Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 41 of 143
Found at i:12800439 original size:198 final size:199
Alignment explanation
Indices: 12800059--12800465 Score: 753
Period size: 199 Copynumber: 2.0 Consensus size: 199
12800049 TTATCTTAGT
*
12800059 TTTTTTTTAAGTAATAATTCCTTCCACAAATTTTTTTTTGATAAAGATAAAATTTTATTTTAATT
1 TTTTTTTTAAGTAATAATTCCTTCCACAAATTTTTTTTTGATAAAGATAAAATTTTATTTCAATT
12800124 GGTTGATGTCTATGAAGATGAGAGTGGGTTTAGAGCAGAGATATTTATGGGTATGCTCGGACCAT
66 GGTTGATGTCTATGAAGATGAGAGTGGGTTTAGAGCAGAGATATTTATGGGTATGCTCGGACCAT
*
12800189 GCAAAATATTCAAACTAATATTTTAAGTTCAAGTCTGATTTGGTTAAAAAAAATGAGTTTATTTT
131 GCAAAATATTCAAACCAATATTTTAAGTTCAAGTCTGATTTGGTTAAAAAAAATGAGTTTATTTT
12800254 TTTA
196 TTTA
12800258 TTTTTTTTAAGTAATAATTCCTTCCACAAA-TTTTTTTTGATAAAGATAAAATTTTATTTCAATT
1 TTTTTTTTAAGTAATAATTCCTTCCACAAATTTTTTTTTGATAAAGATAAAATTTTATTTCAATT
*
12800322 GGTTGATGTCTATGAAGATGAGAGTAGGGTTTAGAGCAGAGATATTTATGGGTATGTTCGGACCA
66 GGTTGATGTCTATGAAGATGAGAGT-GGGTTTAGAGCAGAGATATTTATGGGTATGCTCGGACCA
*
12800387 TGCAAAATATTCAAACCAATATTTTAAGTTCAGGTCTGATTTGGTTAAAAAAAATGAGTTTATTT
130 TGCAAAATATTCAAACCAATATTTTAAGTTCAAGTCTGATTTGGTTAAAAAAAATGAGTTTATTT
12800452 TTTTA
195 TTTTA
12800457 TTTTATTTT
1 TTTT-TTTT
12800466 TTTATTTAAG
Statistics
Matches: 202, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
198 58 0.29
199 140 0.69
200 4 0.02
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (199 bp):
TTTTTTTTAAGTAATAATTCCTTCCACAAATTTTTTTTTGATAAAGATAAAATTTTATTTCAATT
GGTTGATGTCTATGAAGATGAGAGTGGGTTTAGAGCAGAGATATTTATGGGTATGCTCGGACCAT
GCAAAATATTCAAACCAATATTTTAAGTTCAAGTCTGATTTGGTTAAAAAAAATGAGTTTATTTT
TTTA
Found at i:12800463 original size:13 final size:13
Alignment explanation
Indices: 12800445--12800472 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12800435 AAAAAATGAG
12800445 TTTATTTTTTTAT
1 TTTATTTTTTTAT
12800458 TTTATTTTTTTAT
1 TTTATTTTTTTAT
12800471 TT
1 TT
12800473 AAGTTCTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTATTTTTTTAT
Found at i:12803205 original size:11 final size:11
Alignment explanation
Indices: 12803189--12803216 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
12803179 GCCGGGACTT
12803189 ATACTCTATGC
1 ATACTCTATGC
12803200 ATACTCTATGC
1 ATACTCTATGC
12803211 ATACTC
1 ATACTC
12803217 CCGACAGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (11 bp):
ATACTCTATGC
Found at i:12811810 original size:36 final size:36
Alignment explanation
Indices: 12811770--12811856 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
12811760 TGATGACTGT
* *
12811770 TGTGAAAGTGAATATGAGGGTAGGTTATTCATGCCA
1 TGTGATAGTGAATATCAGGGTAGGTTATTCATGCCA
* * * *
12811806 TGTGATAGTAAATATCTGGGTATGTTTTTCATGCCA
1 TGTGATAGTGAATATCAGGGTAGGTTATTCATGCCA
12811842 TGTGATAGTGAATAT
1 TGTGATAGTGAATAT
12811857 ATTGTTCTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (36 bp):
TGTGATAGTGAATATCAGGGTAGGTTATTCATGCCA
Found at i:12813997 original size:30 final size:29
Alignment explanation
Indices: 12813956--12814030 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 29
12813946 TCTTGTGTTA
* *
12813956 TTATATTATATAT-TG-GTGTGGTTTTATT
1 TTATATAATATATATGTGTG-GGCTTTATT
*
12813984 TTATGGATAATATATATGTGTGGGCTTTGTT
1 TTAT--ATAATATATATGTGTGGGCTTTATT
12814015 TTATATAATATATATG
1 TTATATAATATATATG
12814031 CATGGATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 4 0.10
29 12 0.30
30 8 0.20
31 13 0.32
32 3 0.08
ACGTcount: A:0.27, C:0.01, G:0.19, T:0.53
Consensus pattern (29 bp):
TTATATAATATATATGTGTGGGCTTTATT
Found at i:12818518 original size:23 final size:23
Alignment explanation
Indices: 12818475--12818532 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
12818465 GATTTGCAAG
* *
12818475 TATACATAATAAAAAAAACAATA
1 TATACATAATATACAAAACAATA
*
12818498 TATACATAATATACAATACAATA
1 TATACATAATATACAAAACAATA
12818521 -A-A-ATAATATACA
1 TATACATAATATACA
12818533 TATAAGATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.31
21 1 0.03
22 1 0.03
23 20 0.62
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (23 bp):
TATACATAATATACAAAACAATA
Found at i:12818528 original size:20 final size:21
Alignment explanation
Indices: 12818503--12818547 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
12818493 CAATATATAC
12818503 ATAATATACA-ATACA-ATAAA
1 ATAATATACATATA-AGATAAA
12818523 ATAATATACATATAAGATAAA
1 ATAATATACATATAAGATAAA
12818544 ATAA
1 ATAA
12818548 ACAAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (21 bp):
ATAATATACATATAAGATAAA
Found at i:12818554 original size:26 final size:29
Alignment explanation
Indices: 12818482--12818554 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 29
12818472 AAGTATACAT
*
12818482 AATAAAAAAAACAATATATACATAATATAC
1 AATAAAATAAACAA-ATATACATAATATAC
*
12818512 AATACAATAAA-ATAATATACAT-ATA-A-
1 AATAAAATAAACA-AATATACATAATATAC
*
12818538 GATAAAATAAACAAATA
1 AATAAAATAAACAAATA
12818555 AAAAAATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
26 13 0.35
27 2 0.05
28 3 0.08
29 9 0.24
30 10 0.27
ACGTcount: A:0.67, C:0.08, G:0.01, T:0.23
Consensus pattern (29 bp):
AATAAAATAAACAAATATACATAATATAC
Found at i:12818718 original size:30 final size:29
Alignment explanation
Indices: 12818570--12818720 Score: 108
Period size: 30 Copynumber: 5.1 Consensus size: 29
12818560 ATTAAAACCA
*
12818570 GGTCAAATTTGAATTTTTGGAAGCTTTAGG
1 GGTCAAATTTGAATTTTTGGAAACTTTA-G
* * **
12818600 GGTTAAATTGGAATTTTTAAAAAAC-TTACG
1 GGTCAAATTTGAATTTTT-GGAAACTTTA-G
* * * *
12818630 GGTCAAATTGGAATTTTTGGAAAATTCCAA
1 GGTCAAATTTGAATTTTTGGAAACTT-TAG
** * * *
12818660 TTTCAAA-TTGAAAATTTTGAAAATTTTAG
1 GGTCAAATTTG-AATTTTTGGAAACTTTAG
12818689 GGTCCAAATTTGAATTTTTGGAAACTTTAG
1 GGT-CAAATTTGAATTTTTGGAAACTTTAG
12818719 GG
1 GG
12818721 GTTAAAACAA
Statistics
Matches: 90, Mismatches: 25, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
29 7 0.08
30 76 0.84
31 7 0.08
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.38
Consensus pattern (29 bp):
GGTCAAATTTGAATTTTTGGAAACTTTAG
Found at i:12819975 original size:19 final size:17
Alignment explanation
Indices: 12819951--12819994 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
12819941 TTATTTATCT
12819951 ATAAAATAATAATAAATAA
1 ATAAAATAA-AATAAA-AA
12819970 ATAAAAATAAAATAAAAA
1 AT-AAAATAAAATAAAAA
*
12819988 ACAAAAT
1 ATAAAAT
12819995 TGGATTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 8 0.35
20 7 0.30
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (17 bp):
ATAAAATAAAATAAAAA
Found at i:12820637 original size:40 final size:39
Alignment explanation
Indices: 12820592--12820698 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 39
12820582 ATTGGACTGT
12820592 TTCAATCTGCCCCATGGTCGGGGTAAGAGATCTAATAGT-C
1 TTCAATCTGCCCCATGGTCGGGGTAAGAGAT-TAA-AGTGC
** * *
12820632 TTCAATCTGCCCTC-TGGTTAGGGTAAAAGATTAAATTGC
1 TTCAATCTGCCC-CATGGTCGGGGTAAGAGATTAAAGTGC
*
12820671 TTCAATCTGGCCCATGGTCGGGGTAAGA
1 TTCAATCTGCCCCATGGTCGGGGTAAGA
12820699 TATCAGATGA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
38 3 0.05
39 26 0.46
40 26 0.46
41 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (39 bp):
TTCAATCTGCCCCATGGTCGGGGTAAGAGATTAAAGTGC
Found at i:12820685 original size:79 final size:79
Alignment explanation
Indices: 12820572--12820765 Score: 266
Period size: 79 Copynumber: 2.5 Consensus size: 79
12820562 TATAGCTTTA
* * * *
12820572 AGGGTAAAAGATTGGACTGTTTCAATCTGCCCCATGGTCGGGGTAAGAGATCTA-AT-AGTCTTC
1 AGGGTAAAAGATTGAATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATC-AGATGA-ACTTC
12820635 AATCTGCCCTCTGGTT
64 AATCTGCCCTCTGGTT
* * *
12820651 AGGGTAAAAGATTAAATTGCTTCAATCTGGCCCATGGTCGGGGTAAGATATCAGATGAACTTCAA
1 AGGGTAAAAGATTGAATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCAGATGAACTTCAA
12820716 TCTGCCCTCTGGTT
66 TCTGCCCTCTGGTT
* * *
12820730 AGGGTAAAAGATTGTATTGCTTTAATCTGTCCCATG
1 AGGGTAAAAGATTGAATTGCTTCAATCTGCCCCATG
12820766 ATTGACATAA
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
78 1 0.01
79 100 0.98
80 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (79 bp):
AGGGTAAAAGATTGAATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCAGATGAACTTCAA
TCTGCCCTCTGGTT
Found at i:12820695 original size:39 final size:38
Alignment explanation
Indices: 12820573--12820696 Score: 115
Period size: 39 Copynumber: 3.2 Consensus size: 38
12820563 ATAGCTTTAA
* * * *
12820573 GGGTAAAAGATTGGACTGTTTCAATCTGCCCCATGGTCG
1 GGGTAAAAGATT-AATTGCTTCAATCTGGCCCATGGTCG
* * * **
12820612 GGGTAAGAGATCTAATAGTCTTCAATCT-GCCCTCTGGTTA
1 GGGTAAAAGAT-TAATTG-CTTCAATCTGGCCC-ATGGTCG
12820652 GGGTAAAAGATTAAATTGCTTCAATCTGGCCCATGGTCG
1 GGGTAAAAGATT-AATTGCTTCAATCTGGCCCATGGTCG
12820691 GGGTAA
1 GGGTAA
12820697 GATATCAGAT
Statistics
Matches: 66, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
39 35 0.53
40 31 0.47
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (38 bp):
GGGTAAAAGATTAATTGCTTCAATCTGGCCCATGGTCG
Found at i:12820735 original size:40 final size:39
Alignment explanation
Indices: 12820592--12820741 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
12820582 ATTGGACTGT
** * * *
12820592 TTCAATCTGCCC-CATGGTCGGGGTAAGAGATCTAATAGTC
1 TTCAATCTGCCCTC-TGGTTAGGGTAAAAGATCAAATTG-C
*
12820632 TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTAAATTGC
1 TTCAATCTGCCCTCTGGTTAGGGTAAAAGATCAAATTGC
* ** * * *
12820671 TTCAATCTGGCCC-ATGGTCGGGGTAAGATATCAGA-TGAAC
1 TTCAATCT-GCCCTCTGGTTAGGGTAAAAGATCAAATTG--C
12820711 TTCAATCTGCCCTCTGGTTAGGGTAAAAGAT
1 TTCAATCTGCCCTCTGGTTAGGGTAAAAGAT
12820742 TGTATTGCTT
Statistics
Matches: 87, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
38 2 0.02
39 28 0.32
40 56 0.64
41 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (39 bp):
TTCAATCTGCCCTCTGGTTAGGGTAAAAGATCAAATTGC
Found at i:12820913 original size:50 final size:50
Alignment explanation
Indices: 12820806--12820928 Score: 133
Period size: 50 Copynumber: 2.5 Consensus size: 50
12820796 CACTCCATTT
* * *
12820806 CAACTTCAAGAGTATAAGATTCGTCCTTGCGACTTCAATTTGCCCCTCTA
1 CAACTTTAAGGGTATAAGATTTGTCCTTGCGACTTCAATTTGCCCCTCTA
* ** *
12820856 CAACTTT-AGGTGTATAAGATTTG-CCATTGCGGCTTCAATTTGTTCCTTTA
1 CAACTTTAAGG-GTATAAGATTTGTCC-TTGCGACTTCAATTTGCCCCTCTA
* *
12820906 CAGCTTTAAGGGTATAGGATTTG
1 CAACTTTAAGGGTATAAGATTTG
12820929 GCGTTCTATC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
49 4 0.07
50 54 0.89
51 3 0.05
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (50 bp):
CAACTTTAAGGGTATAAGATTTGTCCTTGCGACTTCAATTTGCCCCTCTA
Found at i:12832514 original size:20 final size:21
Alignment explanation
Indices: 12832489--12832533 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
