Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 54 of 113
Found at i:13766176 original size:111 final size:109
Alignment explanation
Indices: 13766039--13766238 Score: 312
Period size: 111 Copynumber: 1.8 Consensus size: 109
13766029 AATTAACGAT
*
13766039 ATAAATCATTCAAATAAACATGCAATTAAATATATAATCATGCA-AATAAAAATATATAAAACTA
1 ATAAATCATGCAAATAAACATGCAATTAAATATATAATCAT--ATAATAAAAATATATAAAAC-A
* *
13766103 TGTAAATAAATATGTAATTAAATATATAATCATGCAATTAATAATAC
63 TGAAAATAAACATGTAATTAAATATATAATCATGCAATTAATAATAC
* * *
13766150 ATAAATCATGCAAATAAATATGCAATTAAATATATAATCATATAATAATAATATATAAATCATGA
1 ATAAATCATGCAAATAAACATGCAATTAAATATATAATCATATAATAAAAATATATAAAACATGA
13766215 AAATAAACATGTAATTAAATATAT
66 AAATAAACATGTAATTAAATATAT
13766239 TAATAATCAT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
109 27 0.33
110 16 0.20
111 39 0.48
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (109 bp):
ATAAATCATGCAAATAAACATGCAATTAAATATATAATCATATAATAAAAATATATAAAACATGA
AAATAAACATGTAATTAAATATATAATCATGCAATTAATAATAC
Found at i:13766263 original size:54 final size:54
Alignment explanation
Indices: 13766037--13766314 Score: 185
Period size: 55 Copynumber: 5.2 Consensus size: 54
13766027 GCAATTAACG
* * * *
13766037 ATATAAATCATTCAAATAAACATGCAATTAAATATA-TAATCATGCA-AATAAAAAT
1 ATATAAATCA-TGAAATAAACATG-AATTAAATATATTAATAAT-CATGATAATAAT
* * *
13766092 ATATAAAACTATGTAAATAAATATGTAATTAAATATA-TAATCATGCA--ATTAATAAT
1 ATATAAATC-ATG-AAATAAACATG-AATTAAATATATTAATAAT-CATGA-TAATAAT
* * * *
13766148 ACATAAATCATGCAAATAAATATGCAATTAAATATA-TAATCAT-ATAATAATAAT
1 ATATAAATCATG-AAATAAACATG-AATTAAATATATTAATAATCATGATAATAAT
13766202 ATATAAATCATGAAAATAAACATGTAATTAAATATATTAATAATCATGA-AATCAA-
1 ATATAAATCATG-AAATAAACATG-AATTAAATATATTAATAATCATGATAAT-AAT
* *
13766257 AT-TAAAT-AT--AATAATACA--AA-TAAATATATTAATAATCATGCAAAATATT
1 ATATAAATCATGAAATAA-ACATGAATTAAATATATTAATAATCATG-ATAATAAT
13766306 A-ATAAATCA
1 ATATAAATCA
13766315 CACAAATAAA
Statistics
Matches: 193, Mismatches: 16, Indels: 33
0.80 0.07 0.14
Matches are distributed among these distances:
47 20 0.10
48 4 0.02
49 9 0.05
50 6 0.03
51 3 0.02
53 3 0.02
54 44 0.23
55 54 0.28
56 50 0.26
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (54 bp):
ATATAAATCATGAAATAAACATGAATTAAATATATTAATAATCATGATAATAAT
Found at i:13766282 original size:18 final size:19
Alignment explanation
Indices: 13766254--13766290 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
13766244 ATCATGAAAT
13766254 CAAATTAAATATAATAATA
1 CAAATTAAATATAATAATA
*
13766273 CAAA-TAAATATATTAATA
1 CAAATTAAATATAATAATA
13766291 ATCATGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
CAAATTAAATATAATAATA
Found at i:13766282 original size:47 final size:44
Alignment explanation
Indices: 13766230--13766333 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 44
13766220 AACATGTAAT
*
13766230 TAAATATATTAATAATCATG-AAATCAAATTAAATATAATAATACAAA
1 TAAATATATTAATAATCATGCAAA--AAATT-AATA-AATAACACAAA
* *
13766277 TAAATATATTAATAATCATGCAAAATATTAATAAATCACACAAA
1 TAAATATATTAATAATCATGCAAAAAATTAATAAATAACACAAA
13766321 TAAATATATTAAT
1 TAAATATATTAAT
13766334 CATGTAAACA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
44 22 0.42
45 4 0.08
46 4 0.08
47 20 0.38
48 3 0.06
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (44 bp):
TAAATATATTAATAATCATGCAAAAAATTAATAAATAACACAAA
Found at i:13766291 original size:21 final size:21
Alignment explanation
Indices: 13766231--13766351 Score: 66
Period size: 21 Copynumber: 5.4 Consensus size: 21
13766221 ACATGTAATT
*
13766231 AAATATATTAATAATCATGAAATC
1 AAATATATTAATAAT-A-CAAA-C
* *
13766255 AAATTAAATATAATAATACAAAT
1 AAA-TATAT-TAATAATACAAAC
**
13766278 AAATATATTAATAAT-CATGC
1 AAATATATTAATAATACAAAC
*
13766298 AAA-ATATTAATAAATCACACAAAT
1 AAATATATTAAT-AAT---ACAAAC
* **
13766322 AAATATATTAATCATGTAAAC
1 AAATATATTAATAATACAAAC
13766343 AAATATATT
1 AAATATATT
13766352 TAACAAATAA
Statistics
Matches: 75, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
19 8 0.11
20 8 0.11
21 19 0.25
22 4 0.05
23 3 0.04
24 13 0.17
25 13 0.17
26 7 0.09
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.32
Consensus pattern (21 bp):
AAATATATTAATAATACAAAC
Found at i:13766300 original size:24 final size:24
Alignment explanation
Indices: 13766216--13766333 Score: 83
Period size: 24 Copynumber: 5.1 Consensus size: 24
13766206 AAATCATGAA
* * *
13766216 AATAAACATGTAATTAAATATATT
1 AATAATCATGCAAATAAATATATT
*
13766240 AATAATCATG-AAATCAAATTAAATAT
1 AATAATCATGCAAAT-AAA-TATAT-T
13766266 AATAAT-A--CAAATAAATATATT
1 AATAATCATGCAAATAAATATATT
13766287 AATAATCATGC----AAA-ATATT
1 AATAATCATGCAAATAAATATATT
**
13766306 AATAAATCACACAAATAAATATATT
1 AAT-AATCATGCAAATAAATATATT
13766331 AAT
1 AAT
13766334 CATGTAAACA
Statistics
Matches: 75, Mismatches: 6, Indels: 25
0.71 0.06 0.24
Matches are distributed among these distances:
19 8 0.11
20 9 0.12
21 7 0.09
22 5 0.07
23 6 0.08
24 20 0.27
25 13 0.17
26 7 0.09
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.32
Consensus pattern (24 bp):
AATAATCATGCAAATAAATATATT
Found at i:13766320 original size:20 final size:19
Alignment explanation
Indices: 13766260--13766320 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
13766250 AAATCAAATT
* *
13766260 AAATA-TAATAATACAAATA
1 AAATATTAATAAT-CACACA
**
13766279 AATATATTAATAATCATGCA
1 AA-ATATTAATAATCACACA
13766299 AAATATTAATAAATCACACA
1 AAATATTAAT-AATCACACA
13766319 AA
1 AA
13766321 TAAATATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
19 10 0.29
20 17 0.50
21 7 0.21
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.28
Consensus pattern (19 bp):
AAATATTAATAATCACACA
Found at i:13766347 original size:44 final size:44
Alignment explanation
Indices: 13766242--13766349 Score: 112
Period size: 44 Copynumber: 2.4 Consensus size: 44
13766232 AATATATTAA
*
13766242 TAATCATGAAATCAAAT-TAAATATAATAATACAAATAAATATAT
1 TAATCATGAAA-CAAATATAAATATAATAACACAAATAAATATAT
* * ** * *
13766286 TAATAATCATGCAAAATATTAATA-AATCACACAAATAAATATAT
1 TAATCATGAAAC-AAATATAAATATAATAACACAAATAAATATAT
13766330 TAATCATGTAAACAAATATA
1 TAATCATG-AAACAAATATA
13766350 TTTAACAAAT
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
43 1 0.02
44 41 0.84
45 7 0.14
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (44 bp):
TAATCATGAAACAAATATAAATATAATAACACAAATAAATATAT
Found at i:13766391 original size:20 final size:18
Alignment explanation
Indices: 13766358--13766394 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
13766348 TATTTAACAA
13766358 ATAAATTATCATGCAAAG
1 ATAAATTATCATGCAAAG
13766376 ATAATATTAGTCATGCAAA
1 ATAA-ATTA-TCATGCAAA
13766395 TTCGTGCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
ATAAATTATCATGCAAAG
Found at i:13771247 original size:13 final size:13
Alignment explanation
Indices: 13771229--13771295 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 13
13771219 TGAACATATG
13771229 CTGAATGGTGTTT
1 CTGAATGGTGTTT
13771242 CTGAATGGT-TTGT
1 CTGAATGGTGTT-T
*
13771255 -TGAATGATGTTT
1 CTGAATGGTGTTT
* * *
13771267 TTGAGTGGT-TTG
1 CTGAATGGTGTTT
* *
13771279 CTGAAGGGTGTGT
1 CTGAATGGTGTTT
13771292 CTGA
1 CTGA
13771296 GCACATTGCT
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
12 18 0.44
13 23 0.56
ACGTcount: A:0.16, C:0.06, G:0.34, T:0.43
Consensus pattern (13 bp):
CTGAATGGTGTTT
Found at i:13771296 original size:25 final size:25
Alignment explanation
Indices: 13771227--13771296 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
13771217 GCTGAACATA
*
13771227 TGCTGAATGGTGTTTCTGAATGGTT
1 TGCTGAATGGTGTTTCTGAGTGGTT
* * *
13771252 TGTTGAATGATGTTTTTGAGTGGTT
1 TGCTGAATGGTGTTTCTGAGTGGTT
* *
13771277 TGCTGAAGGGTGTGTCTGAG
1 TGCTGAATGGTGTTTCTGAG
13771297 CACATTGCTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.16, C:0.06, G:0.36, T:0.43
Consensus pattern (25 bp):
TGCTGAATGGTGTTTCTGAGTGGTT
Found at i:13774479 original size:34 final size:35
Alignment explanation
Indices: 13774441--13774509 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
13774431 ATATATAAAC
* *
13774441 CAAATATTTTCTGGGCATAAACATACAA-TGACTT
1 CAAATATTTTCTAGGCAAAAACATACAACTGACTT
* *
13774475 CAAATTTTTTCTAGGCAAAAACCTACAACTGACTT
1 CAAATATTTTCTAGGCAAAAACATACAACTGACTT
13774510 GACATATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 24 0.80
35 6 0.20
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (35 bp):
CAAATATTTTCTAGGCAAAAACATACAACTGACTT
Found at i:13780055 original size:44 final size:44
Alignment explanation
Indices: 13779963--13780056 Score: 102
Period size: 44 Copynumber: 2.1 Consensus size: 44
13779953 CCCTGTGTCT
* * *
13779963 TATAAAGTTTAATTTAATATTATTGTGGGAAGTTTGTTTGGTCT
1 TATAAAGCTTAATTTAATATTATTGTGGGAAGTTCGTTTGGTCA
* * *
13780007 TATAAAGCCTTAATTTAATTATTGTTGTTGGAAG-TCGTTT-TTCA
1 TATAAAG-CTTAATTTAA-TATTATTGTGGGAAGTTCGTTTGGTCA
13780051 TATAAA
1 TATAAA
13780057 AATTGCTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
44 15 0.36
45 14 0.33
46 13 0.31
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.48
Consensus pattern (44 bp):
TATAAAGCTTAATTTAATATTATTGTGGGAAGTTCGTTTGGTCA
Found at i:13780642 original size:19 final size:20
Alignment explanation
Indices: 13780618--13780655 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13780608 ATTGATGGTG
*
13780618 TATTAAA-TATGATTTTTTA
1 TATTAAATTATAATTTTTTA
13780637 TATTAAATTATAATTTTTT
1 TATTAAATTATAATTTTTT
13780656 TATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TATTAAATTATAATTTTTTA
Found at i:13780667 original size:19 final size:20
Alignment explanation
Indices: 13780622--13780667 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
13780612 ATGGTGTATT
* *
13780622 AAATATGATTTTTTATATTA
1 AAATATAATTTTTTATATAA
*
13780642 AATTATAATTTTTT-TATAA
1 AAATATAATTTTTTATATAA
13780661 AAATATA
1 AAATATA
13780668 TTTAAAAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
AAATATAATTTTTTATATAA
Found at i:13781790 original size:2 final size:2
Alignment explanation
Indices: 13781783--13781827 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
13781773 TCTTTTATAA
13781783 TC TC TC TC TC TC TC 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 TC TC TC TC TC TC TC
13781825 TC T
1 TC T
13781828 GTGTGGAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:13782768 original size:16 final size:16
Alignment explanation
Indices: 13782725--13782762 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
13782715 AACATATACT
**
13782725 TTAATTAGAATGCAAC
1 TTAATTAGAATTTAAC
13782741 TTAATTAGAATTTAAC
1 TTAATTAGAATTTAAC
13782757 TTAATT
1 TTAATT
13782763 GTAATTAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (16 bp):
TTAATTAGAATTTAAC
Found at i:13784540 original size:18 final size:19
Alignment explanation
