Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 109 of 230
Found at i:31533530 original size:27 final size:27
Alignment explanation
Indices: 31533500--31533564 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
31533490 AGAAGGCCAC
31533500 CATTGGCGCCTCTCTATGAGGCACCTT
1 CATTGGCGCCTCTCTATGAGGCACCTT
*
31533527 CATTGGCGCCTCTCTATTAGGCACCTT
1 CATTGGCGCCTCTCTATGAGGCACCTT
31533554 CATTGGCGCCT
1 CATTGGCGCCT
31533565 ACCTTATAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.14, C:0.34, G:0.22, T:0.31
Consensus pattern (27 bp):
CATTGGCGCCTCTCTATGAGGCACCTT
Found at i:31535925 original size:31 final size:30
Alignment explanation
Indices: 31535890--31535952 Score: 108
Period size: 31 Copynumber: 2.1 Consensus size: 30
31535880 TGGTAATTGG
*
31535890 ATTATCAGAATCTATGATTACTTAGCACATT
1 ATTATCAGAATCTATGACTACTTAGCAC-TT
31535921 ATTATCAGAATCTATGACTACTTAGCACTT
1 ATTATCAGAATCTATGACTACTTAGCACTT
31535951 AT
1 AT
31535953 CAATTATGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (30 bp):
ATTATCAGAATCTATGACTACTTAGCACTT
Found at i:31538474 original size:50 final size:50
Alignment explanation
Indices: 31538413--31538519 Score: 153
Period size: 50 Copynumber: 2.1 Consensus size: 50
31538403 ACATGAGAGT
* *
31538413 TCTCATATCGGTGCCCATGCCATGTCCAAGACACGGTCTTACG-GGAGACC
1 TCTCATATCGGTGCCAACGCCATGTCCAAGACACGGTCTTACGTGG-GACC
* * *
31538463 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCAAGACACGGTCTTACGTGGGACC
31538513 TCTCATA
1 TCTCATA
31538520 ACCTCAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
50 48 0.96
51 2 0.04
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.24
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACGCCATGTCCAAGACACGGTCTTACGTGGGACC
Found at i:31545740 original size:20 final size:20
Alignment explanation
Indices: 31545715--31545752 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31545705 ATAGTGATAA
*
31545715 TTTATTTACTTAGAATTAAT
1 TTTATTTACTAAGAATTAAT
*
31545735 TTTATTTTCTAAGAATTA
1 TTTATTTACTAAGAATTA
31545753 CGGTCTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTATTTACTAAGAATTAAT
Found at i:31554619 original size:19 final size:18
Alignment explanation
Indices: 31554588--31554624 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
31554578 TAGGAGCAAG
*
31554588 ATTTTTTATTAAATAAAA
1 ATTTTTTACTAAATAAAA
31554606 ATTTATTTACTAAATAAAA
1 ATTT-TTTACTAAATAAAA
31554625 CTTAGGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTTTACTAAATAAAA
Found at i:31554688 original size:5 final size:5
Alignment explanation
Indices: 31554678--31554711 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
31554668 AAATATAATT
31554678 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAG
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAG
31554712 AATATATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:31555739 original size:20 final size:20
Alignment explanation
Indices: 31555714--31555756 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
31555704 GGGAGTAGTT
* *
31555714 TTTCAATTGATTTAAAAATG
1 TTTCAATTGAGTTAAAAAAG
31555734 TTTCAATTGAGTTAAAAAAG
1 TTTCAATTGAGTTAAAAAAG
31555754 TTT
1 TTT
31555757 AAACTGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (20 bp):
TTTCAATTGAGTTAAAAAAG
Found at i:31556055 original size:27 final size:26
Alignment explanation
Indices: 31556018--31556089 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
31556008 TAAAGTTCAA
* * *
31556018 TTTGAATCAAAGAGTTGATGTTATGAT
1 TTTGAAACAAAGACTTGAT-TTATAAT
*
31556045 TTTGAAACAAAAACTTGGATTTATAAT
1 TTTGAAACAAAGACTT-GATTTATAAT
31556072 TTTGAAACAAAGACTTGA
1 TTTGAAACAAAGACTTGA
31556090 GTGTGAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.05
27 34 0.87
28 3 0.08
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (26 bp):
TTTGAAACAAAGACTTGATTTATAAT
Found at i:31558690 original size:6 final size:6
Alignment explanation
Indices: 31558679--31558703 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
31558669 TGCAAATGGA
31558679 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
31558704 TGGAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:31560266 original size:9 final size:9
Alignment explanation
Indices: 31560240--31560307 Score: 57
Period size: 9 Copynumber: 7.2 Consensus size: 9
31560230 CCAAAAGTTT
31560240 ATTTTAAAA
1 ATTTTAAAA
**
31560249 ATTAAAAAA
1 ATTTTAAAA
31560258 ATTTTAAAAA
1 ATTTT-AAAA
31560268 GTATTTTAAAA
1 --ATTTTAAAA
*
31560279 ATATTTTAAA
1 AT-TTTAAAA
31560289 ATTTT-AAA
1 ATTTTAAAA
*
31560297 ATTTAAAAA
1 ATTTTAAAA
31560306 AT
1 AT
31560308 AAATATATTC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
8 7 0.15
9 20 0.42
10 12 0.25
11 4 0.08
12 5 0.10
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:31560273 original size:12 final size:11
Alignment explanation
Indices: 31560250--31560289 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
31560240 ATTTTAAAAA
*
31560250 TTAAAAAAATT
1 TTAAAAATATT
31560261 TTAAAAAGTATT
1 TTAAAAA-TATT
31560273 TTAAAAATATT
1 TTAAAAATATT
31560284 TTAAAA
1 TTAAAA
31560290 TTTTAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:31562969 original size:22 final size:19
Alignment explanation
Indices: 31562938--31562977 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 19
31562928 ATGATTCTTT
31562938 ATTTCTTATTCCACTCCCCAA
1 ATTTCTTATT--ACTCCCCAA
31562959 ATTTCATTATTACTCCCCA
1 ATTTC-TTATTACTCCCCA
31562978 GCTTTGCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTTCTTATTACTCCCCAA
Found at i:31571024 original size:17 final size:18
Alignment explanation
Indices: 31571002--31571036 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
31570992 AACTTCAAGG
*
31571002 CAATGATA-CATTAAGTT
1 CAATGATATCATAAAGTT
31571019 CAATGATATCATAAAGTT
1 CAATGATATCATAAAGTT
31571037 TTTGGTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (18 bp):
CAATGATATCATAAAGTT
Found at i:31573931 original size:71 final size:71
Alignment explanation
Indices: 31573815--31573956 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
31573805 ATTATGCAGA
31573815 TAGAAATATCCTTATTTTGAAATTCTTCATTCATATCTTTTCATGCAAAAACTGTATCTTAGACT
1 TAGAAATATCCTTATTTTGAAATTCTTCATTCATATCTTTTCATGCAAAAACTGTATCTTAGACT
31573880 TTTAAT
66 TTTAAT
31573886 TAGAAATATCCTTATTTTGAAATTCTTCATTCATATCTTTTCATGCAAAAACTGTATCTTAGACT
1 TAGAAATATCCTTATTTTGAAATTCTTCATTCATATCTTTTCATGCAAAAACTGTATCTTAGACT
31573951 TTTAAT
66 TTTAAT
31573957 CTAGTTCTTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.45
Consensus pattern (71 bp):
TAGAAATATCCTTATTTTGAAATTCTTCATTCATATCTTTTCATGCAAAAACTGTATCTTAGACT
TTTAAT
Found at i:31580469 original size:15 final size:15
Alignment explanation
Indices: 31580445--31580478 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
31580435 AACAATTACG
*
31580445 ATAATGCGAGCAAAA
1 ATAATACGAGCAAAA
*
31580460 ATAATACGAGCGAAA
1 ATAATACGAGCAAAA
31580475 ATAA
1 ATAA
31580479 CAAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.18, T:0.15
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:31580601 original size:19 final size:19
Alignment explanation
Indices: 31580572--31580627 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
31580562 AATAATGGAC
31580572 ACATAAA-TAAATAAATAA
1 ACATAAAGTAAATAAATAA
31580590 ACATAAAGTAAA-ACAATAA
1 ACATAAAGTAAATA-AATAA
*
31580609 TA-ATAAAG-AAATGAATAA
1 -ACATAAAGTAAATAAATAA
31580627 A
1 A
31580628 ATTATAAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
17 1 0.03
18 16 0.48
19 15 0.45
20 1 0.03
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (19 bp):
ACATAAAGTAAATAAATAA
Found at i:31582768 original size:134 final size:134
Alignment explanation
Indices: 31582580--31583365 Score: 1398
Period size: 134 Copynumber: 5.9 Consensus size: 134
31582570 TAAGATTACT
* * * * ** *
31582580 GGCTTCAATGTACTCCACTGTAATCAGTGAGGTAAAATCTGCCATCATCAATCTGCTTCTTTACC
1 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
31582645 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
66 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
31582710 TATC
131 TATC
* *
31582714 GGCTTTAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCTCTGCC
1 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
*
31582779 AAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
66 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
31582844 TATC
131 TATC
*
31582848 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCC
1 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
*
31582913 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAAT
66 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
31582978 TATC
131 TATC
*
31582982 GGCTTCAATGTACTCCATTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
1 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
* *
31583047 AAATACAGGAAGGCAAGATCTGCGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAAT
66 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
31583112 TATC
131 TATC
*
31583116 GGCTTCAATGTACTCCACTTTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
1 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
31583181 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
66 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
31583246 TATC
131 TATC
31583250 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
1 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
31583315 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTACTT-CAC-GCC-AATACA
66 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTA-TTCCACTGCCAAATACA
31583366 TGAAGATAAG
Statistics
Matches: 630, Mismatches: 21, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
132 6 0.01
133 3 0.00
134 619 0.98
135 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (134 bp):
GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
TATC
Found at i:31583490 original size:132 final size:132
Alignment explanation
Indices: 31583346--31584758 Score: 1780
Period size: 132 Copynumber: 10.7 Consensus size: 132
31583336 GCAATCTTCA
* * *
31583346 ATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
* * * *
31583411 GGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAATATAGGAAAATAGGACCTGCTATCTT
66 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
*
31583476 CG
131 TG
* *
31583478 ATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTCTACGATCTACTTCGCCACCAATATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
* *
31583543 GGAAGACAAGATCTGCATCATCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGTTATCTT
66 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
31583608 TG
131 TG
* * *
31583610 ATCTACTTCACGCCAATACATGAAGACAAGATTTGCTTTCTTCGATCTACTTC-CTACCAATATA
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
* *
31583674 GGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGACCTGTTATCTT
66 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
31583739 TG
131 TG
* *
31583741 ATCTACTTCACGCCAATACATGAAGATAAGAT-T-CATTTTCTTAGATCTACTTCGCCACCAATA
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGC--TTTCTTCGATCTACTTCGCCACCAATA
* ** * *
31583804 TGGGAAGACAAGGTCTGGTTCTTCGATCCATTTCCTACCAATATAGGAAGATAGGACCTGTTATC
64 TGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATC
31583869 TTTG
129 TTTG
* ** *
31583873 ATCTACTTCACGCCAATACATGAAGATAAGATCCACTTTCTTCGATCTACTTCGCTACCAATATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
* *
31583938 GGAAGACAAGGTCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
66 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
31584003 TG
131 TG
* * * *
31584005 ATCTACTTCACGCTAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTC-CTACCAATATA
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
* ** *
31584069 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATATT
66 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
31584134 TG
131 TG
* * *
31584136 ATCTACTTCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTC-CTACCAATATA
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
* **
