Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 60 of 100
Found at i:10935467 original size:16 final size:17
Alignment explanation
Indices: 10935443--10935482 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
10935433 ATAGATCATG
10935443 ATTAAAAAATTA-CAAA
1 ATTAAAAAATTATCAAA
*
10935459 ATTATAAAATTATCAAA
1 ATTAAAAAATTATCAAA
*
10935476 ATGAAAA
1 ATTAAAA
10935483 CACAATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (17 bp):
ATTAAAAAATTATCAAA
Found at i:10936273 original size:2 final size:2
Alignment explanation
Indices: 10936266--10936293 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10936256 TTTGAGTTAT
10936266 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
10936294 AGGATTCTAA
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):
TA
Found at i:10936856 original size:146 final size:147
Alignment explanation
Indices: 10936592--10936888 Score: 542
Period size: 146 Copynumber: 2.0 Consensus size: 147
10936582 GTCTAATTGC
* * *
10936592 TTTTAGAAAAGTAGCAGCCTGCATACTTTAGGGTTCACAGAATTTCCAAGCGATTTCTAACTCGT
1 TTTTAGAAAAGTAGCAGCCTACATACTTCAGGGTTCACAGAATTTCCAAGCAATTTCTAACTCGT
* *
10936657 GCGACTTGCCGTTTTATACACTAAAGCATGAGGGACGAAATTCCGTGACTCTTACGATTGCGTTT
66 GCGACTTGCCGTTCTATACACTAAAGCATGAGGGACGAAATTCCGTGACTCTTACGATTGAGTTT
10936722 TG-TTTTGTTTTTGTTT
131 TGTTTTTGTTTTTGTTT
10936738 TTTTAGAAAAGTAGCAGCCTACATACTTCAGGGTTCACAGAATTTCCAAGCAATTTCTAACTCGT
1 TTTTAGAAAAGTAGCAGCCTACATACTTCAGGGTTCACAGAATTTCCAAGCAATTTCTAACTCGT
10936803 GCGACTTGCCGTTCTATACACTAAAGCATGAGGGACGAAATTCCGTGACTCTTACGATTGAGTTT
66 GCGACTTGCCGTTCTATACACTAAAGCATGAGGGACGAAATTCCGTGACTCTTACGATTGAGTTT
10936868 TGTTTTTGTTTTTGTTT
131 TGTTTTTGTTTTTGTTT
10936885 TTTT
1 TTTT
10936889 TTTTCTTTTT
Statistics
Matches: 145, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
146 127 0.88
147 18 0.12
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (147 bp):
TTTTAGAAAAGTAGCAGCCTACATACTTCAGGGTTCACAGAATTTCCAAGCAATTTCTAACTCGT
GCGACTTGCCGTTCTATACACTAAAGCATGAGGGACGAAATTCCGTGACTCTTACGATTGAGTTT
TGTTTTTGTTTTTGTTT
Found at i:10936917 original size:6 final size:6
Alignment explanation
Indices: 10936865--10936898 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10936855 TACGATTGAG
* *
10936865 TTTTGT TTTTGT TTTTGT TTTTTT TTTTCT TTTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTT
10936899 TACGTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (6 bp):
TTTTGT
Found at i:10938840 original size:23 final size:23
Alignment explanation
Indices: 10938813--10938881 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
10938803 AGGATTTCAA
* *
10938813 AGTTTTAGGGTTTTGGGTTTTAG
1 AGTTTTAAGGTTTAGGGTTTTAG
* *
10938836 AGTTTCGAATGTTTAGGGTTTT-G
1 AGTTT-TAAGGTTTAGGGTTTTAG
10938859 ACGTTTTAAGGTTTAGGGTTTTA
1 A-GTTTTAAGGTTTAGGGTTTTA
10938882 AGGTTTCGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
23 21 0.57
24 16 0.43
ACGTcount: A:0.17, C:0.03, G:0.30, T:0.49
Consensus pattern (23 bp):
AGTTTTAAGGTTTAGGGTTTTAG
Found at i:10938851 original size:47 final size:47
Alignment explanation
Indices: 10938800--10938890 Score: 112
Period size: 47 Copynumber: 1.9 Consensus size: 47
10938790 AGGGTCTTGT
* *
10938800 TTTAGGATTTCAAAGTTTTAGGGTTTTGGGTTTT-AGAGTTTCGAATG
1 TTTAGGATTTCAAAGTTTTAAGGTTTAGGGTTTTAAG-GTTTCGAATG
* ** *
10938847 TTTAGGGTTTTGACGTTTTAAGGTTTAGGGTTTTAAGGTTTCGA
1 TTTAGGATTTCAAAGTTTTAAGGTTTAGGGTTTTAAGGTTTCGA
10938891 GCTTAGGGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
47 35 0.95
48 2 0.05
ACGTcount: A:0.20, C:0.04, G:0.29, T:0.47
Consensus pattern (47 bp):
TTTAGGATTTCAAAGTTTTAAGGTTTAGGGTTTTAAGGTTTCGAATG
Found at i:10938866 original size:16 final size:15
Alignment explanation
Indices: 10938813--10938901 Score: 63
Period size: 15 Copynumber: 5.9 Consensus size: 15
10938803 AGGATTTCAA
10938813 AGTTTTAGGGTTTTG
1 AGTTTTAGGGTTTTG
* * *
10938828 GGTTTTAGAGTTTCG
1 AGTTTTAGGGTTTTG
*
10938843 AATGTTTAGGGTTTTG
1 AGT-TTTAGGGTTTTG
* *
10938859 ACGTTTTAAGGTTTAG
1 A-GTTTTAGGGTTTTG
* * *
10938875 GGTTTTAAGGTTTCG
1 AGTTTTAGGGTTTTG
*
10938890 AG-CTTAGGGTTT
1 AGTTTTAGGGTTT
10938902 CAAGCTTTTA
Statistics
Matches: 57, Mismatches: 15, Indels: 5
0.74 0.19 0.06
Matches are distributed among these distances:
14 8 0.14
15 27 0.47
16 21 0.37
17 1 0.02
ACGTcount: A:0.17, C:0.04, G:0.31, T:0.47
Consensus pattern (15 bp):
AGTTTTAGGGTTTTG
Found at i:10938887 original size:23 final size:23
Alignment explanation
Indices: 10938800--10938887 Score: 70
Period size: 23 Copynumber: 3.8 Consensus size: 23
10938790 AGGGTCTTGT
* * * *
10938800 TTTAGGATTTCAAAGTTTTAGGG
1 TTTAGGGTTTTAAGGTTTTAAGG
* * *
10938823 TTTTGGGTTTT-AGAGTTTCGAATG
1 TTTAGGGTTTTAAG-GTTT-TAAGG
* *
10938847 TTTAGGGTTTTGACGTTTTAAGG
1 TTTAGGGTTTTAAGGTTTTAAGG
10938870 TTTAGGGTTTTAAGGTTT
1 TTTAGGGTTTTAAGGTTT
10938888 CGAGCTTAGG
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
22 1 0.02
23 31 0.63
24 16 0.33
25 1 0.02
ACGTcount: A:0.19, C:0.03, G:0.28, T:0.49
Consensus pattern (23 bp):
TTTAGGGTTTTAAGGTTTTAAGG
Found at i:10941410 original size:35 final size:35
Alignment explanation
Indices: 10941315--10941421 Score: 106
Period size: 35 Copynumber: 3.1 Consensus size: 35
10941305 AAACAATTGA
* * *
10941315 GATTAAACTACAAGTTAGGAAATAAAGATGACTAG
1 GATTAAACTGCAAGTTAGGAAATAAAGATAACCAG
* * * * * *
10941350 GATTGAATTGTAAGTCAGGACATAAAGATAACCGG
1 GATTAAACTGCAAGTTAGGAAATAAAGATAACCAG
* * *
10941385 GATTAAACTGCAAGTTAAGAAATAAATATGACCAG
1 GATTAAACTGCAAGTTAGGAAATAAAGATAACCAG
10941420 GA
1 GA
10941422 AGTCAGGAAA
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.22
Consensus pattern (35 bp):
GATTAAACTGCAAGTTAGGAAATAAAGATAACCAG
Found at i:10941593 original size:35 final size:35
Alignment explanation
Indices: 10941554--10941715 Score: 100
Period size: 36 Copynumber: 4.6 Consensus size: 35
10941544 TATTGAGTCG
*
10941554 CAAGTCAAAAAATAAAAATGATCAAAACTGAA-CTA
1 CAAGTCAAAAAATAAAAATGATCAAAACT-AAGCCA
* * * *
10941589 CAAGTC--AAAATAAAGATGACCAAAGCTAAGCCG
1 CAAGTCAAAAAATAAAAATGATCAAAACTAAGCCA
** ** *
10941622 CAAGTCGAAAAAATAAAAGCGATCAGGATTGAA-CCA
1 CAAGTC-AAAAAATAAAAATGATCAAAACT-AAGCCA
* **
10941658 CAAATCAAAAAATAAAAGATGATTC-AAACTAAGCTG
1 CAAGTCAAAAAATAAAA-ATGA-TCAAAACTAAGCCA
* * *
10941694 CAAGTTAGAAAATGAAAATGAT
1 CAAGTCAAAAAATAAAAATGAT
10941716 TGAGACTGAA
Statistics
Matches: 93, Mismatches: 26, Indels: 17
0.68 0.19 0.12
Matches are distributed among these distances:
32 2 0.02
33 25 0.27
34 1 0.01
35 23 0.25
36 38 0.41
37 4 0.04
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.17
Consensus pattern (35 bp):
CAAGTCAAAAAATAAAAATGATCAAAACTAAGCCA
Found at i:10941666 original size:69 final size:70
Alignment explanation
Indices: 10941521--10941698 Score: 166
Period size: 69 Copynumber: 2.5 Consensus size: 70
10941511 TTAAACCATG
* * * * * *
10941521 AATCAAAGAAT-AAAGATGATCGATATTGAGTCGCAAGTCAAAAAATAAAAATGATCAAAACTGA
1 AATCAAA-AATAAAAGATGATCCAAACTAAGCCGCAAGTCAAAAAATAAAAACGATCAAAACTGA
*
10941585 ACTACA
65 ACCACA
* * ** *
10941591 AGTC-AAAAT-AAAGATGA-CCAAAGCTAAGCCGCAAGTCGAAAAAATAAAAGCGATCAGGATTG
1 AATCAAAAATAAAAGATGATCCAAA-CTAAGCCGCAAGTC-AAAAAATAAAAACGATCAAAACTG
10941653 AACCACA
64 AACCACA
* *
10941660 AATCAAAAAATAAAAGATGATTCAAACTAAGCTGCAAGT
1 AATC-AAAAATAAAAGATGATCCAAACTAAGCCGCAAGT
10941699 TAGAAAATGA
Statistics
Matches: 87, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
67 3 0.03
68 22 0.25
69 30 0.34
70 3 0.03
71 5 0.06
72 20 0.23
73 4 0.05
ACGTcount: A:0.52, C:0.15, G:0.16, T:0.17
Consensus pattern (70 bp):
AATCAAAAATAAAAGATGATCCAAACTAAGCCGCAAGTCAAAAAATAAAAACGATCAAAACTGAA
CCACA
Found at i:10942037 original size:35 final size:35
Alignment explanation
Indices: 10941920--10942074 Score: 116
Period size: 35 Copynumber: 4.5 Consensus size: 35
10941910 GCAAGTTAGA
* ****
10941920 AAATAAAGATGATCGAAACTGAGTTGTAAGTC-AG
1 AAATAAAGATGATCAAAACTGAACCATAAGTCAAG
* * * * *
10941954 CAAATAAAAATGACCAAGATTGAACCATAAGTCAAA
1 -AAATAAAGATGATCAAAACTGAACCATAAGTCAAG
* * *
10941990 AAATAAAAATGATCAAAACCGAGCCATAAGTCAAG
1 AAATAAAGATGATCAAAACTGAACCATAAGTCAAG
* * * **
10942025 AAATAAAGATGATCGAAACAGAATCGCAAGTCAAG
1 AAATAAAGATGATCAAAACTGAACCATAAGTCAAG
*
10942060 -AATAAAGGTGATCAA
1 AAATAAAGATGATCAA
10942075 GATTGAATTA
Statistics
Matches: 94, Mismatches: 25, Indels: 3
0.77 0.20 0.02
Matches are distributed among these distances:
34 13 0.14
35 80 0.85
36 1 0.01
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (35 bp):
AAATAAAGATGATCAAAACTGAACCATAAGTCAAG
Found at i:10942114 original size:35 final size:35
Alignment explanation
Indices: 10942075--10942142 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
10942065 AGGTGATCAA
*
10942075 GATTGAATTACAAGTCAAAAAATAAAAATGACTGG
1 GATTGAATCACAAGTCAAAAAATAAAAATGACTGG
* * * *
10942110 GATTGAGTCACATGTTAGAAAATAAAAATGACT
1 GATTGAATCACAAGTCAAAAAATAAAAATGACT
10942143 AGGAGCTCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.49, C:0.09, G:0.18, T:0.25
Consensus pattern (35 bp):
GATTGAATCACAAGTCAAAAAATAAAAATGACTGG
Found at i:10943228 original size:23 final size:23
Alignment explanation
Indices: 10943202--10943329 Score: 105
Period size: 23 Copynumber: 5.6 Consensus size: 23
10943192 TCGATGTCAA
* * *
10943202 CTAATCTAGGCTTAAGGTGCTAG
1 CTAATCTTGGCTTAAAGTGCCAG
* * *
10943225 CTAATCTGGGCTT-AGGTACCAG
1 CTAATCTTGGCTTAAAGTGCCAG
* * * *
10943247 CTAATATTGGCTTAAAATGCTAT
1 CTAATCTTGGCTTAAAGTGCCAG
*
10943270 CTAATCTTGGTTTAAAGTGCCAG
1 CTAATCTTGGCTTAAAGTGCCAG
* ** *
10943293 CCAATCTTGGCTTAAAGTGTTAA
1 CTAATCTTGGCTTAAAGTGCCAG
*
10943316 CTAATCTGGGCTTA
1 CTAATCTTGGCTTA
10943330 GGTACCAACT
Statistics
Matches: 82, Mismatches: 22, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
22 18 0.22
23 64 0.78
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (23 bp):
CTAATCTTGGCTTAAAGTGCCAG
Found at i:10943248 original size:22 final size:22
Alignment explanation