12832479 CAATATATAC
12832489 ATAATATACA-ATAAAATAAA
1 ATAATATACATATAAAATAAA
*
12832509 ATAATATACATATAAGATAAA
1 ATAATATACATATAAAATAAA
12832530 ATAA
1 ATAA
12832534 ACAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
ATAATATACATATAAAATAAA
Found at i:12832540 original size:26 final size:29
Alignment explanation
Indices: 12832463--12832540 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
12832453 ATTTACAAGT
*
12832463 ATATATAATAAAA-AAACAATATATACATA
1 ATATACAATAAAATAAACAA-ATATACATA
12832492 ATATACAATAAAATAAA-ATAATATACAT-
1 ATATACAATAAAATAAACA-AATATACATA
*
12832520 ATA-A-GATAAAATAAACAAATA
1 ATATACAATAAAATAAACAAATA
12832541 AAAAAACATT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
26 14 0.32
27 2 0.05
28 3 0.07
29 21 0.48
30 4 0.09
ACGTcount: A:0.67, C:0.06, G:0.01, T:0.26
Consensus pattern (29 bp):
ATATACAATAAAATAAACAAATATACATA
Found at i:12832627 original size:30 final size:30
Alignment explanation
Indices: 12832557--12832713 Score: 165
Period size: 30 Copynumber: 5.3 Consensus size: 30
12832547 CATTAAAACC
* **
12832557 GGGTCAAATTTGAATTTTTGGAAGCTTTA-
1 GGGTCAAATTGGAATTTTTGGAAAATTTAG
12832586 GGGTCAAATTGGAATTTTTGGAAAATTTAG
1 GGGTCAAATTGGAATTTTTGGAAAATTTAG
* * **
12832616 GGGTTAAATTGGAATGTTTGGAAAATTCGG
1 GGGTCAAATTGGAATTTTTGGAAAATTTAG
** *
12832646 GGGTCAAATTCAAATTTTTGGAAATTTTAG
1 GGGTCAAATTGGAATTTTTGGAAAATTTAG
* * * *
12832676 GGATCAAATTTGAATTTTTGTAAACTTT-G
1 GGGTCAAATTGGAATTTTTGGAAAATTTAG
12832705 GGGATCAAA
1 GGG-TCAAA
12832714 ACATAATTCT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
29 29 0.27
30 77 0.73
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.38
Consensus pattern (30 bp):
GGGTCAAATTGGAATTTTTGGAAAATTTAG
Found at i:12836521 original size:20 final size:20
Alignment explanation
Indices: 12836498--12836536 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12836488 AAAAAGACTA
* *
12836498 AAAATAACTTAAATATAAAC
1 AAAATAAATTAAAAATAAAC
12836518 AAAATAAATTAAAAATAAA
1 AAAATAAATTAAAAATAAA
12836537 TGATAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAATAAATTAAAAATAAAC
Found at i:12844429 original size:5 final size:5
Alignment explanation
Indices: 12844419--12844457 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
12844409 TAACTAATTC
12844419 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
12844458 TTGTCTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:12850785 original size:16 final size:15
Alignment explanation
Indices: 12850764--12850806 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
12850754 TTAAAAAAAT
12850764 ATTTTTCTTTTTACAA
1 ATTTTTCTTTTTAC-A
*
12850780 ATTTTTCTTTTAACA
1 ATTTTTCTTTTTACA
*
12850795 TTTTTTCTTTTT
1 ATTTTTCTTTTT
12850807 CTTTTTAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTTCTTTTTACA
Found at i:12863730 original size:21 final size:19
Alignment explanation
Indices: 12863687--12863740 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 19
12863677 CAAAAATTTC
12863687 TTTCTTCTATTGTTTTTTCTT
1 TTTCTTCT-TT-TTTTTTCTT
12863708 TTTCTTCTTTTTTTTCTCATT
1 TTTCTTCTTTTTTTT-TC-TT
12863729 TTGT-TTCTTTTT
1 TT-TCTTCTTTTT
12863741 CAAATGACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.17
20 4 0.13
21 20 0.67
22 1 0.03
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.78
Consensus pattern (19 bp):
TTTCTTCTTTTTTTTTCTT
Found at i:12872645 original size:13 final size:14
Alignment explanation
Indices: 12872627--12872656 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12872617 GTCAATGCAA
12872627 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
12872640 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
12872654 TCA
1 TCA
12872657 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:12873727 original size:84 final size:84
Alignment explanation
Indices: 12873548--12873727 Score: 216
Period size: 84 Copynumber: 2.1 Consensus size: 84
12873538 AGATCGTAAT
* * * * *
12873548 TGCGGTGACATCTGCGATGTTCCTGTGCTGGTGCTTCCAGATCTAAATTCATCTTGAGTTTACTC
1 TGCGGTGACATCAGCGATATTCCTGCGCTGGTGCTTCCAGATCTAAATTCAGCTTGAGTTCACTC
*
12873613 ATTCGAGGTTCAGGTTCTA
66 ACTCGAGGTTCAGGTTCTA
* ** * * * * *
12873632 TGCAGCAACATCAGTGATATTCCTGCGCTGGTGCTTCTAGGTGTAAATTCAGCTTGAGTTCACTT
1 TGCGGTGACATCAGCGATATTCCTGCGCTGGTGCTTCCAGATCTAAATTCAGCTTGAGTTCACTC
*
12873697 ACTCGATGTTCAGGTTCTA
66 ACTCGAGGTTCAGGTTCTA
*
12873716 TGTGGTGACATC
1 TGCGGTGACATC
12873728 TCTGTCGCAA
Statistics
Matches: 77, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (84 bp):
TGCGGTGACATCAGCGATATTCCTGCGCTGGTGCTTCCAGATCTAAATTCAGCTTGAGTTCACTC
ACTCGAGGTTCAGGTTCTA
Found at i:12882619 original size:25 final size:25
Alignment explanation
Indices: 12882591--12882647 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
12882581 GATTAAATTA
*
12882591 AATAATAAAATATGAAATTATTT-TT
1 AATAATAAAATAT-AAAATATTTATT
**
12882616 AATAATTTAATATAAAATATTTCATT
1 AATAATAAAATATAAAATATTT-ATT
12882642 AATAAT
1 AATAAT
12882648 TTGGGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 8 0.30
25 11 0.41
26 8 0.30
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
AATAATAAAATATAAAATATTTATT
Found at i:12889342 original size:15 final size:15
Alignment explanation
Indices: 12889324--12889395 Score: 63
Period size: 15 Copynumber: 4.8 Consensus size: 15
12889314 ACAACGCGAA
12889324 TGTTCGCAACATCAG
1 TGTTCGCAACATCAG
* ** *
12889339 TGTTCTCAATGTGAG
1 TGTTCGCAACATCAG
** *
12889354 TCCTCGCAACATGAG
1 TGTTCGCAACATCAG
* *
12889369 TGTTCGCAGCACCAG
1 TGTTCGCAACATCAG
12889384 TGTTCGCAACAT
1 TGTTCGCAACAT
12889396 GTATTCACAG
Statistics
Matches: 41, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
15 41 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (15 bp):
TGTTCGCAACATCAG
Found at i:12889413 original size:28 final size:28
Alignment explanation
Indices: 12889357--12889424 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
12889347 ATGTGAGTCC
* *
12889357 TCGCAACATGAGTGTTCGCAGCACCAGTGT
1 TCGCAACAT--GTATTCACAGCACCAGTGT
*
12889387 TCGCAACATGTATTCACAGCTCCAGTGT
1 TCGCAACATGTATTCACAGCACCAGTGT
*
12889415 TCACAACATG
1 TCGCAACATG
12889425 AGTGCTCGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 25 0.74
30 9 0.26
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (28 bp):
TCGCAACATGTATTCACAGCACCAGTGT
Found at i:12895072 original size:12 final size:12
Alignment explanation
Indices: 12895050--12895086 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
12895040 GTATGCAAGC
*
12895050 ACAGCATCAACA
1 ACAGCAACAACA
*
12895062 ACAGTAACAACA
1 ACAGCAACAACA
12895074 ACAGCAACAACA
1 ACAGCAACAACA
12895086 A
1 A
12895087 TATTCTCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.57, C:0.30, G:0.08, T:0.05
Consensus pattern (12 bp):
ACAGCAACAACA
Found at i:12901240 original size:18 final size:18
Alignment explanation
Indices: 12901197--12901255 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
12901187 GGAACCTAAG
**
12901197 GAGAAGAAGGAATTTGGAA
1 GAGAAGAAGGAA-GAGGAA
*
12901216 AAG-AGAAGGAAGAGGAA
1 GAGAAGAAGGAAGAGGAA
*
12901233 GAGAAGAATGAAGA-GAA
1 GAGAAGAAGGAAGAGGAA
12901250 G-GAAGA
1 GAGAAGA
12901256 TGCCCTGACA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
16 5 0.15
17 10 0.29
18 17 0.50
19 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.39, T:0.07
Consensus pattern (18 bp):
GAGAAGAAGGAAGAGGAA
Found at i:12945252 original size:51 final size:51
Alignment explanation
Indices: 12945178--12945447 Score: 359
Period size: 51 Copynumber: 5.3 Consensus size: 51
12945168 TTTCATTTAA
* * *
12945178 TACTCACGATGACATATTA-TCATCGGACCTTTAATTCGTCATGGATTCATT
1 TACTCACGATGACA-CTTAGTCATCGGACCTTTAATTCGTAAAGGATTCATT
*
12945229 TACTCACGATGACACTTAGTCATC-GACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAAAGGATTCATT
* *** *
12945279 TACTCACGATGACATTTAGTCATTATACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAAAGGATTCATT
*
12945330 TACTCACGATGACATTTAGTCATCGGACCTTTAA-TCTGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATTC-GTAAAGGATTCATT
* * *
12945381 TACTCACAATGACACTTAGTCACCGGACCTTTAA-TCAATAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATTC-GTAAAGGATTCATT
*
12945432 TACTCACAATGACACT
1 TACTCACGATGACACT
12945448 GCAATAGTCA
Statistics
Matches: 200, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
50 49 0.25
51 151 0.75
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAAAGGATTCATT
Found at i:12951887 original size:51 final size:51
Alignment explanation
Indices: 12951814--12952203 Score: 539
Period size: 51 Copynumber: 7.6 Consensus size: 51
12951804 TTTCATTTAA
* * * ***
12951814 TACTCACGATGACA-TATTGTCATTGGACCTTTAATTCGTCGTGGATTCATT
1 TACTCACGATGACACT-TAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
12951865 TACTCACGATGACACTTAGTCATCGGACCTTTAATCTGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* *
12951916 TACTCACGATGACATTTAGTCATCAGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * ***
12951967 TACTCACGATGACACTTAGTCATCGAACCTTTAATTCGTCGTGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
12952018 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTTATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * *
12952069 TACTCACGATGACATTTAGTCATCAGACCTTTAATCCGTGAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * * * *
12952120 TACTCATGATGACACTTAGTAACCGAACCTTTAATCCGTAAAGGATTCCTT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
12952171 TCCTCACGATGACACTTAGTCATCGGACTCTTT
1 TACTCACGATGACACTTAGTCATCGGAC-CTTT
12952204 CGTTTATAGC
Statistics
Matches: 297, Mismatches: 40, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
51 292 0.98
52 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
Found at i:12952092 original size:153 final size:153
Alignment explanation
Indices: 12951814--12952203 Score: 620
Period size: 153 Copynumber: 2.5 Consensus size: 153
12951804 TTTCATTTAA
* * *
12951814 TACTCACGATGACA-TATTGTCATTGGACCTTTAATTCGTCGTGGATTCATTTACTCACGATGAC
1 TACTCACGATGACACT-TAGTCATCGAACCTTTAATTCGTCGTGGATTCATTTACTCACGATGAC
*
12951878 ACTTAGTCATCGGACCTTTAATCTGTAAAGGATTCATTTACTCACGATGACATTTAGTCATCAGA
65 ACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACATTTAGTCATCAGA
12951943 CCTTTAATCCGTAAAGGATTCATT
130 CCTTTAATCCGTAAAGGATTCATT
12951967 TACTCACGATGACACTTAGTCATCGAACCTTTAATTCGTCGTGGATTCATTTACTCACGATGACA
1 TACTCACGATGACACTTAGTCATCGAACCTTTAATTCGTCGTGGATTCATTTACTCACGATGACA
*
12952032 CTTAGTCATCGGACCTTTAATCCGTAAAGGATTTATTTACTCACGATGACATTTAGTCATCAGAC
66 CTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACATTTAGTCATCAGAC
*
12952097 CTTTAATCCGTGAAGGATTCATT