31584200 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTT
66 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
31584265 TG
131 TG
* * *
31584267 ATCTACTTCACGCTAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
* *
31584332 GGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATCTT
66 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
31584397 TG
131 TG
*
31584399 ATCTACTTCACGCCAATACATGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
* * * * * ** ** *
31584464 GAAAGACAAGATCTGCATCTTCGATCTACTTCAC-GCCAATACATGAAGGTAAAATCTGCTT-TC
66 GGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTG-TTATC
*
31584527 TTCG
129 TTTG
* * * *** * * * *
31584531 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-CTACCAATAT
1 ATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT
* ** * * * * * * * *
31584594 AGGAAGACCGGACCTGTTATCTTTGATCTACTT-C-ACGTCAATACATGAAGACAAGATCTGCTT
65 GGGAAGACAAGATCTG-CATCTTCGATCCACTTCCTAC--CAATATAGGAAGACAGGACCTG-TT
*
31584657 -TCTTCG
126 ATCTTTG
* * * *
31584663 ATCTACTTC-CTACCAATACAGGAAGAC-AGAATCTG-TATCTTCGATCTACTTC-CTACCAATA
1 ATCTACTTCAC-GCCAATACATGAAGACAAG-ATCTGCTTTCTTCGATCTACTTCGCCACCAATA
* * *
31584724 TAGGAAGAC-AGAATCTGCTTCCTTCGATCTACTTC
64 TGGGAAGACAAG-ATCTGCAT-CTTCGATCCACTTC
31584759 ACGCCAATAC
Statistics
Matches: 1157, Mismatches: 106, Indels: 36
0.89 0.08 0.03
Matches are distributed among these distances:
129 1 0.00
130 8 0.01
131 457 0.39
132 667 0.58
133 23 0.02
134 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (132 bp):
ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
TG
Found at i:31583814 original size:263 final size:263
Alignment explanation
Indices: 31583346--31584758 Score: 1753
Period size: 263 Copynumber: 5.4 Consensus size: 263
31583336 GCAATCTTCA
* * * * *
31583346 ATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTACCAATATA
* * *
31583411 GGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAATATAGGAAAATAGGACCTGCTATCTT
66 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTT
* *
31583476 CGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC-TACGATCTACTTCGCCACCAAT
131 TGATCTACTTCACGCCAATACATGAAGACAAGATCT-CTTTCTTA-GATCTACTTCGCCACCAAT
* *
31583540 ATGGGAAGACAAGATCTGCATCATCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGTTAT
194 ATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTAT
31583605 CTTTG
259 CTTTG
*
31583610 ATCTACTTCACGCCAATACATGAAGACAAGATTTGCTTTCTTCGATCTACTTC-CTACCAATATA
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTACCAATATA
* * *
31583674 GGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGACCTGTTATCTT
66 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTT
*
31583739 TGATCTACTTCACGCCAATACATGAAGATAAGAT-TCATTTTCTTAGATCTACTTCGCCACCAAT
131 TGATCTACTTCACGCCAATACATGAAGACAAGATCTC--TTTCTTAGATCTACTTCGCCACCAAT
* ** * *
31583803 ATGGGAAGACAAGGTCTGGTTCTTCGATCCATTTCCTACCAATATAGGAAGATAGGACCTGTTAT
194 ATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTAT
31583868 CTTTG
259 CTTTG
* ** *
31583873 ATCTACTTCACGCCAATACATGAAGATAAGATCCACTTTCTTCGATCTACTTCGCTACCAATATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTACCAATATA
* * *
31583938 GGAAGACAAGGTCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
66 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTT
* * * *
31584003 TGATCTACTTCACGCTAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTC-CTACCAATA
131 TGATCTACTTCACGCCAATACATGAAGACAAGATCT-CTTTCTTAGATCTACTTCGCCACCAATA
* * ** *
31584067 TAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATA
195 TGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATC
31584132 TTTG
260 TTTG
*
31584136 ATCTACTTCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTC-CTACCAATATA
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTACCAATATA
* *
31584200 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTT
66 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTT
* * * *
31584265 TGATCTACTTCACGCTAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
131 TGATCTACTTCACGCCAATACATGAAGACAAGATCT-CTTTCTTAGATCTACTTCGCCACCAATA
* *
31584330 TGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATC
195 TGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATC
31584395 TTTG
260 TTTG
* *
31584399 ATCTACTTCACGCCAATACATGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATAT-
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTACCAATATA
* * * * ** ** * *
31584463 GGAAAGACAAGATCTGCATCTTCGATCTACTTCAC-GCCAATACATGAAGGTAAAATCTGCTTTC
66 GG-AAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATC
* * * * *** * * * * *
31584527 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-CTACCA
129 TTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCT-CTTTCTTAGATCTACTTCGCCACCA
* ** * * * * * * * *
31584590 ATATAGGAAGACCGGACCTGTTATCTTTGATCTACTT-C-ACGTCAATACATGAAGACAAGATCT
192 ATATGGGAAGACAAGATCTG-CATCTTCGATCCACTTCCTAC--CAATATAGGAAGACAGGACCT
*
31584653 GCTT-TCTTCG
254 G-TTATCTTTG
* * *
31584663 ATCTACTTC-CTACCAATACAGGAAGAC-AGAATCTG-TATCTTCGATCTACTTC-CTACCAATA
1 ATCTACTTCAC-GCCAATACATGAAGACAAG-ATCTGCTTTCTTCGATCTACTTCGCTACCAATA
* *
31584724 TAGGAAGAC-AGAATCTGCTTCCTTCGATCTACTTC
64 TAGGAAGACAAG-ATCTGCAT-CTTCGATCCACTTC
31584759 ACGCCAATAC
Statistics
Matches: 1021, Mismatches: 108, Indels: 41
0.87 0.09 0.04
Matches are distributed among these distances:
261 3 0.00
262 147 0.14
263 531 0.52
264 316 0.31
265 23 0.02
266 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (263 bp):
ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTACCAATATA
GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTT
TGATCTACTTCACGCCAATACATGAAGACAAGATCTCTTTCTTAGATCTACTTCGCCACCAATAT
GGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCT
TTG
Found at i:31584076 original size:395 final size:393
Alignment explanation
Indices: 31583346--31584495 Score: 1838
Period size: 395 Copynumber: 2.9 Consensus size: 393
31583336 GCAATCTTCA
*
31583346 ATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATG
1 ATCTACTTCACGCCAATACATGAAGATAAGATCT-CTTTCTTCGATCTACTTC-CCACCAATATG
*
31583411 GGAAGACAAGATCT-GTATCTTCGATCCACTTCCTACCAATATAGGAAAATAGGACCTGCTATCT
64 GGAAGACAAGATCTGGT-TCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCT
* * * *
31583475 TCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTCTACGATCTACTTCGCCACCAAT
128 TTGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAAT
* *
31583540 ATGGGAAGACAAGATCTGCATCATCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGTTAT
193 ATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTAT
*
31583605 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATTTGCTTTCTTCGATCTACTTCCTACCAA
258 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCTACCAA
* * * **
31583670 TATAGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGACCTGTTA
323 TATAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTA
*
31583735 TCTTTG
388 TATTTG
*
31583741 ATCTACTTCACGCCAATACATGAAGATAAGAT-TCATTTTCTTAGATCTACTTCGCCACCAATAT
1 ATCTACTTCACGCCAATACATGAAGATAAGATCTC--TTTCTTCGATCTACTTC-CCACCAATAT
* * *
31583805 GGGAAGACAAGGTCTGGTTCTTCGATCCATTTCCTACCAATATAGGAAGATAGGACCTGTTATCT
63 GGGAAGACAAGATCTGGTTCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCT
** *
31583870 TTGATCTACTTCACGCCAATACATGAAGATAAGATCCACTTTCTTCGATCTACTTCGCTACCAAT
128 TTGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAAT
*
31583935 ATGGGAAGACAAGGTCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTAT
193 ATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTAT
* *
31584000 CTTTGATCTACTTCACGCTAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCCTACCAA
258 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCTACCAA
31584065 TATAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTA
323 TATAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTA
31584130 TATTTG
388 TATTTG
* * * *
31584136 ATCTACTTCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCCTACCAATATAG
1 ATCTACTTCACGCCAATACATGAAGATAAGATCT-CTTTCTTCGATCTACTTCCCACCAATATGG
** * * *
31584201 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTT
65 GAAGACAAGATCTGGTTCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTT
* *
31584266 GATCTACTTCACGCTAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
130 GATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT
*
31584331 GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATCT
195 GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCT
* *
31584396 TTGATCTACTTCACGCCAATACATGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAAT
260 TTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-CTACCAAT
*
31584461 AT-GGAAAGACAAGATCTGCATCTTCGATCTACTTC
324 ATAGG-AAGACAAGATCTGCATCTTCGATCCACTTC
31584496 ACGCCAATAC
Statistics
Matches: 697, Mismatches: 51, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
393 1 0.00
394 246 0.35
395 446 0.64
396 3 0.00
397 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (393 bp):
ATCTACTTCACGCCAATACATGAAGATAAGATCTCTTTCTTCGATCTACTTCCCACCAATATGGG
AAGACAAGATCTGGTTCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTTG
ATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
GGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
TGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCTACCAATAT
AGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATAT
TTG
Found at i:31585724 original size:7 final size:7
Alignment explanation
Indices: 31585708--31585757 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
31585698 TGGCCTCTCC
31585708 TTTTTC-
1 TTTTTCT
31585714 TTTTTCT
1 TTTTTCT
31585721 TTTTTC-
1 TTTTTCT
31585727 -TTTTCT
1 TTTTTCT
31585733 TTTTTCAT
1 TTTTTC-T
*
31585741 TTTTTCA
1 TTTTTCT
31585748 TTTTTCT
1 TTTTTCT
31585755 TTT
1 TTT
31585758 CGTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 5 0.13
6 6 0.16
7 20 0.53
8 7 0.18
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:31585764 original size:7 final size:6
Alignment explanation
Indices: 31585707--31585757 Score: 50
Period size: 6 Copynumber: 7.8 Consensus size: 6
31585697 TTGGCCTCTC
31585707 CTTTTT CTTTTT CTTTTT -TCTTTT CTTTTTT CATTTTTT CATTTTT CTTTT
1 CTTTTT CTTTTT CTTTTT CT-TTTT C-TTTTT C--TTTTT C-TTTTT CTTTT
31585758 CGTTTTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
5 1 0.03
6 20 0.50
7 11 0.28
8 8 0.20
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:31585764 original size:12 final size:13
Alignment explanation
Indices: 31585708--31585757 Score: 66
Period size: 12 Copynumber: 3.8 Consensus size: 13
31585698 TGGCCTCTCC
31585708 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
31585721 TTTTTC-TTTTCT
1 TTTTTCTTTTTCT
*
31585733 TTTTTCATTTTTTCA
1 TTTTTC--TTTTTCT
31585748 TTTTTCTTTT
1 TTTTTCTTTT
31585758 CGTTTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.36
13 10 0.30
15 11 0.33
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTCTTTTTCT
Found at i:31587611 original size:21 final size:20
Alignment explanation
Indices: 31587551--31587612 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 20
31587541 ATTTATTGTG
*
31587551 TGCAATGAAATGTAATGTTAA
1 TGCAATGAAATGTAATG-CAA
*
31587572 TG-AATGAAAAG--ATGC-A
1 TGCAATGAAATGTAATGCAA
31587588 TGCAATGAAATGTAATGCAGA
1 TGCAATGAAATGTAATGCA-A
31587609 TGCA
1 TGCA
31587613 TGGATGCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
16 3 0.09
17 8 0.24
18 3 0.09
19 4 0.12
20 8 0.24
21 7 0.21
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (20 bp):
TGCAATGAAATGTAATGCAA
Found at i:31589104 original size:552 final size:552
Alignment explanation
Indices: 31588061--31589165 Score: 2165
Period size: 552 Copynumber: 2.0 Consensus size: 552
31588051 TCTATTTAAC
31588061 AACCGAACATGAATCAACACCTCTTTTTATGATGAAAATGCAATGCAATCATAACAAAAAGAAAA
1 AACCGAACATGAATCAACACCTCTTTTTATGATGAAAATGCAATGCAATCATAACAAAAAGAAAA
*
31588126 CATGTTAGTACAAAGCAAAAGCAAGTAAGAATAAATAGAACACCTATTTGGGTGAATACTAGGGG
66 CATGTTAGTACAAAGCAAAAGCAAGCAAGAATAAATAGAACACCTATTTGGGTGAATACTAGGGG
31588191 TTCGAGGTGGTTCTACCTAGGGTGGGCTCCTAAGGTTCACTACATGAGGTTTAGTTCTAAAGTAA
