Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 5 of 91
Found at i:587587 original size:11 final size:11
Alignment explanation
Indices: 587567--587617 Score: 63
Period size: 10 Copynumber: 4.9 Consensus size: 11
587557 TTATTGATGA
587567 TTAT-AAAATT
1 TTATCAAAATT
587577 TTATCAAAA-T
1 TTATCAAAATT
587587 TTATCAAAATT
1 TTATCAAAATT
* *
587598 TTCTCAAAA-A
1 TTATCAAAATT
587608 TTATCAAAAT
1 TTATCAAAAT
587618 GTATAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 22 0.63
11 13 0.37
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (11 bp):
TTATCAAAATT
Found at i:587595 original size:21 final size:21
Alignment explanation
Indices: 587566--587740 Score: 87
Period size: 21 Copynumber: 8.5 Consensus size: 21
587556 TTTATTGATG
587566 ATTAT-AAAATTTTATCAAAA
1 ATTATCAAAATTTTATCAAAA
* *
587586 TTTATCAAAATTTTCTCAAAA
1 ATTATCAAAATTTTATCAAAA
* *
587607 ATTATCAAAA-TGTATAAAAA
1 ATTATCAAAATTTTATCAAAA
* * ** *
587627 ATTA-CTAGAATTGTATTTAAG
1 ATTATC-AAAATTTTATCAAAA
*
587648 ATTACCAAAATTACTT-T-AAAA
1 ATTATCAAAATT--TTATCAAAA
* * *
587669 GTTACCAAAATTATATC-AAA
1 ATTATCAAAATTTTATCAAAA
* *
587689 CTTA-CTAAAATTTTATCAAAT
1 ATTATC-AAAATTTTATCAAAA
* * * *
587710 GTTACCAAAATTATATC-ATA
1 ATTATCAAAATTTTATCAAAA
587730 ATTATCAAAAT
1 ATTATCAAAAT
587741 AGAAATAAAG
Statistics
Matches: 119, Mismatches: 25, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
19 3 0.03
20 45 0.38
21 67 0.56
22 3 0.03
23 1 0.01
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (21 bp):
ATTATCAAAATTTTATCAAAA
Found at i:587698 original size:20 final size:21
Alignment explanation
Indices: 587670--587727 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
587660 ACTTTAAAAG
587670 TTACCAAAATTATATCAAA-C
1 TTACCAAAATTATATCAAATC
* * *
587690 TTACTAAAATTTTATCAAATG
1 TTACCAAAATTATATCAAATC
587711 TTACCAAAATTATATCA
1 TTACCAAAATTATATCA
587728 TAATTATCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.36
Consensus pattern (21 bp):
TTACCAAAATTATATCAAATC
Found at i:587699 original size:41 final size:41
Alignment explanation
Indices: 587649--587740 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 41
587639 GTATTTAAGA
587649 TTACCAAAATTACTT-T-AAAAGTTACCAAAATTATATCAAAC
1 TTACCAAAATT--TTATCAAAAGTTACCAAAATTATATCAAAC
* *
587690 TTACTAAAATTTTATCAAATGTTACCAAAATTATATCATAA-
1 TTACCAAAATTTTATCAAAAGTTACCAAAATTATATCA-AAC
*
587731 TTATCAAAAT
1 TTACCAAAAT
587741 AGAAATAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
39 2 0.05
40 1 0.02
41 39 0.89
42 2 0.05
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (41 bp):
TTACCAAAATTTTATCAAAAGTTACCAAAATTATATCAAAC
Found at i:587740 original size:20 final size:19
Alignment explanation
Indices: 587674--587740 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 19
587664 TAAAAGTTAC
587674 CAAAATTATATCAAACTTA
1 CAAAATTATATCAAACTTA
* *
587693 CTAAAATTTTATCAAATGTTA
1 C-AAAATTATATCAAA-CTTA
587714 CCAAAATTATATCATAA-TTA
1 -CAAAATTATATCA-AACTTA
587734 TCAAAAT
1 -CAAAAT
587741 AGAAATAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.03
20 22 0.55
21 14 0.35
22 3 0.08
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.36
Consensus pattern (19 bp):
CAAAATTATATCAAACTTA
Found at i:587781 original size:21 final size:21
Alignment explanation
Indices: 587628--587783 Score: 54
Period size: 21 Copynumber: 7.5 Consensus size: 21
587618 GTATAAAAAA
* * *
587628 TTACTAGAATTGTATTTAAGA
1 TTACTAAAATTGTATTAAAGG
* * *
587649 TTACCAAAATTACT-TTAAAAG
1 TTACTAAAATT-GTATTAAAGG
* * * *
587670 TTACCAAAATTATATCAAA-C
1 TTACTAAAATTGTATTAAAGG
* * *
587690 TTACTAAAATTTTATCAAATG
1 TTACTAAAATTGTATTAAAGG
* * *
587711 TTACCAAAATTATATCATAA--
1 TTACTAAAATTGTATTA-AAGG
* * *
587731 TTA-TCAAAATAGAAATAAAGG
1 TTACT-AAAATTGTATTAAAGG
*
587752 TCA-TCAAAATTGTATTAAAGG
1 TTACT-AAAATTGTATTAAAGG
587773 TTACTAAAATT
1 TTACTAAAATT
587784 TTACAAATTG
Statistics
Matches: 102, Mismatches: 25, Indels: 16
0.71 0.17 0.11
Matches are distributed among these distances:
19 2 0.02
20 28 0.27
21 68 0.67
22 4 0.04
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (21 bp):
TTACTAAAATTGTATTAAAGG
Found at i:587856 original size:84 final size:82
Alignment explanation
Indices: 587690--587867 Score: 218
Period size: 84 Copynumber: 2.1 Consensus size: 82
587680 TATATCAAAC
* * * * *
587690 TTACTAAAATTTTATCAAATGTTACCAAAATTATATCATAATTATCAAAATAGAAATAAAGGTCA
1 TTACTAAAATTTTATCAAATGTTACCAAAATTATATAAAAATTACCAAAATAGAAACAAA-GTAA
*
587755 TCAAAATTGTATTAAAGG
65 TCAAAATTGTATAAAAGG
*
587773 TTACTAAAATTTTA-CAAATTGTTACCAAAATGCTAT-TAAAAATTACCAAAAGTATATAACAAA
1 TTACTAAAATTTTATCAAA-TGTTACCAAAAT--TATATAAAAATTACCAAAA-TAGA-AACAAA
587836 -TAATCAAAATTGTATAAAAGG
61 GTAATCAAAATTGTATAAAAGG
587857 TTACTAAAATT
1 TTACTAAAATT
587868 ACATCAGTAG
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
82 4 0.05
83 26 0.31
84 42 0.51
85 6 0.07
86 5 0.06
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.33
Consensus pattern (82 bp):
TTACTAAAATTTTATCAAATGTTACCAAAATTATATAAAAATTACCAAAATAGAAACAAAGTAAT
CAAAATTGTATAAAAGG
Found at i:587943 original size:19 final size:20
Alignment explanation
Indices: 587898--587946 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
587888 TTTTATCAAA
587898 AGTTACCAAAACATATTAAT
1 AGTTACCAAAACATATTAAT
*
587918 AGTTACCAAAAC-TATATCAT
1 AGTTACCAAAACATAT-TAAT
587938 -GTTACCAAA
1 AGTTACCAAA
587947 CTAATACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (20 bp):
AGTTACCAAAACATATTAAT
Found at i:588078 original size:10 final size:10
Alignment explanation
Indices: 588065--588116 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
588055 AATTGTACAA
*
588065 AAAAATTATC
1 AAAATTTATC
588075 AAAATTATATC
1 AAAATT-TATC
*
588086 ATAATTTATC
1 AAAATTTATC
*
588096 ATAATTTATC
1 AAAATTTATC
*
588106 ATAATTGTATC
1 AAAATT-TATC
588117 TGAGATTACC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
10 25 0.66
11 13 0.34
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (10 bp):
AAAATTTATC
Found at i:588096 original size:21 final size:20
Alignment explanation
Indices: 588070--588116 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
588060 TACAAAAAAA
588070 TTATCAAAATTATATCATAAT
1 TTATCAAAATT-TATCATAAT
*
588091 TTATCATAATTTATCATAAT
1 TTATCAAAATTTATCATAAT
588111 TGTATC
1 T-TATC
588117 TGAGATTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (20 bp):
TTATCAAAATTTATCATAAT
Found at i:588132 original size:21 final size:22
Alignment explanation
Indices: 588108--588194 Score: 62
Period size: 21 Copynumber: 4.2 Consensus size: 22
588098 AATTTATCAT
*
588108 AATTGTATCT-GAGATTACCAA
1 AATTGTATCTAAAGATTACCAA
*
588129 AATTGTAT-TAAAGGTTACCAA
1 AATTGTATCTAAAGATTACCAA
* * *
588150 AATTATATC-AAA-CTTACTAA
1 AATTGTATCTAAAGATTACCAA
588170 AAGTT-TAT-TAAATG-TTACCAA
1 AA-TTGTATCTAAA-GATTACCAA
588191 AATT
1 AATT
588195 ATATAAATAG
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
20 17 0.31
21 37 0.69
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (22 bp):
AATTGTATCTAAAGATTACCAA
Found at i:588207 original size:21 final size:21
Alignment explanation
Indices: 588122--588217 Score: 83
Period size: 21 Copynumber: 4.6 Consensus size: 21
588112 GTATCTGAGA
* *
588122 TTACCAAAATTGTATTAAAGG
1 TTACCAAAATTATATTAAAAG
* *
588143 TTACCAAAATTATA-TCAAAC
1 TTACCAAAATTATATTAAAAG
* *
588163 TTACTAAAAGTT-TATTAAATG
1 TTACCAAAA-TTATATTAAAAG
588184 TTACCAAAATTATA-TAAATAG
1 TTACCAAAATTATATTAAA-AG
588205 TTAGCC-AAATTAT
1 TTA-CCAAAATTAT
588218 GTCGTAAGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
20 19 0.32
21 39 0.65
22 2 0.03
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.35
Consensus pattern (21 bp):
TTACCAAAATTATATTAAAAG
Found at i:588575 original size:21 final size:20
Alignment explanation
Indices: 588551--588639 Score: 83
Period size: 21 Copynumber: 4.3 Consensus size: 20
588541 TAACGGTTAT
588551 CAAAATTATATCATAAACTAC
1 CAAAATTATATCA-AAACTAC
*
588572 CAAAATTATATTAAAACCTAC
1 CAAAATTATATCAAAA-CTAC
588593 C-AAATTATATC-AAACTTAC
1 CAAAATTATATCAAAAC-TAC
* * * *
588612 TAAAATTTTATTAAAAATTAC
1 CAAAATTATA-TCAAAACTAC
588633 CAAAATT
1 CAAAATT
588640 GTCTTAATGA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
18 1 0.02
19 6 0.11
20 19 0.34
21 27 0.48
22 3 0.05
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.33
Consensus pattern (20 bp):
CAAAATTATATCAAAACTAC
Found at i:588624 original size:40 final size:40
Alignment explanation
Indices: 588553--588636 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
588543 ACGGTTATCA
*
588553 AAATTATATCATAAACTACCAAAATTATATTAAAACCTACC
1 AAATTATATCA-AAACTACCAAAATTATATTAAAAACTACC
* * *
588594 AAATTATATC-AAACTTACTAAAATTTTATTAAAAATTACC
1 AAATTATATCAAAAC-TACCAAAATTATATTAAAAACTACC
588634 AAA
1 AAA
588637 ATTGTCTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 4 0.11
40 24 0.63
41 10 0.26
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.32
Consensus pattern (40 bp):
AAATTATATCAAAACTACCAAAATTATATTAAAAACTACC