131 CTTTAATCCGTAAAGGATTCATT
* * * * *** * *
12952120 TACTCATGATGACACTTAGTAACCGAACCTTTAATCCGTAAAGGATTCCTTTCCTCACGATGACA
1 TACTCACGATGACACTTAGTCATCGAACCTTTAATTCGTCGTGGATTCATTTACTCACGATGACA
12952185 CTTAGTCATCGGACTCTTT
66 CTTAGTCATCGGAC-CTTT
12952204 CGTTTATAGC
Statistics
Matches: 220, Mismatches: 15, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
153 215 0.98
154 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (153 bp):
TACTCACGATGACACTTAGTCATCGAACCTTTAATTCGTCGTGGATTCATTTACTCACGATGACA
CTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACATTTAGTCATCAGAC
CTTTAATCCGTAAAGGATTCATT
Found at i:12954324 original size:24 final size:24
Alignment explanation
Indices: 12954297--12954399 Score: 143
Period size: 24 Copynumber: 4.3 Consensus size: 24
12954287 ACTCTATCTA
* *
12954297 GGCTCGTAAGAGCTAATAAATCTG
1 GGCTCGTAAGAGCTAATCATTCTG
* *
12954321 GGCTCATAAGAGCTAATCATTCTA
1 GGCTCGTAAGAGCTAATCATTCTG
* *
12954345 GGCTCGTAAGAACTAATCATTTTG
1 GGCTCGTAAGAGCTAATCATTCTG
*
12954369 GGCTCATAAGAGCTAATCATTCTG
1 GGCTCGTAAGAGCTAATCATTCTG
12954393 GGCTCGT
1 GGCTCGT
12954400 GTTGGCTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
GGCTCGTAAGAGCTAATCATTCTG
Found at i:12954371 original size:48 final size:48
Alignment explanation
Indices: 12954293--12954399 Score: 169
Period size: 48 Copynumber: 2.2 Consensus size: 48
12954283 TTAAACTCTA
*
12954293 TCTAGGCTCGTAAGAGCTAATAAATCTGGGCTCATAAGAGCTAATCAT
1 TCTAGGCTCGTAAGAACTAATAAATCTGGGCTCATAAGAGCTAATCAT
* * *
12954341 TCTAGGCTCGTAAGAACTAATCATTTTGGGCTCATAAGAGCTAATCAT
1 TCTAGGCTCGTAAGAACTAATAAATCTGGGCTCATAAGAGCTAATCAT
*
12954389 TCTGGGCTCGT
1 TCTAGGCTCGT
12954400 GTTGGCTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (48 bp):
TCTAGGCTCGTAAGAACTAATAAATCTGGGCTCATAAGAGCTAATCAT
Found at i:12958813 original size:24 final size:24
Alignment explanation
Indices: 12958781--12958935 Score: 195
Period size: 24 Copynumber: 6.3 Consensus size: 24
12958771 ACTCTATTTG
12958781 GGCTCGTAAGAGCTAATCATTCTA
1 GGCTCGTAAGAGCTAATCATTCTA
12958805 GGCTCGTAAGAGCTAATCATTCTA
1 GGCTCGTAAGAGCTAATCATTCTA
* *
12958829 AGCTCGTAAGAGCTAATCATT-TT
1 GGCTCGTAAGAGCTAATCATTCTA
*
12958852 GAGCTCGTAAGAGCTAATCATTCATTCT
1 G-GCTCGTAAGAGCTAATCATTC--T-A
*
12958880 GAGCTCGTAAGAGCTAATCATTCTG
1 G-GCTCGTAAGAGCTAATCATTCTA
** *
12958905 GGCTTATAAGAGCTAATCATTCTG
1 GGCTCGTAAGAGCTAATCATTCTA
12958929 GGCTCGT
1 GGCTCGT
12958936 GTTGGCTAAA
Statistics
Matches: 118, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
23 1 0.01
24 90 0.76
25 1 0.01
26 1 0.01
27 1 0.01
28 24 0.20
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (24 bp):
GGCTCGTAAGAGCTAATCATTCTA
Found at i:12958890 original size:76 final size:72
Alignment explanation
Indices: 12958777--12958935 Score: 219
Period size: 76 Copynumber: 2.2 Consensus size: 72
12958767 TTAAACTCTA
*
12958777 TTTGGGCTCGTAAGAGCTAATCATTCTAGGCTCGTAAGAGCTAATCATTCTAAGCTCGTAAGAGC
1 TTTGGGCTCGTAAGAGCTAATCATTCTAGGCTCGTAAGAGCTAATCATTCTAAGCTCATAAGAGC
12958842 TAATCAT
66 TAATCAT
* * ** *
12958849 TTTGAGCTCGTAAGAGCTAATCATTCATTCTGAGCTCGTAAGAGCTAATCATTCTGGGCTTATAA
1 TTTGGGCTCGTAAGAGCTAATCATTC--T-AG-GCTCGTAAGAGCTAATCATTCTAAGCTCATAA
12958914 GAGCTAATCAT
62 GAGCTAATCAT
*
12958925 TCTGGGCTCGT
1 TTTGGGCTCGT
12958936 GTTGGCTAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
72 25 0.33
74 1 0.01
75 1 0.01
76 48 0.64
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (72 bp):
TTTGGGCTCGTAAGAGCTAATCATTCTAGGCTCGTAAGAGCTAATCATTCTAAGCTCATAAGAGC
TAATCAT
Found at i:12958897 original size:52 final size:52
Alignment explanation
Indices: 12958782--12958926 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 52
12958772 CTCTATTTGG
12958782 GCTCGTAAGAGCTAATCATTCT-AGGCTCGTAAGAGCT-A--A-TCATTCTAA
1 GCTCGTAAGAGCTAATCATTCTGA-GCTCGTAAGAGCTAATCATTCATTCTAA
* *
12958830 GCTCGTAAGAGCTAATCATTTTGAGCTCGTAAGAGCTAATCATTCATTCTGA
1 GCTCGTAAGAGCTAATCATTCTGAGCTCGTAAGAGCTAATCATTCATTCTAA
* **
12958882 GCTCGTAAGAGCTAATCATTCTGGGCTTATAAGAGCTAATCATTC
1 GCTCGTAAGAGCTAATCATTCTGAGCTCGTAAGAGCTAATCATTC
12958927 TGGGCTCGTG
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
48 34 0.40
49 2 0.02
51 1 0.01
52 49 0.57
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (52 bp):
GCTCGTAAGAGCTAATCATTCTGAGCTCGTAAGAGCTAATCATTCATTCTAA
Found at i:12961125 original size:7 final size:7
Alignment explanation
Indices: 12961103--12961141 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
12961093 TGAGAAAAAG
12961103 AAAA-GA
1 AAAAGGA
12961109 AAAAGAGA
1 AAAAG-GA
12961117 AAAAGGA
1 AAAAGGA
12961124 AAAAGGA
1 AAAAGGA
12961131 AAAAGGA
1 AAAAGGA
12961138 AAAA
1 AAAA
12961142 AAGGAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 4 0.13
7 20 0.65
8 7 0.23
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAAAGGA
Found at i:12962945 original size:30 final size:30
Alignment explanation
Indices: 12962741--12963125 Score: 176
Period size: 30 Copynumber: 13.1 Consensus size: 30
12962731 TTTCGGAGAA
*
12962741 TTTT-GGGTCAAAATGTAATTCTT-AGAAA-
1 TTTTAGGGTCAAAATGTAATTTTTGA-AAAG
* * *
12962769 TTTAAGGGGTCAAAAATATAATTTTTGGAAAG
1 TTTTA-GGGTC-AAAATGTAATTTTTGAAAAG
** * *
12962801 TTCGAGGGTCAAAATGTAACTTTTGGAAAG
1 TTTTAGGGTCAAAATGTAATTTTTGAAAAG
* * * *
12962831 -TTTAGTGTCAATATGTGATTTTTGGAAAG
1 TTTTAGGGTCAAAATGTAATTTTTGAAAAG
* * **
12962860 -TTTAGAGGTCAGAATGTGATTTTCAAAAAG
1 TTTTAG-GGTCAAAATGTAATTTTTGAAAAG
* * * * * *
12962890 TGTAAGTGT---TATG--ATTTTGGGAAAG
1 TTTTAGGGTCAAAATGTAATTTTTGAAAAG
*
12962915 TTTTAGGGTTAAAATGTAATTTTTGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTTGAAAAG
* *
12962945 TTTAAGGGTCAAAATGTGATTTTGTG--AAG
1 TTTTAGGGTCAAAATGTAATTTT-TGAAAAG
* *
12962974 TTTGT-GGGTCAAAATGCAA-TTTAGAAAAAG
1 TTT-TAGGGTCAAAATGTAATTTTTG-AAAAG
*
12963004 -TTTAGAGGTTAAAATGTAA-TTTTGCAAAA-
1 TTTTAG-GGTCAAAATGTAATTTTTG-AAAAG
* * * * *
12963033 ATTTAGGGTTAAAATGCAATTTTTTAAATG
1 TTTTAGGGTCAAAATGTAATTTTTGAAAAG
* * * * *
12963063 -TTTGGGGTCATAATGTAATTGTAGAAAAA
1 TTTTAGGGTCAAAATGTAATTTTTGAAAAG
* * * *
12963092 TTTAAGGGTCAAAATATGATTTTTTGGAAAG
1 TTTTAGGGTCAAAATGT-AATTTTTGAAAAG
12963123 TTT
1 TTT
12963126 AAGGACCTCC
Statistics
Matches: 268, Mismatches: 65, Indels: 45
0.71 0.17 0.12
Matches are distributed among these distances:
25 15 0.06
27 4 0.01
28 10 0.04
29 84 0.31
30 116 0.43
31 36 0.13
32 3 0.01
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (30 bp):
TTTTAGGGTCAAAATGTAATTTTTGAAAAG
Found at i:12962995 original size:59 final size:60
Alignment explanation
Indices: 12962901--12963054 Score: 156
Period size: 59 Copynumber: 2.6 Consensus size: 60
12962891 GTAAGTGTTA
* * *
12962901 TGATTTTGGGAAAGTTTTAGGGTTAAAATGTAATTTTTG-AAAAGTTTA-AGGGTCAAAATG
1 TGATTTTGGGAAAGTTTTAGGGTCAAAATGCAA-TTTAGAAAAAGTTTAGA-GGTCAAAATG
* *
12962961 TGATTTTGTG-AAGTTTGT-GGGTCAAAATGCAATTTAGAAAAAGTTTAGAGGTTAAAATG
1 TGATTTTGGGAAAGTTT-TAGGGTCAAAATGCAATTTAGAAAAAGTTTAGAGGTCAAAATG
* * ** *
12963020 TAATTTT-GCAAAAATTTAGGGTTAAAATGCAATTT
1 TGATTTTGGGAAAGTTTTAGGGTCAAAATGCAATTT
12963055 TTTAAATGTT
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
58 5 0.06
59 62 0.79
60 11 0.14
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (60 bp):
TGATTTTGGGAAAGTTTTAGGGTCAAAATGCAATTTAGAAAAAGTTTAGAGGTCAAAATG
Found at i:12963002 original size:114 final size:114
Alignment explanation
Indices: 12962789--12963004 Score: 258
Period size: 114 Copynumber: 1.9 Consensus size: 114
12962779 CAAAAATATA
* * * *
12962789 ATTTTTGGAAAGTTCGAGGGTCAAAATGTAACTTTTGGAAAGTTTAGTGTCAATATGTGATTTTT
1 ATTTTGGGAAAGTTCGAGGGTCAAAATGTAACTTTTGAAAAGTTTAGGGTCAAAATGTGATTTTT
* ** *
12962854 GGAAAGTTTAGAGGTCAGAATGTGATTTTCAAAAAGTGTAAGTGTTATG
66 GGAAAGTTTAGAGGTCAAAATGCAATTTACAAAAAGTGTAAGTGTTATG
** * *
12962903 ATTTTGGGAAAGTTTTAGGGTTAAAATGTAATTTTTGAAAAGTTTAAGGGTCAAAATGTGA-TTT
1 ATTTTGGGAAAGTTCGAGGGTCAAAATGTAACTTTTGAAAAGTTT-AGGGTCAAAATGTGATTTT
* *
12962967 TGTG-AAGTTT-GTGGGTCAAAATGCAATTTAGAAAAAGT
65 TG-GAAAGTTTAG-AGGTCAAAATGCAATTTACAAAAAGT
12963005 TTAGAGGTTA
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
113 1 0.01
114 70 0.82
115 14 0.16
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (114 bp):
ATTTTGGGAAAGTTCGAGGGTCAAAATGTAACTTTTGAAAAGTTTAGGGTCAAAATGTGATTTTT
GGAAAGTTTAGAGGTCAAAATGCAATTTACAAAAAGTGTAAGTGTTATG
Found at i:12963106 original size:59 final size:59
Alignment explanation
Indices: 12962979--12963106 Score: 143
Period size: 59 Copynumber: 2.2 Consensus size: 59
12962969 TGAAGTTTGT
* *
12962979 GGGTCAAAATGCAATTTAGAAAAAGTTTAGAGGTTAAAATGTAATTTTGCAAAAATTTA
1 GGGTCAAAATGCAATTTAGAAAAAGTTTAGAGGTCAAAATGTAATTTAGCAAAAATTTA
* *** * * *
12963038 GGGTTAAAATGCAATTTTTTAAATGTTT-GGGGTCATAATGTAATTGTAG-AAAAATTTAA
1 GGGTCAAAATGCAATTTAGAAAAAGTTTAGAGGTCAAAATGTAATT-TAGCAAAAATTT-A
12963097 GGGTCAAAAT
1 GGGTCAAAAT
12963107 ATGATTTTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
58 22 0.39
59 35 0.61
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (59 bp):
GGGTCAAAATGCAATTTAGAAAAAGTTTAGAGGTCAAAATGTAATTTAGCAAAAATTTA
Found at i:12964099 original size:24 final size:22
Alignment explanation
Indices: 12964064--12964108 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
12964054 TTTTTATCTT
*
12964064 ATATATTATTATTATGTATTTA
1 ATATATTATTATTATATATTTA
12964086 ATATACTTATTTATTATATATTT
1 ATATA-TTA-TTATTATATATTT
12964109 GAAATAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 3 0.15
24 12 0.60
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
ATATATTATTATTATATATTTA
Found at i:12965617 original size:162 final size:160
Alignment explanation
Indices: 12965331--12965675 Score: 485
Period size: 162 Copynumber: 2.1 Consensus size: 160
12965321 TTCAATCCAG
* * *
12965331 TTCTCTGTATCTTATCAAGAAGGCGAATTTGGTCCACTTCTTTGCATCACATCAGGAAGATGGCC
1 TTCTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCTGCATCACATCAGGAAGATGGCC
* * * * * *
12965396 ATTTTATTGCTTTGATCCACTTTTCTACATCTTATCAGGAAGATGGGGTTTGAAGTCTCATTCGT
66 ATTTTATTACTTTGACCCACTTCTCTACATCTCATCAAGAAGATAGGGTTTGAAGTCTCATTCGT
12965461 ATTCAGCTTCACTTCATTGATTTGGTCTAC
131 ATTCAGCTTCACTTCATTGATTTGGTCTAC
* *
12965491 TTCTCTGTATCTCATCAAGAAGAC-AGATTTGGTCCACTTCTCTGTATCTCTCATCAGGAAGATG
1 TTCTCTGTATCTCATCAAGAAGACGA-ATTTGGTCCACTTCTCTGCA--TCACATCAGGAAGATG
*** **
12965555 GTTGTTTTATTACTTTGACCCACTTCTCTGTATCTCATCAAGAAGATAGGGTTTGAAGTCTCATT
63 GCCATTTTATTACTTTGACCCACTTCTCTACATCTCATCAAGAAGATAGGGTTTGAAGTCTCATT
* * *
12965620 TGTATTGAGCTTCATTTCATTGATTTGGTCTAC
128 CGTATTCAGCTTCACTTCATTGATTTGGTCTAC
12965653 TTCTCTGTATCTCATCAAGAAGA
1 TTCTCTGTATCTCATCAAGAAGA
12965676 TGACTGCTTC
Statistics