131 TTCGAGGTGGTTCTACCTAGGGTGGGCTCCTAAGGTTCACTACATGAGGTTTAGTTCTAAAGTAA
31588256 GGGTACCTGAACCAGCAGATTCCTCGATCCTCACCCATTATAGGCTCATACGGACTGAGTTCAGT
196 GGGTACCTGAACCAGCAGATTCCTCGATCCTCACCCATTATAGGCTCATACGGACTGAGTTCAGT
*
31588321 TCAGGGGAATACATTTCCCTATGGCCATGCGGAGATGAAAATCTCACGAAGACATAGGTACGGAT
261 TCAAGGGAATACATTTCCCTATGGCCATGCGGAGATGAAAATCTCACGAAGACATAGGTACGGAT
31588386 GTATCCCGAAAGCGATTCACTATCCCATGCGGAGGTGAAAACCTCACGAAGGCGTAGTTTCTCAC
326 GTATCCCGAAAGCGATTCACTATCCCATGCGGAGGTGAAAACCTCACGAAGGCGTAGTTTCTCAC
31588451 TCCCACTTAAAAGGGTATGACCAGCGGTCATGCAATGTAATGTGCAGAGGTATAAAATAAAATAC
391 TCCCACTTAAAAGGGTATGACCAGCGGTCATGCAATGTAATGTGCAGAGGTATAAAATAAAATAC
31588516 AGAACACGATAAAAAAATATAACTCAAAACAAAAGAGATGCAATGAGAGGATCGTAAATTTAAAT
456 AGAACACGATAAAAAAATATAACTCAAAACAAAAGAGATGCAATGAGAGGATCGTAAATTTAAAT
*
31588581 CGAATTTTCAACTTTCGACTAAAAGACAAGAA
521 CGAATTTTCAACTTTCGACAAAAAGACAAGAA
*
31588613 AACCGAACGTGAATCAACACCTCTTTTTATGATGAAAATGCAATGCAATCATAACAAAAAGAAAA
1 AACCGAACATGAATCAACACCTCTTTTTATGATGAAAATGCAATGCAATCATAACAAAAAGAAAA
31588678 CATGTTAGTACAAAGCAAAAGCAAGCAAGAATAAATAGAACACCTATTTGGGTGAATACTAGGGG
66 CATGTTAGTACAAAGCAAAAGCAAGCAAGAATAAATAGAACACCTATTTGGGTGAATACTAGGGG
31588743 TTCGAGGTGGTTCTACCTAGGGTGGGCTCCTAAGGTTCACTACATGAGGTTTAGTTCTAAAGTAA
131 TTCGAGGTGGTTCTACCTAGGGTGGGCTCCTAAGGTTCACTACATGAGGTTTAGTTCTAAAGTAA
31588808 GGGTACCTGAACCAGCAGATTCCTCGATCCTCACCCATTATAGGCTCATACGGACTGAGTTCAGT
196 GGGTACCTGAACCAGCAGATTCCTCGATCCTCACCCATTATAGGCTCATACGGACTGAGTTCAGT
31588873 TCAAGGGAATACATTTCCCTATGGCCATGCGGAGATGAAAATCTCACGAAGACATAGGTACGGAT
261 TCAAGGGAATACATTTCCCTATGGCCATGCGGAGATGAAAATCTCACGAAGACATAGGTACGGAT
31588938 GTATCCCGAAAGCGATTCACTATCCCATGCGGAGGTGAAAACCTCACGAAGGCGTAGTTTCTCAC
326 GTATCCCGAAAGCGATTCACTATCCCATGCGGAGGTGAAAACCTCACGAAGGCGTAGTTTCTCAC
31589003 TCCCACTTAAAAGGGTATGACCAGCGGTCATGCAATGTAATGTGCAGAGGTATAAAATAAAATAC
391 TCCCACTTAAAAGGGTATGACCAGCGGTCATGCAATGTAATGTGCAGAGGTATAAAATAAAATAC
31589068 AGAACACGATAAAAAAATATAACTCAAAACAAAAGAGATGCAATGAGAGGATCGTAAATTTAAAT
456 AGAACACGATAAAAAAATATAACTCAAAACAAAAGAGATGCAATGAGAGGATCGTAAATTTAAAT
*
31589133 CGAATTTTCAACTTTTGACAAAAAGACAAGAA
521 CGAATTTTCAACTTTCGACAAAAAGACAAGAA
31589165 A
1 A
31589166 TAATCAACAC
Statistics
Matches: 548, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
552 548 1.00
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (552 bp):
AACCGAACATGAATCAACACCTCTTTTTATGATGAAAATGCAATGCAATCATAACAAAAAGAAAA
CATGTTAGTACAAAGCAAAAGCAAGCAAGAATAAATAGAACACCTATTTGGGTGAATACTAGGGG
TTCGAGGTGGTTCTACCTAGGGTGGGCTCCTAAGGTTCACTACATGAGGTTTAGTTCTAAAGTAA
GGGTACCTGAACCAGCAGATTCCTCGATCCTCACCCATTATAGGCTCATACGGACTGAGTTCAGT
TCAAGGGAATACATTTCCCTATGGCCATGCGGAGATGAAAATCTCACGAAGACATAGGTACGGAT
GTATCCCGAAAGCGATTCACTATCCCATGCGGAGGTGAAAACCTCACGAAGGCGTAGTTTCTCAC
TCCCACTTAAAAGGGTATGACCAGCGGTCATGCAATGTAATGTGCAGAGGTATAAAATAAAATAC
AGAACACGATAAAAAAATATAACTCAAAACAAAAGAGATGCAATGAGAGGATCGTAAATTTAAAT
CGAATTTTCAACTTTCGACAAAAAGACAAGAA
Found at i:31590095 original size:15 final size:15
Alignment explanation
Indices: 31590071--31590104 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
31590061 AACAATTACG
*
31590071 ATAATGCGAGCAAAA
1 ATAATACGAGCAAAA
*
31590086 ATAATACGAGCGAAA
1 ATAATACGAGCAAAA
31590101 ATAA
1 ATAA
31590105 CAAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.18, T:0.15
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:31590228 original size:19 final size:19
Alignment explanation
Indices: 31590199--31590254 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
31590189 AATAATGGAC
31590199 ACATAAA-TAAATAAATAA
1 ACATAAAGTAAATAAATAA
31590217 ACATAAAGTAAA-ACAATAA
1 ACATAAAGTAAATA-AATAA
*
31590236 TA-ATAAAG-AAATGAATAA
1 -ACATAAAGTAAATAAATAA
31590254 A
1 A
31590255 ATTATAAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
17 1 0.03
18 16 0.48
19 15 0.45
20 1 0.03
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (19 bp):
ACATAAAGTAAATAAATAA
Found at i:31605471 original size:40 final size:40
Alignment explanation
Indices: 31605382--31605645 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
31605372 TTGAATGCTG
* *
31605382 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
31605421 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
31605461 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31605500 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31605540 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31605580 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31605621 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31605646 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31613495 original size:40 final size:40
Alignment explanation
Indices: 31613406--31613669 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
31613396 TTGAATGCTG
* *
31613406 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
31613445 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
31613485 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31613524 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31613564 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31613604 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31613645 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31613670 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31620063 original size:28 final size:27
Alignment explanation
Indices: 31619998--31620063 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
31619988 TTTAACAGTA
*
31619998 ACAATACAGTGTGGGCCTTAGCCCAAT
1 ACAATACAGTGTGGGCCTAAGCCCAAT
* * **
31620025 ATAGAAACAGTGTGGGCCTAAGCCTGAT
1 ACA-ATACAGTGTGGGCCTAAGCCCAAT
31620053 ACAATATCAGT
1 ACAATA-CAGT
31620064 ATGGTGCAAG
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
27 4 0.13
28 26 0.87
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (27 bp):
ACAATACAGTGTGGGCCTAAGCCCAAT
Found at i:31620386 original size:64 final size:64
Alignment explanation
Indices: 31620272--31620540 Score: 244
Period size: 64 Copynumber: 4.2 Consensus size: 64
31620262 CAGAATGGCT
* *
31620272 ACAAGCCATAAGT-ATAGTAATGTGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGACAC
1 ACAAGCCATCAGTAATAGTAA-ATGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGACAC
* * * *
31620336 ACAA-CCATCAGTAATAGTAACATGATCGGCACAAACCCATCAGTAGCAGTGGTATGATCAACAC
1 ACAAGCCATCAGTAATAGTAA-ATGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGACAC
* * ** * * *
31620400 AC-AGCCATCAGTAATAGTCAAATGATTGGTACACAGCCATTGGTAACAGTAATATGATCGGCAC
1 ACAAGCCATCAGTAATAGT-AAATGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGACAC
** * * * * * * * *
31620464 A-AAGCCATCAGTAACGGTATTATGATCGTCATAAAGCCATCAGTAACGGT-ACTACGATCGGCA
1 ACAAGCCATCAGTAATAGTA-AATGATTGGCACAAAGCCATCAGTAGCAGTGA-TATGATCGACA
31620527 C
64 C
31620528 A-AAGCCATCAGTA
1 ACAAGCCATCAGTA
31620541 GCATCGCAGC
Statistics
Matches: 169, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
63 10 0.06
64 157 0.93
65 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (64 bp):
ACAAGCCATCAGTAATAGTAAATGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGACAC
Found at i:31620425 original size:32 final size:32
Alignment explanation
Indices: 31620301--31620540 Score: 157
Period size: 32 Copynumber: 7.5 Consensus size: 32
31620291 ATGTGATTGG
* *
31620301 CACAAAGCCATCAGTAGCAGTGATATGATCGA
1 CACAAAGCCATCAGTAACAGTGAAATGATCGA
* *
31620333 CACACAA-CCATCAGTAATAGT-AACATGATCGG
1 CACA-AAGCCATCAGTAACAGTGAA-ATGATCGA
* * ** *
31620365 CACAAACCCATCAGTAGCAGTGGTATGATCAA
1 CACAAAGCCATCAGTAACAGTGAAATGATCGA
* * * * *
31620397 CACACAGCCATCAGTAATAGTCAAATGATTGG
1 CACAAAGCCATCAGTAACAGTGAAATGATCGA
* * ** *
31620429 TACACAGCCATTGGTAACAGT-AATATGATCGG
1 CACAAAGCCATCAGTAACAGTGAA-ATGATCGA
* * *
31620461 CACAAAGCCATCAGTAACGGT-ATTATGATCGT
1 CACAAAGCCATCAGTAACAGTGA-AATGATCGA
* * * * *
31620493 CATAAAGCCATCAGTAACGGT-ACTACGATCGG
1 CACAAAGCCATCAGTAACAGTGA-AATGATCGA
31620525 CACAAAGCCATCAGTA
1 CACAAAGCCATCAGTA
31620541 GCATCGCAGC
Statistics
Matches: 165, Mismatches: 37, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
31 5 0.03
32 158 0.96
33 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (32 bp):
CACAAAGCCATCAGTAACAGTGAAATGATCGA
Found at i:31620615 original size:27 final size:25
Alignment explanation
Indices: 31620584--31620648 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 25
31620574 AACAAGGCTG
31620584 CCAGTAATAGTATATGTAGCCA-AGCCA
1 CCAGTAA-AGTAT-TGT-GCCAGAGCCA
*
31620611 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAA-AGT-ATTGTGCCAGAGCCA
31620638 CCAGTAAAGTA
1 CCAGTAAAGTA
31620649 CTTCCTCCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 6 0.18
27 25 0.74
28 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (25 bp):
CCAGTAAAGTATTGTGCCAGAGCCA
Found at i:31620758 original size:23 final size:24
Alignment explanation
Indices: 31620712--31620760 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
31620702 CCATGCTCAG
*
31620712 AATCAGTCATTCAAATCACAGACA
1 AATCAGTCATTCAAACCACAGACA
*
31620736 AATCAGTCATT-TAACCACAGACA
1 AATCAGTCATTCAAACCACAGACA
31620759 AA
1 AA
31620761 ACGATCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.20
Consensus pattern (24 bp):
AATCAGTCATTCAAACCACAGACA
Found at i:31620843 original size:27 final size:27
Alignment explanation
Indices: 31620810--31621329 Score: 535
Period size: 27 Copynumber: 19.3 Consensus size: 27
31620800 CCACCAGGGC
* *
31620810 ATTACGGTCATTTTACCTTACATGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
31620837 ATTACGGTCATTTTACCTTACTGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
31620864 ATTACGGTCATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* ** * * *
31620891 ATCACGAACATTTTACCCTATAAGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
31620918 ATTACGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
31620945 ATTACAGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
31620972 ATTACGGTCATTTTACCCCTACAGGGG-
1 ATTACGGTCATTTTA-CCCTACAGGGGT
* * *
31620999 CTTACGGTCATTTTACCCTATAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * *
31621026 ATTACGATCATTTTATCCTATAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
31621053 ATTACGGTCATTTTACCCTACAGAGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * *
31621080 GTTACGGTCATTTTACCTTATAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
31621107 ATTACGATCATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * * *
31621134 ATTACAGTTATTTTACCCTATAGAGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
31621161 ATTACGGTCATTTTACCCTATAGAGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
31621188 ATTACGGTCATTTTACCCTATAGAGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
31621215 ATTACGGTTATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
31621242 ATTACGATCATTTTACCCTA-TGAGGGT
1 ATTACGGTCATTTTACCCTACAG-GGGT
* * * *
31621269 ATTTCGGT-ATTCTACCTTACGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
31621295 ATTTCGGT-ATTCTACCCTACGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
31621321 ATTTCGGTC
1 ATTACGGTC
31621330 CAGATATCGA
Statistics
Matches: 427, Mismatches: 61, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
26 56 0.13
27 360 0.84
28 11 0.03
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:31621294 original size:26 final size:26
Alignment explanation
Indices: 31621223--31621328 Score: 131
Period size: 26 Copynumber: 4.0 Consensus size: 26
31621213 GCATTACGGT
* * * *
31621223 TATTTTACCCTACAGGGGTATTACGA
1 TATTCTACCCTACGGGGGTATTTCGG
* * *
31621249 TCATTTTACCCTATGAGGGTATTTCGG
1 T-ATTCTACCCTACGGGGGTATTTCGG
*
31621276 TATTCTACCTTACGGGGGTATTTCGG
1 TATTCTACCCTACGGGGGTATTTCGG
31621302 TATTCTACCCTACGGGGGTATTTCGG
1 TATTCTACCCTACGGGGGTATTTCGG
31621328 T
1 T
31621329 CCAGATATCG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
26 48 0.70
27 21 0.30
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.38
Consensus pattern (26 bp):
TATTCTACCCTACGGGGGTATTTCGG
Found at i:31626113 original size:55 final size:55
