Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 18 of 222
Found at i:5804802 original size:3 final size:3
Alignment explanation
Indices: 5804771--5804841 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
5804761 ATACACGTAC
* * * * *
5804771 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATG GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
5804818 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
5804842 CAAGGATATT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:5806129 original size:17 final size:17
Alignment explanation
Indices: 5806107--5806143 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
5806097 ATTGAAAACC
5806107 CTTCTTGAAATTTCAAA
1 CTTCTTGAAATTTCAAA
**
5806124 CTTCTTGCCATTTCAAA
1 CTTCTTGAAATTTCAAA
5806141 CTT
1 CTT
5806144 GTACAAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.43
Consensus pattern (17 bp):
CTTCTTGAAATTTCAAA
Found at i:5806611 original size:9 final size:9
Alignment explanation
Indices: 5806597--5806627 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
5806587 GTTAAACGAA
5806597 TCGAGTTAT
1 TCGAGTTAT
*
5806606 TCGAGTTAA
1 TCGAGTTAT
5806615 TCGAGTTAT
1 TCGAGTTAT
5806624 TCGA
1 TCGA
5806628 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:5807064 original size:19 final size:19
Alignment explanation
Indices: 5807032--5807068 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
5807022 TTTTTAATAT
5807032 TTTCCCTCCAAACTATTTAC
1 TTTCCCTCCAAACT-TTTAC
5807052 TTTCCCT-CAAACTTTTA
1 TTTCCCTCCAAACTTTTA
5807069 TTCTCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTCCCTCCAAACTTTTAC
Found at i:5807986 original size:46 final size:47
Alignment explanation
Indices: 5807901--5807993 Score: 111
Period size: 46 Copynumber: 2.0 Consensus size: 47
5807891 AAAAGTGTAG
* * * *
5807901 TGTGGGCCTTAGCCCATTACAGTATCAGAATTAGAAATAG-AATACA
1 TGTGGGCCTAAGCCCAATACAATATCAGAATCAGAAATAGAAATACA
5807947 TGTGGGCCTAAGCCCAATACAATGA-CAGAATCA-ATAATAGAAATACA
1 TGTGGGCCTAAGCCCAATACAAT-ATCAGAATCAGA-AATAGAAATACA
5807994 ACAATGCAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
45 1 0.03
46 32 0.80
47 7 0.17
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (47 bp):
TGTGGGCCTAAGCCCAATACAATATCAGAATCAGAAATAGAAATACA
Found at i:5808136 original size:22 final size:22
Alignment explanation
Indices: 5808093--5808157 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
5808083 GCCAACACAC
* *
5808093 CAGAATGGCTA-AGAGCCGTAAA
1 CAGAATAGCTACA-AGCCATAAA
* * *
5808115 CAGGATAGCTATAAGCTATAAA
1 CAGAATAGCTACAAGCCATAAA
*
5808137 CAGAATGGCTACAAGCCATAA
1 CAGAATAGCTACAAGCCATAA
5808158 GTACAGTAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (22 bp):
CAGAATAGCTACAAGCCATAAA
Found at i:5808253 original size:32 final size:32
Alignment explanation
Indices: 5808149--5808284 Score: 109
Period size: 32 Copynumber: 4.3 Consensus size: 32
5808139 GAATGGCTAC
* * * **
5808149 AAGCCATAAGT-ACAGTAATATGATTGACACA
1 AAGCCATCAGTAACAGTAATATAATCGGTACA
* * * * *
5808180 AAGCCATCAGTAGCAGTGATATGACCGGCACA
1 AAGCCATCAGTAACAGTAATATAATCGGTACA
*
5808212 CAA-CTATCAGTAAC-GATAATATAATC-GTCACA
1 -AAGCCATCAGTAACAG-TAATATAATCGGT-ACA
*
5808244 AAGCCATCAGTAACAGTCATATAATCGGTACA
1 AAGCCATCAGTAACAGTAATATAATCGGTACA
5808276 AAGCCATCA
1 AAGCCATCA
5808285 ATAGCATTGC
Statistics
Matches: 84, Mismatches: 14, Indels: 13
0.76 0.13 0.12
Matches are distributed among these distances:
31 14 0.17
32 65 0.77
33 5 0.06
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATAATCGGTACA
Found at i:5808312 original size:26 final size:26
Alignment explanation
Indices: 5808278--5808340 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
5808268 TCGGTACAAA
* *
5808278 GCCATCAATAGCATTGCAACAAAGCT
1 GCCAGCAATAGCATCGCAACAAAGCT
* *
5808304 GCCAGCAATAGTATCGCAGCAAAGCT
1 GCCAGCAATAGCATCGCAACAAAGCT
*
5808330 GCCAGTAATAG
1 GCCAGCAATAG
5808341 TATATGTGGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (26 bp):
GCCAGCAATAGCATCGCAACAAAGCT
Found at i:5808361 original size:27 final size:27
Alignment explanation
Indices: 5808325--5808377 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5808315 TATCGCAGCA
* *
5808325 AAGCTGCCAGTAATAGT-ATATGTGGCC
1 AAGCTACCAGTAACAGTGAT-TGTGGCC
5808352 AAGCTACCAGTAACAGTGATTGTGGC
1 AAGCTACCAGTAACAGTGATTGTGGC
5808378 AGAGCCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (27 bp):
AAGCTACCAGTAACAGTGATTGTGGCC
Found at i:5808387 original size:27 final size:27
Alignment explanation
Indices: 5808331--5808395 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
5808321 AGCAAAGCTG
* *
5808331 CCAGTAATAGTATATGTGGCCAAGCTA
1 CCAGTAACAGTATATGTGGCCAAGCCA
5808358 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
1 CCAGTAACAGT-ATATGTGGCCA-AGCCA
*
5808385 CCAAT-ACAGTA
1 CCAGTAACAGTA
5808396 CTTCTTCCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 1 0.03
26 7 0.21
27 23 0.70
28 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCCAAGCCA
Found at i:5808491 original size:24 final size:24
Alignment explanation
Indices: 5808459--5808564 Score: 95
Period size: 24 Copynumber: 4.4 Consensus size: 24
5808449 TCATACTCAG
*
5808459 AATCAGTCATACAAATCAAAGACA
1 AATCAGTCATACAAATCACAGACA
* *
5808483 AATCAGTCATACCATTCACAGACA
1 AATCAGTCATACAAATCACAGACA
* ** *
5808507 AATCAATCATTTAAATCACAGGCA
1 AATCAGTCATACAAATCACAGACA
* ** * *
5808531 CATCAGTCATTTACATCACATACA
1 AATCAGTCATACAAATCACAGACA
*
5808555 AATCAATCAT
1 AATCAGTCAT
5808565 TTACACTCGA
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.24
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:5808565 original size:24 final size:24
Alignment explanation
Indices: 5808473--5808569 Score: 99
Period size: 24 Copynumber: 4.0 Consensus size: 24
5808463 AGTCATACAA
* *
5808473 ATCAAAGACAAATCAGTCA--TACC
1 ATCACAGACAAATCAATCATTTA-C
*
5808496 ATTCACAGACAAATCAATCATTTAA
1 A-TCACAGACAAATCAATCATTTAC
* * *
5808521 ATCACAGGCACATCAGTCATTTAC
1 ATCACAGACAAATCAATCATTTAC
*
5808545 ATCACATACAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
5808569 A
1 A
5808570 CTCGAGGGGC
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
23 1 0.02
24 56 0.93
25 1 0.02
26 2 0.03
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTAC
Found at i:5808589 original size:26 final size:27
Alignment explanation
Indices: 5808554--5808606 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
5808544 CATCACATAC
*
5808554 AAATCAATCATTTACACTCGAGGGGCA
1 AAATCAATCATTTACACTCCAGGGGCA
*
5808581 AAAT-AATCATTTACCCTCCAGGGGCA
1 AAATCAATCATTTACACTCCAGGGGCA
5808607 TTATGGTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.23
Consensus pattern (27 bp):
AAATCAATCATTTACACTCCAGGGGCA
Found at i:5808629 original size:27 final size:27
Alignment explanation
Indices: 5808590--5808769 Score: 136
Period size: 27 Copynumber: 6.7 Consensus size: 27
5808580 AAAATAATCA
* *
5808590 TTTACCCTCCAGGGGCATTATGGTCAT
1 TTTACCCTACAGGGGTATTATGGTCAT
*
5808617 TTTACCTTACAGGGGTATT-TCGGTCAT
1 TTTACCCTACAGGGGTATTAT-GGTCAT
* * *
5808644 TTAACCCTA-TGGAGGTATTACGGTCAT
1 TTTACCCTACAGG-GGTATTATGGTCAT
** *
5808671 TTTACCCTATGGGGGTATTTTGGTCAT
1 TTTACCCTACAGGGGTATTATGGTCAT
* **
5808698 TTTATCCTATTGGGGTATT-TCGGTCAT
1 TTTACCCTACAGGGGTATTAT-GGTCAT
* *
5808725 TTTACCCTA-TGGGGTATT-TCCGTCAT
1 TTTACCCTACAGGGGTATTAT-GGTCAT
* **
5808751 TCTACCCTATGGGGGTATT
1 TTTACCCTACAGGGGTATT
5808770 TCAGTCATTT
Statistics
Matches: 130, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
26 28 0.22
27 100 0.77
28 2 0.02
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (27 bp):
TTTACCCTACAGGGGTATTATGGTCAT
Found at i:5808674 original size:54 final size:51
Alignment explanation
Indices: 5808587--5808779 Score: 190
Period size: 54 Copynumber: 3.6 Consensus size: 51
5808577 GGCAAAATAA
* * *
5808587 TCATTTACCCTCCA-GGGGCATTATGGTCATTTTACCTTACAGGGGTATTTCGG
1 TCATTTACCCT--ATGGGGTATTACGGTCATTTTACCCTA-AGGGGTATTTCGG
* *
5808640 TCATTTAACCCTATGGAGGTATTACGGTCATTTTACCCTATGGGGGTATTTTGG
1 TCATTT-ACCCTATGG-GGTATTACGGTCATTTTACCCTA-AGGGGTATTTCGG
* * * *
5808694 TCATTTTATCCTATTGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCCG
1 TCA-TTTACCCTA-TGGGGTATTACGGTCATTTTACCCTAAGGGGTATTTCGG
* *
5808747 TCATTCTACCCTATGGGGGTATTTCAGTCATTT
1 TCATT-TACCCTAT-GGGGTATTACGGTCATTT
5808780 AACAATATTT
Statistics
Matches: 120, Mismatches: 13, Indels: 14
0.82 0.09 0.10
Matches are distributed among these distances:
52 4 0.03
53 44 0.37
54 66 0.55
55 6 0.05
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (51 bp):
TCATTTACCCTATGGGGTATTACGGTCATTTTACCCTAAGGGGTATTTCGG
Found at i:5808677 original size:81 final size:80
Alignment explanation
Indices: 5808590--5808759 Score: 216
Period size: 81 Copynumber: 2.1 Consensus size: 80