Indices: 10943202--10943260 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
10943192 TCGATGTCAA
* *
10943202 CTAATCTAGGCTTAAGGTGCTAG
1 CTAATCTAGGCTT-AGGTACCAG
*
10943225 CTAATCTGGGCTTAGGTACCAG
1 CTAATCTAGGCTTAGGTACCAG
* *
10943247 CTAATATTGGCTTA
1 CTAATCTAGGCTTA
10943261 AAATGCTATC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (22 bp):
CTAATCTAGGCTTAGGTACCAG
Found at i:10945595 original size:15 final size:15
Alignment explanation
Indices: 10945575--10945607 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10945565 TGTTTCTTCT
10945575 TTTGTTTATTTTTGC
1 TTTGTTTATTTTTGC
*
10945590 TTTGTTTATTTTTTC
1 TTTGTTTATTTTTGC
10945605 TTT
1 TTT
10945608 TTCTCTTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.06, G:0.09, T:0.79
Consensus pattern (15 bp):
TTTGTTTATTTTTGC
Found at i:10949633 original size:8 final size:8
Alignment explanation
Indices: 10949617--10949785 Score: 60
Period size: 8 Copynumber: 21.5 Consensus size: 8
10949607 GTTTCAAGCA
*
10949617 TTTAGGGT
1 TTTAAGGT
10949625 TTTAAGGT
1 TTTAAGGT
*
10949633 TTT-AGGA
1 TTTAAGGT
10949640 TTTAAGGT
1 TTTAAGGT
*
10949648 TTTAAAGT
1 TTTAAGGT
** *
10949656 TTCGAGAT
1 TTTAAGGT
*
10949664 TTT-GGGT
1 TTTAAGGT
**
10949671 TTCGAGGT
1 TTTAAGGT
10949679 TTTAAGGT
1 TTTAAGGT
*
10949687 TTAAAGGT
1 TTTAAGGT
*
10949695 TTT-TGAGT
1 TTTAAG-GT
* *
10949703 TTTGAGAT
1 TTTAAGGT
*
10949711 TTT-AGAAT
1 TTTAAG-GT
*
10949719 TTCAAGGT
1 TTTAAGGT
*
10949727 TTTAGGGT
1 TTTAAGGT
* *
10949735 TTTGAGTT
1 TTTAAGGT
* *
10949743 TTTGAGTT
1 TTTAAGGT
*
10949751 TTTGAGGT
1 TTTAAGGT
* *
10949759 TTTGAGTT
1 TTTAAGGT
*
10949767 TTTGA-GT
1 TTTAAGGT
*
10949774 TTCAAGGT
1 TTTAAGGT
10949782 TTTA
1 TTTA
10949786 GAGTTTCAAA
Statistics
Matches: 121, Mismatches: 33, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
7 17 0.14
8 101 0.83
9 3 0.02
ACGTcount: A:0.21, C:0.02, G:0.27, T:0.50
Consensus pattern (8 bp):
TTTAAGGT
Found at i:10949636 original size:16 final size:16
Alignment explanation
Indices: 10949617--10949737 Score: 75
Period size: 16 Copynumber: 7.7 Consensus size: 16
10949607 GTTTCAAGCA
10949617 TTTAGGGTTTTAAGGT
1 TTTAGGGTTTTAAGGT
*
10949633 TTTA-GGATTTAAGGT
1 TTTAGGGTTTTAAGGT
** ** *
10949648 TTTAAAGTTTCGAGAT
1 TTTAGGGTTTTAAGGT
**
10949664 TTT-GGGTTTCGAGGT
1 TTTAGGGTTTTAAGGT
* *
10949679 TTTAAGGTTTAAAGGT
1 TTTAGGGTTTTAAGGT
* * * *
10949695 TTTTGAGTTTTGAGAT
1 TTTAGGGTTTTAAGGT
** *
10949711 TTTAGAATTTCAAGGT
1 TTTAGGGTTTTAAGGT
10949727 TTTAGGGTTTT
1 TTTAGGGTTTT
10949738 GAGTTTTTGA
Statistics
Matches: 77, Mismatches: 26, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
15 26 0.34
16 51 0.66
ACGTcount: A:0.22, C:0.02, G:0.26, T:0.49
Consensus pattern (16 bp):
TTTAGGGTTTTAAGGT
Found at i:10949671 original size:23 final size:23
Alignment explanation
Indices: 10949605--10949672 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
10949595 TTGGGTCTTC
10949605 AAGTTTCAAGCATTTAGGGTTTTA
1 AAGTTTCAAG-ATTTAGGGTTTTA
* * * *
10949629 AGGTTTTAGGATTTAAGGTTTTA
1 AAGTTTCAAGATTTAGGGTTTTA
* *
10949652 AAGTTTCGAGATTTTGGGTTT
1 AAGTTTCAAGATTTAGGGTTT
10949673 CGAGGTTTTA
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
23 27 0.79
24 7 0.21
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (23 bp):
AAGTTTCAAGATTTAGGGTTTTA
Found at i:10949704 original size:47 final size:46
Alignment explanation
Indices: 10949606--10949751 Score: 134
Period size: 47 Copynumber: 3.1 Consensus size: 46
10949596 TGGGTCTTCA
* * * **
10949606 AGTTTCAAGCATTTAGGGTTTTAAGGTTTT-AGGATTTAAGGTTTTAA
1 AGTTTCGAG-ATTTTGGGTTTCAAGGTTTTAAGG-TTTAAGGTTTTTG
*
10949653 AGTTTCGAGATTTTGGGTTTCGAGGTTTTAAGGTTTAAAGGTTTTTG
1 AGTTTCGAGATTTTGGGTTTCAAGGTTTTAAGGTTT-AAGGTTTTTG
* ** * *
10949700 AGTTTTGAGATTTTAGAATTTCAAGGTTTTAGGGTTT-TGAGTTTTTG
1 AGTTTCGAGATTTT-GGGTTTCAAGGTTTTAAGGTTTAAG-GTTTTTG
10949747 AGTTT
1 AGTTT
10949752 TTGAGGTTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
46 21 0.25
47 44 0.53
48 18 0.22
ACGTcount: A:0.23, C:0.03, G:0.26, T:0.48
Consensus pattern (46 bp):
AGTTTCGAGATTTTGGGTTTCAAGGTTTTAAGGTTTAAGGTTTTTG
Found at i:10949714 original size:32 final size:31
Alignment explanation
Indices: 10949663--10949783 Score: 84
Period size: 32 Copynumber: 3.8 Consensus size: 31
10949653 AGTTTCGAGA
* *
10949663 TTTTGGGTTTCGAGGTTTTAAGGTTTAAAGGT
1 TTTTGAGTTTTGA-GTTTTAAGGTTTAAAGGT
* *
10949695 TTTTGAGTTTTGAGATTTT-AGAATTTCAAGGT
1 TTTTGAGTTTTGAG-TTTTAAG-GTTTAAAGGT
* * * * **
10949727 TTTAGGGTTTTGAGTTTTTGAGTTTTTGAGG-
1 TTTTGAGTTTTGAG-TTTTAAGGTTTAAAGGT
*
10949758 TTTTGAGTTTTTGAGTTTCAAGGTTT
1 TTTTGAG-TTTTGAGTTTTAAGGTTT
10949784 TAGAGTTTCA
Statistics
Matches: 70, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
31 16 0.23
32 52 0.74
33 2 0.03
ACGTcount: A:0.18, C:0.02, G:0.27, T:0.52
Consensus pattern (31 bp):
TTTTGAGTTTTGAGTTTTAAGGTTTAAAGGT
Found at i:10949745 original size:16 final size:16
Alignment explanation
Indices: 10949734--10949775 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
10949724 GGTTTTAGGG
10949734 TTTTGAGTTTTTGAGT
1 TTTTGAGTTTTTGAGT
*
10949750 TTTTGAGGTTTTGAGT
1 TTTTGAGTTTTTGAGT
10949766 TTTTGAGTTT
1 TTTTGAGTTT
10949776 CAAGGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.26, T:0.62
Consensus pattern (16 bp):
TTTTGAGTTTTTGAGT
Found at i:10949783 original size:16 final size:16
Alignment explanation
Indices: 10949764--10949794 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10949754 GAGGTTTTGA
*
10949764 GTTTTTGAGTTTCAAG
1 GTTTTAGAGTTTCAAG
10949780 GTTTTAGAGTTTCAA
1 GTTTTAGAGTTTCAA
10949795 AATTTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (16 bp):
GTTTTAGAGTTTCAAG
Found at i:10949789 original size:24 final size:24
Alignment explanation
Indices: 10949732--10949791 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
10949722 AAGGTTTTAG
**
10949732 GGTTTTGAGTTTTTGAGTTTTTGA
1 GGTTTTGAGTTTTTGAGTTTTCAA
10949756 GGTTTTGAGTTTTTGAG-TTTCAA
1 GGTTTTGAGTTTTTGAGTTTTCAA
10949779 GGTTTTAGAGTTT
1 GGTTTT-GAGTTT
10949792 CAAAATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 10 0.30
24 23 0.70
ACGTcount: A:0.15, C:0.02, G:0.28, T:0.55
Consensus pattern (24 bp):
GGTTTTGAGTTTTTGAGTTTTCAA
Found at i:10950365 original size:62 final size:62
Alignment explanation
Indices: 10950288--10950413 Score: 184
Period size: 62 Copynumber: 2.0 Consensus size: 62
10950278 AATCATTTTT
*
10950288 AAATCATAAAAATATTATCTTTTA-TTTTCTCCAAATTAC-ATTTTTTTTATAAATCATCCAC
1 AAATCATAAAAATATTATCTTTTACTTTT-TCCAAATTACAATTTATTTTATAAATCATCCAC
* *
10950349 AAATACATAAAAATATTTTCTTTTACTTTTTTCAAATTACAAATTTATTTTATAAATCATCCAC
1 AAAT-CATAAAAATATTATCTTTTACTTTTTCCAAATTAC-AATTTATTTTATAAATCATCCAC
10950413 A
1 A
10950414 GATAAATTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
61 4 0.07
62 28 0.48
63 4 0.07
64 22 0.38
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (62 bp):
AAATCATAAAAATATTATCTTTTACTTTTTCCAAATTACAATTTATTTTATAAATCATCCAC
Found at i:10952215 original size:10 final size:10
Alignment explanation
Indices: 10952195--10952235 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
10952185 AATCAAGCAC
10952195 ATAAA-TCAA
1 ATAAATTCAA
10952204 ATAAATTCAA
1 ATAAATTCAA
**
10952214 ATAAATTTGA
1 ATAAATTCAA
10952224 ATAAATT-AA
1 ATAAATTCAA
10952233 ATA
1 ATA
10952236 TTTATAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 9 0.32
10 19 0.68
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (10 bp):
ATAAATTCAA
Found at i:10953260 original size:28 final size:26
Alignment explanation
Indices: 10953223--10953279 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
10953213 ATATTAATAA
*
10953223 TTTAAAATTTTTATTATATAAATTTTAT
1 TTTAAAATTTTTAATA-AT-AATTTTAT
* *
10953251 TTTAATATTTTTAATAATTATTTTAT
1 TTTAAAATTTTTAATAATAATTTTAT
10953277 TTT
1 TTT
10953280 CTCATTGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 10 0.38
27 2 0.08
28 14 0.54
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTAAAATTTTTAATAATAATTTTAT
Found at i:10954235 original size:12 final size:12
Alignment explanation
Indices: 10954220--10954264 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
10954210 CAAAATATAT
10954220 ATTTTAATATTA
1 ATTTTAATATTA
*
10954232 ATTTTAATCTTA
1 ATTTTAATATTA
10954244 TCATTTTAATAATTA
1 --ATTTTAAT-ATTA
10954259 ATTTTA
1 ATTTTA
10954265 TTTTTATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 11 0.39
13 6 0.21
14 8 0.29
15 3 0.11
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTTAATATTA
Found at i:10954263 original size:27 final size:26
Alignment explanation
Indices: 10954220--10954275 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
10954210 CAAAATATAT
10954220 ATTTTAATATTAATTTTAATCTTATC
1 ATTTTAATATTAATTTTAATCTTATC
* *
10954246 ATTTTAATAATTAATTTTATTTTTATC
1 ATTTTAAT-ATTAATTTTAATCTTATC
10954273 ATT
1 ATT
10954276 ATTTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTAATATTAATTTTAATCTTATC
Found at i:10954283 original size:27 final size:27
Alignment explanation
Indices: 10954219--10954284 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
10954209 TCAAAATATA
10954219 TATTTTAATATTAATTTTAATCTTATCAT
1 TATTTT-A-ATTAATTTTAATCTTATCAT
* * *
10954248 T-TTAATAATTAATTTTATTTTTATCAT
1 TATT-TTAATTAATTTTAATCTTATCAT
10954275 TATTTTAATT
1 TATTTTAATT
10954285 TTATTTCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
27 24 0.77
28 5 0.16
29 2 0.06
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (27 bp):
TATTTTAATTAATTTTAATCTTATCAT
Found at i:10955794 original size:18 final size:18
Alignment explanation
Indices: 10955767--10955843 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 18
10955757 TAAATTCATT
* *
10955767 TTTATTTTTATGTTTTGTA
1 TTTATATTTAT-TTTTATA
10955786 -TTATATTTATTTTTATA
1 TTTATATTTATTTTTATA
* **
10955803 TTTATATTT-TATGAATA
1 TTTATATTTATTTTTATA
* *
10955820 TTTTAAATTTATTTTTATT
1 -TTTATATTTATTTTTATA
10955839 TTTAT
1 TTTAT
10955844 TCTCATAAGT
Statistics
