Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 4 of 133
Found at i:788494 original size:9 final size:9
Alignment explanation
Indices: 788460--788501 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
788450 TAATTTGATT
788460 TTAATTAAA
1 TTAATTAAA
* *
788469 TTGATT-GA
1 TTAATTAAA
788477 TTAAATTAAA
1 TT-AATTAAA
788487 TTAATTAAA
1 TTAATTAAA
788496 TTAATT
1 TTAATT
788502 GAAAAGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 3 0.11
9 21 0.78
10 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (9 bp):
TTAATTAAA
Found at i:788636 original size:16 final size:16
Alignment explanation
Indices: 788602--788636 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
788592 ATTAAAATTT
* *
788602 TAATTTAAATATAATA
1 TAATTTAAATACAAAA
788618 TAATTTAAATACAAAA
1 TAATTTAAATACAAAA
788634 TAA
1 TAA
788637 AAAATATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATTTAAATACAAAA
Found at i:788739 original size:13 final size:13
Alignment explanation
Indices: 788699--788732 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
788689 AAAACTTTGA
788699 TATTTGAAT-ATTT
1 TATTT-AATAATTT
788712 TATTTAATAATTT
1 TATTTAATAATTT
788725 TATTTAAT
1 TATTTAAT
788733 TTATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (13 bp):
TATTTAATAATTT
Found at i:788888 original size:28 final size:27
Alignment explanation
Indices: 788841--788896 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
788831 TGATTAATTT
* *
788841 TAAAATTAATAAATTCAATTTAATTAA
1 TAAAAATAATAAATTCAATTCAATTAA
788868 TAAAAATAATATAATAT-AATTCAATTAA
1 TAAAAATAATA-AAT-TCAATTCAATTAA
788896 T
1 T
788897 TTAATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.40
28 14 0.56
29 1 0.04
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (27 bp):
TAAAAATAATAAATTCAATTCAATTAA
Found at i:791721 original size:30 final size:30
Alignment explanation
Indices: 791687--791756 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
791677 TATTTTTTAT
* * *
791687 TTTTTATTTATATATATTTATATAATGATA
1 TTTTTATTTATATATATTTAAAAAATAATA
** *
791717 TTTTTAAATATTTATATTTAAAAAATAATA
1 TTTTTATTTATATATATTTAAAAAATAATA
791747 TTTTATATTT
1 TTTT-TATTT
791757 TAAAAAATAA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (30 bp):
TTTTTATTTATATATATTTAAAAAATAATA
Found at i:791753 original size:21 final size:22
Alignment explanation
Indices: 791723--791774 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
791713 GATATTTTTA
791723 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
791743 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
791765 AATATTTTAT
1 AATATTTTAT
791775 TAATTTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:794040 original size:27 final size:27
Alignment explanation
Indices: 794003--794069 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
793993 CTGTATAATA
794003 AATTATTTAAATTTAATATGTTTGGAT
1 AATTATTTAAATTTAATATGTTTGGAT
*
794030 AATTATGTAAATTTAATATGTTTGGAT
1 AATTATTTAAATTTAATATGTTTGGAT
794057 AATTATTTAAATT
1 AATTATTTAAATT
794070 CAAATCAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (27 bp):
AATTATTTAAATTTAATATGTTTGGAT
Found at i:794538 original size:18 final size:17
Alignment explanation
Indices: 794507--794540 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
794497 TATAGTTCAT
*
794507 TATTTTTTTTTCTATTC
1 TATTTTTTTCTCTATTC
794524 TATTTTTTTCCTCTATT
1 TATTTTTTT-CTCTATT
794541 TGTTTGTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTTTTCTCTATTC
Found at i:795812 original size:3 final size:3
Alignment explanation
Indices: 795806--795836 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
795796 TTCAATCATA
795806 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
795837 TGATGTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:796920 original size:18 final size:18
Alignment explanation
Indices: 796897--796998 Score: 80
Period size: 18 Copynumber: 5.4 Consensus size: 18
796887 ATGTATAATC
796897 TTTT-AAAATTTTAAGAAT
1 TTTTAAAAATTTT-AGAAT
796915 TTTTAAAACATTTTAGAATAT
1 TTTTAAAA-ATTTTAG-A-AT
* *
796936 TGTTTAAAACTTTTAGATT
1 T-TTTAAAAATTTTAGAAT
* *
796955 TTTTAAAAATTTTACATTT
1 TTTTAAAAATTTTAGA-AT
* * *
796974 TTTTGAAATTTTTAGATT
1 TTTTAAAAATTTTAGAAT
796992 TTTTAAA
1 TTTTAAA
796999 GTCTTTGTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
18 25 0.36
19 22 0.31
20 7 0.10
21 9 0.13
22 7 0.10
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (18 bp):
TTTTAAAAATTTTAGAAT
Found at i:796975 original size:19 final size:19
Alignment explanation
Indices: 796897--796995 Score: 87
Period size: 19 Copynumber: 5.2 Consensus size: 19
796887 ATGTATAATC
*
796897 TTTT-AAAATTTTAAGA-AT
1 TTTTAAAAATTTT-AGATTT
796915 TTTTAAAACATTTTAGAATATT
1 TTTTAAAA-ATTTTAG-AT-TT
* *
796937 GTTTAAAACTTTTAGA-TT
1 TTTTAAAAATTTTAGATTT
*
796955 TTTTAAAAATTTTACATTT
1 TTTTAAAAATTTTAGATTT
* *
796974 TTTTGAAATTTTTAGATTT
1 TTTTAAAAATTTTAGATTT
796993 TTT
1 TTT
796996 AAAGTCTTTG
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
18 19 0.29
19 26 0.39
20 7 0.11
21 6 0.09
22 8 0.12
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTTTAGATTT
Found at i:797166 original size:20 final size:20
Alignment explanation
Indices: 797124--797166 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
797114 AATATTTTAA
* *
797124 TTTTATAAAATTTTGGATTT
1 TTTTATAAAATTTTAGATAT
797144 TTTTATAAAAATTTTAGA-AT
1 TTTTAT-AAAATTTTAGATAT
797164 TTT
1 TTT
797167 ATTGAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
TTTTATAAAATTTTAGATAT
Found at i:797166 original size:21 final size:20
Alignment explanation
Indices: 797124--797166 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
797114 AATATTTTAA
* *
797124 TTTTATAAAATTTTGGATTT
1 TTTTATAAAATTTTAGAATT
797144 TTTTATAAAAATTTTAGAATT
1 TTTTAT-AAAATTTTAGAATT
797165 TT
1 TT
797167 ATTGAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
TTTTATAAAATTTTAGAATT
Found at i:803814 original size:18 final size:18
Alignment explanation
Indices: 803791--803834 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
803781 CAAGATTGCT
803791 TACAAGCTGGATATGCCA
1 TACAAGCTGGATATGCCA
803809 TACAAGCTGGATATGCCA
1 TACAAGCTGGATATGCCA
803827 TACAAGCT
1 TACAAGCT
803835 AAGGGTACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (18 bp):
TACAAGCTGGATATGCCA
Found at i:806251 original size:59 final size:56
Alignment explanation
Indices: 806140--806471 Score: 450
Period size: 58 Copynumber: 5.7 Consensus size: 56
806130 TTGTGTAGGG
806140 AAAATTGATACTTTCAACTTTTCCCAAAAAAATATTTTTTTGAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCC--AAAAATATTTTTTTGAAATTTATTTTTAAGA
*
806198 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAATTTTGATTTTCAAGA
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTGAAA-TTT-ATTTTTAAGA
* * *
806257 AAAATTGATACTTTCAACTTTTCCTCAAAAACTCTTTTTTTTGAAAATTTATTTATAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA-T-ATTTTTTTG-AAATTTATTTTTAAGA
* * *
806317 AAAATTGATACTTTCAATTTTTCTTCAAAAATATTTTTTTGGAAATTTATTTCTAAGA
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTT-GAAATTTATTTTTAAGA
*
806375 AAAATTGATACTTTCAACTTTTCTCCAAAAAT-GTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTTG-AAATTTATTTTTAAGA
*
806432 AAAATTGATACTTTCAACTTTTTCACAAAAATATTTTTTT
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTT
806472 TGGAACTTTT
Statistics
Matches: 246, Mismatches: 16, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
56 1 0.00
57 64 0.26
58 89 0.36
59 42 0.17
60 36 0.15
61 11 0.04
62 3 0.01
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAATTTATTTTTAAGA
Found at i:806376 original size:177 final size:173
Alignment explanation
Indices: 806138--806473 Score: 514
Period size: 177 Copynumber: 1.9 Consensus size: 173
806128 TCTTGTGTAG
*
806138 GGAAAATTGATACTTTCAACTTTTCCCAAAAAAATATTTTTTTGAAATTTATTTTTAAGAAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAAATATTTTTTTGAAATTTATTTCTAAGAAAAAT
* *
806203 TGATACTTTCAACTTTT-TCCCAAAAATATTTTTTTGAAATTTTGATTTTCAAGAAAAATTGATA
65 TGATACTTTCAACTTTTCT-CCAAAAAT-GTTTTTTGAAAATTT-ATTTTCAAGAAAAATTGATA
* *
806267 CTTTCAACTTTTCCTCAAAAACTCTTTTTTTTGAAAATTTATTTATAA
127 CTTTCAACTTTTCCACAAAAA-TATTTTTTTTGAAAATTTATTTATAA
* *