Matches: 163, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
159 1 0.01
160 40 0.25
162 122 0.75
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.39
Consensus pattern (160 bp):
TTCTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCTGCATCACATCAGGAAGATGGCC
ATTTTATTACTTTGACCCACTTCTCTACATCTCATCAAGAAGATAGGGTTTGAAGTCTCATTCGT
ATTCAGCTTCACTTCATTGATTTGGTCTAC
Found at i:12965789 original size:207 final size:208
Alignment explanation
Indices: 12965491--12965894 Score: 623
Period size: 207 Copynumber: 1.9 Consensus size: 208
12965481 TTTGGTCTAC
*
12965491 TTCTCTGTATCTCATCAAGAAGACAGATTTGGTCCACTTCTCTGTATCTCTCATCAGGAAGATGG
1 TTCTCTATATCTCATCAAGAAGACAGATTTGGTCCACTTCTCTGTA-CTCTCATCAGGAAGATGG
** * * *
12965556 TTGTTTTATTACTTTGACCCACTTCTCTGTATCTCATCA-AGAAGATAGGGTTTGAAGTCTCATT
65 CCGCTTTATTACTTTGACCCACTTCTCTATATCTAATCAGA-AAGATAGGGTTTGAAGTCTCATT
* * *
12965620 TGTATTGAGCTTCATTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACTGCTT
129 CGTATTGAGCTTCACTTCATTGATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACTGCTT
12965685 CATTAATTTAATCCA
194 CATTAATTTAATCCA
* * *
12965700 TTCTCTATATCTCATTAAGAAGGCGGATTTGGTCCACTTCTCTGTA-TCTCATCAGGAAGATGGC
1 TTCTCTATATCTCATCAAGAAGACAGATTTGGTCCACTTCTCTGTACTCTCATCAGGAAGATGGC
* * *
12965764 CGCTTTATTGCTTTGACCCACTTCTCTATATCTAATCAGAAAGATGGGGTTTGAAGTTTCATTCG
66 CGCTTTATTACTTTGACCCACTTCTCTATATCTAATCAGAAAGATAGGGTTTGAAGTCTCATTCG
* *
12965829 TATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACTGCTTCA
131 TATTGAGCTTCACTTCATTGATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACTGCTTCA
12965894 T
196 T
12965895 CATTTTGTCA
Statistics
Matches: 177, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
207 134 0.76
208 1 0.01
209 42 0.24
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (208 bp):
TTCTCTATATCTCATCAAGAAGACAGATTTGGTCCACTTCTCTGTACTCTCATCAGGAAGATGGC
CGCTTTATTACTTTGACCCACTTCTCTATATCTAATCAGAAAGATAGGGTTTGAAGTCTCATTCG
TATTGAGCTTCACTTCATTGATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACTGCTTCA
TTAATTTAATCCA
Found at i:12965849 original size:369 final size:367
Alignment explanation
Indices: 12965152--12965882 Score: 1097
Period size: 369 Copynumber: 2.0 Consensus size: 367
12965142 GCTTCATCTC
* * * *
12965152 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATATCGCTTTATTGCTTTGACTCACTTCTCAGTT
1 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATATCGCTTTATTACTTTGACCCACTTCTCAGTA
* * *
12965217 TCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGTTTCATTGATTTGGTCTA
66 TCTCATCAAGAAGATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCATTTCATTGATTTGGTCTA
* * *
12965282 CTTCTCTATATCTCATCAAGAAGATGACCGCCTCATTGTTTCAATCCAGTTCTCTGTATCTTATC
131 CTTCTCTATATCTCATCAAGAAGATGACCGCCTCATTATTTCAATCCAGTTCTCTATATCTCATC
* * *
12965347 AAGAAGGCGAATTTGGTCCACTTCTTTGCATCACATCAGGAAGATGGCCATTTTATTGCTTTGAT
196 AAGAAGGCGAATTTGGTCCACTTCTCTGCATCACATCAGGAAGATGGCCACTTTATTGCTTTGAC
* * *
12965412 CCACTTTTCTACATCTTATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTCAGCTTCACTTCA
261 CCACTTCTCTACATCTAATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTCAGCTTCACTTCA
*
12965477 TTGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGACAGAT
326 TTGATTTGGTCTACTTCTCTATATCTCATCAAGAAGACAGAT
* * * *
12965519 TTGGTCCACTTCTCTGTATCTCTCATCAGGAAGATGGTTGTTTTATTACTTTGACCCACTTCTCT
1 TTGGTCCACTTCTCTGTA--TCTCATCAGGAAGAT-ATCGCTTTATTACTTTGACCCACTTCTCA
*
12965584 GTATCTCATCAAGAAGATAGGGTTTGAAGTCTCATTTGTATTGAGCTTCATTTCATTGATTTGGT
63 GTATCTCATCAAGAAGATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCATTTCATTGATTTGGT
* * *
12965649 CTACTTCTCTGTATCTCATCAAGAAGATGACTGCTTCATTAATTT-AATCCA-TTCTCTATATCT
128 CTACTTCTCTATATCTCATCAAGAAGATGACCGCCTCATT-ATTTCAATCCAGTTCTCTATATCT
* * * * *
12965712 CATTAAGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGGCCGCTTTATTGCTT
192 CATCAAGAAGGCGAATTTGGTCCACTTCTCTGCATCACATCAGGAAGATGGCCACTTTATTGCTT
* * * *
12965777 TGACCCACTTCTCTATATCTAATCAGAAAGATGGGGTTTGAAGTTTCATTCGTATTGAGCTTCGC
257 TGACCCACTTCTCTACATCTAATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTCAGCTTCAC
*
12965842 TTCATTGATTTGGTCTACTTCTCTATATCTCATCAGGAAGA
322 TTCATTGATTTGGTCTACTTCTCTATATCTCATCAAGAAGA
12965883 TGACTGCTTC
Statistics
Matches: 325, Mismatches: 35, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
367 17 0.05
369 179 0.55
370 126 0.39
371 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (367 bp):
TTGGTCCACTTCTCTGTATCTCATCAGGAAGATATCGCTTTATTACTTTGACCCACTTCTCAGTA
TCTCATCAAGAAGATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCATTTCATTGATTTGGTCTA
CTTCTCTATATCTCATCAAGAAGATGACCGCCTCATTATTTCAATCCAGTTCTCTATATCTCATC
AAGAAGGCGAATTTGGTCCACTTCTCTGCATCACATCAGGAAGATGGCCACTTTATTGCTTTGAC
CCACTTCTCTACATCTAATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTCAGCTTCACTTCA
TTGATTTGGTCTACTTCTCTATATCTCATCAAGAAGACAGAT
Found at i:12974338 original size:12 final size:12
Alignment explanation
Indices: 12974318--12974366 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
12974308 CCTCAGTAGG
*
12974318 TTCTTTTCTTCT
1 TTCTCTTCTTCT
*
12974330 TTCTCTTCTGCAT
1 TTCTCTTCTTC-T
12974343 TTC-CTTCTTCT
1 TTCTCTTCTTCT
*
12974354 TTTTCTTCTTCT
1 TTCTCTTCTTCT
12974366 T
1 T
12974367 GTTATTTCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 3 0.10
12 24 0.77
13 4 0.13
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.67
Consensus pattern (12 bp):
TTCTCTTCTTCT
Found at i:12986568 original size:59 final size:58
Alignment explanation
Indices: 12986404--12986733 Score: 281
Period size: 59 Copynumber: 5.5 Consensus size: 58
12986394 CAGAGAATTT
* * * * ***
12986404 AGGGTCAAAATGTAGTTTTTGGAAAATTTGAGGGG-TCAAATGTAATTTTTGGATAA-TCCG
1 AGGGT-AAAATGT-GATTTTGGAAAGTTT-AGGGGTTAAAATGTAATTTTGGGA-AAGTTTA
* * * *
12986464 AGGGTTAAAATGTAACTTTTGGAAAGTTT-GGTGTTAAAATATGATTTTGGGAAAGTTTA
1 AGGG-TAAAATGTGA-TTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTGGGAAAGTTTA
* * * *
12986523 AGGGTCAAATGTGATTTTGGGAAAGTTTAGGGGTCAAAATTTGATTTTGGGAAAGTTTA
1 AGGGTAAAATGTGATTTT-GGAAAGTTTAGGGGTTAAAATGTAATTTTGGGAAAGTTTA
* *
12986582 AGGGTTAAAATCTGATTTTGAGAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTA
1 AGGG-TAAAATGTGATTTTG-GAAAGTTTAGGGGTTAAAATGTAATTTTGGGAAAGTTTA
* * * * * **
12986642 AGGTTAAAATGTAATTTTGGAAACTTTTGGGGGTTAAAATGTAATTTT-AGAAAAATTA
1 AGGGTAAAATGTGATTTTGGAAA-GTTTAGGGGTTAAAATGTAATTTTGGGAAAGTTTA
* *
12986700 GAGGGTCAAAATATGATTTTTAGAAAGTTTAGGG
1 -AGGGT-AAAATGTGA-TTTTGGAAAGTTTAGGG
12986734 ACCTCTTGAG
Statistics
Matches: 221, Mismatches: 37, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
57 4 0.02
58 32 0.14
59 90 0.41
60 86 0.39
61 9 0.04
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (58 bp):
AGGGTAAAATGTGATTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTGGGAAAGTTTA
Found at i:12986641 original size:30 final size:30
Alignment explanation
Indices: 12986401--12986695 Score: 232
Period size: 30 Copynumber: 10.0 Consensus size: 30
12986391 TTTCAGAGAA
* *
12986401 TTTA-GGGTCAAAATGTAGTTTTTGGAAAA-
1 TTTAGGGGTTAAAATGTA-ATTTTGGAAAAG
* *
12986430 TTTGAGGGG-TCAAATGTAATTTTTGGATAA-
1 TTT-AGGGGTTAAAATGTAA-TTTTGGAAAAG
**
12986460 -TCCGAGGGTTAAAATGTAACTTTTGG-AAAG
1 TTTAG-GGGTTAAAATGTAA-TTTTGGAAAAG
* * * *
12986490 TTT-GGTGTTAAAATATGATTTTGGGAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* * * *
12986519 TTTAAGGG-TCAAATGTGATTTTGGGAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* * * *
12986548 TTTAGGGGTCAAAATTTGATTTTGGGAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* * *
12986578 TTTAAGGGTTAAAATCTGATTTT-GAGAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGA-AAAG
12986608 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* **
12986638 TTTA-AGGTTAAAATGTAATTTTGGAAACT
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* *
12986667 TTTGGGGGTTAAAATGTAATTTTAGAAAA
1 TTTAGGGGTTAAAATGTAATTTTGGAAAA
12986696 ATTAGAGGGT
Statistics
Matches: 218, Mismatches: 35, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
28 7 0.03
29 79 0.36
30 126 0.58
31 6 0.03
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (30 bp):
TTTAGGGGTTAAAATGTAATTTTGGAAAAG
Found at i:13001914 original size:37 final size:37
Alignment explanation
Indices: 13001840--13001927 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
13001830 CAAATTTGTG
* * * *
13001840 CCCAAAACTGTCGTCGCATGAGCACTTCCAGATTGCA
1 CCCAAAACTGTCGCCGCAGGAACACTTCCAGAATGCA
* * *
13001877 CCCAAAACTGTCGCCGCAGGAATATTTCCGGAATGCA
1 CCCAAAACTGTCGCCGCAGGAACACTTCCAGAATGCA
* *
13001914 CCCAAGACCGTCGC
1 CCCAAAACTGTCGC
13001928 TGCATTGCAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.27, C:0.34, G:0.20, T:0.18
Consensus pattern (37 bp):
CCCAAAACTGTCGCCGCAGGAACACTTCCAGAATGCA
Found at i:13007099 original size:27 final size:27
Alignment explanation
Indices: 13007069--13007159 Score: 173
Period size: 27 Copynumber: 3.4 Consensus size: 27
13007059 ATTTTTAAGT
*
13007069 CATGACATTAACATGCACTGACTATAC
1 CATGACATTAACATACACTGACTATAC
13007096 CATGACATTAACATACACTGACTATAC
1 CATGACATTAACATACACTGACTATAC
13007123 CATGACATTAACATACACTGACTATAC
1 CATGACATTAACATACACTGACTATAC
13007150 CATGACATTA
1 CATGACATTA
13007160 TTCTTTTGTC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.26
Consensus pattern (27 bp):
CATGACATTAACATACACTGACTATAC
Found at i:13007585 original size:19 final size:19
Alignment explanation
Indices: 13007550--13007597 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
13007540 AATACGTATT
13007550 AAAAATATA-AGATGTAAC
1 AAAAATATATAGATGTAAC
* * *
13007568 AGAAATATATATATGTAAT
1 AAAAATATATAGATGTAAC
13007587 AAAAATATATA
1 AAAAATATATA
13007598 AAAAATAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.29
Consensus pattern (19 bp):
AAAAATATATAGATGTAAC
Found at i:13007884 original size:15 final size:16
Alignment explanation
Indices: 13007808--13007900 Score: 72
Period size: 15 Copynumber: 6.1 Consensus size: 16
13007798 GGTTGTGTTT
* *
13007808 AGTGCGAGAAACGTAA
1 AGTGCAAGAAATGTAA
* *
13007824 A-TGC-ATAAATTTAA
1 AGTGCAAGAAATGTAA
13007838 AGTGCAAGAAATGTAA
1 AGTGCAAGAAATGTAA
*
13007854 ATTG-AAGTAAA-GTAA
1 AGTGCAAG-AAATGTAA
*
13007869 AGTGCAAG-AATTTAA
1 AGTGCAAGAAATGTAA
*
13007884 ATTGCAAGAAA-GTAA
1 AGTGCAAGAAATGTAA
13007899 AG
1 AG
13007901 ATGGTAATCA
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
14 10 0.17
15 30 0.50
16 20 0.33
ACGTcount: A:0.49, C:0.06, G:0.22, T:0.23
Consensus pattern (16 bp):
AGTGCAAGAAATGTAA
Found at i:13007887 original size:30 final size:31
Alignment explanation
Indices: 13007835--13007900 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
