
* * * *
2149460 CTCAACCTTT-CCTATCACTTCTTCTTAAGTATCG
66 CTCAACCTTTCCCT-TCGCATCTTCTTAGGTACCG
* * * *
2149494 GGTTCGTCGTTGCAGCCTCAACCTTT-CCTATCACATCTTCTTAAGTACCGGGTTTGCCGTTGCG
1 GGTTCGTCGTTGCGGCCTCAACCTTTCCCT-TCATATCTTCAT-GGTACCGGGTTTGCCGTTGCG
* *
2149558 GCCTCAACCTTTCCCTTCGTATCTTCAT-GGTACCG
64 GCCTCAACCTTTCCCTTCGCATCTTCTTAGGTACCG
* * * * * * * * *** *
2149593 GGTTCGTCATTGCGACCTTAACCTTTCCCATCACATCTTCTAGGGTACCGGATTCGCCGCCACTG
1 GGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTACCGGGTTTGCCGTTGCGG
* * **
2149658 CCTCAATCC-TTCCCTT--AATC-TCTTCATGCTATTG
65 CCTCAA-CCTTTCCCTTCGCATCTTCTT-A-GGTACCG
* * * * * * * * * *
2149692 GGTTC-ACTATTGCAGCCTCAATCTTTCCCGTCACATCTTCTAAGGTACCGGATTCGCCGTCGCG
1 GGTTCGTC-GTTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTACCGGGTTTGCCGTTGCG
* * *
2149756 ACCTCAATCTTTCCCTT--CATC-TCTTCATGGTACTG
64 GCCTCAACCTTTCCCTTCGCATCTTCTT-A-GGTACCG
** * * * * ** * *
2149791 GGTTCACCGTTGCGGCCTCAACCTTTTCCATCACACCTTTTTAGGTACCGAGTTCGCCGTTGCGG
1 GGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCAT-GGTACCGGGTTTGCCGTTGCGG
* ** * *
2149856 CCTCAACCTTTCTC-TCATATCTTCAT-GGTACCT
65 CCTCAACCTTTCCCTTCGCATCTTCTTAGGTACCG
* * * * * *
2149889 GGTTCATCGTTGCGACCTCAACCTTTCTCATCACATCTTCTAAGGTACCGG
1 GGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTACCGG
2149940 ATTCGCTATC
Statistics
Matches: 500, Mismatches: 125, Indels: 39
0.75 0.19 0.06
Matches are distributed among these distances:
96 3 0.01
97 3 0.01
98 55 0.11
99 384 0.77
100 49 0.10
101 6 0.01
ACGTcount: A:0.16, C:0.32, G:0.17, T:0.35
Consensus pattern (99 bp):
GGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGGTTTGCCGTTGCGGC
CTCAACCTTTCCCTTCGCATCTTCTTAGGTACCG
Found at i:2149531 original size:149 final size:149
Alignment explanation
Indices: 2149354--2149929 Score: 407
Period size: 149 Copynumber: 3.9 Consensus size: 149
2149344 GGGTTTACCA
* * * * * *
2149354 TTGCAGCCTCGACTTTTCCCTTCGCATCTTCTTAGGTACCGACTTCGTCGTTACGGCCTTAACCT
1 TTGCAGCCTCAACCTTTCCCTTCACATCTTCTTAAGTACCGACTTCGCCGTTACGGCCTCAACCT
* * * * *
2149419 TTCCCTTCGTATCTTCATGGTACCGGGTTTGCCGTTACGGCCTCAACCTTTCCTATCACTTCTTC
66 TTCCCTTCGTATCTTCATGGTACCGGGTTCGCCATTACGACCTCAACCTTTCCCATCACATCTTC
2149484 TTAAGTATCGGGTTCGTCG
131 TTAAGTATCGGGTTCGTCG
** * *
2149503 TTGCAGCCTCAACCTTT-CCTATCACATCTTCTTAAGTACCGGGTTTGCCGTTGCGGCCTCAACC
1 TTGCAGCCTCAACCTTTCCCT-TCACATCTTCTTAAGTACCGACTTCGCCGTTACGGCCTCAACC
* * *
2149567 TTTCCCTTCGTATCTTCATGGTACCGGGTTCGTCATTGCGACCTTAACCTTTCCCATCACATCTT
65 TTTCCCTTCGTATCTTCATGGTACCGGGTTCGCCATTACGACCTCAACCTTTCCCATCACATCTT
* * * *
2149632 C-TAGGGTACCGGATTCGCCG
130 CTTA-AGTATCGGGTTCGTCG
*** * * ** ** * ** * *
2149652 CCACTGCCTCAATCC-TTCCCTT-A-ATC-TCTTCATGCTATTGGGTTCACTATTGCAGCCTCAA
1 TTGCAGCCTCAA-CCTTTCCCTTCACATCTTCTT-AAG-TACCGACTTCGCCGTTACGGCCTCAA
* * ** * * * ** * *
2149713 TCTTTCCCGTCACATCTTCTAAGGTACCGGATTCGCCGTCGCGACCTCAATCTTTCCCTTCATC-
63 CCTTTCCCTTCGTATCTTC-ATGGTACCGGGTTCGCCATTACGACCTCAACCTTTCCCATCA-CA
* * **
2149777 TCTTCAT-GGTA-CTGGGTTCACCG
126 TCTTCTTAAGTATC-GGGTTCGTCG
* * * * * * * *
2149800 TTGCGGCCTCAACCTTTTCCATCACACCTTTTTAGGTACCGAGTTCGCCGTTGCGGCCTCAACCT
1 TTGCAGCCTCAACCTTTCCCTTCACATCTTCTTAAGTACCGACTTCGCCGTTACGGCCTCAACCT
* * * ** * * *
2149865 TTCTC-TCATATCTTCATGGTACCTGGTTCATCGTTGCGACCTCAACCTTTCTCATCACATCTTC
66 TTCCCTTCGTATCTTCATGGTACCGGGTTCGCCATTACGACCTCAACCTTTCCCATCACATCTTC
2149929 T
131 T
2149930 AAGGTACCGG
Statistics
Matches: 335, Mismatches: 77, Indels: 32
0.75 0.17 0.07
Matches are distributed among these distances:
146 5 0.01
147 46 0.14
148 74 0.22
149 196 0.59
150 11 0.03
151 3 0.01
ACGTcount: A:0.16, C:0.33, G:0.16, T:0.35
Consensus pattern (149 bp):
TTGCAGCCTCAACCTTTCCCTTCACATCTTCTTAAGTACCGACTTCGCCGTTACGGCCTCAACCT
TTCCCTTCGTATCTTCATGGTACCGGGTTCGCCATTACGACCTCAACCTTTCCCATCACATCTTC
TTAAGTATCGGGTTCGTCG
Found at i:2149592 original size:198 final size:197
Alignment explanation
Indices: 2149197--2149939 Score: 596
Period size: 198 Copynumber: 3.8 Consensus size: 197
2149187 TGAGGTGCTA
* * * * * * *
2149197 GGTTCGTCGTTGCGGCCTCAACCTTTCCCTTTATATCTTTATGGTATCGGATTCGCCATTACGAC
1 GGTTCGTCGTTGCGGCCTCAACCTTTCCCATCACATCTTCATGGTACCGGATTCGCCGTTACGGC
* * * * * * * *
2149262 TTCAATCATTCCCATCACATCTT-TTAAGGTATCGGGTTTGCCGTTGTAGCCTCAACATTTCCCT
66 CTCAACCTTTCCTATCA-ATCTTCTTAA-GTATCGGGTTCGTCGTTGCAGCCTCAACCTTT-CCT
* * * * * * * * * *
2149326 -TTATATCTCCGT--GGTACCGGGTTTACCATTGCAGCCTCGACTTTTCCCTTCGCATCTTCTTA
128 ATCACATCTTC-TAAGGTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCGTATCTTCAT-
2149388 GGTACCG
191 GGTACCG
** * * * ** * *
2149395 ACTTCGTCGTTACGGCCTTAACCTTTCCCTTCGTATCTTCATGGTACCGGGTTTGCCGTTACGGC
1 GGTTCGTCGTTGCGGCCTCAACCTTTCCCATCACATCTTCATGGTACCGGATTCGCCGTTACGGC
*
2149460 CTCAACCTTTCCTATCACTTCTTCTTAAGTATCGGGTTCGTCGTTGCAGCCTCAACCTTTCCTAT
66 CTCAACCTTTCCTATCA-ATCTTCTTAAGTATCGGGTTCGTCGTTGCAGCCTCAACCTTTCCTAT
2149525 CACATCTTCTTAA-GTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCGTATCTTCATGGT
130 CACATCTTC-TAAGGTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCGTATCTTCATGGT
2149589 ACCG
194 ACCG
* * * * ** *
2149593 GGTTCGTCATTGCGACCTTAACCTTTCCCATCACATCTTCTAGGGTACCGGATTCGCCGCCACTG
1 GGTTCGTCGTTGCGGCCTCAACCTTTCCCATCACATCTTC-ATGGTACCGGATTCGCCGTTACGG
* * * * * *
2149658 CCTCAATCCTTCCCT-T-AATC-TCTTCATGCTATTGGGTTC-ACTATTGCAGCCTCAATCTTTC
65 CCTCAA-CCTTTCCTATCAATCTTCTT-AAG-TATCGGGTTCGTC-GTTGCAGCCTCAACCTTTC
** * * * * * * *
2149719 CCGTCACATCTTCTAAGGTACCGGATTCGCCGTCGCGACCTCAATCTTTCCCTTCATCTCTTCAT
126 CTATCACATCTTCTAAGGTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCGTATCTTCAT
*
2149784 GGTACTG
191 GGTACCG
** * * ** *
2149791 GGTTCACCGTTGCGGCCTCAACCTTTTCCATCACACCTTTTTAGGTACC-GAGTTCGCCGTTGCG
1 GGTTCGTCGTTGCGGCCTCAACCTTTCCCATCACATCTTCAT-GGTACCGGA-TTCGCCGTTACG
* * * * * *
2149855 GCCTCAACCTTT-CTCTCATATCTTCAT-GGTACCTGGTTCATCGTTGC-GACCTCAACCTTT-C
64 GCCTCAACCTTTCCTATCA-ATCTTCTTAAGTATCGGGTTCGTCGTTGCAG-CCTCAACCTTTCC
2149916 TCATCACATCTTCTAAGGTACCGG
127 T-ATCACATCTTCTAAGGTACCGG
2149940 ATTCGCTATC
Statistics
Matches: 438, Mismatches: 88, Indels: 39
0.78 0.16 0.07
Matches are distributed among these distances:
196 8 0.02
197 60 0.14
198 287 0.66
199 73 0.17
200 10 0.02
ACGTcount: A:0.16, C:0.32, G:0.17, T:0.35
Consensus pattern (197 bp):
GGTTCGTCGTTGCGGCCTCAACCTTTCCCATCACATCTTCATGGTACCGGATTCGCCGTTACGGC
CTCAACCTTTCCTATCAATCTTCTTAAGTATCGGGTTCGTCGTTGCAGCCTCAACCTTTCCTATC
ACATCTTCTAAGGTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTTCGTATCTTCATGGTAC
CG
Found at i:2149861 original size:347 final size:345
Alignment explanation
Indices: 2149204--2149945 Score: 785
Period size: 347 Copynumber: 2.1 Consensus size: 345
2149194 CTAGGTTCGT
* * * *
2149204 CGTTGCGGCCTCAACCTTTCCCTTTATATCTTTATGGTATCGGATTCGCCATTACGACTTCAATC
1 CGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCATTACGACTTCAACC
* * * * *** * *
2149269 ATTCCCATCACATCTTTTAAGGTATCGGGTTTGCCGTTGTAGCCTCAACATTTCCCTTTATATCT
66 ATTCCCATCACATCTTCTAAGGTACCGGATTCGCCGCACTAGCCTCAACACTTCCCTTAATATCT
* * * * * * *
2149334 CCGTGGTACCGGGTTTACCATTGCAGCCTCGACTTTTCCCTTCGCATCTTCTTAGGTACCGACTT
131 CCATGCTACCGGGTTCACCATTGCAGCCTCAACTTTTCCCGTCACATCTTCTAAGGTACCGACTT
* * * * * **
2149399 CGTCGTTACGGCCTTAACCTTTCCCTTCGTATCTTCATGGTACCGGGTTTGCCGTTACGGCCTCA
196 CGCCGTCACGACCTCAACCTTTCCCTTCATATCTTCATGGTACCGGGTTCACCGTTACGGCCTCA
** * * *
2149464 ACCTTTCCTATCACTTCTTCTTAAGTATCGGGTTCGTCGTTGCAGCCTCAACCTTTCCTATCACA
261 ACCTTTCCTATCACACCTTCTTAAGTACCGAGTTCGCCGTTGCAGCCTCAACCTTT-CTATCACA
* **
2149529 TCTTCTTAAGTACCGGGTTTGC
325 TCTTCAT-AGTACCGGGTTCAC
* * * *
2149551 CGTTGCGGCCTCAACCTTTCCCTTCGTATCTTCATGGTACCGGGTTCGTCATTGCGACCTT-AAC
1 CGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCATTACGA-CTTCAAC
* * *
2149615 CTTTCCCATCACATCTTCTAGGGTACCGGATTCGCCGCCACT-GCCTCAATC-CTTCCCTTAATC
65 CATTCCCATCACATCTTCTAAGGTACCGGATTCGCCG-CACTAGCCTCAA-CACTTCCCTTAATA
* ** *
2149678 TCTTCATGCTATTGGGTTCACTATTGCAGCCTCAA-TCTTTCCCGTCACATCTTCTAAGGTACCG
128 TCTCCATGCTACCGGGTTCACCATTGCAGCCTCAACT-TTTCCCGTCACATCTTCTAAGGTACC-
* * * * *
2149742 GA-TTCGCCGTCGCGACCTCAATCTTTCCCTTCATCTCTTCATGGTACTGGGTTCACCGTTGCGG
191 GACTTCGCCGTCACGACCTCAACCTTTCCCTTCATATCTTCATGGTACCGGGTTCACCGTTACGG
* * * *