Alignment explanation
Indices: 31626047--31626156 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
31626037 GGGTTTAAAA
31626047 TCTGATTAGAAGGGTTAAAGAACTCAATTAATTCTAGAAAAATATAGGCAAGAAC
1 TCTGATTAGAAGGGTTAAAGAACTCAATTAATTCTAGAAAAATATAGGCAAGAAC
*
31626102 TCTGATTAGAAGGGTTAAAGAACTCAATTAATTCTGGAAAAATATAGGCAAGAAC
1 TCTGATTAGAAGGGTTAAAGAACTCAATTAATTCTAGAAAAATATAGGCAAGAAC
31626157 CAAGAAAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.25
Consensus pattern (55 bp):
TCTGATTAGAAGGGTTAAAGAACTCAATTAATTCTAGAAAAATATAGGCAAGAAC
Found at i:31636042 original size:20 final size:20
Alignment explanation
Indices: 31636017--31636115 Score: 110
Period size: 20 Copynumber: 5.0 Consensus size: 20
31636007 CCAATAGGGT
31636017 TTGCACTTTGGTGCCTCTGA
1 TTGCACTTTGGTGCCTCTGA
* ** *
31636037 TTGCACATTCATGCCTCTGT
1 TTGCACTTTGGTGCCTCTGA
*
31636057 TTGCACTTCGGTGCCTCTGA
1 TTGCACTTTGGTGCCTCTGA
* *
31636077 TTGCACATTCGTGCCTCT-A
1 TTGCACTTTGGTGCCTCTGA
*
31636096 TCTACACTTTGGTGCCTCTG
1 T-TGCACTTTGGTGCCTCTG
31636116 TTATGCATAA
Statistics
Matches: 62, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
19 2 0.03
20 60 0.97
ACGTcount: A:0.12, C:0.29, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGCACTTTGGTGCCTCTGA
Found at i:31636060 original size:40 final size:40
Alignment explanation
Indices: 31636015--31636115 Score: 157
Period size: 40 Copynumber: 2.5 Consensus size: 40
31636005 TGCCAATAGG
31636015 GTTTGCACTTTGGTGCCTCTGATTGCACATTCATGCCTCT
1 GTTTGCACTTTGGTGCCTCTGATTGCACATTCATGCCTCT
* *
31636055 GTTTGCACTTCGGTGCCTCTGATTGCACATTCGTGCCTCT
1 GTTTGCACTTTGGTGCCTCTGATTGCACATTCATGCCTCT
* * *
31636095 ATCTACACTTTGGTGCCTCTG
1 GTTTGCACTTTGGTGCCTCTG
31636116 TTATGCATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.12, C:0.29, G:0.21, T:0.39
Consensus pattern (40 bp):
GTTTGCACTTTGGTGCCTCTGATTGCACATTCATGCCTCT
Found at i:31639371 original size:23 final size:24
Alignment explanation
Indices: 31639339--31639386 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
31639329 TTGAACATCA
*
31639339 ATAATTTGAG-TCTTAAATATGTC
1 ATAATCTGAGCTCTTAAATATGTC
*
31639362 ATAATCTGAGCCTTTTAAATATGTC
1 ATAATCTGAG-CTCTTAAATATGTC
31639387 CTAAGTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
25 12 0.57
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (24 bp):
ATAATCTGAGCTCTTAAATATGTC
Found at i:31652849 original size:10 final size:9
Alignment explanation
Indices: 31652834--31652902 Score: 61
Period size: 10 Copynumber: 7.4 Consensus size: 9
31652824 TACCCTTTTC
31652834 TTTATTCTAT
1 TTTATT-TAT
31652844 TTTATTTTAT
1 TTTA-TTTAT
31652854 TTTATTTA-
1 TTTATTTAT
31652862 TTTATTTAT
1 TTTATTTAT
*
31652871 TATTATTTGT
1 T-TTATTTAT
*
31652881 TATA-TTAT
1 TTTATTTAT
*
31652889 TTATTTTTAT
1 TT-TATTTAT
31652899 TTTA
1 TTTA
31652903 CTGATCTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
8 12 0.25
9 9 0.19
10 25 0.52
11 2 0.04
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (9 bp):
TTTATTTAT
Found at i:31652888 original size:22 final size:21
Alignment explanation
Indices: 31652859--31652900 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
31652849 TTTATTTTAT
31652859 TTATTTATTTATTATTATTTG
1 TTATTTATTTATTATTATTTG
*
31652880 TTATATTATTTATTTTTATTT
1 TTAT-TTATTTATTATTATTT
31652901 TACTGATCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (21 bp):
TTATTTATTTATTATTATTTG
Found at i:31652946 original size:27 final size:28
Alignment explanation
Indices: 31652916--31652975 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
31652906 ATCTGTTTTC
* * *
31652916 TTATTTATTTTTTGTTTTATTATT-CAT
1 TTATTTACTTTTAGTGTTATTATTACAT
*
31652943 TTATTTACTTTTAGTGTTATTATTATAT
1 TTATTTACTTTTAGTGTTATTATTACAT
31652971 TTATT
1 TTATT
31652976 GTTTTCCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (28 bp):
TTATTTACTTTTAGTGTTATTATTACAT
Found at i:31653040 original size:3 final size:3
Alignment explanation
Indices: 31653032--31653093 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
31653022 GTTGTCATTT
* * *
31653032 TTA TTA TTA TT- TTCA TTA CTA CTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
31653077 TTA TCA TTGA TT- TTA TT
1 TTA TTA TT-A TTA TTA TT
31653094 TGTTTTTCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 4 0.08
3 40 0.82
4 5 0.10
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:31653132 original size:20 final size:21
Alignment explanation
Indices: 31653103--31653170 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
31653093 TTGTTTTTCA
31653103 TTTTAGTTTTA-GTTTTATTT
1 TTTTAGTTTTATGTTTTATTT
* *
31653123 TTTTATTTTTATGTTTTGTTT
1 TTTTAGTTTTATGTTTTATTT
31653144 TTAGTT-GTTTTAT-TTTTATTT
1 TT--TTAGTTTTATGTTTTATTT
*
31653165 TCTTAG
1 TTTTAG
31653171 ACTTATTTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
19 2 0.05
20 11 0.28
21 18 0.46
22 6 0.15
23 2 0.05
ACGTcount: A:0.13, C:0.01, G:0.10, T:0.75
Consensus pattern (21 bp):
TTTTAGTTTTATGTTTTATTT
Found at i:31665057 original size:55 final size:50
Alignment explanation
Indices: 31664902--31665068 Score: 172
Period size: 50 Copynumber: 3.2 Consensus size: 50
31664892 CCAAATATGA
** * * * * *
31664902 TCTTACATGGGAGTTTTCATATCGGTGCCCATGCCATGTCCCAGACATGG
1 TCTTACATGGGACCTCTCATCTCGGAGCCAATGCCATGTCCAAGACATGG
** * *
31664952 TCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCAAGACATGG
1 TCTTACATGGGACCTCTCATCTCGGAGCCAATGCCATGTCCAAGACATGG
* *
31665002 TCTTACATGGGACCTCTCATAATCTCAATGAGCCAATGCCATGTCCTAGACATGG
1 TCTTACATGGGACCTCTC---ATCTC--GGAGCCAATGCCATGTCCAAGACATGG
31665057 TCTTACATGGGA
1 TCTTACATGGGA
31665069 TCTCGTTCCC
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
50 57 0.59
53 5 0.05
55 35 0.36
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
TCTTACATGGGACCTCTCATCTCGGAGCCAATGCCATGTCCAAGACATGG
Found at i:31674452 original size:39 final size:40
Alignment explanation
Indices: 31674357--31674618 Score: 312
Period size: 39 Copynumber: 6.7 Consensus size: 40
31674347 TTGAATGATG
*
31674357 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
31674395 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
31674436 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
31674475 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-ATCTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTAAT
* *
31674514 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
31674553 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
31674592 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
31674619 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 13, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.01
39 126 0.63
40 60 0.30
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:31691781 original size:100 final size:99
Alignment explanation
Indices: 31691595--31691781 Score: 243
Period size: 100 Copynumber: 1.9 Consensus size: 99
31691585 AAGAACATGT
* * * * *
31691595 TGGGCTGAGTAATCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAACAGGTTTGATGTG
1 TGGGCTGAGTAACCGGGGTGGGGTGCTTAGCTGTCATCTCTCTTCGCGTCAAAAGGTTAGATATG
* * * *
31691660 TTCTTAAGGAAAATTATAATAAATTAGGAGTTTGC
66 TCCTAAAGCAAAA-TAAAATAAATTAGGAGTTTGC
31691695 TGGGCTGAGTAACCGGGGTGGGGTGCTTAGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAGTATA
1 TGGGCTGAGTAACCGGGGTGGGGTGCTTAGCTGTCATCTCTCTTCGCGTCAAAAGGTT-AG-ATA
31691760 T-TCCTAAAGCATAAA-AAAATAA
64 TGTCCTAAAGCA-AAATAAAATAA
31691782 TAATTTGGGG
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 61 0.81
101 8 0.11
102 6 0.08
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (99 bp):
TGGGCTGAGTAACCGGGGTGGGGTGCTTAGCTGTCATCTCTCTTCGCGTCAAAAGGTTAGATATG
TCCTAAAGCAAAATAAAATAAATTAGGAGTTTGC
Found at i:31696257 original size:20 final size:19
Alignment explanation
Indices: 31696216--31696258 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
31696206 TTCGATCAAT
*
31696216 TTTTGGGTCTCGATCCTGA
1 TTTTGGGTCTCGATCCTAA
*
31696235 TTTTGGGTTCTCGATTCTAA
1 TTTTGGG-TCTCGATCCTAA
31696255 TTTT
1 TTTT
31696259 CGATCTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.51
Consensus pattern (19 bp):
TTTTGGGTCTCGATCCTAA
Found at i:31696280 original size:13 final size:13
Alignment explanation
Indices: 31696264--31696288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31696254 ATTTTCGATC
31696264 TAAAGTTCAATTT
1 TAAAGTTCAATTT
31696277 TAAAGTTCAATT
1 TAAAGTTCAATT
31696289 ACCTATTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TAAAGTTCAATTT
Found at i:31700649 original size:25 final size:26
Alignment explanation
Indices: 31700610--31700681 Score: 103
Period size: 25 Copynumber: 2.8 Consensus size: 26
31700600 CAAGCCCATT
31700610 TTCACAGCTCGTGTAAGCATACT-GA
1 TTCACAGCTCGTGTAAGCATACTCGA
* *
31700635 TTTACAGCTCATGTAAGCATA-TCGA
1 TTCACAGCTCGTGTAAGCATACTCGA
*
31700660 TTCACAGCTCGTGTGAGCATAC
1 TTCACAGCTCGTGTAAGCATAC
31700682 ATGTACAGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (26 bp):
TTCACAGCTCGTGTAAGCATACTCGA
Found at i:31710917 original size:30 final size:30
Alignment explanation
Indices: 31710876--31711144 Score: 153
Period size: 30 Copynumber: 9.1 Consensus size: 30
31710866 TCAACCAATA
* * *
31710876 AAAAGGAATAGCTTCGACTATCGAGTTATG
1 AAAAGGGATAGCTTCGACCATCGAATTATG
**
31710906 AAAAGGGATAGCTTCGACCATAAAATTATG
1 AAAAGGGATAGCTTCGACCATCGAATTATG
* * * *
31710936 ACAAGGGAT-GGTGACGACCATC-AATAATG
1 AAAAGGGATAGCT-TCGACCATCGAATTATG
* * *
31710965 AAAAGGGAT-G--ACGACCATAGAACTATG
1 AAAAGGGATAGCTTCGACCATCGAATTATG
* * * *
31710992 AAAAGGGATAGTTTTGACTATTGAATTATG
1 AAAAGGGATAGCTTCGACCATCGAATTATG
* * * *
31711022 AAAAGGGATAGCTTTGGCTATCAAATTATG
1 AAAAGGGATAGCTTCGACCATCGAATTATG
* * * *
31711052 AAAAGGAAT-GGTGAT-GAGCATC-AACTATG
1 AAAAGGGATAGCT--TCGACCATCGAATTATG
* * * *
31711081 AAAAGGGAT-GGTGACGA-CATCAAAATATG
1 AAAAGGGATAGCT-TCGACCATCGAATTATG
* *
31711110 AAAAGGGATAGCTTCAACTATCGAATTATGG
1 AAAAGGGATAGCTTCGACCATCGAATTAT-G
31711141 AAAA
1 AAAA
31711145 AGATGGTCAC
Statistics
Matches: 188, Mismatches: 39, Indels: 23
0.75 0.16 0.09
Matches are distributed among these distances:
26 8 0.04
27 14 0.07
28 5 0.03
29 55 0.29
30 100 0.53
31 6 0.03
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (30 bp):
AAAAGGGATAGCTTCGACCATCGAATTATG
Found at i:31711082 original size:116 final size:116
Alignment explanation
Indices: 31710876--31711144 Score: 328
Period size: 116 Copynumber: 2.3 Consensus size: 116
31710866 TCAACCAATA
* * *
31710876 AAAAGGAATAGCTTCGACTATCGAGTTATGAAAAGGGATAGCTTCGACCATAAAATTATGACAAG
1 AAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATAGCTTCGACCATAAAATTATGAAAAG
* *
31710941 GGATGGTGACGACCATCAATAATGAAAAGGGA-TGACGACCAT-AGAACTATG
66 GAATGGTGACGACCATCAATAATGAAAAGGGAGTGACGA-CATCA-AAATATG
* * * * * * *
31710992 AAAAGGGATAGTTTTGACTATTGAATTATGAAAAGGGATAGCTTTGGCTATCAAATTATGAAAAG
1 AAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATAGCTTCGACCATAAAATTATGAAAAG
* *
31711057 GAATGGTGATGAGCATCAACT-ATGAAAAGGGATGGTGACGACATCAAAATATG
66 GAATGGTGACGACCATCAA-TAATGAAAAGGGA--GTGACGACATCAAAATATG
*
31711110 AAAAGGGATAGCTTCAACTATCGAATTATGGAAAA
1 AAAAGGGATAGCTTCGACTATCGAATTAT-GAAAA
31711145 AGATGGTCAC
Statistics
Matches: 129, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
116 82 0.64
117 1 0.01
118 34 0.26
119 12 0.09
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (116 bp):
AAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATAGCTTCGACCATAAAATTATGAAAAG
GAATGGTGACGACCATCAATAATGAAAAGGGAGTGACGACATCAAAATATG
Found at i:31713757 original size:20 final size:20
Alignment explanation
Indices: 31713704--31713761 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
31713694 ATGCCTCTGT
*
31713704 TTGCACTTTAGTGCCCCTGA
1 TTGCACTTTAGTGCTCCTGA
* *
31713724 TCGCA-TATTCGTGCTCCTGA
1 TTGCACT-TTAGTGCTCCTGA
*
31713744 TTGCACTTTGGTGCTCCT
1 TTGCACTTTAGTGCTCCT
31713762 ATTATGCATC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.12, C:0.29, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCACTTTAGTGCTCCTGA
Found at i:31715503 original size:30 final size:30
Alignment explanation
