Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 64 of 117
Found at i:11809824 original size:2 final size:2
Alignment explanation
Indices: 11809817--11809847 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
11809807 AAAACATGTA
11809817 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11809848 TTGAAGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:11810087 original size:24 final size:24
Alignment explanation
Indices: 11810042--11810087 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11810032 TGATTTATTA
* *
11810042 ATAATATATAACATTTATATATCG
1 ATAATATATAACATATAAATATCG
11810066 ATAATATATCAA-ATATAAATAT
1 ATAATATAT-AACATATAAATAT
11810088 AAAAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (24 bp):
ATAATATATAACATATAAATATCG
Found at i:11814302 original size:9 final size:9
Alignment explanation
Indices: 11814288--11814312 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11814278 TCATATGATA
11814288 AAATAAAAT
1 AAATAAAAT
11814297 AAATAAAAT
1 AAATAAAAT
11814306 AAATAAA
1 AAATAAA
11814313 TTTTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:11817675 original size:15 final size:16
Alignment explanation
Indices: 11817650--11817679 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11817640 TAAGACCATC
11817650 TCAAGAGTGAAGCATT
1 TCAAGAGTGAAGCATT
11817666 TCAA-AGTGAAGCAT
1 TCAAGAGTGAAGCAT
11817680 GGTACCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (16 bp):
TCAAGAGTGAAGCATT
Found at i:11821918 original size:24 final size:25
Alignment explanation
Indices: 11821886--11821937 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
11821876 AATGACAACA
*
11821886 TATTGAATATTTAT-TATTTGAATT
1 TATTGAATATTTATATATTTAAATT
*
11821910 TATTTAATATTTATAATATTTAAATT
1 TATTGAATATTTAT-ATATTTAAATT
11821936 TA
1 TA
11821938 AATATATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.54
26 11 0.46
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (25 bp):
TATTGAATATTTATATATTTAAATT
Found at i:11821931 original size:16 final size:16
Alignment explanation
Indices: 11821910--11821973 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
11821900 TATTTGAATT
*
11821910 TATTTAATATTTATA-A
1 TATTTAA-ATTTAAATA
11821926 TATTTAAATTTAAATA
1 TATTTAAATTTAAATA
**
11821942 TATTTAAATAAAAAT-
1 TATTTAAATTTAAATA
11821957 TATTT--ATTTAAATA
1 TATTTAAATTTAAATA
11821971 TAT
1 TAT
11821974 GAATTTGTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
13 6 0.15
14 3 0.07
15 11 0.27
16 21 0.51
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTTAAATTTAAATA
Found at i:11825142 original size:24 final size:25
Alignment explanation
Indices: 11825115--11825173 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
11825105 TATTTTTTCA
* *
11825115 AAAAATATTGAAATGATTT-TTATT
1 AAAAATATTAAAATGATTTATAATT
* *
11825139 -AAAATATCAAAATTATTTATAATT
1 AAAAATATTAAAATGATTTATAATT
11825163 AAAAATATTAA
1 AAAAATATTAA
11825174 CATTTAAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 15 0.54
24 4 0.14
25 9 0.32
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (25 bp):
AAAAATATTAAAATGATTTATAATT
Found at i:11827409 original size:2 final size:2
Alignment explanation
Indices: 11827402--11827441 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
11827392 CAGTATATGG
* *
11827402 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11827442 GGTAAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:11833085 original size:19 final size:20
Alignment explanation
Indices: 11833032--11833086 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 20
11833022 TATTTATTTA
11833032 TCATTTTTTATTTTTAGCAT
1 TCATTTTTTATTTTTAGCAT
*
11833052 T-ATTTTTCTTTTTTTTA-C-T
1 TCA-TTTT-TTATTTTTAGCAT
11833071 TCATTTTTTACTTTTT
1 TCATTTTTTA-TTTTT
11833087 TTATTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
18 2 0.07
19 12 0.41
20 7 0.24
21 8 0.28
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.73
Consensus pattern (20 bp):
TCATTTTTTATTTTTAGCAT
Found at i:11833199 original size:15 final size:15
Alignment explanation
Indices: 11833175--11833229 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
11833165 AAATAGGTTA
11833175 AAAATAAAATCAAAT
1 AAAATAAAATCAAAT
*
11833190 AAAATCAAATCAAA-
1 AAAATAAAATCAAAT
* *
11833204 AAATTAAAATAAAAAT
1 AAAATAAAAT-CAAAT
11833220 AAAATGAAAA
1 AAAAT-AAAA
11833230 AAAAATTACG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 8 0.25
15 16 0.50
16 4 0.12
17 4 0.12
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAATAAAATCAAAT
Found at i:11833216 original size:5 final size:5
Alignment explanation
Indices: 11833175--11833235 Score: 52
Period size: 5 Copynumber: 12.0 Consensus size: 5
11833165 AAATAGGTTA
* * * *
11833175 AAAAT AAAAT CAAAT AAAAT CAAAT CAAA- AAATT AAAAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT
*
11833225 GAAAAA AAAAT
1 -AAAAT AAAAT
11833236 TACGATCAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
4 2 0.04
5 34 0.76
6 9 0.20
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:11833577 original size:12 final size:12
Alignment explanation
Indices: 11833562--11833589 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11833552 CTTCAAAAGG
11833562 TCATCGAAAAAT
1 TCATCGAAAAAT
11833574 TCATCGAAAAAT
1 TCATCGAAAAAT
11833586 TCAT
1 TCAT
11833590 ATTCTTCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (12 bp):
TCATCGAAAAAT
Found at i:11834075 original size:16 final size:14
Alignment explanation
Indices: 11834050--11834092 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
11834040 TTGAAACAAA
*
11834050 AAAAAAGAAAATAG
1 AAAAAGGAAAATAG
11834064 TAAAACAGGAAAATAG
1 -AAAA-AGGAAAATAG
11834080 AAAAAGGAAAATA
1 AAAAAGGAAAATA
11834093 ATAATAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.35
15 8 0.31
16 9 0.35
ACGTcount: A:0.72, C:0.02, G:0.16, T:0.09
Consensus pattern (14 bp):
AAAAAGGAAAATAG
Found at i:11834135 original size:3 final size:3
Alignment explanation
Indices: 11834129--11834186 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
11834119 GTAGTAGTAG
* *
11834129 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AG TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11834176 TAA TAA TAA TA
1 TAA TAA TAA TA
11834187 GACAAGCTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 1 0.02
3 49 0.98
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11834269 original size:26 final size:26
Alignment explanation
Indices: 11834204--11834270 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
11834194 TATCCACTTA
* *
11834204 GGCTCGAACCTAAATGGGCCCAACTG
1 GGCTCGAACCTCAATGGGCCAAACTG
* *
11834230 GGC-CTGAACATCAATGGGCCAAATTG
1 GGCTC-GAACCTCAATGGGCCAAACTG
*
11834256 GGCTCAAACCTCAAT
1 GGCTCGAACCTCAAT
11834271 AGGCTCGAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.03
26 31 0.94
27 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.24, T:0.18
Consensus pattern (26 bp):
GGCTCGAACCTCAATGGGCCAAACTG
Found at i:11834281 original size:16 final size:16
Alignment explanation
Indices: 11834256--11834290 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11834246 GGCCAAATTG
*
11834256 GGCTCAAACCTCAATA
1 GGCTCAAACCTCAACA
*
11834272 GGCTCGAACCTCAACA
1 GGCTCAAACCTCAACA
11834288 GGC
1 GGC
11834291 CCAGACACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.34, G:0.20, T:0.14
Consensus pattern (16 bp):
GGCTCAAACCTCAACA
Found at i:11835396 original size:19 final size:20
Alignment explanation
Indices: 11835356--11835512 Score: 101
Period size: 19 Copynumber: 8.2 Consensus size: 20
11835346 AGTTTATAGC
*
11835356 TTGACTTTGAGA-TTA-AGT
1 TTGACTTTGAGATTTAGGGT
11835374 TTGACTTT-AGATTTAGGGT
1 TTGACTTTGAGATTTAGGGT
* *
11835393 TTGACTTTGGGGTTTAGGGT
1 TTGACTTTGAGATTTAGGGT
* * * **
11835413 TTGATTTTGGGTTTTATAGT
1 TTGACTTTGAGATTTAGGGT
* *
11835433 TTGACTTT-AGATCTAGGGC
1 TTGACTTTGAGATTTAGGGT
* * *
11835452 TTGACTTTGGGTTTTAGGAT
1 TTGACTTTGAGATTTAGGGT
* * *
11835472 TTGA-TTTCAAATTTAGAGT
1 TTGACTTTGAGATTTAGGGT
* * *
11835491 TT-AGTTTAAGGTTTAGGGT
1 TTGACTTTGAGATTTAGGGT
11835510 TTG
1 TTG
11835513 GTTTAGGGTT
Statistics
Matches: 104, Mismatches: 29, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
17 3 0.03
18 12 0.12
19 47 0.45
20 42 0.40
ACGTcount: A:0.20, C:0.05, G:0.27, T:0.48
Consensus pattern (20 bp):
TTGACTTTGAGATTTAGGGT
Found at i:11835410 original size:20 final size:20
Alignment explanation
Indices: 11835372--11835475 Score: 95
Period size: 20 Copynumber: 5.3 Consensus size: 20
11835362 TTGAGATTAA
*
11835372 GTTTGACTTT-AGATTTAGG
1 GTTTGACTTTGGGATTTAGG
*
11835391 GTTTGACTTTGGGGTTTAGG
1 GTTTGACTTTGGGATTTAGG
* * **
11835411 GTTTGATTTTGGGTTTTATA
1 GTTTGACTTTGGGATTTAGG
* *
11835431 GTTTGACTTT-AGATCTAGG
1 GTTTGACTTTGGGATTTAGG
* *
11835450 GCTTGACTTTGGGTTTTAGG
1 GTTTGACTTTGGGATTTAGG
*
11835470 ATTTGA
1 GTTTGA
11835476 TTTCAAATTT
Statistics
Matches: 65, Mismatches: 18, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
19 23 0.35
20 42 0.65
ACGTcount: A:0.16, C:0.06, G:0.30, T:0.48
Consensus pattern (20 bp):
GTTTGACTTTGGGATTTAGG
Found at i:11835516 original size:19 final size:19
Alignment explanation
Indices: 11835483--11835529 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
11835473 TGATTTCAAA
11835483 TTTAGAGTTTAGTTTAAGG