Matches: 44, Mismatches: 11, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
17 11 0.25
18 29 0.66
19 4 0.09
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTATATTTATTTTTATA
Found at i:10955800 original size:30 final size:32
Alignment explanation
Indices: 10955757--10955844 Score: 92
Period size: 36 Copynumber: 2.7 Consensus size: 32
10955747 ATAAAAAAGG
*
10955757 TAAATTCATTTTTATTTTTATGTTT-TG-TA-T
1 TAAATTTATTTTTATTTTTAT-TTTATGATATT
*
10955787 TATATTTATTTTTATATTTATATTTTATGAATATTT
1 TAAATTTATTTTTAT-TTT-TATTTTATG-ATA-TT
10955823 TAAATTTATTTTTATTTTTATT
1 TAAATTTATTTTTATTTTTATT
10955845 CTCATAAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
30 13 0.27
31 6 0.12
32 5 0.10
34 6 0.12
35 3 0.06
36 15 0.31
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.68
Consensus pattern (32 bp):
TAAATTTATTTTTATTTTTATTTTATGATATT
Found at i:10955801 original size:12 final size:12
Alignment explanation
Indices: 10955767--10955844 Score: 63
Period size: 12 Copynumber: 6.5 Consensus size: 12
10955757 TAAATTCATT
*
10955767 TTTATTTTTATG
1 TTTATTTTTATA
*
10955779 TTT-TGTATTATA
1 TTTAT-TTTTATA
10955791 TTTATTTTTATA
1 TTTATTTTTATA
10955803 TTTATATTTTATGA
1 TTTAT-TTTTAT-A
* *
10955817 -ATA-TTTTAAA
1 TTTATTTTTATA
*
10955827 TTTATTTTTATT
1 TTTATTTTTATA
10955839 TTTATT
1 TTTATT
10955845 CTCATAAGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
10 1 0.02
11 8 0.15
12 33 0.63
13 9 0.17
14 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.71
Consensus pattern (12 bp):
TTTATTTTTATA
Found at i:10955960 original size:24 final size:25
Alignment explanation
Indices: 10955933--10955985 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
10955923 TTTATTCTAC
* * *
10955933 ATATTTATGTAAATTTT-AATAAAT
1 ATATTAATATAAATTTTAAATAAAA
*
10955957 ATATTAATATATATTTTAAATAAAA
1 ATATTAATATAAATTTTAAATAAAA
10955982 ATAT
1 ATAT
10955986 ATTAATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
ATATTAATATAAATTTTAAATAAAA
Found at i:10957765 original size:21 final size:21
Alignment explanation
Indices: 10957741--10957780 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10957731 GATTATTTTC
*
10957741 ATAATAAATAATAAATTTAAT
1 ATAAGAAATAATAAATTTAAT
*
10957762 ATAAGAAATAATAATTTTA
1 ATAAGAAATAATAAATTTA
10957781 TTATTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
ATAAGAAATAATAAATTTAAT
Found at i:10957816 original size:18 final size:18
Alignment explanation
Indices: 10957779--10957834 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 18
10957769 ATAATAATTT
*
10957779 TATTATTTTAATAATGAA
1 TATTATTTTAATAATAAA
10957797 TATTA-TTTAATAATAAAA
1 TATTATTTTAATAAT-AAA
10957815 TAAAATTATTTTAATAATAA
1 T---ATTATTTTAATAATAA
10957835 GTTTTTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 9 0.28
18 8 0.25
21 6 0.19
22 9 0.28
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TATTATTTTAATAATAAA
Found at i:10957816 original size:45 final size:47
Alignment explanation
Indices: 10957732--10957821 Score: 107
Period size: 48 Copynumber: 2.0 Consensus size: 47
10957722 TTTTATATGG
*
10957732 ATTATTTTCATAATAAATAATAAATTTAATATAAGAAATAATAATTTT
1 ATTATTTTAATAATAAATAATAAATTTAATATAAGAAATAA-AATTTT
* *
10957780 ATTATTTTAATAATGAAT-AT-TATTTAATA-ATA-AAATAAAATT
1 ATTATTTTAATAATAAATAATAAATTTAATATA-AGAAATAAAATT
10957822 ATTTTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
44 4 0.11
45 7 0.18
46 9 0.24
47 2 0.05
48 16 0.42
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (47 bp):
ATTATTTTAATAATAAATAATAAATTTAATATAAGAAATAAAATTTT
Found at i:10958014 original size:22 final size:21
Alignment explanation
Indices: 10957987--10958065 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 21
10957977 TAATAAAAAA
10957987 TATTTTCAATATAAAATATTAC
1 TATTTT-AATATAAAATATTAC
* *
10958009 TATTTTAATAATACAAATTTTTTAA
1 TATTTTAAT-ATA-AAA--TATTAC
*
10958034 TATTTTAATA-ATAATATTAC
1 TATTTTAATATAAAATATTAC
10958054 TATTTTTAATAT
1 TA-TTTTAATAT
10958066 TTTATACTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
20 6 0.13
21 11 0.24
22 11 0.24
23 4 0.09
24 1 0.02
25 13 0.28
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTTTAATATAAAATATTAC
Found at i:10958049 original size:31 final size:28
Alignment explanation
Indices: 10958014--10958077 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
10958004 ATTACTATTT
10958014 TAATAATACAAATTTTTTAATATTTTAATAA
1 TAATAATAC-AA-TTTTTAATATTTT-ATAA
* * *
10958045 TAATATTACTATTTTTAATATTTTATAC
1 TAATAATACAATTTTTAATATTTTATAA
10958073 TAATA
1 TAATA
10958078 TAAATAATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 8 0.27
29 13 0.43
30 1 0.03
31 8 0.27
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (28 bp):
TAATAATACAATTTTTAATATTTTATAA
Found at i:10960646 original size:2 final size:2
Alignment explanation
Indices: 10960641--10960666 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10960631 AAAAAAAAAA
10960641 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
10960667 TAATCAAGAA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10964160 original size:15 final size:15
Alignment explanation
Indices: 10964136--10964220 Score: 71
Period size: 16 Copynumber: 5.5 Consensus size: 15
10964126 GATTTCAAGA
10964136 TTTTAGGGTTTTGAG
1 TTTTAGGGTTTTGAG
* * *
10964151 TTTTATGGTTTCGAA
1 TTTTAGGGTTTTGAG
10964166 TGTTTAGGGTTTTGAGG
1 T-TTTAGGGTTTTGA-G
* * *
10964183 TTTTCGGGTTTAGGG
1 TTTTAGGGTTTTGAG
* *
10964198 CTTTAAGGTTTTGAG
1 TTTTAGGGTTTTGAG
10964213 CTTTTAGG
1 -TTTTAGG
10964221 ATTTAAGGTT
Statistics
Matches: 51, Mismatches: 16, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
15 24 0.47
16 26 0.51
17 1 0.02
ACGTcount: A:0.14, C:0.05, G:0.32, T:0.49
Consensus pattern (15 bp):
TTTTAGGGTTTTGAG
Found at i:10964244 original size:16 final size:16
Alignment explanation
Indices: 10964225--10964258 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10964215 TTTAGGATTT
* *
10964225 AAGGTTTTTGAGTTTC
1 AAGGTTTTAGACTTTC
10964241 AAGGTTTTAGACTTTC
1 AAGGTTTTAGACTTTC
10964257 AA
1 AA
10964259 AATTTTTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (16 bp):
AAGGTTTTAGACTTTC
Found at i:10964585 original size:19 final size:20
Alignment explanation
Indices: 10964563--10964600 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10964553 TTTGTAAAGG
10964563 AAATTT-TTTTTAATTTTTT
1 AAATTTATTTTTAATTTTTT
10964582 AAATTTATTTTTAATTTTT
1 AAATTTATTTTTAATTTTT
10964601 AATTCCCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
AAATTTATTTTTAATTTTTT
Found at i:10965525 original size:15 final size:14
Alignment explanation
Indices: 10965493--10965527 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10965483 ACAGCGGTTC
*
10965493 TTTTTTGTTTTGAG
1 TTTTTTGCTTTGAG
10965507 TTTTTTGCTTTGAG
1 TTTTTTGCTTTGAG
*
10965521 ATTTTTG
1 TTTTTTG
10965528 AAACAAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.09, C:0.03, G:0.20, T:0.69
Consensus pattern (14 bp):
TTTTTTGCTTTGAG
Found at i:10966675 original size:34 final size:36
Alignment explanation
Indices: 10966630--10966761 Score: 164
Period size: 35 Copynumber: 3.8 Consensus size: 36
10966620 GAGCTATAAG
* *
10966630 TAAGAAAATAAAAATGATCAAGATTGAACCGC-AGT
1 TAAGAAAATAAATATGATCAAGACTGAACCGCAAGT
*
10966665 TAAG-AAATAAAGATGATCAAGACTGAACCGCAAGT
1 TAAGAAAATAAATATGATCAAGACTGAACCGCAAGT
* * *
10966700 T-AGAAAATAAATATAATCGAGACTGAACCACAAGT
1 TAAGAAAATAAATATGATCAAGACTGAACCGCAAGT
* *
10966735 TAAG-AAATAAATATGACCAAGATTGAA
1 TAAGAAAATAAATATGATCAAGACTGAA
10966762 TCATAAGTCA
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
34 27 0.32
35 55 0.65
36 2 0.02
ACGTcount: A:0.52, C:0.12, G:0.17, T:0.20
Consensus pattern (36 bp):
TAAGAAAATAAATATGATCAAGACTGAACCGCAAGT
Found at i:10966690 original size:69 final size:69
Alignment explanation
Indices: 10966540--10966756 Score: 186
Period size: 69 Copynumber: 3.1 Consensus size: 69
10966530 AAAATAATAT
* * * ** * * *
10966540 TGATCAAGACTGAGTTGCAAGTTAAG-AAATAAGAATGATCAAGATTGAATTACAATTAACAAAA
1 TGATCAAGACTGAGCTACAAG-TAAGAAAATAAAAATGATCAAGATTGAACCACAGTTAAGAAAT
10966604 AAAGA
65 AAAGA
* ** * *
10966609 T-AACCGGTACTGAGCTATAAGTAAGAAAATAAAAATGATCAAGATTGAACCGCAGTTAAGAAAT
1 TGATCAAG-ACTGAGCTACAAGTAAGAAAATAAAAATGATCAAGATTGAACCACAGTTAAGAAAT
10966673 AAAGA
65 AAAGA
* ** * * * * *
10966678 TGATCAAGACTGAACCGCAAGTTAGAAAATAAATATAATCGAGACTGAACCACAAGTTAAGAAAT
1 TGATCAAGACTGAGCTACAAGTAAGAAAATAAAAATGATCAAGATTGAACCAC-AGTTAAGAAAT
*
10966743 AAATA
65 AAAGA
*
10966748 TGACCAAGA
1 TGATCAAGA
10966757 TTGAATCATA
Statistics
Matches: 116, Mismatches: 28, Indels: 7
0.77 0.19 0.05
Matches are distributed among these distances:
68 7 0.06
69 83 0.72
70 26 0.22
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.21
Consensus pattern (69 bp):
TGATCAAGACTGAGCTACAAGTAAGAAAATAAAAATGATCAAGATTGAACCACAGTTAAGAAATA
AAGA
Found at i:10966775 original size:70 final size:69
Alignment explanation
Indices: 10966625--10966783 Score: 183
Period size: 70 Copynumber: 2.3 Consensus size: 69
10966615 GTACTGAGCT
* * * *
10966625 ATAAGTAAGAAAATAAAAATGATCAAGATTGAACCGCAGTTAAGAAATAAAGATGATCAAGACTG
1 ATAAGTAAGAAAATAAAAATAATCAAGACTGAACCACAGTTAAGAAATAAAGATGACCAAGACTG
10966690 AACC
66 AACC
** * * * * *
10966694 GCAAGTTAGAAAATAAATATAATCGAGACTGAACCACAAGTTAAGAAATAAATATGACCAAGATT
1 ATAAGTAAGAAAATAAAAATAATCAAGACTGAACCAC-AGTTAAGAAATAAAGATGACCAAGACT
*
10966759 GAATC
65 GAACC
* *
10966764 ATAAGTCAGAAAATATAAAT
1 ATAAGTAAGAAAATAAAAAT
10966784 GACTAGAACT
Statistics
Matches: 72, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
69 29 0.40
70 43 0.60
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.21
Consensus pattern (69 bp):
ATAAGTAAGAAAATAAAAATAATCAAGACTGAACCACAGTTAAGAAATAAAGATGACCAAGACTG
AACC
Found at i:10966778 original size:35 final size:35
Alignment explanation
Indices: 10966627--10966778 Score: 148
Period size: 35 Copynumber: 4.4 Consensus size: 35
10966617 ACTGAGCTAT
* * * *
10966627 AAGTAAGAAAATAAAAATGATCAAGATTGAACCGC