5808580 AAAATAATCA
*
5808590 TTTACCCTCCAGGGGCATTATGGTCATTTTA-CCTTACAGGGGTATTTCGGTCATTTAACCCTAT
1 TTTACCCTACAGGGGCATTATGGTCATTTTATCC-TACAGGGGTATTTCGGTCATTTAACCCTAT
*
5808654 GGAGGTATTACGGTCAT
65 GG-GGTATTACCGTCAT
** * * ** *
5808671 TTTACCCTATGGGGGTATTTTGGTCATTTTATCCTATTGGGGTATTTCGGTCATTTTACCCTATG
1 TTTACCCTACAGGGGCATTATGGTCATTTTATCCTACAGGGGTATTTCGGTCATTTAACCCTATG
*
5808736 GGGTATTTCCGTCAT
66 GGGTATTACCGTCAT
*
5808751 TCTACCCTA
1 TTTACCCTA
5808760 TGGGGGTATT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 20 0.26
81 55 0.71
82 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (80 bp):
TTTACCCTACAGGGGCATTATGGTCATTTTATCCTACAGGGGTATTTCGGTCATTTAACCCTATG
GGGTATTACCGTCAT
Found at i:5808776 original size:27 final size:27
Alignment explanation
Indices: 5808611--5808779 Score: 223
Period size: 27 Copynumber: 6.3 Consensus size: 27
5808601 GGGGCATTAT
* **
5808611 GGTCATTTTACCTTACAGGGGTATTTC
1 GGTCATTTTACCCTATGGGGGTATTTC
* * *
5808638 GGTCATTTAACCCTATGGAGGTATTAC
1 GGTCATTTTACCCTATGGGGGTATTTC
*
5808665 GGTCATTTTACCCTATGGGGGTATTTT
1 GGTCATTTTACCCTATGGGGGTATTTC
* *
5808692 GGTCATTTTATCCTATTGGGGTATTTC
1 GGTCATTTTACCCTATGGGGGTATTTC
5808719 GGTCATTTTACCCTAT-GGGGTATTTC
1 GGTCATTTTACCCTATGGGGGTATTTC
* *
5808745 CGTCATTCTACCCTATGGGGGTATTTC
1 GGTCATTTTACCCTATGGGGGTATTTC
*
5808772 AGTCATTT
1 GGTCATTT
5808780 AACAATATTT
Statistics
Matches: 123, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 24 0.20
27 99 0.80
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
GGTCATTTTACCCTATGGGGGTATTTC
Found at i:5809741 original size:12 final size:13
Alignment explanation
Indices: 5809712--5809768 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 13
5809702 TTATCCAACT
5809712 CAACCCAATTACC
1 CAACCCAATTACC
5809725 CAACCCAATTA-C
1 CAACCCAATTACC
5809737 CAACCC-A--ACC
1 CAACCCAATTACC
**
5809747 CAACTTAATTACC
1 CAACCCAATTACC
5809760 CAACCCAAT
1 CAACCCAAT
5809769 AAAACTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 1 0.03
10 5 0.14
11 2 0.06
12 7 0.19
13 21 0.58
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (13 bp):
CAACCCAATTACC
Found at i:5809750 original size:22 final size:23
Alignment explanation
Indices: 5809722--5809767 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
5809712 CAACCCAATT
5809722 ACCCAACCCAATTA-CCAACCCA
1 ACCCAACCCAATTACCCAACCCA
**
5809744 ACCCAACTTAATTACCCAACCCA
1 ACCCAACCCAATTACCCAACCCA
5809767 A
1 A
5809768 TAAAACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.41, C:0.46, G:0.00, T:0.13
Consensus pattern (23 bp):
ACCCAACCCAATTACCCAACCCA
Found at i:5809762 original size:18 final size:17
Alignment explanation
Indices: 5809718--5809768 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
5809708 AACTCAACCC
5809718 AATTACCCAACCCAATT
1 AATTACCCAACCCAATT
***
5809735 ACCAACCCAACCCAACTT
1 AATTACCCAACCCAA-TT
5809753 AATTACCCAACCCAAT
1 AATTACCCAACCCAAT
5809769 AAAACTAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (17 bp):
AATTACCCAACCCAATT
Found at i:5809774 original size:23 final size:22
Alignment explanation
Indices: 5809731--5809774 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
5809721 TACCCAACCC
**
5809731 AATTACCAACCCAACCCAACTT
1 AATTACCAACCCAACAAAACTT
*
5809753 AATTACCCAACCCAATAAAACT
1 AATTA-CCAACCCAACAAAACT
5809775 AAAACTAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (22 bp):
AATTACCAACCCAACAAAACTT
Found at i:5810048 original size:22 final size:22
Alignment explanation
Indices: 5810023--5810114 Score: 116
Period size: 22 Copynumber: 4.2 Consensus size: 22
5810013 AAATTCAATA
*
5810023 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCTTTCAAAAATTCTC
*
5810045 TCAATTCCTTTCAAATATTCTC
1 TCAATTCCTTTCAAAAATTCTC
*
5810067 TCAATTCCCTTT-AAAATTTCTC
1 TCAATT-CCTTTCAAAAATTCTC
*
5810089 TCAATTTCC-TTCCAAAATTCTC
1 TCAA-TTCCTTTCAAAAATTCTC
5810111 TCAA
1 TCAA
5810115 ACTCTCAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.03
22 52 0.85
23 7 0.11
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.43
Consensus pattern (22 bp):
TCAATTCCTTTCAAAAATTCTC
Found at i:5810088 original size:44 final size:45
Alignment explanation
Indices: 5810030--5810114 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 45
5810020 ATATCAATTT
*
5810030 CTTTCAAAAATTCTCTCAA-TTCCTTTCAAATATTCTCTCAATTCC
1 CTTTCAAAAATTCTCTCAATTTCCTTCCAAA-ATTCTCTCAATTCC
*
5810075 CTTT-AAAATTTCTCTCAATTTCCTTCCAAAATTCTCTCAA
1 CTTTCAAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAA
5810115 ACTCTCAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
44 23 0.62
45 14 0.38
ACGTcount: A:0.29, C:0.28, G:0.00, T:0.42
Consensus pattern (45 bp):
CTTTCAAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAATTCC
Found at i:5810120 original size:30 final size:30
Alignment explanation
Indices: 5810086--5810144 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
5810076 TTTAAAATTT
* *
5810086 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
5810116 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
5810145 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:5810155 original size:21 final size:22
Alignment explanation
Indices: 5810116--5810157 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5810106 TTCTCTCAAA
5810116 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
5810138 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
5810158 ATCTCCAAAT
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:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:5810220 original size:27 final size:26
Alignment explanation
Indices: 5810190--5810248 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
5810180 TCTTTTTCCA
5810190 TTAAATTTCAT-TTTTTTTAAGAAAATT
1 TTAAATTT-ATATTTTTTTAA-AAAATT
* *
5810217 TTAAAATTTTTATTTTTTTAAATAATT
1 TT-AAATTTATATTTTTTTAAAAAATT
5810244 TTAAA
1 TTAAA
5810249 ATTTTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 3 0.11
27 10 0.36
28 15 0.54
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (26 bp):
TTAAATTTATATTTTTTTAAAAAATT
Found at i:5810249 original size:27 final size:28
Alignment explanation
Indices: 5810201--5810255 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
5810191 TAAATTTCAT
5810201 TTTTTTTAAGAAAATTTTAAAATTTTTA
1 TTTTTTTAAGAAAATTTTAAAATTTTTA
*
5810229 TTTTTTTAA-ATAATTTTAAAATTTTTA
1 TTTTTTTAAGAAAATTTTAAAATTTTTA
5810256 ATATTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (28 bp):
TTTTTTTAAGAAAATTTTAAAATTTTTA
Found at i:5810262 original size:28 final size:28
Alignment explanation
Indices: 5810203--5810262 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 28
5810193 AATTTCATTT
*
5810203 TTTTTAAGAAAATTTTAAAATTTTTATT
1 TTTTTAAGAAAATTTTAAAATTTTTATA
*
5810231 TTTTTAA-ATAATTTTAAAATTTTTAATA
1 TTTTTAAGAAAATTTTAAAATTTTT-ATA
5810259 TTTT
1 TTTT
5810263 CAACAATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (28 bp):
TTTTTAAGAAAATTTTAAAATTTTTATA
Found at i:5812593 original size:23 final size:24
Alignment explanation
Indices: 5812529--5812743 Score: 185
Period size: 23 Copynumber: 8.7 Consensus size: 24
5812519 ACATTATTTG
*
5812529 ATTAAAAACCCTACCCCTAACCTATTTA
1 ATTAAAAACCCTAACCCTAA-C---TTA
*
5812557 ATT-AAAACCATAACCCT-ACTTA
1 ATTAAAAACCCTAACCCTAACTTA
*
5812579 ATTAAAAACCTTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAA-C----TTA
*
5812608 ATTAAAAACCCTAA-CCTAATTTA
1 ATTAAAAACCCTAACCCTAACTTA
*
5812631 ATTAAAAACCCTAA-CATAACTTA
1 ATTAAAAACCCTAACCCTAACTTA
*
5812654 A-TAAAAAACCTAA-CCTAACTTAATTAA
1 ATTAAAAACCCTAACCCTAAC----TT-A
*
5812681 ATTAAAAACCCTAA-CATAACTTA
1 ATTAAAAACCCTAACCCTAACTTA
5812704 ATTAAAAACCCTAACCCT-ACTTA
1 ATTAAAAACCCTAACCCTAACTTA
5812727 ATTAAAAACCCTAACCC
1 ATTAAAAACCCTAACCC
5812744 AAAGTAACGT
Statistics
Matches: 161, Mismatches: 12, Indels: 33
0.78 0.06 0.16
Matches are distributed among these distances:
22 22 0.14
23 75 0.47
24 5 0.03
25 2 0.01
26 3 0.02
27 14 0.09
28 24 0.15
29 16 0.10
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (24 bp):
ATTAAAAACCCTAACCCTAACTTA
Found at i:5812684 original size:73 final size:73
Alignment explanation
Indices: 5812543--5812742 Score: 271
Period size: 73 Copynumber: 2.7 Consensus size: 73
5812533 AAAACCCTAC
* *
5812543 CCCTAACCT-ATTTAATT-AAAACCATAACCCTACTTAATTAAAAACCTTAACCCTAACCTAATT
1 CCCTAACCTAATTTAATTAAAAACCCTAACCCTACTTAATAAAAAACC-TAA-CCTAACCTAATT
*
5812606 TAATTAAAAA
64 AAATTAAAAA
* *
5812616 CCCTAACCTAATTTAATTAAAAACCCTAA-CATAACTTAATAAAAAACCTAACCTAACTTAATTA
1 CCCTAACCTAATTTAATTAAAAACCCTAACCCT-ACTTAATAAAAAACCTAACCTAACCTAATTA
5812680 AATTAAAAA
65 AATTAAAAA
* * *
5812689 CCCTAACATAACTTAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAACC
1 CCCTAACCTAATTTAATTAAAAACCCTAACCCTACTTAA-TAAAAAACCTAACC