Indices: 13784517--13784556 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
13784507 TATATTAAAA
13784517 TAAATAAAAAATT-TTATT
1 TAAATAAAAAATTATTATT
*
13784535 TAAATAAACAATTATTATT
1 TAAATAAAAAATTATTATT
13784554 TAA
1 TAA
13784557 TTTAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATAAAAAATTATTATT
Found at i:13785248 original size:9 final size:9
Alignment explanation
Indices: 13785234--13785258 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13785224 ACAAATGTAC
13785234 AGTGGAGGT
1 AGTGGAGGT
13785243 AGTGGAGGT
1 AGTGGAGGT
13785252 AGTGGAG
1 AGTGGAG
13785259 ACAATTGCCC
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:0.24, C:0.00, G:0.56, T:0.20
Consensus pattern (9 bp):
AGTGGAGGT
Found at i:13788409 original size:2 final size:2
Alignment explanation
Indices: 13788404--13788446 Score: 68
Period size: 2 Copynumber: 21.0 Consensus size: 2
13788394 TTAGTTAACT
*
13788404 TA TA TA TA TT TA GTA 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 TA TA
13788447 CATTTGCCCC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13792698 original size:23 final size:21
Alignment explanation
Indices: 13792663--13792711 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
13792653 TTTAGGAAAT
13792663 GGCTATGAAGGATTAACACATCC
1 GGCTATGAAGGA-TAA-ACATCC
* *
13792686 GGCTTTGAGGGATAAACATCC
1 GGCTATGAAGGATAAACATCC
*
13792707 AGCTA
1 GGCTA
13792712 CTGTGTGGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 9 0.41
22 3 0.14
23 10 0.45
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (21 bp):
GGCTATGAAGGATAAACATCC
Found at i:13794267 original size:3 final size:3
Alignment explanation
Indices: 13794259--13794286 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13794249 CAAGTTAAAA
13794259 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
13794287 TGGTTCTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:13795078 original size:2 final size:2
Alignment explanation
Indices: 13795071--13795117 Score: 51
Period size: 2 Copynumber: 23.5 Consensus size: 2
13795061 TACTCATTCA
* * *
13795071 AT AT AT AT AT AT AT AT AT AT AT AT A- AT TT AT CAT CT AT CT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
13795113 AT AT A
1 AT AT A
13795118 AAAGTATAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
1 1 0.03
2 34 0.92
3 2 0.05
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13799287 original size:22 final size:22
Alignment explanation
Indices: 13799238--13799312 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
13799228 TAAATCAATG
* * * *
13799238 ATAACATAATAATTGATAATTA
1 ATAACTTAGTAATTAATCATTA
13799260 ATAACTTAGTAATTAATCATTA
1 ATAACTTAGTAATTAATCATTA
* *
13799282 AAAACTT--TAATATAATCAGT-
1 ATAACTTAGTAAT-TAATCATTA
13799302 ATAACTTAGTA
1 ATAACTTAGTA
13799313 GCAATTATTG
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 10 0.23
21 7 0.16
22 26 0.60
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.37
Consensus pattern (22 bp):
ATAACTTAGTAATTAATCATTA
Found at i:13799351 original size:22 final size:22
Alignment explanation
Indices: 13799302--13799400 Score: 155
Period size: 22 Copynumber: 4.5 Consensus size: 22
13799292 TATAATCAGT
* * *
13799302 ATAACTTAGTAGCAA-TTATTG
1 ATAACTTAATAGCAAGTTAGTA
13799323 ATAACTTAATAGCAAGTTAGTA
1 ATAACTTAATAGCAAGTTAGTA
*
13799345 ATAACTTAATAGTAAGTTAGTA
1 ATAACTTAATAGCAAGTTAGTA
13799367 ATAACTTAATAGCAAGTTAGTA
1 ATAACTTAATAGCAAGTTAGTA
13799389 ATAACTTAATAG
1 ATAACTTAATAG
13799401 TAAATTAATG
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
21 14 0.19
22 58 0.81
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (22 bp):
ATAACTTAATAGCAAGTTAGTA
Found at i:13799414 original size:22 final size:22
Alignment explanation
Indices: 13799323--13799648 Score: 123
Period size: 22 Copynumber: 14.8 Consensus size: 22
13799313 GCAATTATTG
* * *
13799323 ATAACTTAATAGCAAGTTAGTA
1 ATAACTTAATAGTAAATTAATA
* *
13799345 ATAACTTAATAGTAAGTTAGTA
1 ATAACTTAATAGTAAATTAATA
* * *
13799367 ATAACTTAATAGCAAGTTAGTA
1 ATAACTTAATAGTAAATTAATA
*
13799389 ATAACTTAATAGTAAATTAATG
1 ATAACTTAATAGTAAATTAATA
* ** * * *
13799411 ATAATTTAGCAGTTAAA-CATTG
1 ATAACTTAATAG-TAAATTAATA
** *
13799433 ATAACTTTCTAGTAAATTAGTA
1 ATAACTTAATAGTAAATTAATA
* *
13799455 ATAA-TACAATAATAAAATGT-ATA
1 ATAACT-TAATAGT-AAAT-TAATA
* * *
13799478 AT-ACTTTAA-CGATAAATCAATT
1 ATAAC-TTAATAG-TAAATTAATA
13799500 ATAA-TATAATTA-TAAATGT-ATA
1 ATAACT-TAA-TAGTAAAT-TAATA
* * *
13799522 AT-ACTATAATACTAAATCAATG
1 ATAACT-TAATAGTAAATTAATA
* * *
13799544 ATAACTTAATA-AAAAATAAGTG
1 ATAACTTAATAGTAAATTAA-TA
* * * *
13799566 ATAACTTAGTAGTTAATTATTG
1 ATAACTTAATAGTAAATTAATA
* *
13799588 ATAACTTAGTAATAAATTAATA
1 ATAACTTAATAGTAAATTAATA
* * *
13799610 ATAATTTAATAGTAAATTAGTG
1 ATAACTTAATAGTAAATTAATA
* *
13799632 ATAATTTAATAATAAAT
1 ATAACTTAATAGTAAAT
13799649 CAGTTTCAGT
Statistics
Matches: 233, Mismatches: 51, Indels: 40
0.72 0.16 0.12
Matches are distributed among these distances:
21 14 0.06
22 194 0.83
23 23 0.10
24 2 0.01
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTAATA
Found at i:13799611 original size:11 final size:11
Alignment explanation
Indices: 13799597--13799648 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
13799587 GATAACTTAG
13799597 TAATAAATTAA
1 TAATAAATTAA
*
13799608 TAATAATTTAA
1 TAATAAATTAA
* *
13799619 TAGTAAATTAG
1 TAATAAATTAA
* *
13799630 TGATAATTTAA
1 TAATAAATTAA
13799641 TAATAAAT
1 TAATAAAT
13799649 CAGTTTCAGT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:13799838 original size:65 final size:66
Alignment explanation
Indices: 13799724--13799861 Score: 156
Period size: 65 Copynumber: 2.1 Consensus size: 66
13799714 TATATATTAG
** * * * * *
13799724 TAGTAAATAATTGATAATTTAGTAGTTATTCATTGAAAACATTAAAGTAAATCA-GTATAATTTA
1 TAGTAAATAATTGATAAAATAATAGTTAATCAATGAAAACATGAAAGTAAATCACGCATAATTTA
13799788 A
66 A
* * *
13799789 TAGTAAATAATTGATAAAATAATAGTTAATCAAT-AACAACCTGATAGTAAATCACGCATAGTTT
1 TAGTAAATAATTGATAAAATAATAGTTAATCAATGAA-AACATGAAAGTAAATCACGCATAATTT
13799853 AA
65 AA
13799855 TA-TAAAT
1 TAGTAAAT
13799862 CAGTAATAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
64 2 0.03
65 48 0.79
66 11 0.18
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (66 bp):
TAGTAAATAATTGATAAAATAATAGTTAATCAATGAAAACATGAAAGTAAATCACGCATAATTTA
A
Found at i:13799975 original size:11 final size:11
Alignment explanation
Indices: 13799953--13799981 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13799943 AATCAATGAT
13799953 AAAATA-ATAA
1 AAAATATATAA
13799963 AAAATATATAA
1 AAAATATATAA
13799974 AAAATATA
1 AAAATATA
13799982 ATAGTAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATATATAA
Found at i:13800007 original size:22 final size:22
Alignment explanation
Indices: 13799677--13800312 Score: 133
Period size: 22 Copynumber: 28.9 Consensus size: 22
13799667 AATTAATTGA
* * *
13799677 TAATAGTAAATAATAAATATTT
1 TAATAGTAAATCATTAATAATT
*
13799699 TAATAGTCAATCAATT-AT-ATAT
1 TAATAGTAAATC-ATTAATAAT-T
* * *
13799721 TAGTAGTAAATAATTGATAATT
1 TAATAGTAAATCATTAATAATT
* * * *
13799743 TAGTAGTTATTCATTGAA-AACAT
1 TAATAGTAAATCATT-AATAA-TT
*
13799766 TAA-AGTAAATCAGT-ATAATT
1 TAATAGTAAATCATTAATAATT
* * **
13799786 TAATAGTAAATAATTGATAAAA
1 TAATAGTAAATCATTAATAATT
* * * **
13799808 TAATAGTTAATCAATAACAACC
1 TAATAGTAAATCATTAATAATT
* *** *
13799830 TGATAGTAAATCACGCATAGTT
1 TAATAGTAAATCATTAATAATT
* *
13799852 TAATA-TAAATCAGTAATAACT
1 TAATAGTAAATCATTAATAATT
* * **
13799873 TAATAATTAATCATGGATAATT
1 TAATAGTAAATCATTAATAATT
* * *
13799895 TAGT-GATAAATCAGTGATAATT
1 TAATAG-TAAATCATTAATAATT
** * *
13799917 TTGT-GATAAATAATTAA-AAAT
1 TAATAG-TAAATCATTAATAATT
* * **
13799938 TAA-A-T-AATCAATGATAAAA
1 TAATAGTAAATCATTAATAATT
** * *
13799957 TAATAAAAAAT-ATATAAAAAATA
1 TAATAGTAAATCAT-T-AATAATT
13799980 TAATAGTAAATCATTAATAATT
1 TAATAGTAAATCATTAATAATT
* *
13800002 TAATAG-CAA--ATTAATAACT
1 TAATAGTAAATCATTAATAATT
* * **
13800021 TAATAGTAAATTACTAATAACA
1 TAATAGTAAATCATTAATAATT
* *
13800043 TAATAGTAAATTAATAACT-ATT
1 TAATAGTAAATCATTAA-TAATT
* * * *
13800065 TAATTGTAAAACAGTGATAATT
1 TAATAGTAAATCATTAATAATT
* * * *
13800087 TAGTAATAAATTAATTAATCATT
1 TAATAGTAAA-TCATTAATAATT
* ** *
13800110 GCTAACTTTTTAGTAAATAATTGGTAAAT
1 --TAA-----TAGTAAATCATTAATAATT
* *
13800139 AAATAGTAAATTAATT-ATAACTT
1 TAATAGTAAA-TCATTAATAA-TT
* *
13800162 T-ATAATAAATTATTAATAATT
1 TAATAGTAAATCATTAATAATT
* * **
13800183 TAGTGGTAAATCACCAATAATT
1 TAATAGTAAATCATTAATAATT
13800205 TAATAGTAAATCATTAATAATT
1 TAATAGTAAATCATTAATAATT
* * *
13800227 TAAT-GACAAATCATTCATAAAT
1 TAATAG-TAAATCATTAATAATT
* ** * **
13800249 TAGTAGTGCATCATTGATAGCT
1 TAATAGTAAATCATTAATAATT
* * * *
13800271 TAATAATAAATAACTAATAACT
1 TAATAGTAAATCATTAATAATT
* * *
13800293 TAATTGTCAATCATTGATAA
1 TAATAGTAAATCATTAATAA
13800313 CTTTTATTAT
Statistics
Matches: 436, Mismatches: 140, Indels: 76
0.67 0.21 0.12
Matches are distributed among these distances:
18 6 0.01
19 22 0.05
20 8 0.02
21 47 0.11
22 296 0.68
23 37 0.08
24 2 0.00
25 2 0.00
27 2 0.00
29 8 0.02
30 6 0.01
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (22 bp):
TAATAGTAAATCATTAATAATT
Found at i:13800030 original size:41 final size:41
Alignment explanation
Indices: 13799980--13800061 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
13799970 ATAAAAAATA
* **
13799980 TAATAGTAAATCATTAATAATTTAATAGCAAATTAATAACT
1 TAATAGTAAATCACTAATAACATAATAGCAAATTAATAACT
* *
13800021 TAATAGTAAATTACTAATAACATAATAGTAAATTAATAACT
1 TAATAGTAAATCACTAATAACATAATAGCAAATTAATAACT
13800062 ATTTAATTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.35
Consensus pattern (41 bp):
TAATAGTAAATCACTAATAACATAATAGCAAATTAATAACT
Found at i:13800059 original size:19 final size:19
Alignment explanation
Indices: 13799992--13800061 Score: 86
Period size: 19 Copynumber: 3.5 Consensus size: 19
13799982 ATAGTAAATC
* *
13799992 ATTAATAATTTAATAGCAA
1 ATTAATAACTTAATAGTAA
13800011 ATTAATAACTTAATAGTAA
1 ATTAATAACTTAATAGTAA
*
13800030 ATTACTAATAACATAATAGTAA
1 A-T--TAATAACTTAATAGTAA
13800052 ATTAATAACT
1 ATTAATAACT
13800062 ATTTAATTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
19 25 0.57
20 1 0.02
21 1 0.02
22 17 0.39
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (19 bp):
ATTAATAACTTAATAGTAA
Found at i:13800684 original size:11 final size:11
Alignment explanation
Indices: 13800613--13800728 Score: 56
Period size: 11 Copynumber: 10.5 Consensus size: 11
13800603 AATTGGTAAC
*
13800613 TTAATAATAAA
1 TTAATAATAAT
* * *
13800624 TCAATAAGAAC
1 TTAATAATAAT
* *
13800635 TTAATAGTAAA
1 TTAATAATAAT
* *
13800646 TTAGTAACAAT
1 TTAATAATAAT
* *
13800657 TTAATAGTAAA
1 TTAATAATAAT
* *
13800668 TCAATATTAAT
1 TTAATAATAAT
13800679 TTAATAATAA-
1 TTAATAATAAT
*
13800689 TTAATTGATAAT
1 TTAA-TAATAAT
