Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold58
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: 1582273
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 125418 characters in sequence are not A, C, G, or T
File 4 of 10
Found at i:446715 original size:15 final size:16
Alignment explanation
Indices: 446686--446718 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
446676 GAGCCTATTA
*
446686 AAGGATTACATAAAAT
1 AAGGATTACAAAAAAT
446702 AAGG-TTACAAAAAAT
1 AAGGATTACAAAAAAT
446717 AA
1 AA
446719 AGAAAGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.21
Consensus pattern (16 bp):
AAGGATTACAAAAAAT
Found at i:450205 original size:13 final size:13
Alignment explanation
Indices: 450187--450212 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
450177 TACAACAAGT
450187 ATGTATCGATACA
1 ATGTATCGATACA
450200 ATGTATCGATACA
1 ATGTATCGATACA
450213 CAAAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:452461 original size:21 final size:21
Alignment explanation
Indices: 452428--452472 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
452418 TTGCAAGTTG
*
452428 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
452450 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
452470 AAA
1 AAA
452473 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:454296 original size:15 final size:15
Alignment explanation
Indices: 454276--454306 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
454266 TAAAAATGTC
*
454276 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
454291 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
454306 C
1 C
454307 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:456403 original size:13 final size:13
Alignment explanation
Indices: 456385--456423 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
456375 ACATTTTTCT
*
456385 TTGTATCAATACA
1 TTGTATCGATACA
456398 TTGTATCGATACA
1 TTGTATCGATACA
456411 TTGTATCGATACA
1 TTGTATCGATACA
456424 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:456576 original size:20 final size:20
Alignment explanation
Indices: 456533--456578 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
456523 AAATCTTTTG
456533 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
456554 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
456574 CAAAA
1 CAAAA
456579 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:458982 original size:13 final size:13
Alignment explanation
Indices: 458964--458989 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
458954 TACAACAAGT
458964 ATGTATCGATACA
1 ATGTATCGATACA
458977 ATGTATCGATACA
1 ATGTATCGATACA
458990 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:460610 original size:89 final size:88
Alignment explanation
Indices: 460458--460619 Score: 211
Period size: 89 Copynumber: 1.8 Consensus size: 88
460448 ACAATGAGGT
** * * * *
460458 TAGAGTATCCCCTTGGAGAAATGGGGATGGAGTTTCCTCAAGGACAAAATTATACGAAGGAAAAT
1 TAGAGTATCCCCACGAAGAAATAGGGATGGAGTTTCCTCAAGGACAAAATCATACGAAAGAAAA-
460523 TTTGAATTTTTATTAGAATGGAGC
65 TTTGAATTTTTATTAGAATGGAGC
* *
460547 TAGAGTATCCCCACGAAGAAATAGGGATGGAGTTTCC-CTAAGGATAAAATCATTC-AACAGAAA
1 TAGAGTATCCCCACGAAGAAATAGGGATGGAGTTTCCTC-AAGGACAAAATCATACGAA-AGAAA
460610 ATTTGAATTT
64 ATTTGAATTT
460620 ACTTAAGTAG
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
88 12 0.19
89 51 0.81
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (88 bp):
TAGAGTATCCCCACGAAGAAATAGGGATGGAGTTTCCTCAAGGACAAAATCATACGAAAGAAAAT
TTGAATTTTTATTAGAATGGAGC
Found at i:463023 original size:48 final size:48
Alignment explanation
Indices: 462952--463049 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
462942 TGGCTCAAAC
*
462952 TAGGCAAATATGCCTTGGTGTATCAATACATAGGGCCAAAAGTGTCGA
1 TAGGCAAAAATGCCTTGGTGTATCAATACATAGGGCCAAAAGTGTCGA
463000 TAGGCAAAAATGCCTTGGTGTATCAATACATAGGGCCAAAAGTGTCGA
1 TAGGCAAAAATGCCTTGGTGTATCAATACATAGGGCCAAAAGTGTCGA
463048 TA
1 TA
463050 CAATAAAGCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (48 bp):
TAGGCAAAAATGCCTTGGTGTATCAATACATAGGGCCAAAAGTGTCGA
Found at i:464095 original size:71 final size:70
Alignment explanation
Indices: 464037--464352 Score: 325
Period size: 71 Copynumber: 4.5 Consensus size: 70
464027 AACTTGTGTC
* *
464037 GGCTTTGAAGAAGAAAAGGCATCTTACTATTTGAGGACTGAAAAAGATAAGTGATGTCACCAGCT
1 GGCTTTGAAGAAGAAAAGGCATCATACTCTTTGAGGACTGAAAAAGATAAGTGATGTCACCAGC-
464102 TTTATG-
65 -TTATGT
* * * * *
464108 GGCTTTAAAGAAGAAAAGGCATCAT-GTCTTTGAGAACTG-AAAAGATAAGTGATGCCACCAGTT
1 GGCTTTGAAGAAGAAAAGGCATCATACTCTTTGAGGACTGAAAAAGATAAGTGATGTCACCAGCT
464171 TATGT
66 TATGT
* * * * *
464176 GGTCTTTGAATAAGAAAAGGCATCATACTCTTTAAGGA-TTAGAAAAGATAAATGATGCCACCAG
1 GG-CTTTGAAGAAGAAAAGGCATCATACTCTTTGAGGACTGA-AAAAGATAAGTGATGTCACCAG
*
464240 CTTGTGT
64 CTTATGT
* * * * * * * *
464247 GAGCTTTGAAGAAGAAAAGGCATCCTGCTTTTTTAGGATTAAAAAAGATAAGTGATATCACTAGC
1 G-GCTTTGAAGAAGAAAAGGCATCATACTCTTTGAGGACTGAAAAAGATAAGTGATGTCACCAGC
464312 TTATGT
65 TTATGT
* * * *
464318 GAGCTTTAAAGAAGAAAAGACGTCTTACTCTTTGA
1 G-GCTTTGAAGAAGAAAAGGCATCATACTCTTTGA
464353 TAACTGGAGG
Statistics
Matches: 204, Mismatches: 34, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
67 5 0.02
68 2 0.01
69 43 0.21
70 19 0.09
71 132 0.65
72 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (70 bp):
GGCTTTGAAGAAGAAAAGGCATCATACTCTTTGAGGACTGAAAAAGATAAGTGATGTCACCAGCT
TATGT
Found at i:466166 original size:13 final size:13
Alignment explanation
Indices: 466150--466174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
466140 ATGTTACACA
466150 GTATCGATACATT
1 GTATCGATACATT
466163 GTATCGATACAT
1 GTATCGATACAT
466175 GTTGCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:466169 original size:33 final size:33
Alignment explanation
Indices: 466127--466192 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
466117 TACACATTTA
466127 ATTGTATCGATACATGTTACACAGTATCGATAC
1 ATTGTATCGATACATGTTACACAGTATCGATAC
* **
466160 ATTGTATCGATACATGTTGCATTGTATCGATAC
1 ATTGTATCGATACATGTTACACAGTATCGATAC
466193 TTGAAAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACATGTTACACAGTATCGATAC
Found at i:466283 original size:13 final size:13
Alignment explanation
Indices: 466265--466290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
466255 TACACAAAGT
466265 ATGTATCGATACA
1 ATGTATCGATACA
466278 ATGTATCGATACA
1 ATGTATCGATACA
466291 CCATAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:466307 original size:33 final size:32
Alignment explanation
Indices: 466247--466310 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
466237 TAGCCAAACT
*
466247 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGAATGTATCGATACAA
466279 TGTATCGATACACCATAA-AATGTATCGATACA
1 TGTATCGATACA-CA-AAGAATGTATCGATACA
466311 TTGGCTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 15 0.52
34 2 0.07
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGAATGTATCGATACAA
Found at i:472502 original size:13 final size:13
Alignment explanation
Indices: 472483--472520 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
472473 CAGCATTCTT
472483 TGTATCGATACA-
1 TGTATCGATACAC
472495 TAGTATCGATACAC
1 T-GTATCGATACAC
472509 TGTATCGATACA
1 TGTATCGATACA
472521 AGGGGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:475016 original size:12 final size:12
Alignment explanation
Indices: 474999--475024 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
474989 TACACTTGCA
474999 GTATCGATACAT
1 GTATCGATACAT
475011 GTATCGATACAT
1 GTATCGATACAT
475023 GT
1 GT
475025 TGCATTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (12 bp):
GTATCGATACAT
Found at i:475040 original size:32 final size:28
Alignment explanation
Indices: 474977--475040 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 28
474967 AATGTGCAGT
474977 ATACATTATCGATACACTTGCAGTATCG
1 ATACATTATCGATACACTTGCAGTATCG
*
475005 ATACATGTATCGATACATGTTGCATTGTATCG
1 ATACAT-TATCGATACA-CTTGCA--GTATCG
475037 ATAC
1 ATAC
475041 TTGAAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 6 0.19
29 10 0.32
30 5 0.16
32 10 0.32
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (28 bp):
ATACATTATCGATACACTTGCAGTATCG
Found at i:475131 original size:13 final size:13
Alignment explanation
Indices: 475113--475138 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
475103 TACACAAAGT
475113 ATGTATCGATACA
1 ATGTATCGATACA
475126 ATGTATCGATACA
1 ATGTATCGATACA
475139 CCATAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:476816 original size:22 final size:23
Alignment explanation
Indices: 476786--476830 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
476776 AGAAAGGCTT
476786 CATTCTTTT-AA-TTCAAACCAAA
1 CATTCTTTTGAACTT-AAACCAAA
*
476808 CATTTTTTTGAACTTAAACCAAA
1 CATTCTTTTGAACTTAAACCAAA
476831 ATAGAGCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 10 0.50
24 2 0.10