5812743 CAAAGTAACG
Statistics
Matches: 113, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
73 62 0.55
74 28 0.25
75 23 0.20
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (73 bp):
CCCTAACCTAATTTAATTAAAAACCCTAACCCTACTTAATAAAAAACCTAACCTAACCTAATTAA
ATTAAAAA
Found at i:5812692 original size:50 final size:52
Alignment explanation
Indices: 5812614--5812732 Score: 190
Period size: 50 Copynumber: 2.3 Consensus size: 52
5812604 TTTAATTAAA
* *
5812614 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAA-TAAAAAACCT
1 AACCCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAAAAACCT
*
5812665 AA-CCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAAAACCCT
1 AACCCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAAAAACCT
5812716 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
5812733 AACCCTAACC
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
50 36 0.57
51 24 0.38
52 3 0.05
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (52 bp):
AACCCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAAAAACCT
Found at i:5814998 original size:124 final size:124
Alignment explanation
Indices: 5814778--5815056 Score: 373
Period size: 124 Copynumber: 2.2 Consensus size: 124
5814768 CACGAGGGCA
* *
5814778 CGATTTGACACTATTTACTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAATTGTAGCGA
1 CGATTTGACACTATTTACTCAGAAACGTCAAAAAAAACTATTTCCTACATGACCAACTGTAGCGA
* * *
5814843 AATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAG
66 AATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCAG
* * * *
5814902 CGATTTTATACTATTTGCTCAGGAAACGTCAAAAAAAACTATTTCTTACATGACC-ACTGTAGCG
1 CGATTTGACACTATTTACTCA-GAAACGTCAAAAAAAACTATTTCCTACATGACCAACTGTAGCG
* * **
5814966 AAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTGGTAGAAG
65 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCAG
* ** *
5815026 CAATTTCCCACTATTTAAC-CAGATACGTCAA
1 CGATTTGACACTATTT-ACTCAGAAACGTCAA
5815057 CTCGAAAAAA
Statistics
Matches: 134, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
123 9 0.07
124 93 0.69
125 32 0.24
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (124 bp):
CGATTTGACACTATTTACTCAGAAACGTCAAAAAAAACTATTTCCTACATGACCAACTGTAGCGA
AATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCAG
Found at i:5815584 original size:37 final size:37
Alignment explanation
Indices: 5815557--5815631 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
5815547 TGTTAATTTC
** *
5815557 AAGAATTATGTAATGCTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATAATTTTAATTATGTAGTAATTCA
* *
5815594 AAGACTTATGTAATAATTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATAATTTTAATTATGTAGTAATTCA
5815631 A
1 A
5815632 TTCGGGTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (37 bp):
AAGAATTATGTAATAATTTTAATTATGTAGTAATTCA
Found at i:5815659 original size:9 final size:9
Alignment explanation
Indices: 5815647--5815679 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
5815637 GTAATTCGAG
5815647 TAATTTGGT
1 TAATTTGGT
5815656 TAATTTGGT
1 TAATTTGGT
5815665 TAATTTGGT
1 TAATTTGGT
5815674 TAATTT
1 TAATTT
5815680 TTAACCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (9 bp):
TAATTTGGT
Found at i:5815659 original size:18 final size:18
Alignment explanation
Indices: 5815638--5815678 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5815628 TCAATTCGGG
5815638 TAATTCGAG-TAATTTGGT
1 TAATTCG-GTTAATTTGGT
*
5815656 TAATTTGGTTAATTTGGT
1 TAATTCGGTTAATTTGGT
5815674 TAATT
1 TAATT
5815679 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (18 bp):
TAATTCGGTTAATTTGGT
Found at i:5818646 original size:15 final size:15
Alignment explanation
Indices: 5818628--5818659 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5818618 CATTTTACTA
*
5818628 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
5818643 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
5818658 TT
1 TT
5818660 TGCACGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:5824772 original size:14 final size:15
Alignment explanation
Indices: 5824753--5824782 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
5824743 GCCTTTACTA
5824753 TTATTATTA-CTATT
1 TTATTATTATCTATT
5824767 TTATTATTATCTATT
1 TTATTATTATCTATT
5824782 T
1 T
5824783 ATCTACTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTATTATCTATT
Found at i:5825069 original size:26 final size:25
Alignment explanation
Indices: 5825009--5825077 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 25
5824999 TTAAATTACT
*
5825009 TTATTTATTAATACTA-TAATATGA
1 TTATTTATTAATACTATTAATATAA
*
5825033 TTATTAATATTAATACTATTATTATAA
1 TTATT--TATTAATACTATTAATATAA
*
5825060 TTATGTTATTATTACTAT
1 TTAT-TTATTAATACTAT
5825078 AGGATTCCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.13
26 22 0.58
27 10 0.26
28 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (25 bp):
TTATTTATTAATACTATTAATATAA
Found at i:5835482 original size:102 final size:101
Alignment explanation
Indices: 5835273--5835464 Score: 262
Period size: 102 Copynumber: 1.9 Consensus size: 101
5835263 AGTGACCATA
* *
5835273 TGGTGGCTTCTTGGGAGACTCATATACTGGTGGTTTAGGTTCTGGCTTCTCTTTCTTTGGTGGTG
1 TGGTGGCTTCTTGGGAGACTCATAAACTGGTGGTTTAGGTTCTGGCTTCTCTTTCTTTGGAGGTG
* *
5835338 CATAAACCGGTGGCTTTGGTGGCTTAGGCTCATACAC
66 CATAAACCGGTGGCTTT-GAGGCTCAGGCTCATACAC
* * * * * *
5835375 TGGTGGCTTCTTTGGAGGCTTATAAACTGGTGGTTTGGGTTCTGGTTTTTCTTTCTTTGGAGGTG
1 TGGTGGCTTCTTGGGAGACTCATAAACTGGTGGTTTAGGTTCTGGCTTCTCTTTCTTTGGAGGTG
*
5835440 CATAAACTGGTGG-TTT-AGGCTCAGG
66 CATAAACCGGTGGCTTTGAGGCTCAGG
5835465 TTTTTCTTTC
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
99 7 0.09
101 3 0.04
102 69 0.87
ACGTcount: A:0.14, C:0.16, G:0.32, T:0.39
Consensus pattern (101 bp):
TGGTGGCTTCTTGGGAGACTCATAAACTGGTGGTTTAGGTTCTGGCTTCTCTTTCTTTGGAGGTG
CATAAACCGGTGGCTTTGAGGCTCAGGCTCATACAC
Found at i:5835516 original size:90 final size:90
Alignment explanation
Indices: 5835381--5835688 Score: 354
Period size: 90 Copynumber: 3.4 Consensus size: 90
5835371 ACACTGGTGG
* * * * * *
5835381 CTTCTTTGGAGGCTT-ATAAACTGGTGGTTTGGGTTC-TGGTTTTTCTTTCTTTGGAGGTGCATA
1 CTTCTTTGGTGG-TTCATACACCGGTGGTTTGTGTTCAT-GCTTTTCTTTCTTTGGAGGTGTATA
*
5835444 AACTGGTGGTTTAGGCTCAGGTTTTTC
64 AACTGGTGGTTTAGGCTCAGGCTTTTC
* * *
5835471 TTTCTTTGGTGGTTCATACACCGGTGGCTTGTGTTCATGCTTTTCTTTCTTTGGTGGTGTATAAA
1 CTTCTTTGGTGGTTCATACACCGGTGGTTTGTGTTCATGCTTTTCTTTCTTTGGAGGTGTATAAA
*
5835536 CCGGTGGTTTAGGCTCAGGCTTTTC
66 CTGGTGGTTTAGGCTCAGGCTTTTC
* ** * *
5835561 CTTCTTTGGAGGTTCATTTACTGGTGGTTTCG-GTTCA-GGTTTCTCTTTCTTTGGAGGTGTATA
1 CTTCTTTGGTGGTTCATACACCGGTGGTTT-GTGTTCATGCTTT-TCTTTCTTTGGAGGTGTATA
* * *
5835624 AACTGGTGGCTTAGGTTCAGGCTTCTC
64 AACTGGTGGTTTAGGCTCAGGCTTTTC
* * *
5835651 CTTCTTTGGTGGTTCATAGACCGGAGGTTTATGTTCAT
1 CTTCTTTGGTGGTTCATACACCGGTGGTTTGTGTTCAT
5835689 ATGGTGGCGG
Statistics
Matches: 183, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
89 6 0.03
90 175 0.96
91 2 0.01
ACGTcount: A:0.13, C:0.16, G:0.28, T:0.44
Consensus pattern (90 bp):
CTTCTTTGGTGGTTCATACACCGGTGGTTTGTGTTCATGCTTTTCTTTCTTTGGAGGTGTATAAA
CTGGTGGTTTAGGCTCAGGCTTTTC
Found at i:5835567 original size:135 final size:134
Alignment explanation
Indices: 5835381--5835681 Score: 354
Period size: 135 Copynumber: 2.2 Consensus size: 134
5835371 ACACTGGTGG
* * * * * * *
5835381 CTTCTTTGGAGGCTTATAAACTGGTGGTTTGGGTTCTGGTTTTTCTTTCTTTGGAGGTGCATAAA
1 CTTCTTTGGTGG-TTATAAACCGGTGGTTTAGGCTCAGGCTTTTCCTTCTTTGGAGGTGCATAAA
* * * *
5835446 CTGGTGGTTTAGGCTCAGGTTTTTCTTTCTTTGGTGGT-TCATACACCGGTGGCTT-GTGTTCAT
65 CTGGTGGTTTAGGCTCAGGTTTCTCTTTCTTTGGAGGTGT-ATAAACCGGTGGCTTAG-GTTCAG
*
5835509 GCTTTTC
128 GCTTCTC
* * **
5835516 TTTCTTTGGTGGTGTATAAACCGGTGGTTTAGGCTCAGGCTTTTCCTTCTTTGGAGGTTCATTTA
1 CTTCTTTGGTGGT-TATAAACCGGTGGTTTAGGCTCAGGCTTTTCCTTCTTTGGAGGTGCATAAA
* * *
5835581 CTGGTGGTTTCGGTTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACTGGTGGCTTAGGTTCAGGC
65 CTGGTGGTTTAGGCTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGGTGGCTTAGGTTCAGGC
5835646 TTCTC
130 TTCTC
* *
5835651 CTTCTTTGGTGGTTCATAGACCGGAGGTTTA
1 CTTCTTTGGTGGTT-ATAAACCGGTGGTTTA
5835682 TGTTCATATG
Statistics
Matches: 140, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
134 2 0.01
135 136 0.97
136 2 0.01
ACGTcount: A:0.13, C:0.16, G:0.28, T:0.44
Consensus pattern (134 bp):
CTTCTTTGGTGGTTATAAACCGGTGGTTTAGGCTCAGGCTTTTCCTTCTTTGGAGGTGCATAAAC
TGGTGGTTTAGGCTCAGGTTTCTCTTTCTTTGGAGGTGTATAAACCGGTGGCTTAGGTTCAGGCT
TCTC
Found at i:5835687 original size:45 final size:45
Alignment explanation
Indices: 5835382--5835687 Score: 289
Period size: 45 Copynumber: 6.8 Consensus size: 45
5835372 CACTGGTGGC
* * * *
5835382 TTCTTTGGAGGCTT-ATAAACTGGTGGTTTGGGTTCTGGTTTTTCT
1 TTCTTTGGAGG-TTCATAAACCGGTGGTTTAGGTTCAGGCTTTTCT