* *
13800701 TTAGTAGTAAT
1 TTAATAATAAT
*
13800712 TT-ATAAATAAC
1 TTAAT-AATAAT
13800723 TTAATA
1 TTAATA
13800729 GTAAAATCAA
Statistics
Matches: 74, Mismatches: 27, Indels: 8
0.68 0.25 0.07
Matches are distributed among these distances:
10 5 0.07
11 64 0.86
12 5 0.07
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (11 bp):
TTAATAATAAT
Found at i:13800805 original size:46 final size:44
Alignment explanation
Indices: 13800632--13800838 Score: 165
Period size: 44 Copynumber: 4.6 Consensus size: 44
13800622 AATCAATAAG
* * * * * * *
13800632 AACTTAATAGTAAATTAGTAACAATTTAATAGTAAATCAAT-ATT
1 AACTTAATAGTAAATCAATGATAATTTAGTAGTTAATC-ATCAAT
* * * * *
13800676 AATTTAATAAT-AATTAATTGATAATTTAGTAG-TAATTTATAAAT
1 AACTTAATAGTAAATCAA-TGATAATTTAGTAGTTAA-TCATCAAT
*
13800720 AACTTAATAGTAAAATCAATGATAATTTAGTAGTTAATCATTAGA-
1 AACTTAATAGT-AAATCAATGATAATTTAGTAGTTAATCATCA-AT
*
13800765 AACTTAAAAGTAAATCAAT-ATAACTTAGTAGTAGTTAATCATCAAT
1 AACTTAATAGTAAATCAATGATAA-TT--TAGTAGTTAATCATCAAT
13800811 AACTTAATAGTAAATC-ATGGATAATTTA
1 AACTTAATAGTAAATCAAT-GATAATTTA
13800839 ATATAAATTA
Statistics
Matches: 133, Mismatches: 17, Indels: 26
0.76 0.10 0.15
Matches are distributed among these distances:
43 13 0.10
44 44 0.33
45 31 0.23
46 41 0.31
47 4 0.03
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (44 bp):
AACTTAATAGTAAATCAATGATAATTTAGTAGTTAATCATCAAT
Found at i:13800826 original size:22 final size:21
Alignment explanation
Indices: 13800609--13800862 Score: 118
Period size: 22 Copynumber: 11.5 Consensus size: 21
13800599 TAATAATTGG
*
13800609 TAACTTAATAATAAATCAATAA
1 TAACTTAATAGTAAATC-ATAA
* *
13800631 GAACTTAATAGTAAATTAGTAA
1 TAACTTAATAGTAAATCA-TAA
* * *
13800653 CAATTTAATAGTAAATCAATAT
1 TAACTTAATAGTAAATC-ATAA
* * * * *
13800675 TAATTTAATAATAATTAATTGA
1 TAACTTAATAGTAAATCA-TAA
* * * *
13800697 TAATTTAGTAGTAATTTATAAA
1 TAACTTAATAGTAAATCAT-AA
*
13800719 TAACTTAATAGTAAAATCAATGA
1 TAACTTAATAGT-AAATC-ATAA
* * *
13800742 TAATTTAGTAGTTAATCATTAGA
1 TAACTTAATAGTAAATCA-TA-A
*
13800765 -AACTTAAAAGTAAATCA-ATA
1 TAACTTAATAGTAAATCATA-A
*
13800785 TAACTTAGTAGTAGTTAATCATCAA
1 TAACTTA--A-TAGTAAATCAT-AA
*
13800810 TAACTTAATAGTAAATCATGGA
1 TAACTTAATAGTAAATCAT-AA
* * *
13800832 TAATTTAATA-TAAATTAATGA
1 TAACTTAATAGTAAA-TCATAA
13800853 TAACTTAATA
1 TAACTTAATA
13800863 ATGAATAATG
Statistics
Matches: 178, Mismatches: 39, Indels: 31
0.72 0.16 0.12
Matches are distributed among these distances:
20 2 0.01
21 25 0.14
22 114 0.64
23 18 0.10
24 10 0.06
25 8 0.04
26 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (21 bp):
TAACTTAATAGTAAATCATAA
Found at i:13800871 original size:21 final size:21
Alignment explanation
Indices: 13800554--13800872 Score: 72
Period size: 22 Copynumber: 14.4 Consensus size: 21
13800544 AACCTATTCG
**
13800554 TAAATTAATGATAGGTTAATAA
1 TAAA-TAATGATAACTTAATAA
* * **
13800576 CAAATAAGTGATAACTTAGTGG
1 TAAATAA-TGATAACTTAATAA
* *
13800598 TTAATAATTGGTAACTTAATAA
1 TAAATAA-TGATAACTTAATAA
* * *
13800620 TAAATCAATAAGAACTTAATAG
1 TAAAT-AATGATAACTTAATAA
* * * * *
13800642 TAAATTAGTAACAATTTAATAG
1 TAAA-TAATGATAACTTAATAA
*
13800664 TAAATCAAT-ATTAATTTAATAA
1 TAAAT-AATGA-TAACTTAATAA
* * * *
13800686 TAATTAATTGATAATTTAGTAG
1 TAAATAA-TGATAACTTAATAA
* * * *
13800708 TAATTTATAAATAACTTAATAG
1 TAAATAAT-GATAACTTAATAA
* * *
13800730 TAAAATCAATGATAATTTAGTAG
1 T-AAAT-AATGATAACTTAATAA
* *
13800753 TTAATCATTAGA-AACTTAA-AA
1 TAAAT-AAT-GATAACTTAATAA
*
13800774 GTAAATCAAT-ATAACTTAGTAGTAG
1 -TAAAT-AATGATAACTTA--A-TAA
* * * *
13800799 TTAATCATCAATAACTTAATAG
1 TAAATAAT-GATAACTTAATAA
* *
13800821 TAAATCATGGATAATTTAAT-A
1 TAAATAAT-GATAACTTAATAA
13800842 TAAATTAATGATAACTTAATAA
1 TAAA-TAATGATAACTTAATAA
*
13800864 TGAATAATG
1 TAAATAATG
13800873 GTTAATTTTG
Statistics
Matches: 222, Mismatches: 54, Indels: 43
0.70 0.17 0.13
Matches are distributed among these distances:
20 1 0.00
21 34 0.15
22 148 0.67
23 24 0.11
24 6 0.03
25 9 0.04
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (21 bp):
TAAATAATGATAACTTAATAA
Found at i:13800987 original size:44 final size:44
Alignment explanation
Indices: 13800928--13801069 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 44
13800918 AAAACCCAAG
* * *
13800928 TAGTAAATCAATGATAATATAGTAT-TAAATGCA-TAATAACATAA
1 TAGTAAATTAATGATAAT-TAGTATATAAAT-TAGTAATAACTTAA
* * *
13800972 TAGTAAATTATTGATAACTTAG-ATGTAAATTATTAATAACTTAA
1 TAGTAAATTAATGATAA-TTAGTATATAAATTAGTAATAACTTAA
* * *
13801016 TAGTAAATTACTAATAATTTAGT-TATAAATTAGTAATAATTTAA
1 TAGTAAATTAATGATAA-TTAGTATATAAATTAGTAATAACTTAA
13801060 TAGTAAATTA
1 TAGTAAATTA
13801070 GTTAATTATT
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
43 3 0.04
44 80 0.95
45 1 0.01
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (44 bp):
TAGTAAATTAATGATAATTAGTATATAAATTAGTAATAACTTAA
Found at i:13800988 original size:22 final size:22
Alignment explanation
Indices: 13800961--13801075 Score: 126
Period size: 22 Copynumber: 5.2 Consensus size: 22
13800951 ATTAAATGCA
*
13800961 TAATAACATAATAGTAAATTAT
1 TAATAACTTAATAGTAAATTAT
*
13800983 TGATAACTTAGAT-GTAAATTAT
1 TAATAACTTA-ATAGTAAATTAT
*
13801005 TAATAACTTAATAGTAAATTAC
1 TAATAACTTAATAGTAAATTAT
* * *
13801027 TAATAATTTAGTTA-TAAATTAG
1 TAATAACTTA-ATAGTAAATTAT
*
13801049 TAATAATTTAATAGTAAATTAGT
1 TAATAACTTAATAGTAAATTA-T
13801072 TAAT
1 TAAT
13801076 TATTGATAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.05
22 67 0.85
23 8 0.10
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (22 bp):
TAATAACTTAATAGTAAATTAT
Found at i:13801077 original size:30 final size:30
Alignment explanation
Indices: 13801043--13801099 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
13801033 TTTAGTTATA
13801043 AATTAGTAATAATTTAATAGTAAATTAGTT
1 AATTAGTAATAATTTAATAGTAAATTAGTT
* * **
13801073 AATTATTGATAATTTTGTAGTAAATTA
1 AATTAGTAATAATTTAATAGTAAATTA
13801100 TTGATAAATT
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:0.44, C:0.00, G:0.11, T:0.46
Consensus pattern (30 bp):
AATTAGTAATAATTTAATAGTAAATTAGTT
Found at i:13801098 original size:22 final size:22
Alignment explanation
Indices: 13801068--13801281 Score: 128
Period size: 22 Copynumber: 9.7 Consensus size: 22
13801058 AATAGTAAAT
* *
13801068 TAGTTAATTATTGATAATTTTG
1 TAGTAAATTATTGATAATTTAG
* *
13801090 TAGTAAATTATTGATAAATTAA
1 TAGTAAATTATTGATAATTTAG
* *
13801112 TAGTAAATCAGTT-ATAATTTTG
1 TAGTAAATTA-TTGATAATTTAG
** * *
13801134 TAAAAAATTA-TCAGCAATTTAG
1 TAGTAAATTATTGA-TAATTTAG
* ** ** *
13801156 -ACATAAACCATCAACAATTTAG
1 TA-GTAAATTATTGATAATTTAG
* * * *
13801178 TAGTAAATGAATCATAACTTAG
1 TAGTAAATTATTGATAATTTAG
* *
13801200 TAGTAAATTATTCATAAATTAG
1 TAGTAAATTATTGATAATTTAG
* *
13801222 TAGTAAATTAATGTTAATTTAG
1 TAGTAAATTATTGATAATTTAG
* * *
13801244 TAGTAAATCATTGACACTTTAG
1 TAGTAAATTATTGATAATTTAG
*
13801266 TAGTATATTATTGATA
1 TAGTAAATTATTGATA
13801282 GCTTCATAAT
Statistics
Matches: 145, Mismatches: 41, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
20 1 0.01
21 2 0.01
22 138 0.95
23 4 0.03
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.40
Consensus pattern (22 bp):
TAGTAAATTATTGATAATTTAG
Found at i:13801228 original size:11 final size:11
Alignment explanation
Indices: 13801174--13801251 Score: 54
Period size: 11 Copynumber: 7.1 Consensus size: 11
13801164 CATCAACAAT
13801174 TTAGTAGTAAA
1 TTAGTAGTAAA
* * *
13801185 TGAATCA-TAAC
1 TTAGT-AGTAAA
13801196 TTAGTAGTAAA
1 TTAGTAGTAAA
*
13801207 TTATTCA-TAAA
1 TTAGT-AGTAAA
13801218 TTAGTAGTAAA
1 TTAGTAGTAAA
* *
13801229 TTAAT-GTTAAT
1 TTAGTAG-TAAA
13801240 TTAGTAGTAAA
1 TTAGTAGTAAA
13801251 T
1 T
13801252 CATTGACACT
Statistics
Matches: 49, Mismatches: 12, Indels: 12
0.67 0.16 0.16
Matches are distributed among these distances:
10 3 0.06
11 43 0.88
12 3 0.06
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.40
Consensus pattern (11 bp):
TTAGTAGTAAA
Found at i:13801620 original size:20 final size:22
Alignment explanation
Indices: 13801595--13801634 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13801585 CAAATTTTAT
13801595 TAATAA-TTAT-AAAAAATATA
1 TAATAAGTTATCAAAAAATATA
13801615 TAATAAGTTATCAAAAAATA
1 TAATAAGTTATCAAAAAATA
13801635 ACAAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (22 bp):
TAATAAGTTATCAAAAAATATA
Found at i:13801707 original size:21 final size:22
Alignment explanation
Indices: 13801682--13801750 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 22
13801672 AAAATAATAT
13801682 CAAAATAGTATA-AAT-AGTTAC
1 CAAAAT-GTATATAATAAGTTAC
*
13801703 CAAAAT-TATATCATAAGTTAC
1 CAAAATGTATATAATAAGTTAC
* *
13801724 CAAAATTGTAT-TGA-AGGTTAC
1 CAAAA-TGTATATAATAAGTTAC
13801745 CAAAAT
1 CAAAAT
13801751 TTTATAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
19 4 0.10
20 3 0.07
21 28 0.68
22 3 0.07
23 3 0.07
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (22 bp):
CAAAATGTATATAATAAGTTAC
Found at i:13801751 original size:21 final size:20
Alignment explanation
Indices: 13801697--13801756 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
13801687 TAGTATAAAT
13801697 AGTTACCAAAATTATATCATA
1 AGTTACCAAAATTATAT-ATA
*
13801718 AGTTACCAAAATTGTAT-TGA
1 AGTTACCAAAATTATATAT-A
*
13801738 AGGTTACCAAAATTTTATA
1 A-GTTACCAAAATTATATA
13801757 AAAATTATCG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 31 0.91
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (20 bp):
AGTTACCAAAATTATATATA
Found at i:13805465 original size:99 final size:99
Alignment explanation
Indices: 13805294--13805491 Score: 396
Period size: 99 Copynumber: 2.0 Consensus size: 99
13805284 TTGAGTGTTA
13805294 CTTTTGAAGCTATTGCTTATATTTGAGGATACTTTGTCATAAATTAAAAGTTGCTAACTCATTGT
1 CTTTTGAAGCTATTGCTTATATTTGAGGATACTTTGTCATAAATTAAAAGTTGCTAACTCATTGT
13805359 TTTTGGCTTTGATTTATTTTAATTTCTTTTTAGT
66 TTTTGGCTTTGATTTATTTTAATTTCTTTTTAGT
13805393 CTTTTGAAGCTATTGCTTATATTTGAGGATACTTTGTCATAAATTAAAAGTTGCTAACTCATTGT
1 CTTTTGAAGCTATTGCTTATATTTGAGGATACTTTGTCATAAATTAAAAGTTGCTAACTCATTGT
13805458 TTTTGGCTTTGATTTATTTTAATTTCTTTTTAGT
66 TTTTGGCTTTGATTTATTTTAATTTCTTTTTAGT
13805492 TTTCTTTTTT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (99 bp):
CTTTTGAAGCTATTGCTTATATTTGAGGATACTTTGTCATAAATTAAAAGTTGCTAACTCATTGT
TTTTGGCTTTGATTTATTTTAATTTCTTTTTAGT
Found at i:13812968 original size:30 final size:30
Alignment explanation
Indices: 13812905--13813001 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 30
13812895 TATTACTCTA
*
13812905 AAAT-AATCTCTTAACTTTTAATTTACA-CC
1 AAATAAATC-CTTAACTTTTAATTTATATCC
* * *
13812934 AAATAAGT-TTATAATTTTTAATTTATATCC
1 AAATAAATCCT-TAACTTTTAATTTATATCC
*
13812964 AAATAAATCCTTAACTTTTAATTTATATCT
1 AAATAAATCCTTAACTTTTAATTTATATCC
13812994 AAATAAAT
1 AAATAAAT
13813002 TAATTTTTCA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