1 TTTAGAGTTTAGTTTAAGG
* * *
11835502 TTTAGGGTTTGGTTTAGGG
1 TTTAGAGTTTAGTTTAAGG
*
11835521 TTTAAAGTT
1 TTTAGAGTT
11835530 AAGGTTTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (19 bp):
TTTAGAGTTTAGTTTAAGG
Found at i:11835588 original size:7 final size:7
Alignment explanation
Indices: 11835539--11835609 Score: 58
Period size: 7 Copynumber: 10.6 Consensus size: 7
11835529 TAAGGTTTCA
11835539 TTTAGGG
1 TTTAGGG
*
11835546 TATA-GG
1 TTTAGGG
*
11835552 TTT-TGG
1 TTTAGGG
*
11835558 TTTGGGG
1 TTTAGGG
*
11835565 TTTATGG
1 TTTAGGG
**
11835572 -TTAGAT
1 TTTAGGG
11835578 TTTAGGG
1 TTTAGGG
11835585 TTTAGGG
1 TTTAGGG
11835592 TTTAGGG
1 TTTAGGG
*
11835599 TTTAGGA
1 TTTAGGG
11835606 TTTA
1 TTTA
11835610 AACTAGGACT
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
6 12 0.24
7 38 0.76
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:11837279 original size:134 final size:135
Alignment explanation
Indices: 11837029--11837294 Score: 313
Period size: 134 Copynumber: 2.0 Consensus size: 135
11837019 AGCCAACCCA
* * * * * *
11837029 AAAGGCCCAATTACAAAAACGCATCTAAAGGGTATTTTGATAATTTCACTCATTTTGAGGTGCAA
1 AAAGGCCAAATCACAAAAACGCATCTAAAGGGCATTTTAATAACTTCACTCATTTTGAGGTACAA
* * * * * *
11837094 TCAGAATTTTTAAGGTATCAAAGTTCATAAAATAATATTTAAATATGATATGGAGTTTACATAAA
66 TCAGAATGTTTAAGGTATCAAAATTCATAAAATAATATTTAAACATAATATGAAATTTACATAAA
11837159 AACAT
131 AACAT
* * *
11837164 AAAGGCCAAATCACAAAAATGC-TCTTAAAGGGCATTTTAATAACTTCA-TCCTTTTGAGGTATA
1 AAAGGCCAAATCACAAAAACGCATC-TAAAGGGCATTTTAATAACTTCACTCATTTTGAGGTACA
* ** * *
11837227 ATCA-AGATGTTTAATGTATCAAAATTCATGCAATAATATTTAACCATAATATGAAATTTTCATA
65 ATCAGA-ATGTTTAAGGTATCAAAATTCATAAAATAATATTTAAACATAATATGAAATTTACATA
11837291 AAAA
129 AAAA
11837295 AATCAACCCA
Statistics
Matches: 109, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
133 1 0.01
134 69 0.63
135 39 0.36
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (135 bp):
AAAGGCCAAATCACAAAAACGCATCTAAAGGGCATTTTAATAACTTCACTCATTTTGAGGTACAA
TCAGAATGTTTAAGGTATCAAAATTCATAAAATAATATTTAAACATAATATGAAATTTACATAAA
AACAT
Found at i:11837517 original size:142 final size:141
Alignment explanation
Indices: 11837229--11837518 Score: 316
Period size: 142 Copynumber: 2.0 Consensus size: 141
11837219 GAGGTATAAT
* *
11837229 CAAGATGTTTAATGTATCAAAATTCATGCAATAATATTTAACCATAATATGAAATTTTCATAAAA
1 CAAGATGTTTAATGTATCAAAATTCATGCAATAATATTTAAACATAAGATGAAATTTTCA-AAAA
* * *
11837294 AAATCAACCCAAAAAAACCAAATTACAAAATTACCCCTAAACGATATTTTAGTAATTTAATCTTT
65 AAATCAACCCAAAAAAACCAAATTACAAAAATACCCCTAAAAGATATTTTAGTAATTTAATCTTC
*
11837359 TTGAAGTGCTAT
130 TTGAAGTGCTAA
* ** * **
11837371 CAAGATGTTTAATGTTTCAAAATTCATGCAATAATATTTAAACATGGGCT-AAAGTTTTTC-AGG
1 CAAGATGTTTAATGTATCAAAATTCATGCAATAATATTTAAACATAAGATGAAA--TTTTCAAAA
** ** * * * * *
11837434 AAAATCCAACCTTAAAAAATGAAATTATAAAAATATCCCTAAAAGGTATTTTTGTAATTTCACTC
64 AAAAT-CAACCCAAAAAAACCAAATTACAAAAATACCCCTAAAAGATATTTTAGTAATTT-AATC
*
11837499 TTCTTG-AGTTCTAA
127 TTCTTGAAGTGCTAA
11837513 CAAGAT
1 CAAGAT
11837519 TTTTGAGAAT
Statistics
Matches: 122, Mismatches: 22, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
141 9 0.07
142 100 0.82
143 13 0.11
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.34
Consensus pattern (141 bp):
CAAGATGTTTAATGTATCAAAATTCATGCAATAATATTTAAACATAAGATGAAATTTTCAAAAAA
AATCAACCCAAAAAAACCAAATTACAAAAATACCCCTAAAAGATATTTTAGTAATTTAATCTTCT
TGAAGTGCTAA
Found at i:11838703 original size:12 final size:12
Alignment explanation
Indices: 11838686--11838711 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11838676 AGGTTATTAG
11838686 TTACTACATGTC
1 TTACTACATGTC
11838698 TTACTACATGTC
1 TTACTACATGTC
11838710 TT
1 TT
11838712 TGCTTAATAG
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:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (12 bp):
TTACTACATGTC
Found at i:11840576 original size:30 final size:31
Alignment explanation
Indices: 11840540--11840597 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
11840530 CGTTTAACAA
11840540 CTACTACCAACTA-ATCCTAAAAACCAATGT
1 CTACTACCAACTATATCCTAAAAACCAATGT
11840570 CTACTACCAACTATATCCTAAAAACCAA
1 CTACTACCAACTATATCCTAAAAACCAA
11840598 GACATTGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.22
Consensus pattern (31 bp):
CTACTACCAACTATATCCTAAAAACCAATGT
Found at i:11847562 original size:28 final size:30
Alignment explanation
Indices: 11847506--11847574 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 30
11847496 TTATATTTAT
* *
11847506 TAAAATCAATAAAACTAAAAGTATAATAA-
1 TAAATTCAATAAAACTAAAAGTACAATAAC
*
11847535 TAAATTCAATAAAATTAAAA-TACAATAAC
1 TAAATTCAATAAAACTAAAAGTACAATAAC
*
11847564 AAAATTCAATA
1 TAAATTCAATA
11847575 TCAAACCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 7 0.20
29 28 0.80
ACGTcount: A:0.64, C:0.09, G:0.01, T:0.26
Consensus pattern (30 bp):
TAAATTCAATAAAACTAAAAGTACAATAAC
Found at i:11849528 original size:9 final size:9
Alignment explanation
Indices: 11849514--11849566 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 9
11849504 GTTAAGATTA
11849514 AAAAATTTT
1 AAAAATTTT
*
11849523 AAAAATTCTC
1 AAAAATT-TT
*
11849533 AAAAAATTT
1 AAAAATTTT
11849542 AAAATATTTT
1 AAAA-ATTTT
*
11849552 AAATATTTTT
1 AAA-AATTTT
11849562 AAAAA
1 AAAAA
11849567 AATTATAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 13 0.37
10 21 0.60
11 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAAATTTT
Found at i:11849733 original size:15 final size:15
Alignment explanation
Indices: 11849715--11849759 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
11849705 TGCAAAAGAA
11849715 AAAAATAAAAATTTT
1 AAAAATAAAAATTTT
* **
11849730 AAAATTAAAAATAAT
1 AAAAATAAAAATTTT
*
11849745 AAAAATATAAATTTT
1 AAAAATAAAAATTTT
11849760 TTAAAAAAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAATAAAAATTTT
Found at i:11849751 original size:30 final size:30
Alignment explanation
Indices: 11849680--11849759 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 30
11849670 ATGAAAATTT
* * *
11849680 TAATAAAACTAAAATTTTCTTAAAATGCAAAA
1 TAATAAAAATAAAA-ATT-TTAAAATGAAAAA
* *
11849712 GAA-AAAAATAAAAATTTTAAAATTAAAAA
1 TAATAAAAATAAAAATTTTAAAATGAAAAA
*
11849741 TAATAAAAATATAAATTTT
1 TAATAAAAATAAAAATTTT
11849760 TTAAAAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 13 0.32
30 16 0.40
31 9 0.22
32 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (30 bp):
TAATAAAAATAAAAATTTTAAAATGAAAAA
Found at i:11849950 original size:17 final size:17
Alignment explanation
Indices: 11849897--11849951 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
11849887 TTATTTGGAT
11849897 TTTTATTAATTTT--TAA
1 TTTT-TTAATTTTCATAA
*
11849913 TTTTTTAATATTCA-AA
1 TTTTTTAATTTTCATAA
11849929 CTTTTTTAATTTTCATAA
1 -TTTTTTAATTTTCATAA
11849947 TTTTT
1 TTTTT
11849952 AGCATATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
15 7 0.21
16 6 0.18
17 18 0.55
18 2 0.06
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTAATTTTCATAA
Found at i:11850012 original size:18 final size:18
Alignment explanation
Indices: 11849991--11850032 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11849981 TTATTTAGAA
11849991 ATTTTTAAAAATTTTAAG
1 ATTTTTAAAAATTTTAAG
** *
11850009 ATTTTTTTAATTTTTAAG
1 ATTTTTAAAAATTTTAAG
11850027 ATTTTT
1 ATTTTT
11850033 TTTAAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATTTTTAAAAATTTTAAG
Found at i:11854040 original size:39 final size:37
Alignment explanation
Indices: 11853955--11854189 Score: 167
Period size: 39 Copynumber: 6.1 Consensus size: 37
11853945 TTCGGGTATT
* *
11853955 AGCCTTTATTTTTAAAGTT-ATGGCCTTCATTGTT-AAGG
1 AGCC-TTATTTTTAAAGTTGAT-GCCTTTATT-TTGAAGA
*
11853993 AGCTCTTATTTTTAAAGTTGAATGCCTTTATTTTCGAGGA
1 AGC-CTTATTTTTAAAGTTG-ATGCCTTTATTTT-GAAGA
*
11854033 AGCCTTATTTTTAAAGTTTG-TGACTCTCT-TTTTGAAG-
1 AGCCTTATTTTTAAAG-TTGATG-C-CTTTATTTTGAAGA
* *
11854070 AGTCTTTATTTTTAAAGTTGTGTGCCTTTATTGTTGAAGA
1 AG-CCTTATTTTTAAAGTTG-ATGCCTTTATT-TTGAAGA
** * * *
11854110 CCCCTTATTTTTAAAGTTAGGTGCCTCTATTTTCAAGA
1 AGCCTTATTTTTAAAGTT-GATGCCTTTATTTTGAAGA
* *
11854148 AGCCCTTATTTTTAAAGTTGTGTGCCTCTATTTCTGAA-A
1 AG-CCTTATTTTTAAAGTTG-ATGCCTTTATTT-TGAAGA
11854187 AGC
1 AGC
11854190 TTGTCACAAA
Statistics
Matches: 164, Mismatches: 15, Indels: 36
0.76 0.07 0.17
Matches are distributed among these distances:
37 8 0.05
38 48 0.29
39 91 0.55
40 17 0.10
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.45
Consensus pattern (37 bp):
AGCCTTATTTTTAAAGTTGATGCCTTTATTTTGAAGA
Found at i:11854087 original size:77 final size:78
Alignment explanation
Indices: 11853960--11854167 Score: 214
Period size: 77 Copynumber: 2.7 Consensus size: 78
11853950 GTATTAGCCT
* * *
11853960 TTATTTTTAAAGTTATG-GCCT-TCATTGTT-AAGGAGCTCTTATTTTTAAAGTTGAATGCCTTT
1 TTATTTTTAAAGTTAGGTGCCTCT-ATT-TTCAAGAAGCCCTTATTTTTAAAGTTGAATGCCTTT
* *
11854022 ATT-TTCGAGGAAGCC
64 ATTGTT-GAAGAACCC
* * * * **
11854037 TTATTTTTAAAGTT-TGTGACTCTCT-TTTTGAAG-AGTCTTTATTTTTAAAGTTGTGTGCCTTT
1 TTATTTTTAAAGTTAGGTG-C-CTCTATTTTCAAGAAGCCCTTATTTTTAAAGTTGAATGCCTTT
*
11854099 ATTGTTGAAGACCCC
64 ATTGTTGAAGAACCC
11854114 TTATTTTTAAAGTTAGGTGCCTCTATTTTCAAGAAGCCCTTATTTTTAAAGTTG
1 TTATTTTTAAAGTTAGGTGCCTCTATTTTCAAGAAGCCCTTATTTTTAAAGTTG
11854168 TGTGCCTCTA
Statistics