Found at i:595319 original size:17 final size:17
Alignment explanation
Indices: 595294--595407 Score: 117
Period size: 17 Copynumber: 6.7 Consensus size: 17
595284 CTGTTGCAAC
*
595294 TTGCAAACCATGTTTTG
1 TTGCAAACCATGTTCTG
* *
595311 TTACAAACCATGTGCTG
1 TTGCAAACCATGTTCTG
* *
595328 TTTTCGAAACCATGTTCTA
1 -TTGC-AAACCATGTTCTG
*
595347 TTGCAAACCATGTGCTG
1 TTGCAAACCATGTTCTG
595364 TT-CGAAACCATGTTCTG
1 TTGC-AAACCATGTTCTG
*
595381 TTGCAAACCATGTGC--
1 TTGCAAACCATGTTCTG
595396 TTGCAAACCATG
1 TTGCAAACCATG
595408 GGAGGGGTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
15 12 0.15
16 1 0.01
17 51 0.62
18 7 0.09
19 11 0.13
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (17 bp):
TTGCAAACCATGTTCTG
Found at i:595356 original size:53 final size:49
Alignment explanation
Indices: 595293--595407 Score: 133
Period size: 53 Copynumber: 2.3 Consensus size: 49
595283 TCTGTTGCAA
** * *
595293 CTTGCAAACCATGTTTTGTTAC-AAACCATGTGCTGTTTTCGAAACCATGTT
1 CTTGCAAACCATGTGCTGTT-CGAAACCATGTGCTG-TTGC-AAACCATGTG
*
595344 CTATTGCAAACCATGTGCTGTTCGAAACCATGTTCTGTTGCAAACCATGTG
1 C--TTGCAAACCATGTGCTGTTCGAAACCATGTGCTGTTGCAAACCATGTG
595395 CTTGCAAACCATG
1 CTTGCAAACCATG
595408 GGAGGGGTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
49 12 0.21
51 11 0.20
52 4 0.07
53 29 0.52
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (49 bp):
CTTGCAAACCATGTGCTGTTCGAAACCATGTGCTGTTGCAAACCATGTG
Found at i:595373 original size:34 final size:35
Alignment explanation
Indices: 595298--595396 Score: 155
Period size: 34 Copynumber: 2.8 Consensus size: 35
595288 TGCAACTTGC
* *
595298 AAACCATGTTTTGTTACAAACCATGTGCTGTTTTCG
1 AAACCATGTTCTGTTGCAAACCATGTGCTG-TTTCG
*
595334 AAACCATGTTCTATTGCAAACCATGTGCTG-TTCG
1 AAACCATGTTCTGTTGCAAACCATGTGCTGTTTCG
595368 AAACCATGTTCTGTTGCAAACCATGTGCT
1 AAACCATGTTCTGTTGCAAACCATGTGCT
595397 TGCAAACCAT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
34 32 0.54
36 27 0.46
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (35 bp):
AAACCATGTTCTGTTGCAAACCATGTGCTGTTTCG
Found at i:597719 original size:21 final size:21
Alignment explanation
Indices: 597690--597758 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
597680 CAAAAATAAT
597690 CAAAA-TGTATAAAAGATTAC
1 CAAAATTGTATAAAAGATTAC
* **
597710 CAGAATTGTATCTAAGATTAC
1 CAAAATTGTATAAAAGATTAC
**
597731 CAAAATTCCATTAAAAG-TTAC
1 CAAAATTGTA-TAAAAGATTAC
597752 CAAAATT
1 CAAAATT
597759 ATATCAAACT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
20 4 0.10
21 31 0.79
22 4 0.10
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (21 bp):
CAAAATTGTATAAAAGATTAC
Found at i:597813 original size:21 final size:20
Alignment explanation
Indices: 597742--597824 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 20
597732 AAAATTCCAT
*
597742 TAAAAGTTACCAAAATTATA
1 TAAAAGTTACTAAAATTATA
* * * * *
597762 TCAAACTTACTAAACTTTTG
1 TAAAAGTTACTAAAATTATA
*
597782 TCCAATA-TTACTAAAATTATA
1 T--AAAAGTTACTAAAATTATA
597803 TAAATAGTTACTAAAATTATA
1 TAAA-AGTTACTAAAATTATA
597824 T
1 T
597825 CATAATTATC
Statistics
Matches: 47, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.04
20 16 0.34
21 27 0.57
22 2 0.04
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (20 bp):
TAAAAGTTACTAAAATTATA
Found at i:597880 original size:21 final size:21
Alignment explanation
Indices: 597856--597966 Score: 59
Period size: 21 Copynumber: 5.3 Consensus size: 21
597846 AGAGGTCATC
597856 AAAATTGTATTAAAGGTTACT
1 AAAATTGTATTAAAGGTTACT
* ** **
597877 AAAATTTTACGAATTGTTACT
1 AAAATTGTATTAAAGGTTACT
* *
597898 AAAA-TGCTATTAAAGATTACC
1 AAAATTG-TATTAAAGGTTACT
* *
597919 AAAA--GTATATAATAAGCTA-T
1 AAAATTGTAT-TAA-AGGTTACT
* *
597939 CAAAATTGTATGAAAGGTTACC
1 -AAAATTGTATTAAAGGTTACT
597961 AAAATT
1 AAAATT
597967 ACATCAATAA
Statistics
Matches: 63, Mismatches: 20, Indels: 14
0.65 0.21 0.14
Matches are distributed among these distances:
19 3 0.05
20 5 0.08
21 49 0.78
22 2 0.03
23 4 0.06
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (21 bp):
AAAATTGTATTAAAGGTTACT
Found at i:598165 original size:11 final size:11
Alignment explanation
Indices: 598149--598190 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
598139 AGTTACCATA
*
598149 ATCAAAATTGT
1 ATCAAAATTGC
*
598160 ATCAAAATTAC
1 ATCAAAATTGC
*
598171 ATCAAAACT-C
1 ATCAAAATTGC
598181 ATCAAAATTG
1 ATCAAAATTG
598191 TATCTAAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.29
Consensus pattern (11 bp):
ATCAAAATTGC
Found at i:598229 original size:21 final size:21
Alignment explanation
Indices: 598205--598354 Score: 94
Period size: 21 Copynumber: 7.3 Consensus size: 21
598195 TAAGATTACT
*
598205 AAAATTGTATTAAAGGTTATC
1 AAAATTATATTAAAGGTTATC
* * *
598226 AAAATTAAATCAAA-CTTAT-
1 AAAATTATATTAAAGGTTATC
* * *
598245 AAAATTTTATTAAATGTTACC
1 AAAATTATATTAAAGGTTATC
* *
598266 AAAATTATA-TAAATAGTTACC
1 AAAATTATATTAAA-GGTTATC
* ** *
598287 CAAATTATATCGAA-GTTATT
1 AAAATTATATTAAAGGTTATC
* *
598307 AAAA-TAGAAGTAAAGGTTATC
1 AAAATTA-TATTAAAGGTTATC
* *
598328 AAAATTATATTAGAGGTTATT
1 AAAATTATATTAAAGGTTATC
598349 AAAATT
1 AAAATT
598355 TTACGAATTG
Statistics
Matches: 96, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
19 13 0.14
20 21 0.22
21 58 0.60
22 4 0.04
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (21 bp):
AAAATTATATTAAAGGTTATC
Found at i:598462 original size:21 final size:21
Alignment explanation
Indices: 598438--598481 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
598428 AATGATTATC
* *
598438 AAATTGTATCGAAA-GTTGCCA
1 AAATAGTATC-AAACGTTACCA
598459 AAATAGTATCAAACGTTACCA
1 AAATAGTATCAAACGTTACCA
598480 AA
1 AA
598482 TTTTATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (21 bp):
AAATAGTATCAAACGTTACCA
Found at i:598731 original size:83 final size:84
Alignment explanation
Indices: 598566--598735 Score: 211
Period size: 83 Copynumber: 2.0 Consensus size: 84
598556 AAAGGTTATC
* * * *
598566 AATTATATCAAAACTTACTAAAATTATATTCAAGATTACCAAAATTGTATTAAGGGCTATCAAAA
1 AATTATATCAAAACTTACTAAAATTATATTAAAAATTACCAAAATTGTATTAAGAGCTACCAAAA
* *
598631 TTATATTATAAAGTACCAA
66 TCATATAATAAAGTACCAA
* * *
598650 AATTATATC-AAACTTACTAAAATTTTATTAAAAATTACCAAAATTGTCTTAATGAG-TACCTAA
1 AATTATATCAAAACTTACTAAAATTATATTAAAAATTACCAAAATTGTATTAA-GAGCTACCAAA
*
598713 GTCATATAAT-AAGTTACCAA
65 ATCATATAATAAAG-TACCAA
598733 AAT
1 AAT
598736 AGAATTAAAG
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
82 3 0.04
83 60 0.81
84 11 0.15
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.34
Consensus pattern (84 bp):
AATTATATCAAAACTTACTAAAATTATATTAAAAATTACCAAAATTGTATTAAGAGCTACCAAAA
TCATATAATAAAGTACCAA
Found at i:598778 original size:21 final size:21
Alignment explanation
Indices: 598566--598778 Score: 103
Period size: 21 Copynumber: 10.2 Consensus size: 21
598556 AAAGGTTATC
* *
598566 AATTATATCAAA-ACTTACTAA
1 AATTATATTAAAGA-TTACCAA
*
598587 AATTATATTCAAGATTACCAA
1 AATTATATTAAAGATTACCAA
* * ** *
598608 AATTGTATTAAGGGCTATCAA
1 AATTATATTAAAGATTACCAA
*
598629 AATTATATTATAA-AGTACCAA
1 AATTATATTA-AAGATTACCAA
* * *
598650 AATTATATCAAA-CTTACTAA
1 AATTATATTAAAGATTACCAA
* *
598670 AATTTTATTAAAAATTACCAA
1 AATTATATTAAAGATTACCAA
* * * * *
598691 AATTGTCTTAATGAGTACCTA
1 AATTATATTAAAGATTACCAA
* * *
598712 AGTCATATAATAAG-TTACCAA
1 AATTATATTA-AAGATTACCAA
* * **
598733 AA-TAGAATTAAAGGTTATGAA
1 AATTA-TATTAAAGATTACCAA
* *
598754 AATTGTATTAAAGATTATCAA
1 AATTATATTAAAGATTACCAA
598775 AATT
1 AATT
598779 TTATCAAATG
Statistics
Matches: 139, Mismatches: 46, Indels: 14
0.70 0.23 0.07
Matches are distributed among these distances:
20 21 0.15
21 113 0.81
22 5 0.04
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.34
Consensus pattern (21 bp):
AATTATATTAAAGATTACCAA
Found at i:598792 original size:21 final size:20
Alignment explanation
Indices: 598723--598796 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
598713 GTCATATAAT
* * * *
598723 AAGTTACCAAAATAGAATTA
1 AAGTTATCAAAATTGTATCA
* *
598743 AAGGTTATGAAAATTGTATTA
1 AA-GTTATCAAAATTGTATCA
*
598764 AAGATTATCAAAATTTTATCA
1 AAG-TTATCAAAATTGTATCA
598785 AATGTTATCAAA
1 AA-GTTATCAAA
598797 GTTCTAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.07
21 40 0.91
22 1 0.02
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.34
Consensus pattern (20 bp):
AAGTTATCAAAATTGTATCA
Found at i:607130 original size:3 final size:3
Alignment explanation
Indices: 607122--607146 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
607112 TTGAAGTCTC
607122 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
607147 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:610303 original size:21 final size:23
Alignment explanation
Indices: 610265--610311 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
610255 CGTGATAATT
610265 TAAAATATGAAATGATAATAAAA
1 TAAAATATGAAATGATAATAAAA
*
610288 TAAAA-AT-AAATTATAATAAAA
1 TAAAATATGAAATGATAATAAAA
610309 TAA
1 TAA
610312 TAAAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
