Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 90 of 121
Found at i:15226144 original size:40 final size:40
Alignment explanation
Indices: 15226066--15226150 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
15226056 ATAAAATAAT
* *
15226066 AATAAAAATAAAAATACAAAAAAAATGTAAATACAAAAAA
1 AATAAAAATAAAAATACAAAAAAAATGTAAAGAAAAAAAA
* *
15226106 AATAAAAATAAAAATA-AAATAAAATGAAAGAGGAAAAAAAA
1 AATAAAAATAAAAATACAAAAAAAATGTAA-A-GAAAAAAAA
15226147 AATA
1 AATA
15226151 TATTATTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
39 11 0.28
40 17 0.44
41 11 0.28
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (40 bp):
AATAAAAATAAAAATACAAAAAAAATGTAAAGAAAAAAAA
Found at i:15228958 original size:14 final size:15
Alignment explanation
Indices: 15228927--15228959 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15228917 GAAATTTAAT
*
15228927 TTTTATTTTTACAAG
1 TTTTATTTCTACAAG
15228942 TTTTATTTCTA-AAG
1 TTTTATTTCTACAAG
15228956 TTTT
1 TTTT
15228960 CACCGTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTTATTTCTACAAG
Found at i:15230688 original size:16 final size:18
Alignment explanation
Indices: 15230667--15230704 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
15230657 AGCTAAACTC
*
15230667 AAAAACCT-TGAAATTT-
1 AAAAACCTATAAAATTTG
15230683 AAAAACCTATAAAATTTG
1 AAAAACCTATAAAATTTG
15230701 AAAA
1 AAAA
15230705 TTCCCAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAACCTATAAAATTTG
Found at i:15232795 original size:28 final size:26
Alignment explanation
Indices: 15232759--15232824 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 26
15232749 TAATTGCATG
* * *
15232759 TTTTCGCATGAATAATTATAATATATAT
1 TTTTTGCATGAATAATAATAA-A-ACAT
15232787 TTTTTGCATGAATAATAATAAAACAT
1 TTTTTGCATGAATAATAATAAAACAT
15232813 TTATTTGCATGA
1 TT-TTTGCATGA
15232825 TAACCTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 10 0.29
28 19 0.56
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (26 bp):
TTTTTGCATGAATAATAATAAAACAT
Found at i:15232901 original size:12 final size:12
Alignment explanation
Indices: 15232870--15232917 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
15232860 TATAATGTTT
* *
15232870 CATGATTATTAA
1 CATGTTTATTTA
*
15232882 CATATTTATTTA
1 CATGTTTATTTA
* *
15232894 CTTGTTTATTTG
1 CATGTTTATTTA
15232906 CATGTTTATTTA
1 CATGTTTATTTA
15232918 TAAATTATTT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.56
Consensus pattern (12 bp):
CATGTTTATTTA
Found at i:15233090 original size:23 final size:24
Alignment explanation
Indices: 15233028--15233084 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 24
15233018 TATGTGTGTG
15233028 ATTGTATG-TTATTAATATATTTA
1 ATTGTATGATTATTAATATATTTA
*
15233051 TTTGTATGATTATTAATATA-TTA
1 ATTGTATGATTATTAATATATTTA
*
15233074 ATTGTGTGATT
1 ATTGTATGATT
15233085 TATAATGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 19 0.63
24 11 0.37
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (24 bp):
ATTGTATGATTATTAATATATTTA
Found at i:15241721 original size:125 final size:126
Alignment explanation
Indices: 15241469--15241733 Score: 306
Period size: 125 Copynumber: 2.1 Consensus size: 126
15241459 TTTTGGTAAA
* *
15241469 AAAAATGCCTTCAATAATCCATAGAAAAAAATTAGAACGGATTCTTGAAAGCGTTTTTTACCAAA
1 AAAAATGCCTTCAATAATCCATACAAAAAAATTAGAACGGATTCTTGAAAGCATTTTTTACCAAA
** * *
15241534 AGTGCCTTCAATAATCCAACCAATAAATTTTTGTAAGGGATTATTAAAGGCAGCTTTGGTC
66 AGCACCTTCAATAATCCAACCAATAAATTTTTATAAGGGATTATTAAAGGCAGCTTTAGTC
* * * * * *
15241595 -AAAATGCCTTTAATAATCTATACAAAAAAGTT-GAAATGGATTCTTGAAGGCATTTTTTGCCCA
1 AAAAATGCCTTCAATAATCCATACAAAAAAATTAG-AACGGATTCTTGAAAGCATTTTTT-ACCA
* * * * *
15241658 AAA-CACCTTTAATAATCCATA-CAATAAATTTTTATATGGGATTATTGAAGG-TGATTTTAGTC
64 AAAGCACCTTCAATAATCCA-ACCAATAAATTTTTATAAGGGATTATTAAAGGCAG-CTTTAGTC
15241720 AAAAATGCCTTCAA
1 AAAAATGCCTTCAA
15241734 CAACATTTTG
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
124 2 0.02
125 95 0.82
126 19 0.16
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (126 bp):
AAAAATGCCTTCAATAATCCATACAAAAAAATTAGAACGGATTCTTGAAAGCATTTTTTACCAAA
AGCACCTTCAATAATCCAACCAATAAATTTTTATAAGGGATTATTAAAGGCAGCTTTAGTC
Found at i:15245065 original size:28 final size:28
Alignment explanation
Indices: 15245033--15245103 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
15245023 GTTCAAAACC
15245033 CCATTCAGCAAACCAATATCATACAATA
1 CCATTCAGCAAACCAATATCATACAATA
* *
15245061 CCATTCAACAAAACAATATCATACAATA
1 CCATTCAGCAAACCAATATCATACAATA
*
15245089 CTATTCAGCAAACCA
1 CCATTCAGCAAACCA
15245104 CAATATTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.48, C:0.28, G:0.03, T:0.21
Consensus pattern (28 bp):
CCATTCAGCAAACCAATATCATACAATA
Found at i:15257058 original size:20 final size:19
Alignment explanation
Indices: 15257035--15257089 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
15257025 CGATAATAAA
*
15257035 AAAATTTTTTGGTAATAATT
1 AAAATTTTTTGGTAAT-AGT
* *
15257055 AAAATTTCATTGATAATAGT
1 AAAATTT-TTTGGTAATAGT
15257075 AAAATTTTGTTGGTA
1 AAAATTTT-TTGGTA
15257090 TAGCTCTCGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (19 bp):
AAAATTTTTTGGTAATAGT
Found at i:15257062 original size:40 final size:40
Alignment explanation
Indices: 15257009--15257089 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
15256999 ATCTATCAAC
*
15257009 AATAATAAAATTTCGTCGATAATAAAAAAATTTT-TTGGT
1 AATAATAAAATTTCATCGATAATAAAAAAATTTTGTTGGT
* **
15257048 AATAATTAAAATTTCATTGATAATAGTAAAATTTTGTTGGT
1 AATAA-TAAAATTTCATCGATAATAAAAAAATTTTGTTGGT
15257089 A
1 A
15257090 TAGCTCTCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 5 0.14
40 25 0.69
41 6 0.17
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (40 bp):
AATAATAAAATTTCATCGATAATAAAAAAATTTTGTTGGT
Found at i:15257071 original size:21 final size:20
Alignment explanation
Indices: 15257009--15257081 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
15256999 ATCTATCAAC
* *
15257009 AATAATAAAATTTCGTCGAT
1 AATAATAAAATTTCATTGAT
* * *
15257029 AATAAAAAAATTT-TTTGGT
1 AATAATAAAATTTCATTGAT
15257048 AATAATTAAAATTTCATTGAT
1 AATAA-TAAAATTTCATTGAT
*
15257069 AATAGTAAAATTT
1 AATAATAAAATTT
15257082 TGTTGGTATA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 8 0.19
20 27 0.63
21 8 0.19
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (20 bp):
AATAATAAAATTTCATTGAT
Found at i:15257190 original size:17 final size:17
Alignment explanation
Indices: 15257140--15257193 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 17
15257130 TTTTTTCGTC
**
15257140 AAAAAATCTATCGGTAAT
1 AAAAAAT-TATCAATAAT
15257158 AATAAAATTCAGTCAATAAT
1 AA-AAAATT-A-TCAATAAT
15257178 AAAAAATTATCAATAA
1 AAAAAATTATCAATAA
15257194 ATCTGTTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 7 0.23
18 4 0.13
19 12 0.39
20 8 0.26
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.28
Consensus pattern (17 bp):
AAAAAATTATCAATAAT
Found at i:15257225 original size:18 final size:19
Alignment explanation
Indices: 15257204--15257245 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
15257194 ATCTGTTAGT
*
15257204 AATAATA-AAAATTTTGTC
1 AATAATAGAAAATTTTATC
15257222 AATAATAGTAAAATTTTATC
1 AATAATAG-AAAATTTTATC
15257242 AATA
1 AATA
15257246 GATTTCATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
20 14 0.67
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
AATAATAGAAAATTTTATC
Found at i:15260015 original size:3 final size:3
Alignment explanation
Indices: 15259999--15260058 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
15259989 CATGTGTTTT
* * * * * * *
15259999 ATC ATC ATT GTC ATC ATT ATC ATC ATC ATT ATT GTC ATC ATC ATC CTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
15260047 ATC ATC ATC ATC
1 ATC ATC ATC ATC
15260059 TTGTTCTTTA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.28, C:0.28, G:0.03, T:0.40
Consensus pattern (3 bp):
ATC
Found at i:15260027 original size:15 final size:15
Alignment explanation
Indices: 15260009--15260058 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
15259999 ATCATCATTG
15260009 TCATCATTATCATCA
1 TCATCATTATCATCA
* *
15260024 TCATTATTGTCATCA
1 TCATCATTATCATCA
* *
15260039 TCATCCTCATCATCA
1 TCATCATTATCATCA
15260054 TCATC
1 TCATC
15260059 TTGTTCTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.40
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:15264527 original size:335 final size:339
Alignment explanation
Indices: 15263908--15264584 Score: 1076
Period size: 335 Copynumber: 2.0 Consensus size: 339
15263898 TAGAATAATT
* *
15263908 TAATTTATTTATATTAAGTTTGATCAATACAATCGAACCACAATATTTCAATAATTATTAATATA
1 TAATTTATTTATATTAAGTTTGATCAATACAATCAAACCACAATATTTCAATAATTAGTAATATA
*
15263973 TAAATTTCATTAAACTATCAAATATATAAACTATTTCAAAACAAATATAAATCTTAATAATATAT
66 TAAATTTCACTAAACTATCAAATATATAAACTATTTCAAAACAAATATAAATCTTAATAATATAT
* * * *
15264038 ATAACTTACTTCAAAATGATCATTGGCTATTATTAATATATTAATTATAACCTCAAATCAATATA
131 AGAACTTACTTCAAAATGATCATTAGCTATTAATAATATATAAATTATAACCTCAAATCAATATA
* * *
15264103 AATAATTTTTATTTCTATAATTATTATTAAAATCTAGAAAATATTAAATATAAAACAACCATACA
196 AATAATTTTAATTTCTATAATTATTATTAAAATCTAAAAAATATTAAATACAAAACAACCATACA