Matches: 110, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
76 6 0.05
77 72 0.65
78 29 0.26
79 2 0.02
80 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.47
Consensus pattern (78 bp):
TTATTTTTAAAGTTAGGTGCCTCTATTTTCAAGAAGCCCTTATTTTTAAAGTTGAATGCCTTTAT
TGTTGAAGAACCC
Found at i:11854161 original size:116 final size:116
Alignment explanation
Indices: 11853958--11854185 Score: 302
Period size: 116 Copynumber: 2.0 Consensus size: 116
11853948 GGGTATTAGC
* * *
11853958 CTTTATTTTTAAAGTTATGGCCTTCATTGTTAAGGAGCTCTTATTTTTAAAGTTGAATGCCTTTA
1 CTTTATTTTTAAAGTTATGGCCTTCATTGTTAAGGACCCCTTATTTTTAAAGTTGAATGCCTCTA
* * *
11854023 TTTTCGAGGAAGCCTTATTTTTAAAGTT-TGTGACTCTCTTTTTGAAGAGT
66 TTTTCGAAGAAGCCTTATTTTTAAAGTTGTGTGACTCTATTTCTGAAGAGT
* * *
11854073 CTTTATTTTTAAAGTTGTGTGCCTTTATTGTTGAA-GACCCCTTATTTTTAAAGTT-AGGTGCCT
1 CTTTATTTTTAAAGTTATG-GCCTTCATTGTT-AAGGACCCCTTATTTTTAAAGTTGA-ATGCCT
*
11854136 CTATTTTC-AAGAAGCCCTTATTTTTAAAGTTGTGTGCCTCTATTTCTGAA
63 CTATTTTCGAAGAAG-CCTTATTTTTAAAGTTGTGTGACTCTATTTCTGAA
11854186 AAGCTTGTCA
Statistics
Matches: 98, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
115 24 0.24
116 57 0.58
117 17 0.17
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (116 bp):
CTTTATTTTTAAAGTTATGGCCTTCATTGTTAAGGACCCCTTATTTTTAAAGTTGAATGCCTCTA
TTTTCGAAGAAGCCTTATTTTTAAAGTTGTGTGACTCTATTTCTGAAGAGT
Found at i:11854221 original size:12 final size:12
Alignment explanation
Indices: 11854203--11854232 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
11854193 TCACAAAAAA
11854203 AAAAAAACCAAAC
1 AAAAAAA-CAAAC
11854216 AAAAAAACAAAC
1 AAAAAAACAAAC
11854228 AAAAA
1 AAAAA
11854233 GCAAAAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAC
Found at i:11855587 original size:19 final size:17
Alignment explanation
Indices: 11855537--11855597 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
11855527 TTTTAATTGA
*
11855537 TTTTAATTGTGT-A-TT
1 TTTTATTTGTGTAATTT
* *
11855552 TTTTATTTTTGTTATTT
1 TTTTATTTGTGTAATTT
11855569 ATTTTATTTGTGTGAATTT
1 -TTTTATTTGTGT-AATTT
11855588 TATTTATTTG
1 T-TTTATTTG
11855598 ATTTGATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
15 10 0.27
16 1 0.03
17 2 0.05
18 12 0.32
19 12 0.32
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.70
Consensus pattern (17 bp):
TTTTATTTGTGTAATTT
Found at i:11857235 original size:95 final size:96
Alignment explanation
Indices: 11857107--11857290 Score: 318
Period size: 95 Copynumber: 1.9 Consensus size: 96
11857097 TTTCCATTTT
*
11857107 CTTAGAAAAACTTAAAGCCAAAACAAATTTCAATAATGCTAAAAAAACTATAGAAAGTCATTAGG
1 CTTAGAAAAACATAAAGCCAAAACAAATTTCAATAATGCTAAAAAAACTATAGAAAGTCATTAGG
11857172 ATCCATGA-ACAATAGAAAACATCACAAAGAC
66 ATCCAT-ACACAATAGAAAACATCACAAAGAC
*
11857203 CTTAGAAAAACATAAA-TCAAAACAAATTTCAATAATGCTAAAAAAACTATAGAAAGTCATTAGG
1 CTTAGAAAAACATAAAGCCAAAACAAATTTCAATAATGCTAAAAAAACTATAGAAAGTCATTAGG
*
11857267 ATCCATACACAATATAAAACATCA
66 ATCCATACACAATAGAAAACATCA
11857291 TAAAATCCTC
Statistics
Matches: 84, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
94 1 0.01
95 68 0.81
96 15 0.18
ACGTcount: A:0.54, C:0.16, G:0.09, T:0.21
Consensus pattern (96 bp):
CTTAGAAAAACATAAAGCCAAAACAAATTTCAATAATGCTAAAAAAACTATAGAAAGTCATTAGG
ATCCATACACAATAGAAAACATCACAAAGAC
Found at i:11859267 original size:28 final size:28
Alignment explanation
Indices: 11859235--11859335 Score: 100
Period size: 27 Copynumber: 3.6 Consensus size: 28
11859225 CTAGAATTTT
** *
11859235 TTATAAAAAATATGAAATATTTTAAAAA
1 TTATAAAAAATAAAAAATATTTTAAAAC
*
11859263 TTAT-AAAAATAAAAAATATTTATAGAAC
1 TTATAAAAAATAAAAAATATTT-TAAAAC
* * *
11859291 TTATAAAAATTAACAAATATATTAAAAC
1 TTATAAAAAATAAAAAATATTTTAAAAC
11859319 -T-TAAAAAATAAGAAAAT
1 TTATAAAAAATAA-AAAAT
11859336 CTCAAAATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
26 9 0.15
27 20 0.33
28 17 0.28
29 14 0.23
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (28 bp):
TTATAAAAAATAAAAAATATTTTAAAAC
Found at i:11860216 original size:16 final size:16
Alignment explanation
Indices: 11860168--11860255 Score: 76
Period size: 16 Copynumber: 5.7 Consensus size: 16
11860158 TATGGTCTCG
* *
11860168 TTTAGGTTTTTGAGGT
1 TTTAGGGTTTCGAGGT
*
11860184 ATTAGGGTTTCGAGGT
1 TTTAGGGTTTCGAGGT
11860200 TTTAGGGTTTC-ATGGT
1 TTTAGGGTTTCGA-GGT
* * *
11860216 TTTA--ATTTTGA-AT
1 TTTAGGGTTTCGAGGT
*
11860229 TTTAGGGTTTTGAGGT
1 TTTAGGGTTTCGAGGT
11860245 TTTAGGGTTTC
1 TTTAGGGTTTC
11860256 AAGATTTTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
13 5 0.09
14 3 0.05
15 8 0.14
16 41 0.72
ACGTcount: A:0.16, C:0.03, G:0.30, T:0.51
Consensus pattern (16 bp):
TTTAGGGTTTCGAGGT
Found at i:11862842 original size:35 final size:34
Alignment explanation
Indices: 11862803--11862904 Score: 109
Period size: 35 Copynumber: 3.0 Consensus size: 34
11862793 AAAAGACAAT
*
11862803 TAGGACTAAACCGTAAGTTAGACAATAAAGATGAC
1 TAGGACTAAACTGTAAGTTAGA-AATAAAGATGAC
* *
11862838 TAGGACTAAGCTGTAAGTCAGGAAATAAAGA-GAC
1 TAGGACTAAACTGTAAGTTA-GAAATAAAGATGAC
* * *
11862872 T-GGATTAAACTGTAAATTAAAGAATAAAGATGA
1 TAGGACTAAACTGTAAGTTAGA-AATAAAGATGA
11862905 TAGAGACCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
32 1 0.02
33 22 0.39
34 6 0.11
35 25 0.45
36 2 0.04
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.22
Consensus pattern (34 bp):
TAGGACTAAACTGTAAGTTAGAAATAAAGATGAC
Found at i:11863185 original size:35 final size:35
Alignment explanation
Indices: 11863146--11863263 Score: 125
Period size: 35 Copynumber: 3.4 Consensus size: 35
11863136 ACAAGTTGAG
* *
11863146 AAATAAAAATGATCGGGATTGAACCATGAGTTAAA
1 AAATAAAAATGATCGGGATTGAACCACGAGTCAAA
* * *
11863181 AAATAAAGATGATCGGGACTGAACCACAAGTCACAA
1 AAATAAAAATGATCGGGATTGAACCACGAGTCA-AA
*
11863217 AAA-AAAGACA-AAT-GGGATTGAACCACGAGTCAAA
1 AAATAAA-A-ATGATCGGGATTGAACCACGAGTCAAA
*
11863251 AAATAAAGATGAT
1 AAATAAAAATGAT
11863264 TGAGACTAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
33 1 0.01
34 7 0.10
35 51 0.76
36 7 0.10
37 1 0.01
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.17
Consensus pattern (35 bp):
AAATAAAAATGATCGGGATTGAACCACGAGTCAAA
Found at i:11863290 original size:140 final size:140
Alignment explanation
Indices: 11863146--11863397 Score: 310
Period size: 140 Copynumber: 1.8 Consensus size: 140
11863136 ACAAGTTGAG
* * * * * ** *
11863146 AAATAAAAATGATCGGGATTGAACCATGAGTTAAAAAATAAAGATGATC-GGGACTGAACCACAA
1 AAATAAAAATGACCAGGACTAAACCACGAGTTAAAAAATAAAGATG-TCAAAGACTGAACCAAAA
*
11863210 GTCACAAAAA-AAAGACAAATGGGATTGAACCACGAGTCAAAAAATAAAGATGATTGAGACTAAA
65 GTCA-AAAAATAAAGACAAATGGGATTGAACCACGAATCAAAAAATAAAGATGATTGAGACTAAA
11863274 TCATAAGTCAGC
129 TCATAAGTCAGC
* * ** *
11863286 AAATAAAGATGACCAGGACTAAACCACGAGTTAAAGAATAAAGATGTCAAAGACTGTGCTAAAAG
1 AAATAAAAATGACCAGGACTAAACCACGAGTTAAAAAATAAAGATGTCAAAGACTGAACCAAAAG
* * * *
11863351 TCAAAAAATAAAGACGACTGGGATTGAACCATGAATTAAAAAATAAA
66 TCAAAAAATAAAGACAAATGGGATTGAACCACGAATCAAAAAATAAA
11863398 AATCATGAAG
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
139 7 0.08
140 85 0.92
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.18
Consensus pattern (140 bp):
AAATAAAAATGACCAGGACTAAACCACGAGTTAAAAAATAAAGATGTCAAAGACTGAACCAAAAG
TCAAAAAATAAAGACAAATGGGATTGAACCACGAATCAAAAAATAAAGATGATTGAGACTAAATC
ATAAGTCAGC
Found at i:11863381 original size:70 final size:68
Alignment explanation
Indices: 11863160--11863397 Score: 201
Period size: 70 Copynumber: 3.4 Consensus size: 68
11863150 AAAAATGATC
* * * *
11863160 GGGATTGAACCATGAGTTAAAAAATAAAGATGATCGGGACTGAACCACAAGTCACAAAAA-AAAG
1 GGGATTGAACCACGAGTTAAAAAATAAAGATGATCGAGACTG--TCAAAAGTCA-AAAAATAAAG
* *
11863224 ACAAAT
63 ACGACT
* * * * **
11863230 GGGATTGAACCACGAGTCAAAAAATAAAGATGATTGAGACTAAATCATAAGTCAGCAAATAAAGA
1 GGGATTGAACCACGAGTTAAAAAATAAAGATGATCGAGACT--GTCAAAAGTCAAAAAATAAAGA
* *
11863295 TGACC
64 CGACT
* * * * *
11863300 AGGACTAAACCACGAGTTAAAGAATAAAGATG-TCAAAGACTGTGCTAAAAGTCAAAAAATAAAG
1 GGGATTGAACCACGAGTTAAAAAATAAAGATGATC-GAGACTGT-C-AAAAGTCAAAAAATAAAG
11863364 ACGACT
63 ACGACT
* *
11863370 GGGATTGAACCATGAATTAAAAAATAAA
1 GGGATTGAACCACGAGTTAAAAAATAAA
11863398 AATCATGAAG
Statistics
Matches: 130, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
68 1 0.01
69 5 0.04
70 124 0.95
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.18
Consensus pattern (68 bp):
GGGATTGAACCACGAGTTAAAAAATAAAGATGATCGAGACTGTCAAAAGTCAAAAAATAAAGACG
ACT
Found at i:11863759 original size:35 final size:34
Alignment explanation
Indices: 11863668--11863793 Score: 135
Period size: 35 Copynumber: 3.6 Consensus size: 34
11863658 CCATGAATCG
* * *
11863668 AAGAATAAAGATGATCATGCTTGAACCAAAGCTA
1 AAGAATAAAGATGACCATGATTGAACCAAAGTTA
* * *
11863702 AGGAATAAAAATGACCAGGATTGAACCATAAGTTA
1 AAGAATAAAGATGACCATGATTGAACCA-AAGTTA
* * *
11863737 AAGAGTAAAGATGACCAAGATTGAACCACAAGTCA
1 AAGAATAAAGATGACCATGATTGAACCA-AAGTTA
* *
11863772 AAGAGTAAAGATAACCATGATT
1 AAGAATAAAGATGACCATGATT
11863794 AAGCTACAAG
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
34 23 0.30
35 54 0.70
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (34 bp):
AAGAATAAAGATGACCATGATTGAACCAAAGTTA
Found at i:11864051 original size:35 final size:35
Alignment explanation
Indices: 11863935--11864035 Score: 105
Period size: 35 Copynumber: 2.9 Consensus size: 35
11863925 ACTTGACTGT
* * * * * * *