Indices: 31715469--31715532 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
31715459 TGTCTCAATT
*
31715469 GTGTGTGGCACACGGCCACGCGACATAGCC
1 GTGTGTGACACACGGCCACGCGACATAGCC
* *
31715499 GTGTGTGACACATGGCCATGCGACATAGCC
1 GTGTGTGACACACGGCCACGCGACATAGCC
31715529 GTGT
1 GTGT
31715533 CCCTTGTAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.28, G:0.33, T:0.19
Consensus pattern (30 bp):
GTGTGTGACACACGGCCACGCGACATAGCC
Found at i:31727480 original size:15 final size:15
Alignment explanation
Indices: 31727460--31727488 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31727450 TTTAGGGGAG
31727460 AAAAAACTCCCTATA
1 AAAAAACTCCCTATA
31727475 AAAAAACTCCCTAT
1 AAAAAACTCCCTAT
31727489 CGTTAATCCA
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:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAAACTCCCTATA
Found at i:31727704 original size:65 final size:65
Alignment explanation
Indices: 31727623--31727751 Score: 258
Period size: 65 Copynumber: 2.0 Consensus size: 65
31727613 CTTGACGTGG
31727623 AATATTGCAAGAAGAGAAAGCATATCCCACTATGATATATTCTTCTTTTTACATTGCATGAAAAA
1 AATATTGCAAGAAGAGAAAGCATATCCCACTATGATATATTCTTCTTTTTACATTGCATGAAAAA
31727688 AATATTGCAAGAAGAGAAAGCATATCCCACTATGATATATTCTTCTTTTTACATTGCATGAAAA
1 AATATTGCAAGAAGAGAAAGCATATCCCACTATGATATATTCTTCTTTTTACATTGCATGAAAA
31727752 CTTTTTCACG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (65 bp):
AATATTGCAAGAAGAGAAAGCATATCCCACTATGATATATTCTTCTTTTTACATTGCATGAAAAA
Found at i:31730483 original size:27 final size:27
Alignment explanation
Indices: 31730422--31730486 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
31730412 GTCGAATGAT
*
31730422 TGAAATACCCCCATAGGGTAAAATAAC
1 TGAAATACCCTCATAGGGTAAAATAAC
*
31730449 TGAAATACCCTCATAGGGTAAAATGAC
1 TGAAATACCCTCATAGGGTAAAATAAC
**
31730476 TGTTATACCCT
1 TGAAATACCCT
31730487 TCAGAGATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (27 bp):
TGAAATACCCTCATAGGGTAAAATAAC
Found at i:31730741 original size:26 final size:26
Alignment explanation
Indices: 31730709--31730789 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
31730699 TTTGCCACAT
* *
31730709 ATACTATTACTGGTAGCTTTACTGCG
1 ATACTATTACTGGCAGCTTTACTACG
*
31730735 ATACTATTACTGGCAGCTTTACTACT
1 ATACTATTACTGGCAGCTTTACTACG
* **
31730761 ATACTATTACTGACAAATTTACTACG
1 ATACTATTACTGGCAGCTTTACTACG
31730787 ATA
1 ATA
31730790 TTGGTGTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTACTACG
Found at i:31730939 original size:28 final size:28
Alignment explanation
Indices: 31730897--31730985 Score: 135
Period size: 28 Copynumber: 3.2 Consensus size: 28
31730887 ACTGCATTGT
31730897 TACTGTATTGGGCTAAGGCCCACACTGA
1 TACTGTATTGGGCTAAGGCCCACACTGA
*
31730925 TTCTGTATTGGGCTAAGGCCCACACTGA
1 TACTGTATTGGGCTAAGGCCCACACTGA
* * *
31730953 TACTGTATTAGGATAAGGCTCACACT-A
1 TACTGTATTGGGCTAAGGCCCACACTGA
31730980 TACTGT
1 TACTGT
31730986 CACTGAGTAG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 7 0.12
28 49 0.88
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACACTGA
Found at i:31731873 original size:18 final size:18
Alignment explanation
Indices: 31731842--31731876 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31731832 ATTCTCTTGA
31731842 AAGAACAAAAATTGCTGG
1 AAGAACAAAAATTGCTGG
* *
31731860 AAGAAGAAAGATTGCTG
1 AAGAACAAAAATTGCTG
31731877 CCGAATTTTA
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:0.49, C:0.09, G:0.26, T:0.17
Consensus pattern (18 bp):
AAGAACAAAAATTGCTGG
Found at i:31736098 original size:7 final size:7
Alignment explanation
Indices: 31736088--31736112 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31736078 AAATATTTTT
31736088 AAATTGA
1 AAATTGA
31736095 AAATTGA
1 AAATTGA
31736102 AAATTGA
1 AAATTGA
31736109 AAAT
1 AAAT
31736113 AGTTACTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (7 bp):
AAATTGA
Found at i:31741870 original size:27 final size:27
Alignment explanation
Indices: 31741840--31742014 Score: 192
Period size: 27 Copynumber: 6.4 Consensus size: 27
31741830 TTGAGTCCGT
* * * *
31741840 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* * *
31741867 ACACTTAGTGCTACGTAATCAAATCAC
1 ACACTTAGTGCTACATAGTCAAATCGC
31741894 ACACTTAGTGCTACATAGTCAAACTCGC
1 ACACTTAGTGCTACATAGTCAAA-TCGC
* *
31741922 ACACTTAGTGC-AGCATGGTCAATTCGC
1 ACACTTAGTGCTA-CATAGTCAAATCGC
* **
31741949 ACACTTAGTGC-ATCATATTCATTTCGC
1 ACACTTAGTGCTA-CATAGTCAAATCGC
*
31741976 ACACTTAGTGCAACATAGTCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
31742003 ACACTTAGTGCT
1 ACACTTAGTGCT
31742015 GTACAATTTA
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (27 bp):
ACACTTAGTGCTACATAGTCAAATCGC
Found at i:31741979 original size:82 final size:81
Alignment explanation
Indices: 31741858--31742013 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
31741848 TGCTATATAA
* *
31741858 TCAACTCGCACACTTAGTGCTACGTAATCAAATCACACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAGTCAAA-TCGCA
31741923 CACTTAGTGCAGCATGG
65 CACTTAGTGCAGCATGG
* * ** *
31741940 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCACACACTTAGTGCAACATAGTCAAATCGCA
31742004 CACTTAGTGC
65 CACTTAGTGC
31742014 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCAGCATGG
Found at i:31758848 original size:27 final size:27
Alignment explanation
Indices: 31758818--31758995 Score: 207
Period size: 27 Copynumber: 6.6 Consensus size: 27
31758808 ATATTGAGTC
* * * *
31758818 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31758845 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31758872 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* *
31758900 CGCACACTTAGTGC-AGCATGGTCAATT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* **
31758927 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31758954 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31758981 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31758996 GTACAATTAA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31758957 original size:82 final size:81
Alignment explanation
Indices: 31758839--31758994 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31758829 TGCTATATAA
* *
31758839 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31758904 CACTTAGTGCAGCATGG
65 CACTTAGTGCAGCATGG
* * **
31758921 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31758985 CACTTAGTGC
65 CACTTAGTGC
31758995 TGTACAATTA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCAGCATGG
Found at i:31764429 original size:11 final size:11
Alignment explanation
Indices: 31764413--31764437 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31764403 TAGAAAACGA
31764413 ACAAATGCAAT
1 ACAAATGCAAT
31764424 ACAAATGCAAT
1 ACAAATGCAAT
31764435 ACA
1 ACA
31764438 TCCAGAATGT
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:0.56, C:0.20, G:0.08, T:0.16
Consensus pattern (11 bp):
ACAAATGCAAT
Found at i:31767358 original size:24 final size:24
Alignment explanation
Indices: 31767331--31767406 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 24
31767321 AAATGATTAT
*
31767331 TTTGCCTATGATGTAAATGAATGA
1 TTTGCCTATGATGTAAATGACTGA
*
31767355 TTTGTCCGA-GATGTAAATGACTGA
1 TTTG-CCTATGATGTAAATGACTGA
* * *
31767379 TTTGTCTGTGATTTAAATGACTGA
1 TTTGCCTATGATGTAAATGACTGA
31767403 TTTG
1 TTTG
31767407 TCTTTGATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
23 1 0.02
24 40 0.91
25 3 0.07
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (24 bp):
TTTGCCTATGATGTAAATGACTGA
Found at i:31767407 original size:24 final size:24
Alignment explanation
Indices: 31767339--31767428 Score: 108
Period size: 24 Copynumber: 3.8 Consensus size: 24
31767329 ATTTTGCCTA
* *
31767339 TGATGTAAATGAATGATTTGTCCG
1 TGATGTAAATGACTGATTTGTCTG
*
31767363 AGATGTAAATGACTGATTTGTCTG
1 TGATGTAAATGACTGATTTGTCTG
* *
31767387 TGATTTAAATGACTGATTTGTCTT
1 TGATGTAAATGACTGATTTGTCTG
* **
31767411 TGATTTGTATGACTGATT
1 TGATGTAAATGACTGATT
31767429 CCGTGTAGGG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (24 bp):
TGATGTAAATGACTGATTTGTCTG
Found at i:31767736 original size:63 final size:64
Alignment explanation
Indices: 31767644--31767782 Score: 190
Period size: 63 Copynumber: 2.2 Consensus size: 64
31767634 TTGGTGGCCG
* * * *
31767644 TGTGCCGATCATATTACCATTACTGATGGTTGTGTGCCGATCATATTACTTCTAC-AATTGCTT
1 TGTGCCGATCATACTAACATTACTGATGGTTGTGTGCCGATCATATTACTACTACTAATGGCTT
* * * *
31767707 TGTGCTGATCATACTAATATTATTGATGGTTGTGTGCCGATCATATTACTACTACTGATGGCTT
1 TGTGCCGATCATACTAACATTACTGATGGTTGTGTGCCGATCATATTACTACTACTAATGGCTT
*
31767771 TGTGCCAATCAT
1 TGTGCCGATCAT
31767783 TTTACTGTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
63 49 0.75
64 16 0.25
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (64 bp):
TGTGCCGATCATACTAACATTACTGATGGTTGTGTGCCGATCATATTACTACTACTAATGGCTT
Found at i:31767775 original size:95 final size:95
Alignment explanation
Indices: 31767610--31767788 Score: 243
Period size: 95 Copynumber: 1.9 Consensus size: 95
31767600 TATTGATGGA
* * * *
31767610 TTTGTGCAGATCATATTACCATTATTGGTGGCCGTGTGCCGATCATATTACCATTACTGATGGTT
1 TTTGTGCAGATCATACTAACATTATTGATGGCCGTGTGCCGATCATATTACCACTACTGATGGTT
*
31767675 GTGTGCCGATCATATTACTTCTACAATTGC
66 GTGTGCCAATCATATTACTTCTACAATTGC
* * ** *
31767705 TTTGTGCTGATCATACTAATATTATTGATGGTTGTGTGCCGATCATATTACTACTACTGATGGCT
1 TTTGTGCAGATCATACTAACATTATTGATGGCCGTGTGCCGATCATATTACCACTACTGATGG-T
*
31767770 T-TGTGCCAATCATTTTACT
65 TGTGTGCCAATCATATTACT
31767789 GTACTTATGG
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 70 0.97
96 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (95 bp):
TTTGTGCAGATCATACTAACATTATTGATGGCCGTGTGCCGATCATATTACCACTACTGATGGTT
GTGTGCCAATCATATTACTTCTACAATTGC
Found at i:31767788 original size:32 final size:33
Alignment explanation
Indices: 31767603--31767801 Score: 153
Period size: 32 Copynumber: 6.3 Consensus size: 33
31767593 GCGATGCTAT
* * * * *
31767603 TGATGGATT-TGTGCAGATCATATTACCATTAT
1 TGATGGCTTGTGTGCCGATCATATTACTACTAC
* * * *
31767635 TGGTGGC-CGTGTGCCGATCATATTACCATTAC
1 TGATGGCTTGTGTGCCGATCATATTACTACTAC
*
31767667 TGATGG-TTGTGTGCCGATCATATTACTTCTAC
1 TGATGGCTTGTGTGCCGATCATATTACTACTAC
* * * * * * *
31767699 -AATTGCTT-TGTGCTGATCATACTAATATTAT
1 TGATGGCTTGTGTGCCGATCATATTACTACTAC
31767730 TGATGG-TTGTGTGCCGATCATATTACTACTAC
1 TGATGGCTTGTGTGCCGATCATATTACTACTAC
* * *
31767762 TGATGGCTT-TGTGCCAATCATTTTACT-GTAC
1 TGATGGCTTGTGTGCCGATCATATTACTACTAC
*
31767793 TTATGGCTT
1 TGATGGCTT
31767802 ATAGCCATTC
Statistics
Matches: 132, Mismatches: 29, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
31 33 0.25
32 97 0.73
33 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (33 bp):
TGATGGCTTGTGTGCCGATCATATTACTACTAC
Found at i:31767823 original size:22 final size:22
Alignment explanation
Indices: 31767793--31767839 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
31767783 TTTACTGTAC
* *
31767793 TTATGGCTTATAGCCATTCTAT
1 TTATAGCTTATAGCCATCCTAT
*
31767815 TTATAGCTTATAGCTATCCTAT
1 TTATAGCTTATAGCCATCCTAT
31767837 TTA
1 TTA
31767840 CGGCTCTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.47
Consensus pattern (22 bp):
TTATAGCTTATAGCCATCCTAT
Found at i:31770784 original size:21 final size:23
Alignment explanation
Indices: 31770743--31770790 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
31770733 TATTAACCTT
*
31770743 TTAACTTTATAATAATAAT-AAA
1 TTAACTTTATAAAAATAATAAAA
31770765 TTAAC-TTATAAAACAT-ATAAAA
1 TTAACTTTATAAAA-ATAATAAAA
31770787 TTAA
1 TTAA
31770791 AATATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (23 bp):
TTAACTTTATAAAAATAATAAAA
Found at i:31773506 original size:14 final size:15
Alignment explanation
Indices: 31773484--31773516 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
31773474 ATGATATTTC
*
31773484 TATTATTTTTAGTAT
1 TATTATTTTTACTAT
31773499 TATT-TTTTTACTAT
1 TATTATTTTTACTAT
31773513 TATT
1 TATT
31773517 CTTACTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (15 bp):
TATTATTTTTACTAT
Found at i:31773521 original size:12 final size:12
Alignment explanation
Indices: 31773483--31773526 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