806315 GGAAAATTGATACTTTCAATTTTTCTTC-AAAAATATTTTTTTGGAAATTTATTTCTAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTC-CCAAAAAATATTTTTTT-GAAATTTATTTCTAAGAAAAA
*
806379 TTGATACTTTCAACTTTTCTCCAAAAATGTTTTTTGAAAATTTATTTTTAAGAAAAATTGATACT
64 TTGATACTTTCAACTTTTCTCCAAAAATGTTTTTTGAAAATTTATTTTCAAGAAAAATTGATACT
*
806444 TTCAACTTTTTCACAAAAATATTTTTTTTG
129 TTCAACTTTTCCACAAAAATATTTTTTTTG
806474 GAACTTTTGA
Statistics
Matches: 147, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
174 10 0.07
175 38 0.26
176 27 0.18
177 70 0.48
178 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (173 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAATTTATTTCTAAGAAAAATT
GATACTTTCAACTTTTCTCCAAAAATGTTTTTTGAAAATTTATTTTCAAGAAAAATTGATACTTT
CAACTTTTCCACAAAAATATTTTTTTTGAAAATTTATTTATAA
Found at i:806531 original size:16 final size:16
Alignment explanation
Indices: 806507--806568 Score: 70
Period size: 16 Copynumber: 3.8 Consensus size: 16
806497 AAAATAGAAT
*
806507 AAAAAAAATAAAAGTG
1 AAAAAAAATAAAAGTA
* *
806523 AAAATAAATAAAAATA
1 AAAAAAAATAAAAGTA
* *
806539 AAAATAAAGAAAAGTA
1 AAAAAAAATAAAAGTA
806555 AAACAAAAATAAAA
1 AAA-AAAAATAAAA
806569 ATAAGATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
16 30 0.79
17 8 0.21
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.13
Consensus pattern (16 bp):
AAAAAAAATAAAAGTA
Found at i:806537 original size:6 final size:6
Alignment explanation
Indices: 806510--806654 Score: 61
Period size: 6 Copynumber: 23.8 Consensus size: 6
806500 ATAGAATAAA
* * * *
806510 AAAAAT AAAAGT GAAAAT --AAAT AAAAAT AAAAAT AAAGAAA AGTAAAAC
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT A--AAAAT
* * * * **
806559 AAAAAT AAAAAT -AAGAT AAAGAT AAAAAAT ATTAAAT AAACAT -AATCT
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT A-AAAAT AAAAAT AAAAAT
*
806607 AATAAAT AAATAA- AAAAAT AAACAAA AAAAATT AAAAA- AAAAA- AAAAA
1 AA-AAAT AAA-AAT AAAAAT AAA-AAT AAAAA-T AAAAAT AAAAAT AAAAA
806655 CCTGGAGCGG
Statistics
Matches: 108, Mismatches: 17, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
4 4 0.04
5 19 0.18
6 51 0.47
7 29 0.27
8 3 0.03
9 2 0.02
ACGTcount: A:0.77, C:0.03, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:806562 original size:27 final size:28
Alignment explanation
Indices: 806532--806585 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
806522 GAAAATAAAT
806532 AAAAATAAAAATAAAGA-AAAG-TAAAAC
1 AAAAATAAAAAT-AAGATAAAGATAAAAC
806559 AAAAATAAAAATAAGATAAAGATAAAA
1 AAAAATAAAAATAAGATAAAGATAAAA
806586 AATATTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 4 0.16
27 16 0.64
28 5 0.20
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (28 bp):
AAAAATAAAAATAAGATAAAGATAAAAC
Found at i:806577 original size:11 final size:11
Alignment explanation
Indices: 806510--806653 Score: 63
Period size: 11 Copynumber: 13.5 Consensus size: 11
806500 ATAGAATAAA
806510 AAAAATAAAAGT
1 AAAAATAAAA-T
*
806522 GAAAAT-AAAT
1 AAAAATAAAAT
806532 AAAAATAAAAAT
1 AAAAAT-AAAAT
* *
806544 AAAGA-AAAGT
1 AAAAATAAAAT
806554 AAAACA-AAAAT
1 AAAA-ATAAAAT
*
806565 AAAAATAAGAT
1 AAAAATAAAAT
*
806576 AAAGAT-AAA-
1 AAAAATAAAAT
* *
806585 AAATATTAAAT
1 AAAAATAAAAT
* **
806596 AAACATAATCT
1 AAAAATAAAAT
806607 AATAAAT-AAAT
1 AA-AAATAAAAT
* *
806618 AAAAAAATAAAC
1 AAAAATA-AAAT
*
806630 AAAAA-AAATT
1 AAAAATAAAAT
806640 AAAAA-AAAA-
1 AAAAATAAAAT
806649 AAAAA
1 AAAAA
806654 ACCTGGAGCG
Statistics
Matches: 101, Mismatches: 22, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
9 10 0.10
10 32 0.32
11 35 0.35
12 24 0.24
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:806626 original size:16 final size:15
Alignment explanation
Indices: 806523--806652 Score: 68
Period size: 16 Copynumber: 8.3 Consensus size: 15
806513 AATAAAAGTG
806523 AAAATAAATAAAAATA
1 AAAATAAATAAAAA-A
*
806539 AAAATAAAGAAAAGTAA
1 AAAATAAATAAAA--AA
*
806556 AACAA-AAATAAAAAT
1 AA-AATAAATAAAAAA
* *
806571 AAGATAAAGATAAAAA
1 AAAATAAATA-AAAAA
* *
806587 ATATTAAATAAACATAA
1 AAAATAAATAAA-A-AA
**
806604 TCTAATAAATAAATAAA
1 -AAAATAAATAAA-AAA
*
806621 AAAATAAA-CAAAAA
1 AAAATAAATAAAAAA
*
806635 AAATTAAA-AAAAAA
1 AAAATAAATAAAAAA
806649 AAAA
1 AAAA
806653 AACCTGGAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
14 19 0.22
15 11 0.13
16 29 0.33
17 14 0.16
18 14 0.16
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (15 bp):
AAAATAAATAAAAAA
Found at i:806636 original size:13 final size:13
Alignment explanation
Indices: 806618--806655 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
806608 ATAAATAAAT
806618 AAAAAAATAAACA
1 AAAAAAATAAACA
806631 AAAAAAATTAAA-A
1 AAAAAAA-TAAACA
*
806644 AAAAAAAAAAAC
1 AAAAAAATAAAC
806656 CTGGAGCGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 3 0.14
13 15 0.68
14 4 0.18
ACGTcount: A:0.87, C:0.05, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAAATAAACA
Found at i:807549 original size:29 final size:31
Alignment explanation
Indices: 807516--807589 Score: 107
Period size: 32 Copynumber: 2.4 Consensus size: 31
807506 TAATTAGAAC
*
807516 AGATAAATAAAAAAA-AA-AGATATATTATA
1 AGATAAATAAAAAAATAACAGATATATAATA
*
807545 AGATAAATAAAAAAAATAACAGATATATAATT
1 AGATAAAT-AAAAAAATAACAGATATATAATA
807577 AGATAAATAAAAA
1 AGATAAATAAAAA
807590 TACAAAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 8 0.20
30 7 0.17
31 7 0.17
32 18 0.45
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.23
Consensus pattern (31 bp):
AGATAAATAAAAAAATAACAGATATATAATA
Found at i:807590 original size:29 final size:29
Alignment explanation
Indices: 807516--807682 Score: 91
Period size: 32 Copynumber: 5.8 Consensus size: 29
807506 TAATTAGAAC
* *
807516 AGATAAATAAAAAAAAAAGATATATTATA
1 AGATAAATAAAAATAAAAGATATATAATA
* *
807545 AGATAAATAAAAAAAATAACAGATATATAATT
1 AGATAAAT---AAAAATAAAAGATATATAATA
* *
807577 AGATAAATAAAAATACAAAAATACATAA-A
1 AGATAAATAAAAATA-AAAGATATATAATA
* * *
807606 ATATAAAATAATAATAATA-ATA-ATAATA
1 AGAT-AAATAAAAATAAAAGATATATAATA
* ** *
807634 A-ATATATAACTATATAA-ATA-A-AATA
1 AGATAAATAAAAATAAAAGATATATAATA
807659 A-ATAAATAAATAA-ATAAAGATATA
1 AGATAAATAAA-AATA-AAAGATATA
807683 CATATATTAA
Statistics
Matches: 108, Mismatches: 20, Indels: 21
0.72 0.13 0.14
Matches are distributed among these distances:
25 13 0.12
26 16 0.15
27 9 0.08
28 6 0.06
29 20 0.19
30 19 0.18
32 25 0.23
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (29 bp):
AGATAAATAAAAATAAAAGATATATAATA
Found at i:807597 original size:66 final size:62
Alignment explanation
Indices: 807482--807656 Score: 147
Period size: 66 Copynumber: 2.7 Consensus size: 62
807472 AAAATCAAAT
* * * * *
807482 AAAT-ATAAAAAAAATGATAATAGATAATTAGA-ACAGATAAATAAAAAAAAAAGATATATTATA
1 AAATAATAAAAAAAATAATAATATATAATTAGATA-A-ATAAA-AAAAAAAAAACATAAAATATA
* * *
807545 AGATAAATAAAAAAAATAACAGATATATAATTAGATAAATAAAAATACAAAAATACATAAAATAT
1 AAAT-AATAAAAAAAATAATA-ATATATAATTAGATAAATAAAAA-A-AAAAAAACATAAAATAT
807610 A
62 A
* *
807611 AAATAATAATAATAATAATAATAAATATATAACTATATAAATAAAA
1 AAATAATAA-AA-AA-AATAAT-AATATATAATTAGATAAATAAAA
807657 TAAATAAATA
Statistics
Matches: 90, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
63 3 0.03
64 2 0.02
65 24 0.27
66 32 0.36
67 3 0.03
68 25 0.28
69 1 0.01
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (62 bp):
AAATAATAAAAAAAATAATAATATATAATTAGATAAATAAAAAAAAAAAAACATAAAATATA
Found at i:807619 original size:8 final size:8
Alignment explanation
Indices: 807594--807732 Score: 53
Period size: 8 Copynumber: 16.8 Consensus size: 8
807584 TAAAAATACA
807594 AAAATACAT
1 AAAATA-AT
807603 AAAAT-AT
1 AAAATAAT
807610 AAAATAAT
1 AAAATAAT
807618 --AATAAT
1 AAAATAAT
807624 AATAATAAT
1 AA-AATAAT
807633 -AAATATAT
1 AAAATA-AT
807641 AACTATATAAAT
1 AA--A-AT-AAT
807653 AAAATAA-
1 AAAATAAT
807660 ATAAATAA-
1 A-AAATAAT
807668 ATAAATAA-
1 A-AAATAAT
*
807676 AGATATACAT
1 A-AAATA-AT
* *
807686 ATATTAAT
1 AAAATAAT
*
807694 -AAATAGT
1 AAAATAAT
807701 AATAATAA-
1 AA-AATAAT
807709 ATAAATAAT
1 A-AAATAAT
807718 AAAATACAT
1 AAAATA-AT
807727 AAAATA
1 AAAATA
807733 CAAAAGAGAA
Statistics
Matches: 103, Mismatches: 9, Indels: 36
0.70 0.06 0.24
Matches are distributed among these distances:
6 6 0.06
7 16 0.16
8 40 0.39
9 31 0.30
10 2 0.02
11 1 0.01
12 6 0.06
13 1 0.01
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (8 bp):
AAAATAAT
Found at i:807654 original size:4 final size:4