11863935 AAGTCAAGAGATAAAATTGACTAAGATTGAACTAC
1 AAGTTAAGAAATAAAAATGACCAGGACTGAACCAC
*
11863970 AAGTTGAAG-AATAAAGATGACCAGGACTGAACCAC
1 AAGTT-AAGAAATAAAAATGACCAGGACTGAACCAC
*
11864005 AAGTTAAGAAATAAAAATGACCAGGATTGAA
1 AAGTTAAGAAATAAAAATGACCAGGACTGAA
11864036 TCGTAAGTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
34 3 0.06
35 48 0.89
36 3 0.06
ACGTcount: A:0.50, C:0.12, G:0.20, T:0.19
Consensus pattern (35 bp):
AAGTTAAGAAATAAAAATGACCAGGACTGAACCAC
Found at i:11864150 original size:35 final size:34
Alignment explanation
Indices: 11864111--11864199 Score: 81
Period size: 35 Copynumber: 2.5 Consensus size: 34
11864101 TTGAACTGTT
**
11864111 AGTCAAAGAATAAAGATAAT-AGGGACTAAGTCACA
1 AGTC-AAGAATAAAGATAATCA-GGACTAAACCACA
* * *
11864146 AGTCAAGAAATAAAAATGATCAGGACTAAACCATA
1 AGTCAAG-AATAAAGATAATCAGGACTAAACCACA
*
11864181 AATCGAAGAATAAAGATAA
1 AGTC-AAGAATAAAGATAA
11864200 CAAAGACAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
34 3 0.07
35 36 0.84
36 4 0.09
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (34 bp):
AGTCAAGAATAAAGATAATCAGGACTAAACCACA
Found at i:11864254 original size:35 final size:35
Alignment explanation
Indices: 11864145--11864475 Score: 122
Period size: 35 Copynumber: 9.4 Consensus size: 35
11864135 ACTAAGTCAC
* * * **
11864145 AAGTCAAGAAATAAAAATGATC-AGGACTAAACCAT
1 AAGTCAAGAAATAAAGATGA-CGAAGACTGAACTGT
* * * * * *
11864180 AAATCGAAG-AATAAAGATAACAAAGACAGAGCTGC
1 AAGTC-AAGAAATAAAGATGACGAAGACTGAACTGT
* *
11864215 AAGTCAAGAAATAAAGACGACGAAGATTGAACTGT
1 AAGTCAAGAAATAAAGATGACGAAGACTGAACTGT
* * * *
11864250 AAGTCGAAAAAAT-AAGAATGACCAATA-TGAAAT-T
1 AAGTC-AAGAAATAAAG-ATGACGAAGACTGAACTGT
* * ** * * * * *
11864284 ACGAGTCAAAAAATAAAAACAACTAGGATTGAATTGC
1 A--AGTCAAGAAATAAAGATGACGAAGACTGAACTGT
* ** *
11864321 AAGTCAA-AAAGTAAAGATGATCGAA-ATTGAGTTGC
1 AAGTCAAGAAA-TAAAGATGA-CGAAGACTGAACTGT
* **
11864356 AAGTCAAGAAATAAAGATGACCAAGACTGAACCAT
1 AAGTCAAGAAATAAAGATGACGAAGACTGAACTGT
* * * * **
11864391 AAATCGATG-AACAAAGATGAC-AGGGACTGAGTTGT
1 AAGTC-AAGAAATAAAGATGACGA-AGACTGAACTGT
**
11864426 AAGTCAAGAAATAAAGATGACGAAGACTGAACCAT
1 AAGTCAAGAAATAAAGATGACGAAGACTGAACTGT
*
11864461 GAGTCGAAGAAATAA
1 AAGTC-AAGAAATAA
11864476 GATTGACCGG
Statistics
Matches: 216, Mismatches: 61, Indels: 37
0.69 0.19 0.12
Matches are distributed among these distances:
34 15 0.07
35 156 0.72
36 44 0.20
37 1 0.00
ACGTcount: A:0.50, C:0.12, G:0.20, T:0.17
Consensus pattern (35 bp):
AAGTCAAGAAATAAAGATGACGAAGACTGAACTGT
Found at i:11864478 original size:70 final size:71
Alignment explanation
Indices: 11864348--11864489 Score: 207
Period size: 70 Copynumber: 2.0 Consensus size: 71
11864338 TGATCGAAAT
*
11864348 TGAGTTGCAAGTCAAGAAATAAAGATGACCAAGACTGAACCATAAATCGATGAACAAAGA-TGAC
1 TGAGTTGCAAGTCAAGAAATAAAGATGACCAAGACTGAACCATAAATCGAAGAACAAAGATTGAC
11864412 AGGGAC
66 AGGGAC
* * * *
11864418 TGAGTTGTAAGTCAAGAAATAAAGATGACGAAGACTGAACCATGAGTCGAAGAA-ATAAGATTGA
1 TGAGTTGCAAGTCAAGAAATAAAGATGACCAAGACTGAACCATAAATCGAAGAACA-AAGATTGA
*
11864482 CCGGGAC
65 CAGGGAC
11864489 T
1 T
11864490 ATACCACAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
69 1 0.02
70 53 0.83
71 10 0.16
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.18
Consensus pattern (71 bp):
TGAGTTGCAAGTCAAGAAATAAAGATGACCAAGACTGAACCATAAATCGAAGAACAAAGATTGAC
AGGGAC
Found at i:11864512 original size:211 final size:209
Alignment explanation
Indices: 11864139--11864579 Score: 472
Period size: 211 Copynumber: 2.1 Consensus size: 209
11864129 ATAGGGACTA
* * * *
11864139 AGTCACAAGTCAAGAAATAAAAATGATCAGGACTAAACCATAAATCGAAGAATAAAGATAACAAA
1 AGTCGCAAGTCAAGAAATAAAAATGACCAAGACTAAACCATAAATCGAAGAACAAAGATAACAAA
* **
11864204 GACAGAGCTGCAAGTCAAGAAATAAAGACGACGAAGATTGAACTGTAAGTCGAAAAAATAAGAAT
66 GACAGAGCTGCAAGTCAAGAAATAAAGACGACGAAGACTGAACCATAAGTCGAAAAAATAAGAAT
* ** * **
11864269 GACCAATATGAAATTACGAGTCAAAAAATAAAA-ACAACTAGGATTGAATTGCAAGTCAAAAAGT
131 GACCAAGATGAAACCACAAGTCAAAAAATAAAAGACAA-TAGGATTGAA-TAAAAGT-AAAAAGT
*
11864333 AAAGATGATCGAAATTG
193 AAAAATGATCGAAATTG
* * * * * **
11864350 AGTTGCAAGTCAAGAAATAAAGATGACCAAGACTGAACCATAAATCGATGAACAAAGATGACAGG
1 AGTCGCAAGTCAAGAAATAAAAATGACCAAGACTAAACCATAAATCGAAGAACAAAGATAACAAA
* * * * * * *
11864415 GACTGAGTTGTAAGTCAAGAAATAAAGATGACGAAGACTGAACCATGAGTCGAAGAAATAAGATT
66 GACAGAGCTGCAAGTCAAGAAATAAAGACGACGAAGACTGAACCATAAGTCGAAAAAATAAGAAT
** * ** ** * *
11864480 GACCGGGACT-ATACCACAAGTCAATGAATAAAAGTGAATAGGATTGAATAAAAGTGAATAGTAA
131 GACCAAGA-TGAAACCACAAGTCAAAAAATAAAAGACAATAGGATTGAATAAAAGTAAAAAGTAA
*
11864544 AAATGATCGAGATTG
195 AAATGATCGAAATTG
* *
11864559 AGTCGCAAGTTAAGAGATAAA
1 AGTCGCAAGTCAAGAAATAAA
11864580 TTTAATCGAG
Statistics
Matches: 187, Mismatches: 41, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
209 38 0.20
210 5 0.03
211 141 0.75
212 3 0.02
ACGTcount: A:0.49, C:0.12, G:0.21, T:0.18
Consensus pattern (209 bp):
AGTCGCAAGTCAAGAAATAAAAATGACCAAGACTAAACCATAAATCGAAGAACAAAGATAACAAA
GACAGAGCTGCAAGTCAAGAAATAAAGACGACGAAGACTGAACCATAAGTCGAAAAAATAAGAAT
GACCAAGATGAAACCACAAGTCAAAAAATAAAAGACAATAGGATTGAATAAAAGTAAAAAGTAAA
AATGATCGAAATTG
Found at i:11864647 original size:35 final size:34
Alignment explanation
Indices: 11864608--11864685 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 34
11864598 ACGAGTCAAA
* * *
11864608 AAATAAAGATGACTATGACTGAATCATAAGTTAGG
1 AAATAAA-ATGACTAAGACTGAACCATAAGTAAGG
** *
11864643 AAATAAAAGTGGTTAAGATTGAACCATAAGTAAGG
1 AAATAAAA-TGACTAAGACTGAACCATAAGTAAGG
11864678 AAATAAAA
1 AAATAAAA
11864686 ATGATCACGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
34 1 0.03
35 35 0.97
ACGTcount: A:0.51, C:0.06, G:0.19, T:0.23
Consensus pattern (34 bp):
AAATAAAATGACTAAGACTGAACCATAAGTAAGG
Found at i:11865886 original size:19 final size:20
Alignment explanation
Indices: 11865862--11865899 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11865852 AACTTCTTTA
11865862 TCTC-TTTTTGTTCTTTTTT
1 TCTCTTTTTTGTTCTTTTTT
*
11865881 TCTCTTTTTTGTTGTTTTT
1 TCTCTTTTTTGTTCTTTTT
11865900 CTCTTGATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (20 bp):
TCTCTTTTTTGTTCTTTTTT
Found at i:11866340 original size:19 final size:20
Alignment explanation
Indices: 11866302--11866341 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
11866292 CCATAAATTT
*
11866302 CCTTTACATGATGCAAATGC
1 CCTTTACATAATGCAAATGC
*
11866322 CCTTTACA-AATGCAGATGC
1 CCTTTACATAATGCAAATGC
11866341 C
1 C
11866342 AATTTTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
CCTTTACATAATGCAAATGC
Found at i:11867596 original size:2 final size:2
Alignment explanation
Indices: 11867560--11867587 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11867550 TGCCCATTCT
11867560 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11867588 CCCCTCTCTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:11867950 original size:12 final size:12
Alignment explanation
Indices: 11867930--11868015 Score: 54
Period size: 12 Copynumber: 7.2 Consensus size: 12
11867920 AATCATCATT
*
11867930 TTTTGCTTTTTC
1 TTTTACTTTTTC
11867942 TTTTAC-TTTT-
1 TTTTACTTTTTC
*
11867952 TTTTGCTTTGTT-
1 TTTTACTTT-TTC
*
11867964 TTTTTCTTTTTAC
1 TTTTACTTTTT-C
* * *
11867977 TCTTGCATTTTC
1 TTTTACTTTTTC
*
11867989 TTTCTACTTTTTA
1 TTT-TACTTTTTC
11868002 TTTTAC-TTTTC
1 TTTTACTTTTTC
11868013 TTT
1 TTT
11868016 GCACACATCC
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
10 5 0.09
11 15 0.26
12 21 0.36
13 17 0.29
ACGTcount: A:0.07, C:0.15, G:0.05, T:0.73
Consensus pattern (12 bp):
TTTTACTTTTTC
Found at i:11870059 original size:17 final size:17
Alignment explanation
Indices: 11870037--11870071 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11870027 CAAAACATGT
11870037 AAGTGTGTATGCATGAA
1 AAGTGTGTATGCATGAA
*
11870054 AAGTGTGTATGGATGAA
1 AAGTGTGTATGCATGAA
11870071 A
1 A
11870072 TGTAATGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.31, T:0.29
Consensus pattern (17 bp):
AAGTGTGTATGCATGAA
Found at i:11873563 original size:20 final size:20
Alignment explanation
Indices: 11873538--11873575 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11873528 AAACTATGAT
11873538 AAAATAAATGAAAA-AAAAAC
1 AAAATAAAT-AAAATAAAAAC
11873558 AAAATAAATAAAATAAAA
1 AAAATAAATAAAATAAAA
11873576 TAACATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (20 bp):
AAAATAAATAAAATAAAAAC
Found at i:11873570 original size:14 final size:15
Alignment explanation
Indices: 11873553--11873585 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
11873543 AAATGAAAAA
11873553 AAAACAAAATAA-AT
1 AAAACAAAATAACAT
*
11873567 AAAATAAAATAACAT
1 AAAACAAAATAACAT
11873582 AAAA
1 AAAA
11873586 TGTACCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAACAAAATAACAT
Found at i:11873576 original size:5 final size:5
Alignment explanation
Indices: 11873536--11873586 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
11873526 CAAAACTATG
* * *
11873536 ATAAA AT-AA ATGAAA AAAAA ACAAA AT-AA ATAAA ATAAA ATAAC ATAAA
1 ATAAA ATAAA AT-AAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
11873585 AT
1 AT
11873587 GTACCTCAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
4 8 0.21
5 27 0.71
6 3 0.08
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:11873788 original size:30 final size:28
Alignment explanation
