Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 71 of 120
Found at i:8566055 original size:32 final size:32
Alignment explanation
Indices: 8566011--8566074 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
8566001 ATTGTTATCT
8566011 AATTTCTATTATAA-TCTTTTACTTTGCTATAA
1 AATTTCTATTATAAGT-TTTTACTTTGCTATAA
* * *
8566043 AATTTCTGTTATAAGTTTTTATTTTGTTATAA
1 AATTTCTATTATAAGTTTTTACTTTGCTATAA
8566075 CCAAGGGTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (32 bp):
AATTTCTATTATAAGTTTTTACTTTGCTATAA
Found at i:8566322 original size:12 final size:12
Alignment explanation
Indices: 8566305--8566330 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8566295 CTGGTGATTT
8566305 TATGGCTGGTTC
1 TATGGCTGGTTC
8566317 TATGGCTGGTTC
1 TATGGCTGGTTC
8566329 TA
1 TA
8566331 GTGAAGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.12, C:0.15, G:0.31, T:0.42
Consensus pattern (12 bp):
TATGGCTGGTTC
Found at i:8566655 original size:42 final size:41
Alignment explanation
Indices: 8566586--8566789 Score: 131
Period size: 42 Copynumber: 4.9 Consensus size: 41
8566576 AAACAATAGG
* * * ** * * *
8566586 AAACCCTAACTTTAAATTCGAGTAATTAAGAACCATAGCAGA
1 AAACCCTAACTATAATTTTGACCAATTAAGAACAACA-CAAA
*
8566628 AAGCCCTAACTATAATTTTGACCAATTAAGAACAACACAAA
1 AAACCCTAACTATAATTTTGACCAATTAAGAACAACACAAA
* * * *
8566669 AAACCCTAACTATTATTTTGAGCAATTAAGAATAACAGCAGA
1 AAACCCTAACTATAATTTTGACCAATTAAGAACAACA-CAAA
* * * * ** *
8566711 AAA-TCTCAAATATAAATTTAAGTAATTAAGAACAACAGAAAA
1 AAACCCT-AACTATAATTTTGACCAATTAAGAACAACA-CAAA
* * * ** *
8566753 AAACCTTGACTATAAATTTGAATAATTAAGAATAACA
1 AAACCCTAACTATAATTTTGACCAATTAAGAACAACA
8566790 ATAGAAAATC
Statistics
Matches: 129, Mismatches: 30, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
41 38 0.29
42 90 0.70
43 1 0.01
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (41 bp):
AAACCCTAACTATAATTTTGACCAATTAAGAACAACACAAA
Found at i:8566725 original size:83 final size:84
Alignment explanation
Indices: 8566638--8566799 Score: 200
Period size: 84 Copynumber: 1.9 Consensus size: 84
8566628 AAGCCCTAAC
* * * * * *
8566638 TATAATTTTGACCAATTAAGAACAACA-CAAAAAACCCTAACTATTATTTTGAGCAATTAAGAAT
1 TATAAATTTAACCAATTAAGAACAACAGAAAAAAACCCTAACTATAAATTTGAACAATTAAGAAT
*
8566702 AACAGCAGAAAATCTCAAA
66 AACAACAGAAAATCTCAAA
** * * *
8566721 TATAAATTTAAGTAATTAAGAACAACAGAAAAAAACCTTGACTATAAATTTGAATAATTAAGAAT
1 TATAAATTTAACCAATTAAGAACAACAGAAAAAAACCCTAACTATAAATTTGAACAATTAAGAAT
*
8566786 AACAATAGAAAATC
66 AACAACAGAAAATC
8566800 ATAAATCAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
83 23 0.35
84 42 0.65
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.26
Consensus pattern (84 bp):