Alignment explanation
Indices: 807630--807720 Score: 69
Period size: 4 Copynumber: 22.5 Consensus size: 4
807620 TAATAATAAT
* * * *
807630 AATA AATA TATA ACTA TATA AATAA AATA AATA AATA AATA AATA AAGA
1 AATA AATA AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AATA
* * * *
807679 TATA CATA TATT AATA AATA GTAAT- AATA AATA AAT- AATA AA
1 AATA AATA AATA AATA AATA --AATA AATA AATA AATA AATA AA
807721 ATACATAAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
3 6 0.09
4 55 0.81
5 4 0.06
6 3 0.04
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (4 bp):
AATA
Found at i:807675 original size:41 final size:40
Alignment explanation
Indices: 807547--807716 Score: 117
Period size: 41 Copynumber: 4.3 Consensus size: 40
807537 ATATTATAAG
* * * *
807547 ATAAATAAA-AAAAATA-ACAGATATATAATTAGATAAATA
1 ATAAATAAATAAAGATATACATATATA-AATAAAATAAATA
* * *
807586 A-AAATACAA-AAATACATAAAATATA-AAATAATAAT-AATA
1 ATAAATA-AATAAAGATAT-ACATATATAAATAA-AATAAATA
*
807625 ATA-AT-AATAAATATATA-ACTATATAAATAAAATAAATAA
1 ATAAATAAATAAAGATATACA-TATATAAATAAAATAAAT-A
*
807664 ATAAATAAATAAAGATATACATATATTAAT-AAATAGTAATA
1 ATAAATAAATAAAGATATACATATATAAATAAAATA--AATA
807705 ATAAATAAATAA
1 ATAAATAAATAA
807717 TAAAATACAT
Statistics
Matches: 107, Mismatches: 9, Indels: 28
0.74 0.06 0.19
Matches are distributed among these distances:
36 1 0.01
37 10 0.09
38 21 0.20
39 23 0.21
40 11 0.10
41 37 0.35
42 4 0.04
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (40 bp):
ATAAATAAATAAAGATATACATATATAAATAAAATAAATA
Found at i:807926 original size:7 final size:8
Alignment explanation
Indices: 807908--807937 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
807898 AACATTTTCA
*
807908 TTTTATGT
1 TTTTTTGT
807916 TTTTTTGT
1 TTTTTTGT
807924 TTTTTTGT
1 TTTTTTGT
807932 TTTTTT
1 TTTTTT
807938 TATTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (8 bp):
TTTTTTGT
Found at i:807937 original size:9 final size:9
Alignment explanation
Indices: 807915--807948 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
807905 TCATTTTATG
807915 TTTTTTTG-
1 TTTTTTTGT
807923 TTTTTTTGT
1 TTTTTTTGT
*
807932 TTTTTTTAT
1 TTTTTTTGT
807941 TTTTTTTG
1 TTTTTTTG
807949 ACCAAAGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:807943 original size:16 final size:16
Alignment explanation
Indices: 807902--807945 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
807892 CAATTCAACA
* *
807902 TTTTCATTTTATGTTT
1 TTTTTATTTTTTGTTT
807918 TTTTGT-TTTTTTGTTT
1 TTTT-TATTTTTTGTTT
807934 TTTTTATTTTTT
1 TTTTTATTTTTT
807946 TTGACCAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 1 0.04
16 23 0.96
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.84
Consensus pattern (16 bp):
TTTTTATTTTTTGTTT
Found at i:808137 original size:41 final size:41
Alignment explanation
Indices: 807955--808505 Score: 606
Period size: 41 Copynumber: 13.1 Consensus size: 41
807945 TTTGACCAAA
* * * * * *
807955 GCTCCTCTAAACAAAGGCTCAACGACTTTAAAAAAAAATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTT---GAAAAGTAAATT
* * * **
807999 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAAAAATAAAT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAAT---T
* * * *
808043 GACTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATT
1 G-CTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
*
808086 GCTCCTCTAAACAGAGGCACCATGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
808127 GCTCCTCTAAACAAAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
* *
808169 GCTCCTCTAAACAGAGGCACCACGACTTTGGTAAA-TAAAAT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
* * * ** *
808210 GCTCCTTTAATCAGAGGCAACAAAACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
808251 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAAAT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * * *
808292 GCTCCTTTAATCAGAGGTA--ACGAAACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAGTAAATT
* *
808333 ACTCCTCTAAACAGAGGCACCATGACTTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGA-AAAGTAAATT
* *
808376 GCTCCTCTAAACAGAGACACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
808417 GCTCCTCTAAATAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
808459 GCTCCTCTAAACAGAGGCACCACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
808500 GCTCCT
1 GCTCCT
808506 TGACAATCAT
Statistics
Matches: 441, Mismatches: 51, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.01
40 4 0.01
41 213 0.48
42 114 0.26
43 41 0.09
44 28 0.06
45 29 0.07
46 9 0.02
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:808171 original size:83 final size:83
Alignment explanation
Indices: 807955--808505 Score: 612
Period size: 83 Copynumber: 6.6 Consensus size: 83
807945 TTTGACCAAA
* * * ** * * * * *
807955 GCTCCTCTAAACAAAGGCTCAACGACTTTAAAAAAAAATAAATGGCTCCTCTAATCAGAGGCTCA
1 GCTCCTCTAAACAGAGGCACCACGACTTT--GGAAAAGTAAATTGCTCCTCTAAACAGAGGCACC
**
808020 ACGACTTTGAAAAAAAAATAAAT
64 ACGACTTTGAAAAGTAAAT---T
* * * * *
808043 GACTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
1 G-CTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
*
808108 TGACTTTGAAAAGTAAATT
65 CGACTTTGAAAAGTAAATT
*
808127 GCTCCTCTAAACAAAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
808192 GACTTTGGTAAA-TAAAAT
66 GACTTT-GAAAAGTAAATT
* * * **
808210 GCTCCTTTAATCAGAGGCAACAAAACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
808274 GACTTTGAAAAATAAAAT
66 GACTTTGAAAAGTAAATT
* * * *
808292 GCTCCTTTAATCAGAGGTA--ACGAAACTTTGG-AAAGTAAATTACTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACC
*
808354 ATGACTTTTGAGAAAGTAAATT
64 ACGAC-TTTGA-AAAGTAAATT
* * *
808376 GCTCCTCTAAACAGAGACACCACGACTTT-GAAAAATAAATTGCTCCTCTAAATAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
808440 GACTTTGAAAAAGTAAATT
66 GACTTTG-AAAAGTAAATT
*
808459 GCTCCTCTAAACAGAGGCACCACGACTTTTG-AAAGTAAATTGCTCCT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCT
808506 TGACAATCAT
Statistics
Matches: 408, Mismatches: 43, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
80 1 0.00
81 4 0.01
82 104 0.25
83 156 0.38
84 68 0.17
86 3 0.01
87 45 0.11
88 1 0.00
89 26 0.06
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.24
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
GACTTTGAAAAGTAAATT
Found at i:809797 original size:22 final size:22
Alignment explanation
Indices: 809769--809827 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
809759 CTTTTTTTCA
809769 TTTTTTCATTTCTTTCTT-TC-TC
1 TTTTTTC-TTT-TTTCTTGTCATC
*
809791 TTTTTTCTTTTTTTTTGTCATC
1 TTTTTTCTTTTTTCTTGTCATC
809813 TTTTTT-TTCTTTTCT
1 TTTTTTCTT-TTTTCT
809828 CATTTTTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 5 0.16
21 7 0.22
22 20 0.62
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTTTCTTTTTTCTTGTCATC
Found at i:813853 original size:57 final size:57
Alignment explanation
Indices: 813667--813884 Score: 332
Period size: 57 Copynumber: 3.8 Consensus size: 57
813657 TGTTCTTGTG
813667 TAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTATTG-AAATTTATTTT
1 TAAGGAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTT-TTGAAAATTTATTTT
*
813725 TAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAATTTTGATTTT
1 TAAGGAAAATTGATACTTTCAACTTTTTCC-CAAAAATA-TTTTTTGAAAATTT-ATTTT
* *
813784 CAAGGAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAATTTATTTT
1 TAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTATTTT
* *
813841 TAAGGAAAATTGATACTTTAAACTTTTCCCCAAAAATATTTTTT
1 TAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTT
813885 TTGAAACTTT
Statistics
Matches: 147, Mismatches: 8, Indels: 11
0.89 0.05 0.07
Matches are distributed among these distances:
57 61 0.41
58 46 0.31
59 35 0.24
60 5 0.03
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (57 bp):
TAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTATTTT
Found at i:813875 original size:116 final size:119
Alignment explanation
Indices: 813668--813901 Score: 404
Period size: 116 Copynumber: 2.0 Consensus size: 119
813658 GTTCTTGTGT
813668 AAGGAAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTATTGAAATTTATTTTTAAGGAAA
1 AAGGAAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTATTGAAATTTATTTTTAAGGAAA
* *