31773473 TATGATATTT
31773483 CTATTATTTTTA
1 CTATTATTTTTA
*
31773495 GTATTATTTTTTTA
1 CTATTA--TTTTTA
*
31773509 CTATTATTCTTA
1 CTATTATTTTTA
31773521 CTATTA
1 CTATTA
31773527 CCTTTAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 16 0.59
14 11 0.41
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (12 bp):
CTATTATTTTTA
Found at i:31773627 original size:6 final size:6
Alignment explanation
Indices: 31773560--31773626 Score: 86
Period size: 6 Copynumber: 11.5 Consensus size: 6
31773550 ATTGATTTTA
31773560 TTTC-T TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTC-T
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
* *
31773606 TTTTAT CTTT-AT TTTTAT TTT
1 TTTCAT -TTTCAT TTTCAT TTT
31773627 TGTTTTAGTT
Statistics
Matches: 57, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
5 11 0.19
6 43 0.75
7 3 0.05
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTCAT
Found at i:31773632 original size:23 final size:25
Alignment explanation
Indices: 31773593--31773656 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 25
31773583 TTTCATTTTC
*
31773593 ATTTTCATTTTCTTTTTA-T-CTTT
1 ATTTTTATTTTCTTTTTAGTACTTT
31773616 ATTTTTATTTT-TGTTTTAGTTACTTT
1 ATTTTTATTTTCT-TTTTAG-TACTTT
*
31773642 ATTTTTTATCTTCTT
1 A-TTTTTATTTTCTT
31773657 AGGCTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
22 1 0.03
23 15 0.45
25 1 0.03
26 5 0.15
27 10 0.30
28 1 0.03
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.73
Consensus pattern (25 bp):
ATTTTTATTTTCTTTTTAGTACTTT
Found at i:31781105 original size:340 final size:341
Alignment explanation
Indices: 31780108--31781130 Score: 1931
Period size: 341 Copynumber: 3.0 Consensus size: 341
31780098 AACTACTTAT
*
31780108 ACAGTAAATCATTATCGATCAATCTTTCCAAGAAATTTCTATTAATTTTATATCATTTGGTTGCA
1 ACAGTAAATCATTGTCGATCAATCTTTCCAAGAAATTTCTATTAATTTTATATCATTTGGTTGCA
31780173 AAACTTGACGTGGAGTCTTGTAAGAAGAGAGAGCATATCCCACTATGATATATTCTTTTTTTTAC
66 AAACTTGACGTGGAGTCTTGTAAGAAGAGAGAGCATATCCCACTATGATATATTCTTTTTTTTAC
31780238 GTTGCATGAAAACTTTTTAACTGAATCATGAAAGTGAAAAGTGTATCCATGCATGAATTGAAACT
131 GTTGCATGAAAACTTTTTAACTGAATCATGAAAGTGAAAAGTGTATCCATGCATGAATTGAAACT
* *
31780303 TAATCGAGTTATAAATATAAGAAAATTCACAACCGTGAGCTTAAAGGTTAGAAAAACAGGATGCA
196 TAATCGAGTTATAAATATAAGAAAATTCACAGCCTTGAGCTTAAAGGTTAGAAAAACAGGATGCA
*
31780368 ACAATTTTATTAATCACCAGTTTACTAAAAGCAAATAGTTGAGATGCTGATAATTGCAATGAAAA
261 ACAATTTTATTAATCACCAGTTTACTAAAAGCAAATAGTTGAGATGCTGATAATTGGAATGAAAA
*
31780433 TAAACCTAAACATTAA
326 TAACCCTAAACATTAA
* *
31780449 ACAGTAAATCATTGTCAATCCATCTTTCCAAGAAATTTCTATTAATTTTATATCATTTGGTTGCA
1 ACAGTAAATCATTGTCGATCAATCTTTCCAAGAAATTTCTATTAATTTTATATCATTTGGTTGCA
31780514 AAACTTGACGTGGAGTCTTGTAAGAAGAGAGAGCATATCCCACTATGATATATTCTTTTTTTTAC
66 AAACTTGACGTGGAGTCTTGTAAGAAGAGAGAGCATATCCCACTATGATATATTCTTTTTTTTAC
31780579 GTTGCATGAAAACTTTTTAACTGAATCATGAAAGTGAAAAGTGTATCCATGCATGAATTGAAACT
131 GTTGCATGAAAACTTTTTAACTGAATCATGAAAGTGAAAAGTGTATCCATGCATGAATTGAAACT
*
31780644 TAATCGAGTTATAAATATAAGAAAATTCACAGCCTTGAGCTTAAAGGTTAGAAAAATAGGATGCA
196 TAATCGAGTTATAAATATAAGAAAATTCACAGCCTTGAGCTTAAAGGTTAGAAAAACAGGATGCA
31780709 ACAATTTTATTAATCACCAGTTTACTAAAAGCAAATAGTTGAGATGCTGATAATTGGAATGAAAA
261 ACAATTTTATTAATCACCAGTTTACTAAAAGCAAATAGTTGAGATGCTGATAATTGGAATGAAAA
31780774 TAACCCTAAACATTAA
326 TAACCCTAAACATTAA
31780790 ACAGTAAATCATTGTCGATCAATCTTTCCAAGAAATTTCTATTAATTTTATATCATTTGGTTGCA
1 ACAGTAAATCATTGTCGATCAATCTTTCCAAGAAATTTCTATTAATTTTATATCATTTGGTTGCA
*
31780855 AAACTTGACGTGGAGTCTTGTAAGAAGAGAGAGCATATGCCACTATGATATATTC-TTTTTTTAC
66 AAACTTGACGTGGAGTCTTGTAAGAAGAGAGAGCATATCCCACTATGATATATTCTTTTTTTTAC
*
31780919 GTTGCATGAAAACTTTTTAACTGAATCATGAAAGTGAAAAGTGTATCCATGCTTGAATTGAAACT
131 GTTGCATGAAAACTTTTTAACTGAATCATGAAAGTGAAAAGTGTATCCATGCATGAATTGAAACT
31780984 TAATCGAGTTATAAATATAAGAAAATTCACAGCCTTGAGCTTAAAGGTTAGAAAAACAGGATGCA
196 TAATCGAGTTATAAATATAAGAAAATTCACAGCCTTGAGCTTAAAGGTTAGAAAAACAGGATGCA
* *
31781049 ACAATTTTATTAATCACTAGTTTACTAAAAGCAAATAGTTGAGAAGCTGATAATTGGAATGAAAA
261 ACAATTTTATTAATCACCAGTTTACTAAAAGCAAATAGTTGAGATGCTGATAATTGGAATGAAAA
31781114 TAACCCTAAACATTAA
326 TAACCCTAAACATTAA
31781130 A
1 A
31781131 TAGTCAAGGC
Statistics
Matches: 667, Mismatches: 15, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
340 217 0.33
341 450 0.67
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (341 bp):
ACAGTAAATCATTGTCGATCAATCTTTCCAAGAAATTTCTATTAATTTTATATCATTTGGTTGCA
AAACTTGACGTGGAGTCTTGTAAGAAGAGAGAGCATATCCCACTATGATATATTCTTTTTTTTAC
GTTGCATGAAAACTTTTTAACTGAATCATGAAAGTGAAAAGTGTATCCATGCATGAATTGAAACT
TAATCGAGTTATAAATATAAGAAAATTCACAGCCTTGAGCTTAAAGGTTAGAAAAACAGGATGCA
ACAATTTTATTAATCACCAGTTTACTAAAAGCAAATAGTTGAGATGCTGATAATTGGAATGAAAA
TAACCCTAAACATTAA
Found at i:31781869 original size:23 final size:23
Alignment explanation
Indices: 31781843--31781889 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
31781833 TCATTTTCAT
*
31781843 TGATCTTAATCTTGATT-TTTTGC
1 TGATCTTAATCCTG-TTGTTTTGC
31781866 TGATCTTAATCCTGTTGTTTTGC
1 TGATCTTAATCCTGTTGTTTTGC
31781889 T
1 T
31781890 TTCCTCTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (23 bp):
TGATCTTAATCCTGTTGTTTTGC
Found at i:31783133 original size:7 final size:7
Alignment explanation
Indices: 31783121--31783149 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
31783111 AACATTTAAA
31783121 TAAATTT
1 TAAATTT
31783128 TAAATTT
1 TAAATTT
31783135 TAAATTT
1 TAAATTT
31783142 TAAATTT
1 TAAATTT
31783149 T
1 T
31783150 TTAGTTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TAAATTT
Found at i:31784064 original size:12 final size:12
Alignment explanation
Indices: 31784046--31784088 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
31784036 TGTGTTATTT
31784046 CTATTATTTTTA
1 CTATTATTTTTA
*
31784058 GTATTATTTTTTA
1 CTATTA-TTTTTA
*
31784071 CTATTATTCTTA
1 CTATTATTTTTA
*
31784083 CAATTA
1 CTATTA
31784089 CATTTAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (12 bp):
CTATTATTTTTA
Found at i:31784070 original size:13 final size:13
Alignment explanation
Indices: 31784046--31784078 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
31784036 TGTGTTATTT
31784046 CTATTA-TTTTTA
1 CTATTATTTTTTA
*
31784058 GTATTATTTTTTA
1 CTATTATTTTTTA
31784071 CTATTATT
1 CTATTATT
31784079 CTTACAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (13 bp):
CTATTATTTTTTA
Found at i:31784134 original size:6 final size:6
Alignment explanation
Indices: 31784123--31784183 Score: 68
Period size: 6 Copynumber: 9.7 Consensus size: 6
31784113 ATTTTATTTC
* * *
31784123 TTTTAT TTTTAT TTTTAT TTTTAT CTTTAT TTTTGT TTGTAGT TGCTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T T--TTTAT
31784174 TTTTAT TTTT
1 TTTTAT TTTT
31784184 TTAGACTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
6 39 0.85
7 2 0.04
8 2 0.04
9 3 0.07
ACGTcount: A:0.13, C:0.03, G:0.07, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:31795377 original size:42 final size:43
Alignment explanation
Indices: 31795311--31795431 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
31795301 ATCAAATATT
* * * *
31795311 GATGCCACTGTCCCAGATAGGGTCTTACACGAAAT-T-ATATAC
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAAAT-C
* *
31795353 GATGCCAATGTCCCTGACATGGTCTTACA-GTAAATCTCAAATT
1 GATGCCAATGTCCCAGACATGGTCTTACACG-AAATCTCAAATC
* *
31795396 GATTCCAATGTCCCAGACGTGGTCTTACACGAAATC
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATC
31795432 AGATATCAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.02
42 29 0.44
43 32 0.48
44 4 0.06
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAAATC
Found at i:31800448 original size:51 final size:51
Alignment explanation
Indices: 31800386--31800569 Score: 221
Period size: 51 Copynumber: 3.6 Consensus size: 51
31800376 GTTCACATAT
* * *
31800386 TAGCCTACACATAGTACTACACATGTGACCATCA-CTATCCGATACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACCAT-AGCTATCCGGTACACGTAG
* ** *
31800437 TAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCCGGTATGCATAG
1 TAGCCTGCACATAGTACTACACACGTGA-CCATAGCTATCCGGTACACGTAG
* * * * *
31800488 TAGCCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACCATAGCTATCCGGTACACGTAG
31800538 TAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGCCTGCACATAGTACTACACACGTGACCAT
31800570 CACTTTCACT
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
50 43 0.39
51 66 0.59
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGCCTGCACATAGTACTACACACGTGACCATAGCTATCCGGTACACGTAG
Found at i:31800550 original size:101 final size:101
Alignment explanation
Indices: 31800381--31800565 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
31800371 TACCGGTTCA
* *
31800381 CATATTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCCGATACACGTAGTAGCCTGCA
31800446 CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
65 CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
* * * *
31800483 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCCGATACACGTAGTAGCCTGCA
31800547 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
31800566 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 1 0.01
101 43 0.57
102 32 0.42
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTATG
Found at i:31800589 original size:101 final size:100
Alignment explanation
Indices: 31800376--31800599 Score: 249
Period size: 101 Copynumber: 2.2 Consensus size: 100
31800366 AATGATACCG
* * *
31800376 GTTCACATATTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCATATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCCGATACACGTAGTAGC
*
31800441 CTGCACATAGTACTACACACGTGATCGAAGCTATCC
65 CTGCACATAGTACTACACACGTGATCCAAGCTATCC
* * * * *
31800477 GGT-ATGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACGTAGTA
1 GTTCAT--ATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCCGATACACGTAGTA
*
31800540 GCCTGCACATAGTACTACACACGTGA-CCATCA-CTTTCAC
63 GCCTGCACATAGTACTACACACGTGATCCA--AGCTATC-C
* *
31800579 TTTCATATAGTGGCCTACACA
1 GTTCATATAGTAGCCTACACA
31800600 CAGTCTGTGC
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
100 4 0.04
101 62 0.61
102 34 0.33
103 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (100 bp):
GTTCATATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCCGATACACGTAGTAGCC
TGCACATAGTACTACACACGTGATCCAAGCTATCC
Found at i:31803362 original size:29 final size:29
Alignment explanation
Indices: 31803095--31803349 Score: 270
Period size: 29 Copynumber: 8.8 Consensus size: 29
31803085 ACCTTAGATA
*
31803095 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
31803124 ATGAAAAGGGAT--CATGACGACCATC-AACT
1 ATGAAAAGGGATAGC-T-TCGGCTATCGAA-T
* * *
31803153 ATGAAAAGGGATGGTGATTAC--C-ATAGAAT
1 ATGAAAAGGGAT--AGCTT-CGGCTATCGAAT
* *
31803182 ATGAAAAGGGATAGCTTCGACTATCAAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
31803211 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
31803240 ATGAAAAAGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* **
31803269 GTGAAAAGGGATAGCTTCTACTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
31803298 ATGAAAAGGGATAGCTTCGGCTATCAAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
31803327 GTGAAAAGGGATAGCTTTGGCTA
1 ATGAAAAGGGATAGCTTCGGCTA
31803350 GCGATTATAA
Statistics
Matches: 190, Mismatches: 24, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
26 1 0.01
27 4 0.02
28 3 0.02
29 177 0.93
30 3 0.02
32 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:31803457 original size:29 final size:29
Alignment explanation
Indices: 31803095--31803459 Score: 193
Period size: 29 Copynumber: 12.6 Consensus size: 29
31803085 ACCTTAGATA
* * * *
31803095 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATGGTTTCGACTATCGAAT
** ** *
31803124 ATGAAAAGGGATCATGACGACCATC-AACT
1 ATGAAAAGGGATGGTTTCGACTATCGAA-T
* *
31803153 ATGAAAAGGGATGGTGATT--ACCATAGAAT
1 ATGAAAAGGGATGGT--TTCGACTATCGAAT
* * *
31803182 ATGAAAAGGGATAGCTTCGACTATCAAAT
1 ATGAAAAGGGATGGTTTCGACTATCGAAT
* * *
31803211 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATGGTTTCGACTATCGAAT
* * * *