Indices: 11873743--11873809 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 28
11873733 TCAAATCCTA
*
11873743 TTTTC-TTTGACTTTTCAAAACTTTCCTTT
1 TTTTCTTTTAACTTTTCAAAACTTT--TTT
*
11873772 TTTTCTTTTAACTTTTCAAATCTTTTTT
1 TTTTCTTTTAACTTTTCAAAACTTTTTT
11873800 TTTTACTTTT
1 TTTT-CTTTT
11873810 CCAAAACTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 7 0.21
29 10 0.29
30 17 0.50
ACGTcount: A:0.16, C:0.16, G:0.01, T:0.66
Consensus pattern (28 bp):
TTTTCTTTTAACTTTTCAAAACTTTTTT
Found at i:11873877 original size:22 final size:23
Alignment explanation
Indices: 11873849--11873909 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
11873839 CATTTCAAGG
11873849 CTTTTTTATTTTTCAAAG-TTTT
1 CTTTTTTATTTTTCAAAGCTTTT
*
11873871 CTTTTTTTTTACCTTTCAAAGCTTTT
1 CTTTTTTATT---TTTCAAAGCTTTT
*
11873897 -TTTTTTACTTTTC
1 CTTTTTTATTTTTC
11873910 TAACCTACTC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 13 0.41
25 15 0.47
26 4 0.12
ACGTcount: A:0.15, C:0.15, G:0.03, T:0.67
Consensus pattern (23 bp):
CTTTTTTATTTTTCAAAGCTTTT
Found at i:11873879 original size:26 final size:24
Alignment explanation
Indices: 11873850--11873902 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
11873840 ATTTCAAGGC
** *
11873850 TTTTTTATTTTTCAAAGTTTTCTTT
1 TTTTTTACCTTTCAAAGCTTT-TTT
11873875 TTTTTTACCTTTCAAAGCTTTTTT
1 TTTTTTACCTTTCAAAGCTTTTTT
11873899 TTTT
1 TTTT
11873903 ACTTTTCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTTTTACCTTTCAAAGCTTTTTT
Found at i:11874010 original size:6 final size:6
Alignment explanation
Indices: 11873983--11874041 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
11873973 TTTTTCTTCT
* * * * *
11873983 TTTTTC TTCTTC TCTCTC TTTTT- TTTTTC TTTTTC TTCTTC -TTTCC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
11874029 TTTCTTC TTTTTC
1 TTT-TTC TTTTTC
11874042 ATATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
5 8 0.20
6 27 0.68
7 5 0.12
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTC
Found at i:11874012 original size:23 final size:23
Alignment explanation
Indices: 11873982--11874026 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11873972 TTTTTTCTTC
11873982 TTTTTTCTTCTTC-TCTCTCTTTT
1 TTTTTTCTTCTTCTTCT-TCTTTT
*
11874005 TTTTTTCTTTTTCTTCTTCTTT
1 TTTTTTCTTCTTCTTCTTCTTT
11874027 CCTTTCTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTTCTTCTTCTTCTTCTTTT
Found at i:11874015 original size:29 final size:29
Alignment explanation
Indices: 11873972--11874041 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 29
11873962 TTTATCATCA
*
11873972 TTTTTTCTTCTTTTTTCTTCTTCTCTCTCT
1 TTTTTTTTTCTTTTTTCTTCTTCTCTC-CT
*
11874002 TTTTTTTTTC-TTTTTCTTCTTCTTTCCT
1 TTTTTTTTTCTTTTTTCTTCTTCTCTCCT
11874030 TTCTTCTTTTTC
1 TT-TT-TTTTTC
11874042 ATATCCTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 4 0.11
29 17 0.47
30 15 0.42
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (29 bp):
TTTTTTTTTCTTTTTTCTTCTTCTCTCCT
Found at i:11874016 original size:12 final size:12
Alignment explanation
Indices: 11873972--11874040 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 12
11873962 TTTATCATCA
11873972 TTTTTTCTTCTT
1 TTTTTTCTTCTT
11873984 TTTTCTTCTTCTCT
1 TTTT-TTCTTCT-T
11873998 CTCTTTTT-TT-TT
1 -T-TTTTTCTTCTT
11874010 TCTTTTTCTTCTT
1 T-TTTTTCTTCTT
11874023 CTTTCCTTTCTTCTT
1 -TTT--TTTCTTCTT
11874038 TTT
1 TTT
11874041 CATATCCTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
11 7 0.15
12 7 0.15
13 12 0.25
14 7 0.15
15 12 0.25
16 3 0.06
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTCTTCTT
Found at i:11874040 original size:32 final size:33
Alignment explanation
Indices: 11873972--11874040 Score: 88
Period size: 32 Copynumber: 2.1 Consensus size: 33
11873962 TTTATCATCA
* *
11873972 TTTTTTCTTCTTTTTTCTTCTTCTCTCTCTTTT
1 TTTTTTCTTCTTTCTTCTTCTTCTCTCTCTTCT
*
11874005 TTTTTTCTT-TTTCTTCTTCTT-TCCTTTCTTCT
1 TTTTTTCTTCTTTCTTCTTCTTCT-CTCTCTTCT
11874037 TTTT
1 TTTT
11874041 CATATCCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 1 0.03
32 22 0.69
33 9 0.28
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (33 bp):
TTTTTTCTTCTTTCTTCTTCTTCTCTCTCTTCT
Found at i:11883519 original size:12 final size:11
Alignment explanation
Indices: 11883497--11883543 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
11883487 CTTTATAAGC
11883497 TTTTTT-TTTT
1 TTTTTTATTTT
*
11883507 TTTTATATTTT
1 TTTTTTATTTT
11883518 TTGTTTTATTTT
1 TT-TTTTATTTT
11883530 ATTTTTTCATTTT
1 -TTTTTT-ATTTT
11883543 T
1 T
11883544 ACATTTTCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 5 0.16
11 6 0.19
12 13 0.42
13 7 0.23
ACGTcount: A:0.11, C:0.02, G:0.02, T:0.85
Consensus pattern (11 bp):
TTTTTTATTTT
Found at i:11883519 original size:14 final size:13
Alignment explanation
Indices: 11883499--11883543 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
11883489 TTATAAGCTT
11883499 TTTTTTTTTTTTA
1 TTTTTTTTTTTTA
*
11883512 TATTTTTTGTTTTA
1 T-TTTTTTTTTTTA
* *
11883526 TTTTATTTTTTCA
1 TTTTTTTTTTTTA
11883539 TTTTT
1 TTTTT
11883544 ACATTTTCGC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.11, C:0.02, G:0.02, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTTTA
Found at i:11883519 original size:17 final size:18
Alignment explanation
Indices: 11883497--11883536 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11883487 CTTTATAAGC
11883497 TTTTTT-TTTT-TTTTAT
1 TTTTTTGTTTTATTTTAT
11883513 ATTTTTTGTTTTATTTTAT
1 -TTTTTTGTTTTATTTTAT
11883532 TTTTT
1 TTTTT
11883537 CATTTTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 9 0.43
19 6 0.29
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.88
Consensus pattern (18 bp):
TTTTTTGTTTTATTTTAT
Found at i:11883524 original size:19 final size:17
Alignment explanation
Indices: 11883497--11883536 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11883487 CTTTATAAGC
11883497 TTTTTTTTTTT-TTTATA
1 TTTTTTTTTTTATTT-TA
*
11883514 TTTTTTGTTTTATTTTA
1 TTTTTTTTTTTATTTTA
11883531 TTTTTT
1 TTTTTT
11883537 CATTTTTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTTTATTTTA
Found at i:11883960 original size:15 final size:15
Alignment explanation
Indices: 11883937--11883979 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
11883927 TAGAGGAAGG
*
11883937 AAAGGAAAGTAAAGT
1 AAAGGAAAGAAAAGT
*
11883952 AAAGTAAAGAAAAGT
1 AAAGGAAAGAAAAGT
* *
11883967 AAAAGAAACAAAA
1 AAAGGAAAGAAAA
11883980 CTCTCATTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (15 bp):
AAAGGAAAGAAAAGT
Found at i:11891793 original size:2 final size:2
Alignment explanation
Indices: 11891786--11891811 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11891776 TGTAAGAGTT
11891786 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
11891812 AATTTGATTC
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):
TA
Found at i:11892183 original size:21 final size:23
Alignment explanation
Indices: 11892148--11892198 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
11892138 GAGTTCGTAT
* *
11892148 AATTTT-AAATCTAAATTA-TTA
1 AATTTTAAAATCTAAATCAGTAA
11892169 AATTTTAAAAT-TAAATCAGTAA
1 AATTTTAAAATCTAAATCAGTAA
11892191 AATTTTAA
1 AATTTTAA
11892199 GTAATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (23 bp):
AATTTTAAAATCTAAATCAGTAA
Found at i:11893178 original size:17 final size:18
Alignment explanation
Indices: 11893156--11893197 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
11893146 ATTTTTAAAG
* *
11893156 ATTAAAAATATATAATAT
1 ATTAAAAATACATAAAAT
11893174 A-TAAAAATACATAAAAT
1 ATTAAAAATACATAAAAT
11893191 ATTAAAA
1 ATTAAAA
11893198 GTTTAAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
ATTAAAAATACATAAAAT
Found at i:11895487 original size:32 final size:32
Alignment explanation
Indices: 11895441--11895509 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
11895431 ATCATCATTC
*
11895441 TATAGTCCTATTTTAAGACTTTTATATCAATT
1 TATAATCCTATTTTAAGACTTTTATATCAATT
* *
11895473 TATAATCCTATTTTAATATTTTTATATCAATT
1 TATAATCCTATTTTAAGACTTTTATATCAATT
11895505 TATAA
1 TATAA
11895510 ATATGTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.52
Consensus pattern (32 bp):
TATAATCCTATTTTAAGACTTTTATATCAATT
Found at i:11900641 original size:36 final size:35
Alignment explanation
Indices: 11900593--11900668 Score: 91
Period size: 36 Copynumber: 2.2 Consensus size: 35
11900583 TTAAAAGAGT
* *
11900593 ATTTT-GTAATTATGGTAGGAGAGACATTATAATA
1 ATTTTGGTAATTATAGTAAGAGAGACATTATAATA
* * *
11900627 ATTTTGGTGAATTATAGTAAGAGGGACATTATAGTT
1 ATTTTGGT-AATTATAGTAAGAGAGACATTATAATA
11900663 ATTTTG
1 ATTTTG
11900669 ACCAAAGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 5 0.14
35 2 0.06
36 28 0.80
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.41
Consensus pattern (35 bp):
ATTTTGGTAATTATAGTAAGAGAGACATTATAATA
Found at i:11904060 original size:61 final size:62
Alignment explanation
Indices: 11903974--11904146 Score: 174
Period size: 61 Copynumber: 2.8 Consensus size: 62
11903964 CAAAAAAAAA
* *
11903974 ATAATGGGATTATTCAAGGTATTTTTAG-TCAAAAATACCTTGAATAATTTTAA-AAATTTTT
1 ATAA-GGGATTATTCAAAGTATTTTTAGATCAAAAATACATTGAATAATTTTAATAAATTTTT
* * * * * * *
11904035 ATGAGAGGATTATTGAAAGTGTTTTT-GATCATAAACACATTGAATAACTTTAATTTAATTTTT
1 ATAAG-GGATTATTCAAAGTATTTTTAGATCAAAAATACATTGAATAATTTTAA-TAAATTTTT