15264168 AATATATATAAATATTAATACACATCAAACCCAAATTAACCCACTC-TAAATTTTACACATCTAA
261 AATATATATAAATATTAATACACATCAAACCCAAATTAA-CCACTCATAAATTTTACACATCTAA
15264232 AAGTTAATAAATATA
325 AAGTTAATAAATATA
* *
15264247 TAATTTATTTATTTTAAGTTTGATCAATACAATCAAACCACAATATTTTAATAATTAGTAATATA
1 TAATTTATTTATATTAAGTTTGATCAATACAATCAAACCACAATATTTCAATAATTAGTAATATA
* * *
15264312 TAAATTTCACTAAACTATCAAATATATTAACTGTTTCGAAACAAATATAAATCTTAAT-A-ATAT
66 TAAATTTCACTAAACTATCAAATATATAAACTATTTCAAAACAAATATAAATCTTAATAATATAT
* * * *
15264375 GGAAGTTACTTCAAAATGA-GA-TAGCTATTAATAATATATAAATTATAACCTTAAATCAATATA
131 AGAACTTACTTCAAAATGATCATTAGCTATTAATAATATATAAATTATAACCTCAAATCAATATA
* *
15264438 AATAATTTTAATTTTTATAATTATTATTAAAATCTAAAAAATATTAAATACAAAACATCCATACA
196 AATAATTTTAATTTCTATAATTATTATTAAAATCTAAAAAATATTAAATACAAAACAACCATACA
* * * *
15264503 AATATATATAAATATTAATACACATCAAACCTAAATTAACCAGTCATAAATTTTATATATCTAAA
261 AATATATATAAATATTAATACACATCAAACCCAAATTAACCACTCATAAATTTTACACATCTAAA
*
15264568 AGTTAGTAAATATA
326 AGTTAATAAATATA
15264582 TAA
1 TAA
15264585 CAAAATTAAC
Statistics
Matches: 311, Mismatches: 26, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
334 5 0.02
335 169 0.54
336 1 0.00
337 20 0.06
338 1 0.00
339 115 0.37
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (339 bp):
TAATTTATTTATATTAAGTTTGATCAATACAATCAAACCACAATATTTCAATAATTAGTAATATA
TAAATTTCACTAAACTATCAAATATATAAACTATTTCAAAACAAATATAAATCTTAATAATATAT
AGAACTTACTTCAAAATGATCATTAGCTATTAATAATATATAAATTATAACCTCAAATCAATATA
AATAATTTTAATTTCTATAATTATTATTAAAATCTAAAAAATATTAAATACAAAACAACCATACA
AATATATATAAATATTAATACACATCAAACCCAAATTAACCACTCATAAATTTTACACATCTAAA
AGTTAATAAATATA
Found at i:15266294 original size:59 final size:59
Alignment explanation
Indices: 15266211--15266342 Score: 160
Period size: 59 Copynumber: 2.2 Consensus size: 59
15266201 TAAAAATTTG
* *
15266211 TTGGG-TTTAGGTTATCAATGTGTTGAGTTTTCATTGGTTATT-TATTTGTTGAAATTTAT
1 TTGGGTTTTA-GTTACCAATGTGTTGAGTTTTCATTGATT-TTATATTTGTTGAAATTTAT
* ** * *
15266270 TTGGGTTTTAGTTACCAATTTGTTGAGTTTTTGTTGATTTTATGTTTGTTGAAATTTGT
1 TTGGGTTTTAGTTACCAATGTGTTGAGTTTTCATTGATTTTATATTTGTTGAAATTTAT
*
15266329 TTGGGTTTTGGTTA
1 TTGGGTTTTAGTTA
15266343 TATATTTATT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 2 0.03
59 57 0.90
60 4 0.06
ACGTcount: A:0.17, C:0.03, G:0.23, T:0.56
Consensus pattern (59 bp):
TTGGGTTTTAGTTACCAATGTGTTGAGTTTTCATTGATTTTATATTTGTTGAAATTTAT
Found at i:15266456 original size:23 final size:22
Alignment explanation
Indices: 15266430--15266490 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
15266420 ATTTTTTTGG
15266430 ATTTATTTTTAGTATTGTTAAG-A
1 ATTTATTTTTA-T-TTGTTAAGTA
*
15266453 ATTT-TTTTTATTTGTTGAGTA
1 ATTTATTTTTATTTGTTAAGTA
15266474 ATTTATTTTTTATTTGT
1 ATTTA-TTTTTATTTGT
15266491 GAAAATTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 7 0.21
21 6 0.18
22 6 0.18
23 15 0.44
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (22 bp):
ATTTATTTTTATTTGTTAAGTA
Found at i:15266467 original size:20 final size:20
Alignment explanation
Indices: 15266430--15266499 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 20
15266420 ATTTTTTTGG
15266430 ATTTATTTTTAGTATTGTTAAGA
1 ATTT-TTTTTA-T-TTGTTAAGA
*
15266453 ATTTTTTTTATTTGTTGAGTA
1 ATTTTTTTTATTTGTTAAG-A
*
15266474 ATTTATTTTTTATTTGTGAA-A
1 A-TT-TTTTTTATTTGTTAAGA
15266495 ATTTT
1 ATTTT
15266500 GTTGAGATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
19 2 0.05
20 9 0.22
21 5 0.12
22 8 0.20
23 17 0.41
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (20 bp):
ATTTTTTTTATTTGTTAAGA
Found at i:15269581 original size:15 final size:15
Alignment explanation
Indices: 15269561--15269589 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15269551 ATGAATGCCT
15269561 ATGGATGTTTTATGG
1 ATGGATGTTTTATGG
15269576 ATGGATGTTTTATG
1 ATGGATGTTTTATG
15269590 ATGCTTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (15 bp):
ATGGATGTTTTATGG
Found at i:15269592 original size:25 final size:26
Alignment explanation
Indices: 15269564--15269635 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 26
15269554 AATGCCTATG
15269564 GATGTTTTATGGATG-GATGTTTTAT
1 GATGTTTTATGGATGAGATGTTTTAT
*
15269589 GATGCTTTATGGATGTTACAGATGTTTTAT
1 GATGTTTTATGGATG----AGATGTTTTAT
15269619 GATGTATTTGATGGATG
1 GATGT-TTT-ATGGATG
15269636 TTATTTGGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 14 0.37
30 14 0.37
31 3 0.08
32 7 0.18
ACGTcount: A:0.22, C:0.03, G:0.28, T:0.47
Consensus pattern (26 bp):
GATGTTTTATGGATGAGATGTTTTAT
Found at i:15269615 original size:30 final size:32
Alignment explanation
Indices: 15269579--15269638 Score: 97
Period size: 30 Copynumber: 1.9 Consensus size: 32
15269569 TTTATGGATG
*
15269579 GATGTTTTATGATG-CTTT-ATGGATGTTACA
1 GATGTTTTATGATGTATTTGATGGATGTTACA
15269609 GATGTTTTATGATGTATTTGATGGATGTTA
1 GATGTTTTATGATGTATTTGATGGATGTTA
15269639 TTTGGATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 14 0.52
31 3 0.11
32 10 0.37
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.48
Consensus pattern (32 bp):
GATGTTTTATGATGTATTTGATGGATGTTACA
Found at i:15269741 original size:19 final size:20
Alignment explanation
Indices: 15269719--15269756 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
15269709 AAGGTTTGAA
15269719 AATAATTACAAAT-TTTTTG
1 AATAATTACAAATGTTTTTG
*
15269738 AATAATTATAAATGTTTTT
1 AATAATTACAAATGTTTTT
15269757 ATTTAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
AATAATTACAAATGTTTTTG
Found at i:15269839 original size:21 final size:21
Alignment explanation
Indices: 15269814--15269881 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
15269804 AAATTTCATT
15269814 ATTATCGATAGAATTTTTATA
1 ATTATCGATAGAATTTTTATA
* *
15269835 ATTATCGAT-GAAATTTTATT
1 ATTATCGATAGAATTTTTATA
* * *
15269855 ATTACCGATATAATTTTTATC
1 ATTATCGATAGAATTTTTATA
15269876 ATTATC
1 ATTATC
15269882 AATGGATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 17 0.44
21 22 0.56
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (21 bp):
ATTATCGATAGAATTTTTATA
Found at i:15269846 original size:41 final size:41
Alignment explanation
Indices: 15269801--15269881 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
15269791 AAATTTACTA
*
15269801 ATGAAATTTCATTATTATCGATAGAATTTTTATAATTATCG
1 ATGAAATTTCATTATTACCGATAGAATTTTTATAATTATCG
* * *
15269842 ATGAAATTTTATTATTACCGATATAATTTTTATCATTATC
1 ATGAAATTTCATTATTACCGATAGAATTTTTATAATTATC
15269882 AATGGATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (41 bp):
ATGAAATTTCATTATTACCGATAGAATTTTTATAATTATCG
Found at i:15269853 original size:20 final size:20
Alignment explanation
Indices: 15269801--15269881 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 20
15269791 AAATTTACTA
*
15269801 ATGAAATTTCATTATTATCG
1 ATGAAATTTTATTATTATCG
* *
15269821 ATAGAATTTTTATAATTATCG
1 AT-GAAATTTTATTATTATCG
*
15269842 ATGAAATTTTATTATTACCG
1 ATGAAATTTTATTATTATCG
*
15269862 AT-ATAATTTTTATCATTATC
1 ATGA-AA-TTTTATTATTATC
15269882 AATGGATTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
19 1 0.02
20 21 0.42
21 28 0.56
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (20 bp):
ATGAAATTTTATTATTATCG
Found at i:15270411 original size:44 final size:45
Alignment explanation
Indices: 15270363--15270467 Score: 121
Period size: 45 Copynumber: 2.4 Consensus size: 45
15270353 ATTTCACCTA
15270363 TAAAATTAATTAATTAA-TTATAATTTA-AAATATATAAAA-TTTAT
1 TAAAATTAATTAATTAATTTAT-ATTTATAAATA-ATAAAATTTTAT
*
15270407 TAAAATT--TTATATGAAATTTATATTTATAAATAATAAAATTTTAT
1 TAAAATTAATTA-AT-TAATTTATATTTATAAATAATAAAATTTTAT
*
15270452 TATAATTAATTAATTA
1 TAAAATTAATTAATTA
15270468 TAATAAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
42 3 0.06
43 2 0.04
44 20 0.39
45 21 0.41
46 2 0.04
47 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (45 bp):
TAAAATTAATTAATTAATTTATATTTATAAATAATAAAATTTTAT
Found at i:15270427 original size:11 final size:11
Alignment explanation
Indices: 15270393--15270430 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
15270383 TAATTTAAAA
15270393 TATATAAAATT
1 TATATAAAATT
15270404 TAT-TAAAATTT
1 TATATAAAA-TT
*
15270415 TATATGAAATT
1 TATATAAAATT
15270426 TATAT
1 TATAT
15270431 TTATAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 5 0.21
11 15 0.62
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (11 bp):
TATATAAAATT
Found at i:15270456 original size:20 final size:22
Alignment explanation
Indices: 15270421--15270461 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
15270411 ATTTTATATG
15270421 AAATTTATATTTATAAATAATA
1 AAATTTATATTTATAAATAATA
*
15270443 AAATTT-TA-TTATAATTAAT
1 AAATTTATATTTATAAATAAT
15270462 TAATTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATTTATATTTATAAATAATA
Found at i:15272509 original size:14 final size:13
Alignment explanation
Indices: 15272470--15272513 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
15272460 ATTTATAGAG
15272470 AAAAA-TTTTA-T
1 AAAAATTTTTATT
*
15272481 AAATATTTTTATT
1 AAAAATTTTTATT
15272494 AAAAATTTTTATTT
1 AAAAATTTTTA-TT
15272508 AAAAAT
1 AAAAAT
15272514 ATATCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 4 0.14
12 5 0.18
13 11 0.39