813733 ATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAA-TTTTGATTTTC
66 ATTGATACTTTAAACTTTTCCCCAAAAATATTTTTTTTGAAACTTTTGATTTTC
*
813785 AAGGAAAATTGATACTTTCAACTTTTTTCC-AAAAATATTTT-TTGAAAATTTATTTTTAAGGAA
1 AAGGAAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTATTG-AAATTTATTTTTAAGGAA
813848 AATTGATACTTTAAACTTTTCCCCAAAAATATTTTTTTTGAAACTTTTGATTTT
65 AATTGATACTTTAAACTTTTCCCCAAAAATATTTTTTTTGAAACTTTTGATTTT
813902 TATTTAAAGA
Statistics
Matches: 111, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
115 3 0.03
116 58 0.52
117 40 0.36
118 10 0.09
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.46
Consensus pattern (119 bp):
AAGGAAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTATTGAAATTTATTTTTAAGGAAA
ATTGATACTTTAAACTTTTCCCCAAAAATATTTTTTTTGAAACTTTTGATTTTC
Found at i:813933 original size:5 final size:5
Alignment explanation
Indices: 813911--814044 Score: 55
Period size: 5 Copynumber: 25.6 Consensus size: 5
813901 TTATTTAAAG
*
813911 AAAAT AGAAT AAAA- AAAAT AAAAGT GAAAAT -AAAT AAAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT -AAAAT -AAAAT
* * * *
813958 AAAGA- AAAGT AAAACA AAAAT AAAAAT AAGAT AAAGAT AAAA- AATAT
1 AAA-AT AAAAT AAAA-T AAAAT -AAAAT AAAAT AAA-AT AAAAT AAAAT
* *
814005 TAAAT AAACCT AATCTAAT -AAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAA-AT AA---AAT AAAAT AAAAT AAAAT AAAAT AAA
814045 CAAATAAACA
Statistics
Matches: 98, Mismatches: 14, Indels: 34
0.67 0.10 0.23
Matches are distributed among these distances:
4 18 0.18
5 43 0.44
6 30 0.31
7 5 0.05
8 1 0.01
9 1 0.01
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:813945 original size:16 final size:16
Alignment explanation
Indices: 813921--813982 Score: 70
Period size: 16 Copynumber: 3.8 Consensus size: 16
813911 AAAATAGAAT
*
813921 AAAAAAAATAAAAGTG
1 AAAAAAAATAAAAGTA
* *
813937 AAAATAAATAAAAATA
1 AAAAAAAATAAAAGTA
* *
813953 AAAATAAAGAAAAGTA
1 AAAAAAAATAAAAGTA
813969 AAACAAAAATAAAA
1 AAA-AAAAATAAAA
813983 ATAAGATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
16 30 0.79
17 8 0.21
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.13
Consensus pattern (16 bp):
AAAAAAAATAAAAGTA
Found at i:813951 original size:6 final size:6
Alignment explanation
Indices: 813924--814000 Score: 52
Period size: 6 Copynumber: 12.8 Consensus size: 6
813914 ATAGAATAAA
* * * *
813924 AAAAAT AAAAGT GAAAAT --AAAT AAAAAT AAAAAT AAAGAAA AGTAAAAC
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT A--AAAAT
* *
813973 AAAAAT AAAAAT -AAGAT AAAGAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
814001 ATATTAAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
4 4 0.07
5 4 0.07
6 41 0.72
7 3 0.05
8 3 0.05
9 2 0.04
ACGTcount: A:0.77, C:0.01, G:0.08, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:813976 original size:27 final size:28
Alignment explanation
Indices: 813946--813999 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
813936 GAAAATAAAT
813946 AAAAATAAAAATAAAGA-AAAG-TAAAAC
1 AAAAATAAAAAT-AAGATAAAGATAAAAC
813973 AAAAATAAAAATAAGATAAAGATAAAA
1 AAAAATAAAAATAAGATAAAGATAAAA
814000 AATATTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 4 0.16
27 16 0.64
28 5 0.20
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (28 bp):
AAAAATAAAAATAAGATAAAGATAAAAC
Found at i:813991 original size:11 final size:11
Alignment explanation
Indices: 813924--813999 Score: 59
Period size: 11 Copynumber: 6.9 Consensus size: 11
813914 ATAGAATAAA
813924 AAAAATAAAAGT
1 AAAAATAAAA-T
*
813936 GAAAAT-AAAT
1 AAAAATAAAAT
813946 AAAAATAAAAAT
1 AAAAAT-AAAAT
* *
813958 AAAGA-AAAGT
1 AAAAATAAAAT
813968 AAAACA-AAAAT
1 AAAA-ATAAAAT
*
813979 AAAAATAAGAT
1 AAAAATAAAAT
*
813990 AAAGATAAAA
1 AAAAATAAAA
814000 AATATTAAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
10 14 0.27
11 24 0.47
12 13 0.25
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.14
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:814973 original size:28 final size:27
Alignment explanation
Indices: 814941--814996 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
814931 AAATGATAAT
814941 AGATA-ATTAGAACAGATAAATAAAAAAA
1 AGATATATTA-AA-AGATAAATAAAAAAA
* *
814969 AGATATATTATAGGATAAATAAAAAAA
1 AGATATATTAAAAGATAAATAAAAAAA
814996 A
1 A
814997 TAACAGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.60
28 6 0.24
29 4 0.16
ACGTcount: A:0.66, C:0.02, G:0.11, T:0.21
Consensus pattern (27 bp):
AGATATATTAAAAGATAAATAAAAAAA
Found at i:815007 original size:32 final size:30
Alignment explanation
Indices: 814918--815025 Score: 94
Period size: 32 Copynumber: 3.4 Consensus size: 30
814908 TAAAAATCAA
* *
814918 ATAAATATAAAAAAAATGATAATAGATAATTAG
1 ATAAATAAAAAAAAAAAGAT-AT--ATAATTAG
*
814951 A-ACAGATAAATAAAAAAAAGATATATTA-TAGG
1 ATA-A-ATAAA-AAAAAAAAGATATATAATTA-G
814983 ATAAATAAAAAAAATAACAGATATATAATTAG
1 ATAAATAAAAAAAA-AA-AGATATATAATTAG
815015 ATAAATAAAAA
1 ATAAATAAAAA
815026 TACAAAAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
30 5 0.08
31 9 0.14
32 28 0.44
33 5 0.08
34 6 0.10
35 10 0.16
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (30 bp):
ATAAATAAAAAAAAAAAGATATATAATTAG
Found at i:815038 original size:12 final size:12
Alignment explanation
Indices: 815017--815161 Score: 79
Period size: 12 Copynumber: 11.8 Consensus size: 12
815007 ATAATTAGAT
815017 AAATAA-AAATA
1 AAATAATAAATA
815028 CAAA-AATAAATA
1 -AAATAATAAATA
815040 AAATAAT-AATA
1 AAATAATAAATA
815051 ATAATAATAATAATA
1 A-AATAAT-A-AATA
815066 ATAATAATAAAT-
1 A-AATAATAAATA
* *
815078 ATATAACTATATA
1 AAATAA-TAAATA
815091 AAATAAATAAAT-
1 AAAT-AATAAATA
815103 AAATAAATAAATA
1 AAAT-AATAAATA
*
815116 AAGAT-ATACATA
1 AA-ATAATAAATA
* *
815128 TATTAATAAATA
1 AAATAATAAATA
* *
815140 GTAATAACAAAT-
1 -AAATAATAAATA
*
815152 CAATAATAAA
1 AAATAATAAA
815162 ATACATAAAA
Statistics
Matches: 108, Mismatches: 12, Indels: 27
0.73 0.08 0.18
Matches are distributed among these distances:
11 23 0.21
12 47 0.44
13 21 0.19
14 5 0.05
15 12 0.11
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (12 bp):
AAATAATAAATA
Found at i:815042 original size:9 final size:9
Alignment explanation
Indices: 814983--815117 Score: 73
Period size: 9 Copynumber: 14.0 Consensus size: 9
814973 ATATTATAGG
814983 ATAAATAAA
1 ATAAATAAA
*
814992 AAAAATAACA
1 ATAAATAA-A
*
815002 GATATATAATTA
1 -ATAAATAA--A
815014 GATAAATAAAA
1 -ATAAAT-AAA
*
815025 ATACA-AAA
1 ATAAATAAA
815033 ATAAATAAA
1 ATAAATAAA
815042 AT-AATAATA
1 ATAAATAA-A
815051 AT-AATAATA
1 ATAAATAA-A
815060 ATAATAATAATA
1 AT-A-AATAA-A
815072 ATAAATATATA
1 ATAAATA-A-A
*
815083 ACTATATAAA
1 A-TAAATAAA
815093 ATAAAT-AA
1 ATAAATAAA
815101 ATAAAT-AA
1 ATAAATAAA
815109 ATAAATAAA
1 ATAAATAAA
815118 GATATACATA
Statistics
Matches: 105, Mismatches: 9, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
8 28 0.27
9 30 0.29
10 11 0.10
11 13 0.12
12 21 0.20
13 2 0.02
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.27
Consensus pattern (9 bp):
ATAAATAAA
Found at i:815049 original size:3 final size:3
Alignment explanation
Indices: 815036--815075 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
815026 TACAAAAATA
815036 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
815076 ATATATAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:835776 original size:39 final size:39
Alignment explanation
Indices: 835719--835794 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
835709 AAACACTTCT
*
835719 CCAACTCCCTTTCAAGTCCAAAACGTCCAACCAGATCTC
1 CCAACTCCCTTTCAAGTCCAAAACATCCAACCAGATCTC
* *
835758 CCAACTCCTTTTCCAGTCCAAAACATCCAACCAGATC
1 CCAACTCCCTTTCAAGTCCAAAACATCCAACCAGATC
835795 CTCCATGCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.32, C:0.41, G:0.07, T:0.21
Consensus pattern (39 bp):
CCAACTCCCTTTCAAGTCCAAAACATCCAACCAGATCTC
Found at i:845439 original size:30 final size:30
Alignment explanation
Indices: 845383--845444 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
845373 TTTTATTGAA
**
845383 TTTTTTTTTCAATTACAGTTACAATAAATT
1 TTTTTTTTTCAATTACAACTACAATAAATT
* *
845413 TTTTTTTTTCAATTACAACTATAATAACTT
1 TTTTTTTTTCAATTACAACTACAATAAATT
845443 TT
1 TT
845445 ATTATTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTTTTTTTCAATTACAACTACAATAAATT
Found at i:855110 original size:2 final size:2