2149806 CCTCAACCTTTTCC-ATCACACCTTTTTAGGTACCGAGTTCGCCGTTGCGGCCTCAACCTTTCTC
256 CCTCAACC-TTTCCTATCACACCTTCTTAAGTACCGAGTTCGCCGTTGCAGCCTCAACCTTTCTA
* * * *
2149870 TCATATCTTCATGGTACCTGGTTCAT
320 TCACATCTTCATAGTACCGGGTTCAC
* * * * *
2149896 CGTTGCGACCTCAACCTTTCTCATCACATCTTCTAAGGTACCGGATTCGC
1 CGTTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTACCGGATTCGC
2149946 TATCGCGACC
Statistics
Matches: 321, Mismatches: 67, Indels: 15
0.80 0.17 0.04
Matches are distributed among these distances:
345 37 0.12
346 26 0.08
347 246 0.77
348 12 0.04
ACGTcount: A:0.16, C:0.32, G:0.17, T:0.35
Consensus pattern (345 bp):
CGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCATTACGACTTCAACC
ATTCCCATCACATCTTCTAAGGTACCGGATTCGCCGCACTAGCCTCAACACTTCCCTTAATATCT
CCATGCTACCGGGTTCACCATTGCAGCCTCAACTTTTCCCGTCACATCTTCTAAGGTACCGACTT
CGCCGTCACGACCTCAACCTTTCCCTTCATATCTTCATGGTACCGGGTTCACCGTTACGGCCTCA
ACCTTTCCTATCACACCTTCTTAAGTACCGAGTTCGCCGTTGCAGCCTCAACCTTTCTATCACAT
CTTCATAGTACCGGGTTCAC
Found at i:2149957 original size:50 final size:50
Alignment explanation
Indices: 2149199--2149972 Score: 361
Period size: 50 Copynumber: 15.6 Consensus size: 50
2149189 AGGTGCTAGG
* * * * * * *
2149199 TTCGTCGTTGCGGCCTCAACCTTTCCCTTTATATCTT-TATGGTATCGGA
1 TTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGA
* * * * * * * *
2149248 TTCGCCATTACGACTTCAATCATTCCCATCACATCTTTTAAGGTATCGGG
1 TTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGA
* * * * * * * *
2149298 TTTGCCGTTG-TAGCCTCAACATTTCCCTTTATATCTCCGT--GGTACCGGG
1 TTCGCCGTTGCGA-CCTCAACCTTTCCCATCACATCTTC-TAAGGTACCGGA
** * * * * * *
2149347 TTTACCATTGC-AGCCTCGACTTTTCCCTTCGCATCTTCTTAGGTACC-GA
1 TTCGCCGTTGCGA-CCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGA
* * * * * ** * *
2149396 CTTCGTCGTTACGGCCTTAACCTTTCCCTTCGTATCTTC-ATGGTACCGGG
1 -TTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGA
* * * * * * *
2149446 TTTGCCGTTACGGCCTCAACCTTTCCTATCACTTCTTCTTAA-GTATCGGG
1 TTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTC-TAAGGTACCGGA
* * *
2149496 TTCGTCGTTGC-AGCCTCAACCTTTCCTATCACATCTTCTTAA-GTACCGGG
1 TTCGCCGTTGCGA-CCTCAACCTTTCCCATCACATCTTC-TAAGGTACCGGA
* * * ** * *
2149546 TTTGCCGTTGCGGCCTCAACCTTTCCCTTCGTATCTTC-ATGGTACCGGG
1 TTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGA
* * * *
2149595 TTCGTCATTGCGACCTTAACCTTTCCCATCACATCTTCTAGGGTACCGGA
1 TTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGA
*** * * * * ** *
2149645 TTCGCCGCCACTG-CCTCAATCC-TTCCCTTAATC-TCTTC-ATGCTATTGGG
1 TTCGCCGTTGC-GACCTCAA-CCTTTCCCATCA-CATCTTCTAAGGTACCGGA
* ** * *
2149694 TTCACTATTGC-AGCCTCAATCTTTCCCGTCACATCTTCTAAGGTACCGGA
1 TTCGCCGTTGCGA-CCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGA
* * * * * *
2149744 TTCGCCGTCGCGACCTCAATCTTTCCCTTCATC-TCTTC-ATGGTACTGGG
1 TTCGCCGTTGCGACCTCAACCTTTCCCATCA-CATCTTCTAAGGTACCGGA
* * * * * *
2149793 TTCACCGTTGCGGCCTCAACCTTTTCCATCACACCTTTTTAGGTACC-GA
1 TTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGA
* * * *
2149842 GTTCGCCGTTGCGGCCTCAACCTTTCTC-TCATATCTTC-ATGGTACCTGG-
1 -TTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACC-GGA
** *
2149891 TTCATCGTTGCGACCTCAACCTTTCTCATCACATCTTCTAAGGTACCGGA
1 TTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGA
** *
2149941 TTCGCTATCGCGACCTCAATCC-TTCCCTATCA
1 TTCGCCGTTGCGACCTCAA-CCTTTCCC-ATCA
2149973 AACCTGAAAA
Statistics
Matches: 542, Mismatches: 148, Indels: 68
0.72 0.20 0.09
Matches are distributed among these distances:
48 35 0.06
49 224 0.41
50 269 0.50
51 14 0.03
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.35
Consensus pattern (50 bp):
TTCGCCGTTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGA
Found at i:2155981 original size:29 final size:29
Alignment explanation
Indices: 2155721--2155987 Score: 190
Period size: 29 Copynumber: 9.2 Consensus size: 29
2155711 GTTTGAGGTT
*
2155721 AAAATGTAATTTTGAAAAGTTTTAGGGGGTA
1 AAAATGTAATTTTGGAAAG-TTTA-GGGGTA
** * * *
2155752 AAAATGTCTTTTTAGGAAA-ATTCGAGGTA
1 AAAATGTAATTTT-GGAAAGTTTAGGGGTA
** * *
2155781 AAAACATAATTTTTGG-AAG-TTCGGGGGA
1 AAAATGTAA-TTTTGGAAAGTTTAGGGGTA
**
2155809 AAAATGTAATTTTTTAGAAGTTTTA-GGGTA
1 AAAATGTAATTTTGGA-AAG-TTTAGGGGTA
* * *
2155839 AAAATGTGATTTTTGG-AAGTTTAAGGGCA
1 AAAATGT-AATTTTGGAAAGTTTAGGGGTA
* *
2155868 AAAATGTAAATTTGGAAAG-TTCGGGTGTA
1 AAAATGTAATTTTGGAAAGTTTAGGG-GTA
**
2155897 AAAATGTAATTTTTAAAAGTTTAGGGGT-
1 AAAATGTAATTTTGGAAAGTTTAGGGGTA
* *
2155925 AAAATGTAAATTTTGG-AAGTTTGGGGGTG
1 AAAATGT-AATTTTGGAAAGTTTAGGGGTA
* *
2155954 AAAATGTAATTTTGGAAATTTTAGGGGTC
1 AAAATGTAATTTTGGAAAGTTTAGGGGTA
2155983 AAAAT
1 AAAAT
2155988 ATTGTTTTTA
Statistics
Matches: 184, Mismatches: 37, Indels: 32
0.73 0.15 0.13
Matches are distributed among these distances:
27 4 0.02
28 56 0.30
29 80 0.43
30 22 0.12
31 18 0.10
32 4 0.02
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAGTTTAGGGGTA
Found at i:2155981 original size:57 final size:57
Alignment explanation
Indices: 2155804--2155980 Score: 185
Period size: 57 Copynumber: 3.1 Consensus size: 57
2155794 TGGAAGTTCG
* * ** * * *
2155804 GGGGAAAAATGTAATTTTTTAGAAGTTTTAGGGTAAAAATGTGATTTTTGGAAGTTTAA
1 GGGGAAAAATGTAA-ATTTTGGAAGTTTGGGGGTAAAAATGT-AATTTTGGAAATTTTA
* * * ** *
2155863 GGGCAAAAATGTAAA-TTTGGAAAGTTCGGGTGTAAAAATGTAATTTTTAAAAGTTTA
1 GGGGAAAAATGTAAATTTTGG-AAGTTTGGGGGTAAAAATGTAATTTTGGAAATTTTA
* *
2155920 GGGGTAAAATGTAAATTTTGGAAGTTTGGGGGTGAAAATGTAATTTTGGAAATTTTA
1 GGGGAAAAATGTAAATTTTGGAAGTTTGGGGGTAAAAATGTAATTTTGGAAATTTTA
2155977 GGGG
1 GGGG
2155981 TCAAAATATT
Statistics
Matches: 95, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
57 61 0.64
58 21 0.22
59 13 0.14
ACGTcount: A:0.36, C:0.01, G:0.28, T:0.36
Consensus pattern (57 bp):
GGGGAAAAATGTAAATTTTGGAAGTTTGGGGGTAAAAATGTAATTTTGGAAATTTTA
Found at i:2156610 original size:10 final size:10
Alignment explanation
Indices: 2156595--2156623 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
2156585 TCTCTCCGTC
2156595 GCCACGCGCT
1 GCCACGCGCT
2156605 GCCACGCGCT
1 GCCACGCGCT
2156615 GCCACGCGC
1 GCCACGCGC
2156624 CGCCGTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.52, G:0.31, T:0.07
Consensus pattern (10 bp):
GCCACGCGCT
Found at i:2157057 original size:20 final size:20
Alignment explanation
Indices: 2157028--2157067 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2157018 TGCTCTTTTG
2157028 TATTTATTATGTACTTATTA
1 TATTTATTATGTACTTATTA
* *
2157048 TATTTGTTATTTACTTATTA
1 TATTTATTATGTACTTATTA
2157068 AACAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (20 bp):
TATTTATTATGTACTTATTA
Found at i:2158115 original size:17 final size:17
Alignment explanation
Indices: 2158089--2158122 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2158079 ATTCTCTAAG
*
2158089 TATGTAATATATTTTAT
1 TATGTAATATAATTTAT
*
2158106 TATGTTATATAATTTAT
1 TATGTAATATAATTTAT
2158123 AACACATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TATGTAATATAATTTAT
Found at i:2162250 original size:37 final size:37
Alignment explanation
Indices: 2162200--2162271 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
2162190 TGTTTAAATT
*
2162200 CGATTCAAAATGAATTGATTTGATTGAGTGAAGTGAA
1 CGATTCAAAATGAATTGATTTGATCGAGTGAAGTGAA
2162237 CGATTCAAAATGAATTGATTTGATCGAGTGAAGTG
1 CGATTCAAAATGAATTGATTTGATCGAGTGAAGTG
2162272 GACCAGCCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (37 bp):
CGATTCAAAATGAATTGATTTGATCGAGTGAAGTGAA
Found at i:2162835 original size:55 final size:55
Alignment explanation
Indices: 2162721--2162836 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 55
2162711 GCTACTATTT
* * * *
2162721 TTTTTTTTAAGTTAAGCTCTAAACTTGACAATTGTTCTCATATTAGGGTTTAAAT
1 TTTTTTTTAAGTCAAGCTCTAAACTTGACAATTGTTCTCACATTAGGGTCTAAAC
* * * * *
2162776 TTTTTTTTAAGTCACGCTCTGAAGTTGACAATTGTTCTCACGTT-GGAGTCTGAAC
1 TTTTTTTTAAGTCAAGCTCTAAACTTGACAATTGTTCTCACATTAGG-GTCTAAAC
2162831 TTTTTT
1 TTTTTT
2162837 GGCCAAGTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 2 0.04
55 49 0.96
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.47
Consensus pattern (55 bp):
TTTTTTTTAAGTCAAGCTCTAAACTTGACAATTGTTCTCACATTAGGGTCTAAAC
Found at i:2173985 original size:32 final size:32
Alignment explanation
Indices: 2173913--2174004 Score: 89