14 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAAAATTTTTATT
Found at i:15274381 original size:30 final size:30
Alignment explanation
Indices: 15274345--15274433 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 30
15274335 CATGTGGAGG
* *
15274345 ATTTTCGCTTATCTTACCATCTTTGGGGCT
1 ATTTTCGCGTATCTTACCACCTTTGGGGCT
* * *
15274375 ATTTTCGCGTGTCTTACCACCTTTTGGGTT
1 ATTTTCGCGTATCTTACCACCTTTGGGGCT
*
15274405 ACTTTT-GAGTATCTTACCACCTTTTGGGG
1 A-TTTTCGCGTATCTTACCACC-TTTGGGG
15274434 AATATTTCGG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
30 39 0.80
31 10 0.20
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.45
Consensus pattern (30 bp):
ATTTTCGCGTATCTTACCACCTTTGGGGCT
Found at i:15274752 original size:33 final size:32
Alignment explanation
Indices: 15274715--15274779 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
15274705 AAATATATTT
** * *
15274715 AAAAATATTTTTATATTAACATTTTAATAACTA
1 AAAAATAAATTTAAATTAACA-TTAAATAACTA
15274748 AAAAATAAATTTAAATTAACATTAAATAACTA
1 AAAAATAAATTTAAATTAACATTAAATAACTA
15274780 TATTTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (32 bp):
AAAAATAAATTTAAATTAACATTAAATAACTA
Found at i:15274800 original size:16 final size:17
Alignment explanation
Indices: 15274769--15274801 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15274759 TAAATTAACA
*
15274769 TTAAATAACTATATTTT
1 TTAAATAACAATATTTT
15274786 TTAAATAA-AATATTTT
1 TTAAATAACAATATTTT
15274802 CACGAGCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATAACAATATTTT
Found at i:15279419 original size:16 final size:16
Alignment explanation
Indices: 15279398--15279451 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 16
15279388 TATAAAATTA
15279398 TATCATGCAAATTAAT
1 TATCATGCAAATTAAT
15279414 TATCATGCAATAATATCAAT
1 TATCATGC-A-AAT-T-AAT
* *
15279434 AATCATGCAAATTTAT
1 TATCATGCAAATTAAT
15279450 TA
1 TA
15279452 ATTACCATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 11 0.35
17 2 0.06
18 6 0.19
19 2 0.06
20 10 0.32
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (16 bp):
TATCATGCAAATTAAT
Found at i:15279425 original size:40 final size:36
Alignment explanation
Indices: 15279376--15279451 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 36
15279366 TATCAAGTAC
15279376 TCATACAATAAATATAAAATTATATCATGCAAATTAATTA
1 TCATACAAT-AATAT-AAA-TA-ATCATGCAAATTAATTA
* * *
15279416 TCATGCAATAATATCAATAATCATGCAAATTTATTA
1 TCATACAATAATATAAATAATCATGCAAATTAATTA
15279452 ATTACCATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 16 0.48
37 2 0.06
38 2 0.06
39 5 0.15
40 8 0.24
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.36
Consensus pattern (36 bp):
TCATACAATAATATAAATAATCATGCAAATTAATTA
Found at i:15279490 original size:36 final size:35
Alignment explanation
Indices: 15279397--15279491 Score: 84
Period size: 40 Copynumber: 2.5 Consensus size: 35
15279387 ATATAAAATT
* * *
15279397 ATATCATGCAAATTAATTATCATGCAATAATATCA
1 ATATCATGCAAAATAATTACCATGCAATAATATAA
*
15279432 ATAATCATGCAAATTTATTAATTACCATGTAATCAA-ATAAA
1 AT-ATCATGCAAA---A-TAATTACCATGCAAT-AATAT-AA
15279473 ATATCATGCAAAATAATTA
1 ATATCATGCAAAATAATTA
15279492 TAAATCACAC
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
35 2 0.04
36 16 0.33
37 1 0.02
40 25 0.51
41 5 0.10
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (35 bp):
ATATCATGCAAAATAATTACCATGCAATAATATAA
Found at i:15279536 original size:24 final size:23
Alignment explanation
Indices: 15279494--15279542 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
15279484 AATAATTATA
15279494 AATCACACAAATAACATATTAAT
1 AATCACACAAATAACATATTAAT
* *
15279517 AATCATACAAATAAATATATTAAT
1 AATCACACAAAT-AACATATTAAT
15279541 AA
1 AA
15279543 CATGCAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (23 bp):
AATCACACAAATAACATATTAAT
Found at i:15279591 original size:19 final size:19
Alignment explanation
Indices: 15279567--15279604 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15279557 TAAATGTACT
15279567 AAATAATCATGCAAATATA
1 AAATAATCATGCAAATATA
* *
15279586 AAATAATTATGCAAGTATA
1 AAATAATCATGCAAATATA
15279605 TATATTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (19 bp):
AAATAATCATGCAAATATA
Found at i:15279797 original size:30 final size:27
Alignment explanation
Indices: 15279741--15279802 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 27
15279731 TATTAGGTAA
* *
15279741 TCATGCAAATAAATGTATTATCATTAT
1 TCATGCAAATAAATATATTATAATTAT
15279768 TCATGCAATATATATATATATTATAATTAT
1 TCATGCAA-ATA-A-ATATATTATAATTAT
15279798 TCATG
1 TCATG
15279803 TGAAAACATG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 8 0.27
28 3 0.10
29 1 0.03
30 18 0.60
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (27 bp):
TCATGCAAATAAATATATTATAATTAT
Found at i:15280832 original size:23 final size:24
Alignment explanation
Indices: 15280796--15280844 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
15280786 GACCCAAAAG
15280796 ATTTTTCACCTTTTTTT-CTTTTT
1 ATTTTTCACCTTTTTTTACTTTTT
* *
15280819 ATTTTTGACTTTTTTTTAACTTTTT
1 ATTTTTCACCTTTTTTT-ACTTTTT
15280844 A
1 A
15280845 CCAAAACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 15 0.68
25 7 0.32
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.71
Consensus pattern (24 bp):
ATTTTTCACCTTTTTTTACTTTTT
Found at i:15280879 original size:6 final size:6
Alignment explanation
Indices: 15280860--15280944 Score: 70
Period size: 6 Copynumber: 14.7 Consensus size: 6
15280850 ACTAAACAAA
* * * *
15280860 AAAACT AAAA-T AAAATT AAAA-T AGAAATT -AGACT AAAATT AAAACT
1 AAAATT AAAATT AAAATT AAAATT A-AAATT AAAATT AAAATT AAAATT
* * *
15280906 AAAATT AAAATT AAAA-C CAAATT AAAATC AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
15280945 CTAAGATAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
5 13 0.21
6 48 0.77
7 1 0.02
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (6 bp):
AAAATT
Found at i:15280908 original size:29 final size:28
Alignment explanation
Indices: 15280863--15280944 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
15280853 AAACAAAAAA
*
15280863 ACTAAAATAAAATTAAAA-TAGAAATTAG
1 ACTAAAATAAAACTAAAATTA-AAATTAG
*
15280891 ACTAAAATTAAAACTAAAATTAAAATTAAA
1 ACTAAAA-TAAAACTAAAATTAAAATT-AG
* *
15280921 ACCAAATTAAAA-TCAAAATTAAAA
1 ACTAAAATAAAACT-AAAATTAAAA
15280945 CTAAGATAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
28 8 0.17
29 30 0.65
30 8 0.17
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.24
Consensus pattern (28 bp):
ACTAAAATAAAACTAAAATTAAAATTAG
Found at i:15281273 original size:32 final size:33
Alignment explanation
Indices: 15281232--15281300 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
15281222 AAAACTTTTG
** *
15281232 GAAAATAAAATG-TCCCTTACAATTAAGGCTTT
1 GAAAATAAAATGCTCCCCCACAACTAAGGCTTT
*
15281264 GAAAATAAAATGCTCCCCCATAACTAAGGCTTT
1 GAAAATAAAATGCTCCCCCACAACTAAGGCTTT
15281297 GAAA
1 GAAA
15281301 CTTTTGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (33 bp):
GAAAATAAAATGCTCCCCCACAACTAAGGCTTT
Found at i:15281326 original size:43 final size:43
Alignment explanation
Indices: 15281261--15281360 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
15281251 CAATTAAGGC
* * *
15281261 TTTG-AAAATAAAATGCTCCCCCATAACTAAGGCTTTGAAACT
1 TTTGAAAAATAAAATCCTCCCCCACAACTAAAGCTTTGAAACT
*
15281303 TTTGAAAAATAAAATCCTTCCCCACAACTAAAGCTTTGAAACT
1 TTTGAAAAATAAAATCCTCCCCCACAACTAAAGCTTTGAAACT
15281346 TTTGAAAAATAAAAT
1 TTTGAAAAATAAAAT
15281361 GATATCATTC
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 4 0.08
43 49 0.92
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (43 bp):
TTTGAAAAATAAAATCCTCCCCCACAACTAAAGCTTTGAAACT
Found at i:15289003 original size:159 final size:159
Alignment explanation
Indices: 15288718--15289182 Score: 837
Period size: 158 Copynumber: 2.9 Consensus size: 159
15288708 TAGTTGTTGA
15288718 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
15288783 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATAAAAAAAAAATC
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATAAAAAAAAAATC
15288848 AAAATCAAAGTCAAATAATTAATTATCGG
131 AAAATCAAAGTCAAATAATTAATTATCGG
* *
15288877 AAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
* *
15288942 TATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAA
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAA-TAAA-AAAAAAA
* *
15289006 TCAAAATC--AGCCAAGTAATTAATTATCGG
129 TCAAAATCAAAGTCAAATAATTAATTATCGG
15289035 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
15289100 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATAAAAAAAAAATC
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATAAAAAAAAAATC
15289165 AAAATCAAAGTCAAATAA
131 AAAATCAAAGTCAAATAA
15289183 AAAAAATTCA
Statistics
Matches: 289, Mismatches: 12, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
157 15 0.05
158 135 0.47
159 124 0.43
160 15 0.05
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (159 bp):
AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATAAAAAAAAAATC
AAAATCAAAGTCAAATAATTAATTATCGG
Found at i:15289196 original size:1 final size:1
Alignment explanation
Indices: 15289192--15289227 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