* * * *
5835427 TTCTTTGGAGGTGCATAAACTGGTGGTTTAGGCTCAGGTTTTTCT
1 TTCTTTGGAGGTTCATAAACCGGTGGTTTAGGTTCAGGCTTTTCT
* * * *
5835472 TTCTTTGGTGGTTCATACACCGGTGGCTT-GTGTTCATGCTTTTCT
1 TTCTTTGGAGGTTCATAAACCGGTGGTTTAG-GTTCAGGCTTTTCT
* * *
5835517 TTCTTTGGTGGTGT-ATAAACCGGTGGTTTAGGCTCAGGCTTTTCC
1 TTCTTTGGAGGT-TCATAAACCGGTGGTTTAGGTTCAGGCTTTTCT
** * *
5835562 TTCTTTGGAGGTTCATTTACTGGTGGTTTCGGTTCAGG-TTTCTCT
1 TTCTTTGGAGGTTCATAAACCGGTGGTTTAGGTTCAGGCTTT-TCT
* * * *
5835607 TTCTTTGGAGGTGT-ATAAACTGGTGGCTTAGGTTCAGGCTTCTCC
1 TTCTTTGGAGGT-TCATAAACCGGTGGTTTAGGTTCAGGCTTTTCT
* * * *
5835652 TTCTTTGGTGGTTCATAGACCGGAGGTTTATGTTCA
1 TTCTTTGGAGGTTCATAAACCGGTGGTTTAGGTTCA
5835688 TATGGTGGCG
Statistics
Matches: 216, Mismatches: 36, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
44 7 0.03
45 204 0.94
46 5 0.02
ACGTcount: A:0.13, C:0.16, G:0.28, T:0.44
Consensus pattern (45 bp):
TTCTTTGGAGGTTCATAAACCGGTGGTTTAGGTTCAGGCTTTTCT
Found at i:5837839 original size:27 final size:27
Alignment explanation
Indices: 5837809--5837863 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
5837799 ATAATTTCAC
5837809 AACTGAGTTGAAATATGATTGAGAGTG
1 AACTGAGTTGAAATATGATTGAGAGTG
5837836 AACTGAGTTGAAATATGATTGAGAGTG
1 AACTGAGTTGAAATATGATTGAGAGTG
5837863 A
1 A
5837864 GATTAACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.29, T:0.29
Consensus pattern (27 bp):
AACTGAGTTGAAATATGATTGAGAGTG
Found at i:5838246 original size:19 final size:19
Alignment explanation
Indices: 5838218--5838255 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5838208 ATTGTTTAAA
*
5838218 TATAATAATT-TAAAGAAAT
1 TATAAAAATTATAAA-AAAT
5838237 TATAAAAATTATAAAAAAT
1 TATAAAAATTATAAAAAAT
5838256 CTTTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
TATAAAAATTATAAAAAAT
Found at i:5839613 original size:27 final size:29
Alignment explanation
Indices: 5839555--5839613 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 29
5839545 TACTTAAAAG
*
5839555 AAAACATATTAGACAAAATAAAAACCACA
1 AAAAAATATTAGACAAAATAAAAACCACA
*
5839584 AAAAAATATT-GACAAAAT-AAAATCACA
1 AAAAAATATTAGACAAAATAAAAACCACA
5839611 AAA
1 AAA
5839614 CTATGAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 11 0.39
28 8 0.29
29 9 0.32
ACGTcount: A:0.68, C:0.14, G:0.03, T:0.15
Consensus pattern (29 bp):
AAAAAATATTAGACAAAATAAAAACCACA
Found at i:5840641 original size:23 final size:23
Alignment explanation
Indices: 5840607--5840652 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
5840597 TTATTTTTTC
*
5840607 TTTTTAATATTTTTTTTA-TAAA
1 TTTTTAATATTTATTTTACTAAA
*
5840629 TTTTTAGTGATTTATTTTACTAAA
1 TTTTTAAT-ATTTATTTTACTAAA
5840653 CCCTAAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 9 0.45
24 4 0.20
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTTTAATATTTATTTTACTAAA
Found at i:5845376 original size:19 final size:18
Alignment explanation
Indices: 5845341--5845376 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
5845331 AAATTTTTTA
*
5845341 TCAAATTAACCCTAAAAC
1 TCAAATTAACACTAAAAC
5845359 TCAAATTAAACACTAAAA
1 TCAAATT-AACACTAAAA
5845377 AGTTAACAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (18 bp):
TCAAATTAACACTAAAAC
Found at i:5851864 original size:31 final size:31
Alignment explanation
Indices: 5851829--5851891 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
5851819 AAGGGTTAGG
5851829 TAAGAAAAAAAAGAAACATGATTGATGATAT
1 TAAGAAAAAAAAGAAACATGATTGATGATAT
5851860 TAAGAAAAAAAAGAAACATGATTGATGATAT
1 TAAGAAAAAAAAGAAACATGATTGATGATAT
5851891 T
1 T
5851892 TTGTTCATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.57, C:0.03, G:0.16, T:0.24
Consensus pattern (31 bp):
TAAGAAAAAAAAGAAACATGATTGATGATAT
Found at i:5862125 original size:18 final size:21
Alignment explanation
Indices: 5862089--5862128 Score: 59
Period size: 18 Copynumber: 2.0 Consensus size: 21
5862079 TTTTATAATT
5862089 ATTTCTATATATTTCATTATA
1 ATTTCTATATATTTCATTATA
5862110 ATTTCT-TA-ATTT-ATTATA
1 ATTTCTATATATTTCATTATA
5862128 A
1 A
5862129 GATTTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 4 0.21
20 2 0.11
21 6 0.32
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTCTATATATTTCATTATA
Found at i:5868680 original size:28 final size:27
Alignment explanation
Indices: 5868640--5868694 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
5868630 AATTAACAAG
5868640 CAAATGCTCTAAAATAATAACAAATTAA
1 CAAATGCTCTAAAATAATAA-AAATTAA
5868668 CAAATG-TCTTAAAATAATAAAAATTAA
1 CAAATGCTC-TAAAATAATAAAAATTAA
5868695 TAATAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.58, C:0.11, G:0.04, T:0.27
Consensus pattern (27 bp):
CAAATGCTCTAAAATAATAAAAATTAA
Found at i:5872448 original size:28 final size:28
Alignment explanation
Indices: 5872416--5872469 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
5872406 TTTATTGTAA
5872416 TATACTT-AATTTATTATAGAATACATGT
1 TATACTTAAATTTATTATA-AATACATGT
5872444 TATACTTAAATTTATTATAAATACAT
1 TATACTTAAATTTATTATAAATACAT
5872470 ATAATTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (28 bp):
TATACTTAAATTTATTATAAATACATGT
Found at i:5879101 original size:16 final size:16
Alignment explanation
Indices: 5879077--5879114 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
5879067 TTTGGTTCGC
* *
5879077 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
5879093 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
5879109 TGTAAT
1 TGTAAT
5879115 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:5879159 original size:45 final size:44
Alignment explanation
Indices: 5879093--5879183 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
5879083 GGATTAGAGG
*
5879093 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
5879138 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
5879182 TG
1 TG
5879184 GAATAGATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.44
45 23 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:5879365 original size:16 final size:16
Alignment explanation
Indices: 5879328--5879369 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
5879318 TTAATCATAT
*
5879328 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
5879344 TT-AAATATATTATAA
1 TTAAAATATATTATAA
5879359 TTAAAATATAT
1 TTAAAATATAT
5879370 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:5879376 original size:14 final size:15
Alignment explanation
Indices: 5879337--5879378 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
5879327 TTTAAACATA
*
5879337 ATTATTATTAAATAT
1 ATTATAATTAAATAT
5879352 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
5879366 A-TATAATTTAATA
1 ATTATAATTAAATA
5879379 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:5883154 original size:12 final size:12
Alignment explanation
Indices: 5883123--5883164 Score: 61
Period size: 11 Copynumber: 3.7 Consensus size: 12
5883113 TTAAATCATT
*
5883123 TCTCTAATTTCC
1 TCTCAAATTTCC
5883135 TCTC-AATTTCC
1 TCTCAAATTTCC
5883146 TCTCAAATTT-C
1 TCTCAAATTTCC
5883157 TCTCAAAT
1 TCTCAAAT
5883165 CCCTATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (12 bp):
TCTCAAATTTCC
Found at i:5884993 original size:18 final size:18
Alignment explanation
Indices: 5884970--5885012 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
5884960 TGCCAGGTGC
* *
5884970 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
5884988 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
5885006 GTTTCCT
1 GTATCCT
5885013 TTTTCGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:5885278 original size:21 final size:21
Alignment explanation
Indices: 5885253--5885300 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
5885243 CCAACACCGA
*
5885253 CAACCA-AATACCCTACCGGAG
1 CAACCAGAAT-CCCCACCGGAG
*
5885274 GAACCAGAATCCCCACCGGAG
1 CAACCAGAATCCCCACCGGAG
5885295 CAACCA
1 CAACCA
5885301 CAACCCCCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.38, C:0.40, G:0.17, T:0.06
Consensus pattern (21 bp):
CAACCAGAATCCCCACCGGAG
Found at i:5885308 original size:21 final size:21
Alignment explanation
Indices: 5885267--5885308 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5885257 CAAATACCCT
* * *
5885267 ACCGGAGGAACCAGAATCCCC
1 ACCGGAGCAACCACAACCCCC
5885288 ACCGGAGCAACCACAACCCCC
1 ACCGGAGCAACCACAACCCCC
5885309 GCCGAAAGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.45, G:0.19, T:0.02
Consensus pattern (21 bp):
ACCGGAGCAACCACAACCCCC
Found at i:5888872 original size:15 final size:16
Alignment explanation
Indices: 5888846--5888876 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
5888836 ATTTTAGTTG
5888846 ATAAAGAAAATAAAAA
1 ATAAAGAAAATAAAAA
5888862 ATAAA-AAAATAAAAA
1 ATAAAGAAAATAAAAA
5888877 CAGAATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (16 bp):
ATAAAGAAAATAAAAA