1 AAGTTAGAAAATAAATATGATCAAGACTGAACCAC
* *
10966662 -AGTTA-AGAAATAAAGATGATCAAGACTGAACCGC
1 AAGTTAGA-AAATAAATATGATCAAGACTGAACCAC
* *
10966696 AAGTTAGAAAATAAATATAATCGAGACTGAACCAC
1 AAGTTAGAAAATAAATATGATCAAGACTGAACCAC
* * * *
10966731 AAGTTA-AGAAATAAATATGACCAAGATTGAATCAT
1 AAGTTAGA-AAATAAATATGATCAAGACTGAACCAC
*
10966766 AAGTCAGAAAATA
1 AAGTTAGAAAATA
10966779 TAAATGACTA
Statistics
Matches: 98, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
33 1 0.01
34 30 0.31
35 65 0.66
36 2 0.02
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.20
Consensus pattern (35 bp):
AAGTTAGAAAATAAATATGATCAAGACTGAACCAC
Found at i:10967129 original size:35 final size:35
Alignment explanation
Indices: 10967090--10967170 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 35
10967080 TGATTCGAAT
* * *
10967090 AATAAAGATAACC-GAGATTGAGCTATAACTTAAGA
1 AATAAAGATAACCAG-GATTGAACCACAACTTAAGA
* * * *
10967125 AATAAAAACAACCAGGATTGAACCACAAGTTAGGA
1 AATAAAGATAACCAGGATTGAACCACAACTTAAGA
10967160 AATAAAGATAA
1 AATAAAGATAA
10967171 TTAGGATAAG
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
35 35 0.97
36 1 0.03
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (35 bp):
AATAAAGATAACCAGGATTGAACCACAACTTAAGA
Found at i:10967202 original size:70 final size:70
Alignment explanation
Indices: 10967124--10967280 Score: 181
Period size: 69 Copynumber: 2.3 Consensus size: 70
10967114 ATAACTTAAG
* * * * * *
10967124 AAATAAAAACAACCAGGATTGAACCACAAGTTAGGAAATAAAGATAATTAG-GATAAGCCATAAG
1 AAATAAAAAAAACCAAGATTGAACCACAAGTTAAGAAATAAAAATAACTAGAGATAAGCCACAAG
10967188 TCAAC
66 TCAAC
* * * * * *
10967193 AAATAAAAAAGACCAAGATTGAATCGCAAGTTAAGAAATAAAAATGACTAGAGCTGAGCCACAAG
1 AAATAAAAAAAACCAAGATTGAACCACAAGTTAAGAAATAAAAATAACTAGAGATAAGCCACAAG
10967258 TCAAC
66 TCAAC
* *
10967263 AAATAAAAATAATCAAGA
1 AAATAAAAAAAACCAAGA
10967281 CTAAATTGCC
Statistics
Matches: 72, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
69 42 0.58
70 30 0.42
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (70 bp):
AAATAAAAAAAACCAAGATTGAACCACAAGTTAAGAAATAAAAATAACTAGAGATAAGCCACAAG
TCAAC
Found at i:10967301 original size:70 final size:71
Alignment explanation
Indices: 10967179--10967379 Score: 189
Period size: 70 Copynumber: 2.9 Consensus size: 71
10967169 AATTAGGATA
* * * *
10967179 AGCCATAAGTCAACAAATAAAAA-AGACCAAGATTGAATCGCAAGTTAAGAAATAAAAATGACTA
1 AGCCACAAGTCAACAAATAAAAATAGACCAAGACTAAATCGCAAGTCAAGAAATAAAAATGA-TA
10967243 GAG-CTG
65 GAGACTG
* * * *
10967249 AGCCACAAGTCAACAAATAAAAATA-ATCAAGACTAAATTGCCAA-TCAGGAAATAAAAATGATC
1 AGCCACAAGTCAACAAATAAAAATAGACCAAGACTAAATCG-CAAGTCAAGAAATAAAAATGATA
* *
10967312 GGGATTG
65 GAGACTG
** * * * *
10967319 AGCCACAAGTCAGGAAATAAAAAT-GACCAAAACTGAATCGCATGT-TAGAAAATAAAAATGA
1 AGCCACAAGTCAACAAATAAAAATAGACCAAGACTAAATCGCAAGTCAAG-AAATAAAAATGA
10967380 CCAAAAGCCC
Statistics
Matches: 106, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
69 6 0.06
70 96 0.91
71 4 0.04
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.17
Consensus pattern (71 bp):
AGCCACAAGTCAACAAATAAAAATAGACCAAGACTAAATCGCAAGTCAAGAAATAAAAATGATAG
AGACTG
Found at i:10967772 original size:25 final size:26
Alignment explanation
Indices: 10967725--10967773 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
10967715 AATCATCTCT
** *
10967725 TTTTTTTTGTTTTATCTTTTTTATGC
1 TTTTTTTTCATTTATCTTATTTATGC
10967751 TTTTTTTTCATTTAT-TTATTTAT
1 TTTTTTTTCATTTATCTTATTTAT
10967774 TTTTTGGCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.78
Consensus pattern (26 bp):
TTTTTTTTCATTTATCTTATTTATGC
Found at i:10968200 original size:155 final size:156
Alignment explanation
Indices: 10967913--10968208 Score: 549
Period size: 155 Copynumber: 1.9 Consensus size: 156
10967903 AAGGGGTTAG
* *
10967913 AAACTATACTTCGAGGTTTTATAAGTCTCAACACTTAAACATATTCAGCTTGGAAGACTTACAAA
1 AAACTATACTTCGAGGTCTTATAAGTCTCAACACTTAAACATATTCAACTTGGAAGACTTACAAA
10967978 TCTTACCTGAAAAACTTATAAATCTCAACACCTACAAATGCTCCTCTAAAAAGAGGTCTTAAAAC
66 TCTTACCTGAAAAACTTATAAATCTCAACACCTACAAATGCTCCTCTAAAAAGAGGTCTTAAAAC
10968043 TTTAAAATTTATAAGTCTCAACACTT
131 TTTAAAATTTATAAGTCTCAACACTT
10968069 AAAC-ATACTTCGAGGTCTTATAAGTCTCAACACTTAAACATATTCAACTTGGAAGACTTACAAA
1 AAACTATACTTCGAGGTCTTATAAGTCTCAACACTTAAACATATTCAACTTGGAAGACTTACAAA
* *
10968133 TCTTACCTGAAGAACTTATAAATCTCAACACCTACAAATGCTCCTCTAAAAAGTGGTCTTAAAAC
66 TCTTACCTGAAAAACTTATAAATCTCAACACCTACAAATGCTCCTCTAAAAAGAGGTCTTAAAAC
10968198 TTTAAAATTTA
131 TTTAAAATTTA
10968209 AACATTCTGC
Statistics
Matches: 136, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
155 132 0.97
156 4 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (156 bp):
AAACTATACTTCGAGGTCTTATAAGTCTCAACACTTAAACATATTCAACTTGGAAGACTTACAAA
TCTTACCTGAAAAACTTATAAATCTCAACACCTACAAATGCTCCTCTAAAAAGAGGTCTTAAAAC
TTTAAAATTTATAAGTCTCAACACTT
Found at i:10968692 original size:23 final size:23
Alignment explanation
Indices: 10968666--10968738 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
10968656 TAGATACTAG
*
10968666 CTAATTTTGGCTTAAAGTGCCAA
1 CTAATTTAGGCTTAAAGTGCCAA
* *
10968689 CTAATTTAGGTTTAAAGTGCAAA
1 CTAATTTAGGCTTAAAGTGCCAA
* * * *
10968712 CTAATATGGGCTT-AGGTGCCAG
1 CTAATTTAGGCTTAAAGTGCCAA
10968734 CTAAT
1 CTAAT
10968739 ATGGGCATAA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
22 11 0.27
23 30 0.73
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (23 bp):
CTAATTTAGGCTTAAAGTGCCAA
Found at i:10968993 original size:16 final size:16
Alignment explanation
Indices: 10968962--10969004 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
10968952 ATGGTAGGTA
*
10968962 CTTTGTTTCTTTTTTTG
1 CTTTTTTTC-TTTTTTG
10968979 CTTTTTTTCTTTTTTG
1 CTTTTTTTCTTTTTTG
10968995 -TTGTTTTTCT
1 CTT-TTTTTCT
10969005 CCTAACAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 2 0.08
16 14 0.58
17 8 0.33
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (16 bp):
CTTTTTTTCTTTTTTG
Found at i:10969487 original size:17 final size:17
Alignment explanation
Indices: 10969465--10969509 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
10969455 TTTCATACAT
10969465 GGTATAGATGCCCTAAA
1 GGTATAGATGCCCTAAA
*
10969482 GGTATAGATGCCTTAAA
1 GGTATAGATGCCCTAAA
* *
10969499 GTTATAAATGC
1 GGTATAGATGC
10969510 AAATTTGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (17 bp):
GGTATAGATGCCCTAAA
Found at i:10969718 original size:13 final size:13
Alignment explanation
Indices: 10969700--10969725 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10969690 AACTACCAAT
10969700 TTTTCAAATTTTG
1 TTTTCAAATTTTG
10969713 TTTTCAAATTTTG
1 TTTTCAAATTTTG
10969726 CTTATTCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
TTTTCAAATTTTG
Found at i:10971074 original size:19 final size:19
Alignment explanation
Indices: 10971038--10971076 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10971028 CATTCAATCA
* * *
10971038 TTTTTTGTTTTTTTTTTTT
1 TTTTTTGCTTTGTCTTTTT
10971057 TTTTTTGCTTTGTCTTTTT
1 TTTTTTGCTTTGTCTTTTT
10971076 T
1 T
10971077 CTTATCTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (19 bp):
TTTTTTGCTTTGTCTTTTT
Found at i:10973351 original size:31 final size:31
Alignment explanation
Indices: 10973313--10973371 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
10973303 ACATACTTAT
*
10973313 ATATAATGCACTGGTATACCAGACGCATGAC
1 ATATAATGCACCGGTATACCAGACGCATGAC
*
10973344 ATATAATGCACCGTTATACCAGACGCAT
1 ATATAATGCACCGGTATACCAGACGCAT
10973372 AATAAGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (31 bp):
ATATAATGCACCGGTATACCAGACGCATGAC
Found at i:10975189 original size:15 final size:15
Alignment explanation
Indices: 10975169--10975224 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
10975159 ATTTAGGGTC
10975169 TTAAGGTTTTAGGAT
1 TTAAGGTTTTAGGAT
10975184 TTAAGGTTTTAAGG-T
1 TTAAGGTTTT-AGGAT
* *
10975199 TTCGAGATTTTA-GATT
1 TT-AAGGTTTTAGGA-T
10975215 TTAAGGTTTT
1 TTAAGGTTTT
10975225 TGAGTTTCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 1 0.03
15 20 0.61
16 12 0.36
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (15 bp):
TTAAGGTTTTAGGAT
Found at i:10975195 original size:23 final size:23
Alignment explanation
Indices: 10975141--10975224 Score: 73
Period size: 23 Copynumber: 3.6 Consensus size: 23
10975131 TAAGGTTTTG
* *
10975141 GGTTTT-AGAGTTTTGAGCATTTAG
1 GGTTTTAAG-GTTTT-AGGATTTAA
*
10975165 GGTCTTAAGGTTTTAGGATTTAA
1 GGTTTTAAGGTTTTAGGATTTAA
* *
10975188 GGTTTTAAGG-TTTCGAGATTTTA
1 GGTTTTAAGGTTTTAG-GATTTAA
*
10975211 GATTTTAAGGTTTT
1 GGTTTTAAGGTTTT
10975225 TGAGTTTCGA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
22 4 0.08
23 31 0.62
24 13 0.26
25 2 0.04
ACGTcount: A:0.23, C:0.04, G:0.26, T:0.48
Consensus pattern (23 bp):
GGTTTTAAGGTTTTAGGATTTAA
Found at i:10975196 original size:8 final size:8
Alignment explanation
Indices: 10975127--10975224 Score: 60
Period size: 8 Copynumber: 12.6 Consensus size: 8
10975117 ATATTTCAAA
10975127 GTTTTAAG
1 GTTTTAAG
*
10975135 GTTTT-GG
1 GTTTTAAG
10975142 GTTTT-AG
1 GTTTTAAG
*
10975149 AGTTTTGAG
1 -GTTTTAAG
** *
10975158 CATTTAGG
1 GTTTTAAG
*
10975166 GTCTTAAG
1 GTTTTAAG
10975174 GTTTT-AG
1 GTTTTAAG
*
10975181 GATTTAAG
1 GTTTTAAG
10975189 GTTTTAAG
1 GTTTTAAG
**
10975197 GTTTCGAG
1 GTTTTAAG
*
10975205 ATTTT-AG
1 GTTTTAAG
*
10975212 ATTTTAAG
1 GTTTTAAG
10975220 GTTTT
1 GTTTT
10975225 TGAGTTTCGA
Statistics
Matches: 68, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
7 20 0.29
8 46 0.68
9 2 0.03
ACGTcount: A:0.21, C:0.03, G:0.27, T:0.49
Consensus pattern (8 bp):
GTTTTAAG
Found at i:10975218 original size:31 final size:32
Alignment explanation
Indices: 10975175--10975294 Score: 117
Period size: 31 Copynumber: 3.8 Consensus size: 32
10975165 GGTCTTAAGG
10975175 TTTTAGGATTT-AAGGTTTTAAGGTTTCGAGA
1 TTTTAGGATTTCAAGGTTTTAAGGTTTCGAGA
* *
10975206 TTTTA-GATTTTAAGGTTTT-TGAGTTTCGAGA
1 TTTTAGGATTTCAAGGTTTTAAG-GTTTCGAGA
* * *
10975237 TTCTAGGGTTTCAAGGTTTTAGGGTTT--ATGA