15289182 AAAAAAATTC
**
15289192 AAAAAAAAAAATCAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15289228 CCTGGAGCGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.94, C:0.03, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:15289196 original size:28 final size:27
Alignment explanation
Indices: 15289153--15289227 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 27
15289143 TCGGATTAAT
** *
15289153 AAAAAAAAAATCAAAATCAAAGTCAAA
1 AAAAAAAAAATCAAAAAAAAAATCAAA
* *
15289180 TAAAAAAAATTCAAAAAAAAAAATCAAA
1 AAAAAAAAAATC-AAAAAAAAAATCAAA
15289208 AAAAAAAAAA--AAAAAAAAAA
1 AAAAAAAAAATCAAAAAAAAAA
15289228 CCTGGAGCGG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
25 10 0.25
27 10 0.25
28 20 0.50
ACGTcount: A:0.83, C:0.07, G:0.01, T:0.09
Consensus pattern (27 bp):
AAAAAAAAAATCAAAAAAAAAATCAAA
Found at i:15289199 original size:13 final size:13
Alignment explanation
Indices: 15289153--15289226 Score: 82
Period size: 13 Copynumber: 5.8 Consensus size: 13
15289143 TCGGATTAAT
15289153 AAAAAAAAAATC-
1 AAAAAAAAAATCA
** *
15289165 AAAATCAAAGTCA
1 AAAAAAAAAATCA
15289178 AATAAAAAAAATTCA
1 AA-AAAAAAAA-TCA
15289193 AAAAAAAAAATCA
1 AAAAAAAAAATCA
15289206 AAAAAAAAAA--A
1 AAAAAAAAAATCA
15289217 AAAAAAAAAA
1 AAAAAAAAAA
15289227 ACCTGGAGCG
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
11 11 0.21
12 9 0.17
13 15 0.28
14 13 0.25
15 5 0.09
ACGTcount: A:0.82, C:0.07, G:0.01, T:0.09
Consensus pattern (13 bp):
AAAAAAAAAATCA
Found at i:15289199 original size:15 final size:14
Alignment explanation
Indices: 15289153--15289227 Score: 70
Period size: 12 Copynumber: 5.6 Consensus size: 14
15289143 TCGGATTAAT
15289153 AAAAAAAAAATC--
1 AAAAAAAAAATCAA
** *
15289165 AAAATCAAAGTCAA
1 AAAAAAAAAATCAA
*
15289179 ATAAAAAAAATTC-A
1 A-AAAAAAAAATCAA
15289193 AAAAAAAAAATCAA
1 AAAAAAAAAATCAA
15289207 AAAAAAAAAA--AA
1 AAAAAAAAAATCAA
15289219 AAAAAAAAA
1 AAAAAAAAA
15289228 CCTGGAGCGG
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
12 20 0.38
13 10 0.19
14 14 0.27
15 8 0.15
ACGTcount: A:0.83, C:0.07, G:0.01, T:0.09
Consensus pattern (14 bp):
AAAAAAAAAATCAA
Found at i:15289366 original size:12 final size:12
Alignment explanation
Indices: 15289346--15289381 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
15289336 GGAGGGAAGC
*
15289346 ACGCGCGGGTCG
1 ACGCTCGGGTCG
15289358 ACGCTCGGGTCG
1 ACGCTCGGGTCG
15289370 ACGCTCGGGTCG
1 ACGCTCGGGTCG
15289382 GGTCGGGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.08, C:0.33, G:0.44, T:0.14
Consensus pattern (12 bp):
ACGCTCGGGTCG
Found at i:15289655 original size:20 final size:20
Alignment explanation
Indices: 15289630--15289670 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
15289620 AAATCCACCA
15289630 GTTTCTGGGATTCTTCGCCG
1 GTTTCTGGGATTCTTCGCCG
*
15289650 GTTTCTGGGATTTTTCGCCG
1 GTTTCTGGGATTCTTCGCCG
15289670 G
1 G
15289671 AAACTGGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.05, C:0.22, G:0.32, T:0.41
Consensus pattern (20 bp):
GTTTCTGGGATTCTTCGCCG
Found at i:15289677 original size:20 final size:20
Alignment explanation
Indices: 15289634--15289678 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15289624 CCACCAGTTT
***
15289634 CTGGGATTCTTCGCCGGTTT
1 CTGGGATTCTTCGCCGGAAA
*
15289654 CTGGGATTTTTCGCCGGAAA
1 CTGGGATTCTTCGCCGGAAA
15289674 CTGGG
1 CTGGG
15289679 CAGGTCGCCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (20 bp):
CTGGGATTCTTCGCCGGAAA
Found at i:15289721 original size:31 final size:31
Alignment explanation
Indices: 15289683--15289741 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
15289673 ACTGGGCAGG
*
15289683 TCGCCGGAAACTTCAATGTTGGCCGGAATTT
1 TCGCCGGAAACTTCAAGGTTGGCCGGAATTT
15289714 TCGCCGGAAACTTCAAGGTTGGCCGGAA
1 TCGCCGGAAACTTCAAGGTTGGCCGGAA
15289742 AATCCAACCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (31 bp):
TCGCCGGAAACTTCAAGGTTGGCCGGAATTT
Found at i:15290106 original size:10 final size:11
Alignment explanation
Indices: 15290080--15290112 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
15290070 CTAGCCCTCC
15290080 AAAATAAAAATT
1 AAAA-AAAAATT
15290092 AAAAAAAAATT
1 AAAAAAAAATT
15290103 AAAAAAAAAT
1 AAAAAAAAAT
15290113 CTAGATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAAAAAATT
Found at i:15290372 original size:6 final size:5
Alignment explanation
Indices: 15290335--15290364 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
15290325 CACAAGAGAG
15290335 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
15290365 AATAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:15290466 original size:20 final size:20
Alignment explanation
Indices: 15290411--15290469 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
15290401 CACATTTGGG
* *
15290411 CAGGCCCAAATGATCTGGGT
1 CAGGCCCAATTGATCCGGGT
15290431 CAGGCCCAATTGATCCGGGT
1 CAGGCCCAATTGATCCGGGT
15290451 CAGGCCCAATTGATCCGGG
1 CAGGCCCAATTGATCCGGG
15290470 CCCGGACCTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.22, C:0.29, G:0.31, T:0.19
Consensus pattern (20 bp):
CAGGCCCAATTGATCCGGGT
Found at i:15295139 original size:20 final size:20
Alignment explanation
Indices: 15295087--15295162 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
15295077 CATCATGCAA
15295087 ATTAATTATCATGCAATAAT
1 ATTAATTATCATGCAATAAT
* *
15295107 ATCAATAATCATGCACAT-AT
1 ATTAATTATCATGCA-ATAAT
* *
15295127 ATTAATTACCATGTAATCAA-
1 ATTAATTATCATGCAAT-AAT
* *
15295147 ATAAAATATCATGCAA
1 ATTAATTATCATGCAA
15295163 ATTCATTATA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
19 2 0.05
20 38 0.88
21 3 0.07
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.33
Consensus pattern (20 bp):
ATTAATTATCATGCAATAAT
Found at i:15295197 original size:24 final size:25
Alignment explanation
Indices: 15295170--15295249 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 25
15295160 CAAATTCATT
*
15295170 ATAAATCACAC-AATTAATATATTA
1 ATAAATCACACAAATAAATATATTA
*
15295194 AT-AATCATACAAATAAATATATTA
1 ATAAATCACACAAATAAATATATTA
15295218 ATAACATACAATCACACACATAAATATATTA
1 ATAA-AT-C-A-CACA-A-ATAAATATATTA
15295249 A
1 A
15295250 ATAATCATGC
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
23 7 0.16
24 16 0.36
25 1 0.02
26 2 0.04
27 1 0.02
28 1 0.02
29 3 0.07
30 1 0.02
31 13 0.29
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (25 bp):
ATAAATCACACAAATAAATATATTA
Found at i:15295294 original size:24 final size:23
Alignment explanation
Indices: 15295237--15295304 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
15295227 AATCACACAC
15295237 ATAAATATATTAAATAATCATGC-
1 ATAAATATA-TAAATAATCATGCA
*
15295260 --AAATCTA-AAATAATCATGCA
1 ATAAATATATAAATAATCATGCA
*
15295280 AGTAAATATATAAATATTCATGCA
1 A-TAAATATATAAATAATCATGCA
15295304 A
1 A
15295305 ACATGCAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 12 0.32
21 6 0.16
23 6 0.16
24 13 0.35
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (23 bp):
ATAAATATATAAATAATCATGCA
Found at i:15295512 original size:27 final size:27
Alignment explanation
Indices: 15295433--15295500 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
15295423 TATTAGGTTA
* * *
15295433 TCATGCAAATAA-ATGTTTTATTATTAT
1 TCATGCAAA-AATATATATTATAATTAT
15295460 TCATGCAAAAATATATATTATAATTAT
1 TCATGCAAAAATATATATTATAATTAT
*
15295487 TCATGCGAAAATAT
1 TCATGCAAAAATAT
15295501 GCAATTAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (27 bp):
TCATGCAAAAATATATATTATAATTAT
Found at i:15297590 original size:16 final size:17
Alignment explanation
Indices: 15297555--15297592 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
15297545 GCTTTTGGGA
* *
15297555 TTTTCAAATTTTATAGG
1 TTTTTAAATTTCATAGG
15297572 TTTTTAAATTTCA-AGG
1 TTTTTAAATTTCATAGG
15297588 TTTTT
1 TTTTT
15297593 GAGTTTAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.58
Consensus pattern (17 bp):
TTTTTAAATTTCATAGG
Found at i:15304618 original size:22 final size:22
Alignment explanation
Indices: 15304556--15304802 Score: 127
Period size: 23 Copynumber: 11.1 Consensus size: 22
15304546 GAATATTTAA
15304556 AAATTTTGAATGTGAAT-TTCT-
1 AAATTTTGAATGTGAATCTT-TG
* *
15304577 AAGATTTCTTAAATGAGAAT-TTATG
1 AA-A-TT-TTGAATGTGAATCTT-TG
*
15304602 AAATTTTGAATGTGAATCTTTT
1 AAATTTTGAATGTGAATCTTTG
* * *
15304624 AATTTTTG-GTGTGAATCTCTAAG
1 AAATTTTGAATGTGAATCT-T-TG
* *
15304647 AATTTTTGAATGAGAATCTTTG
1 AAATTTTGAATGTGAATCTTTG
* * ** *
15304669 -AGTTTTTAATGAAAATCTTTAA
1 AAATTTTGAATGTGAATCTTT-G
*
15304691 AAATTTT-AGATGTGAAT-TTTT
1 AAATTTTGA-ATGTGAATCTTTG
* * * *
15304712 AAAGGTTTTCAAATGAGAATGTATG
1 AAA--TTTT-GAATGTGAATCTTTG
15304737 AAATTTTGAATGTGAATCTTTG
1 AAATTTTGAATGTGAATCTTTG
*
15304759 -AATTTTG--TGTGAATCTTTA
1 AAATTTTGAATGTGAATCTTTG
*
15304778 AAATTTTCGAATGTGAATTTTTG
1 AAATTTT-GAATGTGAATCTTTG
15304801 AA
1 AA
15304803 TGTTAGACAT
Statistics
Matches: 175, Mismatches: 31, Indels: 38
0.72 0.13 0.16
Matches are distributed among these distances:
19 11 0.06
20 6 0.03
21 39 0.22
22 36 0.21
23 46 0.26
24 29 0.17
25 8 0.05
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (22 bp):
AAATTTTGAATGTGAATCTTTG
Found at i:15304629 original size:21 final size:21
Alignment explanation