28 1 0.02
29 18 0.32
30 36 0.64
31 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.44
Consensus pattern (30 bp):
AAATAAATCCTTAACTTTTAATTTATATCC
Found at i:13813841 original size:17 final size:16
Alignment explanation
Indices: 13813818--13813856 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
13813808 ATTTTTATTT
13813818 AAAATTTTAGTTATACA
1 AAAATTTTA-TTATACA
*
13813835 TAAATTTTTATTATACA
1 -AAAATTTTATTATACA
13813852 AAAAT
1 AAAAT
13813857 ATTAAAATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 4 0.21
17 7 0.37
18 8 0.42
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (16 bp):
AAAATTTTATTATACA
Found at i:13813843 original size:18 final size:17
Alignment explanation
Indices: 13813817--13813856 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
13813807 TATTTTTATT
*
13813817 TAAAATTTTAGTTATACA
1 TAAATTTTTA-TTATACA
13813835 TAAATTTTTATTATACA
1 TAAATTTTTATTATACA
*
13813852 AAAAT
1 TAAAT
13813857 ATTAAAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (17 bp):
TAAATTTTTATTATACA
Found at i:13816345 original size:11 final size:11
Alignment explanation
Indices: 13816329--13816367 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
13816319 TTGATAATAA
13816329 TTAAATTAAAT
1 TTAAATTAAAT
**
13816340 TTAAATTTTAT
1 TTAAATTAAAT
*
13816351 TTAAATAAAAT
1 TTAAATTAAAT
13816362 TTAAAT
1 TTAAAT
13816368 AATTTATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:13817332 original size:22 final size:21
Alignment explanation
Indices: 13817303--13817349 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
13817293 TTGTTATTAT
13817303 TTAATATTATT-TAATTTAAAA
1 TTAATATTATTATAATTT-AAA
*
13817324 TTAATTATTATTATTATTTAAA
1 TTAA-TATTATTATAATTTAAA
13817346 TTAA
1 TTAA
13817350 AAAAATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 14 0.61
23 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATATTATTATAATTTAAA
Found at i:13819610 original size:17 final size:17
Alignment explanation
Indices: 13819588--13819620 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13819578 AATTTGTCCA
*
13819588 AAAAAAATACGAAATAC
1 AAAAAAATACAAAATAC
13819605 AAAAAAATACAAAATA
1 AAAAAAATACAAAATA
13819621 TGAAATACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
AAAAAAATACAAAATAC
Found at i:13819763 original size:29 final size:29
Alignment explanation
Indices: 13819730--13819798 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
13819720 TGCCACCAAA
*
13819730 CCCTACACTCCACCCTTCTGACCACCATG
1 CCCTACACTCCACCCCTCTGACCACCATG
* *
13819759 TCCTACCCTCCACCCCTCTGACCACCATG
1 CCCTACACTCCACCCCTCTGACCACCATG
13819788 CCCTACCACTC
1 CCCTA-CACTC
13819799 ATCCCCTACC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 30 0.88
30 4 0.12
ACGTcount: A:0.19, C:0.55, G:0.06, T:0.20
Consensus pattern (29 bp):
CCCTACACTCCACCCCTCTGACCACCATG
Found at i:13819807 original size:14 final size:14
Alignment explanation
Indices: 13819779--13819811 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13819769 CACCCCTCTG
*
13819779 ACCAC-CATGCCCT
1 ACCACTCATCCCCT
13819792 ACCACTCATCCCCT
1 ACCACTCATCCCCT
13819806 ACCACT
1 ACCACT
13819812 ACCAGATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.24, C:0.55, G:0.03, T:0.18
Consensus pattern (14 bp):
ACCACTCATCCCCT
Found at i:13822522 original size:21 final size:20
Alignment explanation
Indices: 13822482--13822532 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
13822472 GAAACAAAAC
* *
13822482 AAAACA-AACAAAAAATCTA
1 AAAACATAAAAAAAAAACTA
13822501 AAAACATAAAAAAAAACACTA
1 AAAACATAAAAAAAAA-ACTA
*
13822522 AAAAAATAAAA
1 AAAACATAAAA
13822533 GAAATTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 6 0.22
20 8 0.30
21 13 0.48
ACGTcount: A:0.78, C:0.12, G:0.00, T:0.10
Consensus pattern (20 bp):
AAAACATAAAAAAAAAACTA
Found at i:13833325 original size:48 final size:48
Alignment explanation
Indices: 13833116--13833609 Score: 463
Period size: 48 Copynumber: 10.3 Consensus size: 48
13833106 ACAGATGAAA
* * *
13833116 ATTTTTAAAGTTGTTGAGCTTTTGCTGAGAAGAGCCTTTTTCAAGATGAG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTCAAGAT--G
* * *
13833166 ATTTTTAAAGTTGTTGAGCCTCTGTTAAGA-GAAGCCCTTTTCAAGATG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATG-AGCCTTTTTCAAGATG
** * * * * *
13833214 ATTTTTAAAGTCATTGA-TCTCTGCTAAGATAAGCTTTTTTCAAGGTGAG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTCAAGAT--G
* * *
13833263 AATTTTTAAAGTTGTTGAGTCTCTACTGAGAGGAGCCTTTTTCAAGATG
1 -ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTCAAGATG
** *
13833312 ATTTTTAAAGTTGTTGAGTATCTGTTGAGATGAG-CTTTTTC-A-A-G
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTCAAGATG
* * *
13833356 A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-ACTTTTCCAAAAGA-G
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTC--AAGATG
** * * * *
13833403 A-TTTTAAAGTCATTGAGTCTTTGCTGAGAGGAGCTTTTTTCAAGATGAG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTCAAGAT--G
* *
13833452 ATTTTTAAAGTTGTTGAGCCTCTGCTAAGATAAG-CTTTTTCAAGATG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTCAAGATG
* ** *
13833499 AATTTTAAAACTGTTGAGCCTCTGCTGAGATGAGCCCTTTTCAAGATG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTCAAGATG
* *
13833547 ATTTTTAAAGTCGTTGAGCCTCTACTGAGATGAG-CTTTTTCCAAGATGAG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTT-CAAGAT--G
13833597 ATTTTTAAAGTTG
1 ATTTTTAAAGTTG
13833610 AGAGGAGCTT
Statistics
Matches: 366, Mismatches: 58, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
43 33 0.09
44 2 0.01
45 1 0.00
46 6 0.02
47 94 0.26
48 98 0.27
49 16 0.04
50 93 0.25
51 23 0.06
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.39
Consensus pattern (48 bp):
ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTCAAGATG
Found at i:13833610 original size:47 final size:47
Alignment explanation
Indices: 13833116--13833611 Score: 344
Period size: 47 Copynumber: 10.3 Consensus size: 47
13833106 ACAGATGAAA
* * *
13833116 ATTTTTAAAGTTGTTGAGCTTTTGCTGAGAAGAGCCTTTTTCAAGATGAG
1 ATTTTTAAA--TGTTGAGCCTCTGCTGAGATGAG-CTTTTTCAAGATGAG
* * *
13833166 ATTTTTAAAGTTGTTGAGCCTCTGTTAAGA-GAAGCCCTTTTCAAGAT--G
1 ATTTTTAAA--TGTTGAGCCTCTGCTGAGATG-AG-CTTTTTCAAGATGAG
* * * * *
13833214 ATTTTTAAAGTCATTGA-TCTCTGCTAAGATAAGCTTTTTTCAAGGTGAG
1 ATTTTTAAA-T-GTTGAGCCTCTGCTGAGATGAGC-TTTTTCAAGATGAG
* * *
13833263 AATTTTTAAAGTTGTTGAGTCTCTACTGAGAGGAGCCTTTTTCAAGAT--G
1 -ATTTTTAAA--TGTTGAGCCTCTGCTGAGATGAG-CTTTTTCAAGATGAG
** *
13833312 ATTTTTAAAGTTGTTGAGTATCTGTTGAGATGAGCTTTTTC---A--AG
1 ATTTTTAAA--TGTTGAGCCTCTGCTGAGATGAGCTTTTTCAAGATGAG
* * * *
13833356 A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACTTTTCCAA-AAGAG
1 ATTTTTAAA--TGTTGAGCCTCTGCTGAGATGAGCTTTTTCAAGATGAG
* * * *
13833403 A-TTTTAAAGTCATTGAGTCTTTGCTGAGAGGAGCTTTTTTCAAGATGAG
1 ATTTTTAAA-T-GTTGAGCCTCTGCTGAGATGAGC-TTTTTCAAGATGAG
* *
13833452 ATTTTTAAAGTTGTTGAGCCTCTGCTAAGATAAGCTTTTTCAAGATGA-
1 ATTTTTAAA--TGTTGAGCCTCTGCTGAGATGAGCTTTTTCAAGATGAG
* *
13833500 ATTTTAAAACTGTTGAGCCTCTGCTGAGATGAGCCCTTTTCAAGAT--G
1 ATTTTTAAA-TGTTGAGCCTCTGCTGAGATGAG-CTTTTTCAAGATGAG
*
13833547 ATTTTTAAAGTCGTTGAGCCTCTACTGAGATGAGCTTTTTCCAAGATGAG
1 ATTTTTAAA-T-GTTGAGCCTCTGCTGAGATGAGCTTTTT-CAAGATGAG
13833597 ATTTTTAAA-GTTGAG
1 ATTTTTAAATGTTGAG
13833612 AGGAGCTTTT
Statistics
Matches: 368, Mismatches: 52, Indels: 55
0.77 0.11 0.12
Matches are distributed among these distances:
43 33 0.09
44 3 0.01
45 1 0.00
46 2 0.01
47 99 0.27
48 97 0.26
49 21 0.06
50 87 0.24
51 24 0.07
52 1 0.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (47 bp):
ATTTTTAAATGTTGAGCCTCTGCTGAGATGAGCTTTTTCAAGATGAG
Found at i:13833612 original size:36 final size:37
Alignment explanation
Indices: 13833572--13833646 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 37
13833562 GAGCCTCTAC
*
13833572 TGAGATGAGCTTTTTCC-AAGATGAG-ATTTTTAAAGT
1 TGAGAGGAGCTTTTTCCAAAG-TGAGAATTTTTAAAGT
*
13833608 TGAGAGGAGCTTTTTTCAAAGTGAGAATTTTTAAAGT
1 TGAGAGGAGCTTTTTCCAAAGTGAGAATTTTTAAAGT
13833645 TG
1 TG
13833647 TTGAGCCTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
36 19 0.54
37 16 0.46
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.39
Consensus pattern (37 bp):
TGAGAGGAGCTTTTTCCAAAGTGAGAATTTTTAAAGT
Found at i:13833638 original size:37 final size:36
Alignment explanation
Indices: 13833572--13833646 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 36
13833562 GAGCCTCTAC
* *
13833572 TGAGATGAGCTTTTTCCAAGATGAGATTTTTAAAGT
1 TGAGAGGAGCTTTTTCAAAGATGAGATTTTTAAAGT
13833608 TGAGAGGAGCTTTTTTCAAAG-TGAGAATTTTTAAAGT
1 TGAGAGGAGC-TTTTTCAAAGATGAG-ATTTTTAAAGT
13833645 TG
1 TG
13833647 TTGAGCCTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.39
Consensus pattern (36 bp):
TGAGAGGAGCTTTTTCAAAGATGAGATTTTTAAAGT
Found at i:13833670 original size:87 final size:83
Alignment explanation
Indices: 13833524--13833784 Score: 253
Period size: 87 Copynumber: 3.0 Consensus size: 83
13833514 GAGCCTCTGC
* * *
13833524 TGAGATGAGCCCTTTTCAAGAT--GATTTTTAAAGTCGTTGAGCCTCTACTGAGATGAGCTTTTT
1 TGAGAGGAGCCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCT-CTGAGA-GAGCTTTTT
13833587 CCAAGATGAGATTTTTAAAGT
64 -CAAGATGAGATTTTTAAAGT
*
13833608 TGAGAGGAGCTTTTTTCAA-AGTGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTT
1 TGAGAGGAGCCTTTTTCAAGA-TGAG-ATTTTTAAAGTTGTTGAGCCTCT-CTGAGAG-AGCTTT
* * **
13833672 TTCAAGATTTTAAATTTATTGAGCCTCTGT
62 TTCAAGA--TGAGATTT-TT-A----AAGT
* * *
13833702 TGAGAGGAGCCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTAT-TGAG-CCTTTTTCA
1 TGAGAGGAGCCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTCTGAGAGAGCTTTTTCA
13833765 AGATGAGATTTTTAAAGT
66 AGATGAGATTTTTAAAGT
13833783 TG
1 TG
13833785 TTGAGCCTCT
Statistics
Matches: 146, Mismatches: 17, Indels: 31
0.75 0.09 0.16
Matches are distributed among these distances:
81 4 0.03
83 1 0.01
84 17 0.12
85 1 0.01
86 9 0.06
87 42 0.29
88 6 0.04
89 13 0.09
90 1 0.01
91 3 0.02
92 1 0.01
93 23 0.16
94 24 0.16
95 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (83 bp):
TGAGAGGAGCCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTCTGAGAGAGCTTTTTCA
AGATGAGATTTTTAAAGT
Found at i:13833764 original size:45 final size:47
Alignment explanation
Indices: 13833708--13833889 Score: 209
Period size: 45 Copynumber: 3.9 Consensus size: 47
13833698 CTGTTGAGAG
13833708 GAGCCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTA-T-T
1 GAGCCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTACTAT
13833753 GAGCCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAT
1 GAGCCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTACT---AT
* *
13833803 GAG-CTTTTTCAAGATG-GA-TTTTAAAGTTATTGAGCCTCTGCTGAGAT
1 GAGCCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTACT---AT