Alignment explanation
Indices: 855103--855130 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
855093 TTAAGTTTAG
855103 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
855131 TAAATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:855350 original size:29 final size:28
Alignment explanation
Indices: 855281--855350 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
855271 TACAAATAAA
*
855281 AAATTAAAT-TTTAAAATTTAATGAATT
1 AAATTAAATAATTAAAATTTAATGAATT
* *
855308 AAATTAAATCATTAAAATTTCATTGAATT
1 AAATTAAATAATTAAAATTT-AATGAATT
* *
855337 GAATTATATAATTA
1 AAATTAAATAATTA
855351 TTTAAATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 9 0.25
28 9 0.25
29 18 0.50
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (28 bp):
AAATTAAATAATTAAAATTTAATGAATT
Found at i:855384 original size:8 final size:8
Alignment explanation
Indices: 855371--855395 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
855361 ATTTAAATTA
855371 AATTTTAT
1 AATTTTAT
855379 AATTTTAT
1 AATTTTAT
855387 AATTTTAT
1 AATTTTAT
855395 A
1 A
855396 TATTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
AATTTTAT
Found at i:859686 original size:3 final size:3
Alignment explanation
Indices: 859678--859703 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
859668 ATTCTAGTTT
859678 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
859704 GTGGATACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:867836 original size:178 final size:178
Alignment explanation
Indices: 867528--867855 Score: 543
Period size: 178 Copynumber: 1.8 Consensus size: 178
867518 TGAGAACAAG
* * *
867528 TCAGCCCTGCAGGAAGGACAGATATTCGAGTCCAACACATTATAAAGCAGTGAATTGCATGTATA
1 TCAGCCCTGCAGGAAGGACAGATATTAGAGGCCAACACATTATAAAGAAGTGAATTGCATGTATA
*
867593 TCCAATGCACTATTTGATCTTGTTTACATCGACAAGATAGCATAAGGTATGAAAATGGAATCAT-
66 TCCAATGCACTATCTGATCTTGTTTACATCGACAAGATAGCATAAGGTATGAAAATGGAATCATA
867657 AAACAAGCATAATAAAAGAATGCTTACTGGCTACGTATTTAAACATAA
131 AAACAAGCATAATAAAAGAATGCTTACTGGCTACGTATTTAAACATAA
* * *
867705 TCAGTCCTGTAGGAAGGACAGATATTAGAGGCCGACACATTATAAAGAAGTGAATTGCATGTCAT
1 TCAGCCCTGCAGGAAGGACAGATATTAGAGGCCAACACATTATAAAGAAGTGAATTGCATGT-AT
*
867770 ATCCAATGCACTATCTGATCTTGTTTGCAAT-GACAAGATAGCATAAGGTATGAAAATGGAATCA
65 ATCCAATGCACTATCTGATCTTGTTTAC-ATCGACAAGATAGCATAAGGTATGAAAATGGAATCA
*
867834 TAAAACAAGCATAATAACAGAA
129 TAAAACAAGCATAATAAAAGAA
867856 CAAACCAGTT
Statistics
Matches: 139, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
177 56 0.40
178 62 0.45
179 21 0.15
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (178 bp):
TCAGCCCTGCAGGAAGGACAGATATTAGAGGCCAACACATTATAAAGAAGTGAATTGCATGTATA
TCCAATGCACTATCTGATCTTGTTTACATCGACAAGATAGCATAAGGTATGAAAATGGAATCATA
AAACAAGCATAATAAAAGAATGCTTACTGGCTACGTATTTAAACATAA
Found at i:875345 original size:22 final size:23
Alignment explanation
Indices: 875303--875348 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
875293 TTTATTAAAC
875303 AAAAATTATTTAATTCAAAATTA
1 AAAAATTATTTAATTCAAAATTA
*
875326 AAAAATT-TTATAATT-TAAATTA
1 AAAAATTATT-TAATTCAAAATTA
875348 A
1 A
875349 TTGTAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAAATTATTTAATTCAAAATTA
Found at i:877854 original size:105 final size:105
Alignment explanation
Indices: 877698--877911 Score: 338
Period size: 105 Copynumber: 2.0 Consensus size: 105
877688 TTTTAATACC
* * * * *
877698 ACAATTGCATCAAATAAATCGGTTTACATACATAAGTGATGCAACAAATTAATCACACTGAATAG
1 ACAATTGCATCAAACAAATCGGTCTACATACACAAGTGATGAAACAAATTAATCACACTGAACAG
877763 CAAGCAAGGCCACAAAAACTTAATACAAATCATTATACGA
66 CAAGCAAGGCCACAAAAACTTAATACAAATCATTATACGA
* * *
877803 ACAATTGCATCAAGCCAATCGGTCTACATACACAAGTGATGAAACAAATTAATCACATTGAACAG
1 ACAATTGCATCAAACAAATCGGTCTACATACACAAGTGATGAAACAAATTAATCACACTGAACAG
* *
877868 CAAGCTATGCCACAAAAACTTAATACAAATCATTATACGA
66 CAAGCAAGGCCACAAAAACTTAATACAAATCATTATACGA
877908 ACAA
1 ACAA
877912 GAATGTAAAC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 99 1.00
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.22
Consensus pattern (105 bp):
ACAATTGCATCAAACAAATCGGTCTACATACACAAGTGATGAAACAAATTAATCACACTGAACAG
CAAGCAAGGCCACAAAAACTTAATACAAATCATTATACGA
Found at i:879608 original size:21 final size:23
Alignment explanation
Indices: 879567--879620 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
879557 ATAATTATTT
* * *
879567 TATATATAAATTTATTCAAAT-A
1 TATATAAAAACTTATTAAAATAA
879589 TAT-TAAAAACTTATTAAAATAA
1 TATATAAAAACTTATTAAAATAA
879611 TATATAAAAA
1 TATATAAAAA
879621 ATAAAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.52
22 7 0.26
23 6 0.22
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (23 bp):
TATATAAAAACTTATTAAAATAA
Found at i:880108 original size:9 final size:9
Alignment explanation
Indices: 880094--880124 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
880084 TCAATATATT
880094 ATAATTAAA
1 ATAATTAAA
880103 ATAATTAAA
1 ATAATTAAA
880112 ATATATTAAA
1 ATA-ATTAAA
880122 ATA
1 ATA
880125 TAAAATTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
ATAATTAAA
Found at i:880121 original size:10 final size:10
Alignment explanation
Indices: 880097--880126 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
880087 ATATATTATA
880097 ATTAAAATA-
1 ATTAAAATAT
880106 ATTAAAATAT
1 ATTAAAATAT
880116 ATTAAAATAT
1 ATTAAAATAT
880126 A
1 A
880127 AAATTTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:881169 original size:22 final size:24
Alignment explanation
Indices: 881125--881171 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
881115 AATTTTTATT
* *
881125 TTTATATATTATTTGAATGTAAAA
1 TTTATATATTATTTAAATATAAAA
881149 TTTA-ATA-TATTTAAATATAAAA
1 TTTATATATTATTTAAATATAAAA
881171 T
1 T
881172 AATTATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 3 0.14
24 4 0.19
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
TTTATATATTATTTAAATATAAAA
Found at i:881272 original size:13 final size:13
Alignment explanation
Indices: 881253--881288 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
881243 TAATTTTTTT
881253 TAAATTTAATATA
1 TAAATTTAATATA
* *
881266 TATATTTAATATC
1 TAAATTTAATATA
881279 TAAATTTAAT
1 TAAATTTAAT
881289 TTAAATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAATTTAATATA
Found at i:881820 original size:2 final size:2
Alignment explanation
Indices: 881813--881837 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
881803 ACAGATTGAT
881813 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
881838 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:886255 original size:2 final size:2
Alignment explanation
Indices: 886248--886282 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
886238 CTTCGGGGAG
886248 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
886283 GTTTATATTC
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:886327 original size:98 final size:98
Alignment explanation
Indices: 886164--886346 Score: 366
Period size: 98 Copynumber: 1.9 Consensus size: 98
886154 TGGGTAAAGT
886164 TATATATATATATATATATATGTTTATATTCAATCCCTTCTGATACAATCATAGCTAATAAATGA
1 TATATATATATATATATATATGTTTATATTCAATCCCTTCTGATACAATCATAGCTAATAAATGA
886229 ATCTAGTTTCTTCGGGGAGTATATATATATATA
66 ATCTAGTTTCTTCGGGGAGTATATATATATATA
886262 TATATATATATATATATATATGTTTATATTCAATCCCTTCTGATACAATCATAGCTAATAAATGA
1 TATATATATATATATATATATGTTTATATTCAATCCCTTCTGATACAATCATAGCTAATAAATGA
886327 ATCTAGTTTCTTCGGGGAGT
66 ATCTAGTTTCTTCGGGGAGT
886347 CTATCATTTA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.42
Consensus pattern (98 bp):
TATATATATATATATATATATGTTTATATTCAATCCCTTCTGATACAATCATAGCTAATAAATGA
ATCTAGTTTCTTCGGGGAGTATATATATATATA
Found at i:886604 original size:2 final size:2
Alignment explanation
Indices: 886597--886640 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
886587 GGGCTGAGGC
* * * *
886597 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT TT AT GT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
886639 AT
1 AT
886641 CTCGATGGGC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (2 bp):
AT
Found at i:890969 original size:2 final size:2
Alignment explanation
Indices: 890962--890986 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
890952 TCAGCAGAGC
890962 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