Indices: 15304556--15304795 Score: 114
Period size: 21 Copynumber: 10.8 Consensus size: 21
15304546 GAATATTTAA
15304556 AAATTTTGAATGTGAAT-TTCT
1 AAATTTTGAATGTGAATCTT-T
* *
15304577 AAGATTTCTTAAATGAGAAT-TTAT
1 AA-A-TT-TTGAATGTGAATCTT-T
15304601 GAAATTTTGAATGTGAATCTTTT
1 -AAATTTTGAATGTGAATC-TTT
* * *
15304624 AATTTTTG-GTGTGAATCTCTA
1 AAATTTTGAATGTGAATCT-TT
*
15304645 AGAATTTTTGAATGAGAATCTTT
1 A-AA-TTTTGAATGTGAATCTTT
* * * **
15304668 GAGTTTTTAATGAAAATCTTT
1 AAATTTTGAATGTGAATCTTT
*
15304689 AAAAATTTT-AGATGTGAATTTTT
1 --AAATTTTGA-ATGTGAATCTTT
* * * *
15304712 AAAGGTTTTCAAATGAGAATGTATG
1 AAA--TTTT-GAATGTGAATCT-TT
15304737 AAATTTTGAATGTGAATCTTT
1 AAATTTTGAATGTGAATCTTT
*
15304758 GAATTTTG--TGTGAATCTTT
1 AAATTTTGAATGTGAATCTTT
15304777 AAAATTTTCGAATGTGAAT
1 -AAATTTT-GAATGTGAAT
15304796 TTTTGAATGT
Statistics
Matches: 167, Mismatches: 30, Indels: 42
0.70 0.13 0.18
Matches are distributed among these distances:
19 11 0.07
20 7 0.04
21 40 0.24
22 30 0.18
23 40 0.24
24 32 0.19
25 7 0.04
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.45
Consensus pattern (21 bp):
AAATTTTGAATGTGAATCTTT
Found at i:15304686 original size:45 final size:45
Alignment explanation
Indices: 15304472--15304697 Score: 114
Period size: 45 Copynumber: 5.1 Consensus size: 45
15304462 TCTCCAAACT
15304472 TTTTTGAATGAGAA-CTTTGAATTTTGGGT-ATG--AATCTCTAAAAA
1 TTTTTGAATGAGAATCTTTGAATTTT---TAATGAAAATCTCTAAAAA
* * * * * * * *
15304516 TTTTCGAATAAGAA--TTTGAGTTATAAATGAGAATATTTAAAAA
1 TTTTTGAATGAGAATCTTTGAATTTTTAATGAAAATCTCTAAAAA
* * * *
15304559 -TTTTGAATGTGAAT-TTCTAAGATTTCTTAAATGAGAAT-T-TATGAAA
1 TTTTTGAATGAGAATCTT-TGA-ATTT-TT-AATGAAAATCTCTA-AAAA
* * ** ** *
15304605 -TTTTGAATGTGAATCTTTTAATTTTTGGTGTGAATCTCTAAGAA
1 TTTTTGAATGAGAATCTTTGAATTTTTAATGAAAATCTCTAAAAA
* *
15304649 TTTTTGAATGAGAATCTTTGAGTTTTTAATGAAAATCTTTAAAAA
1 TTTTTGAATGAGAATCTTTGAATTTTTAATGAAAATCTCTAAAAA
15304694 TTTT
1 TTTT
15304698 AGATGTGAAT
Statistics
Matches: 139, Mismatches: 30, Indels: 25
0.72 0.15 0.13
Matches are distributed among these distances:
41 3 0.02
42 10 0.07
43 26 0.19
44 19 0.14
45 49 0.35
46 21 0.15
47 11 0.08
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (45 bp):
TTTTTGAATGAGAATCTTTGAATTTTTAATGAAAATCTCTAAAAA
Found at i:15304704 original size:135 final size:133
Alignment explanation
Indices: 15304473--15304798 Score: 421
Period size: 135 Copynumber: 2.5 Consensus size: 133
15304463 CTCCAAACTT
* * * *
15304473 TTTTGAATGAGAA-CTTTGAATTTTGGGTATGAATCTCTAAAAATTTTCGAATAAGAA-TTTGAG
1 TTTTGAATGTGAATCTTTGAATTTTTGGTGTGAATCTCT-AAAATTTTCGAATGAGAATTTTGAG
* * *
15304536 TTATAAATGAGAATATTTAAAAATTTTGAATGTGAATTTCT-AAGATTTCTTAAATGAGAATTTA
65 TTATAAATGAAAATATTTAAAAATTTTGAATGTGAATTTCTAAAGATTT-TCAAATGAGAATGTA
15304600 TGAAA
129 TGAAA
* *
15304605 TTTTGAATGTGAATCTTTTAATTTTTGGTGTGAATCTCTAAGAATTTTTGAATGAGAATCTTTGA
1 TTTTGAATGTGAATCTTTGAATTTTTGGTGTGAATCTCTAA-AATTTTCGAATGAGAAT-TTTGA
* * * * *
15304670 GTTTTTAATGAAAATCTTTAAAAATTTT-AGATGTGAATTTTTAAAGGTTTTCAAATGAGAATGT
64 GTTATAAATGAAAATATTTAAAAATTTTGA-ATGTGAATTTCTAAAGATTTTCAAATGAGAATGT
15304734 ATGAAA
128 ATGAAA
* *
15304740 TTTTGAATGTGAATCTTTGAA-TTTT-GTGTGAATCTTTAAAATTTTCGAATGTGAATTTT
1 TTTTGAATGTGAATCTTTGAATTTTTGGTGTGAATCTCTAAAATTTTCGAATGAGAATTTT
15304799 TGAATGTTAG
Statistics
Matches: 170, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
131 3 0.02
132 29 0.17
133 49 0.29
134 5 0.03
135 78 0.46
136 6 0.04
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.44
Consensus pattern (133 bp):
TTTTGAATGTGAATCTTTGAATTTTTGGTGTGAATCTCTAAAATTTTCGAATGAGAATTTTGAGT
TATAAATGAAAATATTTAAAAATTTTGAATGTGAATTTCTAAAGATTTTCAAATGAGAATGTATG
AAA
Found at i:15305035 original size:18 final size:18
Alignment explanation
Indices: 15304997--15305069 Score: 60
Period size: 18 Copynumber: 4.1 Consensus size: 18
15304987 CTTGCGAATC
* * *
15304997 AAATTCTTGTAAATTTGA
1 AAATTTTTGTAAATCTAA
15305015 AAATTTTTGTAAATCTAA
1 AAATTTTTGTAAATCTAA
*
15305033 AAATTCTTACG-AAA-CTAA
1 AAATT-TT-TGTAAATCTAA
* *
15305051 AAATTTTTATGAATCTAA
1 AAATTTTTGTAAATCTAA
15305069 A
1 A
15305070 GTTCTTGTGA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
17 4 0.09
18 34 0.77
19 5 0.11
20 1 0.02
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (18 bp):
AAATTTTTGTAAATCTAA
Found at i:15307867 original size:7 final size:7
Alignment explanation
Indices: 15307855--15307911 Score: 87
Period size: 7 Copynumber: 7.9 Consensus size: 7
15307845 GGAACCCACG
15307855 AAAAAAT
1 AAAAAAT
15307862 AAAAAAT
1 AAAAAAT
15307869 AAAAAAT
1 AAAAAAT
15307876 AAAAAAT
1 AAAAAAT
*
15307883 AAAAAAG
1 AAAAAAT
15307890 AAAAAAT
1 AAAAAAT
15307897 AAACAAAGT
1 AAA-AAA-T
15307906 AAAAAA
1 AAAAAA
15307912 GGGCAAAGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
7 36 0.78
8 6 0.13
9 4 0.09
ACGTcount: A:0.84, C:0.02, G:0.04, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:15309250 original size:112 final size:112
Alignment explanation
Indices: 15309051--15309274 Score: 389
Period size: 112 Copynumber: 2.0 Consensus size: 112
15309041 AAAAATAAAA
*
15309051 CTGTAACATTTATATAAAGGATAAAGCCAATCTGGCATCTTAATGCAAAATGTTTTTGGAAATAG
1 CTGTAACATTTATATAAAGGATAAAGCCAATCTGGCATCTTAAAGCAAAATGTTTTTGGAAATAG
15309116 TCTTCGATAAAAATTAAAAAAAATTAAAAAATCCTGTGCCTATTGGT
66 TCTTCGATAAAAATTAAAAAAAATTAAAAAATCCTGTGCCTATTGGT
*
15309163 CTGTAACATTTATATAAAGGATTAAA-CCAATCTGGCATCTTAAAAGTAAAATGTTTTTGGAAAT
1 CTGTAACATTTATATAAAGGA-TAAAGCCAATCTGGCATCTT-AAAGCAAAATGTTTTTGGAAAT
*
15309227 AGTCTTCGATAAAAATT-AGAAAAATTAAAAAATCCTGTGCCTATTGGT
64 AGTCTTCGATAAAAATTAAAAAAAATTAAAAAATCCTGTGCCTATTGGT
15309275 ATGATTAAAA
Statistics
Matches: 107, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
112 66 0.62
113 41 0.38
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (112 bp):
CTGTAACATTTATATAAAGGATAAAGCCAATCTGGCATCTTAAAGCAAAATGTTTTTGGAAATAG
TCTTCGATAAAAATTAAAAAAAATTAAAAAATCCTGTGCCTATTGGT
Found at i:15317641 original size:3 final size:3
Alignment explanation
Indices: 15317633--15317671 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
15317623 AAGCAAAAGA
15317633 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15317672 TGTCTCTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:15320774 original size:12 final size:12
Alignment explanation
Indices: 15320739--15320782 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
15320729 AAATTAATTC
*
15320739 ATTAAATATATG
1 ATTAAATTTATG
15320751 TATTATAATTTATG
1 -ATTA-AATTTATG
15320765 ATTAAATTTATG
1 ATTAAATTTATG
*
15320777 TTTAAA
1 ATTAAA
15320783 AGTCAAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 13 0.46
13 8 0.29
14 7 0.25
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
ATTAAATTTATG
Found at i:15323183 original size:17 final size:17
Alignment explanation
Indices: 15323145--15323177 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15323135 ACTAACTAAC
15323145 AACATGAAGCACAAGGT
1 AACATGAAGCACAAGGT
15323162 AACATGAAGCACAAGG
1 AACATGAAGCACAAGG
15323178 ACACATAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.18, G:0.24, T:0.09
Consensus pattern (17 bp):
AACATGAAGCACAAGGT
Found at i:15325546 original size:10 final size:10
Alignment explanation
Indices: 15325533--15325569 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
15325523 AGTTCTAATC
*
15325533 ATTTTGATCG
1 ATTTTGATCA
15325543 ATTTTGATCA
1 ATTTTGATCA
15325553 ATTTTGATCA
1 ATTTTGATCA
*
15325563 AATTTGA
1 ATTTTGA
15325570 CTTTATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (10 bp):
ATTTTGATCA
Found at i:15335868 original size:20 final size:20
Alignment explanation
Indices: 15335827--15335869 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
15335817 AAAAAGGTTT
*
15335827 TAATTTATTTTTCTCAAGAA
1 TAATTTATTTTTCTCAAAAA
*
15335847 TAATTTTTTTTTCT-AATAAA
1 TAATTTATTTTTCTCAA-AAA
15335867 TAA
1 TAA
15335870 AAAATCAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (20 bp):
TAATTTATTTTTCTCAAAAA
Found at i:15336392 original size:23 final size:23
Alignment explanation
Indices: 15336362--15336406 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
15336352 ACTATTAAAA
15336362 ATAGAAGAAACTTAAATAATTTT
1 ATAGAAGAAACTTAAATAATTTT
15336385 ATAGAAGAAACTTAAATAATTT
1 ATAGAAGAAACTTAAATAATTT
15336407 AAAAGTGTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.33
Consensus pattern (23 bp):
ATAGAAGAAACTTAAATAATTTT
Found at i:15337484 original size:34 final size:34
Alignment explanation
Indices: 15337445--15337520 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
15337435 TCACTAAATG
* *
15337445 CTAAATTTAGTAGCATTTATAGTATAAAATGCCA
1 CTAAATTTAATAGCATTTATAGTAGAAAATGCCA
* * *
15337479 CTAAATTCAATGGCATTTATAGTAGAAAGTGCCA
1 CTAAATTTAATAGCATTTATAGTAGAAAATGCCA
*
15337513 CTACATTT
1 CTAAATTT
15337521 TGAAATTTAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.34
Consensus pattern (34 bp):
CTAAATTTAATAGCATTTATAGTAGAAAATGCCA
Found at i:15344375 original size:44 final size:44
Alignment explanation
Indices: 15344310--15344409 Score: 146
Period size: 44 Copynumber: 2.2 Consensus size: 44
15344300 TCTAAAAAAA
* * *
15344310 GAAATGAGGGAATAAAAGGAATCAACAATTTAAAGCCAATTGAG