13007825 TGCATAAATT
13007835 TAAAGTGCAAGAAATGTAAATTG-AAGTAAAG
1 TAAAGTGCAAGAAATGTAAATTGCAAG-AAAG
*
13007866 TAAAGTGCAAG-AATTTAAATTGCAAGAAAG
1 TAAAGTGCAAGAAATGTAAATTGCAAGAAAG
13007896 TAAAG
1 TAAAG
13007901 ATGGTAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 19 0.58
31 14 0.42
ACGTcount: A:0.52, C:0.05, G:0.21, T:0.23
Consensus pattern (31 bp):
TAAAGTGCAAGAAATGTAAATTGCAAGAAAG
Found at i:13008860 original size:8 final size:10
Alignment explanation
Indices: 13008832--13008861 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13008822 GAAATAGATC
*
13008832 AAGTGTAGAG
1 AAGTGGAGAG
13008842 AAGTGGAGAG
1 AAGTGGAGAG
13008852 AAGTGGAGAG
1 AAGTGGAGAG
13008862 GATCACTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.47, T:0.13
Consensus pattern (10 bp):
AAGTGGAGAG
Found at i:13011004 original size:17 final size:16
Alignment explanation
Indices: 13010935--13011006 Score: 54
Period size: 17 Copynumber: 4.2 Consensus size: 16
13010925 ATAATAATGG
**
13010935 AAATGCAACGACAATGA
1 AAATGCAA-GACAAAAA
* *
13010952 AAATGCTAGAACAAATA
1 AAATGCAAG-ACAAAAA
* *
13010969 AAATGCAGAGGCAATAA
1 AAATGCA-AGACAAAAA
13010986 AAATGCAATGACAAAAA
1 AAATGCAA-GACAAAAA
13011003 AAAT
1 AAAT
13011007 ATGCATGCAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
16 2 0.05
17 39 0.91
18 2 0.05
ACGTcount: A:0.58, C:0.12, G:0.15, T:0.14
Consensus pattern (16 bp):
AAATGCAAGACAAAAA
Found at i:13011440 original size:17 final size:18
Alignment explanation
Indices: 13011392--13011440 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
13011382 GTCGGGGCAA
13011392 CATCTTATTCTTCTTTCTTC
1 CATCTT-TTCTT-TTTCTTC
* *
13011412 CTTCTCTTCTTTTTC-TC
1 CATCTTTTCTTTTTCTTC
13011429 CATCTTTTCTTT
1 CATCTTTTCTTT
13011441 CTTTTTCCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 12 0.48
18 4 0.16
19 5 0.20
20 4 0.16
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (18 bp):
CATCTTTTCTTTTTCTTC
Found at i:13017611 original size:18 final size:18
Alignment explanation
Indices: 13017571--13017611 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
13017561 GCATTCGAAC
13017571 CTGTGGCTACATCTGAGT
1 CTGTGGCTACATCTGAGT
* * *
13017589 ATGTGTCTACATCTGATT
1 CTGTGGCTACATCTGAGT
13017607 CTGTG
1 CTGTG
13017612 ATCGCATCTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (18 bp):
CTGTGGCTACATCTGAGT
Found at i:13022449 original size:7 final size:7
Alignment explanation
Indices: 13022437--13022462 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13022427 GTGAAACTAC
13022437 GTTAGAT
1 GTTAGAT
13022444 GTTAGAT
1 GTTAGAT
13022451 GTTAGAT
1 GTTAGAT
13022458 GTTAG
1 GTTAG
13022463 CAGTAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.42
Consensus pattern (7 bp):
GTTAGAT
Found at i:13027541 original size:2 final size:2
Alignment explanation
Indices: 13027534--13027562 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13027524 CGGCAAAGTA
13027534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13027563 AAGAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13027606 original size:17 final size:17
Alignment explanation
Indices: 13027556--13027612 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
13027546 ATATATATAT
13027556 ATATATAAAGAATAAAA
1 ATATATAAAGAATAAAA
* * *
13027573 ATATAATACATATTAAAA
1 ATAT-ATAAAGAATAAAA
*
13027591 ATATTTAAAGAATAAAA
1 ATATATAAAGAATAAAA
13027608 ATATA
1 ATATA
13027613 AGATGTAATG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
17 17 0.55
18 14 0.45
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (17 bp):
ATATATAAAGAATAAAA
Found at i:13027682 original size:90 final size:92
Alignment explanation
Indices: 13027533--13027700 Score: 209
Period size: 90 Copynumber: 1.8 Consensus size: 92
13027523 ACGGCAAAGT
* * * *
13027533 AATATATATATATATATATATATATATATAAAGAATAAAAATATAATACATATTAAAAATATTTA
1 AATATATATATATATATATATAAATATATAAAGAATAAAAATATAAAAAATATTAAAAATATATA
*
13027598 AAGAATAAAAATATAAGATGTAATGGA
66 AAGAACAAAAATATAAGATGTAATGGA
* * *
13027625 AATATATTTATATGTA-ATA-AAATATATAAAGAATAAAGATA-AACAAAATACTT-AAAATATA
1 AATATATATATATATATATATAAATATATAAAGAATAAAAATATAA-AAAATA-TTAAAAATATA
*
13027686 TAAAGAGCAAAAATA
64 TAAAGAACAAAAATA
13027701 AACTAATTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
89 2 0.03
90 44 0.68
91 5 0.08
92 14 0.22
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (92 bp):
AATATATATATATATATATATAAATATATAAAGAATAAAAATATAAAAAATATTAAAAATATATA
AAGAACAAAAATATAAGATGTAATGGA
Found at i:13027815 original size:2 final size:2
Alignment explanation
Indices: 13027808--13027857 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
13027798 AGTATAATTT
* *
13027808 TA TA TA TA TA GA TA TA TA CA 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
13027850 TA TA TA TA
1 TA TA TA TA
13027858 AGTGCTGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:13027963 original size:15 final size:15
Alignment explanation
Indices: 13027924--13027989 Score: 78
Period size: 15 Copynumber: 4.3 Consensus size: 15
13027914 TGCATAAATT
13027924 TAAAGTGCAAGAAATG
1 TAAAGTGCAAGAAA-G
* *
13027940 TAAATTGCAATAAAG
1 TAAAGTGCAAGAAAG
**
13027955 TAAAGTGCAAGAATT
1 TAAAGTGCAAGAAAG
*
13027970 TAAATTGCAAGAAAG
1 TAAAGTGCAAGAAAG
13027985 TAAAG
1 TAAAG
13027990 ATGGTAATCA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
15 28 0.70
16 12 0.30
ACGTcount: A:0.52, C:0.06, G:0.20, T:0.23
Consensus pattern (15 bp):
TAAAGTGCAAGAAAG
Found at i:13027976 original size:30 final size:31
Alignment explanation
Indices: 13027924--13027989 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 31
13027914 TGCATAAATT
*
13027924 TAAAGTGCAAGAAATGTAAATTGCAATAAAG
1 TAAAGTGCAAGAAATGTAAATTGCAAGAAAG
*
13027955 TAAAGTGCAAG-AATTTAAATTGCAAGAAAG
1 TAAAGTGCAAGAAATGTAAATTGCAAGAAAG
13027985 TAAAG
1 TAAAG
13027990 ATGGTAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 22 0.67
31 11 0.33
ACGTcount: A:0.52, C:0.06, G:0.20, T:0.23
Consensus pattern (31 bp):
TAAAGTGCAAGAAATGTAAATTGCAAGAAAG
Found at i:13032271 original size:42 final size:43
Alignment explanation
Indices: 13032213--13032438 Score: 242
Period size: 43 Copynumber: 5.3 Consensus size: 43
13032203 TTATGAGGAA
* * * *
13032213 AAACGCCACTATAGAACATGGTCTTTAGCGACGCTTTT-CCAA
1 AAACGCCACTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
* * *
13032255 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCAC
1 AAACGCCACTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
* * * *
13032298 GAACGCCGCTAAAGACCATGATTTTTAGCGGCGCTTATT-CCAC
1 AAACGCCACTAAAGAACATGATCTTTAGCGGCGCTT-TTCCCAC
* * *
13032341 AAATGCCACTAAA-AACCATGATCTTTAGCGGCACTTTTCCCGC
1 AAACGCCACTAAAGAA-CATGATCTTTAGCGGCGCTTTTCCCAC
* * * * *
13032384 AAACACCGCTAAACAACATGATCTTTAGTGGCGTTTTTCCCAC
1 AAACGCCACTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
13032427 AAACGCCACTAA
1 AAACGCCACTAA
13032439 TATTAACAAA
Statistics
Matches: 153, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
42 37 0.24
43 112 0.73
44 4 0.03
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (43 bp):
AAACGCCACTAAAGAACATGATCTTTAGCGGCGCTTTTCCCAC
Found at i:13036883 original size:41 final size:41
Alignment explanation
Indices: 13036837--13037279 Score: 681
Period size: 41 Copynumber: 10.8 Consensus size: 41
13036827 GACGTTTTTC
** *
13036837 CCATAAGCGTTGCTATTGCTATGACCTTTAGCGGCGCTTGG
1 CCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGG
* * *
13036878 CCATAAGCGTCGGTATTGCTCTAACCTTTAGCGGCGCTTGG
1 CCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGG
13036919 CCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGG
1 CCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGG
* *
13036960 CCATAAGCGCCGCTATTGCTATGACCTTTAGTGGCGCTTGG
1 CCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGG
* * *
13037001 TCATAAGTGCCGCTATTGCTCTGACCTTTAGCGGCGCTTTG
1 CCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGG
* *
13037042 CCATAAGCGCCGCTATTGCTATGACCTTTAGTGGCGCTTGG
1 CCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGG
*
13037083 CCATAAGCGCCGCTATTGCTCTAACCTTTAGCGGCGCTTGG
1 CCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGG
* *
13037124 CCATAAGCGTCGCTATTGCTATGACCTTTAGCGGCGCTTGG
1 CCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGG
*
13037165 CCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGA
1 CCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGG
* * **
13037206 CCATAAGCGCCGCTATTTCTATGACCTTTAGCGGCGCTTTC
1 CCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGG
*
13037247 CCATAAGCGCCGCTATTGCTCT-ACCTTTTGCGG
1 CCATAAGCGCCGCTATTGCTCTGACCTTTAGCGG
13037280 TGTTTTCTGT
Statistics
Matches: 367, Mismatches: 35, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
40 10 0.03
41 357 0.97
ACGTcount: A:0.16, C:0.29, G:0.25, T:0.30
Consensus pattern (41 bp):
CCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGG
Found at i:13038879 original size:2 final size:2
Alignment explanation
Indices: 13038872--13038911 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
13038862 GGTGAAAAGA
13038872 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13038912 TAGTGTGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13041648 original size:21 final size:21
Alignment explanation
Indices: 13041622--13041673 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
13041612 TGAGACAATA
13041622 CTACCGATACAAGT-ATGACTT
1 CTACCGATACAAGTCATG-CTT
*
13041643 CTACCGGA-ACATGTCATGCTT
1 CTACC-GATACAAGTCATGCTT
*
13041664 CTATCGATAC
1 CTACCGATAC
13041674 TAAAAACTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.08
21 19 0.73
22 5 0.19
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:13046657 original size:54 final size:54
Alignment explanation
Indices: 13046575--13046680 Score: 203
Period size: 54 Copynumber: 2.0 Consensus size: 54
13046565 AGAACTCCCT
13046575 AATTCCCAGAAGGTCGAGGGAGGAAAGACCAAATGGTCAGTTATTATTAGCCCC
1 AATTCCCAGAAGGTCGAGGGAGGAAAGACCAAATGGTCAGTTATTATTAGCCCC
*
13046629 AATTCCCAGAGGGTCGAGGGAGGAAAGACCAAATGGTCAGTTATTATTAGCC
1 AATTCCCAGAAGGTCGAGGGAGGAAAGACCAAATGGTCAGTTATTATTAGCC
13046681 AGAGGATCGT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (54 bp):
AATTCCCAGAAGGTCGAGGGAGGAAAGACCAAATGGTCAGTTATTATTAGCCCC
Found at i:13049640 original size:21 final size:19
Alignment explanation
Indices: 13049603--13049641 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
13049593 ATAGAAGCCA
13049603 TATGAATAATAATAAATTT
1 TATGAATAATAATAAATTT
*
13049622 TATGATATAGTAATTAAATT
1 TATGA-ATAATAA-TAAATT
13049642 GCATAAAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (19 bp):