890987 GTTTAAGCCC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:895404 original size:33 final size:32
Alignment explanation
Indices: 895367--895428 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
895357 TTGGTGAATA
* * *
895367 AGATGATGTTATCTTATTAATGAAGTAAATATC
1 AGATGATGTCACCATATTAATG-AGTAAATATC
895400 AGATGATGTCACCATATTAATGAGTAAAT
1 AGATGATGTCACCATATTAATGAGTAAAT
895429 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 7 0.27
33 19 0.73
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.35
Consensus pattern (32 bp):
AGATGATGTCACCATATTAATGAGTAAATATC
Found at i:900349 original size:26 final size:26
Alignment explanation
Indices: 900319--900369 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
900309 CAAATAAAAT
*
900319 TTTTTAATAAATTATTTAAATTGAATA
1 TTTTGAAT-AATTATTTAAATTGAATA
*
900346 TTTTGGATAATTATTTAAATTGAA
1 TTTTGAATAATTATTTAAATTGAA
900370 ATCAATTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (26 bp):
TTTTGAATAATTATTTAAATTGAATA
Found at i:901345 original size:2 final size:2
Alignment explanation
Indices: 901333--901363 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
901323 GTTCAATTAA
*
901333 AT AT AT TT 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
901364 CCATCTAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:901512 original size:19 final size:21
Alignment explanation
Indices: 901485--901525 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
901475 GCAAACAAAT
*
901485 TGAAGAAAAT-ATTTTT-TAA
1 TGAAAAAAATCATTTTTATAA
901504 TGAAAAAAATCATTTTTATAA
1 TGAAAAAAATCATTTTTATAA
901525 T
1 T
901526 TCTTGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 6 0.32
21 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.41
Consensus pattern (21 bp):
TGAAAAAAATCATTTTTATAA
Found at i:901677 original size:22 final size:21
Alignment explanation
Indices: 901643--901683 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
901633 GATAAATACT
*
901643 TAAAAAATAAATTTAAAATTA
1 TAAAAAATAAATTAAAAATTA
*
901664 TAAAAAATTTAATTAAAAAT
1 TAAAAAA-TAAATTAAAAAT
901684 CTCGTACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TAAAAAATAAATTAAAAATTA
Found at i:901802 original size:25 final size:25
Alignment explanation
Indices: 901755--901827 Score: 84
Period size: 25 Copynumber: 3.0 Consensus size: 25
901745 GCATACATAT
901755 TTATATTATATTTTA-AT-AA-AAA
1 TTATATTATATTTTATATAAATAAA
901777 TTATATTAT-TTTTATATCAAATAAA
1 TTATATTATATTTTATAT-AAATAAA
*
901802 TTAT-TAATATTTTATATAATATAAA
1 TTATATTATATTTTATATAA-ATAAA
901827 T
1 T
901828 ACACGAATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
21 5 0.11
22 11 0.25
24 7 0.16
25 21 0.48
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (25 bp):
TTATATTATATTTTATATAAATAAA
Found at i:904033 original size:24 final size:25
Alignment explanation
Indices: 903981--904034 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
903971 GAAAATGAGG
903981 AAAAAATAGAGAAAGAAAATCAAAT
1 AAAAAATAGAGAAAGAAAATCAAAT
* *
904006 -AAAAATAG-TAACGAAAA-CAAAGT
1 AAAAAATAGAGAAAGAAAATCAAA-T
904029 AAAAAA
1 AAAAAA
904035 AAAAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 4 0.16
23 8 0.32
24 13 0.52
ACGTcount: A:0.72, C:0.06, G:0.11, T:0.11
Consensus pattern (25 bp):
AAAAAATAGAGAAAGAAAATCAAAT
Found at i:904044 original size:23 final size:23
Alignment explanation
Indices: 903992--904044 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
903982 AAAAATAGAG
* **
903992 AAAGAAAATCAAATAAAAATAGT
1 AAAGAAAATCAAATAAAAAAAAA
*
904015 AACGAAAA-CAAAGTAAAAAAAAA
1 AAAGAAAATCAAA-TAAAAAAAAA
904038 AAAGAAA
1 AAAGAAA
904045 CATTGGTAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.75, C:0.06, G:0.09, T:0.09
Consensus pattern (23 bp):
AAAGAAAATCAAATAAAAAAAAA
Found at i:905599 original size:2 final size:2
Alignment explanation
Indices: 905592--905622 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
905582 TTATTGAATT
905592 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 T
905623 CAATGGATAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:908095 original size:29 final size:29
Alignment explanation
Indices: 908061--908126 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
908051 TATACTGTTA
* * *
908061 TTTTATTTTTCTTAAATAAATTTTTATAT
1 TTTTATTTTACTCAAATAAATTATTATAT
*
908090 TTTTATTTTACTCAAATAAATTATTATCT
1 TTTTATTTTACTCAAATAAATTATTATAT
*
908119 TTTGATTT
1 TTTTATTT
908127 CTATCCATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTTATTTTACTCAAATAAATTATTATAT
Found at i:908864 original size:15 final size:14
Alignment explanation
Indices: 908837--908874 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
908827 AATATGATAT
908837 TAAAATAATAAAAA
1 TAAAATAATAAAAA
908851 TAAAATATATAAAAA
1 TAAAATA-ATAAAAA
*
908866 TAATATAAT
1 TAAAATAAT
908875 TTAAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAATAATAAAAA
Found at i:909003 original size:20 final size:19
Alignment explanation
Indices: 908953--909005 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
908943 ATTATAATAC
908953 ATAAT-TTTTATATAAAAT
1 ATAATATTTTATATAAAAT
* * *
908971 ATAAAATAATTATATAAATT
1 ATAATAT-TTTATATAAAAT
908991 ATTAATATTTTATAT
1 A-TAATATTTTATAT
909006 TATATAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 4 0.15
19 1 0.04
20 17 0.63
21 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAATATTTTATATAAAAT
Found at i:912592 original size:41 final size:41
Alignment explanation
Indices: 912535--912617 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
912525 GAACTTTTGG
912535 AGTTTAACTAAGGCCTAGCAATGATGAAATCATTAACATAT
1 AGTTTAACTAAGGCCTAGCAATGATGAAATCATTAACATAT
912576 AGTTTAACTAAGGCCTAGCAATGATGAAATCATTAACATAT
1 AGTTTAACTAAGGCCTAGCAATGATGAAATCATTAACATAT
912617 A
1 A
912618 ATAAGGAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.29
Consensus pattern (41 bp):
AGTTTAACTAAGGCCTAGCAATGATGAAATCATTAACATAT
Found at i:918523 original size:24 final size:25
Alignment explanation
Indices: 918471--918524 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
918461 GAAAATGAGG
918471 AAAAAATAGAGAAAGAAAATCAAAT
1 AAAAAATAGAGAAAGAAAATCAAAT
* *
918496 -AAAAATAG-TAACGAAAA-CAAAGT
1 AAAAAATAGAGAAAGAAAATCAAA-T
918519 AAAAAA
1 AAAAAA
918525 AAGAAACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 4 0.16
23 8 0.32
24 13 0.52
ACGTcount: A:0.72, C:0.06, G:0.11, T:0.11
Consensus pattern (25 bp):
AAAAAATAGAGAAAGAAAATCAAAT
Found at i:919099 original size:16 final size:17
Alignment explanation
Indices: 919073--919104 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
919063 TTAAAATTTT
919073 TTATATTATTTTTTCTC
1 TTATATTATTTTTTCTC
919090 TTAT-TTATTTTTTCT
1 TTATATTATTTTTTCT
919105 AATATGCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (17 bp):
TTATATTATTTTTTCTC
Found at i:920083 original size:2 final size:2
Alignment explanation
Indices: 920076--920108 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
920066 AAATTCCTTT
920076 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 T
920109 CAATGGATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:922582 original size:29 final size:29
Alignment explanation
Indices: 922548--922613 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
922538 TATACTGTTA
* *
922548 TTTTATTTTTCTTAAATAAATTTTTATAT
1 TTTTATTTTACTCAAATAAATTTTTATAT
*
922577 TTTTATTTTACTCAAATAAATTTTTATCT
1 TTTTATTTTACTCAAATAAATTTTTATAT
*
922606 TTTGATTT
1 TTTTATTT
922614 CTATCCATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.64
Consensus pattern (29 bp):
TTTTATTTTACTCAAATAAATTTTTATAT
Found at i:923372 original size:18 final size:18
Alignment explanation
Indices: 923345--923404 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
923335 ATGTTAAAAT
923345 AATATAAATAAAATATATAA
1 AATAT-AATAAAAT-TATAA
*
923365 AA-ATAATATAATT-TAA
1 AATATAATAAAATTATAA
*
923381 AATTTTAATAAAATTTATAA
1 AA-TATAATAAAA-TTATAA
923401 AATA
1 AATA
923405 AATTTAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
16 5 0.16
17 1 0.03
18 14 0.44
19 5 0.16
20 7 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATAATAAAATTATAA
Found at i:923406 original size:14 final size:14
Alignment explanation
Indices: 923387--923428 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
923377 TTAAAATTTT
923387 AATAAAATTTATAA