1 GAAATAAGGGAACAAAAGGAATCAACAATTTAAAGCCAATCGAG
* *
15344354 GAAATAAGGGAACAAAGGGAATCAGCAATTTAAAGCCAATCGAG
1 GAAATAAGGGAACAAAAGGAATCAACAATTTAAAGCCAATCGAG
15344398 GAAAATAAGGGA
1 G-AAATAAGGGA
15344410 TTTGATCTAG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 40 0.80
45 10 0.20
ACGTcount: A:0.50, C:0.10, G:0.25, T:0.15
Consensus pattern (44 bp):
GAAATAAGGGAACAAAAGGAATCAACAATTTAAAGCCAATCGAG
Found at i:15352756 original size:22 final size:19
Alignment explanation
Indices: 15352711--15352757 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 19
15352701 TATATTATAG
15352711 AATTA-ATTAAATAAATAA
1 AATTATATTAAATAAATAA
15352729 ATATTATATTATAATAAAATTAA
1 A-ATTATATTA-AAT-AAA-TAA
15352752 AATTAT
1 AATTAT
15352758 TAAATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 1 0.04
19 4 0.17
20 4 0.17
21 3 0.12
22 8 0.33
23 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTATATTAAATAAATAA
Found at i:15353399 original size:20 final size:20
Alignment explanation
Indices: 15353374--15353447 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
15353364 ACTTTGTATT
15353374 TTTAAAGTACTAATTACACA
1 TTTAAAGTACTAATTACACA
*
15353394 TTTAAA--CCTATATT-----
1 TTTAAAGTACTA-ATTACACA
*
15353408 TTTAAAGTATTAATTACACA
1 TTTAAAGTACTAATTACACA
*
15353428 TTTAAAGTATTAATTACACA
1 TTTAAAGTACTAATTACACA
15353448 AAAATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
14 6 0.14
15 3 0.07
16 2 0.05
18 3 0.07
19 3 0.07
20 26 0.60
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (20 bp):
TTTAAAGTACTAATTACACA
Found at i:15359153 original size:19 final size:19
Alignment explanation
Indices: 15359104--15359153 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
15359094 AATATAATTC
15359104 TAAAAAT-TTTTAATAAAA
1 TAAAAATATTTTAATAAAA
* * *
15359122 T-ATAATAGATTTAATTAAA
1 TAAAAATA-TTTTAATAAAA
15359141 TAAAAATATTTTA
1 TAAAAATATTTTA
15359154 TATTTTAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
17 4 0.17
18 1 0.04
19 14 0.58
20 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TAAAAATATTTTAATAAAA
Found at i:15360651 original size:22 final size:22
Alignment explanation
Indices: 15360624--15360668 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
15360614 AAAGTTATGA
15360624 AATAATGTTTTAATATAGTGCT
1 AATAATGTTTTAATATAGTGCT
15360646 AATAATGTTTTAATATAGTGCT
1 AATAATGTTTTAATATAGTGCT
15360668 A
1 A
15360669 CTATTAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (22 bp):
AATAATGTTTTAATATAGTGCT
Found at i:15367787 original size:17 final size:17
Alignment explanation
Indices: 15367749--15367789 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
15367739 GCTAAAAAAA
*
15367749 ATTATTTTATTATTTCT
1 ATTATTTTAATATTTCT
15367766 A-TATTTATAATATTT-T
1 ATTATTT-TAATATTTCT
15367782 ATTATTTT
1 ATTATTTT
15367790 GTACATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTATTTTAATATTTCT
Found at i:15370902 original size:111 final size:111
Alignment explanation
Indices: 15370700--15370921 Score: 383
Period size: 111 Copynumber: 2.0 Consensus size: 111
15370690 AAAAATAAAA
* *
15370700 CTGTAACATTTATATAAAGGATAAAGCCAATCTGGCATCTTAATGCAAAATGTTTTTGGAAATAG
1 CTGTAACATTTATATAAAGGATAAAGCCAATCTGGCATCTTAAAGCAAAATGTTTTTGGAAATAA
15370765 TCTTCGATAAAAATTAAAAAAATTAAAAAATCCTGTGCCTATTGGT
66 TCTTCGATAAAAATTAAAAAAATTAAAAAATCCTGTGCCTATTGGT
*
15370811 CTGTAGCATTTATATAAAGGATTAAA-CCAATCTGGCATCTTAAAGCAAAATGTTTTTGGAAATA
1 CTGTAACATTTATATAAAGGA-TAAAGCCAATCTGGCATCTTAAAGCAAAATGTTTTTGGAAATA
* *
15370875 ATCTTCGATAAAAATTAGAAAATTTAAAAAATCCTGTGCCTATTGGT
65 ATCTTCGATAAAAATTAAAAAAATTAAAAAATCCTGTGCCTATTGGT
15370922 ATGATTAAAA
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
111 101 0.96
112 4 0.04
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (111 bp):
CTGTAACATTTATATAAAGGATAAAGCCAATCTGGCATCTTAAAGCAAAATGTTTTTGGAAATAA
TCTTCGATAAAAATTAAAAAAATTAAAAAATCCTGTGCCTATTGGT
Found at i:15381635 original size:12 final size:13
Alignment explanation
Indices: 15381601--15381639 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
15381591 AAAATAATTC
*
15381601 ATTAAATATATGT
1 ATTAAATTTATGT
15381614 ATTAAAATTTATG-
1 ATT-AAATTTATGT
15381627 ATTAAATTTATGT
1 ATTAAATTTATGT
15381640 TCAAAAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 9 0.39
13 6 0.26
14 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (13 bp):
ATTAAATTTATGT
Found at i:15384058 original size:17 final size:17
Alignment explanation
Indices: 15384025--15384058 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15384015 TACAAACTAA
* *
15384025 CAACATGAAGTATAAGG
1 CAACATGAAGCACAAGG
15384042 CAACATGAAGCACAAGG
1 CAACATGAAGCACAAGG
15384059 ACACATAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.12
Consensus pattern (17 bp):
CAACATGAAGCACAAGG
Found at i:15386095 original size:21 final size:21
Alignment explanation
Indices: 15386064--15386106 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
15386054 TTTTCAATGC
15386064 ATAAAAAATTATC-AAATATT
1 ATAAAAAATTATCAAAATATT
15386084 ATAAAAATATTATCTAAAATATT
1 ATAAAAA-ATTATC-AAAATATT
15386107 TCGTGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
23 7 0.35
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
ATAAAAAATTATCAAAATATT
Found at i:15386579 original size:16 final size:16
Alignment explanation
Indices: 15386560--15386592 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15386550 TATTTGATCC
15386560 GAGTTAGATTTTAAGA
1 GAGTTAGATTTTAAGA
*
15386576 GAGTTGGATTTTAAGA
1 GAGTTAGATTTTAAGA
15386592 G
1 G
15386593 CTTCACAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.36
Consensus pattern (16 bp):
GAGTTAGATTTTAAGA
Found at i:15387412 original size:23 final size:23
Alignment explanation
Indices: 15387382--15387429 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
15387372 TGAAAAAAAA
*
15387382 ATAGAAGAAACTTAAATAATTTT
1 ATAGAAGAAACTTAAATAATGTT
15387405 ATAGAAGAAACTTAAATAATGTT
1 ATAGAAGAAACTTAAATAATGTT
15387428 AT
1 AT
15387430 TTAAAAGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.33
Consensus pattern (23 bp):
ATAGAAGAAACTTAAATAATGTT
Found at i:15390551 original size:19 final size:18
Alignment explanation
Indices: 15390509--15390553 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
15390499 AAAGCGACCC
*
15390509 AAAATAAGTAGAAATAGA
1 AAAATAAGTAGAAAAAGA
*
15390527 AGAAATGAGTAGAAAAAAGA
1 A-AAATAAGTAG-AAAAAGA
15390547 AAAATAA
1 AAAATAA
15390554 AAAGGGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 1 0.05
19 14 0.64
20 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (18 bp):
AAAATAAGTAGAAAAAGA
Found at i:15391326 original size:124 final size:125
Alignment explanation
Indices: 15391174--15391401 Score: 293
Period size: 124 Copynumber: 1.8 Consensus size: 125
15391164 ATTCAAGGTA
* * *
15391174 TTTTTGGCTAAAAACACCTTGAATAATCCTCGCAT-AAAAATTGAA-AGAGATTATTGAAG-GCT
1 TTTTTGGCTAAAAACACCTTGAATAATCC-CGAATAAAAAATTGAAGAGA-ATTATTCAAGAGAT
* * *
15391236 TTTTGGTCAGAAACGCCTTGAATAACCTCATTCAATTTTTTATAAAGGATTGTTTAAGGCAT
64 TTTTGGTCAAAAACACCTTGAATAACCCCATTCAATTTTTTATAAAGGATTGTTTAAGGCAT
* * * *
15391298 TTTTTAGGC-AAAAACGCCTTGAATAATCCCTAATAAAAAATTGAAGGGAATTATTCAAGATATT
1 TTTTT-GGCTAAAAACACCTTGAATAATCCCGAATAAAAAATTGAAGAGAATTATTCAAGAGATT
* *
15391362 TTTTGTCAAAAATACCTTGAATAACCCCATTCAATTTTTT
65 TTTGGTCAAAAACACCTTGAATAACCCCATTCAATTTTTT
15391402 GTAAGAGATT
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
123 3 0.03
124 43 0.49
125 42 0.48
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (125 bp):
TTTTTGGCTAAAAACACCTTGAATAATCCCGAATAAAAAATTGAAGAGAATTATTCAAGAGATTT
TTGGTCAAAAACACCTTGAATAACCCCATTCAATTTTTTATAAAGGATTGTTTAAGGCAT
Found at i:15391414 original size:186 final size:185
Alignment explanation
Indices: 15390994--15391385 Score: 443
Period size: 184 Copynumber: 2.1 Consensus size: 185
15390984 GTTGTTGGTG
* ** * ** *
15390994 AAAAATACCTTGAATAATCCTTTCATAAAAATTGAAGGGATTTGATTATTCAAGGTATTTTTAG-
1 AAAAACACCTTGAATAATCCTCGCATAAAAATTGAA-AGA---GATTATTCAAGGCGTTTTTGGT
* * *
15391058 CTAGAAACTCCTTGGATAACCTCATTCAATTTTTTATAAAGGATTATTCAATGTGTTTCTAACCA
62 C-AGAAACGCCTTGAATAACCTCATTCAATTTTTTATAAAGGATTATTCAAGGTGTTTCTAACCA
* *
15391123 AAAACGCCTTAAATAATCCAAAAAAAAAATGGTAGGAGATTATTCAAGGTATTTTTGGCT
126 AAAACGCCTTAAATAATCCAAAAAAAAAATGGAAGGAGATTATTCAAGATATTTTTGGCT
*
15391183 AAAAACACCTTGAATAATCCTCGCATAAAAATTGAAAGAGATTATTGAAGGC-TTTTTGGTCAGA
1 AAAAACACCTTGAATAATCCTCGCATAAAAATTGAAAGAGATTATTCAAGGCGTTTTTGGTCAGA
* * * **
15391247 AACGCCTTGAATAACCTCATTCAATTTTTTATAAAGGATTGTTTAAGGCAT-TTTTTAGGCAAAA
66 AACGCCTTGAATAACCTCATTCAATTTTTTATAAAGGATTATTCAAGG--TGTTTCTAACCAAAA
* * * * *
15391311 ACGCCTTGAATAATCCCTAATAAAAAATTGAAGG-GAATTATTCAAGATATTTTTTG-T
129 ACGCCTTAAATAAT-CCAAAAAAAAAATGGAAGGAG-ATTATTCAAGATATTTTTGGCT
*
15391368 CAAAAATACCTTGAATAA
1 -AAAAACACCTTGAATAA
15391386 CCCCATTCAA
Statistics
Matches: 174, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
184 52 0.30
185 37 0.21
186 50 0.29
188 2 0.01
189 33 0.19
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (185 bp):
AAAAACACCTTGAATAATCCTCGCATAAAAATTGAAAGAGATTATTCAAGGCGTTTTTGGTCAGA
AACGCCTTGAATAACCTCATTCAATTTTTTATAAAGGATTATTCAAGGTGTTTCTAACCAAAAAC