* *
13833850 GAGTCC-TTTTCAAGAT-A-ATTTTTAAAGTTATTAAGCCTCT
1 GAG-CCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCT
13833890 GCTGAGAGGA
Statistics
Matches: 125, Mismatches: 3, Indels: 15
0.87 0.02 0.10
Matches are distributed among these distances:
45 43 0.34
46 1 0.01
47 31 0.25
48 32 0.26
49 14 0.11
50 4 0.03
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (47 bp):
GAGCCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTACTAT
Found at i:13833863 original size:48 final size:47
Alignment explanation
Indices: 13833634--13833925 Score: 300
Period size: 48 Copynumber: 6.2 Consensus size: 47
13833624 CAAAGTGAGA
* *
13833634 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAAGCTTTTTC-A-A-G
1 ATTTTTAAAGTTATTGAGCCTCTGCTGAGATG-AGCCTTTTCAAGATG
* * *
13833678 A-TTTTAAATTTATTGAGCCTCTGTTGAGAGGAGCCTTTTTCAAGATGAG
1 ATTTTTAAAGTTATTGAGCCTCTGCTGAGATGAGCC-TTTTCAAGAT--G
* *
13833727 ATTTTTAAAGTTGTTGAG-C-CT-CT-A-TTGAGCCTTTTTCAAGATGAG
1 ATTTTTAAAGTTATTGAGCCTCTGCTGAGATGAGCC-TTTTCAAGAT--G
* * *
13833772 ATTTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGATGG
1 ATTTTTAAAGTTATTGAGCCTCTGCTGAGATGAGCCTTTTCAAGAT-G
*
13833820 A-TTTTAAAGTTATTGAGCCTCTGCTGAGATGAGTCCTTTTCAAGATA
1 ATTTTTAAAGTTATTGAGCCTCTGCTGAGATGAG-CCTTTTCAAGATG
* *
13833867 ATTTTTAAAGTTATTAAGCCTCTGCTGAGAGGAGTCCTTTTCAAGATG
1 ATTTTTAAAGTTATTGAGCCTCTGCTGAGATGAG-CCTTTTCAAGATG
13833915 ATTTTTAAAGT
1 ATTTTTAAAGT
13833926 CGTTTTCAAG
Statistics
Matches: 214, Mismatches: 19, Indels: 26
0.83 0.07 0.10
Matches are distributed among these distances:
43 28 0.13
44 7 0.03
45 38 0.18
46 3 0.01
47 34 0.16
48 71 0.33
49 14 0.07
50 19 0.09
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (47 bp):
ATTTTTAAAGTTATTGAGCCTCTGCTGAGATGAGCCTTTTCAAGATG
Found at i:13833871 original size:95 final size:96
Alignment explanation
Indices: 13833608--13834224 Score: 356
Period size: 95 Copynumber: 6.2 Consensus size: 96
13833598 TTTTTAAAGT
* *
13833608 TGAGAGGAGCTTTTTTCAA-AGTGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAAGCTT
1 TGAGAGGAGCCTTTTTCAAGA-TG-G-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATG-AGCCT
* *
13833671 TTTCAAG---A-TTTTAAATTTATTGAGCCTCTGT
62 TTTCAAGATAATTTTTAAAGTTATTGAGCCTCTGC
*
13833702 TGAGAGGAGCCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAG-C-CT-CT-A-TTGAGCCTTTT
1 TGAGAGGAGCCTTTTTCAAGATG-GATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCC-TTT
* *
13833762 TCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTAC
64 TCAAGAT-A-ATTTTTAAAGTTATTGAGCCTCTGC
* *
13833797 TGAGATGAG-CTTTTTCAAGATGGA-TTTTAAAGTTATTGAGCCTCTGCTGAGATGAGTCCTTTT
1 TGAGAGGAGCCTTTTTCAAGATGGATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAG-CCTTTT
*
13833860 CAAGATAATTTTTAAAGTTATTAAGCCTCTGC
65 CAAGATAATTTTTAAAGTTATTGAGCCTCTGC
* ** * *** * *
13833892 TGAGAGGAGTCC-TTTTCAAGAT-GATTTTTAAAGTCGTTTTCAAGATGATTTTTAAAGTCGTTG
1 TGAGAGGAG-CCTTTTTCAAGATGGATTTTTAAAGT--TGTT---GA-G-CCTCTGCTG-AGATG
* * * * *
13833955 AGCCTCTGCTGAGAGGAGACTTTTTCAAGATAATTTTTAAAGTCGTTGAGCCTCTGC
57 AGCCT-T-TTCA-A-GATAATTTTT----A-AA--GTT--A----TTGAGCCTCTGC
* *
13834012 TGAGATGAGCCTTTTTCAAGATGAGA-TTTTAAAGTTGTTGAGCCTCGGCTGAGATGAGCCCTTT
1 TGAGAGGAGCCTTTTTCAAGATG-GATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAG-CCTTT
* * * *
13834076 TCAAGATGGA-TTTTAAAGTTGTTGAGCCTATGT
64 TCAAGAT-AATTTTTAAAGTTATTGAGCCTCTGC
* * * * * * *
13834109 TAAGAGGAG-CTTTTCCAA-AAGAGA-TTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAACTTTTT
1 TGAGAGGAGCCTTTTTCAAGATG-GATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGC-CTTT
* *
13834171 TCAAGATGAAATTTTTAAAGTTGTTGAGCTTCTGC
64 TCAAGAT--AATTTTTAAAGTTATTGAGCCTCTGC
*
13834206 TGAGAGGAGTCTTTTTCAA
1 TGAGAGGAGCCTTTTTCAA
13834225 AATTTAAATT
Statistics
Matches: 406, Mismatches: 65, Indels: 100
0.71 0.11 0.18
Matches are distributed among these distances:
88 3 0.01
89 10 0.02
90 2 0.00
91 2 0.00
92 16 0.04
93 21 0.05
94 39 0.10
95 105 0.26
96 30 0.07
97 60 0.15
98 13 0.03
101 2 0.00
102 1 0.00
103 8 0.02
104 6 0.01
105 4 0.01
106 2 0.00
107 8 0.02
110 6 0.01
111 2 0.00
112 4 0.01
113 6 0.01
114 7 0.02
115 1 0.00
116 3 0.01
119 5 0.01
120 29 0.07
121 9 0.02
122 2 0.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (96 bp):
TGAGAGGAGCCTTTTTCAAGATGGATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTC
AAGATAATTTTTAAAGTTATTGAGCCTCTGC
Found at i:13833931 original size:24 final size:24
Alignment explanation
Indices: 13833899--13833953 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
13833889 TGCTGAGAGG
*
13833899 AGTCCTTTTCAAGATGATTTTTAA
1 AGTCGTTTTCAAGATGATTTTTAA
13833923 AGTCGTTTTCAAGATGATTTTTAA
1 AGTCGTTTTCAAGATGATTTTTAA
13833947 AGTCGTT
1 AGTCGTT
13833954 GAGCCTCTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.45
Consensus pattern (24 bp):
AGTCGTTTTCAAGATGATTTTTAA
Found at i:13833948 original size:120 final size:121
Alignment explanation
Indices: 13833808--13834046 Score: 349
Period size: 120 Copynumber: 2.0 Consensus size: 121
13833798 GAGATGAGCT
* * *
13833808 TTTTCAAGATGGATTTTAAAGTTATTGAGCCTCTGCTGAGATGAGTCCTTTTCAAGATAATTTTT
1 TTTTCAAGATGGATTTTAAAGTCATTGAGCCTCTGCTGAGAGGAGACCTTTTCAAGATAATTTTT
* *
13833873 AAAGTTATTAAGCCTCTGCTGAGAGGAGTCC-TTTTCAAGATGA-TTTTTAAAGTCG
66 AAAGTCATTAAGCCTCTGCTGAGAGGAG-CCTTTTTCAAGATGAGATTTTAAAGTCG
* *
13833928 TTTTCAAGAT-GATTTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAGACTTTTTCAAGATAATTTT
1 TTTTCAAGATGGA-TTTTAAAGTCATTGAGCCTCTGCTGAGAGGAGACCTTTTCAAGATAATTTT
* * *
13833992 TAAAGTCGTTGAGCCTCTGCTGAGATGAGCCTTTTTCAAGATGAGATTTTAAAGT
65 TAAAGTCATTAAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGATTTTAAAGT
13834047 TGTTGAGCCT
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
119 4 0.04
120 93 0.88
121 9 0.08
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (121 bp):
TTTTCAAGATGGATTTTAAAGTCATTGAGCCTCTGCTGAGAGGAGACCTTTTCAAGATAATTTTT
AAAGTCATTAAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGATTTTAAAGTCG
Found at i:13833980 original size:72 final size:72
Alignment explanation
Indices: 13833851--13834001 Score: 230
Period size: 72 Copynumber: 2.1 Consensus size: 72
13833841 TGCTGAGATG
* * * *
13833851 AGTCCTTTTCAAGATAATTTTTAAAGTTATTAAGCCTCTGCTGAGAGGAGTCCTTTTCAAGATGA
1 AGTCGTTTTCAAGATAATTTTTAAAGTCATTAAGCCTCTGCTGAGAGGAGACCTTTTCAAGATAA
13833916 TTTTTAA
66 TTTTTAA
* * * *
13833923 AGTCGTTTTCAAGATGATTTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAGACTTTTTCAAGATAA
1 AGTCGTTTTCAAGATAATTTTTAAAGTCATTAAGCCTCTGCTGAGAGGAGACCTTTTCAAGATAA
13833988 TTTTTAA
66 TTTTTAA
13833995 AGTCGTT
1 AGTCGTT
13834002 GAGCCTCTGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (72 bp):
AGTCGTTTTCAAGATAATTTTTAAAGTCATTAAGCCTCTGCTGAGAGGAGACCTTTTCAAGATAA
TTTTTAA
Found at i:13833999 original size:48 final size:48
Alignment explanation
Indices: 13833928--13834224 Score: 350
Period size: 48 Copynumber: 6.1 Consensus size: 48
13833918 TTTAAAGTCG
* *
13833928 TTTTCAAGATGATTTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAGACT
1 TTTTCAAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGACT
* * *
13833976 TTTTCAAGAT-AATTTTTAAAGTCGTTGAGCCTCTGCTGAGATGAGCCT
1 TTTTCAAGATGAA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGACT
* * * *
13834024 TTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTCGGCTGAGATGAGCCC
1 TTTTCAAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGACT
* * * *
13834073 TTTTCAAGATGGATTTTAAAGTTGTTGAGCCTATGTTAAGAGGAG-CT
1 TTTTCAAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGACT
* * *
13834120 TTTCCAA-AAGAGATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGA-ACTT
1 TTTTCAAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGAC-T
* *
13834168 TTTTCAAGATGAAATTTTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGTCT
1 TTTTCAAGATG-AA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGACT
13834218 TTTTCAA
1 TTTTCAA
13834225 AATTTAAATT
Statistics
Matches: 214, Mismatches: 25, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
46 2 0.01
47 37 0.17
48 88 0.41
49 47 0.22
50 39 0.18
51 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (48 bp):
TTTTCAAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGACT
Found at i:13834093 original size:97 final size:97
Alignment explanation
Indices: 13833928--13834224 Score: 377
Period size: 97 Copynumber: 3.1 Consensus size: 97
13833918 TTTAAAGTCG
* * *
13833928 TTTTCAAGATGA-TTTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAGACTTTTTCAAGAT-AATTT
1 TTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAATTT
* *
13833991 TTAAAGTCGTTGAGCCTCTGCTGAGATGAGCCT
66 TTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CT
* * * *
13834024 TTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTCGGCTGAGATGAGCCCTTTTCAAGATGGA-TT
1 TTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAATTT
* * *
13834088 TTAAAGTTGTTGAGCCTATGTTAAGAGGAGCT
66 TTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCT
* * * * *
13834120 TTTCCAA-AAGAGATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAACTTTTTTCAAGATGAAATT
1 TTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATG-AATT
*
13834184 TTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGTCT
65 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CT
13834218 TTTTCAA
1 TTTTCAA
13834225 AATTTAAATT
Statistics
Matches: 170, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
95 45 0.26
96 21 0.12
97 95 0.56
98 9 0.05
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (97 bp):
TTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAATTT
TTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCT
Found at i:13834191 original size:145 final size:145
Alignment explanation
Indices: 13833928--13834224 Score: 384
Period size: 145 Copynumber: 2.0 Consensus size: 145
13833918 TTTAAAGTCG
* * * * *
13833928 TTTTCAAGATGATTTTTAAAGTCGTTGAGCCTCTGCTGAGAGGAGACTTTTTCAAGATAATTTTT
1 TTTTCAAGATGATTTTTAAAGTCGTTGAGCCTATGCTAAGAGGAGACTTTTCCAAAAGAATTTTT
* * * *
13833993 AAAGTCGTTGAGCCTCTGCTGAGATGAGCCTTTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTC
66 AAAGTCGTGGAGCCTCTGCTGAGAGGAACCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTC
*
13834058 GGCTGAGATGAGCCC
131 GGCTGAGAGGAGCCC
* *
13834073 TTTTCAAGATGGA-TTTTAAAGTTGTTGAGCCTATGTTAAGAGGAG-CTTTTCCAAAAGAGA-TT
1 TTTTCAAGAT-GATTTTTAAAGTCGTTGAGCCTATGCTAAGAGGAGACTTTTCCAAAAGA-ATTT
* *
13834135 TTAAAGTTGTGGAGCCTCTGCTGAGAGGAACTTTTTTCAAGATGAAATTTTTAAAGTTGTTGAGC
64 TTAAAGTCGTGGAGCCTCTGCTGAGAGGAACCTTTTTCAAGATGAAA-TTTTAAAGTTGTTGAGC
* * * *
13834200 TTCTGCTGAGAGGAGTCT
128 CTCGGCTGAGAGGAGCCC
13834218 TTTTCAA
1 TTTTCAA
13834225 AATTTAAATT
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
144 53 0.40