1 AATAAAATTTATAA
923401 AAT-AAATTTAATAA
1 AATAAAATTT-ATAA
*
923415 AATTAAAATATATA
1 AA-TAAAATTTATA
923429 TTTTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 6 0.25
14 9 0.38
15 4 0.17
16 5 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATAAAATTTATAA
Found at i:923468 original size:25 final size:23
Alignment explanation
Indices: 923440--923489 Score: 55
Period size: 25 Copynumber: 2.1 Consensus size: 23
923430 TTTATATATT
* *
923440 TTTTGATATTAATTATAATACATAA
1 TTTTGATATAAAATATAA-A-ATAA
*
923465 TTTTTATATAAAATATAAAATAA
1 TTTTGATATAAAATATAAAATAA
923488 TT
1 TT
923490 ATATAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 6 0.27
24 1 0.05
25 15 0.68
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTTGATATAAAATATAAAATAA
Found at i:923511 original size:20 final size:19
Alignment explanation
Indices: 923461--923512 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
923451 ATTATAATAC
923461 ATAAT-TTTTATATAAAAT
1 ATAATATTTTATATAAAAT
* * *
923479 ATAAAATAATTATATAAATT
1 ATAATAT-TTTATATAAAAT
923499 ATTAATATTTTATA
1 A-TAATATTTTATA
923513 CTATATAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 4 0.15
19 1 0.04
20 16 0.62
21 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAATATTTTATATAAAAT
Found at i:936369 original size:22 final size:22
Alignment explanation
Indices: 936344--936392 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
936334 AATTTGACAC
*
936344 AATAATAAATTAATTAAATTCA
1 AATAATAAATTAATCAAATTCA
* * * *
936366 AATATTTATTTGATCAAATTCA
1 AATAATAAATTAATCAAATTCA
936388 AATAA
1 AATAA
936393 CTCATAAATA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (22 bp):
AATAATAAATTAATCAAATTCA
Found at i:938049 original size:30 final size:30
Alignment explanation
Indices: 938015--938074 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
938005 AATATTGGAG
*
938015 TAAATAATTTTAAATTTTTTAA-TATTTTTA
1 TAAATAATATT-AATTTTTTAATTATTTTTA
*
938045 TAAATCATATTAATTTTTTAATTATTTTTA
1 TAAATAATATTAATTTTTTAATTATTTTTA
938075 ATATATTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (30 bp):
TAAATAATATTAATTTTTTAATTATTTTTA
Found at i:948056 original size:13 final size:13
Alignment explanation
Indices: 948040--948064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
948030 ATATAAAATA
948040 TTTTTAAATTAAT
1 TTTTTAAATTAAT
948053 TTTTTAAATTAA
1 TTTTTAAATTAA
948065 AATATTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTTAAATTAAT
Found at i:948416 original size:2 final size:2
Alignment explanation
Indices: 948409--948464 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
948399 TGCTAAACTG
948409 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
948451 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
948465 TAGAACAAGC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:950786 original size:2 final size:2
Alignment explanation
Indices: 950781--950812 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
950771 TGTGTGTGTC
950781 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
950813 AAGTTAAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:958697 original size:16 final size:16
Alignment explanation
Indices: 958662--958699 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
958652 TAAATTAATT
*
958662 TATATTTATATATTTG
1 TATATTTATATATTTC
958678 TATATTTA-ATATTATC
1 TATATTTATATATT-TC
958694 TATATT
1 TATATT
958700 AGTTGCTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (16 bp):
TATATTTATATATTTC
Found at i:961577 original size:22 final size:22
Alignment explanation
Indices: 961547--961590 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
961537 AGACATTCTG
*
961547 CCAATAAATCACGTAGTTGTTA
1 CCAACAAATCACGTAGTTGTTA
*
961569 CCAACAAATCACGTGGTTGTTA
1 CCAACAAATCACGTAGTTGTTA
961591 GCACAATCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (22 bp):
CCAACAAATCACGTAGTTGTTA
Found at i:966247 original size:6 final size:6
Alignment explanation
Indices: 966226--966288 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
966216 TAATTTTTTT
* * *
966226 ATTT-A ATTTGA A-TTAA ATTTAA ATATTAA ATATAT ATATTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA AT-TTAA ATTTAA
966274 A-TTAA ATTTTAA ATT
1 ATTTAA A-TTTAA ATT
966289 AGATAGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
5 13 0.28
6 19 0.40
7 15 0.32
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (6 bp):
ATTTAA
Found at i:966253 original size:13 final size:13
Alignment explanation
Indices: 966237--966287 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
966227 TTTAATTTGA
966237 ATTAAATTTAAAT
1 ATTAAATTTAAAT
* *
966250 ATTAAATATATAT
1 ATTAAATTTAAAT
966263 ATTAAATTT-AA-
1 ATTAAATTTAAAT
966274 ATTAAATTTTAAAT
1 ATTAAA-TTTAAAT
966288 TAGATAGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
11 6 0.19
12 4 0.13
13 21 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTAAATTTAAAT
Found at i:966277 original size:11 final size:11
Alignment explanation
Indices: 966230--966289 Score: 57
Period size: 13 Copynumber: 5.0 Consensus size: 11
966220 TTTTTTATTT
*
966230 AATTTGAATTA
1 AATTTAAATTA
966241 AATTTAAATATTA
1 AATTT-AA-ATTA
*
966254 AATATATATATTA
1 AAT-T-TAAATTA
966267 AATTTAAATTA
1 AATTTAAATTA
966278 AATTTTAAATTA
1 AA-TTTAAATTA
966290 GATAGTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
11 13 0.32
12 11 0.27
13 14 0.34
14 2 0.05
15 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:966397 original size:21 final size:25
Alignment explanation
Indices: 966365--966422 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 25
966355 ATAAAAATTT
*
966365 TATATCAAAATTTAT-TT-AAAT-A
1 TATATAAAAATTTATATTAAAATAA
966387 TAT-TAAAAATTTATATTAAAATAA
1 TATATAAAAATTTATATTAAAATAA
966411 TATATAAAAATT
1 TATATAAAAATT
966423 AAAAAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 10 0.32
22 5 0.16
23 4 0.13
24 4 0.13
25 8 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TATATAAAAATTTATATTAAAATAA
Found at i:966428 original size:33 final size:32
Alignment explanation
Indices: 966349--966428 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 32
966339 TTTTTATAAA
* *
966349 ATAAAAA-TAAAAATTTTATATCAAAATTTAT
1 ATAAAAATTAAAAAATTTATATCAAAATATAT
* *
966380 TTAAATATATT-AAAAATTTATATTAAAATAATAT
1 ATAAA-A-ATTAAAAAATTTATATCAAAAT-ATAT
966414 ATAAAAATTAAAAAA
1 ATAAAAATTAAAAAA
966429 ATTAATAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
31 4 0.10
32 4 0.10
33 23 0.59
34 8 0.21
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (32 bp):
ATAAAAATTAAAAAATTTATATCAAAATATAT
Found at i:969859 original size:2 final size:2
Alignment explanation
Indices: 969852--969877 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
969842 TCATCTTTAT
969852 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
969878 GAGTAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:971021 original size:3 final size:3
Alignment explanation
Indices: 971013--971053 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
971003 TTTTCAATTG
971013 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
971054 GCAAGACTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:972357 original size:2 final size:2
Alignment explanation
Indices: 972352--972376 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
972342 TGTGTGTGTC
972352 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
972377 CGAGATGTGT
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:977463 original size:21 final size:20
Alignment explanation
Indices: 977439--977480 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
977429 GAAAAACTTT
*
977439 ATTTTTATAAAAATATATTAA
1 ATTTTTATAAAAAAAT-TTAA
*
977460 ATTTTTTTAAAAAAATTTAA
1 ATTTTTATAAAAAAATTTAA
977480 A
1 A
977481 GATATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTTTTATAAAAAAATTTAA
Found at i:985509 original size:13 final size:13
Alignment explanation
Indices: 985470--985513 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
985460 ATTTATTAAA
985470 ATTATTTTGAATGT
1 ATTATTTTGAAT-T
*
985484 ATGATTTTGAATT
1 ATTATTTTGAATT
*
985497 ATTATTTTTAATT
1 ATTATTTTGAATT
985510 ATTA
1 ATTA
985514 AATATGAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (13 bp):
ATTATTTTGAATT
Found at i:990256 original size:17 final size:17