GCCTTAAATAATCCAAAAAAAAAATGGAAGGAGATTATTCAAGATATTTTTGGCT
Found at i:15391426 original size:62 final size:62
Alignment explanation
Indices: 15391218--15391435 Score: 174
Period size: 62 Copynumber: 3.5 Consensus size: 62
15391208 TAAAAATTGA
* * * * *
15391218 AAGAGATTATTGAAGGC-TTTTTGGTCAGAAACGCCTTGAATAACCTCATTCAATTTTTTAT
1 AAGAGATTATTCAAGGCATTTTTTGTCAAAAACGCCTTGAATAACCCCATTCAATTTTTTGT
* * * * * ****
15391279 AA-AGGATTGTTTAAGGCATTTTTTAGGCAAAAACGCCTTGAATAATCCCTAAT-AAAAAATTG-
1 AAGA-GATTATTCAAGGCATTTTTT-GTCAAAAACGCCTTGAATAA-CCCCATTCAATTTTTTGT
* ** **
15391341 AAGGGAATTATTCAAGATATTTTTTGTCAAAAATACCTTGAATAACCCCATTCAATTTTTTGT
1 AAGAG-ATTATTCAAGGCATTTTTTGTCAAAAACGCCTTGAATAACCCCATTCAATTTTTTGT
*
15391404 AAGAGATTATTCAAGGCGTTTTTCATGTCAAA
1 AAGAGATTATTCAAGGCATTTTT--TGTCAAA
15391436 TGCTATATGT
Statistics
Matches: 116, Mismatches: 31, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
60 1 0.01
61 18 0.16
62 45 0.39
63 41 0.35
64 11 0.09
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (62 bp):
AAGAGATTATTCAAGGCATTTTTTGTCAAAAACGCCTTGAATAACCCCATTCAATTTTTTGT
Found at i:15420101 original size:90 final size:90
Alignment explanation
Indices: 15419948--15420126 Score: 254
Period size: 90 Copynumber: 2.0 Consensus size: 90
15419938 TTTTAACCAC
* * * * *
15419948 AAAAATACAAGTGTGATCGTTAGTGGTTGCAGTTGAAACTTCACAAATTGCATCCAAAGTGAAAG
1 AAAAATACAAGTATGATCCTTAATAGTTGCAGTTCAAACTTCACAAATTGCATCCAAAGTGAAAG
15420013 AAACATAATTATTTGTTAAATTATA
66 AAACATAATTATTTGTTAAATTATA
* *
15420038 AAAAATACAATTATGATCCTTAATAGTTGCAGTTCAAACTTCA-AGAA-TGACATCCGAAGTGAA
1 AAAAATACAAGTATGATCCTTAATAGTTGCAGTTCAAACTTCACA-AATTG-CATCCAAAGTGAA
*
15420101 AGAAATATAATTATTTGTTAAATTAT
64 AGAAACATAATTATTTGTTAAATTAT
15420127 GCAAGCAAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
89 3 0.04
90 76 0.96
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (90 bp):
AAAAATACAAGTATGATCCTTAATAGTTGCAGTTCAAACTTCACAAATTGCATCCAAAGTGAAAG
AAACATAATTATTTGTTAAATTATA
Found at i:15422543 original size:18 final size:19
Alignment explanation
Indices: 15422522--15422563 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
15422512 TGAAAACTTA
*
15422522 AAAAATTCAATAAATC-TC
1 AAAAATTCAATAAAACATC
* *
15422540 AAAATTTTAATAAAACATC
1 AAAAATTCAATAAAACATC
15422559 AAAAA
1 AAAAA
15422564 AATTTTGAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAATTCAATAAAACATC
Found at i:15424165 original size:15 final size:16
Alignment explanation
Indices: 15424147--15424181 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
15424137 TTTAAATTAT
15424147 ATAATTTTA-TAAAAA
1 ATAATTTTATTAAAAA
*
15424162 ATAATTTTATTAATAA
1 ATAATTTTATTAAAAA
15424178 ATAA
1 ATAA
15424182 ATTATTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATAATTTTATTAAAAA
Found at i:15424963 original size:13 final size:13
Alignment explanation
Indices: 15424945--15424970 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15424935 TATTATTATT
15424945 CATGATGGTGGCC
1 CATGATGGTGGCC
15424958 CATGATGGTGGCC
1 CATGATGGTGGCC
15424971 TGTGGGGTGC
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:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (13 bp):
CATGATGGTGGCC
Found at i:15426846 original size:27 final size:25
Alignment explanation
Indices: 15426813--15426864 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
15426803 ATAATAAAAA
15426813 ATTTTAATTTATCCATTTATATT-CTTT
1 ATTTTAATTT-T-CATTTA-ATTACTTT
15426840 ATTTTAATTTTCATTTAATTACTTT
1 ATTTTAATTTTCATTTAATTACTTT
15426865 TAATAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 3 0.12
25 10 0.42
26 1 0.04
27 10 0.42
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (25 bp):
ATTTTAATTTTCATTTAATTACTTT
Found at i:15429133 original size:12 final size:12
Alignment explanation
Indices: 15429116--15429141 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15429106 AATAGTGACG
15429116 TTTTAATAAAAA
1 TTTTAATAAAAA
15429128 TTTTAATAAAAA
1 TTTTAATAAAAA
15429140 TT
1 TT
15429142 AAATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTTAATAAAAA
Found at i:15429184 original size:30 final size:28
Alignment explanation
Indices: 15429130--15429188 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 28
15429120 AATAAAAATT
*
15429130 TTAATAAAAATTAAATATATATTTTATA
1 TTAATAAAAATTAAATACATATTTTATA
*
15429158 TTAATATAAATTATAATACATAATTTTATA
1 TTAATAAAAATTA-AATACAT-ATTTTATA
15429188 T
1 T
15429189 AAAATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 12 0.44
29 6 0.22
30 9 0.33
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TTAATAAAAATTAAATACATATTTTATA
Found at i:15430411 original size:22 final size:22
Alignment explanation
Indices: 15430373--15430428 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
15430363 TTTTTTTTGG
*
15430373 TAAAATTTT-TTTGATAA-AATA
1 TAAAATTTTAATTGATAATAA-A
15430394 TTAAAATTTTAATT-ATAATAAA
1 -TAAAATTTTAATTGATAATAAA
*
15430416 TGAAATTTTAATT
1 TAAAATTTTAATT
15430429 TTTAATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 12 0.40
22 14 0.47
23 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
TAAAATTTTAATTGATAATAAA
Found at i:15440260 original size:21 final size:21
Alignment explanation
Indices: 15440236--15440291 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 21
15440226 AAAAATAACT
15440236 AAATAACATAAATAAATATAA
1 AAATAACATAAATAAATATAA
* *
15440257 AAATAA-AGAAA-AAAAATAA
1 AAATAACATAAATAAATATAA
15440276 AAA-ATAC-TAAATAAAT
1 AAATA-ACATAAATAAAT
15440292 TAGGCTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
18 1 0.04
19 14 0.50
20 7 0.25
21 6 0.21
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (21 bp):
AAATAACATAAATAAATATAA
Found at i:15441367 original size:20 final size:20
Alignment explanation
Indices: 15441320--15441373 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
15441310 AATTCTCGAC
15441320 TTGAAGTTCAAAAGTTCGCAA
1 TTGAA-TTCAAAAGTTCGCAA
* *
15441341 TTAAATTC-AAAGTTCTCAA
1 TTGAATTCAAAAGTTCGCAA
*
15441360 TTTGAATTTAAAAG
1 -TTGAATTCAAAAG
15441374 CTTGCAAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 10 0.37
20 9 0.33
21 8 0.30
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (20 bp):
TTGAATTCAAAAGTTCGCAA
Found at i:15441479 original size:17 final size:18
Alignment explanation
Indices: 15441436--15441527 Score: 80
Period size: 17 Copynumber: 5.2 Consensus size: 18
15441426 GAATTGAAAA
* *
15441436 ATTCACAAAAG-TTTAAG
1 ATTCATAAAAGATTCAAG
* * *
15441453 GTTCACAAAATATTCAAG
1 ATTCATAAAAGATTCAAG
*
15441471 ATTC-TAAAAAATTCAAG
1 ATTCATAAAAGATTCAAG
** *
15441488 ATTCGCAAAAGATTCAAAA
1 ATTCATAAAAGATTC-AAG
15441507 ATTCATAAAAGATTCAAG
1 ATTCATAAAAGATTCAAG
15441525 ATT
1 ATT
15441528 TGCAAAGATT
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
17 24 0.40
18 21 0.35
19 15 0.25
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (18 bp):
ATTCATAAAAGATTCAAG
Found at i:15441497 original size:18 final size:18
Alignment explanation
Indices: 15441436--15441565 Score: 95
Period size: 18 Copynumber: 7.2 Consensus size: 18
15441426 GAATTGAAAA
* *
15441436 ATTCACAAAAG-TTTAAG
1 ATTCGCAAAAGATTCAAG
* * *
15441453 GTTCACAAAATATTCAAG
1 ATTCGCAAAAGATTCAAG
* *
15441471 ATTC-TAAAAAATTCAAG
1 ATTCGCAAAAGATTCAAG
*
15441488 ATTCGCAAAAGATTCAAAA
1 ATTCGCAAAAGATTC-AAG
**
15441507 ATTCATAAAAGATTCAAG
1 ATTCGCAAAAGATTCAAG
* *
15441525 ATTTGC-AAAGATTTAAAG
1 ATTCGCAAAAGA-TTCAAG
*
15441543 ATTTGCAAAAGATTCAAAG
1 ATTCGCAAAAGATTC-AAG
15441562 ATTC
1 ATTC
15441566 AAAAATTTGT
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
17 29 0.33
18 34 0.38
19 26 0.29
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (18 bp):
ATTCGCAAAAGATTCAAG
Found at i:15441551 original size:55 final size:53
Alignment explanation
Indices: 15441485--15441647 Score: 186
Period size: 55 Copynumber: 3.0 Consensus size: 53
15441475 TAAAAAATTC
* *
15441485 AAGATTCGCAAAAGATTCAAAAATTCATAAAAGATTCAAGATTTGCAAAGATTTA
1 AAGATTCGCAAAAGATTCAAAGATTCATAAAA-ATTAAAGATTT-CAAAGATTTA
* * *
15441540 AAGATTTGCAAAAGATTCAAAGATTCA-AAAATTTGTAAAAGATTTCAAAGATTCA
1 AAGATTCGCAAAAGATTCAAAGATTCATAAAA-AT-T-AAAGATTTCAAAGATTTA
* *
15441595 AATATTCGCAAAAGATTTCAAAGATTCGTAAAAATTTAAAGA-TTCAAAGATTT
1 AAGATTCGCAAAAGA-TTCAAAGATTCATAAAAA-TTAAAGATTTCAAAGATTT
15441648 GTAAATTATT
Statistics
Matches: 92, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
54 15 0.16
55 53 0.58
56 19 0.21
57 5 0.05
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.29
Consensus pattern (53 bp):
AAGATTCGCAAAAGATTCAAAGATTCATAAAAATTAAAGATTTCAAAGATTTA
Found at i:15441555 original size:19 final size:19
Alignment explanation
Indices: 15441485--15441639 Score: 110
Period size: 19 Copynumber: 8.4 Consensus size: 19
15441475 TAAAAAATTC
*
15441485 AAGATTCGCAAAAGATTCA
1 AAGATTCGCAAAAGATTTA
* ** *
15441504 AAAATTCATAAAAGA-TTC
1 AAGATTCGCAAAAGATTTA
*
15441522 AAGATTTGC-AAAGATTTA
1 AAGATTCGCAAAAGATTTA
* *
15441540 AAGATTTGCAAAAGATTCA
1 AAGATTCGCAAAAGATTTA
15441559 AAGATT--CAAAA-ATTTGTAA
1 AAGATTCGCAAAAGA-TT-T-A
* *
15441578 AAGATT-TC-AAAGATTCA
1 AAGATTCGCAAAAGATTTA
*
15441595 AATATTCGCAAAAGATTTCA
1 AAGATTCGCAAAAGATTT-A
*
15441615 AAGATTCGTAAAA-ATTTA