145 76 0.58
146 2 0.02
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (145 bp):
TTTTCAAGATGATTTTTAAAGTCGTTGAGCCTATGCTAAGAGGAGACTTTTCCAAAAGAATTTTT
AAAGTCGTGGAGCCTCTGCTGAGAGGAACCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTC
GGCTGAGAGGAGCCC
Found at i:13834409 original size:18 final size:18
Alignment explanation
Indices: 13834386--13834482 Score: 94
Period size: 18 Copynumber: 5.4 Consensus size: 18
13834376 CAATTTGTCC
**
13834386 AAAAAAAATATGAAATAT
1 AAAAAAAATACAAAATAT
13834404 AAAAAAAATACAAAATAT
1 AAAAAAAATACAAAATAT
*
13834422 GAAATACAAA-A-AAAATAT
1 -AAA-AAAAATACAAAATAT
13834440 AAAAAATAATACAAAATA-
1 AAAAAA-AATACAAAATAT
* *
13834458 CAAAAAAATACAAAACA-
1 AAAAAAAATACAAAATAT
13834475 AAAAAAAA
1 AAAAAAAA
13834483 CACAGAACAA
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
16 2 0.03
17 22 0.33
18 29 0.43
19 10 0.15
20 4 0.06
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.14
Consensus pattern (18 bp):
AAAAAAAATACAAAATAT
Found at i:13834418 original size:25 final size:25
Alignment explanation
Indices: 13834390--13834455 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
13834380 TTGTCCAAAA
*
13834390 AAAATATGAAATATAAAAAAAATAC
1 AAAATATGAAATACAAAAAAAATAC
*
13834415 AAAATATGAAATACAAAAAAAATAT
1 AAAATATGAAATACAAAAAAAATAC
*
13834440 AAAAAAT--AATACAAAA
1 AAAATATGAAATACAAAA
13834456 TACAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 9 0.24
25 29 0.76
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (25 bp):
AAAATATGAAATACAAAAAAAATAC
Found at i:13834445 original size:10 final size:10
Alignment explanation
Indices: 13834423--13834472 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
13834413 ACAAAATATG
13834423 AAATACAAAAA
1 AAATAC-AAAA
*
13834434 AAATA-TAAA
1 AAATACAAAA
*
13834443 AAATA-ATACA
1 AAATACA-AAA
13834453 AAATACAAAA
1 AAATACAAAA
13834463 AAATACAAAA
1 AAATACAAAA
13834473 CAAAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 8 0.24
10 19 0.58
11 6 0.18
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (10 bp):
AAATACAAAA
Found at i:13834476 original size:45 final size:43
Alignment explanation
Indices: 13834385--13834481 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 43
13834375 TCAATTTGTC
* * * *
13834385 CAAAAAAAATATGAAATATAAAAAAAATACAAAATATGAAATA
1 CAAAAAAAATATAAAAAATAAAAAAAATACAAAAAATGAAAAA
*
13834428 CAAAAAAAATATAAAAAATAATACAAAATACAAAAAAAT-ACAAAA
1 CAAAAAAAATATAAAAAATAA-AAAAAATAC-AAAAAATGA-AAAA
13834473 CAAAAAAAA
1 CAAAAAAAA
13834482 ACACAGAACA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 19 0.41
44 9 0.20
45 18 0.39
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.14
Consensus pattern (43 bp):
CAAAAAAAATATAAAAAATAAAAAAAATACAAAAAATGAAAAA
Found at i:13834481 original size:17 final size:17
Alignment explanation
Indices: 13834440--13834494 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
13834430 AAAAAAATAT
* *
13834440 AAAAAATAATACAAAAT
1 AAAAAAAAATACAAAAC
*
13834457 ACAAAAAAATACAAAAC
1 AAAAAAAAATACAAAAC
* *
13834474 AAAAAAAAACACAGAAC
1 AAAAAAAAATACAAAAC
13834491 AAAA
1 AAAA
13834495 TAGAAAAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.78, C:0.13, G:0.02, T:0.07
Consensus pattern (17 bp):
AAAAAAAAATACAAAAC
Found at i:13834484 original size:10 final size:11
Alignment explanation
Indices: 13834398--13834455 Score: 62
Period size: 11 Copynumber: 4.9 Consensus size: 11
13834388 AAAAAATATG
*
13834398 AAATATAAAAA
1 AAATACAAAAA
13834409 AAATACAAAATA
1 AAATACAAAA-A
13834421 TGAAATACAAAAA
1 --AAATACAAAAA
*
13834434 AAATATAAAAA
1 AAATACAAAAA
13834445 ATAATACAAAA
1 A-AATACAAAA
13834456 TACAAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
11 20 0.50
12 9 0.22
13 1 0.03
14 10 0.25
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (11 bp):
AAATACAAAAA
Found at i:13847524 original size:21 final size:21
Alignment explanation
Indices: 13847474--13847524 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
13847464 TAGAATTTTA
** *
13847474 ATCCCAAGCTGATCTCTAATG
1 ATCCCAAATTGATCTCTAACG
13847495 ATCCCAAATTGATCTCTAACG
1 ATCCCAAATTGATCTCTAACG
*
13847516 ATCCTAAAT
1 ATCCCAAAT
13847525 CAAACATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.29
Consensus pattern (21 bp):
ATCCCAAATTGATCTCTAACG
Found at i:13853655 original size:14 final size:14
Alignment explanation
Indices: 13853636--13853668 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
13853626 AGCTAAAATC
13853636 ATTTTCTATTATTT
1 ATTTTCTATTATTT
*
13853650 ATTTTCTCTTATTT
1 ATTTTCTATTATTT
13853664 ATTTT
1 ATTTT
13853669 TTCTAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTTTCTATTATTT
Found at i:13853993 original size:14 final size:14
Alignment explanation
Indices: 13853974--13854078 Score: 57
Period size: 15 Copynumber: 6.8 Consensus size: 14
13853964 AGTATAGTAT
*
13853974 ATTATTGTATTATA
1 ATTATTATATTATA
13853988 ATTATTATATTATA
1 ATTATTATATTATA
* *
13854002 ATACATTATACTATTGA
1 AT-TATTATATTA-T-A
*
13854019 AGTATCTCATATTATTA
1 ATTAT-T-ATATTA-TA
* *
13854036 TTACTATTACTATTATT
1 --ATTATTA-TATTATA
*
13854053 ATTATTATTATTATT
1 ATTATTA-TATTATA
13854068 ATTATTATATT
1 ATTATTATATT
13854079 TTGTCTTTAT
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
14 19 0.26
15 28 0.38
16 3 0.04
17 6 0.08
18 13 0.18
19 4 0.05
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (14 bp):
ATTATTATATTATA
Found at i:13854036 original size:3 final size:3
Alignment explanation
Indices: 13854028--13854075 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
13854018 AAGTATCTCA
* *
13854028 TAT TAT TAT TAC TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13854076 ATTTTGTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:13854978 original size:5 final size:5
Alignment explanation
Indices: 13854968--13855067 Score: 57
Period size: 5 Copynumber: 19.6 Consensus size: 5
13854958 TGGCAGGTTT
*
13854968 TTTTA TTTTA TTTTA TTTTA -TTT- TTTGA TTTTGA TTTTTA TTCATT-
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A -TTTTA TT--TTA
** * *
13855014 TTTTA TTTTA AGTT- TTTTA TTTTTA TTTTCA TCTTA TTTTA CTGTT-
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTT-A TTTTA TTTTA -TTTTA
13855060 TTTTA TTT
1 TTTTA TTT
13855068 ATTATTTGCT
Statistics
Matches: 73, Mismatches: 10, Indels: 24
0.68 0.09 0.22
Matches are distributed among these distances:
4 12 0.16
5 39 0.53
6 16 0.22
7 6 0.08
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:13854992 original size:6 final size:6
Alignment explanation
Indices: 13854967--13855042 Score: 52
Period size: 6 Copynumber: 12.7 Consensus size: 6
13854957 ATGGCAGGTT
* **
13854967 TTTTTA -TTTTA -TTTTA -TTTTA TTTTTTGA TTTTGA TTTTTA TTCAT-
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTTT-A TTTTTA TTTTTA TTTTTA
*
13855013 TTTTTA TTTTAA GTTTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA --TTTTTA TTTTTA TTTT
13855043 CATCTTATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
5 18 0.32
6 24 0.43
7 8 0.14
8 6 0.11
ACGTcount: A:0.17, C:0.01, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:13855051 original size:31 final size:31
Alignment explanation
Indices: 13854966--13855074 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 31
13854956 AATGGCAGGT
*
13854966 TTTTTTA-TTTTATTTT-ATTTTATTTTTTG
1 TTTTTTATTTTTATTTTCATTTTATTTTATG
* * *
13854995 ATTTTGATTTTTA--TTCATTTTTTATTTTAAG
1 TTTTTTATTTTTATTTTCA--TTTTATTTTATG
*
13855026 TTTTTTATTTTTATTTTCATCTTATTTTACTG
1 TTTTTTATTTTTATTTTCATTTTATTTTA-TG
13855058 TTTTTTATTTATTATTT
1 TTTTTTATTT-TTATTT
13855075 GCTAAATATT
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
28 2 0.03
29 6 0.09
30 5 0.08
31 30 0.47
32 11 0.17
33 10 0.16
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (31 bp):
TTTTTTATTTTTATTTTCATTTTATTTTATG
Found at i:13855054 original size:36 final size:37
Alignment explanation
Indices: 13854975--13855054 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 37
13854965 TTTTTTTATT
*
13854975 TTATTTTATTTTATTTTTTGATTTTGATTTTTATTCA
1 TTATTTTATTTTATTTTTTGATTTTGATTTTCATTCA
*
13855012 TT-TTTTATTTTAAGTTTTTT-ATTTTTATTTTCA-TC-
1 TTATTTTATTTT-A-TTTTTTGATTTTGATTTTCATTCA
13855047 TTATTTTA
1 TTATTTTA
13855055 CTGTTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
35 2 0.05
36 16 0.42
37 14 0.37
38 6 0.16
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (37 bp):
TTATTTTATTTTATTTTTTGATTTTGATTTTCATTCA
Found at i:13855680 original size:49 final size:49
Alignment explanation
Indices: 13855624--13855723 Score: 148
Period size: 49 Copynumber: 2.0 Consensus size: 49
13855614 GAGAATTATC
* *
13855624 TTAAAGTGCTACCAAACTATTCGAGCAATTTCAA-AACTAATTTTTAATA
1 TTAAAGTGCTACCAAAATATTAGAGCAATTTCAAGAA-TAATTTTTAATA
* *
13855673 TTAAAGTGCTACCAAAATATTAGGGCAATTTTAAGAATAATTTTTAATA
1 TTAAAGTGCTACCAAAATATTAGAGCAATTTCAAGAATAATTTTTAATA
13855722 TT
1 TT
13855724 TAATATTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 44 0.96
50 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (49 bp):
TTAAAGTGCTACCAAAATATTAGAGCAATTTCAAGAATAATTTTTAATA
Found at i:13865482 original size:10 final size:10
Alignment explanation
Indices: 13865467--13865494 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
13865457 ATTTTGATAT
13865467 CAATTGTTAC
1 CAATTGTTAC
13865477 CAATTGTTAC
1 CAATTGTTAC
13865487 CAATTGTT
1 CAATTGTT
13865495 TGTAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.43
Consensus pattern (10 bp):
CAATTGTTAC
Found at i:13874784 original size:5 final size:5
Alignment explanation
Indices: 13874767--13874858 Score: 50
Period size: 5 Copynumber: 19.0 Consensus size: 5
13874757 TTTTTATTTG
* * * *
13874767 TTATA TTATTA TTATA TTATA TTATTA GTATA TCATA ATATA TCA-A -TATA
1 TTATA TTA-TA TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA
* * * * *
13874817 GTATA -T-TA TTGTA TTATA AT-TA TTATA TTATA GTACA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
13874859 CTATTGCAGT
Statistics
Matches: 65, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
3 3 0.05
4 7 0.11
5 46 0.71
6 9 0.14
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (5 bp):
TTATA
Found at i:13874840 original size:14 final size:14
Alignment explanation
Indices: 13874774--13874848 Score: 55
Period size: 14 Copynumber: 5.0 Consensus size: 14
13874764 TTGTTATATT
13874774 ATTATTATATTAT-
1 ATTATTATATTATA
13874787 ATTATTAGTATATCATA
1 ATTATTA-TAT-T-ATA
*
13874804 ATATATCA-ATATAGTA
1 AT-TATTATAT-TA-TA
*
13874820 TATTATTGTATTATA
1 -ATTATTATATTATA
13874835 ATTATTATATTATA
1 ATTATTATATTATA
13874849 GTACATTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
13 7 0.14
14 16 0.32
15 4 0.08
16 13 0.26
17 6 0.12
18 4 0.08
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (14 bp):