TATGAATAATAATAAATTT
Found at i:13051037 original size:35 final size:35
Alignment explanation
Indices: 13050991--13051061 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
13050981 TTTTCACAGA
**
13050991 CCTGATAATATGATGTGAAATTGAGAACCAATATT
1 CCTGATAATATGACATGAAATTGAGAACCAATATT
*
13051026 CCTGATAATATGACATGAAATTGAGAACCGATATT
1 CCTGATAATATGACATGAAATTGAGAACCAATATT
13051061 C
1 C
13051062 TCGCTTTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (35 bp):
CCTGATAATATGACATGAAATTGAGAACCAATATT
Found at i:13063793 original size:17 final size:17
Alignment explanation
Indices: 13063771--13063805 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
13063761 AAAGAATGAT
13063771 ATTGGTGATGAGAAGGA
1 ATTGGTGATGAGAAGGA
13063788 ATTGGTGATGAGAAGGA
1 ATTGGTGATGAGAAGGA
13063805 A
1 A
13063806 AATGTCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.40, T:0.23
Consensus pattern (17 bp):
ATTGGTGATGAGAAGGA
Found at i:13067979 original size:29 final size:29
Alignment explanation
Indices: 13067949--13068116 Score: 185
Period size: 29 Copynumber: 5.8 Consensus size: 29
13067939 TTTCGAAGAA
** *
13067949 TTTAGGGTCAAAATGTAATTTTGTAAAAA
1 TTTAGGGTCAAAATGTAATTTTGGGAAAG
* * *
13067978 TTTAGAGGTTAAAATATAATTTTTGGAAAG
1 TTTAG-GGTCAAAATGTAATTTTGGGAAAG
* * *
13068008 TTTAGAGTTAAAATGTGATTTTGGGAAAG
1 TTTAGGGTCAAAATGTAATTTTGGGAAAG
**
13068037 TTTAGGGTTTAAATGTAATTTTGGGAAAG
1 TTTAGGGTCAAAATGTAATTTTGGGAAAG
* *
13068066 TTTGGGGGTCAAAATGT-ACTTTGGGAAAG
1 TTT-AGGGTCAAAATGTAATTTTGGGAAAG
*
13068095 TTTAGGGTCAAAATGTGATTTT
1 TTTAGGGTCAAAATGTAATTTT
13068117 TGGGTAAAAC
Statistics
Matches: 117, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
28 12 0.10
29 72 0.62
30 33 0.28
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (29 bp):
TTTAGGGTCAAAATGTAATTTTGGGAAAG
Found at i:13071791 original size:22 final size:23
Alignment explanation
Indices: 13071753--13071795 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
13071743 TTTTTCTCTT
13071753 TTTCTTAGGTTTTAGTTATTTTC
1 TTTCTTAGGTTTTAGTTATTTTC
13071776 TTTCTTAGG-TTTAGTTATTT
1 TTTCTTAGGTTTTAGTTATTT
13071796 CATTTTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.65
Consensus pattern (23 bp):
TTTCTTAGGTTTTAGTTATTTTC
Found at i:13072715 original size:12 final size:12
Alignment explanation
Indices: 13072698--13072722 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13072688 GAAAAGAGGG
13072698 AGAGAAATGGAA
1 AGAGAAATGGAA
13072710 AGAGAAATGGAA
1 AGAGAAATGGAA
13072722 A
1 A
13072723 ACGATGGTGG
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:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (12 bp):
AGAGAAATGGAA
Found at i:13073727 original size:32 final size:32
Alignment explanation
Indices: 13073689--13073752 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
13073679 GAGGAAGATG
* * *
13073689 AAAAGAAA-AAAGAGAAAAAGAAGGGAAAGTGA
1 AAAAGAAAGAAACA-AAAAAAAAGGAAAAGTGA
13073721 AAAAGAAAGAAACAAAAAAAAAGGAAAAGTGA
1 AAAAGAAAGAAACAAAAAAAAAGGAAAAGTGA
13073753 GAAGGTAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.03
Consensus pattern (32 bp):
AAAAGAAAGAAACAAAAAAAAAGGAAAAGTGA
Found at i:13077958 original size:18 final size:17
Alignment explanation
Indices: 13077921--13077959 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
13077911 TATCCACTTT
*
13077921 TTAAGTGTCAACATTTC
1 TTAAGTGTCAACAGTTC
*
13077938 TTAAGTGTGAACACGTTC
1 TTAAGTGTCAACA-GTTC
13077956 TTAA
1 TTAA
13077960 ATCTTTATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (17 bp):
TTAAGTGTCAACAGTTC
Found at i:13078836 original size:28 final size:30
Alignment explanation
Indices: 13078782--13078837 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 30
13078772 TCTCTCAACA
*
13078782 AAAATTACAAAATAATTAGAAATAATTTTT
1 AAAATTACAAAATAATTAGAAAAAATTTTT
13078812 AAAATT-CAAAAT-ATTA-ATAAAAATTT
1 AAAATTACAAAATAATTAGA-AAAAATTT
13078838 AAAAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 1 0.04
28 11 0.46
29 6 0.25
30 6 0.25
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (30 bp):
AAAATTACAAAATAATTAGAAAAAATTTTT
Found at i:13078877 original size:16 final size:15
Alignment explanation
Indices: 13078847--13078875 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13078837 TAAAAATTTA
13078847 TATTTTTAAAAAAAT
1 TATTTTTAAAAAAAT
13078862 TATTTTTAAAAAAA
1 TATTTTTAAAAAAA
13078876 ATATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTTTAAAAAAAT
Found at i:13080806 original size:23 final size:23
Alignment explanation
Indices: 13080780--13080829 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
13080770 GGCTAGTTAG
13080780 AATGTGCCATAAAGGCCAAACAA
1 AATGTGCCATAAAGGCCAAACAA
* * * *
13080803 AATGTTCCATGAAGGCCTAACAG
1 AATGTGCCATAAAGGCCAAACAA
13080826 AATG
1 AATG
13080830 CCACCTAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (23 bp):
AATGTGCCATAAAGGCCAAACAA
Found at i:13083996 original size:29 final size:28
Alignment explanation
Indices: 13083963--13084063 Score: 89
Period size: 28 Copynumber: 3.6 Consensus size: 28
13083953 TCCCTTTTGC
13083963 ATAAATAGCCACAAAGGCATCCTTGAACA
1 ATAAATAGCCACAAAGGCATCCTT-AACA
* * *
13083992 ATAAATAGTCATAGAGGCATCCTTAGACA
1 ATAAATAGCCACAAAGGCATCCTTA-ACA
* * **
13084021 A-AGATAGCCATAAAGGTTTCCTTAA-A
1 ATAAATAGCCACAAAGGCATCCTTAACA
*
13084047 AAAAGATAGCCACAAAG
1 ATAA-ATAGCCACAAAG
13084064 ACACTTCTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
26 2 0.03
27 2 0.03
28 30 0.51
29 25 0.42
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.20
Consensus pattern (28 bp):
ATAAATAGCCACAAAGGCATCCTTAACA
Found at i:13084169 original size:29 final size:29
Alignment explanation
Indices: 13084128--13084205 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
13084118 CTTCATTATT
** *
13084128 AGAATCAGTCACAAAGGCTTTCATATAAC
1 AGAATCAACCACAAAGGCTTACATATAAC
* * * * *
13084157 AGAGTTAGCCACAAAGACTCACATATAAC
1 AGAATCAACCACAAAGGCTTACATATAAC
13084186 AGAATCAACCACAAAGGCTT
1 AGAATCAACCACAAAGGCTT
13084206 CCTTTTTCGA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.44, C:0.23, G:0.14, T:0.19
Consensus pattern (29 bp):
AGAATCAACCACAAAGGCTTACATATAAC
Found at i:13084415 original size:15 final size:15
Alignment explanation
Indices: 13084395--13084430 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
13084385 CACCAGACTA
13084395 GGTCTTACATTATAT
1 GGTCTTACATTATAT
13084410 GGTCTTACATTATAT
1 GGTCTTACATTATAT
13084425 GGTCTT
1 GGTCTT
13084431 CAATTGCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (15 bp):
GGTCTTACATTATAT
Found at i:13091015 original size:26 final size:26
Alignment explanation
Indices: 13090947--13091006 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
13090937 CCCCGAATAG
* * *
13090947 CAAGCTTTGTGCCAGTGAAAATCTAT
1 CAAGCTTTTTACCGGTGAAAATCTAT
* *
13090973 CAGGCTTTTTACCGGTGAATATCTAT
1 CAAGCTTTTTACCGGTGAAAATCTAT
13090999 CAAGCTTT
1 CAAGCTTT
13091007 ATTCTGGTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (26 bp):
CAAGCTTTTTACCGGTGAAAATCTAT
Found at i:13091190 original size:98 final size:97
Alignment explanation
Indices: 13091017--13091207 Score: 283
Period size: 98 Copynumber: 2.0 Consensus size: 97
13091007 ATTCTGGTGT
* *
13091017 TTATCTAACAGGTACTATGTACTGGTGATATAGACCGTAGCGATGGCTTGAGATTCTACATGCGT
1 TTATCTAACAGGTACTATGTACCGGTGATACAGACCGTAGCGATGGCTTGAGATTCTACATGCGT
* * *
13091082 TGCGGGTTCTTTGTAGCTTGTGTGAGCAGATGA
66 TGCAGATTCTTTGCAGCTTGTG-GAGCAGATGA
* * * *
13091115 TTATCTAGCAGGTATTATGTACCGGTGATACAGACCGTAGCGATGGCTTGAGATTCTGCATGTGT
1 TTATCTAACAGGTACTATGTACCGGTGATACAGACCGTAGCGATGGCTTGAGATTCTACATGCGT
*
13091180 TGCATATTCTTTGCAGCTTGTGGAGCAG
66 TGCAGATTCTTTGCAGCTTGTGGAGCAG
13091208 CATCGTTATT
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
97 6 0.07
98 77 0.93
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (97 bp):
TTATCTAACAGGTACTATGTACCGGTGATACAGACCGTAGCGATGGCTTGAGATTCTACATGCGT
TGCAGATTCTTTGCAGCTTGTGGAGCAGATGA
Found at i:13096142 original size:16 final size:17
Alignment explanation
Indices: 13096101--13096140 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
13096091 TTTTCATTTC
13096101 ATTTTATTTATTTATCT
1 ATTTTATTTATTTATCT
13096118 A-TTTATTTATTT-T-T
1 ATTTTATTTATTTATCT
13096132 ATTTTATTT
1 ATTTTATTT
13096141 TACTAACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 8 0.36
16 11 0.50
17 1 0.05
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
ATTTTATTTATTTATCT
Found at i:13100075 original size:21 final size:21
Alignment explanation
Indices: 13100028--13100083 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
13100018 GTTGGGAAGG
*
13100028 TTCTACCGATACAAGTATGAC
1 TTCTACTGATACAAGTATGAC
* * *
13100049 TACTACTGATACAATTATTAC
1 TTCTACTGATACAAGTATGAC
*
13100070 TTCTACTAATACAA
1 TTCTACTGATACAA
13100084 CCAACTCTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (21 bp):
TTCTACTGATACAAGTATGAC
Found at i:13112189 original size:17 final size:16
Alignment explanation
Indices: 13112163--13112202 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
13112153 CCCCTCAGTC
13112163 GAAAAAAAAGAGAAAA
1 GAAAAAAAAGAGAAAA
*
13112179 GAAAGAAAAAGATAAAA
1 GAAA-AAAAAGAGAAAA
13112196 GAAAAAA
1 GAAAAAA
13112203 TATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (16 bp):
GAAAAAAAAGAGAAAA
Found at i:13114109 original size:13 final size:14
Alignment explanation
Indices: 13114091--13114120 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13114081 GTCAATGCAA
13114091 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
13114104 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
13114118 TCA
1 TCA
13114121 ATGTATTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:13115328 original size:27 final size:28
Alignment explanation
Indices: 13115256--13115321 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
13115246 AACAAGAATT
13115256 TAAACTAACTAGCAATGAGTTGGAAAATA
1 TAAA-TAACTAGCAATGAGTTGGAAAATA
13115285 TAAATAACTAGCAATGAGTTGGAAAATA
1 TAAATAACTAGCAATGAGTTGGAAAATA
13115313 TAAA-AACTA
1 TAAATAACTA
13115322 AGTATGAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 5 0.14
28 28 0.76
29 4 0.11
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (28 bp):
TAAATAACTAGCAATGAGTTGGAAAATA
Found at i:13118644 original size:21 final size:19
Alignment explanation
Indices: 13118608--13118653 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
13118598 TGCAAGTTAT
13118608 TTGAAACAACAAAAGTTAAA
1 TTGAAACAACAAAAG-TAAA
*
13118628 TTGAAACAAATAAAAGTAAA
1 TTGAAAC-AACAAAAGTAAA
*
13118648 TAGAAA
1 TTGAAA