1 AAGATTCGCAAAAGATTTA
15441633 AAGATTC
1 AAGATTC
15441640 AAAGATTTGT
Statistics
Matches: 108, Mismatches: 18, Indels: 21
0.73 0.12 0.14
Matches are distributed among these distances:
16 1 0.01
17 18 0.17
18 26 0.24
19 49 0.45
20 14 0.13
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.29
Consensus pattern (19 bp):
AAGATTCGCAAAAGATTTA
Found at i:15441563 original size:27 final size:28
Alignment explanation
Indices: 15441522--15441677 Score: 137
Period size: 28 Copynumber: 5.6 Consensus size: 28
15441512 TAAAAGATTC
*
15441522 AAGATTTGCAAAGATTTAAAGATTTGCAA
1 AAGATTT-CAAAGATTTAAAAATTTGCAA
* *
15441551 AAGA-TTCAAAGATTCAAAAATTTGTAA
1 AAGATTTCAAAGATTTAAAAATTTGCAA
* * *
15441578 AAGATTTCAAAGATTCAAATATTCGCAA
1 AAGATTTCAAAGATTTAAAAATTTGCAA
15441606 AAGATTTCAAAGATTCGTAAAAATTT---A
1 AAGATTTCAAAGATT--TAAAAATTTGCAA
** *
15441633 AAGA-TTCAAAGATTTGTAAATTATTC--
1 AAGATTTCAAAGATTTAAAAATT-TGCAA
15441659 AAGATTTGCAAAGATTTAA
1 AAGATTT-CAAAGATTTAA
15441678 GATTCAAAGA
Statistics
Matches: 106, Mismatches: 13, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
24 6 0.06
25 1 0.01
26 14 0.13
27 29 0.27
28 46 0.43
29 4 0.04
30 6 0.06
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (28 bp):
AAGATTTCAAAGATTTAAAAATTTGCAA
Found at i:15441595 original size:28 final size:28
Alignment explanation
Indices: 15441522--15441646 Score: 143
Period size: 28 Copynumber: 4.5 Consensus size: 28
15441512 TAAAAGATTC
* *
15441522 AAGATTTGCAAAGATTTAAAGATTTGCAA
1 AAGATTT-CAAAGATTCAAAAATTTGCAA
*
15441551 AAGA-TTCAAAGATTCAAAAATTTGTAA
1 AAGATTTCAAAGATTCAAAAATTTGCAA
* *
15441578 AAGATTTCAAAGATTCAAATATTCGCAA
1 AAGATTTCAAAGATTCAAAAATTTGCAA
15441606 AAGATTTCAAAGATTCGTAAAAATTT---A
1 AAGATTTCAAAGATTC--AAAAATTTGCAA
15441633 AAGA-TTCAAAGATT
1 AAGATTTCAAAGATT
15441647 TGTAAATTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
26 10 0.12
27 27 0.32
28 38 0.45
29 4 0.05
30 6 0.07
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (28 bp):
AAGATTTCAAAGATTCAAAAATTTGCAA
Found at i:15441662 original size:26 final size:27
Alignment explanation
Indices: 15441605--15441675 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 27
15441595 AATATTCGCA
*
15441605 AAAGATTTCAAAGATTCGTAAAAATTT
1 AAAGATTTCAAAGATTTGTAAAAATTT
*
15441632 AAAGA-TTCAAAGATTTGT-AAATTATT
1 AAAGATTTCAAAGATTTGTAAAAAT-TT
*
15441658 CAAGATTTGCAAAGATTT
1 AAAGATTT-CAAAGATTT
15441676 AAGATTCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 4 0.11
26 18 0.47
27 7 0.18
28 9 0.24
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAGATTTCAAAGATTTGTAAAAATTT
Found at i:15441689 original size:8 final size:8
Alignment explanation
Indices: 15441495--15441691 Score: 76
Period size: 8 Copynumber: 22.1 Consensus size: 8
15441485 AAGATTCGCA
15441495 AAAGATTC
1 AAAGATTC
*
15441503 AAAAATTC
1 AAAGATTC
15441511 ATAAAAGATTC
1 ---AAAGATTC
15441522 -AAGATTTGC
1 AAAGA-TT-C
*
15441531 AAAGATTT
1 AAAGATTC
15441539 AAAGATTTGC
1 AAAGA-TT-C
15441549 AAAAGATTC
1 -AAAGATTC
15441558 AAAGATTC
1 AAAGATTC
* *
15441566 AAAAATTTGTA
1 AAAGA--T-TC
15441577 AAAGATTTC
1 AAAGA-TTC
15441586 AAAGATTC
1 AAAGATTC
*
15441594 AAATATTCGC
1 AAAGATT--C
15441604 AAAAGATTTC
1 -AAAGA-TTC
15441614 AAAGATTC
1 AAAGATTC
* *
15441622 GTAAAAATTT
1 --AAAGATTC
15441632 AAAGATTC
1 AAAGATTC
*
15441640 AAAGATTTGT
1 AAAGA-TT-C
*
15441650 AAATTATTC
1 AAA-GATTC
15441659 -AAGATTTGC
1 AAAGA-TT-C
15441668 AAAGATT-
1 AAAGATTC
*
15441675 TAAGATTC
1 AAAGATTC
15441683 AAAGATTC
1 AAAGATTC
15441691 A
1 A
15441692 CAAGTTATTC
Statistics
Matches: 144, Mismatches: 20, Indels: 50
0.67 0.09 0.23
Matches are distributed among these distances:
7 11 0.08
8 61 0.42
9 22 0.15
10 26 0.18
11 22 0.15
12 2 0.01
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (8 bp):
AAAGATTC
Found at i:15441786 original size:26 final size:27
Alignment explanation
Indices: 15441740--15441796 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
15441730 TTTACTAGTC
* *
15441740 ATTC-AAGATTTCGTAAAGATT-TAAG
1 ATTCAAAGATTTCGCAAAGATTCAAAG
15441765 ATTCAAAGATTT-GCAAATGATTCAAAG
1 ATTCAAAGATTTCGCAAA-GATTCAAAG
15441792 ATTCA
1 ATTCA
15441797 CAATTGAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 8 0.30
26 11 0.41
27 8 0.30
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (27 bp):
ATTCAAAGATTTCGCAAAGATTCAAAG
Found at i:15441853 original size:42 final size:43
Alignment explanation
Indices: 15441783--15441892 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 43
15441773 ATTTGCAAAT
* *
15441783 GATTCAAAGATTCACAATT-GAAACTCTTAAAGATTCAAATCCAA
1 GATT-AAAGGTTCAC-ATTCGAAAATCTTAAAGATTCAAATCCAA
* * *
15441827 GATT-AAGGTTCTCATTCGAAAATCTTAAAGATTCACATCTAA
1 GATTAAAGGTTCACATTCGAAAATCTTAAAGATTCAAATCCAA
*
15441869 GATTCAAAGGTTCACATTCAAAAA
1 GATT-AAAGGTTCACATTCGAAAA
15441893 AATTTTAAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 3 0.05
42 33 0.59
44 20 0.36
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (43 bp):
GATTAAAGGTTCACATTCGAAAATCTTAAAGATTCAAATCCAA
Found at i:15442179 original size:21 final size:21
Alignment explanation
Indices: 15442154--15442206 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
15442144 ATAATTTTTT
* *
15442154 AAGATTCGCATAAAGGATTTA
1 AAGATTCACATAAAGGATTCA
*
15442175 AAGATTCACATCAAGGATTCA
1 AAGATTCACATAAAGGATTCA
*
15442196 AATATTCACAT
1 AAGATTCACAT
15442207 TTGAAAATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (21 bp):
AAGATTCACATAAAGGATTCA
Found at i:15442714 original size:15 final size:15
Alignment explanation
Indices: 15442696--15442754 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
15442686 ACATGAGTGT
15442696 AATGTTTATGAATGC
1 AATGTTTATGAATGC
* *
15442711 AATG--CA-GAAAGC
1 AATGTTTATGAATGC
15442723 AATGTTTATGAATGC
1 AATGTTTATGAATGC
* *
15442738 AATGTTAAAGAATGC
1 AATGTTTATGAATGC
15442753 AA
1 AA
15442755 CTCTAATTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 9 0.26
13 1 0.03
14 1 0.03
15 24 0.69
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.29
Consensus pattern (15 bp):
AATGTTTATGAATGC
Found at i:15443614 original size:19 final size:19
Alignment explanation
Indices: 15443563--15443617 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 19
15443553 TTCCTTTTTC
15443563 CTTATTTTTCTTTT--TTT
1 CTTATTTTTCTTTTCATTT
* *
15443580 CATATATTTC---TCATTT
1 CTTATTTTTCTTTTCATTT
15443596 CTTATTTTTCTTTTCATTT
1 CTTATTTTTCTTTTCATTT
15443615 CTT
1 CTT
15443618 TTTCACTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 1 0.03
16 11 0.38
17 8 0.28
19 9 0.31
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (19 bp):
CTTATTTTTCTTTTCATTT
Found at i:15444661 original size:2 final size:2
Alignment explanation
Indices: 15444654--15444680 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15444644 TGAAATCCTA
15444654 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
15444681 AGAAACCTTA
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:15446664 original size:29 final size:29
Alignment explanation
Indices: 15446625--15446688 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
15446615 TGCATGGATG
*
15446625 AATAC-ATATGTTAGTGATGCTAGATTAA
1 AATACAATATGTTAGTGATGCTAAATTAA
15446653 AATACAATATGTTAGTGATGCTAAATTAA
1 AATACAATATGTTAGTGATGCTAAATTAA
15446682 AATACAA
1 AATACAA
15446689 CACGCAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 5 0.15
29 29 0.85
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (29 bp):
AATACAATATGTTAGTGATGCTAAATTAA
Found at i:15450222 original size:10 final size:11
Alignment explanation
Indices: 15450207--15450239 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
15450197 TCTTTCTCTC
15450207 TTGATT-TTTT
1 TTGATTGTTTT
*
15450217 TTGATTGATTT
1 TTGATTGTTTT
15450228 TTGATTGTTTT
1 TTGATTGTTTT
15450239 T
1 T
15450240 AATTAATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.73
Consensus pattern (11 bp):
TTGATTGTTTT
Found at i:15455315 original size:4 final size:4
Alignment explanation
Indices: 15455306--15455332 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15455296 ATGCTTCTTT
15455306 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
15455333 TTTCATTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:15463725 original size:17 final size:18
Alignment explanation
Indices: 15463703--15463736 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15463693 AATATAATAC
*
15463703 TTAAA-TTATTATTTAAA
1 TTAAATTTATTAATTAAA
15463720 TTAAATTTATTAATTAA
1 TTAAATTTATTAATTAA
15463737 TCTAATACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAAATTTATTAATTAAA
Found at i:15463731 original size:18 final size:17
Alignment explanation
Indices: 15463672--15463736 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 17
15463662 ATGCTAAGTG
*
15463672 ATTAATTATAA-TAAAGT
1 ATTAATTA-AATTAAATT
15463689 ATTTAATATAATACTTAAATT
1 A-TTAAT-TAA-A-TTAAATT
*
15463710 ATTATTTAAATTAAATTT
1 ATTAATTAAATTAAA-TT
15463728 ATTAATTAA
1 ATTAATTAA
15463737 TCTAATACTT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
17 6 0.15
18 17 0.44
19 6 0.15
20 4 0.10
21 6 0.15
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
ATTAATTAAATTAAATT
Done.