22 2 0.09
23 5 0.22
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (23 bp):
TAAAATATGAAATGATAATAAAA
Found at i:610427 original size:12 final size:12
Alignment explanation
Indices: 610390--610433 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
610380 TATTTTTATA
610390 TTAATATAAATT
1 TTAATATAAATT
* *
610402 ATGATATAAAATT
1 TTAATAT-AAATT
*
610415 TTTATATAAATT
1 TTAATATAAATT
610427 TTAATAT
1 TTAATAT
610434 TTTATATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (12 bp):
TTAATATAAATT
Found at i:625839 original size:47 final size:47
Alignment explanation
Indices: 625763--625854 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
625753 TAAACTAGCG
625763 TAACTCCAGGATAGCCAAACTCTTAATGATTCAA-TTTAGTTGGTACA
1 TAACTCCAGGATAGCCAAACTCTTAATGATT-AATTTTAGTTGGTACA
*
625810 TAACTCCAGGATAGCCAAACTCATT-ATGATTAATTTTGGTTGGTA
1 TAACTCCAGGATAGCCAAACTC-TTAATGATTAATTTTAGTTGGTA
625855 TATGGAGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
46 2 0.05
47 38 0.90
48 2 0.05
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (47 bp):
TAACTCCAGGATAGCCAAACTCTTAATGATTAATTTTAGTTGGTACA
Found at i:632738 original size:2 final size:2
Alignment explanation
Indices: 632731--632757 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
632721 TCATTGATTT
632731 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 T
632758 TTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:634668 original size:22 final size:21
Alignment explanation
Indices: 634633--634706 Score: 58
Period size: 22 Copynumber: 3.4 Consensus size: 21
634623 AAATTTATTG
* * *
634633 CTGATTGATAACTAAGTCATCA
1 CTGATTTATTACTAA-TAATCA
*
634655 CTGATTTATTACTATATTATCA
1 CTGATTTATTACTA-ATAATCA
* *
634677 GTGATTTATTATTAAATAATCA
1 CTGATTTATTACT-AATAATCA
*
634699 ATGATTTA
1 CTGATTTA
634707 CTATTAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 41 0.95
23 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (21 bp):
CTGATTTATTACTAATAATCA
Found at i:634711 original size:22 final size:22
Alignment explanation
Indices: 634651--634748 Score: 97
Period size: 22 Copynumber: 4.5 Consensus size: 22
634641 TAACTAAGTC
* * * *
634651 ATCACTGATTTATTACTATATT
1 ATCAATGATTTACTATTAAATT
* * *
634673 ATCAGTGATTTATTATTAAATA
1 ATCAATGATTTACTATTAAATT
634695 ATCAATGATTTACTATTAAATT
1 ATCAATGATTTACTATTAAATT
* * **
634717 ATGAATAATTTACTAGAAAATT
1 ATCAATGATTTACTATTAAATT
634739 ATCAATGATT
1 ATCAATGATT
634749 AATTAATTTA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 63 1.00
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (22 bp):
ATCAATGATTTACTATTAAATT
Found at i:634790 original size:52 final size:52
Alignment explanation
Indices: 634702--634805 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
634692 ATAATCAATG
* * * *
634702 ATTTACTATTAAATTATGAATAATTTACTAGAAAATTATCAA-TGATTAATTA
1 ATTTACTATTAAATTATCAATAATATACAACAAAATTAT-AAGTGATTAATTA
* * *
634754 ATTTACTATTAAATTATCATTAATATACAACTAAATTGTAAGTGATTAATTA
1 ATTTACTATTAAATTATCAATAATATACAACAAAATTATAAGTGATTAATTA
634806 GTATGTTATT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 2 0.05
52 42 0.95
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (52 bp):
ATTTACTATTAAATTATCAATAATATACAACAAAATTATAAGTGATTAATTA
Found at i:634853 original size:42 final size:44
Alignment explanation
Indices: 634783--634869 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 44
634773 TTAATATACA
* *
634783 ACTAAATTGTAAGTGATTAATTAGTATGTTATTAGTG-ATTTACT
1 ACTAAATTGTAAGTGATTAACTACTATGTTATTA-TGCATTTACT
*
634827 ACTAAATT-TAA-TGATTTACTACTATGTTATTATGCATTTACT
1 ACTAAATTGTAAGTGATTAACTACTATGTTATTATGCATTTACT
634869 A
1 A
634870 ATTACCATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
41 2 0.05
42 26 0.67
43 3 0.08
44 8 0.21
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.46
Consensus pattern (44 bp):
ACTAAATTGTAAGTGATTAACTACTATGTTATTATGCATTTACT
Found at i:635012 original size:22 final size:21
Alignment explanation
Indices: 634964--635014 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
634954 ATTAATTTAT
* *
634964 TAATAAATTAATAGTAAATCA
1 TAATAACTTAATACTAAATCA
*
634985 TAAATAACTTAATACTAATTCAA
1 T-AATAACTTAATACTAAATC-A
635008 TAATAAC
1 TAATAAC
635015 ATCATTGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.88
23 2 0.08
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (21 bp):
TAATAACTTAATACTAAATCA
Found at i:635227 original size:22 final size:22
Alignment explanation
Indices: 635202--635534 Score: 144
Period size: 22 Copynumber: 14.8 Consensus size: 22
635192 TATTACTATC
* *
635202 TTATTACTAATTTACAACTAAA
1 TTATTAATAATTTACTACTAAA
* * *
635224 TTATTATTATTTTA-TCACTAAG
1 TTATTAATAATTTACT-ACTAAA
* *
635246 TTA-TAGATAATTTACTATTAAG
1 TTATTA-ATAATTTACTACTAAA
*
635268 TTATAAATAATTTACTACTAAA
1 TTATTAATAATTTACTACTAAA
* * *
635290 TTATTGATAATTTACTATTAAG
1 TTATTAATAATTTACTACTAAA
*
635312 TTA-TAGATAATTTATTA-TAAA
1 TTATTA-ATAATTTACTACTAAA
* * *
635333 GTTATTACTAATTTACT-GTGAAG
1 -TTATTAATAATTTACTACT-AAA
* *
635356 TTATTTATGATTTACTA-TGAAA
1 TTATTAATAATTTACTACT-AAA
* *
635378 TTATTAATAATTAACTAATTTACAA
1 TTATTAATAATTTACT-A-CTA-AA
* *
635403 TTAAATCATCATTAATTTA-TAATTAAA
1 TT--AT--T-AATAATTTACT-ACTAAA
* * *
635430 TTATCACTAATTTA-TAGCTAAG
1 TTATTAATAATTTACTA-CTAAA
* * **
635452 TTATCAATGATTTACTA-TGACG
1 TTATTAATAATTTACTACT-AAA
* *
635474 TTATTCATGATTTACTACTAAA
1 TTATTAATAATTTACTACTAAA
*
635496 TTATTAATAATTTACTATTAAA
1 TTATTAATAATTTACTACTAAA
** *
635518 TTACCAATGATTTACTA
1 TTATTAATAATTTACTA
635535 TATAATATTA
Statistics
Matches: 242, Mismatches: 46, Indels: 46
0.72 0.14 0.14
Matches are distributed among these distances:
21 8 0.03
22 196 0.81
23 10 0.04
24 1 0.00
25 7 0.03
27 6 0.02
28 3 0.01
29 4 0.02
30 7 0.03
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (22 bp):
TTATTAATAATTTACTACTAAA
Found at i:635244 original size:33 final size:33
Alignment explanation
Indices: 635192--635294 Score: 82
Period size: 33 Copynumber: 3.1 Consensus size: 33
635182 ATCAATTACA
* *
635192 TATTACTATCTTATTACTAATTTACAACTAAAT
1 TATTATTATCTTATAACTAATTTACAACTAAAT
* * * * *
635225 TATTATTATTTTATCACTAAGTTATAGA-TAATT
1 TATTATTATCTTATAACTAATTTACA-ACTAAAT
* ** * *
635258 TACTATTAAGTTATAAATAATTTACTACTAAAT
1 TATTATTATCTTATAACTAATTTACAACTAAAT
635291 TATT
1 TATT
635295 GATAATTTAC
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
32 1 0.02
33 50 0.96
34 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.48
Consensus pattern (33 bp):
TATTATTATCTTATAACTAATTTACAACTAAAT
Found at i:635349 original size:66 final size:66
Alignment explanation
Indices: 635202--635349 Score: 201
Period size: 66 Copynumber: 2.2 Consensus size: 66
635192 TATTACTATC
* * *
635202 TTATTACTAATTTACAACTAAATTATTATTATTTTATCACTAAGTTATAGATAATTTACTATTAA
1 TTATTACTAATTTACTACTAAATTATTATTAATTTATCACTAAGTTATAGATAATTTACTATAAA
635267 G
66 G
* * * *
635268 TTATAAATAATTTACTACTAAATTATTGA-TAATTTA-CTATTAAGTTATAGATAATTTATTATA
1 TTATTACTAATTTACTACTAAATTATT-ATTAATTTATC-ACTAAGTTATAGATAATTTACTATA
635331 AAG
64 AAG
635334 TTATTACTAATTTACT
1 TTATTACTAATTTACT
635350 GTGAAGTTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
65 1 0.01
66 69 0.97
67 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (66 bp):
TTATTACTAATTTACTACTAAATTATTATTAATTTATCACTAAGTTATAGATAATTTACTATAAA
G
Found at i:635369 original size:44 final size:42
Alignment explanation
Indices: 635252--635394 Score: 160
Period size: 44 Copynumber: 3.3 Consensus size: 42
635242 TAAGTTATAG
635252 ATAATTTACTATTAAGTTATAAATAATTTACTACTAAATTATT
1 ATAATTTACTATTAAGTTATAAATAATTTACTA-TAAATTATT
* *
635295 GATAATTTACTATTAAGTTATAGATAATTTATTATAAAGTTATT
1 -ATAATTTACTATTAAGTTATAAATAATTTACTATAAA-TTATT
* * ** *
635339 ACTAATTTACTGTGAAGTTATTTATGATTTACTATGAAATTATT
1 A-TAATTTACTATTAAGTTATAAATAATTTACTAT-AAATTATT
*
635383 AATAATTAACTA
1 -ATAATTTACTA
635395 ATTTACAATT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
43 5 0.06
44 76 0.89
45 4 0.05
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (42 bp):
ATAATTTACTATTAAGTTATAAATAATTTACTATAAATTATT
Found at i:635388 original size:66 final size:66
Alignment explanation
Indices: 635246--635394 Score: 167
Period size: 66 Copynumber: 2.3 Consensus size: 66
635236 TATCACTAAG
* *
635246 TTATAGATAATTTACTATTAAGTTATAAATAATTTACTACTAAATTATTGATAATTTACTATTAA
1 TTATAGATAATTTACTATAAAGTTATAAATAATTTACTACTAAATTATTGATAATTTACTATGAA
*
635311 G
66 A
* * * * * * *
635312 TTATAGATAATTTATTATAAAGTTATTACTAATTTACT-GTGAAGTTATTTATGATTTACTATGA
1 TTATAGATAATTTACTATAAAGTTATAAATAATTTACTACT-AAATTATTGATAATTTACTATGA
635376 AA
65 AA
*
635378 TTATTA-ATAATTAACTA
1 TTA-TAGATAATTTACTA
635395 ATTTACAATT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
65 1 0.01
66 66 0.96
67 2 0.03
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (66 bp):
TTATAGATAATTTACTATAAAGTTATAAATAATTTACTACTAAATTATTGATAATTTACTATGAA
A
Found at i:635408 original size:118 final size:117
Alignment explanation