13118654 AATGCGTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.63, C:0.07, G:0.11, T:0.20
Consensus pattern (19 bp):
TTGAAACAACAAAAGTAAA
Found at i:13124633 original size:14 final size:14
Alignment explanation
Indices: 13124609--13124642 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
13124599 GTCAATGCAA
13124609 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
13124622 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
13124636 TCA-AGGT
1 TCAGAGGT
13124643 ACTGAGTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.29
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:13131746 original size:20 final size:21
Alignment explanation
Indices: 13131702--13131746 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
13131692 GGAAATTTGG
*
13131702 TATTTTATTTTGGAAGTTTAAT
1 TATTTTATTTT-GAAATTTAAT
*
13131724 TATTTTATTTT-AAATTTAGT
1 TATTTTATTTTGAAATTTAAT
13131744 TAT
1 TAT
13131747 AGACTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (21 bp):
TATTTTATTTTGAAATTTAAT
Found at i:13137761 original size:1 final size:1
Alignment explanation
Indices: 13137757--13137794 Score: 67
Period size: 1 Copynumber: 38.0 Consensus size: 1
13137747 AGACTTTCCT
*
13137757 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCACCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
13137795 AGGCCGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.03, C:0.97, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:13138687 original size:45 final size:45
Alignment explanation
Indices: 13138620--13138708 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
13138610 GTGGTTACTG
* *
13138620 TTGTTTAAGAGTGTATTGTATATACTTCTCT-TGAATGTTGATTTC
1 TTGTTTAAGAGTGTAGTATATATACTTCTCTAT-AATGTTGATTTC
*
13138665 TTGTTTAAGAGTGTAGTATATATACTTTTCTATAATGTTGATTT
1 TTGTTTAAGAGTGTAGTATATATACTTCTCTATAATGTTGATTT
13138709 TTTTTTGTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 39 0.98
46 1 0.03
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.52
Consensus pattern (45 bp):
TTGTTTAAGAGTGTAGTATATATACTTCTCTATAATGTTGATTTC
Found at i:13150844 original size:33 final size:33
Alignment explanation
Indices: 13150798--13150864 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
13150788 ATCTTTATGC
* *
13150798 CTTAAATTGAAAATGAT-TTTTATAAAGGGGGAG
1 CTTAAATTCAAAATG-TCTTTTATAAAGGAGGAG
*
13150831 CTTAAATTCAAAATGTCTTTTATTAAGGAGGAG
1 CTTAAATTCAAAATGTCTTTTATAAAGGAGGAG
13150864 C
1 C
13150865 AATTATTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.34
Consensus pattern (33 bp):
CTTAAATTCAAAATGTCTTTTATAAAGGAGGAG
Found at i:13160867 original size:16 final size:16
Alignment explanation
Indices: 13160848--13160878 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13160838 TAATTTAGAT
13160848 TTATATAATTATTATA
1 TTATATAATTATTATA
*
13160864 TTATATTATTATTAT
1 TTATATAATTATTAT
13160879 TTTGATAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATATAATTATTATA
Found at i:13163235 original size:11 final size:11
Alignment explanation
Indices: 13163219--13163243 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13163209 CAAAACAATA
13163219 ATTTTTTCTAG
1 ATTTTTTCTAG
13163230 ATTTTTTCTAG
1 ATTTTTTCTAG
13163241 ATT
1 ATT
13163244 AATAAGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (11 bp):
ATTTTTTCTAG
Found at i:13163835 original size:59 final size:59
Alignment explanation
Indices: 13163707--13163861 Score: 233
Period size: 58 Copynumber: 2.6 Consensus size: 59
13163697 GTGTCGGCCA
**
13163707 TCTCGAG-AAAAAATTCAAACTTTTTTGTGTTGGCCATCAAATGGCCGACACCCCCAGT
1 TCTCGAGAAAAAAATTCAATTTTTTTTGTGTTGGCCATCAAATGGCCGACACCCCCAGT
* *
13163765 TCTCGAGAAAAAAATTCAATTTTTTTTGTGTT-GCCATCAAATGGCCGACACCTCCTGT
1 TCTCGAGAAAAAAATTCAATTTTTTTTGTGTTGGCCATCAAATGGCCGACACCCCCAGT
* *
13163823 TCTTGAGAAAAAAATTCAAATTTTTTTGGTGTTGGCCAT
1 TCTCGAGAAAAAAATTC-AATTTTTTTTGTGTTGGCCAT
13163862 TTCAAATTTT
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
58 47 0.53
59 36 0.41
60 5 0.06
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (59 bp):
TCTCGAGAAAAAAATTCAATTTTTTTTGTGTTGGCCATCAAATGGCCGACACCCCCAGT
Found at i:13163871 original size:25 final size:25
Alignment explanation
Indices: 13163837--13163886 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
13163827 GAGAAAAAAA
13163837 TTCAAATTTTTTTGGTGTTGGCCAT
1 TTCAAATTTTTTTGGTGTTGGCCAT
13163862 TTCAAATTTTTTTGGTGTTGGCCAT
1 TTCAAATTTTTTTGGTGTTGGCCAT
13163887 CAAATGGCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.12, G:0.20, T:0.52
Consensus pattern (25 bp):
TTCAAATTTTTTTGGTGTTGGCCAT
Found at i:13163889 original size:23 final size:24
Alignment explanation
Indices: 13163836--13163891 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 24
13163826 TGAGAAAAAA
13163836 ATTCAAATTTTTTTGGTGTTGGCC
1 ATTCAAATTTTTTTGGTGTTGGCC
13163860 ATTTCAAATTTTTTTGGTGTTGGCC
1 A-TTCAAATTTTTTTGGTGTTGGCC
13163885 A-TCAAAT
1 ATTCAAAT
13163892 GGCCGACACC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.19
24 1 0.03
25 24 0.77
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.48
Consensus pattern (24 bp):
ATTCAAATTTTTTTGGTGTTGGCC
Found at i:13163920 original size:85 final size:86
Alignment explanation
Indices: 13163782--13163948 Score: 284
Period size: 85 Copynumber: 2.0 Consensus size: 86
13163772 AAAAAAATTC
* * *
13163782 AATTTTTTTTGTGTTGCCATCAAATGGCCGACACCTCCTGTTCTTGAG-AAAAAAATTCAAATTT
1 AATTTTTTTGGTGTTGCCATCAAATGGCCGACACCCCCTGTTCTGGAGAAAAAAAATTCAAATTT
13163846 TTTT-GGTGTTGGCCATTTCA
66 TTTTGGGTGTTGGCCATTTCA
13163866 AATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTGGAGAAAAAAAATTCAAATT
1 AATTTTTTTGGTGTT-GCCATCAAATGGCCGACACCCCCTGTTCTGGAGAAAAAAAATTCAAATT
13163931 TTTTTGGGTGTTGGCCAT
65 TTTTTGGGTGTTGGCCAT
13163949 CAAATGGCCG
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
84 14 0.18
85 31 0.40
86 20 0.26
87 12 0.16
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (86 bp):
AATTTTTTTGGTGTTGCCATCAAATGGCCGACACCCCCTGTTCTGGAGAAAAAAAATTCAAATTT
TTTTGGGTGTTGGCCATTTCA
Found at i:13163981 original size:61 final size:61
Alignment explanation
Indices: 13163862--13164009 Score: 219
Period size: 61 Copynumber: 2.4 Consensus size: 61
13163852 TGTTGGCCAT
*
13163862 TTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTGGAGAAAAAAAA
1 TTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTCGAGAAAAAAAA
* *
13163923 TTCAAATTTTTTTGGGTGTTGGCCATCAAATGGCCGACA-CCTCTTTTCTCGA-ATAAAAAAA
1 TTCAAATTTTTTT-GGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTCGAGA-AAAAAAA
*
13163984 TTCCAAATTTTTTTGGTGTTGACCAT
1 TT-CAAATTTTTTTGGTGTTGGCCAT
13164010 GGCCGACACC
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
60 1 0.01
61 43 0.54
62 36 0.45
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (61 bp):
TTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTCGAGAAAAAAAA
Found at i:13167787 original size:12 final size:12
Alignment explanation
Indices: 13167745--13167792 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
13167735 ATTTGTGTAA
*
13167745 AAATTAATTTGA
1 AAATTAATTTGG
13167757 AAATTAATTTAAGTTG
1 AAATTAATTT--G--G
13167773 AAATTAATTTGG
1 AAATTAATTTGG
13167785 AAATTAAT
1 AAATTAAT
13167793 GAACATGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 19 0.61
14 2 0.06
16 10 0.32
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (12 bp):
AAATTAATTTGG
Found at i:13167852 original size:22 final size:22
Alignment explanation
Indices: 13167800--13167852 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
13167790 AATGAACATG
*
13167800 TTTAAATTTAAATAATTTAAAC
1 TTTAAAATTAAATAATTTAAAC
* * *
13167822 TTCATAATTATATAAGTTTAAA-
1 TTTAAAATTAAATAA-TTTAAAC
13167844 TTTAAAATT
1 TTTAAAATT
13167853 TTACTTTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTAAAATTAAATAATTTAAAC
Found at i:13168211 original size:82 final size:82
Alignment explanation
Indices: 13167924--13168441 Score: 708
Period size: 82 Copynumber: 6.3 Consensus size: 82
13167914 AAAATAGTTA
* * * * * *
13167924 TTATATTACAATTTATATCAAATATTGTATTAATTTGACAATACATTATTTATCAAATTTTCATA
1 TTATATTACAATTTTTATCATATAATGTCTTGATTTGACAATACATTATTTAT-TAATTTT-ATA
13167989 --TTTAAAGTACAAATTATTATTATT
64 TCTTTAAA-TA-AAA--A--ATT-TT
* * * *
13168013 ATTATATTATAATTTTTATCATATAATGTGTTGATTTGATAATACAATATTTATTAATTTTATAT
1 -TTATATTACAATTTTTATCATATAATGTCTTGATTTGACAATACATTATTTATTAATTTTATAT
*
13168078 CTTTAAAT--AAATTTTT
65 CTTTAAATAAAAAATTTT
*
13168094 TTATATTATAATTTTTATCATATAATGTCTTGATTTGACAATACATTATTTATTAATTTTATATC
1 TTATATTACAATTTTTATCATATAATGTCTTGATTTGACAATACATTATTTATTAATTTTATATC
*
13168159 TTTAAATAAAAAAATTT
66 TTTAAATAAAAAATTTT
*
13168176 TTATATTACAATTTTTATCATATAATATCTTGATTTGACAATACATTATTTATTAATTTTATATC
1 TTATATTACAATTTTTATCATATAATGTCTTGATTTGACAATACATTATTTATTAATTTTATATC
*
13168241 CTTAAAT-AAAAATTTT
66 TTTAAATAAAAAATTTT
*
13168257 TTATATTACAATTTTTATCATATAATGTCTTAATTTGACAATACATTATTTATTAATTTTATATC
1 TTATATTACAATTTTTATCATATAATGTCTTGATTTGACAATACATTATTTATTAATTTTATATC
**
13168322 TTTAAATAAAATTTTTT
66 TTTAAATAAAAAATTTT
*
13168339 TTATATTACAATTTTTATCATATAATGTCTTGATTTGACAATATATTATTTATTAATTTTATATC
1 TTATATTACAATTTTTATCATATAATGTCTTGATTTGACAATACATTATTTATTAATTTTATATC
*
13168404 TTTAAAT--AAATTTTT
66 TTTAAATAAAAAATTTT
*
13168419 TTATATTATAATTTTTATCATAT
1 TTATATTACAATTTTTATCATAT
13168442 TTGATATTTA
Statistics
Matches: 395, Mismatches: 28, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
80 98 0.25
81 79 0.20
82 154 0.39
84 1 0.00
86 2 0.01
88 3 0.01
89 7 0.02
90 51 0.13
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (82 bp):
TTATATTACAATTTTTATCATATAATGTCTTGATTTGACAATACATTATTTATTAATTTTATATC
TTTAAATAAAAAATTTT
Found at i:13168316 original size:163 final size:162
Alignment explanation
Indices: 13167924--13168441 Score: 743
Period size: 163 Copynumber: 3.1 Consensus size: 162
13167914 AAAATAGTTA
* * * * *
13167924 TTATATTACAATTTATATCAAATATTGTATTAATTTGACAATACATTATTTATCAAATTTTCATA
1 TTATATTACAATTTTTATCATATAATGTCTTAATTTGACAATACATTATTTAT-TAATTTT-ATA
* * *
13167989 --TTTAAAGTACAAATTATTATTATTATTATATTATAATTTTTATCATATAATGTGTTGATTTGA
64 TCTTTAAA-TA-AAA--A--A--ATTTTTATATTACAATTTTTATCATATAATGTCTTGATTTGA
* *
13168052 TAATACAATATTTATTAATTTTATATCTTTAAATAAATTTTT
121 CAATACATTATTTATTAATTTTATATCTTTAAATAAATTTTT
* *
13168094 TTATATTATAATTTTTATCATATAATGTCTTGATTTGACAATACATTATTTATTAATTTTATATC
1 TTATATTACAATTTTTATCATATAATGTCTTAATTTGACAATACATTATTTATTAATTTTATATC
*
13168159 TTTAAATAAAAAAATTTTTATATTACAATTTTTATCATATAATATCTTGATTTGACAATACATTA
66 TTTAAATAAAAAAATTTTTATATTACAATTTTTATCATATAATGTCTTGATTTGACAATACATTA
* *
13168224 TTTATTAATTTTATATCCTTAAATAAAAATTTT
131 TTTATTAATTTTATATCTTTAAAT-AAATTTTT