Found at i:5903050 original size:237 final size:236
Alignment explanation
Indices: 5902635--5903061 Score: 619
Period size: 237 Copynumber: 1.8 Consensus size: 236
5902625 GATAAAATAA
* * * * * *
5902635 TAAATATGCAGGGGTAAAAGAGTAAAAAATGTAGGGTTAGTAACAAAAGTGATCCACCATTTCCG
1 TAAATATGCAGAGGCAAAAGAGTAAAAAATGTAGGGTCAGTAACAAAACTAACCCACCATTTCCG
5902700 CGCAACAGTAAAAAAAATATACTGTTCAGATTTTCGTAACAGTCAAAAATAAAAAAAAAGACAAA
66 CGCAACAGTAAAAAAAATATACTGTTCAGATTTTCGTAACAGTCAAAAATAAAAAAAAAGACAAA
*
5902765 TTGTTTTAAAGAAATTATTTTCTGGAAAATAATATAAGAATTTTATCCAAAAAGAAATACACGCG
131 TTATTTTAAAGAAATTATTTTCTGGAAAATAATATAAGAATTTTATCCAAAAA-AAATACACGCG
5902830 GTACGTGTCGAATACACGTGTTAACACGGTCACGAAAACTAG
195 GTACGTGTCGAATACACGTGTTAACACGGTCACGAAAACTAG
* * * *
5902872 TAAATATGTAGAGGCAAAAGAG-AAAAACTGTAGGGTCAGTTACAAAACTAACCCACTATTTCCG
1 TAAATATGCAGAGGCAAAAGAGTAAAAAATGTAGGGTCAGTAACAAAACTAACCCACCATTTCCG
* * * **
5902936 CGCAACAGTCAAAAAATATATACTGTTCAGATATTT-GTAACAGTCAAAAA-ATCAGAAAAAGTT
66 CGCAACAGT-AAAAAAAATATACTGTTCAGAT-TTTCGTAACAGTCAAAAATA-AAAAAAAAGAC
* *
5902999 AATTTATTTTAAAGAAATTATTTTCT-GAAAATTAATATAATAATTTTATCCAAAAAAAATACA
128 AAATTATTTTAAAGAAATTATTTTCTGGAAAA-TAATATAAGAATTTTATCCAAAAAAAATACA
5903062 AGTAGTATGT
Statistics
Matches: 168, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
236 57 0.34
237 108 0.64
238 3 0.02
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.27
Consensus pattern (236 bp):
TAAATATGCAGAGGCAAAAGAGTAAAAAATGTAGGGTCAGTAACAAAACTAACCCACCATTTCCG
CGCAACAGTAAAAAAAATATACTGTTCAGATTTTCGTAACAGTCAAAAATAAAAAAAAAGACAAA
TTATTTTAAAGAAATTATTTTCTGGAAAATAATATAAGAATTTTATCCAAAAAAAATACACGCGG
TACGTGTCGAATACACGTGTTAACACGGTCACGAAAACTAG
Found at i:5915607 original size:55 final size:55
Alignment explanation
Indices: 5915523--5915629 Score: 196
Period size: 55 Copynumber: 1.9 Consensus size: 55
5915513 ATCTAAAGCA
*
5915523 CCAAGCAAAGGCTTAATCTAAAGTACTAGTAATCCAAACGAAACACAAAGAAATT
1 CCAAGCAAAGGCATAATCTAAAGTACTAGTAATCCAAACGAAACACAAAGAAATT
*
5915578 CCAAGCAAAGGCATAATCTAAAGTACTAGTAATCCAAATGAAACACAAAGAA
1 CCAAGCAAAGGCATAATCTAAAGTACTAGTAATCCAAACGAAACACAAAGAA
5915630 CTACATCACA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.50, C:0.20, G:0.13, T:0.17
Consensus pattern (55 bp):
CCAAGCAAAGGCATAATCTAAAGTACTAGTAATCCAAACGAAACACAAAGAAATT
Found at i:5922368 original size:41 final size:41
Alignment explanation
Indices: 5922323--5922407 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
5922313 AAAAGTTGTG
5922323 ATAATTATAATTATAAATTGAGTTACATTTATTAGTTAAAA
1 ATAATTATAATTATAAATTGAGTTACATTTATTAGTTAAAA
* *
5922364 ATAATTATAGTTATAAATTGATTTACATTTATTAGTTAAAA
1 ATAATTATAATTATAAATTGAGTTACATTTATTAGTTAAAA
5922405 ATA
1 ATA
5922408 TGTGTATTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (41 bp):
ATAATTATAATTATAAATTGAGTTACATTTATTAGTTAAAA
Found at i:5926045 original size:8 final size:8
Alignment explanation
Indices: 5926034--5926080 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
5926024 TTTTAATTTT
5926034 TTAAAATA
1 TTAAAATA
*
5926042 TTAAATTA
1 TTAAAATA
*
5926050 TTAAATTA
1 TTAAAATA
5926058 TT-AAA-A
1 TTAAAATA
5926064 TT-AAATA
1 TTAAAATA
5926071 TTAAAATA
1 TTAAAATA
5926079 TT
1 TT
5926081 CAGAATTACT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 6 0.17
7 5 0.14
8 24 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TTAAAATA
Found at i:5926072 original size:13 final size:13
Alignment explanation
Indices: 5926037--5926077 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 13
5926027 TAATTTTTTA
5926037 AAATATTAAATTATT
1 AAATATTAAA--ATT
5926052 AAATTATTAAAATT
1 AAA-TATTAAAATT
5926066 AAATATTAAAAT
1 AAATATTAAAAT
5926078 ATTCAGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.36
14 6 0.24
15 3 0.12
16 7 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATATTAAAATT
Found at i:5926672 original size:4 final size:4
Alignment explanation
Indices: 5926663--5926687 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
5926653 ATTGGACCAC
5926663 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
5926688 GGAATTACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:5928599 original size:23 final size:21
Alignment explanation
Indices: 5928551--5928596 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
5928541 TGCTCACAAT
5928551 GGCGTGTGTCCCCTCCACATG
1 GGCGTGTGTCCCCTCCACATG
** *
5928572 GGCGTGTGTGGCCTTCACATG
1 GGCGTGTGTCCCCTCCACATG
5928593 GGCG
1 GGCG
5928597 CGTAGACCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.30, G:0.37, T:0.24
Consensus pattern (21 bp):
GGCGTGTGTCCCCTCCACATG
Found at i:5929285 original size:21 final size:20
Alignment explanation
Indices: 5929249--5929290 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
5929239 CTGAATATAC
5929249 GTCTGTTTGTCAGAACATTTT
1 GTCTGTTTGTCAGAAC-TTTT
**
5929270 GTCTGTTTGTGTGAACTTTT
1 GTCTGTTTGTCAGAACTTTT
5929290 G
1 G
5929291 GTTATTGACA
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:0.14, C:0.12, G:0.24, T:0.50
Consensus pattern (20 bp):
GTCTGTTTGTCAGAACTTTT
Found at i:5930608 original size:23 final size:23
Alignment explanation
Indices: 5930547--5930606 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
5930537 TTTTAATTTG
* * *
5930547 TTAAAATATCAATTAAT-GATAC
1 TTAAAAAATAAATAAATAGATAC
5930569 TTAAAAAATAAATAAATAGATA-
1 TTAAAAAATAAATAAATAGATAC
*
5930591 TTAAAAATTAAATAAA
1 TTAAAAAATAAATAAA
5930607 ATTTAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (23 bp):
TTAAAAAATAAATAAATAGATAC
Found at i:5941016 original size:13 final size:15
Alignment explanation
Indices: 5940998--5941029 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5940988 CACCAAATTT
5940998 AAACCC-AAT-TAAA
1 AAACCCTAATATAAA
5941011 AAACCCTAATATAAA
1 AAACCCTAATATAAA
5941026 AAAC
1 AAAC
5941030 TTCAAAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 3 0.18
15 8 0.47
ACGTcount: A:0.62, C:0.22, G:0.00, T:0.16
Consensus pattern (15 bp):
AAACCCTAATATAAA
Found at i:5946125 original size:15 final size:15
Alignment explanation
Indices: 5946105--5946142 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
5946095 GTTTTCCAGA
5946105 GGAGTCAATGGTAGT
1 GGAGTCAATGGTAGT
*
5946120 GGAGTCAATTGTAGT
1 GGAGTCAATGGTAGT
*
5946135 GGACTCAA
1 GGAGTCAA
5946143 GGGGAGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.29, C:0.11, G:0.34, T:0.26
Consensus pattern (15 bp):
GGAGTCAATGGTAGT
Found at i:5949827 original size:5 final size:5
Alignment explanation
Indices: 5949808--5949838 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
5949798 AAATAAACCC
5949808 CAAAA CAAAA TCAAAA CAAAA CAAAA CAAAA
1 CAAAA CAAAA -CAAAA CAAAA CAAAA CAAAA
5949839 GAGAATAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.19, G:0.00, T:0.03
Consensus pattern (5 bp):
CAAAA
Found at i:5949829 original size:16 final size:15
Alignment explanation
Indices: 5949808--5949838 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
5949798 AAATAAACCC
5949808 CAAAACAAAATCAAAA
1 CAAAACAAAA-CAAAA
5949824 CAAAACAAAACAAAA
1 CAAAACAAAACAAAA
5949839 GAGAATAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.77, C:0.19, G:0.00, T:0.03
Consensus pattern (15 bp):
CAAAACAAAACAAAA
Found at i:5950740 original size:40 final size:40
Alignment explanation
Indices: 5950696--5950822 Score: 120
Period size: 37 Copynumber: 3.2 Consensus size: 40
5950686 ACCAGTTTGG
* *
5950696 CACCCAATGCTTTATCGGA-TAATTCGAAGTAATAAATTGA
1 CACCCAGTGCTTCATCGGACTAATTCGAAGT-ATAAATTGA
** *
5950736 CACCCAGTG-TCTCATC-GACTAAACCGAAG--TAAATTGG
1 CACCCAGTGCT-TCATCGGACTAATTCGAAGTATAAATTGA
* * *
5950773 CACCCAGTGCCTCATCGAATTAATTCGAAGTAGTAAATTGA
1 CACCCAGTGCTTCATCGGACTAATTCGAAGTA-TAAATTGA
5950814 CACCCAGTG
1 CACCCAGTG
5950823 TCTCATCAAC
Statistics
Matches: 69, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
37 21 0.30
38 9 0.13
39 3 0.04
40 20 0.29
41 16 0.23
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (40 bp):
CACCCAGTGCTTCATCGGACTAATTCGAAGTATAAATTGA
Found at i:5950778 original size:37 final size:40
Alignment explanation
Indices: 5950728--5950833 Score: 130
Period size: 41 Copynumber: 2.7 Consensus size: 40
5950718 TTCGAAGTAA
5950728 TAAATTGACACCCAGTGTCTCATCG-ACTAAACCG-A-AG
1 TAAATTGACACCCAGTGTCTCATCGAACTAAACCGAAGAG
* * * **
5950765 TAAATTGGCACCCAGTGCCTCATCGAATTAATTCGAAGTAG
1 TAAATTGACACCCAGTGTCTCATCGAACTAAACCGAAG-AG
5950806 TAAATTGACACCCAGTGTCTCATC-AACT
1 TAAATTGACACCCAGTGTCTCATCGAACT
5950834 CGAAGTCGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
37 23 0.40
38 6 0.11
39 1 0.02
40 3 0.05
41 24 0.42
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (40 bp):
TAAATTGACACCCAGTGTCTCATCGAACTAAACCGAAGAG
Found at i:5950818 original size:41 final size:40
Alignment explanation