ATTATTATATTATA
Found at i:13874893 original size:3 final size:3
Alignment explanation
Indices: 13874875--13874932 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
13874865 CAGTATCTCA
* * * * *
13874875 TAT TAT TAC TAC TAT TAT TAC TAT TAT TAT TAT TAT TAC TAT TCT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
13874923 TAT TTT TAT T
1 TAT TAT TAT T
13874933 TTGTTTTTAT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:13875817 original size:15 final size:14
Alignment explanation
Indices: 13875795--13875832 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
13875785 TTTATTTTTA
13875795 TTAATTTTTATATT
1 TTAATTTTTATATT
13875809 TTAAGTTTTTATATT
1 TTAA-TTTTTATATT
*
13875824 TTACTTTTT
1 TTAATTTTT
13875833 TAGTAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (14 bp):
TTAATTTTTATATT
Found at i:13877168 original size:2 final size:2
Alignment explanation
Indices: 13877163--13877190 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13877153 TAAGCAAAGG
13877163 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
13877191 AAGAATCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13878097 original size:16 final size:18
Alignment explanation
Indices: 13878066--13878099 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
13878056 AATATTTCTT
13878066 TAATATAAAAATAATAAA
1 TAATATAAAAATAATAAA
13878084 TAAT-TAAAAA-AATAAA
1 TAATATAAAAATAATAAA
13878100 CACTCGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 6 0.38
18 4 0.25
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
TAATATAAAAATAATAAA
Found at i:13878868 original size:16 final size:17
Alignment explanation
Indices: 13878847--13878879 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13878837 TCCATATAGT
*
13878847 TATTAATAA-AAAATAA
1 TATTAAAAATAAAATAA
13878863 TATTAAAAATAAAATAA
1 TATTAAAAATAAAATAA
13878880 AATAAAAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TATTAAAAATAAAATAA
Found at i:13879472 original size:20 final size:20
Alignment explanation
Indices: 13879449--13879509 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
13879439 GATTTTCCTT
13879449 TCATTTCTTTTCTTTTTCAA
1 TCATTTCTTTTCTTTTTCAA
*
13879469 TCATTT-TTTCTCTTTTTCGA
1 TCATTTCTTT-TCTTTTTCAA
*
13879489 TCTGTTTCCTTTTCCTTTTTC
1 TC-ATTT-CTTTT-CTTTTTC
13879510 CATTTTTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 3 0.09
20 17 0.50
21 3 0.09
22 1 0.03
23 10 0.29
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.66
Consensus pattern (20 bp):
TCATTTCTTTTCTTTTTCAA
Found at i:13885504 original size:3 final size:3
Alignment explanation
Indices: 13885496--13885533 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
13885486 CTAATTGACT
13885496 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13885534 TTGCAATTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13888030 original size:16 final size:17
Alignment explanation
Indices: 13887999--13888030 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13887989 AATATAGGAG
13887999 ATTGAATGTGGTGAAAA
1 ATTGAATGTGGTGAAAA
13888016 ATTGAATGT-GTGAAA
1 ATTGAATGTGGTGAAA
13888031 TTTTTTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (17 bp):
ATTGAATGTGGTGAAAA
Found at i:13889335 original size:7 final size:6
Alignment explanation
Indices: 13889315--13889399 Score: 52
Period size: 6 Copynumber: 13.8 Consensus size: 6
13889305 AACTACTCTG
*
13889315 TAAAAA TAAAAA TAAATAA TAAAAACCA TCAAAA T-AAAA T-AAAA TAAAAA
1 TAAAAA TAAAAA TAAA-AA T-AAAA--A TAAAAA TAAAAA TAAAAA TAAAAA
* * *
13889365 CTTAAAA TATAAAA T--AAA TAAAAT TAAAAT TAAAA
1 -TAAAAA TA-AAAA TAAAAA TAAAAA TAAAAA TAAAA
13889400 TAGGAAAAGA
Statistics
Matches: 66, Mismatches: 4, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
4 4 0.06
5 10 0.15
6 30 0.45
7 14 0.21
8 6 0.09
9 2 0.03
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (6 bp):
TAAAAA
Found at i:13889337 original size:13 final size:12
Alignment explanation
Indices: 13889315--13889399 Score: 52
Period size: 13 Copynumber: 6.9 Consensus size: 12
13889305 AACTACTCTG
13889315 TAAAAATAAAAA
1 TAAAAATAAAAA
13889327 TAAATAATAAAAACCA
1 TAAA-AAT-AAAA--A
*
13889343 TCAAAAT-AAAA
1 TAAAAATAAAAA
13889354 T-AAAATAAAAA
1 TAAAAATAAAAA
*
13889365 CTTAAAATATAAAA
1 -TAAAAATA-AAAA
*
13889379 T--AAATAAAAT
1 TAAAAATAAAAA
*
13889389 TAAAATTAAAA
1 TAAAAATAAAA
13889400 TAGGAAAAGA
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
10 9 0.15
11 11 0.18
12 12 0.20
13 13 0.22
14 8 0.13
15 3 0.05
16 4 0.07
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (12 bp):
TAAAAATAAAAA
Found at i:13889354 original size:23 final size:23
Alignment explanation
Indices: 13889316--13889387 Score: 78
Period size: 25 Copynumber: 3.1 Consensus size: 23
13889306 ACTACTCTGT
13889316 AAAA-ATAAAAAT-AAAT-AATA
1 AAAACATAAAAATAAAATAAATA
*
13889336 AAAACCATCAAAATAAAATAAAATA
1 AAAA-CATAAAAATAAAAT-AAATA
*
13889361 AAAACTTAAAATATAAAATAAATA
1 AAAACATAAAA-ATAAAATAAATA
13889385 AAA
1 AAA
13889388 TTAAAATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
20 4 0.09
22 7 0.16
23 4 0.09
24 13 0.30
25 15 0.35
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (23 bp):
AAAACATAAAAATAAAATAAATA
Found at i:13889387 original size:29 final size:29
Alignment explanation
Indices: 13889317--13889401 Score: 91
Period size: 29 Copynumber: 2.8 Consensus size: 29
13889307 CTACTCTGTA
* *
13889317 AAAATAAAAATAAATAATAAAAACCATCAAAAT
1 AAAAT-AAAATAAA-AATTAAAA-TAT-AAAAT
13889350 AAAATAAAATAAAAACTTAAAATATAAAAT
1 AAAATAAAATAAAAA-TTAAAATATAAAAT
*
13889380 -AAATAAAATTAAAATTAAAATA
1 AAAATAAAATAAAAATTAAAATA
13889402 GGAAAAGAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
28 8 0.17
29 13 0.27
30 5 0.10
31 4 0.08
32 13 0.27
33 5 0.10
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (29 bp):
AAAATAAAATAAAAATTAAAATATAAAAT
Found at i:13889407 original size:29 final size:30
Alignment explanation
Indices: 13889345--13889412 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
13889335 AAAAACCATC
*
13889345 AAAATAAAATAAAATAAAAACTTAAAATAT
1 AAAATAAAATAAAATAAAAACTTAAAATAG
*
13889375 AAAAT-AAATAAAATTAAAA-TTAAAATAGG
1 AAAATAAAATAAAATAAAAACTTAAAATA-G
*
13889404 AAAAGAAAA
1 AAAATAAAA
13889413 ACATGCAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 8 0.24
29 17 0.52
30 8 0.24
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (30 bp):
AAAATAAAATAAAATAAAAACTTAAAATAG
Found at i:13889810 original size:19 final size:20
Alignment explanation
Indices: 13889788--13889825 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
13889778 TCAAAAAATG
*
13889788 TAAAACTAATCCCA-AAACC
1 TAAAACTAAACCCAGAAACC
*
13889807 TAAATCTAAACCCAGAAAC
1 TAAAACTAAACCCAGAAAC
13889826 TTCAAACCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.53, C:0.29, G:0.03, T:0.16
Consensus pattern (20 bp):
TAAAACTAAACCCAGAAACC
Found at i:13890214 original size:3 final size:3
Alignment explanation
Indices: 13890192--13890341 Score: 70
Period size: 3 Copynumber: 52.0 Consensus size: 3
13890182 AAGAAAGAAC
* * *
13890192 ATA A-A ATA A-A ATA A-A ATA ATA ATA ATA ATA GTA ATA AAA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
13890237 ATG AT- ATA ATA ATA TATT ATA TTA TAGA ATA ATA AAA ATA AAA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * *
13890283 ACT- ATA ATA A-A GTA ATA ATA AT- ATA CCAT- ATT ATA CT- ATA ATA
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA
13890326 AT- ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
13890342 TATTATACTA
Statistics
Matches: 111, Mismatches: 20, Indels: 32
0.68 0.12 0.20
Matches are distributed among these distances:
2 19 0.17
3 86 0.77
4 4 0.04
5 2 0.02
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13890331 original size:5 final size:5
Alignment explanation
Indices: 13890323--13890441 Score: 52
Period size: 5 Copynumber: 23.6 Consensus size: 5
13890313 TTATACTATA
* * *
13890323 ATAAT ATAAT AT-A- ATAAT ATATT ATACT ATAAT ATGCTAT ACTAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT--AAT A-TAAT
* * * *
13890369 ATACT ATACT -TCAAT AT-AT AATAAT ATAAC ATAAT AATAAT ATAGT
1 ATAAT ATAAT AT-AAT ATAAT -ATAAT ATAAT ATAAT -ATAAT ATAAT
* *
13890415 AT-A- ACAAT AACAAT ATAAT ATAAT ATA
1 ATAAT ATAAT -ATAAT ATAAT ATAAT ATA
13890442 CAACTAACAA
Statistics
Matches: 88, Mismatches: 13, Indels: 26
0.69 0.10 0.20
Matches are distributed among these distances:
3 3 0.03
4 6 0.07
5 59 0.67
6 16 0.18
7 3 0.03
8 1 0.01
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:13890336 original size:10 final size:10
Alignment explanation
Indices: 13890196--13890441 Score: 54
Period size: 10 Copynumber: 24.6 Consensus size: 10
13890186 AAGAACATAA
* *
13890196 AATAAAATAA
1 AATATAATAT
13890206 AATAATAATAAT
1 AAT-ATAAT-AT
13890218 AATAGTAATA-
1 AATA-TAATAT
*
13890228 AAAATAATGAT
1 AATATAAT-AT
*
13890239 GATAT-A-AT
1 AATATAATAT
*
13890247 AATATATTAT
1 AATATAATAT
*
13890257 ATTATAGA-AT
1 AATATA-ATAT
*
13890267 AATA-AAAAT
1 AATATAATAT
*
13890276 AAAAATAACTAT
1 -AATATAA-TAT
*
13890288 AATA-AA-GT
1 AATATAATAT
13890296 AATAATAATAT
1 AAT-ATAATAT
** *
13890307 ACCATATTAT
1 AATATAATAT
*
13890317 ACTAT-A-AT
1 AATATAATAT
13890325 AATATAATAT
1 AATATAATAT
13890335 -A-ATAATAT
1 AATATAATAT
* *
13890343 ATTATACTAT
1 AATATAATAT
*
13890353 AATATGCTATACT
1 AATAT--AATA-T
*
13890366 AATATACTAT
1 AATATAATAT
*
13890376 ACT-TCAATAT
1 AATAT-AATAT
13890386 -ATAATAATAT
1 AAT-ATAATAT
*
13890396 AACATAATAAT
1 AATATAAT-AT
*
13890407 AATATAGTAT
1 AATATAATAT
* *
13890417 -A-ACAATAAC
1 AATATAAT-AT
13890426 AATATAATAT
1 AATATAATAT
13890436 AATATA
1 AATATA
13890442 CAACTAACAA
Statistics
Matches: 167, Mismatches: 39, Indels: 60
0.63 0.15 0.23
Matches are distributed among these distances:
8 27 0.16
9 14 0.08
10 76 0.46
11 32 0.19
12 12 0.07
13 6 0.04
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (10 bp):
AATATAATAT
Found at i:13890410 original size:19 final size:20
Alignment explanation
Indices: 13890381--13890437 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
13890371 ACTATACTTC
13890381 AATATATAATAATATAAC-AT
1 AATA-ATAATAATATAACAAT
13890401 AATAATAATATAGTATAACAAT
1 AATAATAATA-A-TATAACAAT
*
13890423 AACAAT-ATAATATAA
1 AATAATAATAATATAA
13890438 TATACAACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 11 0.33
20 6 0.18
21 9 0.27
22 7 0.21
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (20 bp):
AATAATAATAATATAACAAT
Found at i:13890432 original size:24 final size:24
Alignment explanation
Indices: 13890405--13890461 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
13890395 TAACATAATA
*
13890405 ATAATATAGTATAACAA-TAACAAT
1 ATAATATAATAT-ACAACTAACAAT
13890429 ATAATATAATATACAACTAACAAT
1 ATAATATAATATACAACTAACAAT