ACGTcount: A:0.40, C:0.20, G:0.02, T:0.38
Consensus pattern (23 bp):
CATTCTTTTGAACTTAAACCAAA
Found at i:477748 original size:30 final size:30
Alignment explanation
Indices: 477713--477771 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
477703 AAACTAAAAA
*
477713 TTATAAAATAATAAATC-ATATTATTATAAT
1 TTATAAAAT-ATAAACCAATATTATTATAAT
*
477743 TTATAAAATTTAAACCAATATTATTATAA
1 TTATAAAATATAAACCAATATTATTATAA
477772 AATAATAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (30 bp):
TTATAAAATATAAACCAATATTATTATAAT
Found at i:485586 original size:24 final size:25
Alignment explanation
Indices: 485559--485612 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
485549 ACTTGAATTT
*
485559 CTTTGATGAATGAAAT-TATGTTTG
1 CTTTGATGAATGAAATGAATGTTTG
* * *
485583 CTTTCATGATTGTAATGAATGTTTG
1 CTTTGATGAATGAAATGAATGTTTG
485608 CTTTG
1 CTTTG
485613 CTATTTTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.48
Consensus pattern (25 bp):
CTTTGATGAATGAAATGAATGTTTG
Found at i:485638 original size:35 final size:37
Alignment explanation
Indices: 485599--485669 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 37
485589 TGATTGTAAT
* *
485599 GAATGTTTGCTTTGCTAT-TTTT-TCATGAATGCATA
1 GAATGTTTGCCTTGATATCTTTTCTCATGAATGCATA
* *
485634 GAATGTTTTCCTTGATATCTTTTCTTATGAATGCAT
1 GAATGTTTGCCTTGATATCTTTTCTCATGAATGCAT
485670 GGGGAAGATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 15 0.50
36 4 0.13
37 11 0.37
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (37 bp):
GAATGTTTGCCTTGATATCTTTTCTCATGAATGCATA
Found at i:487481 original size:29 final size:30
Alignment explanation
Indices: 487444--487501 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
487434 AAATTAAAAA
*
487444 TTATAAAATAATAAATCATATTATTATAAT
1 TTATAAAATAATAAATAATATTATTATAAT
** *
487474 TTAT-AAATTTTAATTAATATTATTATAA
1 TTATAAAATAATAAATAATATTATTATAA
487502 AATTATAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
TTATAAAATAATAAATAATATTATTATAAT
Found at i:487918 original size:2 final size:2
Alignment explanation
Indices: 487879--487903 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
487869 AAGAAAATCC
487879 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
487904 TCAACCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:488567 original size:13 final size:12
Alignment explanation
Indices: 488549--488595 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
488539 AATGTAAAAT
488549 TTTTTTTACATAA
1 TTTTTTTA-ATAA
488562 TTTTTTTAA-AA
1 TTTTTTTAATAA
*
488573 TATTTTTAATTAA
1 TTTTTTTAA-TAA
488586 TTATTTTTAA
1 TT-TTTTTAA
488596 GATAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 10 0.34
12 1 0.03
13 11 0.38
14 7 0.24
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTTTTTAATAA
Found at i:488594 original size:14 final size:13
Alignment explanation
Indices: 488546--488595 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
488536 TGAAATGTAA
*
488546 AATTTTTTTTACAT
1 AATTATTTTTA-AT
488560 AATT-TTTTTAA-
1 AATTATTTTTAAT
488571 AA-TATTTTTAATT
1 AATTATTTTTAA-T
488584 AATTATTTTTAA
1 AATTATTTTTAA
488596 GATAAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.03
11 9 0.28
12 1 0.03
13 8 0.25
14 13 0.41
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (13 bp):
AATTATTTTTAAT
Found at i:488665 original size:5 final size:5
Alignment explanation
Indices: 488655--488726 Score: 55
Period size: 5 Copynumber: 15.2 Consensus size: 5
488645 ATTGAATGTC
* * *
488655 AATAT AATAT -ATTT AATA- AAAAT AAAAT AATA- AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
* *
488702 ATTAA AATAT AAT-T -ATCAT AATAT A
1 AATAT AATAT AATAT AAT-AT AATAT A
488727 TTTGATTAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
3 2 0.04
4 11 0.21
5 38 0.72
6 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:496771 original size:29 final size:29
Alignment explanation
Indices: 496716--496771 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
496706 ATGTTATAAT
* *
496716 TAATTTTAATTAAATTTTGATATAATTAA
1 TAATTTAAATTAAATTTTGATAAAATTAA
*
496745 TAATTTAAATATAAATTTT-TTAAAATT
1 TAATTTAAAT-TAAATTTTGATAAAATT
496772 TTATTATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 15 0.65
30 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
TAATTTAAATTAAATTTTGATAAAATTAA
Found at i:497426 original size:29 final size:29
Alignment explanation
Indices: 497392--497450 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
497382 GTTGATTTTT
*
497392 AAATAAATTATTAAAATATTATTAATTTA
1 AAATAAATTATTAAAATACTATTAATTTA
*
497421 AAATAAATTATTAAAATACTATTATTTTA
1 AAATAAATTATTAAAATACTATTAATTTA
497450 A
1 A
497451 TTAACAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (29 bp):
AAATAAATTATTAAAATACTATTAATTTA
Found at i:497446 original size:14 final size:13
Alignment explanation
Indices: 497392--497446 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 13
497382 GTTGATTTTT
*
497392 AAATAAATTATTA
1 AAATATATTATTA
497405 AAATATTATTAATTTA
1 AAATA-TATT-A-TTA
*
497421 AAATAAATTATTA
1 AAATATATTATTA
497434 AAATACTATTATT
1 AAATA-TATTATT
497447 TTAATTAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 13 0.37
14 10 0.29
15 4 0.11
16 8 0.23
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATATATTATTA
Found at i:497614 original size:8 final size:8
Alignment explanation
Indices: 497583--497650 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
497573 TCATTCACCA
497583 ATTATTATT
1 ATTA-TATT
*
497592 ATTATAAT
1 ATTATATT
497600 ATTATATT
1 ATTATATT
497608 ATTATA-T
1 ATTATATT
497615 -TTATATT
1 ATTATATT
* *
497622 TTTAAAATT
1 ATT-ATATT
* **
497631 AATATAAA
1 ATTATATT
497639 ATTATATT
1 ATTATATT
497647 ATTA
1 ATTA
497651 ATAAAAGTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
6 5 0.11
7 2 0.04
8 29 0.64
9 9 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
ATTATATT
Found at i:497652 original size:19 final size:19
Alignment explanation
Indices: 497585--497668 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
497575 ATTCACCAAT
* *
497585 TATTATTATTATAATATTA
1 TATTATTAATATAAAATTA
* * * *
497604 TATTATTATATTTATATTTT
1 TATTATTA-ATATAAAATTA
**
497624 TAAAATTAATATAAAATTA
1 TATTATTAATATAAAATTA
*
497643 TATTATTAATA-AAAGTTTA
1 TATTATTAATATAAA-ATTA
497662 TATTATT
1 TATTATT
497669 TTAAATTAAT
Statistics
Matches: 48, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
18 3 0.06
19 34 0.71
20 11 0.23
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (19 bp):
TATTATTAATATAAAATTA
Found at i:497989 original size:22 final size:23
Alignment explanation
Indices: 497947--497992 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
497937 AATATAATCT
497947 TATACTAATTTTAAAAAAAATACA
1 TATACTAATTTT-AAAAAAATACA
*
497971 TATATTAATTTT-AAAAAATACA
1 TATACTAATTTTAAAAAAATACA
497993 AAATCAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
24 11 0.52
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (23 bp):
TATACTAATTTTAAAAAAATACA
Found at i:498004 original size:21 final size:22
Alignment explanation
Indices: 497961--498005 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
497951 CTAATTTTAA
* * *
497961 AAAAAATACATATATTAATTTT
1 AAAAAATACATAAATCAAATTT
497983 AAAAAATACA-AAATCAAATTT
1 AAAAAATACATAAATCAAATTT
498004 AA
1 AA
498006 TAATTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAAAATACATAAATCAAATTT
Found at i:509463 original size:28 final size:29
Alignment explanation
Indices: 509404--509481 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 29
509394 GCTTAAATAA
*
509404 ATTTTTTTCA-AATTTTTTAT-TTTCTTTC
1 ATTTTTTTCACAATTTTTT-TCATTCTTTC
509432 -TTTTTTTCACAATTTTTTTCATT-TTTC
1 ATTTTTTTCACAATTTTTTTCATTCTTTC
*
509459 ATTTTTTTTTAC-ATTTTTTTCAT
1 A-TTTTTTTCACAATTTTTTTCAT
509482 AGAATCAAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 14 0.32
28 21 0.48
29 9 0.20
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.72
Consensus pattern (29 bp):
ATTTTTTTCACAATTTTTTTCATTCTTTC
Found at i:520018 original size:2 final size:2
Alignment explanation
Indices: 520011--520039 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
520001 AAAGCTTAAA
520011 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
520040 CAAGCGTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:520998 original size:28 final size:29
Alignment explanation
Indices: 520952--521011 Score: 104
Period size: 28 Copynumber: 2.1 Consensus size: 29
520942 AGTAAAAAAT
*
520952 TTTAGTAAAAAAAGTAATTATGAATTTTA
1 TTTAGTAAAAAAAGTAATTATCAATTTTA
520981 TTTAGT-AAAAAAGTAATTATCAATTTTA
1 TTTAGTAAAAAAAGTAATTATCAATTTTA
521009 TTT
1 TTT
521012 TTATTAGTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (29 bp):
TTTAGTAAAAAAAGTAATTATCAATTTTA
Found at i:522243 original size:2 final size:2
Alignment explanation
Indices: 522236--522270 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
522226 CCTTTTAAGC