Indices: 5950715--5950829 Score: 146
Period size: 37 Copynumber: 2.9 Consensus size: 40
5950705 CTTTATCGGA
*
5950715 TAATTCGAAGTAATAAATTGACACCCAGTGTCTCATCGAC
1 TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATCGAC
** * * *
5950755 TAAACCG-A--AGTAAATTGGCACCCAGTGCCTCATCGAAT
1 TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATCG-AC
5950793 TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATC
1 TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATC
5950830 AACTCGAAGT
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
37 24 0.39
38 6 0.10
39 2 0.03
40 5 0.08
41 24 0.39
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (40 bp):
TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATCGAC
Found at i:5953732 original size:25 final size:25
Alignment explanation
Indices: 5953701--5953760 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
5953691 ATTATTATGG
*
5953701 TTTTGTCTACAGTTTCGTGATTTTA
1 TTTTGTCCACAGTTTCGTGATTTTA
* *
5953726 TTTTGTCCATAGTTTTGTGATTTTA
1 TTTTGTCCACAGTTTCGTGATTTTA
*
5953751 TTTTGACCAC
1 TTTTGTCCAC
5953761 TCTTATATAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.17, C:0.13, G:0.15, T:0.55
Consensus pattern (25 bp):
TTTTGTCCACAGTTTCGTGATTTTA
Found at i:5958767 original size:25 final size:24
Alignment explanation
Indices: 5958706--5958767 Score: 61
Period size: 26 Copynumber: 2.5 Consensus size: 24
5958696 AAGCGGTAAG
**
5958706 AAACTTGAGCTTGAGCTCAACTCA
1 AAACTTGAGCTTGAGCTCAAAGCA
* *
5958730 AAATTTGAGGCTTGAGACTCAAAGCT
1 AAACTTGA-GCTTGAG-CTCAAAGCA
*
5958756 AGACTTGAGCTT
1 AAACTTGAGCTT
5958768 AACGGAGATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 7 0.23
25 11 0.37
26 12 0.40
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (24 bp):
AAACTTGAGCTTGAGCTCAAAGCA
Found at i:5964438 original size:31 final size:30
Alignment explanation
Indices: 5964403--5964471 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
5964393 TTTTTTTTGT
5964403 CCAAACCCATTTTTAGGAACTATATTTTTAC
1 CCAAACCCATTTTT-GGAACTATATTTTTAC
*** * *
5964434 CCAAATTTATTTTTTGAACTATATTTTTAT
1 CCAAACCCATTTTTGGAACTATATTTTTAC
5964464 CCAAACCC
1 CCAAACCC
5964472 TTTCATTTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (30 bp):
CCAAACCCATTTTTGGAACTATATTTTTAC
Found at i:5968536 original size:27 final size:25
Alignment explanation
Indices: 5968506--5968578 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 25
5968496 ATTATTAATC
5968506 TTTTTATAATTAATTATTAAATTATTA
1 TTTTTATAATTAA-TATTAAATTA-TA
*
5968533 TTTTTAT-ATTAATATGTTAA-TATA
1 TTTTTATAATTAATAT-TAAATTATA
5968557 TTATTTATAATTAA-ATTTAAAT
1 TT-TTTATAATTAATA-TTAAAT
5968579 AAAAATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
24 4 0.10
25 14 0.36
26 14 0.36
27 7 0.18
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (25 bp):
TTTTTATAATTAATATTAAATTATA
Found at i:5968790 original size:16 final size:15
Alignment explanation
Indices: 5968741--5968791 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
5968731 CCAATATAAG
5968741 TATATAATAT-AATA
1 TATATAATATAAATA
*
5968755 TACATAGATATAAA-A
1 TATATA-ATATAAATA
5968770 TTATATAATTATAAATA
1 -TATATAA-TATAAATA
5968787 TATAT
1 TATAT
5968792 TCAAATAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 5 0.17
15 6 0.20
16 18 0.60
17 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (15 bp):
TATATAATATAAATA
Found at i:5974056 original size:21 final size:23
Alignment explanation
Indices: 5974014--5974056 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
5974004 TAATTAATTA
*
5974014 TAAACAGAAGCAAATCTCTTTTG
1 TAAACAGAAGCAAATATCTTTTG
*
5974037 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
5974057 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTG
Found at i:5977068 original size:34 final size:34
Alignment explanation
Indices: 5976900--5977110 Score: 206
Period size: 34 Copynumber: 6.1 Consensus size: 34
5976890 AAATAATACC
** * *
5976900 AGAAATGATGAATGAACAGGAGAGATTCCCTACA
1 AGAAATGATGCGTGAACAAGAGAGATTCCCTGCA
* * *
5976934 AGAAATGATGTGTGAACATGAGAGATTCCCTACA
1 AGAAATGATGCGTGAACAAGAGAGATTCCCTGCA
* * * * *
5976968 ACAAAATAATGCGTGAACAGGAAATATTCCCTGCA
1 A-GAAATGATGCGTGAACAAGAGAGATTCCCTGCA
*
5977003 AGAAATGATGCGTGAACAAGAAAGATTCCCTGCA
1 AGAAATGATGCGTGAACAAGAGAGATTCCCTGCA
* *
5977037 AGAAATGATGTGTGAAAAAGAGAGATTCCCTGCA
1 AGAAATGATGCGTGAACAAGAGAGATTCCCTGCA
* ** * * * *
5977071 ACAAAAAAATGCGTGAATAGGAAATATTCCCTGCA
1 A-GAAATGATGCGTGAACAAGAGAGATTCCCTGCA
5977106 AGAAA
1 AGAAA
5977111 AGACAAGTGA
Statistics
Matches: 149, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
34 96 0.64
35 53 0.36
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (34 bp):
AGAAATGATGCGTGAACAAGAGAGATTCCCTGCA
Found at i:5977082 original size:103 final size:103
Alignment explanation
Indices: 5976900--5977110 Score: 332
Period size: 103 Copynumber: 2.0 Consensus size: 103
5976890 AAATAATACC
* * * *
5976900 AGAAATGATGAATGAACAGGAGAGATTCCCTACAAGAAATGATGTGTGAACATGAGAGATTCCCT
1 AGAAATGATGAATGAACAAGAAAGATTCCCTACAAGAAATGATGTGTGAAAAAGAGAGATTCCCT
*
5976965 ACAACAAAATAATGCGTGAACAGGAAATATTCCCTGCA
66 ACAACAAAAAAATGCGTGAACAGGAAATATTCCCTGCA
** *
5977003 AGAAATGATGCGTGAACAAGAAAGATTCCCTGCAAGAAATGATGTGTGAAAAAGAGAGATTCCCT
1 AGAAATGATGAATGAACAAGAAAGATTCCCTACAAGAAATGATGTGTGAAAAAGAGAGATTCCCT
* *
5977068 GCAACAAAAAAATGCGTGAATAGGAAATATTCCCTGCA
66 ACAACAAAAAAATGCGTGAACAGGAAATATTCCCTGCA
5977106 AGAAA
1 AGAAA
5977111 AGACAAGTGA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
103 98 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (103 bp):
AGAAATGATGAATGAACAAGAAAGATTCCCTACAAGAAATGATGTGTGAAAAAGAGAGATTCCCT
ACAACAAAAAAATGCGTGAACAGGAAATATTCCCTGCA
Found at i:5977121 original size:69 final size:68
Alignment explanation
Indices: 5976993--5977121 Score: 159
Period size: 69 Copynumber: 1.9 Consensus size: 68
5976983 AACAGGAAAT
* ** * ***
5976993 ATTCCCTGCAAGAAATGATGCGTGAACAAGAAAGATTCCCTGCAAGAAATGATGTGTGAAAAAGA
1 ATTCCCTGCAAAAAAAAATGCGTGAACAAGAAAGATTCCCTGCAAGAAAAGACAAGTGAAAAAGA
5977058 GAG
66 GAG
* * *
5977061 ATTCCCTGCAACAAAAAAATGCGTGAATAGGAAATATTCCCTGCAAGAAAAGACAAGTGAA
1 ATTCCCTGCAA-AAAAAAATGCGTGAACAAGAAAGATTCCCTGCAAGAAAAGACAAGTGAA
5977122 TAGTTCTGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
68 11 0.22
69 39 0.78
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (68 bp):
ATTCCCTGCAAAAAAAAATGCGTGAACAAGAAAGATTCCCTGCAAGAAAAGACAAGTGAAAAAGA
GAG
Found at i:5977378 original size:14 final size:13
Alignment explanation
Indices: 5977348--5977385 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
5977338 AGTTTCCAAA
*
5977348 TTTTCAAATTGAG
1 TTTTCAAATTAAG
5977361 TTTTCAAACTTAAG
1 TTTTCAAA-TTAAG
5977375 TTTTCAAATTA
1 TTTTCAAATTA
5977386 CAAATATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:5983121 original size:11 final size:11
Alignment explanation
Indices: 5983080--5983127 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
5983070 ATATATTTAA
5983080 AAAAATT-ATT
1 AAAAATTCATT
**
5983090 AAAAATTCACC
1 AAAAATTCATT
*
5983101 AAAAAATCATT
1 AAAAATTCATT
5983112 AAAAATTCATT
1 AAAAATTCATT
5983123 AAAAA
1 AAAAA
5983128 AATAGAGAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
10 7 0.23
11 24 0.77
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAATTCATT
Found at i:5983128 original size:22 final size:22
Alignment explanation
Indices: 5983079--5983120 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
5983069 TATATATTTA
*
5983079 AAAAAATTATTAAAAATTCACC
1 AAAAAATCATTAAAAATTCACC
5983101 AAAAAATCATTAAAAATTCA
1 AAAAAATCATTAAAAATTCA
5983121 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAAATCATTAAAAATTCACC
Found at i:5983639 original size:25 final size:25
Alignment explanation
Indices: 5983591--5983639 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
5983581 CTTGTGACCA
*
5983591 CAAAAAAAAGTTTAGGTATTACTTT
1 CAAAAAAAAGTTTAGGTATAACTTT
*
5983616 CAAACAAAA-TTTAGGTATCAACTT
1 CAAAAAAAAGTTTAGGTAT-AACTT
5983640 GGGAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (25 bp):
CAAAAAAAAGTTTAGGTATAACTTT
Found at i:5984494 original size:18 final size:18
Alignment explanation
Indices: 5984471--5984507 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5984461 ATATTTTTTT
5984471 TTATTTTAAAAAATTTAA
1 TTATTTTAAAAAATTTAA
* *
5984489 TTATTTTTAAATATTTAA
1 TTATTTTAAAAAATTTAA
5984507 T
1 T
5984508 AATTATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATTTTAAAAAATTTAA
Found at i:5984848 original size:24 final size:23
Alignment explanation
Indices: 5984821--5984875 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
5984811 ATTTACCATG
5984821 TTTAAATTAAATTGTT-TATGATTT
1 TTTAAATTAAATT-TTATAT-ATTT
5984845 TTTAAATTAAATTTTACTATATTT
1 TTTAAATTAAATTTTA-TATATTT