1 TTTTAGGATTTCAAGGTTTTAAGGTTTCGA-GA
*
10975268 TTTT-TGAGTTTCAAGGTTTTAAGGTTT
1 TTTTAGGA-TTTCAAGGTTTTAAGGTTT
10975295 TAGAATTATT
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
30 8 0.11
31 49 0.66
32 16 0.22
33 1 0.01
ACGTcount: A:0.22, C:0.04, G:0.25, T:0.49
Consensus pattern (32 bp):
TTTTAGGATTTCAAGGTTTTAAGGTTTCGAGA
Found at i:10975294 original size:47 final size:47
Alignment explanation
Indices: 10975186--10975294 Score: 128
Period size: 47 Copynumber: 2.3 Consensus size: 47
10975176 TTTAGGATTT
* * *
10975186 AAGGTTTTAAGGTTTCGAGATTTTAGATTTTAAGGTTTTTGAGTTTC
1 AAGGTTTTAAGGTTTCAAGATTTTAGAGTTTAAGATTTTTGAGTTTC
* * * * * * *
10975233 GAGATTCTAGGGTTTCAAGGTTTTAGGGTTTATGATTTTTGAGTTTC
1 AAGGTTTTAAGGTTTCAAGATTTTAGAGTTTAAGATTTTTGAGTTTC
10975280 AAGGTTTTAAGGTTT
1 AAGGTTTTAAGGTTT
10975295 TAGAATTATT
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.22, C:0.05, G:0.26, T:0.48
Consensus pattern (47 bp):
AAGGTTTTAAGGTTTCAAGATTTTAGAGTTTAAGATTTTTGAGTTTC
Found at i:10975295 original size:23 final size:22
Alignment explanation
Indices: 10975141--10975295 Score: 62
Period size: 23 Copynumber: 6.6 Consensus size: 22
10975131 TAAGGTTTTG
*
10975141 GGTTTT-AGAGTTTTGAGCATTTAG
1 GGTTTTAAG-GTTTTGAG--TTTAA
*
10975165 GGTCTTAAGGTTTT-AGGATTTAA
1 GGTTTTAAGGTTTTGA-G-TTTAA
* *
10975188 GGTTTTAAGGTTTCGAGATTTTA
1 GGTTTTAAGGTTTTGAG-TTTAA
* *
10975211 GATTTTAAGGTTTTTGAGTTTCGA
1 GGTTTTAAGG-TTTTGAGTTT-AA
* * * ** *
10975235 GATTCTAGGGTTTCAAGGTTTTA
1 GGTTTTAAGGTTTTGA-GTTTAA
* * *
10975258 GGGTTTATGATTTTTGAGTTTCAA
1 GGTTTTAAG-GTTTTGAGTTT-AA
10975282 GGTTTTAAGGTTTT
1 GGTTTTAAGGTTTT
10975296 AGAATTATTA
Statistics
Matches: 99, Mismatches: 24, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
23 54 0.55
24 43 0.43
25 2 0.02
ACGTcount: A:0.21, C:0.05, G:0.26, T:0.48
Consensus pattern (22 bp):
GGTTTTAAGGTTTTGAGTTTAA
Found at i:10975608 original size:17 final size:18
Alignment explanation
Indices: 10975586--10975619 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10975576 TAAAGGAAAT
10975586 TTTTTTAA-TTTTAATTA
1 TTTTTTAATTTTTAATTA
10975603 TTTTTTAATTTTTAATT
1 TTTTTTAATTTTTAATT
10975620 CCTCAATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTAATTTTTAATTA
Found at i:10980748 original size:28 final size:26
Alignment explanation
Indices: 10980711--10980767 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
10980701 ATATTAATAA
*
10980711 TTTAAAATTTTTATTATATAAATTTTAT
1 TTTAAAATTTTTAATA-AT-AATTTTAT
* *
10980739 TTTAATATTTTTAATAATTATTTTAT
1 TTTAAAATTTTTAATAATAATTTTAT
10980765 TTT
1 TTT
10980768 CTCATTGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 10 0.38
27 2 0.08
28 14 0.54
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTAAAATTTTTAATAATAATTTTAT
Found at i:10982561 original size:25 final size:25
Alignment explanation
Indices: 10982527--10982582 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
10982517 AAAAGGTAAA
* *
10982527 TTTATTTTTATTCTCAAATTTTTAT
1 TTTATATTTATTCTCAAATTTATAT
* * *
10982552 TTTATATTTATTTTTATATTTATAT
1 TTTATATTTATTCTCAAATTTATAT
10982577 TTTATA
1 TTTATA
10982583 AATATTTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTATATTTATTCTCAAATTTATAT
Found at i:10982568 original size:12 final size:12
Alignment explanation
Indices: 10982547--10982582 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
10982537 TTCTCAAATT
10982547 TTTA-TTTTATA
1 TTTATTTTTATA
10982558 TTTATTTTTATA
1 TTTATTTTTATA
10982570 TTTATATTTTATA
1 TTTAT-TTTTATA
10982583 AATATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.17
12 12 0.52
13 7 0.30
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTATTTTTATA
Found at i:10982605 original size:17 final size:18
Alignment explanation
Indices: 10982548--10982611 Score: 62
Period size: 17 Copynumber: 3.7 Consensus size: 18
10982538 TCTCAAATTT
**
10982548 TTATTTTATA-TTTATTT
1 TTATTTTATATTTTATAA
10982565 TTATATTTATATTTTATAA
1 TTAT-TTTATATTTTATAA
* *
10982584 ATATTTTA-ATTTTATCA
1 TTATTTTATATTTTATAA
10982601 TTATTTT-TATT
1 TTATTTTATATT
10982612 CTTGCAAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 21 0.54
18 10 0.26
19 8 0.21
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTTATATTTTATAA
Found at i:10982753 original size:20 final size:19
Alignment explanation
Indices: 10982727--10982770 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
10982717 ATTTAATTTA
10982727 AAATAATAATTTATATTATT
1 AAATAATAATTTAT-TTATT
*
10982747 TAATAATAATTTATTTATT
1 AAATAATAATTTATTTATT
10982766 AAATA
1 AAATA
10982771 TATATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATAATAATTTATTTATT
Found at i:10982777 original size:22 final size:20
Alignment explanation
Indices: 10982714--10982768 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
10982704 ATATATTGGT
10982714 TTTATTTAATTTAAAATAATAA
1 TTTATTT-A-TTAAAATAATAA
*
10982736 TTTATATTATT-TAATAATAA
1 TTTAT-TTATTAAAATAATAA
10982756 TTTATTTATTAAA
1 TTTATTTATTAAA
10982769 TATATATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 5 0.17
20 14 0.48
21 2 0.07
22 6 0.21
23 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTATTTATTAAAATAATAA
Found at i:10984012 original size:24 final size:25
Alignment explanation
Indices: 10983985--10984031 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10983975 GCGATCTGAA
*
10983985 ATTT-ATTATATT-TAAAATATTTTT
1 ATTTAATT-TATTATAAAAAATTTTT
10984009 ATTTAATTTATTATAAAAAATTT
1 ATTTAATTTATTATAAAAAATTT
10984032 GAAAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTAATTTATTATAAAAAATTTTT
Found at i:10984221 original size:17 final size:18
Alignment explanation
Indices: 10984201--10984237 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
10984191 GTTTTATTAT
*
10984201 TTTAATAATGAA-TAATA
1 TTTAATAATAAATTAATA
10984218 TTTAATAATAAATTAATA
1 TTTAATAATAAATTAATA
10984236 TT
1 TT
10984238 ATTTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TTTAATAATAAATTAATA
Found at i:10984235 original size:21 final size:21
Alignment explanation
Indices: 10984203--10984249 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
10984193 TTTATTATTT
10984203 TAAT-AATGAATAATATTTAA
1 TAATAAATGAATAATATTTAA
* *
10984223 TAATAAATTAATATTATTTAA
1 TAATAAATGAATAATATTTAA
10984244 TAATAA
1 TAATAA
10984250 GTTTTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATAAATGAATAATATTTAA
Found at i:10984466 original size:31 final size:28
Alignment explanation
Indices: 10984431--10984494 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
10984421 ATTACAATTT
10984431 TAATAATACAAATTTTTTAATATTTTAATAA
1 TAATAATAC-AA-TTTTTAATATTTT-ATAA
* * *
10984462 TAATATTACTATTTTTAATATTTTATAT
1 TAATAATACAATTTTTAATATTTTATAA
10984490 TAATA
1 TAATA
10984495 TAAATAATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 8 0.27
29 13 0.43
30 1 0.03
31 8 0.27
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (28 bp):
TAATAATACAATTTTTAATATTTTATAA
Found at i:10986571 original size:21 final size:21
Alignment explanation
Indices: 10986541--10986591 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
10986531 AATACTAATT
*
10986541 TTAATCTTATAACTATAATAC
1 TTAATCTTATAACTATAATAA
* * *
10986562 TTAATTTTATTATTATAATAA
1 TTAATCTTATAACTATAATAA
10986583 TTAATCTTA
1 TTAATCTTA
10986592 CCGCTATTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAATCTTATAACTATAATAA
Found at i:10987599 original size:18 final size:18
Alignment explanation
Indices: 10987573--10987623 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
10987563 TTTATGAATC
10987573 AAATGTTATTTAGTACAT-A
1 AAAT-TTATTTAGTAC-TCA
*
10987592 AAATTTA-TGAGTACTCA
1 AAATTTATTTAGTACTCA
10987609 AAATTTTATTTAGTA
1 AAA-TTTATTTAGTA
10987624 GGCGACTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 1 0.04
17 10 0.37
18 7 0.26
19 9 0.33
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (18 bp):
AAATTTATTTAGTACTCA
Found at i:10992528 original size:16 final size:17
Alignment explanation
Indices: 10992507--10992551 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
10992497 ACACTTGATG
*
10992507 CATTCTAAATTCTGC-T
1 CATTCTAAATTCTACAT
*
10992523 CATTCTAAAATCTACAT
1 CATTCTAAATTCTACAT
10992540 -ATTCTAAATTCT
1 CATTCTAAATTCT
10992552 CCACTGCTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 24 0.96
17 1 0.04
ACGTcount: A:0.33, C:0.22, G:0.02, T:0.42
Consensus pattern (17 bp):
CATTCTAAATTCTACAT
Found at i:10994860 original size:21 final size:25
Alignment explanation
Indices: 10994817--10994870 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
10994807 AAATAATAAC
10994817 AAAAGTTATTATAATTATGATAAAA
1 AAAAGTTATTATAATTATGATAAAA
*
10994842 AAAAG-TATTATAATTATAATTAAAA
1 AAAAGTTATTATAATTATGA-TAAAA
10994867 AAAA
1 AAAA
10994871 TTTAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (25 bp):
AAAAGTTATTATAATTATGATAAAA
Found at i:10994878 original size:24 final size:24
Alignment explanation
Indices: 10994809--10994870 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
10994799 GAAATTAAAA
*
10994809 ATAAT-AACAAAAGTTATTATAATT
1 ATAATAAAAAAAAG-TATTATAATT
*
10994833 ATGATAAAAAAAAGTATTATAATT
1 ATAATAAAAAAAAGTATTATAATT
10994857 ATAATTAAAAAAAA
1 ATAA-TAAAAAAAA
10994871 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.52
25 16 0.48
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (24 bp):
ATAATAAAAAAAAGTATTATAATT
Found at i:11002905 original size:18 final size:18
Alignment explanation
Indices: 11002882--11002922 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
11002872 AAATAACAAA
11002882 AAATAAAAAATAAA-ATTG
1 AAATAAAAAATAAAGA-TG
11002900 AAATAAAAAATAAAGATG
1 AAATAAAAAATAAAGATG
11002918 AAATA
1 AAATA
11002923 GAATAATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (18 bp):
AAATAAAAAATAAAGATG
Found at i:11004316 original size:14 final size:14
Alignment explanation
Indices: 11004299--11004340 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
11004289 TTTTTTAGGG