522236 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
522271 GATTACATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:523396 original size:3 final size:3
Alignment explanation
Indices: 523388--523430 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
523378 ACATTCCAAG
523388 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
523431 TAGCATTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:523968 original size:25 final size:25
Alignment explanation
Indices: 523922--523969 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
523912 TACTTATTTA
*
523922 TTAAAAATTATTTAATATAATTTTT
1 TTAAAAATTATTTAATAAAATTTTT
523947 TTAAAAATT-TTTAAATAAAATTT
1 TTAAAAATTATTT-AATAAAATTT
523970 ATTAATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TTAAAAATTATTTAATAAAATTTTT
Found at i:523974 original size:24 final size:25
Alignment explanation
Indices: 523917--523974 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
523907 TTTCATACTT
523917 ATTTATTAAAAATTATTTAATATAA
1 ATTTATTAAAAATTATTTAATATAA
* *
523942 TTTTTTTAAAAATT-TTTAA-ATAAA
1 ATTTATTAAAAATTATTTAATAT-AA
523966 ATTTATTAA
1 ATTTATTAA
523975 TTATATTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 2 0.07
24 14 0.50
25 12 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTATTAAAAATTATTTAATATAA
Found at i:524338 original size:16 final size:16
Alignment explanation
Indices: 524317--524353 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
524307 TTGAACTCGA
524317 AAAATTAACT-AAATCT
1 AAAATT-ACTCAAATCT
524333 AAAATTACTCAAATCT
1 AAAATTACTCAAATCT
524349 AAAAT
1 AAAAT
524354 AGGTTAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATTACTCAAATCT
Found at i:525388 original size:12 final size:14
Alignment explanation
Indices: 525356--525394 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
525346 AATAAATAAA
525356 ATTAATAAAATATT
1 ATTAATAAAATATT
525370 ATTAATAAAAT-TT
1 ATTAATAAAATATT
*
525383 -TTAATAACATAT
1 ATTAATAAAATAT
525395 AAAGTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 9 0.39
13 3 0.13
14 11 0.48
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTAATAAAATATT
Found at i:525642 original size:18 final size:18
Alignment explanation
Indices: 525621--525691 Score: 54
Period size: 20 Copynumber: 3.7 Consensus size: 18
525611 AATAATTTTT
525621 TTAAAATATTTAATTAAA
1 TTAAAATATTTAATTAAA
* *
525639 TTAAAATTTTTATTTATAAA
1 TTAAAATATTTA-AT-TAAA
*
525659 TTGAATAA-ATTTTATTAATA
1 TT-AA-AATATTTAATTAA-A
525679 TTAAAATAATTTA
1 TTAAAAT-ATTTA
525692 TAATAGCAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
18 13 0.32
19 6 0.15
20 14 0.35
21 5 0.12
22 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (18 bp):
TTAAAATATTTAATTAAA
Found at i:525683 original size:25 final size:21
Alignment explanation
Indices: 525627--525683 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 21
525617 TTTTTTAAAA
*
525627 TATTTAATTAAATTAAAATTTT
1 TATTT-ATTAAATTAAAAATTT
525649 TATTTA-TAAATTGAATAAATTT
1 TATTTATTAAATT-AA-AAATTT
525671 TATTAATATTAAA
1 TATT--TATTAAA
525684 ATAATTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 6 0.21
21 3 0.10
22 14 0.48
24 2 0.07
25 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTTATTAAATTAAAAATTT
Found at i:529848 original size:20 final size:21
Alignment explanation
Indices: 529823--529874 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
529813 ACAGGGTCTA
*
529823 GTATCGATACATTCACG-TA-T
1 GTATCGATACATT-AAGTTACT
*
529843 GTATCGATATATTAAGTTACT
1 GTATCGATACATTAAGTTACT
529864 GTATCGATACA
1 GTATCGATACA
529875 AATTATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 14 0.52
21 11 0.41
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (21 bp):
GTATCGATACATTAAGTTACT
Found at i:530355 original size:23 final size:23
Alignment explanation
Indices: 530323--530370 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
530313 TTAAATTAAT
*
530323 TTCTTCTTTTCATAAATAATAAA
1 TTCTTATTTTCATAAATAATAAA
530346 TTCTTATTTTCATAAATAATAAA
1 TTCTTATTTTCATAAATAATAAA
530369 TT
1 TT
530371 TATAATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (23 bp):
TTCTTATTTTCATAAATAATAAA
Found at i:530475 original size:21 final size:22
Alignment explanation
Indices: 530449--530490 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
530439 CTAATTTTAT
*
530449 TTATTTTAAA-ATATAAAATTA
1 TTATTTAAAAGATATAAAATTA
530470 TTATTTAAAAGTATATAAAAT
1 TTATTTAAAAG-ATATAAAAT
530491 AAATGCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
23 9 0.50
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TTATTTAAAAGATATAAAATTA
Found at i:531850 original size:108 final size:108
Alignment explanation
Indices: 531683--531902 Score: 306
Period size: 109 Copynumber: 2.0 Consensus size: 108
531673 ATTGAATGAA
* *
531683 AAAAATAATATTTAATTAAGTTCAAAAAAATTTCATTAATAAATTAAAATATT-A-ATTAT-TTT
1 AAAAATAATATTTAATTAAGTTCAAAAAAATTACATTAACAAATTAAAATATTAATATTATGTTT
531745 TTA-AAAATAAAAAATTTAAATAATAAATAAAAAAGGTTTTTTATTAT
66 TTACAAAAT-AAAAATTT---TAA-AAATAAAAAAGGTTTTTTATTAT
*
531792 AAAAATAATATTTAATTAAGTT-TAAAAAATTACATTAACAAATTAAAATATTAATTATTATGTT
1 AAAAATAATATTTAATTAAGTTCAAAAAAATTACATTAACAAATTAAAATATTAA-TATTATGTT
*
531856 TTTACGTAAATAAAAATTTTAAAAATAAAAAAGGTTTTTTATTAT
65 TTTAC-AAAATAAAAATTTTAAAAATAAAAAAGGTTTTTTATTAT
531901 AA
1 AA
531903 TTTTTAATAA
Statistics
Matches: 101, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
108 27 0.27
109 48 0.48
110 3 0.03
111 5 0.05
112 6 0.06
113 8 0.08
114 4 0.04
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (108 bp):
AAAAATAATATTTAATTAAGTTCAAAAAAATTACATTAACAAATTAAAATATTAATATTATGTTT
TTACAAAATAAAAATTTTAAAAATAAAAAAGGTTTTTTATTAT
Found at i:531939 original size:34 final size:35
Alignment explanation
Indices: 531896--532047 Score: 102
Period size: 35 Copynumber: 4.3 Consensus size: 35
531886 AAGGTTTTTT
531896 ATTATAATTTTTAATAAAATAAAAAATAATATTTA
1 ATTATAATTTTTAATAAAATAAAAAATAATATTTA
** * * * *
531931 ATTA-AATTTAAAAATTTACATTAACAAATTAAAATATTA
1 ATTATAATTT-TTAA--TAAAATAA-AAAATAATAT-TTA
531970 ATTATTATATTTTT--TAAAAT-AAAAAT--TATTTA
1 ATTA-TA-ATTTTTAATAAAATAAAAAATAATATTTA
* *
532002 TTATTATTATTTTTAATATAATAAAAAATAATATTTA
1 --ATTATAATTTTTAATAAAATAAAAAATAATATTTA
532039 ATTA-AATTT
1 ATTATAATTT
532048 AAAAAATATA
Statistics
Matches: 87, Mismatches: 15, Indels: 31
0.65 0.11 0.23
Matches are distributed among these distances:
32 9 0.10
33 3 0.03
34 18 0.21
35 20 0.23
36 1 0.01
37 16 0.18
38 8 0.09
39 7 0.08
41 1 0.01
42 4 0.05
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (35 bp):
ATTATAATTTTTAATAAAATAAAAAATAATATTTA
Found at i:531954 original size:109 final size:109
Alignment explanation
Indices: 531864--532072 Score: 296
Period size: 108 Copynumber: 1.9 Consensus size: 109
531854 TTTTTACGTA
* *
531864 AATAAAAATTTTAAAAATAAAAAAGGTTTTTTATTATAATTTTTAATAAAATAAAAAATAATATT
1 AATAAAAATTTTAAAAATAAAAAAGATTTATTATTATAATTTTTAATAAAATAAAAAATAATATT
*
531929 TAATTAAATTT-AAAAATTTACATTAACAAATTAAAATATTAAT
66 TAATTAAATTTAAAAAATATACATTAACAAATTAAAATATTAAT
* * * * * ** * *
531972 TATTATATTTTTTAAAATAAAAATTATTTATTATTATTATTTTTAATATAATAAAAAATAATATT
1 AATAAAAATTTTAAAAATAAAAAAGATTTATTATTATAATTTTTAATAAAATAAAAAATAATATT
532037 TAATTAAATTTAAAAAATATACATTAA-AAATTAAAA
66 TAATTAAATTTAAAAAATATACATTAACAAATTAAAA
532073 AAATATTTAA
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
108 74 0.84
109 14 0.16
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (109 bp):
AATAAAAATTTTAAAAATAAAAAAGATTTATTATTATAATTTTTAATAAAATAAAAAATAATATT
TAATTAAATTTAAAAAATATACATTAACAAATTAAAATATTAAT
Found at i:531989 original size:24 final size:23
Alignment explanation
Indices: 531959--532003 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
531949 CATTAACAAA
**
531959 TTAAAATATTAATTATTATATTTT
1 TTAAAATAAAAATTATT-TATTTT
531983 TTAAAATAAAAATTATTTATT
1 TTAAAATAAAAATTATTTATT
532004 ATTATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTAAAATAAAAATTATTTATTTT
Found at i:532008 original size:31 final size:31
Alignment explanation
Indices: 531956--532015 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
531946 TTACATTAAC
*
531956 AAATTAAAATATTAATTATTA-TATTTTTTA
1 AAATAAAAATATTAATTATTATTATTTTTTA
*
531986 AAATAAAAATTATTTATTATTATTATTTTT
1 AAATAAAAA-TATTAATTATTATTATTTTT
532016 AATATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 8 0.31
31 11 0.42
32 7 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
AAATAAAAATATTAATTATTATTATTTTTTA
Found at i:532051 original size:22 final size:22
Alignment explanation
Indices: 532026--532082 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
532016 AATATAATAA
*
532026 AAAATAATATTTAATT-AAATTT
1 AAAA-AATATTTAATTAAAAATT
532048 AAAAAATA--TACATTAAAAATT
1 AAAAAATATTTA-ATTAAAAATT
532069 AAAAAAATATTTAA
1 -AAAAAATATTTAA
532083 GAAATTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
19 2 0.07
20 3 0.10
21 9 0.31
22 12 0.41