Period size: 31 Copynumber: 2.9 Consensus size: 32
2173903 AGCTGTAATG
* * * * **
2173913 ATTTGAGTTCGAGAAAATCTAA-ACCATAATG
1 ATTTGAGCTCGAGAAAATCTAAGTCTAAAAAA
2173944 ATTTGAGCTCGAGAAAATCTAAGTCTAAAAAA
1 ATTTGAGCTCGAGAAAATCTAAGTCTAAAAAA
*
2173976 ATTTGAGCTCGTAAAAAATC-AGAGTCTAA
1 ATTTGAGCTCG-AGAAAATCTA-AGTCTAA
2174005 TTAAAAAGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
31 21 0.41
32 16 0.31
33 14 0.27
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.27
Consensus pattern (32 bp):
ATTTGAGCTCGAGAAAATCTAAGTCTAAAAAA
Found at i:2178682 original size:31 final size:31
Alignment explanation
Indices: 2178647--2178718 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 31
2178637 AAAATTAACT
*
2178647 GTTCAGTGACTTAAACAAAAACTTTT-GACTA
1 GTTCAGTGACTTAAACAAAAA-TTTTCGAATA
* **
2178678 GTTCAATG-CTTAAATGAAAATTTTCGAATA
1 GTTCAGTGACTTAAACAAAAATTTTCGAATA
*
2178708 GTTTAGTGACT
1 GTTCAGTGACT
2178719 ATTTTGTAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
29 4 0.12
30 20 0.61
31 9 0.27
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (31 bp):
GTTCAGTGACTTAAACAAAAATTTTCGAATA
Found at i:2179134 original size:10 final size:10
Alignment explanation
Indices: 2179119--2179150 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
2179109 GGTTCTATTT
2179119 CTCTCTCTCG
1 CTCTCTCTCG
2179129 CTCTCTCTCG
1 CTCTCTCTCG
*
2179139 CTCGCTCTCG
1 CTCTCTCTCG
2179149 CT
1 CT
2179151 GTTCAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.50, G:0.12, T:0.38
Consensus pattern (10 bp):
CTCTCTCTCG
Found at i:2179135 original size:14 final size:14
Alignment explanation
Indices: 2179118--2179147 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2179108 TGGTTCTATT
*
2179118 TCTCTCTCTCGCTC
1 TCTCTCGCTCGCTC
2179132 TCTCTCGCTCGCTC
1 TCTCTCGCTCGCTC
2179146 TC
1 TC
2179148 GCTGTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.50, G:0.10, T:0.40
Consensus pattern (14 bp):
TCTCTCGCTCGCTC
Found at i:2181201 original size:24 final size:24
Alignment explanation
Indices: 2181164--2181211 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2181154 CCTGATGAAA
* *
2181164 ACAATGCAATTGTTGAAACTAAAG
1 ACAATGCAAATGTTGAAAATAAAG
*
2181188 ACAATGGAAATGTTGAAAATAAAG
1 ACAATGCAAATGTTGAAAATAAAG
2181212 TCTCACTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (24 bp):
ACAATGCAAATGTTGAAAATAAAG
Found at i:2187347 original size:17 final size:17
Alignment explanation
Indices: 2187325--2187359 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2187315 ATAATTATAT
*
2187325 TAATTATATATGTTAAA
1 TAATTATATATATTAAA
2187342 TAATTATATATATTAAA
1 TAATTATATATATTAAA
2187359 T
1 T
2187360 TACTAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TAATTATATATATTAAA
Found at i:2196876 original size:21 final size:20
Alignment explanation
Indices: 2196808--2196938 Score: 116
Period size: 21 Copynumber: 6.7 Consensus size: 20
2196798 ATCACTTTAA
2196808 TATTAAATTAATA-TAATACT
1 TATTAAATTAATATTAATA-T
* *
2196828 TATTAAGATAAACATT-ATAT
1 TATTAA-ATTAATATTAATAT
2196848 TA--AAATTAATATTAAATAT
1 TATTAAATTAATATT-AATAT
2196867 TATTAAATTAATA-TAATACT
1 TATTAAATTAATATTAATA-T
* *
2196887 TATTAAGATAAACATT-ATAT
1 TATTAA-ATTAATATTAATAT
2196907 TA--AAATTAATATTAAATAT
1 TATTAAATTAATATT-AATAT
2196926 TATTAAATTAATA
1 TATTAAATTAATA
2196939 GAATATTTAT
Statistics
Matches: 90, Mismatches: 8, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
17 14 0.16
18 4 0.04
19 16 0.18
20 20 0.22
21 34 0.38
22 2 0.02
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.43
Consensus pattern (20 bp):
TATTAAATTAATATTAATAT
Found at i:2196978 original size:62 final size:59
Alignment explanation
Indices: 2196808--2196983 Score: 271
Period size: 59 Copynumber: 2.9 Consensus size: 59
2196798 ATCACTTTAA
2196808 TATTAAATTAATATAATACTTATTAAGATAAACATTATATTAAAATTAATATTAAATAT
1 TATTAAATTAATATAATACTTATTAAGATAAACATTATATTAAAATTAATATTAAATAT
2196867 TATTAAATTAATATAATACTTATTAAGATAAACATTATATTAAAATTAATATTAAATAT
1 TATTAAATTAATATAATACTTATTAAGATAAACATTATATTAAAATTAATATTAAATAT
* * * * * *
2196926 TATTAAATTAATAGAATATTTATCCACAAGATAAATATTAAATTAAATTTAATATTAA
1 TATTAAATTAATATAATACTTAT---TAAGATAAACATTATATTAAAATTAATATTAA
2196984 TATAATCACA
Statistics
Matches: 108, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
59 80 0.74
62 28 0.26
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (59 bp):
TATTAAATTAATATAATACTTATTAAGATAAACATTATATTAAAATTAATATTAAATAT
Found at i:2197021 original size:25 final size:26
Alignment explanation
Indices: 2196967--2197023 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
2196957 TAAATATTAA
*
2196967 ATTAAATTTAATATTAATATAATCAC
1 ATTAAATTTAATATTAATAAAATCAC
*
2196993 ATTAATTTTAA-ATTAATAAAAT-AC
1 ATTAAATTTAATATTAATAAAATCAC
2197017 TATTAAA
1 -ATTAAA
2197024 ATAATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.07
25 15 0.56
26 10 0.37
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTAAATTTAATATTAATAAAATCAC
Found at i:2197707 original size:22 final size:22
Alignment explanation
Indices: 2197679--2197740 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
2197669 TCAATTATGT
*
2197679 TTATTTATAAAT-TATTTGTTTA
1 TTATTTATAAATATATTT-TTAA
2197701 TTATTTATAAATATATTTTTAA
1 TTATTTATAAATATATTTTTAA
* *
2197723 TTATTTGTAAAAATATTT
1 TTATTTATAAATATATTT
2197741 AATTATATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 31 0.86
23 5 0.14
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (22 bp):
TTATTTATAAATATATTTTTAA
Found at i:2199075 original size:16 final size:17
Alignment explanation
Indices: 2199051--2199127 Score: 68
Period size: 17 Copynumber: 4.4 Consensus size: 17
2199041 TTAAATTGAT
2199051 TTTAAATTTA-TTTAAA
1 TTTAAATTTATTTTAAA
*
2199067 TTTAGATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
2199084 TTTAAAATTAAATATTTAAA
1 TTT-AAATT-TAT-TTTAAA
*
2199104 TTT-AATTTGAATTTAAA
1 TTTAAATTT-ATTTTAAA
*
2199121 ATTAAAT
1 TTTAAAT
2199128 AAAAATTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
16 9 0.18
17 17 0.35
18 12 0.24
19 2 0.04
20 9 0.18
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:2199107 original size:31 final size:31
Alignment explanation
Indices: 2199041--2199128 Score: 103
Period size: 31 Copynumber: 3.0 Consensus size: 31
2199031 GACTCTTGAG
* *
2199041 TTAAATTGATTTTAAATTT---ATTTAA-AT
1 TTAAATTTATTTTAAATTTAAAATTAAATAT
*
2199068 TTAGATTTATTTTAAATTTAAAATTAAATAT
1 TTAAATTTATTTTAAATTTAAAATTAAATAT
* *
2199099 TTAAATTTAATTTGAATTTAAAATTAAATA
1 TTAAATTTATTTTAAATTTAAAATTAAATA
2199129 AAAATTAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
27 17 0.33
30 5 0.10
31 29 0.57
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.51
Consensus pattern (31 bp):
TTAAATTTATTTTAAATTTAAAATTAAATAT
Found at i:2199110 original size:5 final size:6
Alignment explanation
Indices: 2199051--2199158 Score: 80
Period size: 6 Copynumber: 18.0 Consensus size: 6
2199041 TTAAATTGAT
* * *
2199051 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAAA TTAAATA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAA-A
* * ** *
2199098 TTTAAA TTT-AA TTTGAA TTTAAA ATTAAA TAAAAA TTAAAA TATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
2199146 TTTAACA TTTAAA
1 TTTAA-A TTTAAA
2199159 AGTCCAAATG
Statistics
Matches: 81, Mismatches: 13, Indels: 16
0.74 0.12 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 48 0.59
7 21 0.26
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:2199116 original size:11 final size:11
Alignment explanation
Indices: 2199041--2199119 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
2199031 GACTCTTGAG
* *
2199041 TTAAATTGATT
1 TTAAATTTAAT
2199052 TTAAATTT-AT
1 TTAAATTTAAT
2199062 TTAAATTTAGAT
1 TTAAATTTA-AT
*
2199074 TT-ATTTTAAAT
1 TTAAATTT-AAT
*
2199085 TTAAAATTAAATAT
1 TT-AAATT-TA-AT
2199099 TTAAATTTAAT
1 TTAAATTTAAT
*
2199110 TTGAATTTAA
1 TTAAATTTAA
2199120 AATTAAATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
10 9 0.17
11 26 0.48
12 6 0.11
13 9 0.17
14 4 0.07
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:2199148 original size:31 final size:30
Alignment explanation
Indices: 2199078--2199150 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