Indices: 635275--635512 Score: 261
Period size: 118 Copynumber: 2.0 Consensus size: 117
635265 AAGTTATAAA
* * * *
635275 TAATTTACTACTAAATTATTGA-TAATTTACT-ATTAAGTTAT-AGATAATTTATTA-TAAAGTT
1 TAATTTACAACTAAATCA-TCATTAATTTA-TAATTAAATTATCA-ATAATTTA-TACT-AAGTT
* * * *
635336 ATTACTAATTTACTGTGAAGTTATTTATGATTTACTA-TGAAATTATTAATAATTAAC
61 ATCAATAATTTACTATGAAGTTATTCATGATTTACTACT-AAATTATTAATAATTAAC
* *
635393 TAATTTACAATTAAATCATCATTAATTTATAATTAAATTATCACTAATTTATAGCTAAGTTATCA
1 TAATTTACAACTAAATCATCATTAATTTATAATTAAATTATCAATAATTTATA-CTAAGTTATCA
* * *
635458 ATGATTTACTATGACGTTATTCATGATTTACTACTAAATTATTAATAATTTAC
65 ATAATTTACTATGAAGTTATTCATGATTTACTACTAAATTATTAATAATTAAC
635511 TA
1 TA
635513 TTAAATTACC
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
117 5 0.05
118 93 0.92
119 3 0.03
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (117 bp):
TAATTTACAACTAAATCATCATTAATTTATAATTAAATTATCAATAATTTATACTAAGTTATCAA
TAATTTACTATGAAGTTATTCATGATTTACTACTAAATTATTAATAATTAAC
Found at i:635776 original size:14 final size:14
Alignment explanation
Indices: 635757--635790 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
635747 TTACTATTAA
635757 ATTATTATGTA-ATT
1 ATTATTAT-TATATT
635771 ATTATTATTATATT
1 ATTATTATTATATT
635785 ATTATT
1 ATTATT
635791 GATTTACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 17 0.89
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
ATTATTATTATATT
Found at i:635808 original size:69 final size:67
Alignment explanation
Indices: 635679--635833 Score: 192
Period size: 69 Copynumber: 2.3 Consensus size: 67
635669 ATTAAAACAA
* * *
635679 ATTTACTATTAAATTATCA-GTAACTTATTACTATACTATTATGCATTTATAATTATGTTAT-AA
1 ATTTACTATTAAATTATTATGTAAATTATTACTATACTATTATGCATTTATAATTAAGTTATCAA
635742 TT
66 TT
* *
635744 GATTTACTATTAAATTATTATGTAATTATTATTATTATATTATTATTG-ATTTACT-ATTAAGTT
1 -ATTTACTATTAAATTATTATGTAA--ATTATTACTATACTATTA-TGCATTTA-TAATTAAGTT
635807 ATCAATT
61 ATCAATT
635814 ATTTACTATTAAATTATTAT
1 ATTTACTATTAAATTATTAT
635834 CAATATACTA
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
66 18 0.23
67 4 0.05
69 49 0.63
70 7 0.09
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (67 bp):
ATTTACTATTAAATTATTATGTAAATTATTACTATACTATTATGCATTTATAATTAAGTTATCAA
TT
Found at i:635843 original size:44 final size:44
Alignment explanation
Indices: 635767--635900 Score: 137
Period size: 44 Copynumber: 3.0 Consensus size: 44
635757 ATTATTATGT
* * ** *
635767 AATTA-TTATTATTATATTATTATTGATTTACTATTAAGTTATC
1 AATTATTTACTATTAAATTATTATCAATATACTATTAAGTTATC
635810 AATTATTTACTATTAAATTATTATCAATATACTATTAAGTTATC
1 AATTATTTACTATTAAATTATTATCAATATACTATTAAGTTATC
* * * * *
635854 ACTAATTTACTATACTAAATTATTACTGATTA-ACTATTAATTTATC
1 AATTATTTACTAT--TAAATTATTA-TCAATATACTATTAAGTTATC
635900 A
1 A
635901 TTGATTGCTA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
43 5 0.06
44 44 0.57
46 24 0.31
47 4 0.05
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.49
Consensus pattern (44 bp):
AATTATTTACTATTAAATTATTATCAATATACTATTAAGTTATC
Found at i:635911 original size:21 final size:20
Alignment explanation
Indices: 635887--635926 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
635877 TACTGATTAA
*
635887 CTATTAATTTATCATTGATTG
1 CTATTAACTTAT-ATTGATTG
635908 CTATTAACTTATATTGATT
1 CTATTAACTTATATTGATT
635927 TATTTTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (20 bp):
CTATTAACTTATATTGATTG
Found at i:636008 original size:22 final size:22
Alignment explanation
Indices: 635395--636008 Score: 123
Period size: 22 Copynumber: 27.8 Consensus size: 22
635385 TAATTAACTA
* * * *
635395 ATTTACAATTAAATCATCATTA
1 ATTTACTATTAAGTTATCATTG
* * *
635417 ATTTA-TAATTAAATTATCACTA
1 ATTTACT-ATTAAGTTATCATTG
* *
635439 ATTTA-TAGCTAAGTTATCAATG
1 ATTTACTA-TTAAGTTATCATTG
* *
635461 ATTTACTATGACGTTATTCA-TG
1 ATTTACTATTAAGTTA-TCATTG
* * * * *
635483 ATTTACTACTAAATTATTAATA
1 ATTTACTATTAAGTTATCATTG
* * *
635505 ATTTACTATTAAATTACCAATG
1 ATTTACTATTAAGTTATCATTG
*
635527 ATTTACTATATAA--TATTA-TG
1 ATTTACTAT-TAAGTTATCATTG
**
635547 CATTTGTTATTATA-TTATCATTG
1 -ATTTACTATTA-AGTTATCATTG
* * * * *
635570 ATTCACTACTGAGTT-TTACTG
1 ATTTACTATTAAGTTATCATTG
* * *
635591 ATTAACTACTAAATTATCATTG
1 ATTTACTATTAAGTTATCATTG
* ** * *
635613 ATTTATTGCTAAGTTAT-TTATA
1 ATTTACTATTAAGTTATCAT-TG
* * * * *
635635 ATTTACCATAAATTTATAATTT
1 ATTTACTATTAAGTTATCATTG
* * ** ***
635657 AATTACTATTAAATTAAAACAA
1 ATTTACTATTAAGTTATCATTG
* * *
635679 ATTTACTATTAAATTATCAGTA
1 ATTTACTATTAAGTTATCATTG
* * * * *
635701 ACTTATTACTATA-CTATTA-TG
1 ATTTACTATTA-AGTTATCATTG
* *
635722 CATTTA-TAATTATGTTATAATTG
1 -ATTTACT-ATTAAGTTATCATTG
* * *
635745 ATTTACTATTAAATTATTATGTA
1 ATTTACTATTAAGTTATCAT-TG
* *
635768 ATTATTATTATTATA-TTATTATTG
1 A-T-TTACTATTA-AGTTATCATTG
635792 ATTTACTATTAAGTTATCAATT-
1 ATTTACTATTAAGTTATC-ATTG
* * **
635814 ATTTACTATTAAATTATTATCA
1 ATTTACTATTAAGTTATCATTG
* * *
635836 ATATACTATTAAGTTATCACTA
1 ATTTACTATTAAGTTATCATTG
* * *
635858 ATTTACTATACTAAATTATTACTG
1 ATTTACTAT--TAAGTTATCATTG
* *
635882 ATTAACTATTAATTTATCATTG
1 ATTTACTATTAAGTTATCATTG
* *
635904 A-TTGCTATTAACTTAT-ATTG
1 ATTTACTATTAAGTTATCATTG
* * *
635924 ATTTA-TTTTTAGTTTTCAATT-
1 ATTTACTATTAAGTTATC-ATTG
* * *
635945 ATTAATTACTACTAAGTTCTAAATT-
1 A-T--TTACTATTAAGTTAT-CATTG
* * *
635970 ATTTACTACTAAATTATCATTA
1 ATTTACTATTAAGTTATCATTG
*
635992 ATTTATTATTAAGTTAT
1 ATTTACTATTAAGTTAT
636009 TTATGATTTA
Statistics
Matches: 436, Mismatches: 118, Indels: 76
0.69 0.19 0.12
Matches are distributed among these distances:
20 16 0.04
21 55 0.13
22 292 0.67
23 21 0.05
24 25 0.06
25 26 0.06
26 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.48
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTG
Found at i:636331 original size:22 final size:22
Alignment explanation
Indices: 636306--636400 Score: 104
Period size: 22 Copynumber: 4.4 Consensus size: 22
636296 ACTAAATCTT
* *
636306 ATTTACTATTAACTTATTATTA
1 ATTTACTATTAAGTTATCATTA
* *
636328 ATTTATTATTAAGTTATCATTG
1 ATTTACTATTAAGTTATCATTA
636350 ATTTACTATTAAGTTATCACTT-
1 ATTTACTATTAAGTTATCA-TTA
* * *
636372 ATTT-TTATTAAATTATCCTTA
1 ATTTACTATTAAGTTATCATTA
636393 ATTTACTA
1 ATTTACTA
636401 CTATATTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
20 2 0.03
21 15 0.25
22 42 0.69
23 2 0.03
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTA
Found at i:636510 original size:22 final size:22
Alignment explanation
Indices: 636485--636532 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
636475 TAAATCTATC
636485 TTATCAATTATTTACTATTAAA
1 TTATCAATTATTTACTATTAAA
* * *
636507 TTATTATTTATTTACTATTATA
1 TTATCAATTATTTACTATTAAA
636529 TTAT
1 TTAT
636533 TATTAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATCAATTATTTACTATTAAA
Found at i:636533 original size:22 final size:22
Alignment explanation
Indices: 636492--636542 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
636482 ATCTTATCAA
636492 TTATTTACTATTAAATTATTAT
1 TTATTTACTATTAAATTATTAT
*
636514 TTATTTACTATTATATTATTAT
1 TTATTTACTATTAAATTATTAT
*
636536 TAATTTA
1 TTATTTA
636543 TTAATAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATTTACTATTAAATTATTAT
Found at i:636543 original size:11 final size:11
Alignment explanation
Indices: 636494--636545 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
636484 CTTATCAATT
*
636494 ATTTACTATTA
1 ATTTATTATTA
* *
636505 AATTATTATTT
1 ATTTATTATTA
*
636516 ATTTACTATT-
1 ATTTATTATTA
636526 ATATTATTATTA
1 AT-TTATTATTA
636538 ATTTATTA
1 ATTTATTA
636546 ATAAGTTATC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 2 0.06
11 29 0.88
12 2 0.06
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTTATTATTA
Found at i:636554 original size:22 final size:22
Alignment explanation
Indices: 636507--636600 Score: 86
Period size: 22 Copynumber: 4.3 Consensus size: 22
636497 TACTATTAAA
* *
636507 TTATTATTTATTTACTATTATA-
1 TTATTATTAATTTAATA-TATAG
*
636529 TTATTATTAATTTATTA-ATAAG
1 TTATTATTAATTTAATATAT-AG
*
636551 TTATCCA-TAATTTAATATATAG
1 TTAT-TATTAATTTAATATATAG
* *
636573 TTATTATTGATTTAATATAAAG
1 TTATTATTAATTTAATATATAG
636595 TTATTA
1 TTATTA
636601 CTGATTTTGT
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
20 2 0.03
21 2 0.03
22 53 0.88
23 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.54
Consensus pattern (22 bp):
TTATTATTAATTTAATATATAG
Found at i:636605 original size:22 final size:22
Alignment explanation
Indices: 636560--636607 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
636550 GTTATCCATA
* *
636560 ATTTAATATATAGTTATTATTG
1 ATTTAATATAAAGTTATTACTG
636582 ATTTAATATAAAGTTATTACTG
1 ATTTAATATAAAGTTATTACTG
636604 ATTT
1 ATTT
636608 TGTCATCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (22 bp):
ATTTAATATAAAGTTATTACTG
Found at i:639533 original size:17 final size:17
Alignment explanation
Indices: 639513--639561 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
639503 TTTAATGTAG
639513 TTTAATTTGATATAAAT
1 TTTAATTTGATATAAAT
*