23 1 0.03
24 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAAAATATTTAATTAAAAATT
Found at i:532087 original size:20 final size:19
Alignment explanation
Indices: 532025--532094 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 19
532015 TAATATAATA
532025 AAAAATAATATTTAATTAAATTT
1 AAAAA-AATATTTAA--AAA-TT
*
532048 AAAAAATATACATTAAAAATT
1 AAAAAA-ATA-TTTAAAAATT
532069 AAAAAAATATTTAAGAAATT
1 AAAAAAATATTTAA-AAATT
532089 AAAAAA
1 AAAAAA
532095 TTATCATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
19 4 0.10
20 14 0.33
21 8 0.19
22 4 0.10
23 8 0.19
24 4 0.10
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (19 bp):
AAAAAAATATTTAAAAATT
Found at i:532778 original size:17 final size:17
Alignment explanation
Indices: 532756--532788 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
532746 AATTAAATAA
*
532756 AAATTTTAATGGCTTTC
1 AAATTTTAATAGCTTTC
532773 AAATTTTAATAGCTTT
1 AAATTTTAATAGCTTT
532789 TTTGAACACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.48
Consensus pattern (17 bp):
AAATTTTAATAGCTTTC
Found at i:533047 original size:16 final size:18
Alignment explanation
Indices: 533012--533050 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
533002 AAATTAAAAT
533012 AAAAAATAATACTTACAA
1 AAAAAATAATACTTACAA
*
533030 AAAAAAT-ATA-TTATAA
1 AAAAAATAATACTTACAA
533046 AAAAA
1 AAAAA
533051 GAAAAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 3 0.15
18 7 0.35
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAAATAATACTTACAA
Found at i:536455 original size:50 final size:50
Alignment explanation
Indices: 536362--536461 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
536352 AGTTTGATAT
* *
536362 TTTATAATCAATCAATTTTTCTTTTTTTTTTTGGAAAAGAATCTGATCGTA
1 TTTATAATCAATCAATTTTTC-TCTTTTTTTTGGAAAAAAATCTGATCGTA
536413 TTTATAATCAATCAA-TTTTC-CTTTTTTTTGGCAAAAAAAATCTGATCGT
1 TTTATAATCAATCAATTTTTCTCTTTTTTTTGG--AAAAAAATCTGATCGT
536462 TAAATACAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
48 10 0.22
50 20 0.44
51 15 0.33
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (50 bp):
TTTATAATCAATCAATTTTTCTCTTTTTTTTGGAAAAAAATCTGATCGTA
Found at i:536646 original size:84 final size:86
Alignment explanation
Indices: 536504--536911 Score: 439
Period size: 84 Copynumber: 4.7 Consensus size: 86
536494 CAGTCTTTCT
* * * * *
536504 TTTTTTTTAT-AAAAA-AATTCGATTATCAGATATAATTCAGGCATTAGTCTAATTCTTACAGTT
1 TTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTT
*
536567 TGATATTTACAATCAATCAAC
66 TGACATTTACAATCAATCAAC
* * *
536588 TTTTTTCTATAAAAAA-AATCTGATTCTCAAAT-TAATTCATGCATTAGTCTAATCCTTACAGTC
1 TTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTT
* *
536651 TGACATTTATACTCAATCAAC
66 TGACATTTACAATCAATCAAC
*
536672 TTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
1 TTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAGT-
* * *
536737 TT-ACATTTACACTTAATTAAC
65 TTGACATTTACAATCAATCAAC
* * * * *
536758 ATTTTTTTTATAAAAAAAAGAATCCAATTCTCATATATAATTAATGCATTAGTCTAATCCTTATA
1 -TTTTTTCTAT--AAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACA
*
536823 GTTTGACATTTACAATTAATCAAC
63 GTTTGACATTTACAATCAATCAAC
* * *** * *
536847 TTTTTTTCTTTTCTATCAAAAATAATTTAATTATCAGATATATTTCATGCATTAGTCTAATCCTT
1 -----TT-TTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
536912 GTAATCTGAC
Statistics
Matches: 275, Mismatches: 36, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
84 71 0.26
85 31 0.11
86 45 0.16
87 10 0.04
88 2 0.01
89 66 0.24
92 41 0.15
93 2 0.01
94 7 0.03
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.42
Consensus pattern (86 bp):
TTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTT
TGACATTTACAATCAATCAAC
Found at i:536926 original size:181 final size:170
Alignment explanation
Indices: 536504--536931 Score: 455
Period size: 181 Copynumber: 2.5 Consensus size: 170
536494 CAGTCTTTCT
* * * * * * *
536504 TTTTTTTTAT-AAAAA-AATTCGATTATCAGATATAATTCAGGCATTAGTCTAATTCTTACAGTT
1 TTTTTTCTATAAAAAAGAATCCAATTATCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
* ** *
536567 TGATATTTACAATCAATCAACTTTTTTCTATAAAAAAAATCTGATTCTCAAATTAATTCATGCAT
66 TGACATTTACAATCAATCAACTTTTTTCTATAAAAAAAATCCAATTCTCAAATTAATTAATGCAT
* *
536632 TAGTCTAATCCTTACAGTCTGACATTTATACTCAATCAAC
131 TAGTCTAATCCTTACAGTCTGACATTTACAATCAATCAAC
* *
536672 TTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
1 TTTTTTCTATAAAAAAGAATCCAATTATCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
* * * * * *
536737 TTACATTTACACTTAATTAACATTTTTTTTATAAAAAAAAGAATCCAATTCTCATATATAATTAA
66 TGACATTTACAATCAATCAAC-TTTTTTCTAT--AAAAAA-AATCCAATTCTCAAAT-TAATTAA
* * *
536802 TGCATTAGTCTAATCCTTATAGTTTGACATTTACAATTAATCAAC
126 TGCATTAGTCTAATCCTTACAGTCTGACATTTACAATCAATCAAC
* * ** *
536847 TTTTTTTCTTTTCTATCAAAAATAATTTAATTATCAGATATATTTCATGCATTAGTCTAATCCTT
1 -----TT-TTTTCTATAAAAAAGAATCCAATTATCAGATATAATTCATGCATTAGTCTAATCCTT
* * *
536912 GTAATCTGACATTTAAAATC
60 GCAGTCTGACATTTACAATC
536932 CATGCATTAC
Statistics
Matches: 212, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
168 9 0.04
169 5 0.02
170 58 0.27
171 9 0.04
173 6 0.03
174 13 0.06
175 46 0.22
180 2 0.01
181 64 0.30
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.42
Consensus pattern (170 bp):
TTTTTTCTATAAAAAAGAATCCAATTATCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
TGACATTTACAATCAATCAACTTTTTTCTATAAAAAAAATCCAATTCTCAAATTAATTAATGCAT
TAGTCTAATCCTTACAGTCTGACATTTACAATCAATCAAC
Found at i:537340 original size:38 final size:38
Alignment explanation
Indices: 537298--537397 Score: 103
Period size: 38 Copynumber: 2.6 Consensus size: 38
537288 TATATTAGTC
*
537298 ATATCTTTTAAATTCTAATAAATAATCTAT-AATTATTA
1 ATATCTTTTAAATTCTAATAAATAAT-TATGAATTAATA
* * * * *
537336 ATATCTTTCAAAATCTAATAAAAAATTATGCATTAATC
1 ATATCTTTTAAATTCTAATAAATAATTATGAATTAATA
* * *
537374 ATATCTTTTAGATTTTAATTAATA
1 ATATCTTTTAAATTCTAATAAATA
537398 GTTAAACCCT
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
37 3 0.06
38 46 0.94
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (38 bp):
ATATCTTTTAAATTCTAATAAATAATTATGAATTAATA
Found at i:537664 original size:15 final size:15
Alignment explanation
Indices: 537646--537675 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
537636 TAATAAAACT
537646 TTTTTTAATTTAAAA
1 TTTTTTAATTTAAAA
*
537661 TTTTTTATTTTAAAA
1 TTTTTTAATTTAAAA
537676 AACATAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTTAATTTAAAA
Found at i:543538 original size:17 final size:17
Alignment explanation
Indices: 543518--543574 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
543508 AATAATTTTA
*
543518 AATATTATATAAAAAAT
1 AATATAATATAAAAAAT
* *
543535 AATATAAGATACAAAATAA
1 AATATAATATA-AAAA-AT
*
543554 AATATAATATGAAAAAT
1 AATATAATATAAAAAAT
543571 AATA
1 AATA
543575 AAAATATGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
17 14 0.44
18 8 0.25
19 10 0.31
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (17 bp):
AATATAATATAAAAAAT
Found at i:543569 original size:19 final size:18
Alignment explanation
Indices: 543517--543572 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
543507 TAATAATTTT
*
543517 AAATATTATATAAAAA-A
1 AAATATAATATAAAAATA
* *
543534 TAATATAAGATACAAAATA
1 AAATATAATATA-AAAATA
543553 AAATATAATATGAAAAATA
1 AAATATAATAT-AAAAATA
543572 A
1 A
543573 TAAAAATATG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 9 0.29
18 4 0.13
19 17 0.55
20 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATATAATATAAAAATA
Found at i:543626 original size:29 final size:28
Alignment explanation
Indices: 543517--543651 Score: 84
Period size: 29 Copynumber: 4.8 Consensus size: 28
543507 TAATAATTTT
*
543517 AAATATTATATAAAAAATAATATAAGATA-CA
1 AAATATTATAT---AAAT-ATATAAAATATCA
** *
543548 AAATAAAATAT-AATATGA-AAAATAATAA
1 AAATATTATATAAATAT-ATAAAAT-ATCA
* *
543576 AAATATGATATGAATATATAAACATATCA
1 AAATATTATATAAATATATAAA-ATATCA
**
543605 AAATATTATATAAAT-TATTAAAATATTT
1 AAATATTATATAAATATA-TAAAATATCA
543633 AAAT-TTATAT-AATATATAA
1 AAATATTATATAAATATATAA
543652 TATTTTAATC
Statistics
Matches: 85, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
26 12 0.14
27 13 0.15
28 21 0.25
29 28 0.33
30 2 0.02
31 9 0.11
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (28 bp):
AAATATTATATAAATATATAAAATATCA
Found at i:543629 original size:20 final size:21
Alignment explanation
Indices: 543590--543631 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
543580 ATGATATGAA
543590 TATATAAACATATCAAAATAT
1 TATATAAACATATCAAAATAT
* *
543611 TATATAAA-TTATTAAAATAT
1 TATATAAACATATCAAAATAT
543631 T
1 T
543632 TAAATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TATATAAACATATCAAAATAT
Found at i:544211 original size:26 final size:24
Alignment explanation
Indices: 544173--544220 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
544163 CTTAGCTTGT
544173 TTTTAATTATATAACATATAATAA