2199068 TTAGATTTAT
* *
2199078 TTTAAATTTAAAATTAAATATTTAAATTTAA
1 TTTAAATTTAAAATTAAATA-TAAAATTAAA
*
2199109 TTTGAATTTAAAATTAAATA-AAAATTAAAA
1 TTTAAATTTAAAATTAAATATAAAATT-AAA
2199139 TATTAAATTTAA
1 T-TTAAATTTAA
2199151 CATTTAAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.14
30 3 0.08
31 28 0.78
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (30 bp):
TTTAAATTTAAAATTAAATATAAAATTAAA
Found at i:2199206 original size:14 final size:14
Alignment explanation
Indices: 2199187--2199225 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
2199177 CATGGCCCAC
2199187 GGCCCAATTACAAA
1 GGCCCAATTACAAA
*
2199201 GGCCCAATT--AAG
1 GGCCCAATTACAAA
2199213 GGCCCAATTACAA
1 GGCCCAATTACAA
2199226 TAGCCCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.38, C:0.28, G:0.18, T:0.15
Consensus pattern (14 bp):
GGCCCAATTACAAA
Found at i:2200079 original size:22 final size:24
Alignment explanation
Indices: 2200036--2200079 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2200026 AAATTTTTTT
2200036 AAATAAAAATGAAACAAAAGGGAG
1 AAATAAAAATGAAACAAAAGGGAG
*
2200060 AAATAAAGAT-AAA-AAAAGGG
1 AAATAAAAATGAAACAAAAGGG
2200080 GAACGAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 3 0.16
24 9 0.47
ACGTcount: A:0.68, C:0.02, G:0.20, T:0.09
Consensus pattern (24 bp):
AAATAAAAATGAAACAAAAGGGAG
Found at i:2201214 original size:30 final size:30
Alignment explanation
Indices: 2200839--2201208 Score: 580
Period size: 30 Copynumber: 12.3 Consensus size: 30
2200829 CCCTAAATTG
* *
2200839 TCCAGAAATTATCTTTTGACCCCGAAACTTT
1 TCCA-AAATTATATTTTGACCCCAAAACTTT
2200870 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
2200900 TCTAAAATTATATTTTGACCCCAAAAATTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
2200930 TCCAAAATTATATTTTAACCCCGAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
2200960 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
2200990 CCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
2201020 TCCAAAATTACATTTTGATCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
2201050 CCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
2201080 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
2201110 TCCAAAGTTATATTTTGACCCTAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
2201140 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
2201170 TCCAAAATTACATTTCGACCCCAAAA-TTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
2201199 TCAAAAATTA
1 TCCAAAATTA
2201209 CCATTTTACC
Statistics
Matches: 312, Mismatches: 27, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
29 12 0.04
30 296 0.95
31 4 0.01
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.36
Consensus pattern (30 bp):
TCCAAAATTATATTTTGACCCCAAAACTTT
Found at i:2201276 original size:30 final size:27
Alignment explanation
Indices: 2201232--2201511 Score: 100
Period size: 30 Copynumber: 9.5 Consensus size: 27
2201222 CGAATCTTTT
*
2201232 AAAATTCCGTTTTTAACCCCGATTTCAC
1 AAAATTCC-ATTTTAACCCCGATTTCAC
* * *
2201260 AGAAAATTACCATTTTACCCCCAAAACTT-AC
1 --AAAATT-CCATTTTAACCCC--GATTTCAC
** *
2201291 AAAATTCTGTTTTTAACCCTGATTTCATC
1 AAAATTC-CATTTTAACCCCGATTTCA-C
* *
2201320 GAAAATTACCATTTTACCCCCGAAACTTC-C
1 -AAAATT-CCATTTTAACCCCG--ATTTCAC
* **
2201350 AAAATTCCGTTCTTAACCTTGATTTCACC
1 AAAATTCCATT-TTAACCCCGATTTCA-C
* *
2201379 AAAAATTACCATTTTACCCCCGAAACTTC-C
1 -AAAATT-CCATTTTAACCCCG--ATTTCAC
* *
2201409 AAAATTTCATTTTTAACCTCGATTTCAC
1 AAAATTCCA-TTTTAACCCCGATTTCAC
* **
2201437 TAAAAATTGCCATTTTACCCCCGAATCTT-TT
1 --AAAATT-CCATTTTAACCCCG-AT-TTCAC
*
2201468 AAAATTCCATTTTTAAACCCCGATTACACC
1 AAAATTCCA-TTTT-AACCCCGATTTCA-C
2201498 AAAATTACCATTTT
1 AAAATT-CCATTTT
2201512 GCCCCCGAGT
Statistics
Matches: 183, Mismatches: 38, Indels: 58
0.66 0.14 0.21
Matches are distributed among these distances:
27 11 0.06
28 13 0.07
29 55 0.30
30 75 0.41
31 16 0.09
32 13 0.07
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (27 bp):
AAAATTCCATTTTAACCCCGATTTCAC
Found at i:2201315 original size:59 final size:58
Alignment explanation
Indices: 2201200--2201519 Score: 381
Period size: 59 Copynumber: 5.4 Consensus size: 58
2201190 CCAAAATTTT
* ** *
2201200 CAAAAATTACCATTTTACCCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCA
1 CAAAAATTACCATTTTA-CCCCCGAAACTTCCAAAATTCCGTTTTTAACCCTGATTTCA
* * *
2201259 CAGAAAATTACCATTTTACCCCCAAAACTTACAAAATTCTGTTTTTAACCCTGATTTCA
1 CA-AAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCGTTTTTAACCCTGATTTCA
* * *
2201318 TCGAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCGTTCTTAACCTTGATTTCA
1 -CAAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCGTTTTTAACCCTGATTTCA
* *
2201377 CCAAAAATTACCATTTTACCCCCGAAACTTCCAAAATTTCATTTTTAA-CCTCGATTTCA
1 -CAAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCGTTTTTAACCCT-GATTTCA
* * ** * * *
2201436 CTAAAAATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAAACCCCGATTACA
1 C-AAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCGTTTTT-AACCCTGATTTCA
* *
2201496 CCAAAATTACCATTTTGCCCCCGA
1 CAAAAATTACCATTTTACCCCCGA
2201520 GTATCCATAA
Statistics
Matches: 227, Mismatches: 28, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
58 3 0.01
59 197 0.87
60 25 0.11
61 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCGTTTTTAACCCTGATTTCA
Found at i:2201434 original size:177 final size:178
Alignment explanation
Indices: 2201200--2201519 Score: 448
Period size: 177 Copynumber: 1.8 Consensus size: 178
2201190 CCAAAATTTT
* ** *
2201200 CAAAAATTACCATTTTACCCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCAC-AGAA
1 CAAAAATTACCATTTTACCCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCACTA-AA
** * * *
2201264 AATTACCATTTTACCCCCAAAACTTACAAAATTCTGTTTTT-AACCCTGATTTCATCGAAAATTA
65 AATTACCATTTTACCCCCAAAACTTACAAAATTCCATTTTTAAACCCCGATTACA-CCAAAATTA
2201328 CCATTTTACCCCCGAAACTTCCAAAATTCCGTTCTTAACCTTGATTTCAC
129 CCATTTTACCCCCGAAACTTCCAAAATTCCGTTCTTAACCTTGATTTCAC
* *
2201378 CAAAAATTACCATTTTA-CCCCCGAAACTTCCAAAATTTCATTTTTAACCTCGATTTCACTAAAA
1 CAAAAATTACCATTTTACCCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCACTAAAA
* * * **
2201442 ATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAAACCCCGATTACACCAAAATTACC
66 ATTACCATTTTACCCCCAAAACTTACAAAATTCCATTTTTAAACCCCGATTACACCAAAATTACC
*
2201507 ATTTTGCCCCCGA
131 ATTTTACCCCCGA
2201520 GTATCCATAA
Statistics
Matches: 123, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
177 94 0.76
178 29 0.24
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (178 bp):
CAAAAATTACCATTTTACCCCCCGAAACTTCCAAAATTCCATTTTTAACCCCGATTTCACTAAAA
ATTACCATTTTACCCCCAAAACTTACAAAATTCCATTTTTAAACCCCGATTACACCAAAATTACC
ATTTTACCCCCGAAACTTCCAAAATTCCGTTCTTAACCTTGATTTCAC
Found at i:2201518 original size:118 final size:117
Alignment explanation
Indices: 2201199--2201519 Score: 423
Period size: 118 Copynumber: 2.7 Consensus size: 117
2201189 CCCAAAATTT
*
2201199 TCAAAAATTACCATTTTACCCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCACAGAA
1 TCAAAAATTACCATTTTA-CCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCAC-CAA
* *
2201264 AATTACCATTTTACCCCCAAAACTTACAAAATTCTGTTTTTAACCCTGATTTCA
64 AATTACCATTTTACCCCCGAAACTTACAAAATTCTATTTTTAACCCTGATTTCA
* * ** * **
2201318 TCGAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCGTTCTTAACCTTGATTTCACCAAAA
1 TCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCACC-AAA
*
2201383 ATTACCATTTTACCCCCGAAACTTCCAAAATT-TCATTTTTAA-CCTCGATTTCA
65 ATTACCATTTTACCCCCGAAACTTACAAAATTCT-ATTTTTAACCCT-GATTTCA
* * *
2201436 -CTAAAAATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAAACCCCGATTACACCAA
1 TC-AAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTT-AACCCCGATTTCACCAA
*
2201500 AATTACCATTTTGCCCCCGA
64 AATTACCATTTTACCCCCGA
2201520 GTATCCATAA
Statistics
Matches: 175, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
117 5 0.03
118 141 0.81
119 29 0.17
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.34
Consensus pattern (117 bp):
TCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCACCAAAA
TTACCATTTTACCCCCGAAACTTACAAAATTCTATTTTTAACCCTGATTTCA
Found at i:2201540 original size:118 final size:115
Alignment explanation
Indices: 2201199--2201556 Score: 405