13890453 A-AA-ATAATA
1 ATAATATAATA
13890462 CTAATACTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 6 0.19
23 6 0.19
24 19 0.61
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (24 bp):
ATAATATAATATACAACTAACAAT
Found at i:13890432 original size:27 final size:24
Alignment explanation
Indices: 13890380--13890461 Score: 68
Period size: 24 Copynumber: 3.5 Consensus size: 24
13890370 TACTATACTT
13890380 CAATAT-ATAATAATATA-ACATAA
1 CAATATAATAATAATATACA-ATAA
* *
13890403 -TA-ATAAT-ATAGTATAACAATAA
1 CAATATAATAATAATAT-ACAATAA
13890425 CAATATAAT-ATAATATACAACTAA
1 CAATATAATAATAATATACAA-TAA
*
13890449 CAATAAAATAATA
1 CAATATAATAATA
13890462 CTAATACTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
21 8 0.17
22 8 0.17
23 6 0.13
24 22 0.47
25 3 0.06
ACGTcount: A:0.61, C:0.09, G:0.01, T:0.29
Consensus pattern (24 bp):
CAATATAATAATAATATACAATAA
Found at i:13890941 original size:54 final size:55
Alignment explanation
Indices: 13890810--13891077 Score: 240
Period size: 54 Copynumber: 4.9 Consensus size: 55
13890800 CTCATGACCA
* * * * * *
13890810 GGACTGAGCCAAGATCAAATGA-TAGGGATAAAACCACAAGTCTAAAAAATAATCT
1 GGACTGAGCCAAGATCGAATGATTA-AGATGAAACCATAAGTCTAAAAAATGATAT
* * * *
13890865 AGAGTGAGTCAAGATC-AGATGATTAAGATGAAACCATAAGTCT-GAAAATGATAT
1 GGACTGAGCCAAGATCGA-ATGATTAAGATGAAACCATAAGTCTAAAAAATGATAT
* * * *
13890919 GGACTAAGCCAAGATCGAATGATTAAGACGAAACCACAAGTCTAAAAAATGATCT
1 GGACTGAGCCAAGATCGAATGATTAAGATGAAACCATAAGTCTAAAAAATGATAT
* * * * *
13890974 GGATTGAGCCAAGATCG-ATGATTGAGGTGAAACCATAAATCTAAAAAATGATTT
1 GGACTGAGCCAAGATCGAATGATTAAGATGAAACCATAAGTCTAAAAAATGATAT
* * * * * * *
13891028 GGAC-GAGTCAAGATCGGATTATCAGGATGAAATCCATAAGTTTAGAAAAT
1 GGACTGAGCCAAGATCGAATGATTAAGATGAAA-CCATAAGTCTAAAAAAT
13891078 AATCTAAACC
Statistics
Matches: 172, Mismatches: 35, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
53 11 0.06
54 88 0.51
55 71 0.41
56 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (55 bp):
GGACTGAGCCAAGATCGAATGATTAAGATGAAACCATAAGTCTAAAAAATGATAT
Found at i:13891963 original size:34 final size:32
Alignment explanation
Indices: 13891924--13891991 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 32
13891914 AACTCTTCCT
* *
13891924 TTTTTTCTTTTTTTTTTTCTTCTCTTTTATTTTGC
1 TTTTTT-TTTTTTATTTT-TGCTCTTTT-TTTTGC
13891959 TTTTTTTTTTTTCATTTTTGCTCTTTTTTTTGC
1 TTTTTTTTTTTT-ATTTTTGCTCTTTTTTTTGC
13891992 ACACCTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 6 0.20
34 14 0.47
35 10 0.33
ACGTcount: A:0.03, C:0.13, G:0.04, T:0.79
Consensus pattern (32 bp):
TTTTTTTTTTTTATTTTTGCTCTTTTTTTTGC
Found at i:13891975 original size:20 final size:21
Alignment explanation
Indices: 13891948--13891989 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
13891938 TTTTCTTCTC
13891948 TTTTA-TTTTGCT-TTTTTTT
1 TTTTATTTTTGCTCTTTTTTT
13891967 TTTTCATTTTTGCTCTTTTTTT
1 TTTT-ATTTTTGCTCTTTTTTT
13891989 T
1 T
13891990 GCACACCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 1 0.05
21 7 0.35
22 8 0.40
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.81
Consensus pattern (21 bp):
TTTTATTTTTGCTCTTTTTTT
Found at i:13897068 original size:22 final size:23
Alignment explanation
Indices: 13897021--13897072 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 23
13897011 TAAAATATTT
*
13897021 AATAAATAATAAATTACTCAGTAAA
1 AATAAATAATAAA-TACTCAG-CAA
13897046 AATAAATAATAAA-AC-CAGCAA
1 AATAAATAATAAATACTCAGCAA
13897067 AATAAA
1 AATAAA
13897073 AAAACTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 8 0.31
22 3 0.12
23 2 0.08
25 13 0.50
ACGTcount: A:0.65, C:0.10, G:0.04, T:0.21
Consensus pattern (23 bp):
AATAAATAATAAATACTCAGCAA
Found at i:13897093 original size:22 final size:20
Alignment explanation
Indices: 13897065--13897119 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
13897055 TAAAACCAGC
13897065 AAAATAAAAAAACTCAAAATAT
1 AAAATAAAAAAA-TCAAAAT-T
*
13897087 AAAATAAATAAAATTAAAATT
1 AAAATAAA-AAAATCAAAATT
13897108 AAAATAAAAAAA
1 AAAATAAAAAAA
13897120 AGAAAAACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 4 0.13
21 9 0.29
22 14 0.45
23 4 0.13
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAATAAAAAAATCAAAATT
Found at i:13898081 original size:3 final size:3
Alignment explanation
Indices: 13898075--13898189 Score: 66
Period size: 3 Copynumber: 41.0 Consensus size: 3
13898065 ATAATATAGC
* * *
13898075 ATA ATA ATA ATA AT- ATA GT- ATA ACA ATA ACA AT- ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
13898119 GT- ATA AT- ATA CTA GTA ACA ATA A-A ATA ATA CTA ATA CTA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
13898164 ATA ATA A-A ATA ATA ACA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
13898190 GAGTCCAATT
Statistics
Matches: 81, Mismatches: 23, Indels: 16
0.68 0.19 0.13
Matches are distributed among these distances:
2 14 0.17
3 67 0.83
ACGTcount: A:0.61, C:0.07, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:13898088 original size:19 final size:19
Alignment explanation
Indices: 13898064--13898169 Score: 81
Period size: 19 Copynumber: 5.4 Consensus size: 19
13898054 TGTAATATAC
*
13898064 AATAATATAGCATAATAAT
1 AATAATATAGTATAATAAT
*
13898083 AATAATATAGTATAACAAT
1 AATAATATAGTATAATAAT
* *
13898102 AACAATATAATATAATAGTAT
1 AATAATATAGTATAATA--AT
*
13898123 AAT-ATACTAGTAACAATAA-
1 AATAATA-TAGT-ATAATAAT
* *
13898142 AATAATACTAATACTAATACT
1 AATAATA-TAGTA-TAATAAT
13898163 AATAATA
1 AATAATA
13898170 AAATAATAAC
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
19 35 0.51
20 15 0.22
21 14 0.20
22 5 0.07
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.31
Consensus pattern (19 bp):
AATAATATAGTATAATAAT
Found at i:13898097 original size:13 final size:14
Alignment explanation
Indices: 13898081--13898174 Score: 54
Period size: 13 Copynumber: 6.9 Consensus size: 14
13898071 TAGCATAATA
13898081 ATAATAAT-ATAGT
1 ATAATAATAATAGT
* * *
13898094 ATAACAATAACAAT
1 ATAATAATAATAGT
13898108 ATAAT-ATAATAGT
1 ATAATAATAATAGT
*
13898121 ATAAT-ATACTAGT
1 ATAATAATAATAGT
* *
13898134 AACAATAA-AATAAT
1 -ATAATAATAATAGT
* *
13898148 ACTAATACTAATACT
1 A-TAATAATAATAGT
13898163 AATAATAA-AATA
1 -ATAATAATAATA
13898175 ATAACAATAA
Statistics
Matches: 61, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
13 26 0.43
14 23 0.38
15 11 0.18
16 1 0.02
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (14 bp):
ATAATAATAATAGT
Found at i:13898137 original size:32 final size:32
Alignment explanation
Indices: 13898075--13898174 Score: 87
Period size: 32 Copynumber: 3.0 Consensus size: 32
13898065 ATAATATAGC
*
13898075 ATAATAATAATAATATAGTATAACAATAACAAT
1 ATAAT-ATAATAATATAATATAACAATAACAAT
* *
13898108 ATAATATAATAGTATAATAT-ACTAGTAACAAT
1 ATAATATAATAATATAATATAAC-AATAACAAT
* * *
13898140 AAAATAATACTAATACTAATACTAATAATAA-AAT
1 ATAAT-ATAATAATA-TAATA-TAACAATAACAAT
13898174 A
1 A
13898175 ATAACAATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
31 2 0.04
32 25 0.46
33 12 0.22
34 9 0.17
35 5 0.09
36 1 0.02
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (32 bp):
ATAATATAATAATATAATATAACAATAACAAT
Found at i:13904011 original size:31 final size:31
Alignment explanation
Indices: 13903976--13904086 Score: 118
Period size: 31 Copynumber: 3.5 Consensus size: 31
13903966 TTTAAATTAC
13903976 ATATCATTTTAAAAATTAAGAAAAAATTTCT
1 ATATCATTTTAAAAATTAAGAAAAAATTTCT
* *
13904007 ATATCATTTTAAAAAATTAA-ATAAAAA-CTCC
1 ATATCATTTT-AAAAATTAAGA-AAAAATTTCT
* * * * *
13904038 ACACCGTTTTAAAATATTATGTAAAAATTTCT
1 ATATCATTTTAAAA-ATTAAGAAAAAATTTCT
13904070 ATATCATTTTAAAAATT
1 ATATCATTTTAAAAATT
13904087 GATTTATTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
30 4 0.06
31 32 0.51
32 27 0.43
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.39
Consensus pattern (31 bp):
ATATCATTTTAAAAATTAAGAAAAAATTTCT
Found at i:13906039 original size:10 final size:10
Alignment explanation
Indices: 13906026--13906054 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
13906016 AATAATAATT
13906026 ATTATTTATA
1 ATTATTTATA
13906036 ATTATTTATA
1 ATTATTTATA
13906046 ATTATTTAT
1 ATTATTTAT
13906055 TATTTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTATTTATA
Found at i:13913337 original size:182 final size:182
Alignment explanation
Indices: 13913021--13913430 Score: 459
Period size: 182 Copynumber: 2.2 Consensus size: 182
13913011 ATAAAAGATG
* * * *
13913021 TTTTAAAAACTTATGTATTATGTGAGAGTGTGAAATAAGCGTATTAGATGAATATACATAACATT
1 TTTTAAAAACTTATATATTATGTCAGTGTGTGAAATAAGTGTATTAGATGAATATACATAACATT
* *** ** * * * *
13913086 TTCTTAATTAAAAGTATTGTGTTATTTGCACTCATTTAATATACTATTTTGCATACTC-TTTTCT
66 TTCTTAATTAAAAGGACAATGTTACATGCACTCATATAATACACTATTTTACACACTCATTTTCT
* * * *
13913150 TTTTTTAGAGGCTTAATTGAAAAATT-TTAAATTTTTAATAGGTTATAATAAAA
131 TTTTTTAGAGACTTAAGT-AAAAATTATAAAATTTTT-ATAGGTTACAATAAAA
* * * * * *
13913203 TTTTAAAAATTTATATATTATGTCAGTGTGTGAAATAAGTATATTGGATGAGTATATATAGCATT
1 TTTTAAAAACTTATATATTATGTCAGTGTGTGAAATAAGTGTATTAGATGAATATACATAACATT
* * * *
13913268 TTTTTAATTAAAAGGACAATGTTACATGTATTCATATAATACACTCATTTTACGCACTCATTTT-
66 TTCTTAATTAAAAGGACAATGTTACATGCACTCATATAATACACT-ATTTTACACACTCATTTTC
*
13913332 TTTTTTTAGAGATTTAAGTAAAAATTACTAAAATTTTTATAGGTTACAATAAAA
130 TTTTTTTAGAGACTTAAGTAAAAATTA-TAAAATTTTTATAGGTTACAATAAAA
* * *
13913386 TTTTAAAAACTTATATATTTTG-CGAGTATGTGAAATGAGTGTATT
1 TTTTAAAAACTTATATATTATGTC-AGTGTGTGAAATAAGTGTATT
13913431 TTATAAATGT
Statistics
Matches: 189, Mismatches: 34, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
182 97 0.51
183 79 0.42
184 13 0.07
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (182 bp):
TTTTAAAAACTTATATATTATGTCAGTGTGTGAAATAAGTGTATTAGATGAATATACATAACATT
TTCTTAATTAAAAGGACAATGTTACATGCACTCATATAATACACTATTTTACACACTCATTTTCT
TTTTTTAGAGACTTAAGTAAAAATTATAAAATTTTTATAGGTTACAATAAAA
Found at i:13914392 original size:20 final size:20
Alignment explanation
Indices: 13914355--13914412 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
13914345 TACATGGGTG
* * *
13914355 TTGATTTTGCTAAAGTAACA
1 TTGATTTTGTTGACGTAACA
*
13914375 TTGATTTTGTTGACGTAATA
1 TTGATTTTGTTGACGTAACA
*
13914395 TTAATTTT-TTGACGTAAC
1 TTGATTTTGTTGACGTAAC
13914413 GATTTAGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.28
20 23 0.72
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.47
Consensus pattern (20 bp):
TTGATTTTGTTGACGTAACA
Found at i:13914604 original size:13 final size:13
Alignment explanation
Indices: 13914583--13914625 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
13914573 TTAAATTTAC
*
13914583 TTTTGTTAATATT
1 TTTTTTTAATATT
13914596 TTTTTTTAAT-TT
1 TTTTTTTAATATT
* *
13914608 TATTTTTAAAATT
1 TTTTTTTAATATT
13914621 TTTTT
1 TTTTT
13914626 GTATTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTTTTTAATATT
Done.