31803240 ATGAAAAAGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATGGTTTCGACTATCGAAT
* * * *
31803269 GTGAAAAGGGATAGCTTCTACTATCGAAT
1 ATGAAAAGGGATGGTTTCGACTATCGAAT
* * * *
31803298 ATGAAAAGGGATAGCTTCGGCTATCAAAT
1 ATGAAAAGGGATGGTTTCGACTATCGAAT
* * * * *
31803327 GTGAAAAGGGATAGCTTT-GGCTAGCGATT
1 ATGAAAAGGGAT-GGTTTCGACTATCGAAT
* ** * * *
31803356 ATAAAAAAAGATGGTGAT-GACCATC-AGCT
1 ATGAAAAGGGATGGT-TTCGACTATCGA-AT
* ** * * *
31803385 ATGAAAATGGATGGTGACGACCATTGATT
1 ATGAAAAGGGATGGTTTCGACTATCGAAT
* *
31803414 AATGAAAAGGGATGGTTTCGACCATTGAAT
1 -ATGAAAAGGGATGGTTTCGACTATCGAAT
31803444 ATGAAAAGGGATGGTT
1 ATGAAAAGGGATGGTT
31803460 ACAACCATCG
Statistics
Matches: 267, Mismatches: 57, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
27 2 0.01
28 4 0.01
29 231 0.87
30 30 0.11
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATGGTTTCGACTATCGAAT
Found at i:31803466 original size:29 final size:29
Alignment explanation
Indices: 31803384--31803467 Score: 114
Period size: 30 Copynumber: 2.9 Consensus size: 29
31803374 GACCATCAGC
* * *
31803384 TATGAAAATGGATGGTGACGACCATTGAT
1 TATGAAAAGGGATGGTTACGACCATTGAA
*
31803413 TAATGAAAAGGGATGGTTTCGACCATTGAA
1 T-ATGAAAAGGGATGGTTACGACCATTGAA
*
31803443 TATGAAAAGGGATGGTTACAACCAT
1 TATGAAAAGGGATGGTTACGACCAT
31803468 CGTTTAGCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
29 23 0.48
30 25 0.52
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (29 bp):
TATGAAAAGGGATGGTTACGACCATTGAA
Found at i:31806993 original size:22 final size:23
Alignment explanation
Indices: 31806959--31807002 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
31806949 TAATGATGTG
*
31806959 CAAACTATGAAATAATTAAAAACA
1 CAAACTA-GAAATAACTAAAAACA
31806983 CAAACTA-AAATAACTAAAAA
1 CAAACTAGAAATAACTAAAAA
31807003 TTAATGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
24 7 0.37
ACGTcount: A:0.66, C:0.14, G:0.02, T:0.18
Consensus pattern (23 bp):
CAAACTAGAAATAACTAAAAACA
Found at i:31808744 original size:27 final size:25
Alignment explanation
Indices: 31808714--31808763 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
31808704 TTTTGTTTAA
*
31808714 TCTCAATCTCGTTTTTCTTTTTCTCAC
1 TCTCAATCTC-TTTTT-TTCTTCTCAC
*
31808741 TCTCACTCTCTTTTTTTCTTCTC
1 TCTCAATCTCTTTTTTTCTTCTC
31808764 TCGAGTTCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 5 0.24
27 9 0.43
ACGTcount: A:0.08, C:0.32, G:0.02, T:0.58
Consensus pattern (25 bp):
TCTCAATCTCTTTTTTTCTTCTCAC
Found at i:31809791 original size:12 final size:12
Alignment explanation
Indices: 31809772--31809805 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
31809762 AATGGAAACT
31809772 AATTTTTTTT-G
1 AATTTTTTTTCG
31809783 AATTTTTTTTCG
1 AATTTTTTTTCG
*
31809795 AGTTTTTTTTC
1 AATTTTTTTTC
31809806 AAGAAACTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.71
Consensus pattern (12 bp):
AATTTTTTTTCG
Found at i:31820637 original size:20 final size:20
Alignment explanation
Indices: 31820612--31820662 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
31820602 GTATTGATTT
*
31820612 GGTATCGATACT-TTTCTTAA
1 GGTATCGATA-TATTTCCTAA
31820632 GGTATCGATATATTTCCTAA
1 GGTATCGATATATTTCCTAA
31820652 GGTATCGATAT
1 GGTATCGATAT
31820663 TCCTGCTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (20 bp):
GGTATCGATATATTTCCTAA
Found at i:31832252 original size:19 final size:19
Alignment explanation
Indices: 31832228--31832266 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
31832218 GGCCCTACGG
*
31832228 GCGTGTGGGCCCCACACGA
1 GCGTGTGGACCCCACACGA
31832247 GCGTGTGGACCCCACACGA
1 GCGTGTGGACCCCACACGA
31832266 G
1 G
31832267 TGAACCACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.18, C:0.36, G:0.36, T:0.10
Consensus pattern (19 bp):
GCGTGTGGACCCCACACGA
Found at i:31834563 original size:40 final size:40
Alignment explanation
Indices: 31834511--31834864 Score: 519
Period size: 40 Copynumber: 8.8 Consensus size: 40
31834501 ATTACCACAA
* * ** * *
31834511 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
*
31834551 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
* *
31834591 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
* *
31834631 GCACAAAGGCCTGCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
*
31834671 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
* *
31834711 GCACAAAGGCCTGCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
*
31834751 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
* * * *
31834791 GCACAAAGGCCTGCGGGTCTTAGCCCGAATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
* *
31834831 GCACAAAGGCCTGCGGGTCTTAGCCCGGATATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
31834865 TCAAATGCTC
Statistics
Matches: 285, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 285 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
Found at i:31834595 original size:80 final size:80
Alignment explanation
Indices: 31834511--31834864 Score: 582
Period size: 80 Copynumber: 4.4 Consensus size: 80
31834501 ATTACCACAA
* ** * * * *
31834511 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAAGGCCTGCGGGTCTTAGCC
31834576 CGGATATATCAACTT
66 CGGATATATCAACTT
31834591 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAAGGCCTGCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAAGGCCTGCGGGTCTTAGCC
31834656 CGGATATATCAACTT
66 CGGATATATCAACTT
*
31834671 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAAGGCCTGCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAAGGCCTGCGGGTCTTAGCC
31834736 CGGATATATCAACTT
66 CGGATATATCAACTT
*
31834751 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAAGGCCTGCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAAGGCCTGCGGGTCTTAGCC
* *
31834816 CGAATATATCAACTC
66 CGGATATATCAACTT
** *
31834831 GCACAAAGGCCTGCGGGTCTTAGCCCGGATATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAT
31834865 TCAAATGCTC
Statistics
Matches: 261, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 261 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.25
Consensus pattern (80 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAAGGCCTGCGGGTCTTAGCC
CGGATATATCAACTT
Found at i:31844200 original size:21 final size:19
Alignment explanation
Indices: 31844171--31844209 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
31844161 GTCCTAGTTT
31844171 ATTTATGTTATAATTGTTGCA
1 ATTTATGTT-TAATT-TTGCA
*
31844192 ATTTGTGTTTAATTTTGC
1 ATTTATGTTTAATTTTGC
31844210 TAAAATCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.56
Consensus pattern (19 bp):
ATTTATGTTTAATTTTGCA
Found at i:31849476 original size:61 final size:62
Alignment explanation
Indices: 31849399--31849522 Score: 198
Period size: 61 Copynumber: 2.0 Consensus size: 62
31849389 GACAATCAAA
* *
31849399 TGTTGAACATCAAATTTGATCACCTAATTTAATTAGTTTTAAC-TTTAATTTCTAGGGGTTT
1 TGTTGAACATCAAATTTCATCACCTAATTTAATTAGTTTTAACATTTAATTTCTAGGGCTTT
*
31849460 TGTTGAAC-TCCAAATTTCATCGCCTAATTTAATTAGTTTTAACATTTAATTTCTAGGGCTTT
1 TGTTGAACAT-CAAATTTCATCACCTAATTTAATTAGTTTTAACATTTAATTTCTAGGGCTTT
31849522 T
1 T
31849523 TTTTGCATAT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
60 1 0.02
61 39 0.67
62 18 0.31
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (62 bp):
TGTTGAACATCAAATTTCATCACCTAATTTAATTAGTTTTAACATTTAATTTCTAGGGCTTT
Found at i:31851346 original size:7 final size:7
Alignment explanation
Indices: 31851334--31851359 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31851324 GCTAAGCTAC
31851334 CACTTAT
1 CACTTAT
31851341 CACTTAT
1 CACTTAT
31851348 CACTTAT
1 CACTTAT
31851355 CACTT
1 CACTT
31851360 GCCACTTGTC
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:0.31, G:0.00, T:0.42
Consensus pattern (7 bp):
CACTTAT
Found at i:31851365 original size:14 final size:14
Alignment explanation
Indices: 31851331--31851366 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
31851321 GTGGCTAAGC
31851331 TACCACTTATCACT
1 TACCACTTATCACT
*
31851345 TATCACTTATCACT
1 TACCACTTATCACT
*
31851359 TGCCACTT
1 TACCACTT
31851367 GTCATTGATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.25, C:0.33, G:0.03, T:0.39
Consensus pattern (14 bp):
TACCACTTATCACT
Found at i:31851368 original size:64 final size:65
Alignment explanation
Indices: 31851282--31851414 Score: 187
Period size: 64 Copynumber: 2.1 Consensus size: 65
31851272 CTTACACGGA
* * * * * *
31851282 ATCACTTATCATTTATCTCTTGTCACTGGTCAGATAAGTGTGGCT-AAGCTACCACTTATCACTT
1 ATCACTTATCACTTACCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTG
* *
31851346 ATCACTTATCACTTGCCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTG
1 ATCACTTATCACTTACCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTG
31851411 ATCA
1 ATCA
31851415 GAAGTACTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
64 38 0.63
65 22 0.37
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (65 bp):
ATCACTTATCACTTACCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTG
Found at i:31853909 original size:29 final size:31
Alignment explanation
Indices: 31853875--31853934 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
31853865 GAATCAAAAT
31853875 AACCTATACACATTCGAAC-T-TAATCATCC
1 AACCTATACACATTCGAACATATAATCATCC
31853904 AACCTATACACATTCGAACATATAATCATCC
1 AACCTATACACATTCGAACATATAATCATCC
31853935 TTTTACTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 19 0.66
30 1 0.03
31 9 0.31
ACGTcount: A:0.40, C:0.30, G:0.03, T:0.27
Consensus pattern (31 bp):
AACCTATACACATTCGAACATATAATCATCC
Found at i:31854795 original size:36 final size:36
Alignment explanation
Indices: 31854743--31854825 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
31854733 ATATATAATT
* * * *
31854743 ATCACTTTTAAATATTACAACTATATCATTATG-CCGA
1 ATCACTTAT-AATATTACAACTACACCAATA-GACCGA
*
31854780 ATCACTTATAATATTACAATTACACCAATAGACCGA
1 ATCACTTATAATATTACAACTACACCAATAGACCGA
31854816 ATCACTTATA
1 ATCACTTATA
31854826 TGCTCAATTG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
35 1 0.03
36 31 0.77
37 8 0.20
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (36 bp):
ATCACTTATAATATTACAACTACACCAATAGACCGA
Found at i:31858719 original size:26 final size:27
Alignment explanation
Indices: 31858683--31858793 Score: 95
Period size: 27 Copynumber: 4.1 Consensus size: 27
31858673 TATAACGGTC
*
31858683 ATTTTGCCC-TTCAGGGTTATTTCAGTA
1 ATTTTACCCTTTCAGGG-TATTTCAGTA
* ** *
31858710 ATTTTACCTTTTGGGGGTATTT-TGATA
1 ATTTTACCCTTTCAGGGTATTTCAG-TA
* **
31858737 ATTTTACCCTTTGAGGGTATTTTGGTA
1 ATTTTACCCTTTCAGGGTATTTCAGTA
31858764 ATTTTACCC-TTCGAGGGTA-TTCAGTA
1 ATTTTACCCTTTC-AGGGTATTTCAGTA
31858790 ATTT
1 ATTT
31858794 AACAACTTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
26 12 0.17
27 51 0.74
28 6 0.09
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.47
Consensus pattern (27 bp):
ATTTTACCCTTTCAGGGTATTTCAGTA
Found at i:31860855 original size:40 final size:39
Alignment explanation
Indices: 31860811--31860887 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
31860801 CGTTTGGATA
* * *
31860811 AAAAACGCCACTAAAGATCGAGTATTAGCGGCGCTTTCTG
1 AAAAACACCACTAAAAAT-GAGCATTAGCGGCGCTTTCTG
* *
31860851 AAAAACACCGCTAAAAATGAGCATTAGCGGCGTTTTC
1 AAAAACACCACTAAAAATGAGCATTAGCGGCGCTTTC
31860888 CAAAAAGAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 17 0.53
40 15 0.47
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (39 bp):
AAAAACACCACTAAAAATGAGCATTAGCGGCGCTTTCTG
Found at i:31861015 original size:41 final size:41
Alignment explanation
Indices: 31860941--31861224 Score: 306
Period size: 41 Copynumber: 7.0 Consensus size: 41
31860931 TGAGTTTTCG
* * * * *
31860941 GGGCATTAGTGGCGTTTTTTAAAAAGCGTCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
*
31860982 GGGCTTTAGCGGCGTTTTTGAAGAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
*
31861023 GGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTCTA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC-A
** * * *
31861065 --TTTTTAGCGGCATTTTT-ATAAAAGCGCCACTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGA-AGAAGCGCCGCTAATGCTCA
* * * * *
31861104 GGGTTTTAGTGGCATTTTTTAAGAAGCGCCGCTGATGCTC-