Period size: 118 Copynumber: 3.0 Consensus size: 115
2201189 CCCAAAATTT
*
2201199 TCAAAAATTACCATTTTACCCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCACAGAA
1 TCAAAAATTACCATTTTA-CCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCAC-CAA
* * *
2201264 AATTACCATTTTACCCCCAAAACTTACAAAATTCTGTTTTTAACCCTGATTTCA
64 AATTACCATTTTACCCCCGAAAC-TCCAAAATTCCGTTTTTAACCC-GATTTCA
* * ** * **
2201318 TCGAAAATTACCATTTTACCCCCGAAACTTCCAAAATTCCGTTCTTAACCTTGATTTCACCAAAA
1 TCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCACC-AAA
* *
2201383 ATTACCATTTTACCCCCGAAACTTCCAAAATTTCATTTTTAACCTCGATTTCA
65 ATTACCATTTTACCCCCGAAAC-TCCAAAATTCCGTTTTTAACC-CGATTTCA
* * *
2201436 -CTAAAAATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAAACCCCGATTACACCAA
1 TC-AAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTT-AACCCCGATTTCACCAA
* * * * *
2201500 AATTACCATTTTGCCCCCGAGTA-TCCATAAGTCCCGTTTTTTACCCCGATTTCA
64 AATTACCATTTTACCCCCGA-AACTCCA-AAATTCCG-TTTTTAACCCGATTTCA
2201554 TCA
1 TCA
2201557 TTTATCAATA
Statistics
Matches: 201, Mismatches: 30, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
117 5 0.02
118 156 0.78
119 40 0.20
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (115 bp):
TCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCACCAAAA
TTACCATTTTACCCCCGAAACTCCAAAATTCCGTTTTTAACCCGATTTCA
Found at i:2202850 original size:2 final size:2
Alignment explanation
Indices: 2202838--2202888 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
2202828 TCATGCTATG
*
2202838 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2202880 TA TA TA TA T
1 TA TA TA TA T
2202889 GAAAAATAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2203275 original size:31 final size:31
Alignment explanation
Indices: 2203235--2203295 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
2203225 AATTTAACAT
* *
2203235 CTCAATGGTTTGAATTAAAACTTTTAAATAG
1 CTCAATGGTTTAAATGAAAACTTTTAAATAG
* * *
2203266 CTCAGTGGTTTAAATGAAAATTTTTGAATA
1 CTCAATGGTTTAAATGAAAACTTTTAAATA
2203296 TTTCAATTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (31 bp):
CTCAATGGTTTAAATGAAAACTTTTAAATAG
Found at i:2208029 original size:30 final size:30
Alignment explanation
Indices: 2207993--2208052 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
2207983 AATACGAAGC
*
2207993 AATATAATAAGCAGAT-AAATAATATGCGAA
1 AATATAAGAAGCAGATCAAATAA-ATGCGAA
*
2208023 AATATAAGATGCAGATGCAAATAAATGCGA
1 AATATAAGAAGCAGAT-CAAATAAATGCGA
2208053 CTATTGGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 14 0.54
31 6 0.23
32 6 0.23
ACGTcount: A:0.53, C:0.08, G:0.17, T:0.22
Consensus pattern (30 bp):
AATATAAGAAGCAGATCAAATAAATGCGAA
Found at i:2208132 original size:28 final size:28
Alignment explanation
Indices: 2208101--2208160 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
2208091 AAAACGGGAC
*
2208101 TTTTGGA-TACCTGGGGGCAAAATGGTAA
1 TTTTGGACTACC-AGGGGCAAAATGGTAA
**
2208129 TTTTGGACTTTCAGGGGCAAAATGGTAA
1 TTTTGGACTACCAGGGGCAAAATGGTAA
2208157 TTTT
1 TTTT
2208161 CATGAAATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.27, C:0.10, G:0.28, T:0.35
Consensus pattern (28 bp):
TTTTGGACTACCAGGGGCAAAATGGTAA
Found at i:2208273 original size:30 final size:30
Alignment explanation
Indices: 2208232--2208311 Score: 115
Period size: 30 Copynumber: 2.6 Consensus size: 30
2208222 GCAAAATCGA
* *
2208232 GGTCAAAAATGTAATATTGGAAAGGTTTTGG
1 GGTC-AAAATGTAATATTAGAAAAGTTTTGG
2208263 GGTCAAAATGTAATATTAGAAAAGTTTTGG
1 GGTCAAAATGTAATATTAGAAAAGTTTTGG
* *
2208293 GGTTAAAATGTAATTTTAG
1 GGTCAAAATGTAATATTAG
2208312 GCAGTTTAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 41 0.91
31 4 0.09
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.35
Consensus pattern (30 bp):
GGTCAAAATGTAATATTAGAAAAGTTTTGG
Found at i:2210292 original size:6 final size:6
Alignment explanation
Indices: 2210281--2210344 Score: 62
Period size: 6 Copynumber: 11.2 Consensus size: 6
2210271 CCATAATTTG
* *
2210281 ATTTAA ATTTAA ATTTAA A-ATAA ATTTAA ATTTAA A--TAA ATTCAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* * *
2210326 AATTAA ATTCAA AATTAA A
1 ATTTAA ATTTAA ATTTAA A
2210345 ACATAAAAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 38 0.83
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (6 bp):
ATTTAA
Found at i:2210304 original size:17 final size:17
Alignment explanation
Indices: 2210284--2210332 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
2210274 TAATTTGATT
2210284 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
2210301 TAAATTTAAATTT-AAA
1 TAAATTTAAATTTAAAA
* *
2210317 TAAATTCAAAATTAAA
1 TAAATTTAAATTTAAA
2210333 TTCAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 14 0.48
17 15 0.52
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:2210319 original size:16 final size:16
Alignment explanation
Indices: 2210284--2210333 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
2210274 TAATTTGATT
2210284 TAAATTTAAATTTAAAA
1 TAAATTTAAATTT-AAA
2210301 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
* *
2210317 TAAATTCAAAATTAAA
1 TAAATTTAAATTTAAA
2210333 T
1 T
2210334 TCAAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 18 0.58
17 13 0.42
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:2210328 original size:23 final size:22
Alignment explanation
Indices: 2210281--2210345 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
2210271 CCATAATTTG
2210281 ATTTAAATTTAAATTTAAAATAA
1 ATTTAAATTTAAA-TTAAAATAA
*
2210304 ATTTAAATTTAAA-TAAATTCAA
1 ATTTAAATTTAAATTAAAAT-AA
* *
2210326 AATTAAATTCAAAATTAAAA
1 ATTTAAATT-TAAATTAAAA
2210346 CATAAAAGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 5 0.14
22 10 0.29
23 16 0.46
24 4 0.11
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (22 bp):
ATTTAAATTTAAATTAAAATAA
Found at i:2211561 original size:3 final size:3
Alignment explanation
Indices: 2211553--2211605 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
2211543 TTATCACCAA
2211553 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2211601 AAT AA
1 AAT AA
2211606 AGTCAACTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2221184 original size:11 final size:11
Alignment explanation
Indices: 2221168--2221196 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
2221158 TTGAGCACAT
2221168 GTGTGTGCAAA
1 GTGTGTGCAAA
2221179 GTGTGTGCAAA
1 GTGTGTGCAAA
2221190 GTGTGTG
1 GTGTGTG
2221197 TGCCTTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.07, G:0.41, T:0.31
Consensus pattern (11 bp):
GTGTGTGCAAA
Found at i:2221185 original size:13 final size:12
Alignment explanation
Indices: 2221166--2221199 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
2221156 GTTTGAGCAC
2221166 ATGTGTGTGCAA
1 ATGTGTGTGCAA
2221178 A-GTGTGTGCAA
1 ATGTGTGTGCAA
2221189 AGTGTGTGTGC
1 A-TGTGTGTGC
2221200 CTTGTCAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 1 0.05
13 8 0.40
ACGTcount: A:0.21, C:0.09, G:0.38, T:0.32
Consensus pattern (12 bp):
ATGTGTGTGCAA
Found at i:2222474 original size:3 final size:3
Alignment explanation
Indices: 2222466--2222513 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
2222456 TATGTTTTAT
2222466 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2222514 TAAAAAGTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2224997 original size:21 final size:21
Alignment explanation
Indices: 2224971--2225022 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
2224961 GTTTTTAGAA
2224971 GTATCGGTAGTCTGGGTGCTT
1 GTATCGGTAGTCTGGGTGCTT
2224992 GTATCGGTAGTCTGGGTGCTT
1 GTATCGGTAGTCTGGGTGCTT
2225013 GTATCGGTAG
1 GTATCGGTAG
2225023 AAGTTGTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.12, C:0.13, G:0.38, T:0.37
Consensus pattern (21 bp):
GTATCGGTAGTCTGGGTGCTT
Found at i:2225090 original size:21 final size:21
Alignment explanation
Indices: 2225066--2225138 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
2225056 GTTTTTAGTA
*
2225066 TCGGTAGAAGCATGACTTGTT
1 TCGGTAGAAGCATCACTTGTT
*
2225087 TCGGTAGAAGTATCACTTGTT
1 TCGGTAGAAGCATCACTTGTT
* * * *
2225108 TCGGTAGAACCATCCCTAGTA
1 TCGGTAGAAGCATCACTTGTT
2225129 TCGGTAGAAG
1 TCGGTAGAAG
2225139 TTTGCTGCTG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (21 bp):