639530 TTT-ATTTG-TA-AATT
1 TTTAATTTGATATAAAT
*
639544 TTTAA-TTGATTTAAAT
1 TTTAATTTGATATAAAT
639560 TT
1 TT
639562 AAATAACTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
14 9 0.35
15 4 0.15
16 10 0.38
17 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTAATTTGATATAAAT
Found at i:643206 original size:24 final size:26
Alignment explanation
Indices: 643172--643228 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 26
643162 TTAATTATAA
*
643172 ATAATATAATT-AAAATATCAAA-AT
1 ATAATAAAATTAAAAATATCAAACAT
* *
643196 ATAATAAAATTAAAAATTTTAAACAT
1 ATAATAAAATTAAAAATATCAAACAT
643222 ATAATAA
1 ATAATAA
643229 TATTTGAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 10 0.36
25 9 0.32
26 9 0.32
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
ATAATAAAATTAAAAATATCAAACAT
Found at i:645147 original size:20 final size:20
Alignment explanation
Indices: 645122--645166 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
645112 TTTTCGAATA
645122 TGCATATTCAG-AATGCATAT
1 TGCATA-TCAGAAATGCATAT
*
645142 TGCATATCTGAAATGCATAT
1 TGCATATCAGAAATGCATAT
645162 TGCAT
1 TGCAT
645167 TGCATGGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (20 bp):
TGCATATCAGAAATGCATAT
Found at i:645641 original size:45 final size:45
Alignment explanation
Indices: 645576--645664 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
645566 AAGGGAAAGG
645576 AAATGCAAATGAGTGCAAAGAGTTAAAAATGTAATTTACTAATGA
1 AAATGCAAATGAGTGCAAAGAGTTAAAAATGTAATTTACTAATGA
*
645621 AAATGCAAATGAGTGTAAAGAGTTAAAAATGTAATTTACTAATG
1 AAATGCAAATGAGTGCAAAGAGTTAAAAATGTAATTTACTAATG
645665 GATATGTAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.28
Consensus pattern (45 bp):
AAATGCAAATGAGTGCAAAGAGTTAAAAATGTAATTTACTAATGA
Found at i:646771 original size:22 final size:23
Alignment explanation
Indices: 646736--646782 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
646726 TTTTATATCT
*
646736 AAATTTATTTAAAT-ATAT-TAA
1 AAATTTATTAAAATAATATATAA
646757 AAATTATATTAAAATAATATATAA
1 AAATT-TATTAAAATAATATATAA
646781 AA
1 AA
646783 TATAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 8 0.36
23 4 0.18
24 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATTTATTAAAATAATATATAA
Found at i:646781 original size:12 final size:13
Alignment explanation
Indices: 646747--646784 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
646737 AATTTATTTA
646747 AATATATTAAAA-
1 AATATATTAAAAT
*
646759 ATTATATTAAAAT
1 AATATATTAAAAT
646772 AATATA-TAAAAT
1 AATATATTAAAAT
646784 A
1 A
646785 TAAAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATATTAAAAT
Found at i:646786 original size:22 final size:22
Alignment explanation
Indices: 646747--646813 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 22
646737 AATTTATTTA
646747 AATATATTAAAAATTATATTAAAAT
1 AATATA-T-AAAA-TATATTAAAAT
**
646772 AATATATAAAATATAAAAAAAT
1 AATATATAAAATATATTAAAAT
* *
646794 AA-ATTTAAAAAACTATTAAA
1 AATATATAAAATA-TATTAAA
646814 CTAAATAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
21 8 0.23
22 16 0.46
23 4 0.11
24 1 0.03
25 6 0.17
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (22 bp):
AATATATAAAATATATTAAAAT
Found at i:651180 original size:22 final size:22
Alignment explanation
Indices: 651155--651197 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
651145 ATAATCTGTC
651155 CTTAATTCT-AGAGATACAAATT
1 CTTAATTCTAAG-GATACAAATT
*
651177 CTTAATTTTAAGGATACAAAT
1 CTTAATTCTAAGGATACAAAT
651198 ATATATAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (22 bp):
CTTAATTCTAAGGATACAAATT
Found at i:655877 original size:26 final size:25
Alignment explanation
Indices: 655845--655894 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
655835 AAGACTTAAC
* * *
655845 AGAATTTGGCTATGAAGGCCTGAAAT
1 AGAATTTAGCAATGAAAG-CTGAAAT
655871 AGAATTTAGCAATGAAAGCTGAAA
1 AGAATTTAGCAATGAAAGCTGAAA
655895 AAATTTTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (25 bp):
AGAATTTAGCAATGAAAGCTGAAAT
Found at i:656177 original size:22 final size:22
Alignment explanation
Indices: 656152--656193 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
656142 TAATTTGTCT
656152 TTAATTCTAGAGATACAAATTC
1 TTAATTCTAGAGATACAAATTC
* *
656174 TTAATTTTAGGGATACAAAT
1 TTAATTCTAGAGATACAAAT
656194 ATATACAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATTC
Found at i:656222 original size:19 final size:19
Alignment explanation
Indices: 656195--656233 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
656185 GATACAAATA
*
656195 TATACAGATTACAATCAGC
1 TATACAGATTACAACCAGC
*
656214 TATATAGATTACAACCAGC
1 TATACAGATTACAACCAGC
656233 T
1 T
656234 GTAACTAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (19 bp):
TATACAGATTACAACCAGC
Found at i:659774 original size:2 final size:2
Alignment explanation
Indices: 659767--659791 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
659757 TGCAGCCATG
659767 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
659792 GTATGTATGT
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:664250 original size:1 final size:1
Alignment explanation
Indices: 664244--664268 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
664234 AAAGTTTAGC
664244 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
664269 GTATTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:665516 original size:34 final size:34
Alignment explanation
Indices: 665410--665525 Score: 90
Period size: 34 Copynumber: 3.4 Consensus size: 34
665400 GTTTTAAATA
* *
665410 ACTTATCGGATATGCATTTCTGGTAAGTTGTATCG
1 ACTTACCGGATATGCATTTCTGGTAAGTTAT-TCG
* * * * * ** * *
665445 -CATACTGGAAATGCATATCTAGTAAGCAATACA
1 ACTTACCGGATATGCATTTCTGGTAAGTTATTCG
** *
665478 ACTTATTGGATATGCATTTCTGGTAAGTTATTTG
1 ACTTACCGGATATGCATTTCTGGTAAGTTATTCG
665512 ACTTACCGGATATG
1 ACTTACCGGATATG
665526 GATATGCGGA
Statistics
Matches: 57, Mismatches: 23, Indels: 3
0.69 0.28 0.04
Matches are distributed among these distances:
33 1 0.02
34 56 0.98
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (34 bp):
ACTTACCGGATATGCATTTCTGGTAAGTTATTCG
Found at i:667334 original size:59 final size:59
Alignment explanation
Indices: 667242--667357 Score: 196
Period size: 59 Copynumber: 2.0 Consensus size: 59
667232 CATTACCTAT
* *
667242 TGGTCTATTTTTTGCTATTACCCATTCAGCAATAACTTTTAACAGGTAAAAATGATTTA
1 TGGTCCATTTGTTGCTATTACCCATTCAGCAATAACTTTTAACAGGTAAAAATGATTTA
* *
667301 TGGTCCATTTGTTGCTATTACCCATTCGGCAATATCTTTTAACAGGTAAAAATGATT
1 TGGTCCATTTGTTGCTATTACCCATTCAGCAATAACTTTTAACAGGTAAAAATGATT
667358 AGTTGTGGGA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (59 bp):
TGGTCCATTTGTTGCTATTACCCATTCAGCAATAACTTTTAACAGGTAAAAATGATTTA
Found at i:669343 original size:15 final size:15
Alignment explanation
Indices: 669323--669355 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
669313 TGAAGAACTG
669323 TTTTCCTCAGATCCA
1 TTTTCCTCAGATCCA
*
669338 TTTTCCTCAGTTCCA
1 TTTTCCTCAGATCCA
669353 TTT
1 TTT
669356 ACTTTATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.30, G:0.06, T:0.48
Consensus pattern (15 bp):
TTTTCCTCAGATCCA
Found at i:671223 original size:20 final size:20
Alignment explanation
Indices: 671198--671263 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
671188 ATAGAGGCAA
671198 CATTATTTCAAATTTTATTT
1 CATTATTTCAAATTTTATTT
* * * * *
671218 CATTA-TACTAA-TTGAGGCTA
1 CATTATTTCAAATTTTA--TTT
671238 CATTATTTCAAATTTTATTT
1 CATTATTTCAAATTTTATTT
671258 CATTAT
1 CATTAT
671264 ATATTGTCAA
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
18 3 0.09
19 4 0.12
20 18 0.56
21 4 0.12
22 3 0.09
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.52
Consensus pattern (20 bp):
CATTATTTCAAATTTTATTT
Found at i:671241 original size:40 final size:40
Alignment explanation
Indices: 671185--671264 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
671175 CAGCCTTACG
671185 CTAATAGAGGCAACATTATTTCAAATTTTATTTCATTATA
1 CTAATAGAGGCAACATTATTTCAAATTTTATTTCATTATA
* *
671225 CTAATTGAGGCTACATTATTTCAAATTTTATTTCATTATA
1 CTAATAGAGGCAACATTATTTCAAATTTTATTTCATTATA
671265 TATTGTCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (40 bp):
CTAATAGAGGCAACATTATTTCAAATTTTATTTCATTATA
Found at i:675486 original size:2 final size:2
Alignment explanation
Indices: 675481--675507 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
675471 TCTCTCTCTC
675481 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 T
675508 TTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:690048 original size:3 final size:3
Alignment explanation
Indices: 690040--690078 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
690030 TAGTGCCTTT
690040 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
690079 CTGAACCTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:691705 original size:24 final size:24
Alignment explanation
Indices: 691660--691705 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
691650 GATTTGAGTG
* *
691660 AAATAAAAATGTAAAAATAAAATA
1 AAATAAAAATGGAAAAACAAAATA