11004299 AAATTTTTGGTAAA
1 AAATTTTTGGTAAA
**
11004313 AAATTTTTTCTAAA
1 AAATTTTTGGTAAA
*
11004327 AACTTTTTGG-AAA
1 AAATTTTTGGTAAA
11004340 A
1 A
11004341 TCCAGATTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (14 bp):
AAATTTTTGGTAAA
Found at i:11009347 original size:8 final size:8
Alignment explanation
Indices: 11009333--11009417 Score: 70
Period size: 8 Copynumber: 10.8 Consensus size: 8
11009323 AGATGATAAA
11009333 AAAAAATG
1 AAAAAATG
*
11009341 TAAAAATG
1 AAAAAATG
* *
11009349 GAAAAATA
1 AAAAAATG
11009357 AAAAAATG
1 AAAAAATG
11009365 AAAAAATGG
1 AAAAAAT-G
11009374 AAAAAA--
1 AAAAAATG
11009380 AAAATAA--
1 AAAA-AATG
*
11009387 AAAAAATAA
1 AAAAAAT-G
*
11009396 AAAAAATA
1 AAAAAATG
11009404 AAAAAATG
1 AAAAAATG
11009412 AAAAAA
1 AAAAAA
11009418 AAAAAAAGGA
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
6 6 0.09
7 6 0.09
8 40 0.61
9 14 0.21
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:11009388 original size:9 final size:9
Alignment explanation
Indices: 11009350--11009424 Score: 77
Period size: 8 Copynumber: 8.2 Consensus size: 9
11009340 GTAAAAATGG
11009350 AAAAAT-AA
1 AAAAATAAA
11009358 AAAAATGAAA
1 AAAAAT-AAA
11009368 AAATGGAA-AAA
1 AAA---AATAAA
11009379 AAAAATAAA
1 AAAAATAAA
11009388 AAAAATAAA
1 AAAAATAAA
11009397 AAAAAT-AA
1 AAAAATAAA
11009405 AAAAATGAAA
1 AAAAAT-AAA
11009415 AAAAA-AAA
1 AAAAATAAA
11009423 AA
1 AA
11009425 GGACAGAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
8 21 0.36
9 18 0.31
10 12 0.20
11 6 0.10
13 2 0.03
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.09
Consensus pattern (9 bp):
AAAAATAAA
Found at i:11009388 original size:18 final size:18
Alignment explanation
Indices: 11009350--11009424 Score: 77
Period size: 18 Copynumber: 4.1 Consensus size: 18
11009340 GTAAAAATGG
11009350 AAAAAT-AAAAAAATGAAA
1 AAAAATAAAAAAAAT-AAA
11009368 AAATGGAA-AAAAAAAATAAA
1 AAA---AATAAAAAAAATAAA
11009388 AAAAATAAAAAAAAT-AA
1 AAAAATAAAAAAAATAAA
11009405 AAAAATGAAAAAAAA-AAA
1 AAAAAT-AAAAAAAATAAA
11009423 AA
1 AA
11009425 GGACAGAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
17 10 0.20
18 24 0.48
20 6 0.12
21 10 0.20
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.09
Consensus pattern (18 bp):
AAAAATAAAAAAAATAAA
Found at i:11009440 original size:1 final size:1
Alignment explanation
Indices: 11009374--11009424 Score: 57
Period size: 1 Copynumber: 51.0 Consensus size: 1
11009364 GAAAAAATGG
* * * **
11009374 AAAAAAAAAATAAAAAAAATAAAAAAAATAAAAAAATGAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11009425 GGACAGAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.90, C:0.00, G:0.02, T:0.08
Consensus pattern (1 bp):
A
Found at i:11010765 original size:45 final size:45
Alignment explanation
Indices: 11010714--11010820 Score: 130
Period size: 44 Copynumber: 2.4 Consensus size: 45
11010704 CTTTAAACTC
* * *
11010714 GAATGAGAAGCTTTGAACACTTGGATGTGAATCTCT-AAATTTTTT
1 GAATGAGAA-CTTTGAACACTTAGATGTGAAACTCTAAAATTTATT
11010759 GAATGAGAACATTTG-A-ACTTAGATGTGAAACTCTAAAATTTATT
1 GAATGAGAAC-TTTGAACACTTAGATGTGAAACTCTAAAATTTATT
*
11010803 GAATGTGAATCTTTGAAC
1 GAATGAGAA-CTTTGAAC
11010821 TCAAATGAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
43 16 0.30
44 22 0.42
45 15 0.28
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (45 bp):
GAATGAGAACTTTGAACACTTAGATGTGAAACTCTAAAATTTATT
Found at i:11011165 original size:18 final size:18
Alignment explanation
Indices: 11011118--11011168 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
11011108 AATTTTGGTG
* *
11011118 AATTCTTATGAAGCTGAA
1 AATTCTTGTGAATCTGAA
* *
11011136 AAGTTTTTGTGAATTTGAA
1 AA-TTCTTGTGAATCTGAA
11011155 AATTCTTGTGAATC
1 AATTCTTGTGAATC
11011169 ATTGAATTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (18 bp):
AATTCTTGTGAATCTGAA
Found at i:11011180 original size:15 final size:15
Alignment explanation
Indices: 11011160--11011191 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11011150 TTGAAAATTC
11011160 TTGTGAATCATTGAA
1 TTGTGAATCATTGAA
*
11011175 TTGTGAATCTTTGAA
1 TTGTGAATCATTGAA
11011190 TT
1 TT
11011192 TCAAACTCAA
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:0.28, C:0.06, G:0.19, T:0.47
Consensus pattern (15 bp):
TTGTGAATCATTGAA
Found at i:11011383 original size:43 final size:43
Alignment explanation
Indices: 11011275--11011623 Score: 239
Period size: 43 Copynumber: 8.2 Consensus size: 43
11011265 ATTGTCAAGT
* * * * * **
11011275 AGCCTTATTTATTTTTTAAAAGTTGTTGAACCTTTGTTTAAAAA
1 AGCCTTATTTA-TTTTTCAAAGTTGTTGAGCCTCTATTTAGAGG
* *
11011319 AG-C-T-TTTATTTTTAAAAGTTGTTGAGCCTC-AGTTTAGAAG
1 AGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTA-TTTAGAGG
* * * * *
11011359 AGCCTTCTTTATTTTTCAGAGTTGTTAAGTCTCTGTTTAGAGG
1 AGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGG
* * *
11011402 AGCCTTATTTACTTTTCAAAGTTGTTGAGTCTCTATTGAGAGG
1 AGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGG
* * *
11011445 AG-C-T-TTTACTTTTCAAAGTTATTGAGCCTCTAATTAGAGG
1 AGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGG
* * * * * *
11011485 AGCCTTATTTATTTTTTGAAAATTG-TGAAGTCTCTACTTGGAAG
1 AGCCTTATTTA-TTTTTCAAAGTTGTTG-AGCCTCTATTTAGAGG
* * * **
11011529 AGCTTTATTTATTCTTT-AAAGTTATCGAGCCTCTGCTTAGAGG
1 AGCCTTATTTATT-TTTCAAAGTTGTTGAGCCTCTATTTAGAGG
* * * * * **
11011572 AGCTTTATTTGTTTTTCAAAAGTCGTTGAACCTCTGTTTAGAAA
1 AGCCTTATTTATTTTTC-AAAGTTGTTGAGCCTCTATTTAGAGG
11011616 AGCCTTAT
1 AGCCTTAT
11011624 GTGAATGTGA
Statistics
Matches: 245, Mismatches: 46, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
40 62 0.25
41 7 0.03
42 7 0.03
43 106 0.43
44 63 0.26
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (43 bp):
AGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGG
Found at i:11011458 original size:83 final size:84
Alignment explanation
Indices: 11011366--11011592 Score: 203
Period size: 83 Copynumber: 2.7 Consensus size: 84
11011356 AAGAGCCTTC
* * * * ** *
11011366 TTTATTTTTCAGAGTTGTTAAGTCTCTGTTTAGAGGAGCCTTATTTA-CTTTTCAAAGTTGTTG-
1 TTTACTTTTCAAAGTTATTAAGCCTCTAATTAGAGGAGCCTTATTTATCTTTTCAAAATTG-TGA
*
11011429 AGTCTCTA-TTGAGAGGAGCT
65 AGTCTCTACTTG-GAAGAGCT
* * *
11011449 TTTACTTTTCAAAGTTATTGAGCCTCTAATTAGAGGAGCCTTATTTATTTTTTGAAAATTGTGAA
1 TTTACTTTTCAAAGTTATTAAGCCTCTAATTAGAGGAGCCTTATTTATCTTTTCAAAATTGTGAA
11011514 GTCTCTACTTGGAAGAGCTTT
66 GTCTCTACTTGGAAGAGC--T
* ** ** * *
11011535 ATTTA-TTCTTTAAAGTTATCGAGCCTCTGCTTAGAGGAGCTTTATTTGT-TTTTCAAAA
1 -TTTACTT-TTCAAAGTTATTAAGCCTCTAATTAGAGGAGCCTTATTTATCTTTTCAAAA
11011593 GTCGTTGAAC
Statistics
Matches: 119, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
83 42 0.35
84 24 0.20
85 3 0.03
86 11 0.09
87 39 0.33
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.44
Consensus pattern (84 bp):
TTTACTTTTCAAAGTTATTAAGCCTCTAATTAGAGGAGCCTTATTTATCTTTTCAAAATTGTGAA
GTCTCTACTTGGAAGAGCT
Found at i:11011559 original size:87 final size:84
Alignment explanation
Indices: 11011395--11011592 Score: 217
Period size: 87 Copynumber: 2.3 Consensus size: 84
11011385 AAGTCTCTGT
* * *
11011395 TTAGAGGAGCCTTATTTA-CTTTTCAAAGTTGTTGAGTCTCTATTGAGAGGAGCTTTTACTTTTC
1 TTAGAGGAGCCTTATTTATTTTTTCAAAATTGTTGAGTCTCTATTGAGAAGAGCTTTTACTTTTC
*
11011459 AAAGTTATTGAGCCTCTAA
66 AAAGTTATCGAGCCTCTAA
*
11011478 TTAGAGGAGCCTTATTTATTTTTTGAAAATTG-TGAAGTCTCTACTTG-GAAGAGCTTTATTTA-
1 TTAGAGGAGCCTTATTTATTTTTTCAAAATTGTTG-AGTCTCTA-TTGAGAAGAGC--T-TTTAC
* **
11011540 TTCTTTAAAGTTATCGAGCCTCTGC
61 TT-TTCAAAGTTATCGAGCCTCTAA
* *
11011565 TTAGAGGAGCTTTATTT-GTTTTTCAAAA
1 TTAGAGGAGCCTTATTTATTTTTTCAAAA
11011593 GTCGTTGAAC
Statistics
Matches: 97, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
83 20 0.21
84 24 0.25
85 3 0.03
86 12 0.12
87 38 0.39
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (84 bp):
TTAGAGGAGCCTTATTTATTTTTTCAAAATTGTTGAGTCTCTATTGAGAAGAGCTTTTACTTTTC
AAAGTTATCGAGCCTCTAA
Found at i:11012042 original size:40 final size:39
Alignment explanation
Indices: 11011984--11012265 Score: 165
Period size: 43 Copynumber: 6.7 Consensus size: 39
11011974 AGAAGCCTTA
* *
11011984 TTTATTTTTTAAAAGTTGTTGAGGCTCTATTTAGATGAGCC
1 TTTA-TTTTTCAAAGTTGTTGAGCCTCTATTTAGA-GAGCC
* *
11012025 TTTATTTTTTAAAGTTGTTGAGCCTCTGTTT-GAAGGAGCC
1 TTTATTTTTCAAAGTTGTTGAGCCTCTATTTAG-A-GAGCC
* **
11012065 TTATTTATTTTTCAAAGTTGTT-ACGTCTCTATTTAGAGAAGTT
1 ---TTTATTTTTCAAAGTTGTTGA-GCCTCTATTTAGAG-AGCC
* *
11012108 TTTCTTTTTCAAAGTTGTTGAGCCTTTGA-TTAGAGAAGCC
1 TTTATTTTTCAAAGTTGTTGAGCCTCT-ATTTAGAG-AGCC
* * *
11012148 TTATTTATTTTTCAAAAGTTGTAGAGCCTCTATTTGGAAGAGCTTTA
1 ---TTTATTTTTC-AAAGTTGTTGAGCCTCTATTTAG-AGAGC---C
* * **
11012195 TTTATTTTTCAAAGTTATTGAACCTCTGCTTAGAGGAGCC
1 TTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGA-GAGCC
* *
11012235 TTATTTATTTTTTCAAAGTCGTTGAACCTCT
1 ---TTTA-TTTTTCAAAGTTGTTGAGCCTCT
11012266 GCTTAAAAGA
Statistics
Matches: 190, Mismatches: 28, Indels: 43
0.73 0.11 0.16
Matches are distributed among these distances:
39 1 0.01
40 61 0.32
41 6 0.03
42 3 0.02
43 64 0.34
44 53 0.28
45 2 0.01
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (39 bp):
TTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAGCC
Found at i:11012086 original size:43 final size:44
Alignment explanation
Indices: 11011977--11012408 Score: 370
Period size: 44 Copynumber: 10.0 Consensus size: 44
11011967 ATTGTTAAGA
* * * *
11011977 AGCCTTATTTATTTTTTAAAAGTTGTTGAGGCTCTATTTAGATG
1 AGCCTTATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGG
11012021 AGCC---TTTATTTTTT-AAAGTTGTTGAGCCTCTGTTT-GAAGG
1 AGCCTTATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAG-AGG
* * *
11012061 AGCCTTATTTA-TTTTTCAAAGTTGTT-ACGTCTCTATTTAGAGA
1 AGCCTTATTTATTTTTTCAAAGTTGTTGA-GCCTCTGTTTAGAGG
* * * *
11012104 AG--TT-TTT-CTTTTTCAAAGTTGTTGAGCCTTTGATTAGAGA
1 AGCCTTATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGG
* * * *
11012144 AGCCTTATTTA-TTTTTCAAAAGTTGTAGAGCCTCTATTTGGAAG
1 AGCCTTATTTATTTTTTC-AAAGTTGTTGAGCCTCTGTTTAGAGG
* * * *