TCGGTAGAAGCATCACTTGTT
Found at i:2225847 original size:5 final size:5
Alignment explanation
Indices: 2225804--2225832 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2225794 CTCGACCATT
2225804 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
2225833 TAATAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:2230246 original size:3 final size:3
Alignment explanation
Indices: 2230240--2230275 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2230230 ATATTATTTT
2230240 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2230276 CTGATTCGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2232119 original size:30 final size:27
Alignment explanation
Indices: 2232084--2232140 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
2232074 ACTTTCAATC
2232084 AAATTAATTTTGATTGTGAATTAATTAATT
1 AAATTAA-TTTGATT-TG-ATTAATTAATT
*
2232114 AAATTAATTTGATTTGATTGATTAATT
1 AAATTAATTTGATTTGATTAATTAATT
2232141 TGATTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.38
28 2 0.08
29 7 0.27
30 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.51
Consensus pattern (27 bp):
AAATTAATTTGATTTGATTAATTAATT
Found at i:2233761 original size:21 final size:21
Alignment explanation
Indices: 2233737--2233805 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 21
2233727 TGGATAATTA
2233737 TCTTTTATTACAAGTAAAACC
1 TCTTTTATTACAAGTAAAACC
* **
2233758 TCTTTTTATTTACAAATAGATAATTA
1 TC-TTTTA-TTACAAGTA-A-AA-CC
*
2233784 TGTTTTATTACAAGTAAAACC
1 TCTTTTATTACAAGTAAAACC
2233805 T
1 T
2233806 AATTAACATG
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
21 3 0.08
22 7 0.19
23 9 0.25
24 9 0.25
25 7 0.19
26 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (21 bp):
TCTTTTATTACAAGTAAAACC
Found at i:2236493 original size:3 final size:3
Alignment explanation
Indices: 2236485--2236552 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
2236475 TGAGCTTGTA
2236485 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
2236533 TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TC
2236553 AAGGATGATC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:2240957 original size:31 final size:28
Alignment explanation
Indices: 2240920--2240988 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 28
2240910 TATATTTTAA
*
2240920 TACTTGAATTTTATTTTAATGTTCAATTTGG
1 TACTTGAATTTT-TTTT-AT-CTCAATTTGG
2240951 TACTTGAA-TTTTTTTATCTCAATTTGG
1 TACTTGAATTTTTTTTATCTCAATTTGG
*
2240978 TACTTAAATTT
1 TACTTGAATTT
2240989 GATTCAACGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 16 0.46
28 4 0.11
29 4 0.11
30 3 0.09
31 8 0.23
ACGTcount: A:0.26, C:0.09, G:0.10, T:0.55
Consensus pattern (28 bp):
TACTTGAATTTTTTTTATCTCAATTTGG
Found at i:2242111 original size:5 final size:5
Alignment explanation
Indices: 2242069--2242095 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2242059 AATGCGGTCC
2242069 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
2242096 AGGGATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:2242129 original size:26 final size:28
Alignment explanation
Indices: 2242075--2242129 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
2242065 GTCCATTTTA
**
2242075 TTTTATTTTATTTTATTTTATAGGGATT
1 TTTTATTTTATTTTATTTTATAGAAATT
2242103 TTTTA-TTT-TTTTATTTTATAGAAATT
1 TTTTATTTTATTTTATTTTATAGAAATT
2242129 T
1 T
2242130 GAGTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.68
27 3 0.12
28 5 0.20
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (28 bp):
TTTTATTTTATTTTATTTTATAGAAATT
Found at i:2243472 original size:72 final size:72
Alignment explanation
Indices: 2243354--2243500 Score: 204
Period size: 72 Copynumber: 2.0 Consensus size: 72
2243344 GTAGGGTTTC
* * * *
2243354 GGTTTGTAAATAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGATGAGGCTTGTA
1 GGTTTGTAAACAGGAACCGGCGGAGGAAGCGGCTTATTATAAACCGGCACCGGATGAGGCTTATA
2243419 AACCGGT
66 AACCGGT
* * * * * *
2243426 GGTTTGTAGACAGGAACCGGCGGAGGGAGTGGTTTATTGTAGACCGGCACCGGATGAGGCTTATA
1 GGTTTGTAAACAGGAACCGGCGGAGGAAGCGGCTTATTATAAACCGGCACCGGATGAGGCTTATA
2243491 AACCGGT
66 AACCGGT
2243498 GGT
1 GGT
2243501 GGAAGAGGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (72 bp):
GGTTTGTAAACAGGAACCGGCGGAGGAAGCGGCTTATTATAAACCGGCACCGGATGAGGCTTATA
AACCGGT
Found at i:2245419 original size:17 final size:16
Alignment explanation
Indices: 2245388--2245427 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
2245378 GCTCTAACTC
*
2245388 AAAATTATTCGAACCA
1 AAAATTATTCAAACCA
*
2245404 AAAATTGATTCAAACCC
1 AAAATT-ATTCAAACCA
2245421 AAAATTA
1 AAAATTA
2245428 AAATGATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.53, C:0.17, G:0.05, T:0.25
Consensus pattern (16 bp):
AAAATTATTCAAACCA
Found at i:2255369 original size:13 final size:13
Alignment explanation
Indices: 2255353--2255408 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
2255343 TCTTTTTCTT
2255353 TTTTATTATTTAA
1 TTTTATTATTTAA
2255366 TTTTATTA-TTATA
1 TTTTATTATTTA-A
* **
2255379 TTTTATAATAAAA
1 TTTTATTATTTAA
* *
2255392 TATTAGTATTTAA
1 TTTTATTATTTAA
2255405 TTTT
1 TTTT
2255409 TAAACTTTAA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
12 3 0.09
13 28 0.88
14 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TTTTATTATTTAA
Found at i:2255561 original size:12 final size:13
Alignment explanation
Indices: 2255524--2255573 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
2255514 AAAAAAATTT
*
2255524 AAATTTATTTTAA
1 AAATTTATTTAAA
* **
2255537 AAATATAAATAAA
1 AAATTTATTTAAA
2255550 AAA-TTATTTAAA
1 AAATTTATTTAAA
2255562 AAATTTATTTAA
1 AAATTTATTTAA
2255574 TTAAAGGGGT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAATTTATTTAAA
Found at i:2255741 original size:93 final size:91
Alignment explanation
Indices: 2255464--2255747 Score: 367
Period size: 93 Copynumber: 3.1 Consensus size: 91
2255454 AGTATTTTGT
* * ** * *
2255464 TTAAAAAAATTATTTAATTAAAGTGTTAACGCCATTTAATCTGGCACCATAAAAAAATTTAAATT
1 TTAAAAAATTTATTTAATTAAAGTGGTGGCGCCATTTAATATGGCACCACAAAAAAATTTAAA-T
*
2255529 TATTTTAAAAATATAAATAAAAAATTAT
65 TATTTTAAAAATATAAATAAAAAA-TAA
* *
2255557 TTAAAAAATTTATTTAATTAAAGGGGTGGCACCATTTAATATGGCACCACAAAAAAAATTTAAAT
1 TTAAAAAATTTATTTAATTAAAGTGGTGGCGCCATTTAATATGGCACCAC-AAAAAAATTTAAAT
2255622 TATTTTAAAAATATAAATAAAAAATAA
65 TATTTTAAAAATATAAATAAAAAATAA
* *
2255649 TTAAAAAATTTTATTTAATTAAAGTGGTGGCGCCATCTAATATGGCACCACCAAAAAATTTAAA-
1 TTAAAAAA-TTTATTTAATTAAAGTGGTGGCGCCATTTAATATGGCACCACAAAAAAATTTAAAT
* * **
2255713 T-TTTCAAAAAAATAAATATTAAATAA
65 TATTTTAAAAATATAAATAAAAAATAA
2255739 -TAATAAAAT
1 TTAA-AAAAT
2255748 AGGCTGACGA
Statistics
Matches: 171, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
89 4 0.02
90 25 0.15
91 1 0.01
92 22 0.13
93 106 0.62
94 13 0.08
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.33
Consensus pattern (91 bp):
TTAAAAAATTTATTTAATTAAAGTGGTGGCGCCATTTAATATGGCACCACAAAAAAATTTAAATT
ATTTTAAAAATATAAATAAAAAATAA
Found at i:2257399 original size:29 final size:29
Alignment explanation
Indices: 2257365--2257422 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
2257355 AGTAACCCGT
*
2257365 TTTTTTAATTAATTACGTAAA-TAACCTAA
1 TTTTTTAATTAAATACG-AAACTAACCTAA
*
2257394 TTTTTTGATTAAATACGAAACTAACCTAA
1 TTTTTTAATTAAATACGAAACTAACCTAA
2257423 AATCTACAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 23 0.88
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (29 bp):
TTTTTTAATTAAATACGAAACTAACCTAA
Found at i:2257921 original size:94 final size:92
Alignment explanation
Indices: 2257744--2257924 Score: 256
Period size: 94 Copynumber: 1.9 Consensus size: 92
2257734 TTAATTATTA
* * * ***
2257744 TTTATTTATATTTTTAAAATAATTTTAAATTTTTTTGTGATATCATATTAAATGGTGTCATCCCT
1 TTTATTTATATTTTAAAAATAAATTTAAATTTTTTTGTGATACCATATTAAATGGCACCATCCCT
2257809 TTAATTAAATAAATTTTTTAAATAATT
66 TTAATTAAATAAATTTTTTAAATAATT
*
2257836 TTTATTTATATTTTAAAAATAAATTTAAATTTTTTTTGGTGATGCCATATTAAATGGCACCA-CC
1 TTTATTTATATTTTAAAAATAAATTTAAA-TTTTTTT-GTGATACCATATTAAATGGCACCATCC
*
2257900 ACTTTAATTAAATAATTTTTTTAAA
64 -CTTTAATTAAATAAATTTTTTAAA
2257925 CAAAAAACTA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
92 27 0.35
93 9 0.12
94 42 0.54