691684 AAAT-AAAATGGAAAATACAAAA
1 AAATAAAAATGGAAAA-ACAAAA
691706 CAAGAGTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (24 bp):
AAATAAAAATGGAAAAACAAAATA
Found at i:696812 original size:31 final size:31
Alignment explanation
Indices: 696774--696839 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
696764 TATGGAACTG
696774 TGATTTGTCCCTATAGGAACTCAAATCTGAA
1 TGATTTGTCCCTATAGGAACTCAAATCTGAA
696805 TGATTTGTCCCTATAGGAACTCAAATCTGAA
1 TGATTTGTCCCTATAGGAACTCAAATCTGAA
696836 TGAT
1 TGAT
696840 CATTCATATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (31 bp):
TGATTTGTCCCTATAGGAACTCAAATCTGAA
Found at i:697393 original size:2 final size:2
Alignment explanation
Indices: 697386--697419 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
697376 CTCCATGGTG
697386 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
697420 TTAGAATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:698120 original size:31 final size:31
Alignment explanation
Indices: 698082--698144 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
698072 ATTGAACAAG
*
698082 TTTTATGTACATTAATTAATGCAAGAACTAC
1 TTTTATGTACATTAATTAATACAAGAACTAC
* *
698113 TTTTATGTATATTAATTAATACAGGAACTAC
1 TTTTATGTACATTAATTAATACAAGAACTAC
698144 T
1 T
698145 ATAATATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (31 bp):
TTTTATGTACATTAATTAATACAAGAACTAC
Found at i:698344 original size:13 final size:12
Alignment explanation
Indices: 698311--698348 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
698301 TTTATTCGAT
698311 TTAAAT-TTAAA
1 TTAAATATTAAA
698322 TTAAATATTAAA
1 TTAAATATTAAA
*
698334 TGTATATATTAAA
1 T-TAAATATTAAA
698347 TT
1 TT
698349 CAGATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 6 0.25
12 7 0.29
13 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
TTAAATATTAAA
Found at i:720653 original size:15 final size:16
Alignment explanation
Indices: 720624--720656 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
720614 CGATTATTTT
720624 ATTTGATATAAATTAA
1 ATTTGATATAAATTAA
*
720640 ATTT-ATATATATTAA
1 ATTTGATATAAATTAA
720655 AT
1 AT
720657 ACGATTAAAT
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTTGATATAAATTAA
Found at i:720814 original size:11 final size:11
Alignment explanation
Indices: 720786--720819 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
720776 ATTTTTTAAT
*
720786 ATATTAAAAGTT
1 ATATTAAAA-TA
720798 ATATTAAAATA
1 ATATTAAAATA
720809 ATATTAAAATA
1 ATATTAAAATA
720820 TTAAATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
ATATTAAAATA
Found at i:721727 original size:22 final size:23
Alignment explanation
Indices: 721699--721742 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
721689 CGATTAATTA
* *
721699 ATCGGTT-ATTCAATTAATTTTG
1 ATCGGTTAATTAAAATAATTTTG
721721 ATCGGTTAATTAAAATAATTTT
1 ATCGGTTAATTAAAATAATTTT
721743 AGAAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (23 bp):
ATCGGTTAATTAAAATAATTTTG
Found at i:726668 original size:11 final size:11
Alignment explanation
Indices: 726649--726678 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
726639 AATAAATAAA
726649 TCAAATTTTTT
1 TCAAATTTTTT
726660 TC-AATTTTTT
1 TCAAATTTTTT
726670 TCAAATTTT
1 TCAAATTTT
726679 GTGATTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (11 bp):
TCAAATTTTTT
Found at i:729531 original size:2 final size:2
Alignment explanation
Indices: 729524--729557 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
729514 TTTAAATTTC
*
729524 AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
729558 AGATTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:731580 original size:59 final size:57
Alignment explanation
Indices: 731483--731696 Score: 251
Period size: 59 Copynumber: 3.8 Consensus size: 57
731473 TGCTTTTGTA
*
731483 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTCAGAAAACTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT--GAAGACTTATTTT
* * * *
731542 TAAGGAAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTTTTAAGACTTATTTC
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTGAAGACTTATTTT
* * * *
731601 CAA-AGAAAATTGATACTTTCAATTTTTTCTC----AT-TTTTTTGAAGATTTATTTT
1 TAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAGACTTATTTT
*
731653 TAAGAAAAATTGATACTTTCAACTTCTCCTCAAAAATATTTTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
731697 TGAAATTTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
52 41 0.32
53 1 0.01
55 2 0.02
56 2 0.02
57 6 0.05
59 71 0.55
61 6 0.05
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.46
Consensus pattern (57 bp):
TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAGACTTATTTT
Found at i:731727 original size:15 final size:15
Alignment explanation
Indices: 731709--731758 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
731699 AAATTTTATT
*
731709 TAAAGAAAATAAAAA
1 TAAAAAAAATAAAAA
* *
731724 TAAATAAGATAAAAA
1 TAAAAAAAATAAAAA
731739 TAAAAATAAAT-AAAA
1 TAAAAA-AAATAAAAA
731754 TAAAA
1 TAAAA
731759 TAAGAAATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 27 0.90
16 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (15 bp):
TAAAAAAAATAAAAA
Found at i:731738 original size:21 final size:20
Alignment explanation
Indices: 731714--731836 Score: 85
Period size: 21 Copynumber: 6.0 Consensus size: 20
731704 TTATTTAAAG
*
731714 AAAATAAAAATAAATAAGAT
1 AAAATAAAAATAAATAAAAT
731734 AAAAATAAAAATAAATAAAAT
1 -AAAATAAAAATAAATAAAAT
*
731755 AAAATAAGAAAT-ACT-AAAT
1 AAAATAA-AAATAAATAAAAT
** *
731774 AATTCTAATCTAATAAATAATAAT
1 AA-AATAA--AAATAAATAA-AAT
731798 AATAATAATAAATAAAT-AAAT
1 AA-AATAA-AAATAAATAAAAT
*
731819 -AAATAAAAAGAAA-AAAAT
1 AAAATAAAAATAAATAAAAT
731837 CTTTTGAACG
Statistics
Matches: 83, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
18 10 0.12
19 11 0.13
20 13 0.16
21 29 0.35
22 3 0.04
23 8 0.10
24 9 0.11
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAATAAAAATAAATAAAAT
Found at i:731819 original size:15 final size:15
Alignment explanation
Indices: 731721--731825 Score: 60
Period size: 15 Copynumber: 6.9 Consensus size: 15
731711 AAGAAAATAA
*
731721 AAATAAATAAGATAA-
1 AAATAAATAATA-AAT
731736 AAATAAA-AATAAAT
1 AAATAAATAATAAAT
*
731750 AAAATAAAATAAGAAAT
1 -AAAT-AAATAATAAAT
* *
731767 -ACTAAATAATTCTAAT
1 AAATAAATAA-T-AAAT
*
731783 CTAATAAATAAT-AAT
1 -AAATAAATAATAAAT
731798 -AAT-AATAATAAAT
1 AAATAAATAATAAAT
731811 AAATAAATAAATAAA
1 AAATAAAT-AATAAA
731826 AAGAAAAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 23
0.71 0.06 0.23
Matches are distributed among these distances:
12 6 0.08
13 8 0.11
14 12 0.17
15 19 0.26
16 12 0.17
17 7 0.10
18 8 0.11
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.26
Consensus pattern (15 bp):
AAATAAATAATAAAT
Found at i:731825 original size:12 final size:10
Alignment explanation
Indices: 731716--731824 Score: 61
Period size: 10 Copynumber: 10.9 Consensus size: 10
731706 ATTTAAAGAA
731716 AATAAA-AAT
1 AATAAATAAT
*
731725 AAATAAGATAAA
1 -AATAA-ATAAT
731737 AATAAA-AAT
1 AATAAATAAT
731746 AAATAAAATAA-
1 -AAT-AAATAAT
731757 AATAAGA-AAT
1 AATAA-ATAAT
*
731767 ACTAAATAAT
1 AATAAATAAT
** *
731777 TCT-AAT-CT
1 AATAAATAAT
731785 AATAAATAAT
1 AATAAATAAT
731795 AAT-AATAAT
1 AATAAATAAT
731804 AATAAATAAAT
1 AATAAAT-AAT
731815 AAATAAATAA
1 -AATAAATAA
731825 AAAGAAAAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 25
0.70 0.07 0.23
Matches are distributed among these distances:
8 2 0.03
9 22 0.28
10 29 0.37
11 14 0.18
12 11 0.14
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.26
Consensus pattern (10 bp):
AATAAATAAT
Found at i:732676 original size:22 final size:22
Alignment explanation
Indices: 732650--732739 Score: 94
Period size: 22 Copynumber: 4.0 Consensus size: 22
732640 AACATATATA
732650 TTAATAGATAAATAA-AAAAAT
1 TTAATAGATAAATAATAAAAAT
*
732671 GTTAATAGATAAA-AATAAATAT
1 -TTAATAGATAAATAATAAAAAT
*
732693 ATTAGTAGATAAATAATAAATATAT
1 -TTAATAGATAAATAATAAA-A-AT
* *
732718 TTAAAAAATAAATAATAAAAAT
1 TTAATAGATAAATAATAAAAAT
732740 AAAAGCAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
21 2 0.04
22 30 0.53
23 7 0.12
24 16 0.28
25 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (22 bp):
TTAATAGATAAATAATAAAAAT
Found at i:733073 original size:41 final size:41
Alignment explanation
Indices: 732943--733280 Score: 308
Period size: 41 Copynumber: 8.1 Consensus size: 41
732933 TGATCAAAGA
* **
732943 TCCTCTAAGCAGAGGCTCAACGACTTTGAAAAACATAAACAAAGC
1 TCCTCTAATCAGAGGCTCAACGACTTT-AAAAA-AT-AA-ATGGC
* *
732988 TCCTCTAATCGGAGGCTCAACGACTTT-GAAAATAAATGGC
1 TCCTCTAATCAGAGGCTCAACGACTTTAAAAAATAAATGGC
* *
733028 TCCTCTAATCAAATGCTCAACGACTTTAAAAAATAAATGGC
1 TCCTCTAATCAGAGGCTCAACGACTTTAAAAAATAAATGGC
*
733069 TCCTCTGAAT-AAAGGCTCAACGACTTTGGAAAATAAATAAAT--C
1 TCCTCT-AATCAGAGGCTCAACGACTTT---AAA-AAATAAATGGC
* * *
733112 TTCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATGGC
1 TCCTCTAATCAGAGGCTCAACGACTTTAAAAAATAAATGGC
* * * * *
733153 TTCTCTAATCAGAGGCTCAATGACTTTTGAAAAGTAAAAGGC