5984869 TTTAAAT
1 TTTAAAT
5984876 ATTAATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 2 0.07
24 24 0.83
25 3 0.10
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTAAATTAAATTTTATATATTT
Found at i:5984890 original size:25 final size:24
Alignment explanation
Indices: 5984821--5984890 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
5984811 ATTTACCATG
* *
5984821 TTTAAAT-TAAATTGTTTATGATTT
1 TTTAAATATTAATTTTTTAT-ATTT
* *
5984845 TTTAAAT-TAAATTTTACTATATTT
1 TTTAAATATTAATTTT-TTATATTT
5984869 TTTAAATATTAATTTATTTATA
1 TTTAAATATTAATTT-TTTATA
5984891 ATTGAATAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
24 25 0.64
25 13 0.33
26 1 0.03
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (24 bp):
TTTAAATATTAATTTTTTATATTT
Found at i:5990412 original size:14 final size:14
Alignment explanation
Indices: 5990356--5990411 Score: 67
Period size: 14 Copynumber: 3.8 Consensus size: 14
5990346 CAAGCTAATA
5990356 ACTAACTGTTAACT
1 ACTAACTGTTAACT
*
5990370 AACTACAACTATTAACT
1 -ACT--AACTGTTAACT
*
5990387 ACTAACTGTTACCT
1 ACTAACTGTTAACT
5990401 ACTAACTGTTA
1 ACTAACTGTTA
5990412 CAACCTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
14 20 0.56
15 3 0.08
16 3 0.08
17 10 0.28
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (14 bp):
ACTAACTGTTAACT
Found at i:5999533 original size:19 final size:19
Alignment explanation
Indices: 5999505--5999541 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5999495 TAATATGAGC
*
5999505 AAAAACAAACAAATCAATA
1 AAAAAAAAACAAATCAATA
5999524 AAAAAAAAACAAATCAAT
1 AAAAAAAAACAAATCAAT
5999542 CGTGTATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.76, C:0.14, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAAAAAAACAAATCAATA
Found at i:6001379 original size:20 final size:21
Alignment explanation
Indices: 6001349--6001390 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6001339 CTACCAAGTG
6001349 AGTATTTTTTTTATTTCAAAA
1 AGTATTTTTTTTATTTCAAAA
6001370 AGTATTTTTTTTATTTCAAAA
1 AGTATTTTTTTTATTTCAAAA
6001391 TCTCAAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
AGTATTTTTTTTATTTCAAAA
Found at i:6003656 original size:16 final size:16
Alignment explanation
Indices: 6003619--6003658 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
6003609 TGACTCAAAT
* *
6003619 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
6003635 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
6003651 TAAAATTA
1 TAAAATTA
6003659 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:6003723 original size:66 final size:59
Alignment explanation
Indices: 6003661--6003776 Score: 189
Period size: 59 Copynumber: 2.0 Consensus size: 59
6003651 TAAAATTATC
* * *
6003661 AAATTAT-TAATTGTTAATTGTATTAATTGTTATAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTTTTAATTGTATTAATTGTTATAACAAAATCTAACATTTAATTAGTA
*
6003719 AAATTATCAAATTTTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTAATTAGT
1 AAATTATCAAATTTTTAATTGTATTAATTGTTATAACAAAATCTAACATTTAATTAGT
6003777 TTACATTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 7 0.13
59 46 0.87
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (59 bp):
AAATTATCAAATTTTTAATTGTATTAATTGTTATAACAAAATCTAACATTTAATTAGTA
Found at i:6005101 original size:25 final size:28
Alignment explanation
Indices: 6005067--6005123 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
6005057 AACTAAAAAC
*
6005067 TTAAATAT-AAAAA-TAAATATATAT-T
1 TTAAACATAAAAAACTAAATATATATAT
*
6005092 TTAAACATAAAAAACTTAATATATATAT
1 TTAAACATAAAAAACTAAATATATATAT
6005120 TTAA
1 TTAA
6005124 TATATTTTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 7 0.26
26 5 0.19
27 10 0.37
28 5 0.19
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (28 bp):
TTAAACATAAAAAACTAAATATATATAT
Found at i:6006201 original size:13 final size:14
Alignment explanation
Indices: 6006185--6006213 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6006175 TTTTAAATAT
6006185 TTATAATG-TTTAA
1 TTATAATGATTTAA
6006198 TTATAATGATTTAA
1 TTATAATGATTTAA
6006212 TT
1 TT
6006214 CTTTGTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATAATGATTTAA
Found at i:6012225 original size:19 final size:18
Alignment explanation
Indices: 6012201--6012248 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
6012191 TAAGAAATAT
*
6012201 ATATTTTTTATTTTTAAAA
1 ATATTTTTTATATTT-AAA
**
6012220 ATATTTTAAAATATTTAAA
1 ATATTTT-TTATATTTAAA
6012239 ATATTTTTTA
1 ATATTTTTTA
6012249 AATACTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATTTTTTATATTTAAA
Found at i:6012232 original size:10 final size:10
Alignment explanation
Indices: 6012212--6012245 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
6012202 TATTTTTTAT
6012212 TTTTAAAAATA
1 TTTT-AAAATA
6012223 TTTTAAAATA
1 TTTTAAAATA
6012233 -TTTAAAATA
1 TTTTAAAATA
6012242 TTTT
1 TTTT
6012246 TTAAATACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 9 0.41
11 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:6013250 original size:29 final size:29
Alignment explanation
Indices: 6013217--6013272 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
6013207 ATATGGACAA
6013217 GATCAAATTAGTCCCTCTATTATTAAATT
1 GATCAAATTAGTCCCTCTATTATTAAATT
* * *
6013246 GATCAATTTAGTCTCTTTATTATTAAA
1 GATCAAATTAGTCCCTCTATTATTAAA
6013273 AGGAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (29 bp):
GATCAAATTAGTCCCTCTATTATTAAATT
Found at i:6013966 original size:16 final size:16
Alignment explanation
Indices: 6013942--6013988 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
6013932 GTTAACAATT
*
6013942 TTAACATTAAAATAAA
1 TTAATATTAAAATAAA
6013958 TTAATATTAAAA-AAA
1 TTAATATTAAAATAAA
6013973 -T-AT-TTAAAATAAA
1 TTAATATTAAAATAAA
6013986 TTA
1 TTA
6013989 GCAGTAAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
12 6 0.22
13 5 0.19
14 2 0.07
15 3 0.11
16 11 0.41
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAATATTAAAATAAA
Found at i:6014968 original size:21 final size:21
Alignment explanation
Indices: 6014942--6015001 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 21
6014932 GAGATGGAGT
* *
6014942 TGGAGCTGGAGGTGGAATTGG
1 TGGAGCTGGTGGTGGAACTGG
6014963 TGGAGCTGGTGGTGGTGGAACTGG
1 TGGAGC---TGGTGGTGGAACTGG
6014987 TGGAGCTGGTGGTGG
1 TGGAGCTGGTGGTGG
6015002 TGGAACTGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 15 0.44
24 19 0.56
ACGTcount: A:0.13, C:0.07, G:0.55, T:0.25
Consensus pattern (21 bp):
TGGAGCTGGTGGTGGAACTGG
Found at i:6014987 original size:24 final size:24
Alignment explanation
Indices: 6014952--6015037 Score: 109
Period size: 24 Copynumber: 3.5 Consensus size: 24
6014942 TGGAGCTGGA
*
6014952 GGTGGAATTGGTGGAGCTGGTGGT
1 GGTGGAACTGGTGGAGCTGGTGGT
6014976 GGTGGAACTGGTGGAGCTGGTGGT
1 GGTGGAACTGGTGGAGCTGGTGGT
**
6015000 GGTGGAACTGGAACTGGAATTGGTGGT
1 GGTGGAACTGG---TGGAGCTGGTGGT
*
6015027 GGTGGAGCTGG
1 GGTGGAACTGG
6015038 AGCTAGAACT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
24 34 0.62
27 21 0.38
ACGTcount: A:0.15, C:0.07, G:0.52, T:0.26
Consensus pattern (24 bp):
GGTGGAACTGGTGGAGCTGGTGGT
Found at i:6015005 original size:15 final size:15
Alignment explanation
Indices: 6014960--6014989 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6014950 GAGGTGGAAT
*
6014960 TGGTGGAGCTGGTGG
1 TGGTGGAACTGGTGG
6014975 TGGTGGAACTGGTGG
1 TGGTGGAACTGGTGG
6014990 AGCTGGTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.57, T:0.27
Consensus pattern (15 bp):
TGGTGGAACTGGTGG
Found at i:6015017 original size:27 final size:27
Alignment explanation
Indices: 6014963--6015374 Score: 126
Period size: 27 Copynumber: 15.1 Consensus size: 27
6014953 GTGGAATTGG
6014963 TGGAGCTGGTGGTGGTGGAACTGG---
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
6014987 TGGAGCTGGTGGTGGTGGAACTGGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
* * *
6015014 TGGAATTGGTGGTGGTGGAGCTGGAGCTAGAAC
1 TGG-A--GCTGGTGGT-G-G-TGGAACTGGAAC
* * * * * *
6015047 TGGATCTGATGGAGTTGGAGCTGGAAT
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
** *
6015074 TGGAATTGGTGGTGGTGGAACTAGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
** ** * * * *
6015101 TAAAAATGGAGATGGAGTAGGTTA-TGGAGC
1 TGGAGCTGGTGGT-G-GT-GG-AACTGGAAC
* *** * *
6015131 TGGAGGTGGAACTGGTGGAGCTAG-A-
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
* *
6015156 -GGAGTTGGTGGTGATGGAACTGGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
**
6015182 TGGTAG-TGG-AAT--TGGAACTGGAAC
1 TGG-AGCTGGTGGTGGTGGAACTGGAAC
* * *
6015206 TGGAACTGGAACTGGTGGTGAAACTGGAGC
1 TGGAGCTGG---TGGTGGTGGAACTGGAAC
* * *** *
6015236 TGGTGGTGGTGGAACTGGAGCTGGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
* *
6015263 TGGTGGTGGTGGTGGTGGAACTGGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