Alignment explanation
Indices: 990234--990266 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
990224 ACATTTTACA
990234 ATATACAAATGAATTTC
1 ATATACAAATGAATTTC
990251 ATATACAAATGAATTT
1 ATATACAAATGAATTT
990267 AGGATGTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATACAAATGAATTTC
Found at i:990628 original size:5 final size:5
Alignment explanation
Indices: 990618--990643 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
990608 GATTATCATT
990618 CTATC CTATC CTATC CTATC CTATC C
1 CTATC CTATC CTATC CTATC CTATC C
990644 ATCATCTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.42, G:0.00, T:0.38
Consensus pattern (5 bp):
CTATC
Found at i:993124 original size:17 final size:17
Alignment explanation
Indices: 993102--993154 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
993092 TGCGGCTATG
993102 AAATAATTGATAATTTA
1 AAATAATTGATAATTTA
* *
993119 AAATAAAT-AT-A-TTG
1 AAATAATTGATAATTTA
*
993133 ATATAATTGATAATTTA
1 AAATAATTGATAATTTA
993150 AAATA
1 AAATA
993155 TAATATATTG
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
14 8 0.30
15 3 0.11
16 3 0.11
17 13 0.48
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (17 bp):
AAATAATTGATAATTTA
Found at i:993142 original size:31 final size:32
Alignment explanation
Indices: 993104--993171 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 32
993094 CGGCTATGAA
993104 ATAATTGATAATTTAAAATA-AATATATTGAT
1 ATAATTGATAATTTAAAATATAATATATTGAT
993135 ATAATTGATAATTTAAAATATAATATATTGAT
1 ATAATTGATAATTTAAAATATAATATATTGAT
993167 ATAAT
1 ATAAT
993172 ATGAATACGA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 20 0.56
32 16 0.44
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (32 bp):
ATAATTGATAATTTAAAATATAATATATTGAT
Found at i:993154 original size:48 final size:48
Alignment explanation
Indices: 993053--993154 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
993043 GAAAAATCTG
* * **
993053 AAAATAATTGATAATTTAAAATATAATATGTTGATATAATGCGGCTAT
1 AAAATAATTGATAATTTAAAATATAATATATTGATATAATGAGAATAT
* * *
993101 GAAATAATTGATAATTTAAAATA-AATATATTGATATAATTGATAATTT
1 AAAATAATTGATAATTTAAAATATAATATATTGATATAA-TGAGAATAT
993149 AAAATA
1 AAAATA
993155 TAATATATTG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
47 14 0.31
48 31 0.69
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (48 bp):
AAAATAATTGATAATTTAAAATATAATATATTGATATAATGAGAATAT
Found at i:993178 original size:24 final size:24
Alignment explanation
Indices: 993150--993227 Score: 69
Period size: 24 Copynumber: 3.5 Consensus size: 24
993140 TGATAATTTA
993150 AAATATAATATATTGATATAATAT
1 AAATATAATATATTGATATAATAT
* **
993174 GAATACGATATA---A-A-AATA-
1 AAATATAATATATTGATATAATAT
* *
993192 AAATATGATATGTTGATATAATAT
1 AAATATAATATATTGATATAATAT
993216 AAATATAATATA
1 AAATATAATATA
993228 AAAATAAGAT
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
18 9 0.22
19 4 0.10
20 1 0.03
21 2 0.05
22 1 0.03
23 4 0.10
24 19 0.47
ACGTcount: A:0.55, C:0.01, G:0.08, T:0.36
Consensus pattern (24 bp):
AAATATAATATATTGATATAATAT
Found at i:993194 original size:42 final size:42
Alignment explanation
Indices: 993148--993241 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
993138 ATTGATAATT
* *
993148 TAAAATATAATATATTGATATAATATGAATACGATATAAAAA
1 TAAAATATAATATATTGATATAATATAAATACAATATAAAAA
* * *
993190 TAAAATATGATATGTTGATATAATATAAATATAATATAAAAA
1 TAAAATATAATATATTGATATAATATAAATACAATATAAAAA
*
993232 TAAGATATAA
1 TAAAATATAA
993242 AAATAATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.34
Consensus pattern (42 bp):
TAAAATATAATATATTGATATAATATAAATACAATATAAAAA
Found at i:993223 original size:11 final size:11
Alignment explanation
Indices: 993209--993252 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
993199 ATATGTTGAT
*
993209 ATAATATAAAT
1 ATAATATAAAA
993220 ATAATATAAAA
1 ATAATATAAAA
993231 ATAAGATATAAAA
1 AT-A-ATATAAAA
993244 ATAATATAA
1 ATAATATAA
993253 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 18 0.60
12 2 0.07
13 10 0.33
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:993232 original size:13 final size:13
Alignment explanation
Indices: 993207--993246 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
993197 TGATATGTTG
993207 ATATAATAT--AA
1 ATATAATATAAAA
993218 ATATAATATAAAA
1 ATATAATATAAAA
993231 ATA-AGATATAAAA
1 ATATA-ATATAAAA
993244 ATA
1 ATA
993247 ATATAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.35
12 1 0.04
13 16 0.62
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (13 bp):
ATATAATATAAAA
Found at i:995769 original size:23 final size:23
Alignment explanation
Indices: 995738--995781 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
995728 ATATAGTATT
* *
995738 AAAATTTAATTTGAACCAAATAA
1 AAAAATTAATTTAAACCAAATAA
*
995761 AAAAATTAATTTAAATCAAAT
1 AAAAATTAATTTAAACCAAAT
995782 TGAACATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAAATTAATTTAAACCAAATAA
Found at i:999047 original size:20 final size:18
Alignment explanation
Indices: 999010--999048 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
999000 ATTTAAAATT
*
999010 AATAAAATATTATTTTTA
1 AATAAAATATTATATTTA
999028 AATATAAATATATATATTTA
1 AATA-AAATAT-TATATTTA
999048 A
1 A
999049 TTAATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 6 0.33
20 8 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATAAAATATTATATTTA
Found at i:1011193 original size:4 final size:4
Alignment explanation
Indices: 1011175--1011215 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
1011165 ACACAAACTG
* *
1011175 TCTT TCCT TCCT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
1011216 TTAACACACG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TCTT
Found at i:1012360 original size:6 final size:6
Alignment explanation
Indices: 1012351--1012389 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
1012341 GAAAAAGAAA
1012351 GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGC
1 GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGC
1012390 GAAGCAGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.36, T:0.15
Consensus pattern (6 bp):
GGCAAT
Found at i:1014363 original size:20 final size:19
Alignment explanation
Indices: 1014332--1014381 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
1014322 TTTTTATTCA
1014332 TATTATTTTTA-TATAATAT
1 TATTATTTTTATTATAA-AT
*
1014351 TATTATATTTTATTTTAAAT
1 TATTAT-TTTTATTATAAAT
1014371 TATTATTTTTA
1 TATTATTTTTA
1014382 ATTAAAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.39
20 13 0.46
21 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTATTTTTATTATAAAT
Found at i:1014390 original size:20 final size:19
Alignment explanation
Indices: 1014332--1014390 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
1014322 TTTTTATTCA
*
1014332 TATTATTTTTA-TATAATAT
1 TATTATTTTTATTA-AAAAT
**
1014351 TATTATATTTTATTTTAAAT
1 TATTAT-TTTTATTAAAAAT
1014371 TATTATTTTTAATTAAAAAT
1 TATTATTTTT-ATTAAAAAT
1014391 CATAACGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 10 0.31
20 21 0.66
21 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTATTTTTATTAAAAAT
Found at i:1016612 original size:18 final size:18
Alignment explanation
Indices: 1016541--1016627 Score: 63
Period size: 18 Copynumber: 4.8 Consensus size: 18
1016531 ATGATAATAA
*
1016541 ATTATTATATTTAATTTT
1 ATTATAATATTTAATTTT
* * **
1016559 ATCACAATCGTTATATTTAT
1 ATTATAATATTTA-ATTT-T
* *
1016579 ATT-TAA-ATATATTTTT
1 ATTATAATATTTAATTTT
1016595 ATTAGTAAT-TTTAATTTT
1 ATTA-TAATATTTAATTTT
1016613 ATTATAATATTTAAT
1 ATTATAATATTTAAT
1016628 ATTACAAAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 12
0.67 0.17 0.16
Matches are distributed among these distances:
16 4 0.08
17 7 0.14
18 30 0.60
19 6 0.12
20 3 0.06
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.57
Consensus pattern (18 bp):
ATTATAATATTTAATTTT
Found at i:1049234 original size:13 final size:13
Alignment explanation
Indices: 1049216--1049240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1049206 TAAAGTAAGG
1049216 TGACTCATCACTA
1 TGACTCATCACTA
1049229 TGACTCATCACT
1 TGACTCATCACT
1049241 TATTTGACAT
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:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (13 bp):
TGACTCATCACTA
Done.