1 TCCTCTAATCAGAGGCTCAACGAC-TTTAAAAAATAAATGGC
* ** * *
733195 TCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGGAAAAGAC
1 TCCTCTAATCAGAGGCTCAACGAC-TTTAAAAAATAAATGGC
* ** * *
733237 T-CTCTAATCAGAGGCTCAATGACTTTTGAAAGTAAATTGC
1 TCCTCTAATCAGAGGCTCAACGACTTTAAAAAATAAATGGC
733277 TCCT
1 TCCT
733281 TGACAATCAT
Statistics
Matches: 253, Mismatches: 29, Indels: 26
0.82 0.09 0.08
Matches are distributed among these distances:
39 8 0.03
40 41 0.16
41 82 0.32
42 61 0.24
43 25 0.10
44 3 0.01
45 33 0.13
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (41 bp):
TCCTCTAATCAGAGGCTCAACGACTTTAAAAAATAAATGGC
Found at i:733241 original size:83 final size:82
Alignment explanation
Indices: 732943--733272 Score: 351
Period size: 84 Copynumber: 4.0 Consensus size: 82
732933 TGATCAAAGA
* * *
732943 TCCTCTAAGCAGAGGCTCAACGACTTTGAAAAACATAAACAAAGCTCCTCTAATCGGAGGCTCAA
1 TCCTCTAATCAGAGGCTCAACGACTTTG-AAAA-ATAAA-AGA-CTCCTCTAATCAGAGGCTCAA
*
733008 CGAC-TTTGAAAATAAATGGC
62 CGACTTTTGAAAATAAAAGGC
* * * * * *
733028 TCCTCTAATCAAATGCTCAACGACTTTAAAAAATAAATGGCTCCTCTGAAT-AAAGGCTCAACGA
1 TCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAAGACTCCTCT-AATCAGAGGCTCAACGA
* **
733092 CTTTGGAAAATAAATAAATC
65 CTTTTGAAAAT-AA-AAGGC
* * * * * *
733112 TTCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATGGCTTCTCTAATCAGAGGCTCAATGAC
1 TCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAAGACTCCTCTAATCAGAGGCTCAACGAC
733177 TTTTGAAAAGTAAAAGGC
66 TTTTGAAAA-TAAAAGGC
** *
733195 TCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGGAAAAGACT-CTCTAATCAGAGGCTCAATGA
1 TCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAAAGACTCCTCTAATCAGAGGCTCAACGA
*
733259 CTTTTGAAAGTAAA
65 CTTTTGAAAATAAA
733273 TTGCTCCTTG
Statistics
Matches: 207, Mismatches: 31, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
81 19 0.09
82 15 0.07
83 65 0.31
84 83 0.40
85 25 0.12
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.25
Consensus pattern (82 bp):
TCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAAGACTCCTCTAATCAGAGGCTCAACGAC
TTTTGAAAATAAAAGGC
Found at i:734288 original size:15 final size:15
Alignment explanation
Indices: 734268--734300 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
734258 TGAGTTTTCC
734268 TTTTTCA-TTCACTTT
1 TTTTTCATTTCA-TTT
734283 TTTTTCATTTCATTT
1 TTTTTCATTTCATTT
734298 TTT
1 TTT
734301 ATTCTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCATTTCATTT
Found at i:734293 original size:27 final size:25
Alignment explanation
Indices: 734263--734312 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
734253 TGCCTTGAGT
*
734263 TTTCCTTTTTCATTCACTTTTTTTTCA
1 TTTCATTTTTCATT--CTTTTTTTTCA
*
734290 TTTCATTTTTTATTCTTTTTTTT
1 TTTCATTTTTCATTCTTTTTTTT
734313 AAGCATAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
27 12 0.57
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTCATTTTTCATTCTTTTTTTTCA
Found at i:746185 original size:59 final size:58
Alignment explanation
Indices: 745991--746389 Score: 511
Period size: 59 Copynumber: 6.8 Consensus size: 58
745981 TGCTTTTGTA
* * * ** *
745991 CAAGGAAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTCT-GAAAGTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
** *
746048 CGAAG-AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTGGAAAA-TTATTTT
1 C-AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* *
746105 CAA-AGAAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTCAAAAAACTTATTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-AGAAAACTTATTTT
*
746164 CAAGAAAAATTGATACTTTCAAC-TTTCCATCAAAAATATTTTTTAGAAAAACTTGTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCC-TCAAAAATATTTTTTAG-AAAACTTATTTT
* *
746223 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTAGAAGACTTATTTC
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTAGAAAACTTATTTT
* * * * *
746282 CATGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAGATTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAGAAAACTTATTTT
* *
746341 CAAGAAAAATTGATACTTTCAACTTCTCCTCAAAAATATTTTTTTGAAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAA
746390 TTTTATTTAA
Statistics
Matches: 304, Mismatches: 26, Indels: 23
0.86 0.07 0.07
Matches are distributed among these distances:
56 2 0.01
57 79 0.26
58 27 0.09
59 182 0.60
60 14 0.05
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
Found at i:746257 original size:27 final size:27
Alignment explanation
Indices: 746227--746318 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 27
746217 TGTTTTCAAG
746227 AAAAATTGATACTTTCAACTTTTCCTC
1 AAAAATTGATACTTTCAACTTTTCCTC
* * *
746254 AAAAA-T-ATATTTTTAGAAGACTTATTTCCATG
1 AAAAATTGATA-CTTT--CA-AC-T-TTTCC-TC
*
746286 GAAAATTGATACTTTCAACTTTTCCTC
1 AAAAATTGATACTTTCAACTTTTCCTC
746313 AAAAAT
1 AAAAAT
746319 ATTTTTTTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
25 3 0.06
26 4 0.08
27 11 0.23
28 6 0.12
29 3 0.06
30 3 0.06
31 6 0.12
32 5 0.10
33 4 0.08
34 3 0.06
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTCCTC
Found at i:746418 original size:6 final size:6
Alignment explanation
Indices: 746409--746481 Score: 61
Period size: 6 Copynumber: 13.2 Consensus size: 6
746399 AAAAAAATCA
* **
746409 AAAAAT -AAAAT -AAGAT AAAAAT AAAAAT AAAGGT AAAAAT ---AAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
746452 AAAAAT AAAAAT -AAAAT -AAAAT AAGAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT A
746482 CTAAATAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
3 3 0.05
5 19 0.35
6 28 0.51
7 5 0.09
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:746418 original size:16 final size:15
Alignment explanation
Indices: 746409--746481 Score: 58
Period size: 16 Copynumber: 4.5 Consensus size: 15
746399 AAAAAAATCA
746409 AAAAATAAAATAAGAT
1 AAAAATAAAA-AAGAT
*
746425 AAAAATAAAAATAAAGGT
1 AAAAAT--AAA-AAAGAT
746443 AAAAATAATAAAA-AT
1 AAAAATAA-AAAAGAT
*
746458 AAAAATAAAATAAAAT
1 AAAAATAAAA-AAGAT
746474 AAGAAATA
1 AA-AAATA
746482 CTAAATAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
14 2 0.04
15 11 0.23
16 15 0.31
17 6 0.12
18 13 0.27
19 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (15 bp):
AAAAATAAAAAAGAT
Found at i:746420 original size:5 final size:5
Alignment explanation
Indices: 746410--746475 Score: 53
Period size: 5 Copynumber: 12.4 Consensus size: 5
746400 AAAAAATCAA
* * *
746410 AAAAT AAAAT AAGAT AAAAAT AAAAAT AAAGGT AAAA- ATAAT AAAAAT
1 AAAAT AAAAT AAAAT -AAAAT -AAAAT AAA-AT AAAAT AAAAT -AAAAT
746458 AAAAAT AAAAT AAAAT AA
1 -AAAAT AAAAT AAAAT AA
746476 GAAATACTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
4 3 0.06
5 24 0.47
6 24 0.47
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:746437 original size:177 final size:177
Alignment explanation
Indices: 746109--746437 Score: 369
Period size: 177 Copynumber: 1.9 Consensus size: 177
746099 TATTTTCAAA
*
746109 GAAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTCAAAAAACTTATTTTCAAGAAAAAT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTCAAAAAACTTATTTTCAAGAAAAAT
* ** * *** *
746174 TGATACTTTCAACTTTCCATCAAAAATATTTTTTAGAAAAACTTGTTTTCAAGAAAAATTGATAC
66 TGATACTTTCAACTTTCCATCAAAAATATTTTTTAGAAAAACTTATTTAAAAAAAAAAAAAATAA
** * *****
746239 TTTCAACTTTTCCTCAAAAATATATTTTTAGAAGACTTATTTCCATG
131 AATCAAATAAAAATCAAAAATATATTTTTAGAAGACTTATTTCCATG
*** * *
746286 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAGATTTATTTTCAAGAAAAAT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTCAAAAAACTTATTTTCAAGAAAAAT
* **
746351 TGATACTTTCAACTTCTCC-TCAAAAATATTTTTTTG-AAATTTTATTTAAAAAAAATCAAAAAA
66 TGATACTTTCAACTT-TCCATCAAAAATATTTTTTAGAAAAACTTATTTAAAAAAAA--AAAAAA
746414 TAAAAT-AAGATAAAAAT-AAAAATA
128 TAAAATCAA-ATAAAAATCAAAAATA
746438 AAGGTAAAAA
Statistics
Matches: 123, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
176 13 0.11
177 99 0.80
178 11 0.09
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.40
Consensus pattern (177 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTCAAAAAACTTATTTTCAAGAAAAAT
TGATACTTTCAACTTTCCATCAAAAATATTTTTTAGAAAAACTTATTTAAAAAAAAAAAAAATAA
AATCAAATAAAAATCAAAAATATATTTTTAGAAGACTTATTTCCATG
Found at i:746518 original size:10 final size:10
Alignment explanation
Indices: 746445--746521 Score: 52
Period size: 10 Copynumber: 7.6 Consensus size: 10
746435 ATAAAGGTAA
746445 AAATAATAA-
1 AAATAATAAT
*
746454 AAATAAAAAT
1 AAATAATAAT
746464 AAAATAA-AAT
1 -AAATAATAAT
*
746474 AAGA-AATACT
1 AA-ATAATAAT
**
746484 AAATAATTCT
1 AAATAATAAT
*
746494 AATTTAATCAAT
1 AA-ATAAT-AAT
746506 AAATAATAAT
1 AAATAATAAT
746516 AAATAA
1 AAATAA
746522 ATAAATATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
9 13 0.24
10 24 0.44
11 14 0.26
12 3 0.06
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (10 bp):
AAATAATAAT
Found at i:746532 original size:14 final size:14
Alignment explanation
Indices: 746411--746525 Score: 50