11012188 AGCTTTATTTA-TTTTTCAAAGTTATTGAACCTCTGCTTAGAGG
1 AGCCTTATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGG
* * * * *
11012231 AGCCTTATTTATTTTTTCAAAGTCGTTGAACCTCTGCTTAAAAG
1 AGCCTTATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGG
* * * *
11012275 AGCCTTATTTATTTTTTGAAAGTTTTTAAGCCTTTGTTTAGAGG
1 AGCCTTATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGG
* * * * * * *
11012319 AGCTTTATTTACTTTTTCAAAGTCGTTGAACTTTTGTTTGGAGG
1 AGCCTTATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGG
* * * * *
11012363 AGTCGTATTTATTTTTTCAAAAGTT-TTAAGCCTCTGCTTAGGGG
1 AGCCTTATTTATTTTTTC-AAAGTTGTTGAGCCTCTGTTTAGAGG
11012407 AG
1 AG
11012409 TTTTGTGTCA
Statistics
Matches: 312, Mismatches: 60, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
39 1 0.00
40 56 0.18
41 13 0.04
42 8 0.03
43 63 0.20
44 166 0.53
45 5 0.02
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.45
Consensus pattern (44 bp):
AGCCTTATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGG
Found at i:11012122 original size:83 final size:83
Alignment explanation
Indices: 11011977--11012341 Score: 301
Period size: 83 Copynumber: 4.3 Consensus size: 83
11011967 ATTGTTAAGA
* * ** *
11011977 AGCCTTATTTATTTTTTAAAAGTTGTTGAGGCTCTATTTAGATG-AGCCTTTATTTTTTAAAGTT
1 AGCCTTATTTATTTTTTCAAAGTTGTT-AGCCTCTATTTAGA-GAAGTTTTTATTTTTCAAAGTT
*
11012041 GTTGAGCCTCTG-TTTGAAGG
64 GTTGAGCCTCTGATTAG-AGG
* *
11012061 AGCCTTATTTA-TTTTTCAAAGTTGTTACGTCTCTATTTAGAGAAGTTTTTCTTTTTCAAAGTTG
1 AGCCTTATTTATTTTTTCAAAGTTGTTA-GCCTCTATTTAGAGAAGTTTTTATTTTTCAAAGTTG
* *
11012125 TTGAGCCTTTGATTAGAGA
65 TTGAGCCTCTGATTAGAGG
* *
11012144 AGCCTTATTTA-TTTTTCAAAAGTTGTAGAGCCTCTATTTGGA-AGAGCTTTATTTATTTTTCAA
1 AGCCTTATTTATTTTTTC-AAAGTTGT-TAGCCTCTATTTAGAGA-AG--TT-TTTATTTTTCAA
* * *
11012207 AGTTATTGAACCTCTGCTTAGAGG
60 AGTTGTTGAGCCTCTGATTAGAGG
* * ** * *
11012231 AGCCTTATTTATTTTTTCAAAGTCGTTGAACCTCTGCTTA-AAAGAGCCTTATTTATTTTTTGAA
1 AGCCTTATTTATTTTTTCAAAGTTGTT-AGCCTCTATTTAGAGA-AG--TT-TTTA-TTTTTCAA
* * * *
11012295 AGTTTTTAAGCCTTTGTTTAGAGG
60 AGTTGTTGAGCCTCTGATTAGAGG
* *
11012319 AGCTTTATTTACTTTTTCAAAGT
1 AGCCTTATTTATTTTTTCAAAGT
11012342 CGTTGAACTT
Statistics
Matches: 235, Mismatches: 33, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
82 2 0.01
83 73 0.31
84 35 0.15
85 1 0.00
86 3 0.01
87 68 0.29
88 53 0.23
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.46
Consensus pattern (83 bp):
AGCCTTATTTATTTTTTCAAAGTTGTTAGCCTCTATTTAGAGAAGTTTTTATTTTTCAAAGTTGT
TGAGCCTCTGATTAGAGG
Found at i:11012228 original size:87 final size:86
Alignment explanation
Indices: 11011969--11012339 Score: 318
Period size: 87 Copynumber: 4.3 Consensus size: 86
11011959 TGGACATGAT
* * * * *
11011969 TGTTA-AGAAGCCTTATTTATTTTTTAAAAGTTGTTGAGGCTCTATTTAGATGAGCCTTTA--T-
1 TGTTAGAGGAGCCTTATTTATTTTTCAAAAGTTGTAGAGCCTCTATTTAGAAGAG-CTTTATTTA
*
11012030 TTTTT-AAAGTTGTTGAGCCTC
65 TTTTTCAAAGTTGTTGAACCTC
* * *
11012051 TGTTTGAAGGAGCCTTATTTATTTTTC-AAAGTTGTTA-CGTCTCTATTTAG-AGAAG--TT-TT
1 TGTTAG-AGGAGCCTTATTTATTTTTCAAAAGTTG-TAGAGCCTCTATTTAGAAG-AGCTTTATT
* * *
11012110 TCTTTTTCAAAGTTGTTGAGCCTT
63 TATTTTTCAAAGTTGTTGAACCTC
* *
11012134 TGATTAGAGAAGCCTTATTTATTTTTCAAAAGTTGTAGAGCCTCTATTTGGAAGAGCTTTATTTA
1 TG-TTAGAGGAGCCTTATTTATTTTTCAAAAGTTGTAGAGCCTCTATTTAGAAGAGCTTTATTTA
*
11012199 TTTTTCAAAGTTATTGAACCTC
65 TTTTTCAAAGTTGTTGAACCTC
* * * ** * *
11012221 TGCTTAGAGGAGCCTTATTTATTTTTTC-AAAGTCGTTGAACCTCTGCTTAAAAGAGCCTTATTT
1 TG-TTAGAGGAGCCTTATTTA-TTTTTCAAAAGTTGTAGAGCCTCTATTTAGAAGAGCTTTATTT
* * *
11012285 ATTTTTTGAAAGTT-TTTAAGCCTT
64 A-TTTTTCAAAGTTGTTGAA-CCTC
*
11012309 TGTTTAGAGGAGCTTTATTTACTTTTTCAAA
1 TG-TTAGAGGAGCCTTATTTA-TTTTTCAAA
11012340 GTCGTTGAAC
Statistics
Matches: 237, Mismatches: 33, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
80 2 0.01
81 1 0.00
82 10 0.04
83 58 0.24
84 41 0.17
85 2 0.01
86 2 0.01
87 74 0.31
88 45 0.19
89 2 0.01
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (86 bp):
TGTTAGAGGAGCCTTATTTATTTTTCAAAAGTTGTAGAGCCTCTATTTAGAAGAGCTTTATTTAT
TTTTCAAAGTTGTTGAACCTC
Found at i:11030386 original size:25 final size:25
Alignment explanation
Indices: 11030357--11030412 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
11030347 TTTAAATTGT
11030357 TAGTAAATTTAAGAAAAAATAGAAA
1 TAGTAAATTTAAGAAAAAATAGAAA
11030382 TAGTAAATTTAAGAAAAAATAGAAA
1 TAGTAAATTTAAGAAAAAATAGAAA
11030407 TAGTAA
1 TAGTAA
11030413 GAAAAAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (25 bp):
TAGTAAATTTAAGAAAAAATAGAAA
Found at i:11030424 original size:25 final size:25
Alignment explanation
Indices: 11030367--11030424 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
11030357 TAGTAAATTT
***
11030367 AAGAAAAAATAGAAATAGTAAATTT
1 AAGAAAAAATAGAAATAGTAAAAAA
11030392 AAGAAAAAATAGAAATAGTAAGAAAA
1 AAGAAAAAATAGAAATAGTAA-AAAA
11030418 AAGAAAA
1 AAGAAAA
11030425 TATGGCTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 21 0.72
26 8 0.28
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.16
Consensus pattern (25 bp):
AAGAAAAAATAGAAATAGTAAAAAA
Found at i:11030425 original size:18 final size:19
Alignment explanation
Indices: 11030391--11030426 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11030381 ATAGTAAATT
*
11030391 TAAGAAAAAATAGAAATAG
1 TAAGAAAAAAGAGAAATAG
11030410 TAAGAAAAAAGA-AAATA
1 TAAGAAAAAAGAGAAATA
11030427 TGGCTTTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (19 bp):
TAAGAAAAAAGAGAAATAG
Found at i:11035746 original size:25 final size:25
Alignment explanation
Indices: 11035708--11035758 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
11035698 ATATTTCAAC
11035708 TATTTCCTCAAATTTTTGAAATAAT
1 TATTTCCTCAAATTTTTGAAATAAT
11035733 TATTCTCCTC-AATTTTTGAAATAAT
1 TATT-TCCTCAAATTTTTGAAATAAT
11035758 T
1 T
11035759 TTTGTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (25 bp):
TATTTCCTCAAATTTTTGAAATAAT
Found at i:11036077 original size:47 final size:48
Alignment explanation
Indices: 11035986--11036086 Score: 109
Period size: 47 Copynumber: 2.1 Consensus size: 48
11035976 AATTTTAAGG
* * * *
11035986 AAAATTTGATATTTTAATTTTTTTTAATATTTTAAAATTTATTTT-TT
1 AAAAATTGATATTTCAATTTTTCTTAATATTTTAAAATTAATTTTATT
*
11036033 AAAAATTGATATTTCAACTCTTTTCTTAA-ATTTTCAAA-TAATTTTATT
1 AAAAATTGATATTTCAA-T-TTTTCTTAATATTTTAAAATTAATTTTATT
11036081 ATAAAA
1 A-AAAA
11036087 AATATTTACT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
47 21 0.47
48 12 0.27
49 12 0.27
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (48 bp):
AAAAATTGATATTTCAATTTTTCTTAATATTTTAAAATTAATTTTATT
Found at i:11037292 original size:2 final size:2
Alignment explanation
Indices: 11037285--11037311 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11037275 AATTAAAAAG
11037285 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11037312 AACATTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11040687 original size:15 final size:16
Alignment explanation
Indices: 11040657--11040692 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 16
11040647 TTTATTAATA
11040657 TTTTTATTGAATTATTG
1 TTTTTATT-AATTATTG
11040674 TTTTTATT-ATTATTG
1 TTTTTATTAATTATTG
11040689 TTTT
1 TTTT
11040693 ATTGAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
17 8 0.42
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.72
Consensus pattern (16 bp):
TTTTTATTAATTATTG
Found at i:11042493 original size:49 final size:48
Alignment explanation
Indices: 11042434--11042901 Score: 339
Period size: 49 Copynumber: 9.7 Consensus size: 48
11042424 ATATAAAAGG
*
11042434 GCTCATCTAAGCAGAGGCTCAACAACTTTAAAGAATTATCTTGGAAAAA
1 GCTCATCTAAGCAGAGGCTCAACAACTTTAAA-AATCATCTTGGAAAAA
* * * * * * *
11042483 GCTCATCTAAGTAAAGACTCCATAACTTTAAAATTTCATCTTGAAAAAA
1 GCTCATCTAAGCAGAGGCTCAACAACTTTAAAA-ATCATCTTGGAAAAA
* * * * * *
11042532 GCTCATCTAAACAGAGGCTCCATAATTTTTGAAAAT-A---T--AAAAGG
1 GCTCATCTAAGCAGAGGCTCAACAA-CTTTAAAAATCATCTTGGAAAA-A
* * * *
11042576 GCTTATCTAAGCAAAGGCTCAACAACTTTAAAGAATCATTTTGAAAAAA
1 GCTCATCTAAGCAGAGGCTCAACAACTTTAAA-AATCATCTTGGAAAAA
* ** * *
11042625 GCTCCTCTAAATAGAGGCTTAACGACTTTAAAAAATCATCTTGGAAAAA
1 GCTCATCTAAGCAGAGGCTCAACAACTTT-AAAAATCATCTTGGAAAAA
* *
11042674 GCTTC-TCTAAGTAGAGGCTCCACAACTTTAAAAAATCATCTTAGG-AAAA
1 GC-TCATCTAAGCAGAGGCTCAACAACTTT-AAAAATCATCTT-GGAAAAA
* * * * * *
11042723 GCTCATTTAAGTA-AAGCTCCACAACTTTAAAAATTTATCTTGAAAAAAA
1 GCTCATCTAAGCAGAGGCTCAACAACTTTAAAAA-TCATCTTG-GAAAAA
* * * * *
11042772 ACTCATCTAAGTAGAAGATCAACAACTTTAAAAAATCAT-TTTGAAAAA
1 GCTCATCTAAGCAGAGGCTCAACAACTTT-AAAAATCATCTTGGAAAAA
* * *
11042820 GCTC-CCATAAACAGAGGCTCAACAACTTTAAAAGTCATCTT-GAAAAA
1 GCTCATC-TAAGCAGAGGCTCAACAACTTTAAAAATCATCTTGGAAAAA
* * * * *
11042867 GTTCCTTTAAGCATAGGCTCAACAACTTCAAAAAT
1 GCTCATCTAAGCAGAGGCTCAACAACTTTAAAAAT
11042902 TTCATCTGTT
Statistics
Matches: 335, Mismatches: 62, Indels: 46
0.76 0.14 0.10
Matches are distributed among these distances:
43 9 0.03
44 23 0.07
45 2 0.01
47 48 0.14
48 53 0.16
49 162 0.48
50 33 0.10
51 5 0.01
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (48 bp):
GCTCATCTAAGCAGAGGCTCAACAACTTTAAAAATCATCTTGGAAAAA
Found at i:11042548 original size:98 final size:97
Alignment explanation
Indices: 11042434--11042900 Score: 375
Period size: 98 Copynumber: 4.8 Consensus size: 97
11042424 ATATAAAAGG
*
11042434 GCTCATCTAAGCAGAGGCTCAACAACTTTAAAGAATTATCTTGGAAAAAGCTCATCTAAGTAAAG
1 GCTCATCTAAACAGAGGCTCAACAACTTTAAA-AATTATCTTGGAAAAAGCTCATCTAAGTAAAG
* * **
11042499 ACTCCATAACTTTAAAATTTCATCTTGAAAAAA
65 ACTCAACAACTTTAAAAAATCATCTTGAAAAAA
* * * * * * *
11042532 GCTCATCTAAACAGAGGCTCCATAATTTTTGAAAA-TA---T--AAAAGGGCTTATCTAAGCAAA
1 GCTCATCTAAACAGAGGCTCAACAA-CTTTAAAAATTATCTTGGAAAA-AGCTCATCTAAGTAAA
* * *
11042591 GGCTCAACAACTTTAAAGAATCATTTTGAAAAAA
64 GACTCAACAACTTTAAAAAATCATCTTGAAAAAA
* * * * * *
11042625 GCTCCTCTAAATAGAGGCTTAACGACTTTAAAAAATCATCTTGGAAAAAGCTTC-TCTAAGTAGA
1 GCTCATCTAAACAGAGGCTCAACAACTTT-AAAAATTATCTTGGAAAAAGC-TCATCTAAGTAAA
* * *