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.50
Consensus pattern (92 bp):
TTTATTTATATTTTAAAAATAAATTTAAATTTTTTTGTGATACCATATTAAATGGCACCATCCCT
TTAATTAAATAAATTTTTTAAATAATT
Found at i:2270971 original size:19 final size:19
Alignment explanation
Indices: 2270947--2270983 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2270937 GACTTCTATA
*
2270947 ACACTTTTATCAAAGAATG
1 ACACTTTTACCAAAGAATG
2270966 ACACTTTTACCAAAGAAT
1 ACACTTTTACCAAAGAAT
2270984 TTTCACTCCA
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:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (19 bp):
ACACTTTTACCAAAGAATG
Found at i:2277091 original size:30 final size:32
Alignment explanation
Indices: 2277032--2277091 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
2277022 TGTAAAAATC
*
2277032 TTGATTTATATTTACATTGAGAGTTAAATTTA
1 TTGATTTATATTTACATTGAGAATTAAATTTA
* *
2277064 TTGATTT-T-TTTATATTTAGAATTAAATT
1 TTGATTTATATTTACATTGAGAATTAAATT
2277092 AATAAATTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.68
31 1 0.04
32 7 0.28
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (32 bp):
TTGATTTATATTTACATTGAGAATTAAATTTA
Found at i:2279353 original size:20 final size:20
Alignment explanation
Indices: 2279328--2279369 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2279318 ATATTTTTTA
*
2279328 TTTTATTAA-AATGTTCAAAT
1 TTTTATTAATAAT-ATCAAAT
2279348 TTTTATTAATAATATCAAAT
1 TTTTATTAATAATATCAAAT
2279368 TT
1 TT
2279370 CAATTATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTTATTAATAATATCAAAT
Found at i:2282592 original size:39 final size:37
Alignment explanation
Indices: 2282518--2282599 Score: 112
Period size: 39 Copynumber: 2.2 Consensus size: 37
2282508 TAAATTGTAA
*
2282518 TATTTTAATTTAAAAATTTATTTAAACTGTTTTTAAT
1 TATTTTAATTTAAAAATTTATTTAAACTATTTTTAAT
*
2282555 TATTTTAATTTAATTATAATTT-TTTAAATTATTTTTAAT
1 TATTTTAATTTAA--A-AATTTATTTAAACTATTTTTAAT
2282594 TATTTT
1 TATTTT
2282600 TAAAATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
37 13 0.32
39 22 0.55
40 5 0.12
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (37 bp):
TATTTTAATTTAAAAATTTATTTAAACTATTTTTAAT
Found at i:2282594 original size:10 final size:10
Alignment explanation
Indices: 2282547--2282602 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
2282537 ATTTAAACTG
2282547 TTTTTAATTA
1 TTTTTAATTA
2282557 -TTTTAATTTA
1 TTTTTAA-TTA
* *
2282567 ATTATAATT-
1 TTTTTAATTA
*
2282576 TTTTAAATTA
1 TTTTTAATTA
2282586 TTTTTAATTA
1 TTTTTAATTA
2282596 TTTTTAA
1 TTTTTAA
2282603 AATTTTTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 12 0.32
10 21 0.55
11 5 0.13
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTTAATTA
Found at i:2282685 original size:56 final size:55
Alignment explanation
Indices: 2282620--2282828 Score: 175
Period size: 56 Copynumber: 3.7 Consensus size: 55
2282610 GAAAATATGA
* * *
2282620 TGTAGGTTATTGAAAGTCAAATACCAAAAAAATATTTTTCAATATAAAAAAACTAG
1 TGTAGGTTATTG-GAGTCAAACACCAAAAAAATATTTTTAAATATAAAAAAACTAG
* * * * ** *
2282676 TGTAGGTTATTGTGTGACAAACATCAAAAAAATATTTTTAAATTTAAAAAAGGTGG
1 TGTAGGTTATTG-GAGTCAAACACCAAAAAAATATTTTTAAATATAAAAAAACTAG
* * * * ** *
2282732 TGTAGGATATTGGATTGCAAACACTCAAAAAAATATTTTTAAATATGAGAAAGGTGG
1 TGTAGGTTATTGGAGT-CAAACAC-CAAAAAAATATTTTTAAATATAAAAAAACTAG
* * * *
2282789 TGTATGTCATTGGATGACAAACAATCAAAAAAATATTTTT
1 TGTAGGTTATTGGA-GTCAAAC-ACCAAAAAAATATTTTT
2282829 TGAAACCTGA
Statistics
Matches: 124, Mismatches: 25, Indels: 7
0.79 0.16 0.04
Matches are distributed among these distances:
55 1 0.01
56 62 0.50
57 60 0.48
58 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (55 bp):
TGTAGGTTATTGGAGTCAAACACCAAAAAAATATTTTTAAATATAAAAAAACTAG
Found at i:2282762 original size:57 final size:56
Alignment explanation
Indices: 2282644--2282828 Score: 216
Period size: 57 Copynumber: 3.3 Consensus size: 56
2282634 AGTCAAATAC
* ** *
2282644 CAAAAAAATATTTTTCAATATAAAAAAACTAGTGTAGGTTATT-G-TGTGACAAACAT
1 CAAAAAAATATTTTTAAATATAAAAAAGGTGGTGTAGG-TATTGGAT-TGACAAACAT
*
2282700 CAAAAAAATATTTTTAAATTTAAAAAAGGTGGTGTAGGATATTGGATTG-CAAACACT
1 CAAAAAAATATTTTTAAATATAAAAAAGGTGGTGTAGG-TATTGGATTGACAAACA-T
* * *
2282757 CAAAAAAATATTTTTAAATATGAGAAAGGTGGTGTATGTCATTGGA-TGACAAACAAT
1 CAAAAAAATATTTTTAAATATAAAAAAGGTGGTGTAGGT-ATTGGATTGACAAAC-AT
2282814 CAAAAAAATATTTTT
1 CAAAAAAATATTTTT
2282829 TGAAACCTGA
Statistics
Matches: 113, Mismatches: 10, Indels: 11
0.84 0.07 0.08
Matches are distributed among these distances:
56 46 0.41
57 65 0.58
58 2 0.02
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (56 bp):
CAAAAAAATATTTTTAAATATAAAAAAGGTGGTGTAGGTATTGGATTGACAAACAT
Found at i:2283189 original size:22 final size:22
Alignment explanation
Indices: 2283136--2283190 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
2283126 CATCACATGA
* * *
2283136 ATTTTTAGTATTTTTAGTGTTT
1 ATTTTTAATTTTTTTAGTGTAT
*
2283158 ATTTTAAATTTTTTTA-TGTAT
1 ATTTTTAATTTTTTTAGTGTAT
2283179 ATTTTTTAATTT
1 A-TTTTTAATTT
2283191 AGGTTATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
ATTTTTAATTTTTTTAGTGTAT
Found at i:2291510 original size:62 final size:61
Alignment explanation
Indices: 2291397--2291519 Score: 140
Period size: 62 Copynumber: 2.0 Consensus size: 61
2291387 AACTTTCTCA
* * * *
2291397 ATTCTCATTAAAACCTTTAAAACTTTTGAAAGTTTTAATTAGACCTACCAAAATCTTTAAAT
1 ATTCTCATTAAAACCTTTAAAACTTTTGAAAATTTTAATCAAACCTACC-AAATCTTAAAAT
* * ** *
2291459 ATTCTCATTAAATCTTTTAAATTTTTTGAAAATTTTAGTCAAACTCT-CCAAATCTTAAAAT
1 ATTCTCATTAAAACCTTTAAAACTTTTGAAAATTTTAATCAAAC-CTACCAAATCTTAAAAT
2291520 CAAAATTCAC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
61 11 0.22
62 38 0.75
63 2 0.04
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.41
Consensus pattern (61 bp):
ATTCTCATTAAAACCTTTAAAACTTTTGAAAATTTTAATCAAACCTACCAAATCTTAAAAT
Found at i:2291541 original size:2 final size:2
Alignment explanation
Indices: 2291534--2291561 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2291524 ATTCACCTTT
2291534 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2291562 ACTTTTCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2299601 original size:14 final size:13
Alignment explanation
Indices: 2299561--2299603 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
2299551 CATAATAACG
2299561 TAAATAATTAAAA
1 TAAATAATTAAAA
*
2299574 TATAATATTCTAAACA
1 TA-AATAAT-TAAA-A
2299590 TAAATAATTAAAA
1 TAAATAATTAAAA
2299603 T
1 T
2299604 GTAATCTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 4 0.16
14 9 0.36
15 9 0.36
16 3 0.12
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (13 bp):
TAAATAATTAAAA
Found at i:2299616 original size:29 final size:29
Alignment explanation
Indices: 2299546--2299622 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
2299536 ACTAAAATAT
* *
2299546 TATAACATAAT-AACGTAAATAATTAAAA
1 TATAATATAATAAACATAAATAATTAAAA
**
2299574 TATAATATTCTAAACATAAATAATTAAAA
1 TATAATATAATAAACATAAATAATTAAAA
* * *
2299603 TGTAATCTAATAAAAATAAA
1 TATAATATAATAAACATAAA
2299623 AATAGTTATT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 8 0.21
29 31 0.79
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (29 bp):
TATAATATAATAAACATAAATAATTAAAA
Found at i:2302005 original size:23 final size:23
Alignment explanation
Indices: 2301975--2302018 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2301965 TAGAGAAAAC
2301975 ACCAAATAAACCTGGCCAGGTAT
1 ACCAAATAAACCTGGCCAGGTAT
*
2301998 ACCAAATAAACCTGGCTAGGT
1 ACCAAATAAACCTGGCCAGGT
2302019 GCACCCAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (23 bp):
ACCAAATAAACCTGGCCAGGTAT
Found at i:2303156 original size:14 final size:14
Alignment explanation
Indices: 2303132--2303166 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2303122 TTCACTCAAA
2303132 TTTAATA-TTTAAT
1 TTTAATATTTTAAT
*
2303145 TTTTATATTTTAAT
1 TTTAATATTTTAAT
2303159 TTTAATAT
1 TTTAATAT
2303167 AATTTAAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTAATATTTTAAT
Found at i:2305320 original size:16 final size:17
Alignment explanation
Indices: 2305299--2305331 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2305289 TAATATTATG
2305299 TCAATCAA-ATTAAAAT
1 TCAATCAATATTAAAAT
2305315 TCAATCAATATTAAAAT
1 TCAATCAATATTAAAAT