1 TTTTAATTATATAACATATAATAA
**
544197 TTTTATATTCATATATTATATAAT
1 TTTTA-ATT-ATATAACATATAAT
544221 TTATATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 3 0.15
26 12 0.60
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTAATTATATAACATATAATAA
Found at i:544568 original size:18 final size:18
Alignment explanation
Indices: 544545--544581 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
544535 GAAGTTATTT
*
544545 TTATATCTTATGTAAATA
1 TTATATCTTATATAAATA
*
544563 TTATATTTTATATAAATA
1 TTATATCTTATATAAATA
544581 T
1 T
544582 ATAAAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TTATATCTTATATAAATA
Found at i:546811 original size:24 final size:22
Alignment explanation
Indices: 546767--546808 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
546757 CCTAACATAC
*
546767 TACCTAACACATTTAATAAATT
1 TACCTAACACACTTAATAAATT
546789 TACCTAACACACTTAATAAA
1 TACCTAACACACTTAATAAA
546809 AATATTAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (22 bp):
TACCTAACACACTTAATAAATT
Found at i:553013 original size:9 final size:9
Alignment explanation
Indices: 552996--553038 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
552986 TTTAAATTTT
552996 TTTTATTAA
1 TTTTATTAA
553005 TATTT-TTAA
1 T-TTTATTAA
553014 TTTTATTAA
1 TTTTATTAA
553023 TTTTAATTAA
1 TTTT-ATTAA
553033 TCTTTA
1 T-TTTA
553039 GTATATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 3 0.10
9 14 0.47
10 10 0.33
11 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTATTAA
Found at i:553811 original size:2 final size:2
Alignment explanation
Indices: 553804--553840 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
553794 TTTATTTAAA
553804 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
553841 AGTGATCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:556418 original size:21 final size:21
Alignment explanation
Indices: 556393--556442 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
556383 ACTTGCTGTT
556393 GTGCATTTAAATTAGTTTGTG
1 GTGCATTTAAATTAGTTTGTG
* * *
556414 GTGCATTTAACTTAGTTTTTT
1 GTGCATTTAAATTAGTTTGTG
556435 GTGCATTT
1 GTGCATTT
556443 GGCATCTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.08, G:0.20, T:0.52
Consensus pattern (21 bp):
GTGCATTTAAATTAGTTTGTG
Found at i:558358 original size:35 final size:37
Alignment explanation
Indices: 558291--558360 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
558281 GAACCGAAAC
558291 ATATGTTTTAAACAGGGAATATATTTGTTGTTTTTGT
1 ATATGTTTTAAACAGGGAATATATTTGTTGTTTTTGT
558328 ATATGTTTTAAACA-GGAA-ATATTTAG-TGTTTTT
1 ATATGTTTTAAACAGGGAATATATTT-GTTGTTTTT
558361 TGAAACCGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
35 13 0.41
36 5 0.16
37 14 0.44
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (37 bp):
ATATGTTTTAAACAGGGAATATATTTGTTGTTTTTGT
Found at i:558737 original size:32 final size:32
Alignment explanation
Indices: 558700--558762 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
558690 AACTAAAATG
* *
558700 AATTTAAATTAATCTG-AGTTAAAATTAATTTT
1 AATTTAAAATAATCTGTACTTAAAA-TAATTTT
*
558732 AATTTAAAATAATTTGTACTTAAAATAATTT
1 AATTTAAAATAATCTGTACTTAAAATAATTT
558763 ATTCAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (32 bp):
AATTTAAAATAATCTGTACTTAAAATAATTTT
Found at i:558799 original size:22 final size:23
Alignment explanation
Indices: 558751--558800 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
558741 TAATTTGTAC
* *
558751 TTAAAATAATTTATTCAATTAAT
1 TTAAAATAATTTATGCAATTAAA
* *
558774 TTAAGATAATTT-TGCACTTAAA
1 TTAAAATAATTTATGCAATTAAA
558796 TTAAA
1 TTAAA
558801 TCTAATCTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (23 bp):
TTAAAATAATTTATGCAATTAAA
Found at i:558835 original size:15 final size:17
Alignment explanation
Indices: 558817--558855 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
558807 CTTATTTTTA
558817 AAAAATAA-ATT-TAAT
1 AAAAATAACATTATAAT
558832 AAAAATAATCATTATAAT
1 AAAAATAA-CATTATAAT
558850 AAAAAT
1 AAAAAT
558856 TATTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.38
17 3 0.14
18 10 0.48
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATAACATTATAAT
Found at i:559365 original size:19 final size:19
Alignment explanation
Indices: 559332--559368 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
559322 ATTACACTTT
**
559332 AAAATAATCTTTTAAATAC
1 AAAATAATCCCTTAAATAC
559351 AAAATAATCCCTTAAATA
1 AAAATAATCCCTTAAATA
559369 AATTTACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATAATCCCTTAAATAC
Found at i:559667 original size:8 final size:8
Alignment explanation
Indices: 559625--559664 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
559615 TAAAGAGTAT
559625 ATATATAAA
1 ATATAT-AA
*
559634 AAATATAA
1 ATATATAA
559642 ATATATAA
1 ATATATAA
*
559650 ATATATAT
1 ATATATAA
559658 ATATATA
1 ATATATA
559665 TATTATTCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
8 23 0.82
9 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATATAA
Found at i:567511 original size:21 final size:21
Alignment explanation
Indices: 567459--567525 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
567449 GCTTGTAAAA
* *
567459 ATGTACATATAATTATGCTAC
1 ATGTACATATTATTATGCTAT
*
567480 ATGTACATATTATTATACTAT
1 ATGTACATATTATTATGCTAT
* * *
567501 ATGTATATATTGTT-TGTTAT
1 ATGTACATATTATTATGCTAT
567521 ATGTA
1 ATGTA
567526 TATGTGGTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 9 0.23
21 30 0.77
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (21 bp):
ATGTACATATTATTATGCTAT
Found at i:567535 original size:20 final size:20
Alignment explanation
Indices: 567498--567535 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
567488 ATTATTATAC
*
567498 TATATGTATATATTGTTTGT
1 TATATGTATATATGGTTTGT
*
567518 TATATGTATATGTGGTTT
1 TATATGTATATATGGTTT
567536 TGGAGAACAA
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:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (20 bp):
TATATGTATATATGGTTTGT
Found at i:569042 original size:19 final size:19
Alignment explanation
Indices: 569009--569057 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
568999 AAACAGTAAA
569009 TGTATCGAT-CATAAGTGT
1 TGTATCGATACATAAGTGT
*
569027 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
569046 TGTATCGATACA
1 TGTATCGATACA
569058 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 9 0.31
19 20 0.69
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:571520 original size:51 final size:51
Alignment explanation
Indices: 571460--571692 Score: 317
Period size: 51 Copynumber: 4.6 Consensus size: 51
571450 TAAGTTTCTC
*
571460 AATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
* *
571511 AATTTTTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACT
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
* * ** *
571562 AATTTTCCACAATCGGGGATACTCCAACTCCAATTTTATTTTCGAAATAC-C-
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAA-ACACT
* * *
571613 AATTTTTCACAATCGAGGATACTCCAACCCCGGTTTTATTTCTAAAATATT
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
* *
571664 GATTTCTCACAATCGGGGATACTCCAACC
1 AATTTTTCACAATCGGGGATACTCCAACC
571693 TCGTTATTTC
Statistics
Matches: 159, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
49 1 0.01
50 7 0.04
51 141 0.89
52 8 0.05
53 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (51 bp):
AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
Found at i:571761 original size:79 final size:79
Alignment explanation
Indices: 571629--572007 Score: 560
Period size: 79 Copynumber: 4.8 Consensus size: 79
571619 TCACAATCGA
571629 GGATACTCCAACCCCGGTTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCT
1 GGATACTCCAACCCCGGTTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCT
571694 CGTTATTTCCGAGG
66 CGTTATTTCCGAGG
* * * * *
571708 AGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCTAACCC
1 GGATACTCCAACCCCGGTTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCT
*
571773 CGTCATTTCCGAGG
66 CGTTATTTCCGAGG
* * **
571787 GGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCAAGGATACTCCAACCT
1 GGATACTCCAACCCCGGTTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCT
*
571852 CGTTATTTTCGAGG
66 CGTTATTTCCGAGG
* *
571866 GGATACTCCAACCCCGGTTTTATTTCTAAAATATAGATTTCTCACAGTCGGGGATACTCCAACCT
1 GGATACTCCAACCCCGGTTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCT
**
571931 CGTTATTTTTGAGG
66 CGTTATTTCCGAGG
* ** *** *
571945 GGATACTCTAACCCCAATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAAC
1 GGATACTCCAACCCCGGTTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
572008 TCCGATTTTA
Statistics
Matches: 272, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 272 1.00
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
GGATACTCCAACCCCGGTTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCT
CGTTATTTCCGAGG
Found at i:572007 original size:130 final size:130
Alignment explanation