11042689 GGCTCCACAACTTTAAAAAATCATCTT-AGGAAAA
64 GACTCAACAACTTTAAAAAATCATCTTGA-AAAAA
* ** * * * *
11042723 GCTCATTTAAGTA-AAGCTCCACAACTTTAAAAATTTATCTTGAAAAAAAACTCATCTAAGTAGA
1 GCTCATCTAAACAGAGGCTCAACAACTTTAAAAA-TTATCTTG-GAAAAAGCTCATCTAAGTA-A
*
11042787 AGA-TCAACAACTTTAAAAAATCATTTTG-AAAAA
63 AGACTCAACAACTTTAAAAAATCATCTTGAAAAAA
* * * * * * * *
11042820 GCTC-CCATAAACAGAGGCTCAACAACTTTAAAAGTCATCTT-GAAAAAGTTCCTTTAAGCATAG
1 GCTCATC-TAAACAGAGGCTCAACAACTTTAAAAATTATCTTGGAAAAAGCTCATCTAAGTAAAG
* *
11042883 GCTCAACAACTTCAAAAA
65 ACTCAACAACTTTAAAAA
11042901 TTTCATCTGT
Statistics
Matches: 286, Mismatches: 64, Indels: 41
0.73 0.16 0.10
Matches are distributed among these distances:
92 7 0.02
93 63 0.22
94 4 0.01
95 28 0.10
96 5 0.02
97 42 0.15
98 125 0.44
99 12 0.04
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (97 bp):
GCTCATCTAAACAGAGGCTCAACAACTTTAAAAATTATCTTGGAAAAAGCTCATCTAAGTAAAGA
CTCAACAACTTTAAAAAATCATCTTGAAAAAA
Found at i:11042594 original size:142 final size:140
Alignment explanation
Indices: 11042414--11042848 Score: 455
Period size: 142 Copynumber: 3.0 Consensus size: 140
11042404 AAGCTCAATG
* *
11042414 ACTTTTGAAAATATAAAAGGGCTCATCTAAGCAGAGGCTCAACAACTTTAAAGAATTATCTTGGA
1 ACTTTTGAAAATATAAAAGGGCTCATCTAAGCAAAGGCTCAACAACTTTAAAGAATTATCTTGAA
* * **
11042479 AAAAGCTCATCTAAGTAAAGACTCCATAACTTTAAAATTTCATCTTGAAAAAAGCTCATCTAAAC
66 AAAAGCTCATCTAAGTAAAGACTCAACAACTTTAAAAAATCATCTTG-AAAAAGCTC-TCTAAAC
*
11042544 AGAGGCTCCATA
129 AGAGGCTCCACA
* * * *
11042556 ATTTTTGAAAATATAAAAGGGCTTATCTAAGCAAAGGCTCAACAACTTTAAAGAATCATTTTGAA
1 ACTTTTGAAAATATAAAAGGGCTCATCTAAGCAAAGGCTCAACAACTTTAAAGAATTATCTTGAA
* * * * * * **
11042621 AAAAGCTCCTCTAAATAGAGGCTTAACGACTTTAAAAAATCATCTTGGAAAAAGCTTCTCTAAGT
66 AAAAGCTCATCTAAGTAAAGACTCAACAACTTTAAAAAATCATCTT-GAAAAAGC-TCTCTAAAC
11042686 AGAGGCTCCACA
129 AGAGGCTCCACA
** * * * *
11042698 ACTTTAAAAAATCATCTTAGGAAA-AGCTCATTTAAGTAAA-GCTCCACAACTTTAAA-AATTTA
1 ACTTTTGAAAAT-A---TA--AAAGGGCTCATCTAAGCAAAGGCTCAACAACTTTAAAGAA-TTA
* *
11042760 TCTTGAAAAAAAACTCATCTAAGTAGAAGA-TCAACAACTTTAAAAAATCATTTTGAAAAAGCTC
59 TCTTG-AAAAAAGCTCATCTAAGTA-AAGACTCAACAACTTTAAAAAATCATCTTGAAAAAGCTC
* *
11042824 CCATAAACAGAGGCTCAACA
122 TC-TAAACAGAGGCTCCACA
11042844 ACTTT
1 ACTTT
11042849 AAAAGTCATC
Statistics
Matches: 240, Mismatches: 41, Indels: 20
0.80 0.14 0.07
Matches are distributed among these distances:
142 127 0.53
143 4 0.02
145 5 0.02
146 50 0.21
147 49 0.20
148 5 0.02
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (140 bp):
ACTTTTGAAAATATAAAAGGGCTCATCTAAGCAAAGGCTCAACAACTTTAAAGAATTATCTTGAA
AAAAGCTCATCTAAGTAAAGACTCAACAACTTTAAAAAATCATCTTGAAAAAGCTCTCTAAACAG
AGGCTCCACA
Found at i:11042818 original size:146 final size:144
Alignment explanation
Indices: 11042434--11042908 Score: 387
Period size: 142 Copynumber: 3.3 Consensus size: 144
11042424 ATATAAAAGG
* * * * *
11042434 GCTCATCTAAGCAGAGGCTCAACAACTTTAAAGAA-TTATCTTGGAAAAAGCTCATCTAAGTA-A
1 GCTCATTTAAGCA-AAGCTCAACAACTTTAAA-AATTTATCTTGAAAAAAACTCATCTAAATAGA
* * ** * * * * *
11042497 AGACTCCATAACTTTAAAATTTCATCTTGAAAAAAGCTCATC-TAAACAGAGGCTCCATAATTTT
64 AGA-TCAACAACTTTAAAAAATCATCTTGGAAAAAGCTC-CCATAAACAGAGGCTCAACAA-CTT
* *
11042561 TGAAAAT-A---T-AAAAGG
126 TAAAAATCATCTTGAAAA-A
* * * * * *
11042576 GCTTATCTAAGCAAAGGCTCAACAACTTTAAAGAA-TCATTTTGAAAAAAGCTCCTCTAAATAGA
1 GCTCATTTAAGCAAA-GCTCAACAACTTTAAA-AATTTATCTTGAAAAAAACTCATCTAAATAGA
* * * * * ** *
11042640 GGCTTAACGACTTTAAAAAATCATCTTGGAAAAAGCTTCTC-TAAGTAGAGGCTCCACAACTTTA
64 AGATCAACAACTTTAAAAAATCATCTTGGAAAAAGC-TCCCATAAACAGAGGCTCAACAACTTT-
*
11042704 AAAAATCATCTTAGGAAAA
127 AAAAATCATCTT-GAAAAA
* * *
11042723 GCTCATTTAAGTAAAGCTCCACAACTTTAAAAATTTATCTTGAAAAAAAACTCATCTAAGTAGAA
1 GCTCATTTAAGCAAAGCTCAACAACTTTAAAAATTTATCTTG-AAAAAAACTCATCTAAATAGAA
*
11042788 GATCAACAACTTTAAAAAATCAT-TTTGAAAAAGCTCCCATAAACAGAGGCTCAACAACTTTAAA
65 GATCAACAACTTTAAAAAATCATCTTGGAAAAAGCTCCCATAAACAGAGGCTCAACAACTTTAAA
*
11042852 AGTCATCTTGAAAAA
130 AATCATCTTGAAAAA
* * * *
11042867 GTTCCTTTAAGCATAGGCTCAACAACTTCAAAAATTTCATCT
1 GCTCATTTAAGCA-AAGCTCAACAACTTTAAAAATTT-ATCT
11042909 GTTCTCAAAC
Statistics
Matches: 269, Mismatches: 49, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
141 4 0.01
142 101 0.38
143 5 0.02
144 15 0.06
145 36 0.13
146 55 0.20
147 50 0.19
148 3 0.01
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (144 bp):
GCTCATTTAAGCAAAGCTCAACAACTTTAAAAATTTATCTTGAAAAAAACTCATCTAAATAGAAG
ATCAACAACTTTAAAAAATCATCTTGGAAAAAGCTCCCATAAACAGAGGCTCAACAACTTTAAAA
ATCATCTTGAAAAA
Found at i:11043594 original size:15 final size:15
Alignment explanation
Indices: 11043560--11043593 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
11043550 TCTTTTTCAC
11043560 TTTTTGTTTTTATTA
1 TTTTTGTTTTTATTA
11043575 TTTTTGTTTTTATT-
1 TTTTTGTTTTTATTA
11043589 TTTTT
1 TTTTT
11043594 TCATTCTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (15 bp):
TTTTTGTTTTTATTA
Found at i:11044835 original size:25 final size:24
Alignment explanation
Indices: 11044775--11044835 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
11044765 CATAGCCAAC
**
11044775 CTTTTGATAGTTCTGTTATCATTTT
1 CTTTTGAT-GTTCTGTTATCATTGA
* *
11044800 CTATTGCATGTTCTAGTTATTATTGA
1 CTTTTG-ATGTTCT-GTTATCATTGA
11044826 CTTTTGATGT
1 CTTTTGATGT
11044836 ATTGCATAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.18, C:0.11, G:0.15, T:0.56
Consensus pattern (24 bp):
CTTTTGATGTTCTGTTATCATTGA
Found at i:11047951 original size:24 final size:23
Alignment explanation
Indices: 11047905--11047951 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
11047895 ACCACACATG
11047905 TTAATTTTTCATCAATAATGAAT
1 TTAATTTTTCATCAATAATGAAT
*
11047928 TTAACTTTTTGATGCAATAA-GAAT
1 TTAA-TTTTTCAT-CAATAATGAAT
11047952 GGAACAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (23 bp):
TTAATTTTTCATCAATAATGAAT
Found at i:11054617 original size:15 final size:16
Alignment explanation
Indices: 11054587--11054622 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 16
11054577 TTTATTAATA
11054587 TTTTTATTGAATTATTG
1 TTTTTATT-AATTATTG
11054604 TTTTTATT-ATTATTG
1 TTTTTATTAATTATTG
11054619 TTTT
1 TTTT
11054623 ATCGAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
17 8 0.42
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.72
Consensus pattern (16 bp):
TTTTTATTAATTATTG
Found at i:11059023 original size:15 final size:15
Alignment explanation
Indices: 11059003--11059035 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
11058993 CTATTCTCTC
11059003 ATTCAACGTATATTA
1 ATTCAACGTATATTA
11059018 ATTCAACGTATATTA
1 ATTCAACGTATATTA
11059033 ATT
1 ATT
11059036 TTTATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (15 bp):
ATTCAACGTATATTA
Found at i:11060495 original size:20 final size:19
Alignment explanation
Indices: 11060445--11060498 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
11060435 TTAATACAAA
11060445 TTAAAATATAAAA-TTTCT
1 TTAAAATATAAAATTTTCT
*
11060463 TTAAATATAATAAAATTTTATT
1 TTAAA-AT-ATAAAATTTT-CT
11060485 TTAAAATATAAAAT
1 TTAAAATATAAAAT
11060499 AATTCGAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 5 0.16
19 2 0.06
20 13 0.42
21 5 0.16
22 6 0.19
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAAATATAAAATTTTCT
Found at i:11060871 original size:18 final size:17
Alignment explanation
Indices: 11060844--11060884 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
11060834 ATAGAATATT
* *
11060844 TTTATTTTTATTTTTTA
1 TTTATATTTATCTTTTA
11060861 TATTATATTTATCTTTTA
1 T-TTATATTTATCTTTTA
11060879 TTTATA
1 TTTATA
11060885 ATTAATAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATATTTATCTTTTA
Found at i:11061038 original size:17 final size:16
Alignment explanation
Indices: 11061006--11061039 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11060996 TTGTATATTT
*
11061006 ATATAATTTTTTATAA
1 ATATAATTTTTAATAA
11061022 ATATAATTTTTAAATAA
1 ATATAATTTTT-AATAA
11061039 A
1 A
11061040 AATATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATAATTTTTAATAA
Found at i:11062510 original size:30 final size:29
Alignment explanation
Indices: 11062439--11062511 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
11062429 AAAATTATCT
* *
11062439 TTTAAAAAAATTTATTTAAGACATTAAAA
1 TTTAAAAAATTTTATGTAAGACATTAAAA
* ** *
11062468 TTTCAAATAATTTTATGTAAGATTTTGAAAG
1 TTT-AAAAAATTTTATGTAAGACATT-AAAA
11062499 TTTAAAAAATTTT
1 TTTAAAAAATTTT
11062512 CATCTTAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
29 3 0.09
30 26 0.74
31 6 0.17
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.44
Consensus pattern (29 bp):
TTTAAAAAATTTTATGTAAGACATTAAAA
Found at i:11062900 original size:20 final size:20
Alignment explanation
Indices: 11062864--11062901 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11062854 GAAAAATAAT
*
11062864 TTTTTTCAATTTATTTTTTC
1 TTTTTTCAATATATTTTTTC
11062884 TTTTTTCACATAT-TTTTT
1 TTTTTTCA-ATATATTTTT
11062902 AACATTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTTCAATATATTTTTTC
Found at i:11064710 original size:14 final size:14
Alignment explanation
Indices: 11064691--11064739 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
11064681 TGGGTGAAAG
*
11064691 AAAAAAATAAGTTA
1 AAAAAAATAAGTGA
*
11064705 AAAAAAATTA-TGA
1 AAAAAAATAAGTGA
11064718 GAAAAAAATAAGTGA
1 -AAAAAAATAAGTGA
11064733 AAAAAAA
1 AAAAAAA
11064740 AGTTAAGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 2 0.07
14 25 0.83
15 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.16
Consensus pattern (14 bp):
AAAAAAATAAGTGA
Found at i:11066345 original size:22 final size:22
Alignment explanation
Indices: 11066300--11066342 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11066290 ACCTGATATG
11066300 ATAATAATTTATTAATTTAATT
1 ATAATAATTTATTAATTTAATT
* *
11066322 ATAATATTTTATTTA-TTAATT
1 ATAATAATTTATTAATTTAATT
11066343 TATTATTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATAATAATTTATTAATTTAATT
Done.