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* * * * *
31861144 GAGTCTTTAGCGGCGTTTCTGAAAAAGCGCCTCTAATGCTTA
1 G-GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
*
31861186 GGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCT
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCT
31861225 TTATTTTAGC
Statistics
Matches: 202, Mismatches: 34, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
39 2 0.01
40 31 0.15
41 166 0.82
42 3 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
Found at i:31861098 original size:81 final size:81
Alignment explanation
Indices: 31860941--31861254 Score: 346
Period size: 82 Copynumber: 3.9 Consensus size: 81
31860931 TGAGTTTTCG
* * * * * ** * *
31860941 GGGCATTAGTGGCGTTTTTTAAAAAGCGTCGCTAATGCTC-AGGGCTTTAGCGGCGTTTTTGAAG
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTA--TTTTTAGCGGCGTTTCTGAAA
* *
31861005 AAGTGCCGCTAATGCTCA
64 AAGCGCCACTAATGCTCA
* * *
31861023 GGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTCTATTTTTAGCGGCATTT-TTATAAA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTCTGA-AAA
31861087 AGCGCCACTAATGCTCA
65 AGCGCCACTAATGCTCA
* * * * * * *
31861104 GGGTTTTAGTGGCATTTTTTAAGAAGCGCCGCTGATGCTCGAGTCTTTAGCGGCGTTTCTGAAAA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTA-TTTTTAGCGGCGTTTCTGAAAA
* *
31861169 AGCGCCTCTAATGCTTA
65 AGCGCCACTAATGCTCA
* *
31861186 GGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTTTA-TTTTAGCGGCGTTTCTGAAAAA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTCTGAAAAA
31861250 GCGCC
66 GCGCC
31861255 GCAAAAAATT
Statistics
Matches: 194, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
80 28 0.14
81 64 0.33
82 99 0.51
83 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (81 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTCTGAAAAA
GCGCCACTAATGCTCA
Found at i:31861158 original size:163 final size:162
Alignment explanation
Indices: 31860946--31861254 Score: 442
Period size: 163 Copynumber: 1.9 Consensus size: 162
31860936 TTTCGGGGCA
* * * * *
31860946 TTAGTGGCGTTTTTTAAAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAGAAGTGC
1 TTAGTGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTCTGAAAAAGCGC
*
31861011 CGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTCTATTTTTAGCGGC
66 CGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAAGAAGCACCGCTAATGCTCTA-TTTTAGCGGC
*
31861076 ATTT-TTATAAAAGCGCCACTAATGCTCAGGGTT
130 ATTTCTGA-AAAAGCGCCACTAATGCTCAGGGTT
* * *
31861109 TTAGTGGCATTTTTTAAGAAGCGCCGCTGATGCTC-GAGTCTTTAGCGGCGTTTCTGAAAAAGCG
1 TTAGTGGCATTTTTTAAAAAGCGCCGCTAATGCTCAG-GGCTTTAGCGGCGTTTCTGAAAAAGCG
* * * *
31861173 CCTCTAATGCTTAGGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTTTATTTTAGCGGC
65 CCGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAAGAAGCACCGCTAATGCTCTATTTTAGCGGC
*
31861238 GTTTCTGAAAAAGCGCC
130 ATTTCTGAAAAAGCGCC
31861255 GCAAAAAATT
Statistics
Matches: 129, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
162 23 0.18
163 106 0.82
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (162 bp):
TTAGTGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTCTGAAAAAGCGC
CGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAAGAAGCACCGCTAATGCTCTATTTTAGCGGCA
TTTCTGAAAAAGCGCCACTAATGCTCAGGGTT
Found at i:31861172 original size:122 final size:121
Alignment explanation
Indices: 31860956--31861183 Score: 314
Period size: 122 Copynumber: 1.9 Consensus size: 121
31860946 TTAGTGGCGT
* * * *
31860956 TTTTTAAAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAGAAGTGCCGCTAATGCT
1 TTTTTAAAAAGCGCCACTAATGCTCAGGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCT
* *
31861021 CAGGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTCTATTTTTAGCGGCA
66 CAGGGCTTTAGCGACGTTTCTGAAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCA
* * * *
31861077 TTTTTATAAAAGCGCCACTAATGCTCAGGGTTTTAGTGGCATTTTTTAAGAAGCGCCGCTGATGC
1 TTTTTA-AAAAGCGCCACTAATGCTCAGGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
* * *
31861142 TC-GAGTCTTTAGCGGCGTTTCTGAAAAAGCGCCTCTAATGCT
65 TCAG-GGCTTTAGCGACGTTTCTGAAAAAGCGCCGCTAATGCT
31861184 TAGGGCTTTA
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
121 7 0.08
122 85 0.92
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (121 bp):
TTTTTAAAAAGCGCCACTAATGCTCAGGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCT
CAGGGCTTTAGCGACGTTTCTGAAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCA
Found at i:31861225 original size:41 final size:41
Alignment explanation
Indices: 31860941--31861256 Score: 286
Period size: 41 Copynumber: 7.8 Consensus size: 41
31860931 TGAGTTTTCG
* * * * * *
31860941 GGGCATTAGTGGCGTTTTTTAAAAAGCGTCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTA
* *
31860982 GGGCTTTAGCGGCGTTTTTGAAGAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTA
*
31861023 GGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTCTA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCT-TA
** * * * *
31861065 --TTTTTAGCGGCATTTTT-ATAAAAGCGCCACTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGA-AGAAGCGCCGCTAATGCTTA
* * * * * *
31861104 GGGTTTTAGTGGCATTTTTTAAGAAGCGCCGCTGATGC-TC
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTA
* * * *
31861144 GAGTCTTTAGCGGCGTTTCTGAAAAAGCGCCTCTAATGCTTA
1 G-GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTA
*
31861186 GGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTTTA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC-TTA
* * *
31861228 ---TTTTAGCGGCGTTTCTGAAAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
31861257 AAAAAATTCA
Statistics
Matches: 225, Mismatches: 42, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
39 27 0.12
40 30 0.13
41 161 0.72
42 7 0.03
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTA
Found at i:31862447 original size:13 final size:15
Alignment explanation
Indices: 31862419--31862450 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
31862409 CTCATATTAT
31862419 TATTAATTTAATATA
1 TATTAATTTAATATA
31862434 TATTAA-TT-ATATA
1 TATTAATTTAATATA
31862447 TATT
1 TATT
31862451 TTTCATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 2 0.12
15 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTAATTTAATATA
Found at i:31864279 original size:21 final size:21
Alignment explanation
Indices: 31864234--31864279 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
31864224 ATATATATAT
*
31864234 GTTTAGCTTAGTGTTGATCTA
1 GTTTAGCTTAGTATTGATCTA
* *
31864255 GTTTAGCTTAGTATTGGTCTG
1 GTTTAGCTTAGTATTGATCTA
31864276 GTTT
1 GTTT
31864280 TTTTACATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.09, G:0.26, T:0.50
Consensus pattern (21 bp):
GTTTAGCTTAGTATTGATCTA
Found at i:31866234 original size:14 final size:14
Alignment explanation
Indices: 31866215--31866242 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31866205 TCATTACAAG
31866215 ATTTCCTTGATTAA
1 ATTTCCTTGATTAA
31866229 ATTTCCTTGATTAA
1 ATTTCCTTGATTAA
31866243 GTTAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
ATTTCCTTGATTAA
Found at i:31866306 original size:43 final size:43
Alignment explanation
Indices: 31866229--31866311 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
31866219 CCTTGATTAA
* ** *
31866229 ATTTCCTTGATTAAGTTAATGTATTATATCTTTTATTACCAAG
1 ATTTACTTGATTAAGAAAATGCATTATATCTTTTATTACCAAG
* *
31866272 ATTTACTTGATTAAGAAAATGCATTGTATTTTTTATTACC
1 ATTTACTTGATTAAGAAAATGCATTATATCTTTTATTACC
31866312 TTGCAATGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (43 bp):
ATTTACTTGATTAAGAAAATGCATTATATCTTTTATTACCAAG
Found at i:31866805 original size:43 final size:43
Alignment explanation
Indices: 31866758--31866876 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 43
31866748 GGTTATATTT
* **
31866758 TTTAGCGGCGTTGGTGACAAAAGCGTCGCTAAAGAACATGTTC
1 TTTAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGAACATGACC
* * ** **
31866801 TTTAGTGGCATTTGTGACAAAAGTATTC-CTAAAGCTCATGACC
1 TTTAGCGGCGTTTGTGACAAAAG-CGTCGCTAAAGAACATGACC
* * *
31866844 TTTAGCGGCGTTTATGATAAAAGCGCCGCTAAA
1 TTTAGCGGCGTTTGTGACAAAAGCGTCGCTAAA
31866877 TTTAGCGGCG
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
42 1 0.02
43 55 0.95
44 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGAACATGACC
Found at i:31874767 original size:146 final size:147
Alignment explanation
Indices: 31874493--31874857 Score: 540
Period size: 147 Copynumber: 2.5 Consensus size: 147
31874483 TTTTTTAAAA
* *
31874493 AAAAGAGAAAGTTTAGATTTAAAAAAATAAAAATATGGTTTTTTAGTCATTTTAAAGGAAAG-TT
1 AAAAGAGAAAATTTAGATTTTAAAAAATAAAAATAT-GTTTTTTAGTCATTTTAAAGGAAAGTTT
* *
31874557 AAAATTTTAAAACAAAGCTTTGATTTTCTTTTCAACTATTTCAAAATAAAAGTTTTGATCTTTAA
65 AAAATTTTAAAACAAAGCTTTAATTTTCTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTTAA
*
31874622 GAAAAATAGTATTTTTTT
130 GAAAAATAGCATTTTTTT
31874640 AAAAGAGAAAATTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAGTTTA
1 AAAAGAGAAAATTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAGTTTA
** *
31874705 AAATTTTAAAACAAATTTTTAATTTT-TTTTCAACTATTTCAAAATTAAAGCTTTGATCTTTAAG
66 AAATTTTAAAACAAAGCTTTAATTTTCTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTTAAG
*
31874769 AAAAATAGCGTTTTTTT
131 AAAAATAGCATTTTTTT
* ** *
31874786 AAAA-AAAAGAGAGTTTAGATTTT-TTAAATAAAAATATGTTTTTTATTCATTTTAAAGGAAAAG
1 AAAAGAGAA-A-A-TTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGG-AAAG
31874849 TTTAAAATT
62 TTTAAAATT
31874858 AAAAAAAAAT
Statistics
Matches: 200, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
145 3 0.01
146 81 0.41
147 93 0.47
148 23 0.12
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (147 bp):
AAAAGAGAAAATTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAGTTTA
AAATTTTAAAACAAAGCTTTAATTTTCTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTTAAG
AAAAATAGCATTTTTTT
Found at i:31874801 original size:20 final size:20
Alignment explanation
Indices: 31874763--31874801 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31874753 AGCTTTGATC
* * *
31874763 TTTAAGAAAAATAGCGTTTT
1 TTTAAAAAAAAGAGAGTTTT
31874783 TTTAAAAAAAAGAGAGTTT
1 TTTAAAAAAAAGAGAGTTT
31874802 AGATTTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.36
Consensus pattern (20 bp):
TTTAAAAAAAAGAGAGTTTT
Found at i:31874877 original size:146 final size:145
Alignment explanation
Indices: 31874482--31874914 Score: 504
Period size: 146 Copynumber: 3.0 Consensus size: 145
31874472 AAGTTTTGAT
*
31874482 TTTTTTTAAAAAAAAGAGAAAGTTTAGATTTAAAAAAATAAAAATATGGTTTTTTAGTCATTTTA
1 TTTTTTTAAAAAAAAGAG--AGTTTAGATTT-TAAAAATAAAAATAT-GTTTTTTAGTCATTTTA
** * * *
31874547 AAGGAAAG-TTAAAATTTTAAAACAAAGCTTTGATTTTCTTTTCAACTATTTCAAAATAAAAGTT
62 AAGGAAAGTTTAAAA-TTTAAAA-AAA-AATTCATTTTTTTTTCAACTATTTCAAAATTAAAGTT
*
31874611 TTGATCTTTAAGAAAAATAGTA
124 TTGATCTTTAAGAAAAATAGCA
*
31874633 TTTTTTTAAAAGAGAA-A-A-TTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAA
1 TTTTTTTAAAA-AAAAGAGAGTTTAGATTTT-AAAAATAAAAATATGTTTTTTAGTCATTTTAAA
** * * *
31874695 GGAAAGTTTAAAATTTTAAAACAAATTTTTAATTTTTTTTCAACTATTTCAAAATTAAAGCTTTG
64 GGAAAGTTTAAAA-TTTAAAA-AAAAATTCATTTTTTTTTCAACTATTTCAAAATTAAAGTTTTG
*
31874760 ATCTTTAAGAAAAATAGCG
127 ATCTTTAAGAAAAATAGCA
** *
31874779 TTTTTTTAAAAAAAAGAGAGTTTAGATTTTTTAAATAAAAATATGTTTTTTATTCATTTTAAAGG
1 TTTTTTTAAAAAAAAGAGAGTTTAGATTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGG
* * * * *
31874844 AAAAGTTTAAAA-TTAAAAAAAAATTCA--TCTTTTTCATCTCTTTCGAAA-TAAAGTTTTGATT
66 -AAAGTTTAAAATTTAAAAAAAAATTCATTTTTTTTTCAACTATTTCAAAATTAAAGTTTTGATC
31874905 TTTAAGAAAA
130 TTTAAGAAAA
31874915 GTAATGATTG
Statistics
Matches: 252, Mismatches: 23, Indels: 23
0.85 0.08 0.08
Matches are distributed among these distances:
142 21 0.08
143 17 0.07
145 9 0.04
146 94 0.37
147 74 0.29
148 22 0.09
151 12 0.05
152 3 0.01
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (145 bp):
TTTTTTTAAAAAAAAGAGAGTTTAGATTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGG
AAAGTTTAAAATTTAAAAAAAAATTCATTTTTTTTTCAACTATTTCAAAATTAAAGTTTTGATCT
TTAAGAAAAATAGCA
Done.