Indices: 571864--572228 Score: 407
Period size: 130 Copynumber: 2.8 Consensus size: 130
571854 TTATTTTCGA
* * * *
571864 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATA-TAGATTTCTCACAGTCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACTA-ATTTCTCACAATCGAGGATACTCCAA
* *** * * * * *
571928 CCTCGTTATTTTTGAGGGGATACTCTAACCCCAATTTTATTTCTAAAATACCAATTTTTCACAAT
65 CCCCGTTATTTCCAAAGGGATACTCCAACCCCAACTTTATTCCTAAAATACCAATTTCTCACAAT
571993 C
130 C
* *
571994 GGGGATACTCCAACTCCGATTTTATTTCTAAAACACTAATTTCTTACAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTCTCACAATCGAGGATACTCCAAC
* *** *
572059 CCCGTTATTTCCAAAGGGATACTCCAACCCCAGCTTTATTCCTAAAATATTGATTTCTCATAATC
66 CCCGTTATTTCCAAAGGGATACTCCAACCCCAACTTTATTCCTAAAATACCAATTTCTCACAATC
* * * *
572124 GGGGATACTCCAACCTCGATTTTATTT-TCAAAACACCAATTT-TCTATAAT-TAGGGATACTCC
1 GGGGATACTCCAACCCCGATTTTATTTCT-AAAACACTAATTTCTC-ACAATCGA-GGATACTCC
* * *
572186 AACCCTGTTATTTCC-AAGTGGATACTCCAACCCCGATTTTATT
63 AACCCCGTTATTTCCAAAG-GGATACTCCAACCCCAACTTTATT
572229 TTCAGAACAC
Statistics
Matches: 200, Mismatches: 30, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
129 6 0.03
130 192 0.96
131 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (130 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTCTCACAATCGAGGATACTCCAAC
CCCGTTATTTCCAAAGGGATACTCCAACCCCAACTTTATTCCTAAAATACCAATTTCTCACAATC
Found at i:572016 original size:51 final size:51
Alignment explanation
Indices: 571943--572061 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 51
571933 TTATTTTTGA
* *
571943 GGGGATACTCTAACCCCAATTTTATTTCTAAAATACCAATTT-TTCACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTCTT-ACAATC
* * *
571994 GGGGATACTCCAACTCCGATTTTATTTCTAAAACACTAATTTCTTACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTCTTACAATC
*
572045 GAGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
572062 GTTATTTCCA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 58 0.97
52 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTCTTACAATC
Found at i:584573 original size:13 final size:13
Alignment explanation
Indices: 584555--584579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
584545 ACCTTCTCTT
584555 CAAAAAAAAAAAG
1 CAAAAAAAAAAAG
584568 CAAAAAAAAAAA
1 CAAAAAAAAAAA
584580 AAACAAAAAA
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:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAG
Found at i:584574 original size:9 final size:8
Alignment explanation
Indices: 584556--584604 Score: 50
Period size: 7 Copynumber: 6.4 Consensus size: 8
584546 CCTTCTCTTC
584556 AAAAA-AA
1 AAAAACAA
*
584563 AAAAGCAA
1 AAAAACAA
584571 AAAAA-AA
1 AAAAACAA
584578 AAAAAC-A
1 AAAAACAA
584585 AAAAACAA
1 AAAAACAA
*
584593 AACAAAGAA
1 AA-AAACAA
584602 AAA
1 AAA
584605 GAGAGAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
7 18 0.51
8 10 0.29
9 7 0.20
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (8 bp):
AAAAACAA
Found at i:584576 original size:15 final size:15
Alignment explanation
Indices: 584556--584604 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
584546 CCTTCTCTTC
584556 AAAAAAAAAAAGCAA
1 AAAAAAAAAAAGCAA
*
584571 AAAAAAAAAAAACAA
1 AAAAAAAAAAAGCAA
584586 AAAACAAAACAAAG-AA
1 AAAA-AAAA-AAAGCAA
584602 AAA
1 AAA
584605 GAGAGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 18 0.60
16 9 0.30
17 3 0.10
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGCAA
Found at i:584577 original size:16 final size:16
Alignment explanation
Indices: 584556--584604 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
584546 CCTTCTCTTC
584556 AAAAAAAAAAAGCAAA
1 AAAAAAAAAAAGCAAA
584572 AAAAAAAAAAA-CAAA
1 AAAAAAAAAAAGCAAA
*
584587 AAACAAAACAAAG-AAA
1 AAA-AAAAAAAAGCAAA
584603 AA
1 AA
584605 GAGAGAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 7 0.23
16 23 0.77
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGCAAA
Found at i:584595 original size:12 final size:12
Alignment explanation
Indices: 584555--584598 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
584545 ACCTTCTCTT
*
584555 CAAAAAAAAAAA
1 CAAAACAAAAAA
584567 GCAAAA-AAAAAA
1 -CAAAACAAAAAA
584579 -AAAACAAAAAA
1 CAAAACAAAAAA
584590 CAAAACAAA
1 CAAAACAAA
584599 GAAAAAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.14
11 6 0.21
12 14 0.48
13 5 0.17
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.00
Consensus pattern (12 bp):
CAAAACAAAAAA
Found at i:585672 original size:55 final size:55
Alignment explanation
Indices: 585588--585935 Score: 522
Period size: 55 Copynumber: 6.3 Consensus size: 55
585578 TCCGCTTTTT
585588 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
585643 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
585698 AGTCCTCAAAGAGTAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
* * *
585753 AGTCCTCAAAGAGCAGGACATCTCTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
585808 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
585863 AATCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
585918 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
585936 TACACTTTAT
Statistics
Matches: 273, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
54 5 0.02
55 265 0.97
56 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:586590 original size:19 final size:19
Alignment explanation
Indices: 586566--586633 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
586556 AATTCAACAA
586566 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
586585 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
586600 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
586617 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
586634 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:586605 original size:13 final size:13
Alignment explanation
Indices: 586587--586611 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
586577 ACATAAGTTT
586587 TGTATCGATACAA
1 TGTATCGATACAA
586600 TGTATCGATACA
1 TGTATCGATACA
586612 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:586609 original size:32 final size:32
Alignment explanation
Indices: 586568--586630 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
586558 TTCAACAATT
*
586568 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
586600 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
586631 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:586691 original size:13 final size:13
Alignment explanation
Indices: 586673--586698 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
586663 CATTTTTCTG
586673 TGTATCGATACAT
1 TGTATCGATACAT
586686 TGTATCGATACAT
1 TGTATCGATACAT
586699 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:586695 original size:33 final size:33
Alignment explanation
Indices: 586653--586719 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
586643 GCCAAGGAAA
***
586653 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
586686 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
586719 T
1 T
586720 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:589130 original size:51 final size:51
Alignment explanation
Indices: 589069--589432 Score: 220
Period size: 52 Copynumber: 6.9 Consensus size: 51
589059 AATTCTCCAC
* * * * *
589069 AATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTAT
* *
589120 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC---AAAACACCAATTTTC-T-AT
* * * * ***
589175 AATCGGGGATACTCCAACCCCG--TTAATCAT-CAGGGATACTCCAA-GCCCGT-T
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTCCA---AAACACCAATTTTC-TAT
* * * * ***
589226 ATTTCCGAGGGGATACTCCAACCCCGATGTTATTTCCCAAATATTGATTTT-TCAT
1 A-AT-C--GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCT-AT
* * * * *
589281 AATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA-TTTTCTAT
* * * * * *
589333 AATCGAGAATACTCCAACCCAGGTTTTATTTTCAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTT-CTAT
*
589385 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTT
589433 TCACAATTGA
Statistics
Matches: 234, Mismatches: 56, Indels: 44
0.70 0.17 0.13
Matches are distributed among these distances:
50 1 0.00
51 67 0.29
52 69 0.29
53 35 0.15
54 15 0.06
55 42 0.18
56 1 0.00
57 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTAT
Found at i:589262 original size:31 final size:28
Alignment explanation
Indices: 589179--589251 Score: 89
Period size: 27 Copynumber: 2.6 Consensus size: 28
589169 CTTCACAATC
*
589179 GGGGATACTCCAACCCCGTTA-ATCATC-A
1 GGGGATACTCCAACCCCGTTATTTC--CGA
*
589207 -GGGATACTCCAAGCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
589234 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
589252 ATGTTATTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.25, C:0.33, G:0.22, T:0.21
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:589360 original size:52 final size:49