* * * *
11904098 ATAAGGGATTATTCAAACTATTTTTAGAT-AAAAATGCTTTTAATAATTT
1 ATAAGGGATTATTCAAAGTATTTTTAGATCAAAAATACATTGAATAATTT
11904147 GTTACAATTT
Statistics
Matches: 88, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
60 2 0.02
61 41 0.47
62 31 0.35
63 14 0.16
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (62 bp):
ATAAGGGATTATTCAAAGTATTTTTAGATCAAAAATACATTGAATAATTTTAATAAATTTTT
Found at i:11905487 original size:21 final size:23
Alignment explanation
Indices: 11905452--11905502 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
11905442 GAGTTCGTAT
* *
11905452 AATTTT-AAATCTAAAT-TATTA
1 AATTTTAAAATCTAAATCAATAA
11905473 AATTTTAAAAT-TAAATCAATAA
1 AATTTTAAAATCTAAATCAATAA
11905495 AATTTTAA
1 AATTTTAA
11905503 GTAATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTTAAAATCTAAATCAATAA
Found at i:11913894 original size:36 final size:35
Alignment explanation
Indices: 11913846--11913921 Score: 91
Period size: 36 Copynumber: 2.2 Consensus size: 35
11913836 TTAAAAGAGT
* *
11913846 ATTTT-GTAATTATGGTAGGAGAGACATTATAATA
1 ATTTTGGTAATTATAGTAAGAGAGACATTATAATA
* * *
11913880 ATTTTGGTGAATTATAGTAAGAGGGACATTATAGTT
1 ATTTTGGT-AATTATAGTAAGAGAGACATTATAATA
11913916 ATTTTG
1 ATTTTG
11913922 ACCATAAGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 5 0.14
35 2 0.06
36 28 0.80
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.41
Consensus pattern (35 bp):
ATTTTGGTAATTATAGTAAGAGAGACATTATAATA
Found at i:11915825 original size:26 final size:25
Alignment explanation
Indices: 11915778--11915831 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
11915768 TATTTTAATA
* *
11915778 AAAAAGAAACACAAAAATGAAAGAG
1 AAAAAGAAACAAAAAAATGAAAAAG
11915803 AAAAA-AAACAAAGAAAATGGAAAAAG
1 AAAAAGAAACAAA-AAAAT-GAAAAAG
11915829 AAA
1 AAA
11915832 GCTTATTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 10 0.40
26 9 0.36
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.04
Consensus pattern (25 bp):
AAAAAGAAACAAAAAAATGAAAAAG
Found at i:11916137 original size:29 final size:28
Alignment explanation
Indices: 11916103--11916176 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 28
11916093 ATATTATATC
*
11916103 TTAATTATAGATAAATATAATATTTTTA
1 TTAATTATAGATAAATATAATATATTTA
11916131 TTAAATTA-AGATATTAA-ATAATATATTTA
1 TT-AATTATAGATA--AATATAATATATTTA
11916160 TTAA-TATA-ATAAATATA
1 TTAATTATAGATAAATATA
11916177 TAAACATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
25 2 0.05
26 3 0.08
27 5 0.12
28 10 0.25
29 18 0.45
30 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (28 bp):
TTAATTATAGATAAATATAATATATTTA
Found at i:11916193 original size:24 final size:25
Alignment explanation
Indices: 11916166--11916233 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 25
11916156 TTTATTAATA
*
11916166 TAATAAATATA-TAAACATAT-TATT
1 TAATAAATATAGTAAAAATATAT-TT
*
11916190 TAATAAATA-ATTAAAAATATATTT
1 TAATAAATATAGTAAAAATATATTT
*
11916214 TAATATATATAGTAAAAATA
1 TAATAAATATAGTAAAAATA
11916234 AGACGAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 1 0.03
24 27 0.71
25 10 0.26
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (25 bp):
TAATAAATATAGTAAAAATATATTT
Found at i:11916552 original size:23 final size:25
Alignment explanation
Indices: 11916527--11916578 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
11916517 CATCTAATTA
11916527 AAAAATAA-AAAAA-TAAAA-GAAGA
1 AAAAATAATAAAAACTAAAATGAA-A
11916550 AAAAATAATAAAAACTAAAATGAAA
1 AAAAATAATAAAAACTAAAATGAAA
11916575 AAAA
1 AAAA
11916579 TGAAAAAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 8 0.31
24 5 0.19
25 10 0.38
26 3 0.12
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.12
Consensus pattern (25 bp):
AAAAATAATAAAAACTAAAATGAAA
Found at i:11916578 original size:26 final size:23
Alignment explanation
Indices: 11916526--11916578 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
11916516 TCATCTAATT
*
11916526 AAAAAATAAAAAAATAAAAGAAG
1 AAAAAATAAAAAAATAAAAGAAA
11916549 AAAAAATAATAAAAACTAAAATGAAA
1 AAAAAATAA-AAAAA-TAAAA-GAAA
11916575 AAAA
1 AAAA
11916579 TGAAAAAGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 9 0.35
24 5 0.19
25 5 0.19
26 7 0.27
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.11
Consensus pattern (23 bp):
AAAAAATAAAAAAATAAAAGAAA
Found at i:11916744 original size:9 final size:9
Alignment explanation
Indices: 11916732--11916765 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
11916722 ATTAAATAAG
11916732 TTAAAATAT
1 TTAAAATAT
*
11916741 TTAAAAAAT
1 TTAAAATAT
11916750 TTATAAATAT
1 TTA-AAATAT
11916760 TTAAAA
1 TTAAAA
11916766 GGGAGAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
TTAAAATAT
Found at i:11916912 original size:2 final size:2
Alignment explanation
Indices: 11916907--11916944 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11916897 TTTATTTATT
11916907 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11916945 ACACATTGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11918061 original size:3 final size:3
Alignment explanation
Indices: 11918053--11918092 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
11918043 ACCATAATTT
*
11918053 TTA TTA TTA TTA TTA TTA TTA TTA TTC TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11918093 GTCTCCGCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11927607 original size:29 final size:28
Alignment explanation
Indices: 11927567--11927638 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
11927557 TATGACTCAA
11927567 TATTAAATTTTAAAATTATATTTTAATTT
1 TATT-AATTTTAAAATTATATTTTAATTT
** * *
11927596 TATTGAATTTTATTATTGTATTTTTATTT
1 TATT-AATTTTAAAATTATATTTTAATTT
* *
11927625 CATTAATTTGAAAA
1 TATTAATTTTAAAA
11927639 AAGTATATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
28 7 0.21
29 27 0.79
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (28 bp):
TATTAATTTTAAAATTATATTTTAATTT
Found at i:11928126 original size:15 final size:15
Alignment explanation
Indices: 11928106--11928136 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11928096 ATTAATTTAT
*
11928106 ATAATAATTTTTAAA
1 ATAATAATATTTAAA
11928121 ATAATAATATTTAAA
1 ATAATAATATTTAAA
11928136 A
1 A
11928137 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATAATATTTAAA
Found at i:11933517 original size:30 final size:30
Alignment explanation
Indices: 11933476--11933532 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
11933466 TTAATTAATT
* * *
11933476 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
11933506 ATATTTATATTTAAAAAATAATATTTT
1 ATATATATATTTAAAAAATAATATTTT
11933533 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:11933535 original size:21 final size:22
Alignment explanation
Indices: 11933505--11933556 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
11933495 GATATTTTTA
11933505 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
11933525 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
11933547 AATATTTTAT
1 AATATTTTAT
11933557 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:11933781 original size:24 final size:24
Alignment explanation
Indices: 11933749--11933794 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
11933739 AATATGCCTA
*
11933749 GGTCCATTTCTTGGTGGTAGCTGG
1 GGTCCATTTATTGGTGGTAGCTGG
*
11933773 GGTCTATTTATTGGTGGTAGCT
1 GGTCCATTTATTGGTGGTAGCT
11933795 AGGCTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.13, G:0.35, T:0.41
Consensus pattern (24 bp):
GGTCCATTTATTGGTGGTAGCTGG
Found at i:11943474 original size:84 final size:84
Alignment explanation
Indices: 11943332--11943508 Score: 221
Period size: 84 Copynumber: 2.1 Consensus size: 84
11943322 TTCATGGGTG
* *
11943332 TCGAGATTTGTAATACCTTCGAGCATAATCCCTAAGTCATCCGGGTAAGATTTCTAAGTCTTTTA
1 TCGAGATTTGTAAAACCTTCGAGCATAATCCCTAAGTCACCCGGGTAAGATTTCTAAGTCTTTTA
* *
11943397 AGCTGAATTTGTTTAAATA
66 AGCTAAATTTATTTAAATA
* * * * *
11943416 TCGAGATTTGTAAAACCTTCGGGCGTGATCTCTAAGTC-CCCGGGGTAAGATTTGTAAGTCTTTT
1 TCGAGATTTGTAAAACCTTCGAGCATAATCCCTAAGTCACCC-GGGTAAGATTTCTAAGTCTTTT
* * *
11943480 GAGCTAAATTTATTTTAATG
65 AAGCTAAATTTATTTAAATA
*
11943500 TCAAGATTT
1 TCGAGATTT
11943509 ATAAGACGTC
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
83 2 0.03
84 77 0.97
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (84 bp):
TCGAGATTTGTAAAACCTTCGAGCATAATCCCTAAGTCACCCGGGTAAGATTTCTAAGTCTTTTA
AGCTAAATTTATTTAAATA
Found at i:11943531 original size:84 final size:84
Alignment explanation
Indices: 11943335--11943534 Score: 190
Period size: 84 Copynumber: 2.4 Consensus size: 84
11943325 ATGGGTGTCG
* * * * *
11943335 AGATTTGTAATACCTTC-GAGCATAATCCCTAAGTCATCCGGGTAAGATTTCTAAGTCTTTTAAG
1 AGATTTATAAAACCTTCAG-GCGTAATCTCTAAGTCACCCGGGTAAGATTTCTAAGTCTTTTAAG
* * *
11943399 CTGAATTTGTTTAAATATCG
65 CTAAATTTATTTAAATATCA
* * * * *
11943419 AGATTTGTAAAACCTTCGGGCGTGATCTCTAAGTC-CCCGGGGTAAGATTTGTAAGTCTTTTGAG
1 AGATTTATAAAACCTTCAGGCGTAATCTCTAAGTCACCC-GGGTAAGATTTCTAAGTCTTTTAAG
* *
11943483 CTAAATTTATTTTAATGTCA
65 CTAAATTTATTTAAATATCA
* * *
11943503 AGATTTATAAGA-CGTCTAGGTGTAATCTCTAA
1 AGATTTATAAAACCTTC-AGGCGTAATCTCTAA
11943535 ATTTTCTAGG
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
83 5 0.05
84 89 0.94
85 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.36
Consensus pattern (84 bp):