2305332 ATAGTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (17 bp):
TCAATCAATATTAAAAT
Found at i:2305723 original size:31 final size:30
Alignment explanation
Indices: 2305656--2305713 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2305646 TTAATAATTT
2305656 AAATTTTTATAATTTTTAAAAAATTAAATC
1 AAATTTTTATAATTTTTAAAAAATTAAATC
* * *
2305686 AGATTTTTATCATTTTTTAAAAATTAAA
1 AAATTTTTATAATTTTTAAAAAATTAAA
2305714 ATATAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (30 bp):
AAATTTTTATAATTTTTAAAAAATTAAATC
Found at i:2311760 original size:18 final size:19
Alignment explanation
Indices: 2311723--2311764 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
2311713 CACTTTTTTT
*
2311723 ATTTTAATATTAAATCAAA
1 ATTTAAATATTAAATCAAA
*
2311742 ATTTAAATATTTAAT-AAA
1 ATTTAAATATTAAATCAAA
2311760 ATTTA
1 ATTTA
2311765 TGTAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATATTAAATCAAA
Found at i:2312042 original size:16 final size:16
Alignment explanation
Indices: 2312023--2312060 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2312013 TTTGGTTCAC
2312023 TGTAATGGAATAAAGT
1 TGTAATGGAATAAAGT
* *
2312039 TGTAATTGAATAGAGT
1 TGTAATGGAATAAAGT
2312055 TGTAAT
1 TGTAAT
2312061 CAGTAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (16 bp):
TGTAATGGAATAAAGT
Found at i:2312113 original size:62 final size:62
Alignment explanation
Indices: 2312011--2312160 Score: 264
Period size: 62 Copynumber: 2.4 Consensus size: 62
2312001 ATTAACTGCA
* * * *
2312011 TGTTTGGTTCACTGTAATGGAATAAAGTTGTAATTGAATAGAGTTGTAATCAGTAATTCAAT
1 TGTTTGGTTCACTGTAATGGAATAAGGTTATAATTAAATAGAGTTGTAATCAATAATTCAAT
2312073 TGTTTGGTTCACTGTAATGGAATAAGGTTATAATTAAATAGAGTTGTAATCAATAATTCAAT
1 TGTTTGGTTCACTGTAATGGAATAAGGTTATAATTAAATAGAGTTGTAATCAATAATTCAAT
2312135 TGTTTGGTTCACTGTAATGGAATAAG
1 TGTTTGGTTCACTGTAATGGAATAAG
2312161 ACTGTAATAG
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 84 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.39
Consensus pattern (62 bp):
TGTTTGGTTCACTGTAATGGAATAAGGTTATAATTAAATAGAGTTGTAATCAATAATTCAAT
Found at i:2312390 original size:62 final size:62
Alignment explanation
Indices: 2312284--2312403 Score: 188
Period size: 62 Copynumber: 1.9 Consensus size: 62
2312274 TTGTTATTAA
* *
2312284 ATTTTAATAGAATTATTATTAAATATTATTTAATAAAAATAATAATAAATAAT-TTAATCAT
1 ATTTTAATAGAATTATTATTAAATATGAATTAATAAAAATAATAATAAATAATATTAATCAT
* *
2312345 ATTTTAATATAATTATTATTAAAATATGAATTAATAAAAATAATAATATATAATATTAA
1 ATTTTAATAGAATTATTATT-AAATATGAATTAATAAAAATAATAATAAATAATATTAA
2312404 AAAATAATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 19 0.36
62 30 0.57
63 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (62 bp):
ATTTTAATAGAATTATTATTAAATATGAATTAATAAAAATAATAATAAATAATATTAATCAT
Found at i:2320902 original size:25 final size:25
Alignment explanation
Indices: 2320854--2320903 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2320844 GTGTTAGTTT
* *
2320854 AAAACATTAATATATATTTTTATTA
1 AAAACATTAATATATAATTATATTA
* *
2320879 AAAATATTAATATTTAATTATATTA
1 AAAACATTAATATATAATTATATTA
2320904 TTGCAGTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
AAAACATTAATATATAATTATATTA
Found at i:2320920 original size:17 final size:17
Alignment explanation
Indices: 2320898--2320936 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2320888 ATATTTAATT
*
2320898 ATATTATTGCAGTAAAA
1 ATATTATTGCAATAAAA
* *
2320915 ATATTATTTCAATAATA
1 ATATTATTGCAATAAAA
2320932 ATATT
1 ATATT
2320937 TTTGGAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (17 bp):
ATATTATTGCAATAAAA
Found at i:2321676 original size:8 final size:8
Alignment explanation
Indices: 2321663--2321688 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2321653 AAATATTAGG
2321663 ATTTTTAT
1 ATTTTTAT
2321671 ATTTTTAT
1 ATTTTTAT
2321679 ATTTTTAT
1 ATTTTTAT
2321687 AT
1 AT
2321689 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTTTTAT
Found at i:2325337 original size:42 final size:42
Alignment explanation
Indices: 2325278--2325369 Score: 184
Period size: 42 Copynumber: 2.2 Consensus size: 42
2325268 AATAAAAAAA
2325278 TATATATTCAATAGCACCATAAATTTATATATATTGGATTTT
1 TATATATTCAATAGCACCATAAATTTATATATATTGGATTTT
2325320 TATATATTCAATAGCACCATAAATTTATATATATTGGATTTT
1 TATATATTCAATAGCACCATAAATTTATATATATTGGATTTT
2325362 TATATATT
1 TATATATT
2325370 TCTTGCTATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47
Consensus pattern (42 bp):
TATATATTCAATAGCACCATAAATTTATATATATTGGATTTT
Found at i:2341430 original size:138 final size:132
Alignment explanation
Indices: 2341153--2341490 Score: 335
Period size: 138 Copynumber: 2.5 Consensus size: 132
2341143 TAGAGTCCTG
* * * * *
2341153 CCAGCATTGGTTTT-TTGGTTCACAATACACC-ACCT-AAAATTTTACTTAAAAGAAATTAAAAC
1 CCAGCATT-GTTTTATTCGTTCACAAAAC-CCAAACTCAAAATTTTACTTAAAAGATA-TCAAAC
* * ** ** **
2341215 TCTTTACCACATCATCTAACAGACGCTATTTCAAGTTAAGTCAGTCCCTTAAATAAAATGTAAGG
63 TCTTTACCACATCATCTAACAAACGCTATTTCAAGTTAAATCAAACCCTTAAATAAAAAATAAAA
2341280 TTCTT
128 TTCTT
* * *
2341285 CCAGCATTGTTTTTTTTTTTTTTCGTTCACAAAACTCAAACTCGAAATTTTACTTAAAAGATATC
1 CCAGCATTG-------TTTTATTCGTTCACAAAACCCAAACTCAAAATTTTACTTAAAAGATATC
* * *
2341350 AAACTCTTTACTAC-TTATCTAACAAACGCTATTTCAAGTTAAATCAAACCCTTGAATAAAAAAT
59 AAACTCTTTACCACATCATCTAACAAACGCTATTTCAAGTTAAATCAAACCCTTAAATAAAAAAT
*
2341414 AAAATTGTT
124 AAAATTCTT
* * *
2341423 -CATGCATTGTTTTATTCGTTCACAAAACCCAAACTCAAAATATTATTTAAAAAATATCAAACTC
1 CCA-GCATTGTTTTATTCGTTCACAAAACCCAAACTCAAAATTTTACTTAAAAGATATCAAACTC
2341487 TTTA
65 TTTA
2341491 TCATTTGATT
Statistics
Matches: 170, Mismatches: 25, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
131 54 0.32
132 8 0.05
137 2 0.01
138 59 0.35
139 29 0.17
140 18 0.11
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (132 bp):
CCAGCATTGTTTTATTCGTTCACAAAACCCAAACTCAAAATTTTACTTAAAAGATATCAAACTCT
TTACCACATCATCTAACAAACGCTATTTCAAGTTAAATCAAACCCTTAAATAAAAAATAAAATTC
TT
Found at i:2342963 original size:3 final size:3
Alignment explanation
Indices: 2342955--2342983 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2342945 GCACTTTTGA
2342955 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2342984 AGTTTCAATG
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2354911 original size:126 final size:128
Alignment explanation
Indices: 2354695--2354947 Score: 388
Period size: 126 Copynumber: 2.0 Consensus size: 128
2354685 ATGATCAAAA
* *
2354695 TGATGAATTATCGAGAAGAAGAAACTTAGTGTACGGTATGCCTTTCCCTTTTCCCTCTATAACGG
1 TGATGAATTATC-AGAAGAAGAAACTTAGTGTACCGTATGCCTTTCCCTTTTCCCTCTATAACAG
*
2354760 AGGTGAAAAAGTTCAACCCGATCCCTGCTCCGACTCAAGATAGTGATGATCATGATCCATCAGG
65 AGGTGAAAAAGTTCAACCCGATCCCTGCTCCGACTCAAGATAATGATGATCATGATCCATCAGG
*
2354824 TGATGAATTATC-G-AGAAGAAACTTAGTGTTCCGTATGCCTTTCCCTTTT-CCTCCTATAACAG
1 TGATGAATTATCAGAAGAAGAAACTTAGTGTACCGTATGCCTTTCCCTTTTCCCT-CTATAACAG
* * *
2354886 AGGTGAAAACGTTC-ACCGCGTTCCCTGCTCCGATTCAAGATAATGATGATCATGATCCATCA
65 AGGTGAAAAAGTTCAACC-CGATCCCTGCTCCGACTCAAGATAATGATGATCATGATCCATCA
2354948 CATGATGGAT
Statistics
Matches: 115, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
125 6 0.05
126 96 0.83
127 1 0.01
129 12 0.10
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (128 bp):
TGATGAATTATCAGAAGAAGAAACTTAGTGTACCGTATGCCTTTCCCTTTTCCCTCTATAACAGA
GGTGAAAAAGTTCAACCCGATCCCTGCTCCGACTCAAGATAATGATGATCATGATCCATCAGG
Found at i:2355014 original size:12 final size:12
Alignment explanation
Indices: 2354969--2355014 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
2354959 TGATGATCAA
2354969 GATGATGTT-GAT
1 GATGAT-TTGGAT
2354981 GATGATTATGGAT
1 GATGATT-TGGAT
2354994 G-TGATTTGGAT
1 GATGATTTGGAT
*
2355005 GATGAATTGG
1 GATGATTTGG
2355015 TTCCAAAGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 7 0.23
12 19 0.63
13 4 0.13
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (12 bp):
GATGATTTGGAT
Found at i:2357196 original size:12 final size:12
Alignment explanation
Indices: 2357179--2357203 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2357169 AAATCCAATT
2357179 AGTGGATCAACA
1 AGTGGATCAACA
2357191 AGTGGATCAACA
1 AGTGGATCAACA
2357203 A
1 A
2357204 ATGTGAGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (12 bp):
AGTGGATCAACA
Done.