13168257 TTATATTACAATTTTTATCATATAATGTCTTAATTTGACAATACATTATTTATTAATTTTATATC
1 TTATATTACAATTTTTATCATATAATGTCTTAATTTGACAATACATTATTTATTAATTTTATATC
*** *
13168322 TTTAAATAAAATTTTTTTTATATTACAATTTTTATCATATAATGTCTTGATTTGACAATATATTA
66 TTTAAATAAAAAAATTTTTATATTACAATTTTTATCATATAATGTCTTGATTTGACAATACATTA
13168387 TTTATTAATTTTATATCTTTAAATAAATTTTT
131 TTTATTAATTTTATATCTTTAAATAAATTTTT
*
13168419 TTATATTATAATTTTTATCATAT
1 TTATATTACAATTTTTATCATAT
13168442 TTGATATTTA
Statistics
Matches: 320, Mismatches: 25, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
162 98 0.31
163 153 0.48
164 1 0.00
166 1 0.00
168 6 0.02
169 8 0.03
170 53 0.17
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (162 bp):
TTATATTACAATTTTTATCATATAATGTCTTAATTTGACAATACATTATTTATTAATTTTATATC
TTTAAATAAAAAAATTTTTATATTACAATTTTTATCATATAATGTCTTGATTTGACAATACATTA
TTTATTAATTTTATATCTTTAAATAAATTTTT
Found at i:13173564 original size:127 final size:127
Alignment explanation
Indices: 13173338--13173588 Score: 292
Period size: 127 Copynumber: 2.0 Consensus size: 127
13173328 TTTAAACCTA
* * * * *
13173338 CACCAATTGAATTAGTAAAACCTAAAATTTATCACTTAATCAAAGCTTCATTTTAATATAATTTT
1 CACCAATTGAATTAGTAAAAACTAAAATTTACCACTCAACCAAAGCTTCATTTTAATATAATTTA
* * * * *
13173403 TATTTATTTATTTTAATATGTATAATGTATTATCTCCCT-AAGTTGCATATATTAGTAATGTG
66 TAATTATTTATTTTAATATGCACAATGTATTATCTCCATCAA-TTGCATATATTAATAATGTG
* * * * *
13173465 CACCAATTGGATTGGTAAAAACTTAAATTTACCACTCAACCAAAGCTTCATTTTGATAT-GTTTA
1 CACCAATTGAATTAGTAAAAACTAAAATTTACCACTCAACCAAAGCTTCATTTTAATATAATTT-
* * *
13173529 ATACATT-TTTATTTTAATATGCACAATTTGTTATCTCCATCAATTGTATATATTAATAAT
65 ATA-ATTATTTATTTTAATATGCACAATGTATTATCTCCATCAATTGCATATATTAATAAT
13173589 TTAGGTAAAT
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
126 3 0.03
127 96 0.93
128 4 0.04
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.43
Consensus pattern (127 bp):
CACCAATTGAATTAGTAAAAACTAAAATTTACCACTCAACCAAAGCTTCATTTTAATATAATTTA
TAATTATTTATTTTAATATGCACAATGTATTATCTCCATCAATTGCATATATTAATAATGTG
Found at i:13173825 original size:14 final size:14
Alignment explanation
Indices: 13173806--13173836 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13173796 AGAATAAATC
13173806 TTTAATTAAATAAA
1 TTTAATTAAATAAA
*
13173820 TTTAATTAATTAAA
1 TTTAATTAAATAAA
13173834 TTT
1 TTT
13173837 TTTAAACCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAATTAAATAAA
Found at i:13175053 original size:327 final size:327
Alignment explanation
Indices: 13174456--13175058 Score: 779
Period size: 327 Copynumber: 1.8 Consensus size: 327
13174446 GTCACAAGTC
* * *
13174456 AACTCGACGCTAACTCACAATTAATGACAACACCATGATAAATAATTGTAGTGCATTTATTATTG
1 AACTCGACACTAACTCACAATTAATGACAACACCATGATAAATAATTGTAATGCATTTAGTATTG
* *
13174521 TTAATATGATGTATTTAAGTGTTTAAATTTCGTTTTACTCACAATTTAATCATTTTTTATTTTAA
66 TTAATATGATGTATTTAAGTGTTTAAATTTCGTTTTAATCACAATTTAATCAATTTTTATTTTAA
* *
13174586 TATCTTATATATTTCATGTGTGATTATGATTAATTAGTTCCAAAATATACATTTCATTATCTATT
131 TATCTTACATATTTCATGTGTGATTATAATTAATTA-TT-C-AAATATACATTTCATTATCTATT
* * * * *
13174651 GTATGCTAATTTTAAACACACATCTATGTTCAAAATCCATGATTTCCACACTCATACGCGTGTGA
193 GAATGCTAATTTTAAACACACAACTATGTTCAAAATACATGATTTCCACACTCATACACGTGTAA
13174716 TAAGATTTCTAGTATAAATAATGTTGTTAATTGCATTAATAACGTTTTTAATTGAGTTGGTGCCA
258 TAAGATTTCTAGTATAAATAATGTTGTTAATTGCATTAATAACGTTTTTAATTGAGTTGGTGCCA
13174781 TAGGT
323 TAGGT
* ** * *
13174786 AACTCGACACTAACTCACAGTTAATGACAA-TTCATGATAAATAGTTGTAATTCATTTAGTATTG
1 AACTCGACACTAACTCACAATTAATGACAACACCATGATAAATAATTGTAATGCATTTAGTATTG
* * * * * *
13174850 TTAATTTGATGTATTTATGTGTTTATATTTTGTTTTAATTATAATTTAATCTAATTTTTATTTTA
66 TTAATATGATGTATTTAAGTGTTTAAATTTCGTTTTAATCACAATTTAATC-AATTTTTATTTTA
* * *
13174915 ATAT-TGTACATATTTTATGTGTTATTATTAATTAATT-TT-AAATCATACATTTCATTATTTAT
130 ATATCT-TACATATTTCATGTGTGATTA-TAATTAATTATTCAAAT-ATACATTTCATTATCTAT
* * ** *
13174977 TGAATGCTACTTTTAAACACA-AACATATGTTCTAAATATGTGGTTTCCACA--CATAAGCACGT
192 TGAATGCTAATTTTAAACACACAAC-TATGTTCAAAATACATGATTTCCACACTCAT-A-CACGT
*
13175039 GTAATAATATTTCTAGTATA
254 GTAATAAGATTTCTAGTATA
13175059 TATATAACTA
Statistics
Matches: 234, Mismatches: 32, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
325 3 0.01
326 7 0.03
327 79 0.34
329 75 0.32
330 62 0.26
331 8 0.03
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (327 bp):
AACTCGACACTAACTCACAATTAATGACAACACCATGATAAATAATTGTAATGCATTTAGTATTG
TTAATATGATGTATTTAAGTGTTTAAATTTCGTTTTAATCACAATTTAATCAATTTTTATTTTAA
TATCTTACATATTTCATGTGTGATTATAATTAATTATTCAAATATACATTTCATTATCTATTGAA
TGCTAATTTTAAACACACAACTATGTTCAAAATACATGATTTCCACACTCATACACGTGTAATAA
GATTTCTAGTATAAATAATGTTGTTAATTGCATTAATAACGTTTTTAATTGAGTTGGTGCCATAG
GT
Found at i:13179767 original size:87 final size:87
Alignment explanation
Indices: 13179572--13179760 Score: 306
Period size: 87 Copynumber: 2.2 Consensus size: 87
13179562 TGTATCTTAT
* * *
13179572 TGTCAATCATTGTCACAATAGTGAGAAGTTTTTATACCATAAACCATATTGTCAACCAATATGAT
1 TGTCAATCATTGTCACAATAGCGAGAAGTTTCTATACCATAAACCATATTGTCAACCAATACGAT
*
13179637 GCAAACAAAAACAAAAATATAA
66 GCAAACAAAAACAAAAACATAA
* * *
13179659 TGTCAATCATTGTCACAATAGCGAGAAGTTTCTATACCATAAATCATATTGTCAACCAATGCGGT
1 TGTCAATCATTGTCACAATAGCGAGAAGTTTCTATACCATAAACCATATTGTCAACCAATACGAT
13179724 GCAAACAAAAACAAAAACATAA
66 GCAAACAAAAACAAAAACATAA
*
13179746 TGTCAATCATAGTCA
1 TGTCAATCATTGTCA
13179761 TTATAGCAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 94 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (87 bp):
TGTCAATCATTGTCACAATAGCGAGAAGTTTCTATACCATAAACCATATTGTCAACCAATACGAT
GCAAACAAAAACAAAAACATAA
Found at i:13184648 original size:51 final size:48
Alignment explanation
Indices: 13184578--13184690 Score: 127
Period size: 51 Copynumber: 2.3 Consensus size: 48
13184568 AAAAAATCTT
* *
13184578 AAAATCTATTTTAAAACTTAATATTAAAAATTAAGAAAATATAAAATATAA
1 AAAATCTAATTT-ACACTTAATATTAAAAATTAA-AAAATATAAAAT-TAA
* * * *
13184629 AAAATTCTAATTTACACTTAATATTAAAATTTTAAAAATCTAAAATTGA
1 AAAA-TCTAATTTACACTTAATATTAAAAATTAAAAAATATAAAATTAA
*
13184678 AAGATCTAATTTA
1 AAAATCTAATTTA
13184691 GAACCTAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
48 9 0.17
49 5 0.09
50 11 0.20
51 22 0.41
52 7 0.13
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (48 bp):
AAAATCTAATTTACACTTAATATTAAAAATTAAAAAATATAAAATTAA
Found at i:13184733 original size:78 final size:78
Alignment explanation
Indices: 13184645--13184798 Score: 247
Period size: 78 Copynumber: 2.0 Consensus size: 78
13184635 CTAATTTACA
** *
13184645 CTTAATATTAAAATTTTAAAAATCTAAAATTGAA-AGATCTAATTTAGAACCTAATATCAAAACC
1 CTTAATATTAAAATACTAAAAATCTAAAATCGAACA-ATCTAATTTAGAACCTAATATCAAAACC
*
13184709 TAAAATCTAAAAAG
65 CAAAATCTAAAAAG
*
13184723 CTTAATATTAAAATACTAAAAATCTAAAATCGAACAATTTAATTTAGAACCTAATATCAAAACCC
1 CTTAATATTAAAATACTAAAAATCTAAAATCGAACAATCTAATTTAGAACCTAATATCAAAACCC
13184788 AAAATCTAAAA
66 AAAATCTAAAA
13184799 TCTAAAAAGT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
78 69 0.99
79 1 0.01
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.29
Consensus pattern (78 bp):
CTTAATATTAAAATACTAAAAATCTAAAATCGAACAATCTAATTTAGAACCTAATATCAAAACCC
AAAATCTAAAAAG
Found at i:13184831 original size:97 final size:93
Alignment explanation
Indices: 13184718--13184948 Score: 295
Period size: 97 Copynumber: 2.4 Consensus size: 93
13184708 CTAAAATCTA
*
13184718 AAAAGCTTAATATTAAAATACTAAAAATCTAAAATCGAACA-ATTTAATTTAGAACCTAATATCA
1 AAAA-CTTAATATTAAAAT-CTAAAAATCTAAAATCGAA-ATATTTAATTTAAAACCTAATATCA
*
13184782 AAACCCAAAATCTAAAATCTAAAAAGTCTAATTT
63 AAACCCAAAATCTAAAATAT-AAAA-T-TAATTT
* *
13184816 AAAACTTAATATTAAAATCTTAAAAATCTAAAATTGAAATTTTTAATTTAAAACCTAATATCAAA
1 AAAACTTAATATTAAAATC-TAAAAATCTAAAATCGAAATATTTAATTTAAAACCTAATATCAAA
*
13184881 ACCCAAAATCTAAAATATAAGATTAATTT
65 ACCCAAAATCTAAAATATAAAATTAATTT
* * *
13184910 GAAA-TATAATATTAAAATCTAAAAAATTTAAAATTGAAA
1 AAAACT-TAATATTAAAATCT-AAAAATCTAAAATCGAAA
13184949 GATCTAAATT
Statistics
Matches: 122, Mismatches: 7, Indels: 12
0.87 0.05 0.09
Matches are distributed among these distances:
93 2 0.02
94 39 0.32
95 1 0.01
96 5 0.04
97 71 0.58
98 4 0.03
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (93 bp):
AAAACTTAATATTAAAATCTAAAAATCTAAAATCGAAATATTTAATTTAAAACCTAATATCAAAA
CCCAAAATCTAAAATATAAAATTAATTT
Found at i:13186953 original size:21 final size:22
Alignment explanation
Indices: 13186929--13186969 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13186919 TTTGAAGGAA
*
13186929 AAAGAAAGAAAAAA-GAGAAAG
1 AAAGAAAAAAAAAAGGAGAAAG
13186950 AAAGAAAAAAAAAAGGAGAA
1 AAAGAAAAAAAAAAGGAGAA
13186970 GAAGGTGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAAAAAAGGAGAAAG
Found at i:13187152 original size:18 final size:18
Alignment explanation
Indices: 13187129--13187163 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13187119 GGAAGAAATG
13187129 TAAGTTTAATTAATTTTT
1 TAAGTTTAATTAATTTTT
**
13187147 TAAGTTTGGTTAATTTT
1 TAAGTTTAATTAATTTT
13187164 AAATTTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (18 bp):
TAAGTTTAATTAATTTTT
Found at i:13187257 original size:23 final size:23
Alignment explanation
Indices: 13187183--13187260 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
13187173 TTTAAAATAT
*
13187183 TTTAATTTGTTAGTTAATTTGATTA
1 TTTAATTT-TTA-TTGATTTGATTA
* * *
13187208 TTTTAAGTTTT-TTGTTTTGTTTAA
1 -TTTAATTTTTATTGATTTGATT-A
13187232 TTTAATTTTTAATTGATTTG-TTA
1 TTTAATTTTT-ATTGATTTGATTA
13187255 TTTAAT
1 TTTAAT
13187261 GTTGTTATAG
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
23 24 0.56
24 3 0.07
25 9 0.21
26 7 0.16
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.65
Consensus pattern (23 bp):
TTTAATTTTTATTGATTTGATTA
Found at i:13187376 original size:20 final size:21
Alignment explanation
Indices: 13187335--13187377 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
13187325 TAATTTACTT
13187335 TAATTTAATTTTGTTAGTTAG
1 TAATTTAATTTTGTTAGTTAG
*
13187356 TAATTTTATTTTGTT-GTTAG
1 TAATTTAATTTTGTTAGTTAG
13187376 TA
1 TA
13187378 GTAATAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (21 bp):
TAATTTAATTTTGTTAGTTAG
Found at i:13187938 original size:14 final size:15
Alignment explanation
Indices: 13187919--13187964 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
13187909 AACCTAGCTA
13187919 ATTAATTACCAAAAT
1 ATTAATTACCAAAAT
*
13187934 A-TAATATA-AAAAAT
1 ATTAAT-TACCAAAAT
13187948 AATTAATTACCAAAAT
1 -ATTAATTACCAAAAT
13187964 A
1 A
13187965 ATATCCCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
14 9 0.36
15 7 0.28
16 9 0.36
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAATTACCAAAAT
Done.