AGATTTATAAAACCTTCAGGCGTAATCTCTAAGTCACCCGGGTAAGATTTCTAAGTCTTTTAAGC
TAAATTTATTTAAATATCA
Found at i:11943915 original size:25 final size:25
Alignment explanation
Indices: 11943877--11943926 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
11943867 TAATGAGAGA
11943877 AGCTTTTAGATTTATTTTCAAAAGT
1 AGCTTTTAGATTTATTTTCAAAAGT
*
11943902 AGCTTTTAGGTTTATTTTCAAAAGT
1 AGCTTTTAGATTTATTTTCAAAAGT
11943927 TATGGAGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (25 bp):
AGCTTTTAGATTTATTTTCAAAAGT
Found at i:11943951 original size:71 final size:71
Alignment explanation
Indices: 11943841--11943972 Score: 221
Period size: 71 Copynumber: 1.9 Consensus size: 71
11943831 AACTTTTATA
* * *
11943841 TTTATTTTCAATAGTTGTGGAGTTTCTAATGAGAGAAGCTTTTAGATTTATTTTCAAAAGTAGCT
1 TTTATTTTCAAAAGTTATGGAGTCTCTAATGAGAGAAGCTTTTAGATTTATTTTCAAAAGTAGCT
11943906 TTTAGG
66 TTTAGG
11943912 TTTATTTTCAAAAGTTATGGAGTCTCTAATGAGTA-AAGCTTTTAGATTTATTTTCAAAAGT
1 TTTATTTTCAAAAGTTATGGAGTCTCTAATGAG-AGAAGCTTTTAGATTTATTTTCAAAAGT
11943973 TATGAAGCCT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 56 0.98
72 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (71 bp):
TTTATTTTCAAAAGTTATGGAGTCTCTAATGAGAGAAGCTTTTAGATTTATTTTCAAAAGTAGCT
TTTAGG
Found at i:11943969 original size:46 final size:45
Alignment explanation
Indices: 11943897--11944091 Score: 214
Period size: 46 Copynumber: 4.2 Consensus size: 45
11943887 TTTATTTTCA
* *
11943897 AAAGTAGCTTTTAGGTTTATTTTCAAAAGTTATGGAGTCTCTAATG
1 AAAG-AGCTTTTAGATTTATTTTCAAAAGTTATGGAGCCTCTAATG
* *
11943943 AGTAA-AGCTTTTAGATTTATTTTCAAAAGTTATGAAGCCTCTAATA
1 A--AAGAGCTTTTAGATTTATTTTCAAAAGTTATGGAGCCTCTAATG
* * * *
11943989 AAATGAGCTTTTATATTTATTTTCAAAAGTTATAGAGCATTTAATG
1 AAA-GAGCTTTTAGATTTATTTTCAAAAGTTATGGAGCCTCTAATG
* * *
11944035 AAATGAGC-TTTAGATATATTTTCAAAAGTTATGCAACCTCTAATG
1 AAA-GAGCTTTTAGATTTATTTTCAAAAGTTATGGAGCCTCTAATG
*
11944080 AGACGAGCTTTT
1 A-AAGAGCTTTT
11944092 CGAGAATTCA
Statistics
Matches: 125, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
44 2 0.02
45 35 0.28
46 86 0.69
48 2 0.02
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.39
Consensus pattern (45 bp):
AAAGAGCTTTTAGATTTATTTTCAAAAGTTATGGAGCCTCTAATG
Found at i:11944089 original size:91 final size:91
Alignment explanation
Indices: 11943902--11944091 Score: 235
Period size: 91 Copynumber: 2.1 Consensus size: 91
11943892 TTTCAAAAGT
* * *
11943902 AGCTTTTAGGTTTATTTTCAAAAGTTATGGAGTCTCTAATGAGTAAAGCTTTTAGATTTATTTTC
1 AGCTTTTAGATTTATTTTCAAAAGTTATAGAGTCTCTAATGAG-AAAGCTTTTAGATATATTTTC
*
11943967 AAAAGTTATGAAGCCTCTAATAAAATG
65 AAAAGTTATGAAGCCTCTAATAAAACG
* *
11943994 AGCTTTTATATTTATTTTCAAAAGTTATAGAG-CATTTAATGA-AATGAGC-TTTAGATATATTT
1 AGCTTTTAGATTTATTTTCAAAAGTTATAGAGTC-TCTAATGAGAA--AGCTTTTAGATATATTT
* *
11944056 TCAAAAGTTATGCAA-CCTCTAATGAGACG
63 TCAAAAGTTATG-AAGCCTCTAATAAAACG
11944085 AGCTTTT
1 AGCTTTT
11944092 CGAGAATTCA
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
90 2 0.02
91 43 0.50
92 41 0.48
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (91 bp):
AGCTTTTAGATTTATTTTCAAAAGTTATAGAGTCTCTAATGAGAAAGCTTTTAGATATATTTTCA
AAAGTTATGAAGCCTCTAATAAAACG
Found at i:11945981 original size:21 final size:21
Alignment explanation
Indices: 11945955--11946037 Score: 98
Period size: 21 Copynumber: 4.0 Consensus size: 21
11945945 TTTTACTTAT
11945955 AAATAATATTATATTAATAAA
1 AAATAATATTATATTAATAAA
*
11945976 AAATAATATTATATGAATAAA
1 AAATAATATTATATTAATAAA
* * * *
11945997 TAAT-ATTTTA-ATAAATTAAT
1 AAATAATATTATATTAA-TAAA
11946017 AAATAATATTATATTAATAAA
1 AAATAATATTATATTAATAAA
11946038 TATTATACTA
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
19 4 0.08
20 11 0.22
21 31 0.62
22 4 0.08
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (21 bp):
AAATAATATTATATTAATAAA
Found at i:11946028 original size:41 final size:39
Alignment explanation
Indices: 11945953--11946039 Score: 120
Period size: 41 Copynumber: 2.2 Consensus size: 39
11945943 AATTTTACTT
*
11945953 ATAAATAATATTATATTAATAAAAAATAATATTATATGA
1 ATAAATAATATTATATAAATAAAAAATAATATTATATGA
* * *
11945992 ATAAATAATATTTTAATAAATTAATAAATAATATTATATTA
1 ATAAATAATATTAT-ATAAA-TAAAAAATAATATTATATGA
11946033 ATAAATA
1 ATAAATA
11946040 TTATACTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 13 0.31
40 4 0.10
41 25 0.60
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (39 bp):
ATAAATAATATTATATAAATAAAAAATAATATTATATGA
Found at i:11946101 original size:13 final size:13
Alignment explanation
Indices: 11946085--11946206 Score: 94
Period size: 13 Copynumber: 9.5 Consensus size: 13
11946075 AAGTAATATT
11946085 ATATTAATAAATA
1 ATATTAATAAATA
*
11946098 ATATTAAGAAATA
1 ATATTAATAAATA
11946111 ATATT-AT-AAT-
1 ATATTAATAAATA
*
11946121 ATATTATTAAA-A
1 ATATTAATAAATA
*
11946133 ATA-TAATAAAAA
1 ATATTAATAAATA
* * *
11946145 ATATTATTAATTT
1 ATATTAATAAATA
11946158 A-ATTAATAAATA
1 ATATTAATAAATA
*
11946170 ATATACTATTAATATAA
1 ATAT--TAATAA-AT-A
11946187 TATATTAATAAATA
1 -ATATTAATAAATA
11946201 ATATTA
1 ATATTA
11946207 TAGTATTATT
Statistics
Matches: 85, Mismatches: 13, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
10 5 0.06
11 10 0.12
12 19 0.22
13 31 0.36
14 1 0.01
15 7 0.08
16 7 0.08
17 1 0.01
18 4 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (13 bp):
ATATTAATAAATA
Found at i:11946140 original size:58 final size:56
Alignment explanation
Indices: 11945994--11946140 Score: 133
Period size: 58 Copynumber: 2.6 Consensus size: 56
11945984 TTATATGAAT
* *
11945994 AAATAATATTTTAATA-A--ATTAATAA-ATAATATTATATTAATAAATATTATAC
1 AAATAATATTATAATATATTATTAATAATATAATATTATATTAATAAATAATATAC
* * * * * *
11946046 TAATACTA-TACTAATATTTTAATATTAATAAGTAATATTATATTAATAAATAATATTAAG
1 AAATAATATTA-TAATATATTATTAATAAT-A-TAATATTATATTAATAAATAATA-T-AC
*
11946106 AAATAATATTATAATATATTATTAAAAATATAATA
1 AAATAATATTATAATATATTATTAATAATATAATA
11946141 AAAAATATTA
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
51 1 0.01
52 11 0.15
55 6 0.08
57 1 0.01
58 27 0.38
59 2 0.03
60 21 0.30
61 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (56 bp):
AAATAATATTATAATATATTATTAATAATATAATATTATATTAATAAATAATATAC
Found at i:11946171 original size:16 final size:16
Alignment explanation
Indices: 11946152--11946204 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
11946142 AAAATATTAT
*
11946152 TAATTTAATTAATAAA
1 TAATATAATTAATAAA
11946168 TAATATACTATTAAT--A
1 TAATATA--ATTAATAAA
11946184 TAATAT-ATTAATAAA
1 TAATATAATTAATAAA
11946199 TAATAT
1 TAATAT
11946205 TATAGTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
13 6 0.19
15 7 0.22
16 13 0.41
18 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATATAATTAATAAA
Found at i:11946179 original size:27 final size:30
Alignment explanation
Indices: 11946116--11946204 Score: 88
Period size: 31 Copynumber: 3.2 Consensus size: 30
11946106 AAATAATATT
*
11946116 ATAATATATTATTAA-A-A-ATA-TAATAA
1 ATAATATACTATTAATATATATATTAATAA
*
11946142 A-AA-ATATTATTAAT-T-TA-ATTAATAA
1 ATAATATACTATTAATATATATATTAATAA
11946167 ATAATATACTATTAATATAATATATTAATAA
1 ATAATATACTATTAATAT-ATATATTAATAA
11946198 ATAATAT
1 ATAATAT
11946205 TATAGTATTA
Statistics
Matches: 52, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
24 11 0.21
25 10 0.19
26 3 0.06
27 10 0.19
28 1 0.02
30 2 0.04
31 15 0.29
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (30 bp):
ATAATATACTATTAATATATATATTAATAA
Found at i:11946208 original size:18 final size:18
Alignment explanation
Indices: 11945953--11946208 Score: 143
Period size: 18 Copynumber: 13.8 Consensus size: 18
11945943 AATTTTACTT
11945953 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
*
11945971 ATAAAAAATAATATTATATGA
1 AT---AAATAATATTATATTA
11945992 ATAAATAATATTTTAATAAATTA
1 ATAAATAATA--TT-AT--ATTA
11946015 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
* *
11946033 ATAAATATTA-TACTAATA
1 ATAAATAATATTA-TATTA
* *
11946051 CTATACTAATATTTTAATATTA
1 ATA-AATAATA--TT-ATATTA
*
11946073 ATAAGTAATATTATATTA
1 ATAAATAATATTATATTA
**
11946091 ATAAATAATATTA-AGAA
1 ATAAATAATATTATATTA
* *
11946108 ATAATATTATAATATATTA
1 ATAA-ATAATATTATATTA
*
11946127 TTAAA-AATA-TA-A-TA
1 ATAAATAATATTATATTA
* *
11946141 AAAAATATTATTA-ATTTA
1 ATAAATAATATTATA-TTA
* * *
11946159 ATTAATAAATAATATACT-
1 ATAAAT-AATATTATATTA
* *
11946177 ATTAAT-ATAATATATTA
1 ATAAATAATATTATATTA
11946194 ATAAATAATATTATA
1 ATAAATAATATTATA
11946209 GTATTATTTG
Statistics
Matches: 184, Mismatches: 30, Indels: 48
0.70 0.11 0.18
Matches are distributed among these distances:
14 5 0.03
15 4 0.02
16 14 0.08
17 16 0.09
18 74 0.40
19 18 0.10
20 5 0.03
21 27 0.15
22 7 0.04
23 14 0.08
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:11946216 original size:24 final size:23
Alignment explanation
Indices: 11946187--11946244 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 23
11946177 ATTAATATAA
11946187 TATATTAATAAATAATATTATAG-
1 TATATTAATAAA-AATATTATAGT
11946210 TATTATTTGAA-AAAAATATTATAGT
1 TA-TA-TT-AATAAAAATATTATAGT
11946235 TATATTAATA
1 TATATTAATA
11946245 TTATTTGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
22 2 0.07
23 5 0.17
24 14 0.47
25 7 0.23
26 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (23 bp):
TATATTAATAAAAATATTATAGT
Found at i:11956384 original size:35 final size:35