Alignment explanation
Indices: 589272--589452 Score: 173
Period size: 52 Copynumber: 3.5 Consensus size: 49
589262 CCAAATATTG
* * *
589272 ATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTA
1 ATTTTTCACAATCGAGGATACTCCAA-CCCGATTTTATT-CTAAAACACCA
* * *
589323 ATTTTTCCACAATCGAGAATACTCCAACCCAGGTTTTATTTTCAAAACACCA
1 ATTTTT-CACAATCGAGGATACTCCAACCC-GATTTTATTCT-AAAACACCA
* ** * *
589375 ATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCA
1 ATTTTTC-ACAATCGAGGATACTCCAAC-CCGATTTTA-TT-CTAAAACACCA
*
589428 ATTTTTCACAATTGAGGATACTCCA
1 ATTTTTCACAATCGAGGATACTCCA
589453 GCCTCGTTAT
Statistics
Matches: 104, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
51 11 0.11
52 74 0.71
53 19 0.18
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (49 bp):
ATTTTTCACAATCGAGGATACTCCAACCCGATTTTATTCTAAAACACCA
Found at i:589546 original size:263 final size:263
Alignment explanation
Indices: 589064--589565 Score: 753
Period size: 263 Copynumber: 1.9 Consensus size: 263
589054 TTCTCAATTC
* * *
589064 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGAATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
589129 TACTCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
* **
589194 CCGTTAATCATCAGGGATACTCCAAGCCCGTTATTTCCGAGGGGATACTCCAACCCCGATGTTAT
130 CCGTTAATCATCAGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGATGTTAT
* * *
589259 TTCCCAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAA
195 TTCCCAAATATCGATTTCTCATAATCAGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAA
589324 TTTT
260 TTTT
* *
589328 TCCACAATCGAGAATACTCCAAC-CCAGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGAATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
* *
589392 GATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TTCACAATTGAGGATACTCCAGC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * *
589455 CTCGTTATTTCATCAGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCT-T
129 CCCGTTA-ATCATCAGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCC-GATGT
*
589519 TA-TTCCCAAAATATCGATTTCTCATAATTAGGGATACTCCAACCCCG
192 TATTTCCC-AAATATCGATTTCTCATAATCAGGGATACTCCAACCCCG
589566 TTATTTCCGA
Statistics
Matches: 215, Mismatches: 18, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
262 31 0.14
263 101 0.47
264 47 0.22
265 36 0.17
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (263 bp):
TCCACAATCGAGAATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCAGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGATGTTATT
TCCCAAATATCGATTTCTCATAATCAGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAAT
TTT
Found at i:589614 original size:79 final size:79
Alignment explanation
Indices: 589468--589672 Score: 227
Period size: 79 Copynumber: 2.6 Consensus size: 79
589458 GTTATTTCAT
**
589468 CAGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
* *
589533 CGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * ** *
589547 TAGGGATACTCCAACCCCGTTATTTCCGA-GGGATACTCCAATCCCGATG-TTTTTTTTC-TAAT
1 CAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG--GCTTTATTCCCAAAAT
589609 CATCGATTTCTCACAAC
64 -ATCGATTTCTCACAAC
* * * * *
589626 CGGGGATACTCCAACCCCGTCATTTTCAAGGGGACACTCCAACCCCG
1 CAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
589673 TTATTATCTT
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
78 19 0.18
79 70 0.67
80 16 0.15
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (79 bp):
CAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:590845 original size:20 final size:20
Alignment explanation
Indices: 590820--590857 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
590810 CCGTCGGCAA
590820 GGGTGCCCAAGTTGGAAGAG
1 GGGTGCCCAAGTTGGAAGAG
590840 GGGTGCCCAAGTTGGAAG
1 GGGTGCCCAAGTTGGAAG
590858 TGGCCTCGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.45, T:0.16
Consensus pattern (20 bp):
GGGTGCCCAAGTTGGAAGAG
Found at i:594971 original size:16 final size:14
Alignment explanation
Indices: 594950--595012 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 14
594940 CTTCTCTTCT
*
594950 AAAAAAAACAGAATA
1 AAAAAAAACA-AAAA
594965 AAAAAAAACAAAAA
1 AAAAAAAACAAAAA
594979 CAAAAAACAA-AAAAA
1 -AAAAAA-AACAAAAA
*
594994 AAACAAAACAAAGAA
1 AAAAAAAACAAA-AA
595009 AAAA
1 AAAA
595013 GAGAGAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
13 2 0.05
14 11 0.27
15 26 0.63
16 2 0.05
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.02
Consensus pattern (14 bp):
AAAAAAAACAAAAA
Found at i:594979 original size:6 final size:6
Alignment explanation
Indices: 594964--595005 Score: 54
Period size: 5 Copynumber: 7.3 Consensus size: 6
594954 AAAACAGAAT
594964 AAAA-A AAAACA AAAACAA AAAACA AAAA-A AAAAC- AAAACA AA
1 AAAACA AAAACA AAAAC-A AAAACA AAAACA AAAACA AAAACA AA
595006 GAAAAAAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
5 14 0.42
6 13 0.39
7 6 0.18
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:594983 original size:13 final size:12
Alignment explanation
Indices: 594967--595005 Score: 62
Period size: 11 Copynumber: 3.2 Consensus size: 12
594957 ACAGAATAAA
594967 AAAAAACAAAAAC
1 AAAAAAC-AAAAC
594980 AAAAAACAAAA-
1 AAAAAACAAAAC
594991 AAAAAACAAAAC
1 AAAAAACAAAAC
595003 AAA
1 AAA
595006 GAAAAAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.44
12 7 0.28
13 7 0.28
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAACAAAAC
Found at i:594985 original size:18 final size:18
Alignment explanation
Indices: 594950--595001 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 18
594940 CTTCTCTTCT
*
594950 AAAAAAAACAGAATAAAAAA
1 AAAAAAAACA-AA-AAACAA
594970 AAACAAAAACAAAAAACAA
1 AAA-AAAAACAAAAAACAA
594989 AAAAAAAACAAAA
1 AAAAAAAACAAAA
595002 CAAAGAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 10 0.33
19 8 0.27
20 5 0.17
21 7 0.23
ACGTcount: A:0.87, C:0.10, G:0.02, T:0.02
Consensus pattern (18 bp):
AAAAAAAACAAAAAACAA
Found at i:595011 original size:15 final size:13
Alignment explanation
Indices: 594950--594996 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
594940 CTTCTCTTCT
594950 AAAAAAAACAGAATA
1 AAAAAAAACA-AA-A
594965 AAAAAAAACAAAA
1 AAAAAAAACAAAA
*
594978 ACAAAAAACAAAA
1 AAAAAAAACAAAA
594991 AAAAAA
1 AAAAAA
594997 CAAAACAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 18 0.60
14 2 0.07
15 10 0.33
ACGTcount: A:0.87, C:0.09, G:0.02, T:0.02
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:596100 original size:55 final size:55
Alignment explanation
Indices: 596016--596810 Score: 809
Period size: 55 Copynumber: 13.9 Consensus size: 55
596006 CGCCTTTTCT
*
596016 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC
* * *
596071 TTTCAAAGCTCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC
* *
596126 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCATGACGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCC
* **
596181 TTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC
* *
596236 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACG-C----C
* * *
596296 TTTTCAAAGCCCACATAAGTTGGTAGCACCTTTCAGTCCTCAAAGAGTAGGACGCC
1 -TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC
* * *
596352 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTTAAAGAGCAGGACGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCC
* * *
596407 TTTTAAAGCCAACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCC
* * * *
596462 TTTTAAAGCTCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGC-----C
* * *
596522 TTTTCAAAGCCTACACAAGTAGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTC
1 -TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACG-C----C
* * *
596583 TTTTCAAAGCCCACACGAGTTGGTGGCACCTTTCAATCCTCAAAGAGCATGACGCC
1 -TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC
* * *
596639 TTTTAAAGCCCACACGAGTTGGTGGCATCC-TTCAGTCCTCAAAGAGCAGGATGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTCAGTCCTCAAAGAGCAGGACGCC
* * * * * *
596694 TTTTTCTTTTAAAGCTCACATAAGCTGGCGGCGCC-TTCAGTCCTCAAAGAGCAGGATGCC
1 --TTTC----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC
*
596754 TCTTCCTTTTAAAGCCCACACAAGTTGGT-G-ACGCTTCTCAGTCCTCAAAGAGTAGGA
1 T-TT-C----AAAGCCCACACAAGTTGGTGGCAC-CTT-TCAGTCCTCAAAGAGCAGGA
596811 TGCTCCCTCC
Statistics
Matches: 651, Mismatches: 56, Indels: 60
0.85 0.07 0.08
Matches are distributed among these distances:
54 11 0.02
55 387 0.59
56 9 0.01
57 3 0.00
58 2 0.00
59 4 0.01
60 52 0.08
61 175 0.27
62 8 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (55 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC
Found at i:596111 original size:29 final size:29
Alignment explanation
Indices: 596026--596111 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
596016 TTTCAAAGCC
*
596026 CACACAAGTTGGTGGCACCTTTCAGTCCT
1 CACACAAGTTGGTGGCACCTTTCAATCCT
** **
596055 CA-A-AGAGCAGGAT-G--CCTTTCAAAGCT
1 CACACA-AGTTGG-TGGCACCTTTCAATCCT