Period size: 14 Copynumber: 8.4 Consensus size: 14
746401 AAAAATCAAA
746411 AAATAA-AATAAGAT
1 AAATAATAATAA-AT
746425 AAA-AATAA-AAAT
1 AAATAATAATAAAT
*
746437 AAAGGTAAAAAT-AAT
1 AAA--TAATAATAAAT
746452 AAA-AATAA-AAAT
1 AAATAATAATAAAT
*
746464 AAAATAA-AAT-AAG
1 -AAATAATAATAAAT
* *
746477 AAATACTAAATAATT
1 AAATAAT-AATAAAT
* * *
746492 CTAAT-TTAATCAAT
1 -AAATAATAATAAAT
746506 AAATAATAATAAAT
1 AAATAATAATAAAT
746520 AAATAA
1 AAATAA
746526 ATATAAAAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 28
0.64 0.11 0.24
Matches are distributed among these distances:
12 17 0.23
13 14 0.19
14 28 0.38
15 12 0.16
16 3 0.04
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (14 bp):
AAATAATAATAAAT
Found at i:746986 original size:20 final size:19
Alignment explanation
Indices: 746951--746988 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
746941 AGTTCGTCGA
*
746951 AAAATTTTCTCGAATTTTG
1 AAAATTTTCTAGAATTTTG
746970 AAAATTTTCTAGAAATTTT
1 AAAATTTTCTAG-AATTTT
746989 CCAGAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (19 bp):
AAAATTTTCTAGAATTTTG
Found at i:747293 original size:11 final size:11
Alignment explanation
Indices: 747277--747306 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
747267 AGAAAAGAAA
747277 AAAATAAAAAT
1 AAAATAAAAAT
747288 AAAATAAAAAT
1 AAAATAAAAAT
747299 AAAA-AAAA
1 AAAATAAAA
747307 TATATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:747387 original size:22 final size:21
Alignment explanation
Indices: 747297--747459 Score: 116
Period size: 22 Copynumber: 7.4 Consensus size: 21
747287 TAAAATAAAA
747297 ATAAAAAAAATATATTAATAG
1 ATAAAAAAAATATATTAATAG
* *
747318 ATAACTAAAAGAAAATAATAATA-
1 ATAA--AAAA-AATATATTAATAG
* * *
747341 ATAATAATAGATAAATT-ATA-
1 ATAA-AAAAAATATATTAATAG
*
747361 ATAAAAACATATATATTAATAG
1 ATAAAAA-AAATATATTAATAG
* *
747383 ATAAATAAAAAAATGTTAATAG
1 ATAAA-AAAAATATATTAATAG
*
747405 ATAAAAATAAATATATTAGTAG
1 ATAAAAA-AAATATATTAATAG
* *
747427 ATAAATAATAAATATATTTAAAAA
1 ATAAA-AA-AAATATA-TTAATAG
747451 ATAAAAAAA
1 ATAAAAAAA
747460 TAATAAAAAT
Statistics
Matches: 113, Mismatches: 19, Indels: 19
0.75 0.13 0.13
Matches are distributed among these distances:
19 2 0.02
20 14 0.12
21 13 0.12
22 43 0.38
23 22 0.19
24 19 0.17
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (21 bp):
ATAAAAAAAATATATTAATAG
Found at i:753114 original size:6 final size:6
Alignment explanation
Indices: 753105--753135 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
753095 AGAATTTGCA
*
753105 TTATTT TTATAT TTATAT TTATAT TTATAT T
1 TTATAT TTATAT TTATAT TTATAT TTATAT T
753136 CTTCTACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTATAT
Found at i:758716 original size:29 final size:28
Alignment explanation
Indices: 758666--758720 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
758656 GTTAATTAGA
* * * *
758666 ATTAATATATTTTTATTGAAAACATATAT
1 ATTAATAAATATTTA-TAAAAAAATATAT
758695 ATTAATAAATATTTATAAAAAAATAT
1 ATTAATAAATATTTATAAAAAAATAT
758721 CTAATTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 9 0.41
29 13 0.59
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (28 bp):
ATTAATAAATATTTATAAAAAAATATAT
Found at i:758774 original size:9 final size:10
Alignment explanation
Indices: 758759--758783 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
758749 TAAAAAAATA
758759 AATTTTTTTT
1 AATTTTTTTT
758769 AATTTTTTTT
1 AATTTTTTTT
758779 AATTT
1 AATTT
758784 ATGGTTTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
AATTTTTTTT
Found at i:762497 original size:2 final size:2
Alignment explanation
Indices: 762492--762526 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
762482 ACTTTTTTAT
*
762492 TA TA TA TT 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
762527 TAGGCATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:770321 original size:25 final size:24
Alignment explanation
Indices: 770272--770321 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
770262 TATTTAATTG
* *
770272 TAAAAATTTTATCAATATTTTTAT
1 TAAAAATTTTATCAATATATATAT
*
770296 TAAAAATATTTATTAATATATATAT
1 TAAAAAT-TTTATCAATATATATAT
770321 T
1 T
770322 TATTAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAAAATTTTATCAATATATATAT
Found at i:770576 original size:17 final size:17
Alignment explanation
Indices: 770556--770592 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
770546 ATTTTAAAAA
770556 ATAATATTTA-ATAAATT
1 ATAATATTTATA-AAATT
770573 ATAATATTTATAAAATT
1 ATAATATTTATAAAATT
770590 ATA
1 ATA
770593 TTTATTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATATTTATAAAATT
Found at i:770595 original size:14 final size:14
Alignment explanation
Indices: 770548--770597 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
770538 AATTAATTAT
*
770548 TTTAAAAAATAATA
1 TTTATAAAATAATA
770562 TTTAATAAATTATAATA
1 TTT-ATAAA--ATAATA
*
770579 TTTATAAAATTATA
1 TTTATAAAATAATA
770593 TTTAT
1 TTTAT
770598 TCTTTAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 13 0.42
15 4 0.13
16 5 0.16
17 9 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTATAAAATAATA
Found at i:771533 original size:17 final size:17
Alignment explanation
Indices: 771513--771555 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
771503 TGATCTTAAA
* *
771513 TTAATAAAATATTATTT
1 TTAATAAAATATAATAT
771530 TTAATAAAATATAATAT
1 TTAATAAAATATAATAT
*
771547 TAAATAAAA
1 TTAATAAAA
771556 AATTTAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAATAAAATATAATAT
Found at i:771568 original size:22 final size:20
Alignment explanation
Indices: 771543--771588 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
771533 ATAAAATATA
771543 ATATTAAATAAAAAATTTAATT
1 ATATTAAATAAAAAA--TAATT
* *
771565 ATATTTAATTAAAAATAATT
1 ATATTAAATAAAAAATAATT
771585 ATAT
1 ATAT
771589 ATATGATCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
22 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATTAAATAAAAAATAATT
Found at i:772303 original size:30 final size:28
Alignment explanation
Indices: 772269--772337 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 28
772259 TAAATTTATG
772269 TTAAAAATTTATTTAGATAC-AAATTAAAGA
1 TTAAAAATTTATTT-GA-ACAAAATTAAA-A
*
772299 TTAAAATTTTATTTGAACATAAATTAAAA
1 TTAAAAATTTATTTGAACA-AAATTAAAA
*
772328 ATAAAAATTT
1 TTAAAAATTT
772338 GTTCGAGTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 2 0.06
29 11 0.32
30 21 0.62
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (28 bp):
TTAAAAATTTATTTGAACAAAATTAAAA
Found at i:777239 original size:2 final size:2
Alignment explanation
Indices: 777232--777262 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
777222 AATACAGTGG
777232 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
777263 CGTTAGTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:777841 original size:21 final size:21
Alignment explanation
Indices: 777815--777854 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
777805 CACTGGACGG
777815 GGTCTTACAAGGTCAAGAAAA
1 GGTCTTACAAGGTCAAGAAAA
777836 GGTCTTACAAGGTCAAGAA
1 GGTCTTACAAGGTCAAGAA
777855 GACAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (21 bp):
GGTCTTACAAGGTCAAGAAAA
Found at i:782389 original size:13 final size:13
Alignment explanation
Indices: 782355--782400 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
782345 TAATGAAAAA
782355 TTTTAATTTATTAAT
1 TTTTAA-TT-TTAAT
*
782370 TTATTAATTTTGAT
1 TT-TTAATTTTAAT
782384 TTTTAATTTTAAT
1 TTTTAATTTTAAT
782397 TTTT
1 TTTT
782401 TGTTTATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 14 0.50
14 6 0.21
15 4 0.14
16 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:782389 original size:21 final size:21
Alignment explanation
Indices: 782354--782414 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
782344 ATAATGAAAA
*
782354 ATTTTAATTTATTAATTTATTA
1 ATTTTAATTTATTAATTT-TAA
*
782376 ATTTTGATTT-TTAATTTTAA
1 ATTTTAATTTATTAATTTTAA
* ** *
782396 TTTTTTGTTTATTCATTTT
1 ATTTTAATTTATTAATTTT
782415 TCATAAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 9 0.28
21 14 0.44
22 9 0.28
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (21 bp):
ATTTTAATTTATTAATTTTAA
Found at i:783451 original size:22 final size:21
Alignment explanation
Indices: 783423--783467 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
783413 ATTTAAAATT
*
783423 TTTTTA-TATTATTTTAATATAA
1 TTTTTATTA-TATTTAAATA-AA
783445 TTTTTATTATATTTAAATAAA
1 TTTTTATTATATTTAAATAAA
783466 TT
1 TT
783468 AAGTATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 15 0.71
23 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTATTATATTTAAATAAA
Found at i:783452 original size:20 final size:21
Alignment explanation
Indices: 783424--783464 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
783414 TTTAAAATTT
783424 TTTTATATTAT-TTTAATATAA
1 TTTTATATTATATTTAA-ATAA
783445 TTTT-TATTATATTTAAATAA
1 TTTTATATTATATTTAAATAA
783465 ATTAAGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTATATTATATTTAAATAA
Done.