Alignment explanation
Indices: 11956338--11956405 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
11956328 GTGTATTAAG
*
11956338 GCTATTATGGTGCCTGACTAAACTAGACTGAAATA
1 GCTATTATGGTGCCTAACTAAACTAGACTGAAATA
*
11956373 GCTATTATGGTGCCTAACTAAACTAGATTGAAA
1 GCTATTATGGTGCCTAACTAAACTAGACTGAAA
11956406 CAAGGTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (35 bp):
GCTATTATGGTGCCTAACTAAACTAGACTGAAATA
Found at i:11961424 original size:39 final size:37
Alignment explanation
Indices: 11961363--11961471 Score: 103
Period size: 39 Copynumber: 2.8 Consensus size: 37
11961353 TCAGCTTGAG
* * *
11961363 GGTTTAAGGGTTAGCTTCGGGGTTTAAGGTTGACTTCAA
1 GGTTTAA-GTTTAACTTTGGGGTTTAAGGTTGA-TTCAA
**
11961402 GGTTT-AGCTATTAACTTTGGGGTTTAAGGGTTGATTTTA
1 GGTTTAAG-T-TTAACTTTGGGGTTTAA-GGTTGATTCAA
*
11961441 GGTTTAAAGTTTGACTTTGGGGTTTAAGGTT
1 GGTTT-AAGTTTAACTTTGGGGTTTAAGGTT
11961472 TGAATTTGGT
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
37 1 0.02
38 5 0.08
39 44 0.75
40 7 0.12
41 2 0.03
ACGTcount: A:0.20, C:0.06, G:0.31, T:0.42
Consensus pattern (37 bp):
GGTTTAAGTTTAACTTTGGGGTTTAAGGTTGATTCAA
Found at i:11961466 original size:20 final size:20
Alignment explanation
Indices: 11961362--11961480 Score: 84
Period size: 20 Copynumber: 6.0 Consensus size: 20
11961352 TTCAGCTTGA
* *
11961362 GGGTTTAAGGGTT-AGCTTCG
1 GGGTTTAAGGTTTGA-CTTTG
**
11961382 GGGTTTAAGG-TTGACTTCA
1 GGGTTTAAGGTTTGACTTTG
* * *
11961401 AGGTTT-AGCTATTAACTTTG
1 GGGTTTAAGGT-TTGACTTTG
* *
11961421 GGGTTTAAGGGTTGA-TTTT
1 GGGTTTAAGGTTTGACTTTG
* *
11961440 AGGTTTAAAGTTTGACTTTG
1 GGGTTTAAGGTTTGACTTTG
*
11961460 GGGTTTAAGGTTTGAATTTG
1 GGGTTTAAGGTTTGACTTTG
11961480 G
1 G
11961481 TTGAGTATTA
Statistics
Matches: 76, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
18 2 0.03
19 26 0.34
20 46 0.61
21 2 0.03
ACGTcount: A:0.20, C:0.06, G:0.32, T:0.42
Consensus pattern (20 bp):
GGGTTTAAGGTTTGACTTTG
Found at i:11961584 original size:20 final size:20
Alignment explanation
Indices: 11961525--11961585 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
11961515 TTGAGGTTTG
11961525 TAGT-TTTG-CTTTAGGGTT
1 TAGTGTTTGACTTTAGGGTT
* * * *
11961543 GAGAGGTTGA-TTTTGGGTTT
1 TAGTGTTTGACTTTAGGG-TT
11961563 TAGTGTTTGACTTTAGGGTT
1 TAGTGTTTGACTTTAGGGTT
11961583 TAG
1 TAG
11961586 GATTGGGCTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
18 2 0.06
19 9 0.29
20 14 0.45
21 6 0.19
ACGTcount: A:0.15, C:0.03, G:0.33, T:0.49
Consensus pattern (20 bp):
TAGTGTTTGACTTTAGGGTT
Found at i:11961650 original size:13 final size:14
Alignment explanation
Indices: 11961634--11961672 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
11961624 GATTAGTGCC
11961634 AGGTTTTA-GGTTT
1 AGGTTTTAGGGTTT
11961647 AGG--TTAGGGTTT
1 AGGTTTTAGGGTTT
11961659 -GGTTTTAGGGTTT
1 AGGTTTTAGGGTTT
11961672 A
1 A
11961673 ATTTTGGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.23
12 5 0.23
13 12 0.55
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (14 bp):
AGGTTTTAGGGTTT
Found at i:11963049 original size:142 final size:145
Alignment explanation
Indices: 11962643--11963061 Score: 350
Period size: 144 Copynumber: 2.9 Consensus size: 145
11962633 TGATCTAGTT
* * * ** * * * * *
11962643 CTTTTTATGAAAAATCG-ACCTCGAAAAGATCAAATTACGAAAATAATCTTAAAGAAAATTTTGG
1 CTTTTTACGAAAAAT-GAACCTCAAAAAGATCAAATTACAAAAATACCCCTAAAGGATATTTCGA
*** * * * * * * * * *
11962707 TAATTTCATGCCTTCCAAGCTACAATCGAGG-ATTTTAATACATAAAAAATCATGAAGTAATATT
65 TAATTTCACATCTTTCAAGATGCAATCAAGGTTTTTTAATGCATCAAAAATCATAAAATAATATT
*
11962771 AAAACATAATTTGGAG
130 AAAACATAACTTGGAG
* * * *
11962787 CTTTTTACGAAAAATGAACCTCAAAAAGATTAAATTACAAAAATACCCTTAAAGGATATTTTGGT
1 CTTTTTACGAAAAATGAACCTCAAAAAGATCAAATTACAAAAATACCCCTAAAGGATATTTCGAT
** * *
11962852 AATTTCACATCTTTCAAGATGTGATCAAGGTTTTTTCATGCATCAAAAATCATAAAATAATATTT
66 AATTTCACATCTTTCAAGATGCAATCAAGGTTTTTTAATGCATCAAAAATCATAAAATAATATTA
* *
11962917 AATCATGACTTGGAG
131 AAACATAACTTGGAG
** * *** *
11962932 CTTTTTGTGAAAACTG-ACCTTGGAAAGGTCAAATTACAAAAATACCCCTAAA-GATATTTCGAT
1 CTTTTTACGAAAAATGAACCTCAAAAAGATCAAATTACAAAAATACCCCTAAAGGATATTTCGAT
* * *
11962995 AATTTCA-ATCCTCTT-GAGGTGCAAT-AA-GTGTTTTTAATGCATCAAAAATCATAAAATTATA
66 AATTTCACAT-CT-TTCAAGATGCAATCAAGGT-TTTTTAATGCATCAAAAATCATAAAATAATA
*
11963056 TAAAAA
128 TTAAAA
11963062 TATGATCTCG
Statistics
Matches: 223, Mismatches: 47, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
141 2 0.01
142 36 0.16
143 25 0.11
144 108 0.48
145 52 0.23
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (145 bp):
CTTTTTACGAAAAATGAACCTCAAAAAGATCAAATTACAAAAATACCCCTAAAGGATATTTCGAT
AATTTCACATCTTTCAAGATGCAATCAAGGTTTTTTAATGCATCAAAAATCATAAAATAATATTA
AAACATAACTTGGAG
Found at i:11966034 original size:20 final size:20
Alignment explanation
Indices: 11966006--11966045 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11965996 TTAGGTTTGG
11966006 GATTAGACTTTGGGATTTTA
1 GATTAGACTTTGGGATTTTA
* *
11966026 GATTTGACTTTGGGGTTTTA
1 GATTAGACTTTGGGATTTTA
11966046 AGGGCTGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.05, G:0.28, T:0.47
Consensus pattern (20 bp):
GATTAGACTTTGGGATTTTA
Found at i:11966182 original size:18 final size:19
Alignment explanation
Indices: 11966154--11966199 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
11966144 GTGTTTGGTT
11966154 TTAGAGTTTAA-GGTTTGAGA
1 TTAG-GTTTAAGGGTTTG-GA
11966174 TT-GGTTTAAGGGTTTGGA
1 TTAGGTTTAAGGGTTTGGA
11966192 TTAGGTTT
1 TTAGGTTT
11966200 TGGATTAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.42
19 12 0.50
20 2 0.08
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.46
Consensus pattern (19 bp):
TTAGGTTTAAGGGTTTGGA
Found at i:11966262 original size:63 final size:63
Alignment explanation
Indices: 11966141--11966258 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 63
11966131 GTTTTAAGGT
*
11966141 TTAGTGTTTGGTTTTAGAGTTTAAGGTTTGAGATTGGTTTAAGGGTTTGGATTAGGTTTTGGA
1 TTAGTGTTTGGTTTTAGAGTTTAAGGTTTGAGATTGGTTTAAGGGCTTGGATTAGGTTTTGGA
* *
11966204 TTAGTGTTTGGTTTT-G-GTTTTAAGGTTTAGGGATTGGTTTAA-GGCTTGGGTTAGG
1 TTAGTGTTTGGTTTTAGAG-TTTAAGGTTT-GAGATTGGTTTAAGGGCTTGGATTAGG
11966259 GTTTACCATG
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
61 1 0.02
62 22 0.44
63 27 0.54
ACGTcount: A:0.17, C:0.01, G:0.35, T:0.47
Consensus pattern (63 bp):
TTAGTGTTTGGTTTTAGAGTTTAAGGTTTGAGATTGGTTTAAGGGCTTGGATTAGGTTTTGGA
Found at i:11966801 original size:61 final size:61
Alignment explanation
Indices: 11966731--11966850 Score: 231
Period size: 61 Copynumber: 2.0 Consensus size: 61
11966721 TTTTTTTTAA
11966731 ACCATAAAACATGTAGCAAACAAGTCATAAAGTAAGGAAATACATAATCATAAGGTTGCCT
1 ACCATAAAACATGTAGCAAACAAGTCATAAAGTAAGGAAATACATAATCATAAGGTTGCCT
*
11966792 ACCATAAAACATGTAGCAAACAATTCATAAAGTAAGGAAATACATAATCATAAGGTTGC
1 ACCATAAAACATGTAGCAAACAAGTCATAAAGTAAGGAAATACATAATCATAAGGTTGC
11966851 ATCACCAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (61 bp):
ACCATAAAACATGTAGCAAACAAGTCATAAAGTAAGGAAATACATAATCATAAGGTTGCCT
Found at i:11997491 original size:17 final size:17
Alignment explanation
Indices: 11997465--11997506 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
11997455 AGGGTTTTTT
11997465 TTTTCCTTTTTTACTTTA
1 TTTT-CTTTTTTACTTTA
11997483 -TTTCTTTTTTACTTTA
1 TTTTCTTTTTTACTTTA
11997499 TTTTCTTT
1 TTTTCTTT
11997507 AAAACTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCTTTTTTACTTTA
Found at i:11997747 original size:18 final size:17
Alignment explanation
Indices: 11997714--11997746 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11997704 AATGATATAT
11997714 CATTTTTTTCCTTTTTC
1 CATTTTTTTCCTTTTTC
11997731 CATTTTTCTT-CTTTTT
1 CATTTTT-TTCCTTTTT
11997747 TTATATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (17 bp):
CATTTTTTTCCTTTTTC
Found at i:11998428 original size:20 final size:22
Alignment explanation
Indices: 11998384--11998428 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
11998374 GGTTTTTTCT
* *
11998384 TTTTCAAAAATAATATTTCATA
1 TTTTCAAAAATAATATTTAAAA
11998406 TTTT-AAAAAT-ATATTTAAAA
1 TTTTCAAAAATAATATTTAAAA
11998426 TTT
1 TTT
11998429 CTTTAATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 6 0.29
22 4 0.19
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTCAAAAATAATATTTAAAA
Found at i:12000773 original size:12 final size:12
Alignment explanation
Indices: 12000747--12000780 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12000737 AAAAGAATTA
12000747 GTTGATTGTTATT
1 GTTG-TTGTTATT
*
12000760 GTTGTTGTTTTT
1 GTTGTTGTTATT
12000772 GTTGTTGTT
1 GTTGTTGTT
12000781 GGTATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.06, C:0.00, G:0.26, T:0.68
Consensus pattern (12 bp):
GTTGTTGTTATT
Found at i:12000789 original size:30 final size:30
Alignment explanation
Indices: 12000755--12000828 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
12000745 TAGTTGATTG
* *
12000755 TTATTGTTGTTGTT-TTTGTTGTTGTTGGTA
1 TTATTGTTGTTGTTGTTT-ATGTTGTTGATA
12000785 TTATT-TATGTTGTTGTTTATGTTGTTGATA
1 TTATTGT-TGTTGTTGTTTATGTTGTTGATA
*
12000815 TTATTGATGTTGTT
1 TTATTGTTGTTGTT
12000829 ATTGATCTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
29 1 0.03
30 34 0.89
31 3 0.08
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (30 bp):
TTATTGTTGTTGTTGTTTATGTTGTTGATA
Done.