596081 CACACAAGTTGGTGGCACCTTTCAATCCT
1 CACACAAGTTGGTGGCACCTTTCAATCCT
596110 CA
1 CA
596112 AAGAGCAAGA
Statistics
Matches: 41, Mismatches: 9, Indels: 14
0.64 0.14 0.22
Matches are distributed among these distances:
26 12 0.29
27 7 0.17
28 7 0.17
29 15 0.37
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (29 bp):
CACACAAGTTGGTGGCACCTTTCAATCCT
Found at i:596211 original size:27 final size:27
Alignment explanation
Indices: 596181--596266 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
596171 GCATGACGCC
596181 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
** * * * ** ** *
596208 TTTTTCAGTCCTCAAAGAGCAGGACGCC
1 TTTTAAAGCCCACACA-AGTTGGTGGCA
596236 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
596263 TTTT
1 TTTT
596267 CCAGTCCTCA
Statistics
Matches: 38, Mismatches: 20, Indels: 2
0.63 0.33 0.03
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (27 bp):
TTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:596239 original size:28 final size:28
Alignment explanation
Indices: 596153--596294 Score: 72
Period size: 28 Copynumber: 5.1 Consensus size: 28
596143 GTTGGTGGCA
* *
596153 TTTTCCAGTCCTCAAAGAGCATGACGCC
1 TTTTACAGTCCTCAAAGAGCAGGACGCC
* * * * ** ** *
596181 TTTTAAAGCCCACACA-AGTTGGTGGCA
1 TTTTACAGTCCTCAAAGAGCAGGACGCC
*
596208 TTTTTCAGTCCTCAAAGAGCAGGACGCC
1 TTTTACAGTCCTCAAAGAGCAGGACGCC
* * * * ** ** *
596236 TTTTAAAGCCCACACA-AGTTGGTGGCA
1 TTTTACAGTCCTCAAAGAGCAGGACGCC
*
596263 TTTTCCAGTCCTCAAAGAGCAGGACGCC
1 TTTTACAGTCCTCAAAGAGCAGGACGCC
596291 TTTT
1 TTTT
596295 CTTTTCAAAG
Statistics
Matches: 71, Mismatches: 41, Indels: 4
0.61 0.35 0.03
Matches are distributed among these distances:
27 33 0.46
28 38 0.54
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (28 bp):
TTTTACAGTCCTCAAAGAGCAGGACGCC
Found at i:596916 original size:55 final size:55
Alignment explanation
Indices: 596832--597245 Score: 472
Period size: 55 Copynumber: 7.3 Consensus size: 55
596822 TTCGCCCTTT
* *
596832 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
596887 AGTCCTCAAAGAGCATGACGCCTTTTAAAGCCCACACAATTTGGTAGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
596942 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * * *
596997 AGTCTTCAAAGAACAGGACGCCTCTTAAAGCCTACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * *
597052 AGTCTTCAAAGAGCAGGACGTCTCTTAAAGCCCACATAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * **
597107 AGTCCTCAAAGAGCATGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGC---CT-TTT--AAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
597168 AGTCTTCAAAGAGCAGGACACTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT--
1 AGTCCTCAAAGAGCAGG--AC---GCCTTTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
597228 AGGCCTCAAAGAGTAGGA
1 AGTCCTCAAAGAGCAGGA
597246 TGCACTTTAT
Statistics
Matches: 309, Mismatches: 38, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
55 217 0.70
58 3 0.01
59 2 0.01
60 14 0.05
61 64 0.21
62 5 0.02
63 3 0.01
66 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:597397 original size:42 final size:40
Alignment explanation
Indices: 597349--597442 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 40
597339 TTTCACTTTA
*
597349 TCCTCAAGAAGTAAGACACT-TTCCTTTTCTTCTCTTCCTTGG
1 TCCTCAAGAAGTAAGAC-CTATTCC-ATTC-TCTCTTCCTTGG
* * * *
597391 TCCTCAAGGAGCAAGACCTATTCCATTCTCTTTTCCTTTG
1 TCCTCAAGAAGTAAGACCTATTCCATTCTCTCTTCCTTGG
*
597431 TCCTCAAAAAGT
1 TCCTCAAGAAGT
597443 GGGACACCCC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
40 19 0.44
41 5 0.12
42 19 0.44
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (40 bp):
TCCTCAAGAAGTAAGACCTATTCCATTCTCTCTTCCTTGG
Found at i:597436 original size:40 final size:42
Alignment explanation
Indices: 597338--597437 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
597328 GACGTACTCT
* * *
597338 TTTTCACTTTATCCTCAAGAAGTAAGACACTTTCCTTTTCTTC
1 TTTTC-CTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
* * *
597381 TCTTCCTTGGTCCTCAAGGAGCAAGAC-CTATTCC-ATTC-TC
1 TTTTCCTTTGTCCTCAAGAAGCAAGACACT-TTCCTATTCTTC
597421 TTTTCCTTTGTCCTCAA
1 TTTTCCTTTGTCCTCAA
597438 AAAGTGGGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
40 17 0.35
41 5 0.10
42 22 0.46
43 4 0.08
ACGTcount: A:0.20, C:0.29, G:0.10, T:0.41
Consensus pattern (42 bp):
TTTTCCTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
Found at i:598086 original size:19 final size:18
Alignment explanation
Indices: 598035--598124 Score: 75
Period size: 19 Copynumber: 5.1 Consensus size: 18
598025 TTGAATTTTA
598035 ATAA-TTTGTATCGATAC
1 ATAAGTTTGTATCGATAC
* *
598052 AAACAGTAAATGTATCGATAC
1 ATA-AGT--TTGTATCGATAC
598073 ATAAGTGTTGTATCGATAC
1 ATAAGT-TTGTATCGATAC
598092 -----TTTGTATCGATAC
1 ATAAGTTTGTATCGATAC
598105 ATAAGTTTTGTATCGATAC
1 ATAAG-TTTGTATCGATAC
598124 A
1 A
598125 ATGTATCGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
13 12 0.21
14 1 0.02
17 2 0.03
18 1 0.02
19 26 0.45
20 3 0.05
21 13 0.22
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
ATAAGTTTGTATCGATAC
Found at i:598098 original size:13 final size:13
Alignment explanation
Indices: 598080--598104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
598070 TACATAAGTG
598080 TTGTATCGATACT
1 TTGTATCGATACT
598093 TTGTATCGATAC
1 TTGTATCGATAC
598105 ATAAGTTTTG
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:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (13 bp):
TTGTATCGATACT
Found at i:598103 original size:32 final size:32
Alignment explanation
Indices: 598060--598141 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 32
598050 ACAAACAGTA
598060 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
** *
598092 TTTGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
598124 AATGTATCGCTACA-AAGT
1 AATGTATCGATACATAAGT
598142 TACTGCCAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 4 0.09
32 40 0.91
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:600626 original size:51 final size:51
Alignment explanation
Indices: 600564--600799 Score: 276
Period size: 51 Copynumber: 4.6 Consensus size: 51
600554 TAAGTTTCTC
* * * *
600564 AATTTTTCATAATCGGAGATACTCAAACCCTGGTTTTATTTCTAAAACACT
1 AATTTTCCACAATCGGGGATACTCAAACCCCGGTTTTATTTCTAAAACACT
* **
600615 AATTTTCCATAATTAGGGATACTCAAACCCCGGTTTTATTTCTAAAACACT
1 AATTTTCCACAATCGGGGATACTCAAACCCCGGTTTTATTTCTAAAACACT
* * * * * *
600666 AATTTTCCACAATCGGGGATACTCTAACTCCGATTTTATTTTTGAAACACC
1 AATTTTCCACAATCGGGGATACTCAAACCCCGGTTTTATTTCTAAAACACT
* * * * *
600717 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTATAATATT
1 AATTTTCCACAATCGGGGATACTCAAACCCCGGTTTTATTTCTAAAACACT
* *
600768 GA-TTTCTCACAATCGGGGATACTCCAACCCCG
1 AATTTTC-CACAATCGGGGATACTCAAACCCCG
600800 TTATTTCCGA
Statistics
Matches: 158, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
50 3 0.02
51 155 0.98
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (51 bp):
AATTTTCCACAATCGGGGATACTCAAACCCCGGTTTTATTTCTAAAACACT
Found at i:600862 original size:79 final size:79
Alignment explanation
Indices: 600731--601105 Score: 514
Period size: 79 Copynumber: 4.8 Consensus size: 79
600721 TTTCACAATC
** *
600731 GGGGATACTCCAACCCCGGTTTTATTTCTATAATATTGATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
600796 CCCGTTATTTCCGA
66 CCCGTTATTTCCGA
* *
600810 GGGGATACTCCAACCTCGACTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
* *
600875 CCCGTCATTTTCGA
66 CCCGTTATTTCCGA
* * * *
600889 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTTTCACAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
600954 CCCGTTATTTCCGA
66 CCCGTTATTTCCGA
*
600968 GGGGATACTCCAACCCCGACTTTATTTCTAAAATATAGATTTCTCACAA------ATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
**
601027 CCCGTTATTTTTGA
66 CCCGTTATTTCCGA
*** *
601041 GGGGATACTCCAACCCCGA-TTCTATTTCTAAAATACCAAATTT-TCACAATCGGGGATACGCCA
1 GGGGATACTCCAACCCCGACTT-TATTTCTAAAATA-TTGATTTCTCACAATCGGGGATACTCCA
601104 AC
64 AC
601106 TCCGATTTTA
Statistics
Matches: 266, Mismatches: 22, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
72 2 0.01
73 60 0.23
74 5 0.02
79 199 0.75
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
CCCGTTATTTCCGA
Found at i:601105 original size:51 final size:51
Alignment explanation
Indices: 601041--601160 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 51
601031 TTATTTTTGA
* *
601041 GGGGATACTCCAACCCCGATTCTATTTCTAAAATACCAAATTT-TCACAATC
1 GGGGATACTCCAACCCCGATTCTATTTCCAAAACACC-AATTTCTCACAATC
* * * * *
601092 GGGGATACGCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCATAATT
1 GGGGATACTCCAACCCCGATTCTATTTCCAAAACACCAATTTCTCACAATC
*
601143 GGGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCG
601161 TTATTTCCGA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 5 0.09
51 53 0.91
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTCTATTTCCAAAACACCAATTTCTCACAATC
Done.