* *** *
6015290 TAGAGCTGGAACTGGTGGAATTGGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
** *
6015317 TGGAATTGGTGGTGGTGGAATTGGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
* * * * * *
6015344 TGGTGGTAGTGGAGCTGGAGCTGGAAC
1 TGGAGCTGGTGGTGGTGGAACTGGAAC
6015371 TGGA
1 TGGA
6015375 ATTGGAATTG
Statistics
Matches: 278, Mismatches: 85, Indels: 47
0.68 0.21 0.11
Matches are distributed among these distances:
23 1 0.00
24 58 0.21
25 1 0.00
26 1 0.00
27 147 0.53
28 7 0.03
29 4 0.01
30 42 0.15
31 2 0.01
32 2 0.01
33 13 0.05
ACGTcount: A:0.23, C:0.08, G:0.44, T:0.24
Consensus pattern (27 bp):
TGGAGCTGGTGGTGGTGGAACTGGAAC
Found at i:6015181 original size:6 final size:6
Alignment explanation
Indices: 6015170--6015220 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
6015160 TTGGTGGTGA
* * *
6015170 TGGAAC TGGAAC TGGTAG TGGAAT TGGAAC TGGAAC TGGAAC TGGAAC
1 TGGAAC TGGAAC TGGAAC TGGAAC TGGAAC TGGAAC TGGAAC TGGAAC
6015218 TGG
1 TGG
6015221 TGGTGAAACT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.29, C:0.12, G:0.37, T:0.22
Consensus pattern (6 bp):
TGGAAC
Found at i:6015185 original size:18 final size:18
Alignment explanation
Indices: 6015164--6015265 Score: 79
Period size: 18 Copynumber: 5.8 Consensus size: 18
6015154 GAGGAGTTGG
6015164 TGGTGATGGAACTGGAAC
1 TGGTGATGGAACTGGAAC
*
6015182 TGGT-AGTGGAATTGGAAC
1 TGGTGA-TGGAACTGGAAC
*
6015200 TGG-AACTGGAACTGGAAC
1 TGGTGA-TGGAACTGGAAC
* * *
6015218 TGGTGGTGAAACTGGAGC
1 TGGTGATGGAACTGGAAC
*
6015236 TGGTGGTGG---TGGAAC
1 TGGTGATGGAACTGGAAC
* *
6015251 TGGAGCTGGAACTGG
1 TGGTGATGGAACTGG
6015266 TGGTGGTGGT
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
15 12 0.18
17 1 0.01
18 54 0.81
ACGTcount: A:0.25, C:0.11, G:0.42, T:0.23
Consensus pattern (18 bp):
TGGTGATGGAACTGGAAC
Found at i:6015262 original size:12 final size:12
Alignment explanation
Indices: 6015170--6015265 Score: 74
Period size: 12 Copynumber: 8.2 Consensus size: 12
6015160 TTGGTGGTGA
*
6015170 TGGAACTGGAAC
1 TGGAGCTGGAAC
*
6015182 TGGTAG-TGGAAT
1 TGG-AGCTGGAAC
*
6015194 TGGAACTGGAAC
1 TGGAGCTGGAAC
*
6015206 TGGAACTGGAAC
1 TGGAGCTGGAAC
* * *
6015218 TGGTGGTGAAAC
1 TGGAGCTGGAAC
6015230 TGGAGCTGG---
1 TGGAGCTGGAAC
* *
6015239 TGGTGGTGGAAC
1 TGGAGCTGGAAC
6015251 TGGAGCTGGAAC
1 TGGAGCTGGAAC
6015263 TGG
1 TGG
6015266 TGGTGGTGGT
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
9 7 0.11
11 1 0.02
12 55 0.86
13 1 0.02
ACGTcount: A:0.25, C:0.11, G:0.42, T:0.22
Consensus pattern (12 bp):
TGGAGCTGGAAC
Found at i:6015264 original size:33 final size:33
Alignment explanation
Indices: 6015212--6015307 Score: 111
Period size: 33 Copynumber: 2.9 Consensus size: 33
6015202 GAACTGGAAC
* * *
6015212 TGGAACTGGTGGTGAAACTGGAGCTGGTGGTGG
1 TGGAACTGGAGCTGGAACTGGAGCTGGTGGTGG
* *
6015245 TGGAACTGGAGCTGGAACTGGTGGTGGTGGTGG
1 TGGAACTGGAGCTGGAACTGGAGCTGGTGGTGG
* * * *
6015278 TGGAACTGGAACTAGAGCTGGAACTGGTGG
1 TGGAACTGGAGCTGGAACTGGAGCTGGTGG
6015308 AATTGGAACT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.20, C:0.10, G:0.47, T:0.23
Consensus pattern (33 bp):
TGGAACTGGAGCTGGAACTGGAGCTGGTGGTGG
Found at i:6015266 original size:21 final size:21
Alignment explanation
Indices: 6015200--6015367 Score: 99
Period size: 21 Copynumber: 8.0 Consensus size: 21
6015190 GAATTGGAAC
*
6015200 TGGAACTGGAACTGGAACTGG
1 TGGAACTGGAGCTGGAACTGG
***
6015221 TGGTGAAACTGGAGCTGGTGGTGG
1 T-G-G-AACTGGAGCTGGAACTGG
6015245 TGGAACTGGAGCTGGAACTGG
1 TGGAACTGGAGCTGGAACTGG
*** * *
6015266 TGGTGGTGGTGGTGGAAC---
1 TGGAACTGGAGCTGGAACTGG
*
6015284 TGGAACTAGAGCTGGAACTGG
1 TGGAACTGGAGCTGGAACTGG
* * *
6015305 TGGAATTGGAACTGGAATTGG
1 TGGAACTGGAGCTGGAACTGG
*** **
6015326 TGGTGGTGGAATTGGAACTGG
1 TGGAACTGGAGCTGGAACTGG
* * *
6015347 TGGTAGTGGAGCTGGAGCTGG
1 TGGAACTGGAGCTGGAACTGG
6015368 AACTGGAATT
Statistics
Matches: 110, Mismatches: 31, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
18 12 0.11
21 79 0.72
22 2 0.02
23 2 0.02
24 15 0.14
ACGTcount: A:0.21, C:0.10, G:0.45, T:0.24
Consensus pattern (21 bp):
TGGAACTGGAGCTGGAACTGG
Found at i:6015279 original size:39 final size:43
Alignment explanation
Indices: 6015194--6015307 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 43
6015184 GTAGTGGAAT
*
6015194 TGGAACTGGAACTGGAACTGGAACTGGTGGTGAAACTGGAGCTGG
1 TGGAACTGGAACTGGAGCTGGAACTGGTGGTG--ACTGGAGCTGG
*** *
6015239 TGGTGGTGGAACTGGAGCTGGAACTGGTGGTG-GT-G-G-TGG
1 TGGAACTGGAACTGGAGCTGGAACTGGTGGTGACTGGAGCTGG
*
6015278 TGGAACTGGAACTAGAGCTGGAACTGGTGG
1 TGGAACTGGAACTGGAGCTGGAACTGGTGG
6015308 AATTGGAACT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
39 29 0.48
40 1 0.02
41 1 0.02
42 1 0.02
45 28 0.47
ACGTcount: A:0.22, C:0.11, G:0.45, T:0.22
Consensus pattern (43 bp):
TGGAACTGGAACTGGAGCTGGAACTGGTGGTGACTGGAGCTGG
Found at i:6015316 original size:15 final size:15
Alignment explanation
Indices: 6015296--6015349 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
6015286 GAACTAGAGC
6015296 TGGAACTGGTGGAAT
1 TGGAACTGGTGGAAT
6015311 TGGAAC---TGGAAT
1 TGGAACTGGTGGAAT
***
6015323 TGGTGGTGGTGGAAT
1 TGGAACTGGTGGAAT
6015338 TGGAACTGGTGG
1 TGGAACTGGTGG
6015350 TAGTGGAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
12 9 0.30
15 21 0.70
ACGTcount: A:0.22, C:0.06, G:0.44, T:0.28
Consensus pattern (15 bp):
TGGAACTGGTGGAAT
Found at i:6015321 original size:39 final size:39
Alignment explanation
Indices: 6015245--6015321 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 39
6015235 CTGGTGGTGG
* ** ***
6015245 TGGAACTGGAGCTGGAACTGGTGGTGGTGGTGGTGGAAC
1 TGGAACTAGAGCTGGAACTGGTGGAAGTGGAACTGGAAC
*
6015284 TGGAACTAGAGCTGGAACTGGTGGAATTGGAACTGGAA
1 TGGAACTAGAGCTGGAACTGGTGGAAGTGGAACTGGAA
6015322 TTGGTGGTGG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.25, C:0.10, G:0.43, T:0.22
Consensus pattern (39 bp):
TGGAACTAGAGCTGGAACTGGTGGAAGTGGAACTGGAAC
Found at i:6015374 original size:54 final size:54
Alignment explanation
Indices: 6015160--6015379 Score: 200
Period size: 54 Copynumber: 4.1 Consensus size: 54
6015150 GCTAGAGGAG
* *
6015160 TTGGTGGTGATGGAACTGGAAC---TGGTAGTGGAATTGGAACTGGAACTGGAA
1 TTGGTGGTGGTGGAACTGGAACTGGTGGTAGTGGAACTGGAACTGGAACTGGAA
* * * * * **
6015211 CTGGAACTGGTGGTGAAACTGGAGCTGGTGGTGGTGGAACTGGAGCTGGAACTGGTG
1 TTGG---TGGTGGTGGAACTGGAACTGGTGGTAGTGGAACTGGAACTGGAACTGGAA
* * * *
6015268 GTGGTGGTGGTGGAACTGGAACTAGAGCTGGAACTGG---TGGAATTGGAACTGGAA
1 TTGGTGGTGGTGGAACTGGAACT-G-G-TGGTAGTGGAACTGGAACTGGAACTGGAA
* * *
6015322 TTGGTGGTGGTGGAATTGGAACTGGTGGTAGTGGAGCTGGAGCTGGAACTGGAA
1 TTGGTGGTGGTGGAACTGGAACTGGTGGTAGTGGAACTGGAACTGGAACTGGAA
6015376 TTGG
1 TTGG
6015380 AATTGGTGGT
Statistics
Matches: 132, Mismatches: 25, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
51 10 0.08
52 1 0.01
53 1 0.01
54 85 0.64
55 1 0.01
56 1 0.01
57 33 0.25
ACGTcount: A:0.23, C:0.09, G:0.44, T:0.25
Consensus pattern (54 bp):
TTGGTGGTGGTGGAACTGGAACTGGTGGTAGTGGAACTGGAACTGGAACTGGAA
Found at i:6015536 original size:18 final size:18
Alignment explanation
Indices: 6015503--6015537 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6015493 AAAGTGGTGG
*
6015503 AGCTAGTGGAGTTGGAAA
1 AGCTAGTGGAGGTGGAAA
*
6015521 AGCTAGTGGTGGTGGAA
1 AGCTAGTGGAGGTGGAA
6015538 CTGGTGGAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.43, T:0.23
Consensus pattern (18 bp):
AGCTAGTGGAGGTGGAAA
Found at i:6021385 original size:20 final size:20
Alignment explanation
Indices: 6021360--6021420 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
6021350 TATGAACATT
6021360 AAATAAATTAATATAATAAA
1 AAATAAATTAATATAATAAA
* *
6021380 AAAT-AATTACATAGAA-CAA
1 AAATAAATTA-ATATAATAAA
* *
6021399 AAATAAATATAAAATTATAAA
1 AAATAAAT-TAATATAATAAA
6021420 A
1 A
6021421 GAATCAAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 11 0.35
20 15 0.48
21 5 0.16
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (20 bp):
AAATAAATTAATATAATAAA
Found at i:6022799 original size:23 final size:23
Alignment explanation
Indices: 6022772--6022816 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6022762 TTTCCTAATG
*
6022772 AAACCAAATTCAATACCAAATCA
1 AAACCAAATCCAATACCAAATCA
*
6022795 AAACCAAATCCAATATCAAATC
1 AAACCAAATCCAATACCAAATC
6022817 GAGCTTCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.18
Consensus pattern (23 bp):
AAACCAAATCCAATACCAAATCA
Found at i:6022816 original size:12 final size:12
Alignment explanation
Indices: 6022774--6022816 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
6022764 TCCTAATGAA
*
6022774 ACCAAATTCAAT
1 ACCAAATCCAAT
*
6022786 ACCAAAT-CAAA
1 ACCAAATCCAAT
6022797 ACCAAATCCAAT
1 ACCAAATCCAAT
*
6022809 ATCAAATC
1 ACCAAATC
6022817 GAGCTTCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (12 bp):
ACCAAATCCAAT
Done.