TATAAATTTAACCAATTAAGAACAACAGAAAAAAACCCTAACTATAAATTTGAACAATTAAGAAT
AACAACAGAAAATCTCAAA
Found at i:8566953 original size:12 final size:12
Alignment explanation
Indices: 8566936--8566984 Score: 80
Period size: 12 Copynumber: 4.1 Consensus size: 12
8566926 AATATATGAA
8566936 CATATTATTCAC
1 CATATTATTCAC
8566948 CATATTATTCAC
1 CATATTATTCAC
*
8566960 TATATTATTCAC
1 CATATTATTCAC
*
8566972 TATATTATTCAC
1 CATATTATTCAC
8566984 C
1 C
8566985 TTACACAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (12 bp):
CATATTATTCAC
Found at i:8571367 original size:157 final size:157
Alignment explanation
Indices: 8571081--8571387 Score: 605
Period size: 157 Copynumber: 2.0 Consensus size: 157
8571071 AATATCCCAC
8571081 AATTTATTAAAAACAAGATAAATAACAACAACTTAAAATAAATGACATGATTAAAAATGTTTGAA
1 AATTTATTAAAAACAAGATAAATAACAACAACTTAAAATAAATGACATGATTAAAAATGTTTGAA
8571146 TTGCAAAACATTCATTTTTTGAAATTTTCAAAATTTATGTTTTTTGAAAACAAGAAAATTGAACT
66 TTGCAAAACATTCATTTTTTGAAATTTTCAAAATTTATGTTTTTTGAAAACAAGAAAATTGAACT
8571211 CAAAACATATATATTTTTAAAATAAAT
131 CAAAACATATATATTTTTAAAATAAAT
8571238 AATTTATTAAAAACAAGATAAATAACAACAACTTAAAATAAATGACATGATTAAAAATGTTTGAA
1 AATTTATTAAAAACAAGATAAATAACAACAACTTAAAATAAATGACATGATTAAAAATGTTTGAA
*
8571303 TTGCAAAACATTCATTTTTTGAATTTTTCAAAATTTATGTTTTTTGAAAACAAGAAAATTGAACT
66 TTGCAAAACATTCATTTTTTGAAATTTTCAAAATTTATGTTTTTTGAAAACAAGAAAATTGAACT
8571368 CAAAACATATATATTTTTAA
131 CAAAACATATATATTTTTAA
8571388 TAATTTTTCA
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 149 1.00
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (157 bp):
AATTTATTAAAAACAAGATAAATAACAACAACTTAAAATAAATGACATGATTAAAAATGTTTGAA
TTGCAAAACATTCATTTTTTGAAATTTTCAAAATTTATGTTTTTTGAAAACAAGAAAATTGAACT
CAAAACATATATATTTTTAAAATAAAT
Found at i:8574416 original size:26 final size:25
Alignment explanation
Indices: 8574365--8574434 Score: 88
Period size: 26 Copynumber: 2.8 Consensus size: 25
8574355 ATTTAATTTA
* *
8574365 ATTATTTTAATTTTAGTT-TTTGTT
1 ATTATTTTAATTTTTGTTATTTATT
*
8574389 ATTACTTTTAGTTTTTGTTATTTATT
1 ATTA-TTTTAATTTTTGTTATTTATT
8574415 ATTATTTTCAATTTTTGTTA
1 ATTATTTT-AATTTTTGTTA
8574435 AAAAAAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 4 0.10
25 16 0.41
26 19 0.49
ACGTcount: A:0.21, C:0.03, G:0.07, T:0.69
Consensus pattern (25 bp):
ATTATTTTAATTTTTGTTATTTATT
Found at i:8575345 original size:22 final size:21
Alignment explanation
Indices: 8575319--8575361 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
8575309 ATAATATTTG
*
8575319 TTTGCATGATTTTTATGTTATT
1 TTTGCATGACTTTTAT-TTATT
*
8575341 TTTGCTTGACTTTTATTTATT
1 TTTGCATGACTTTTATTTATT
8575362 ATGATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.16, C:0.07, G:0.12, T:0.65
Consensus pattern (21 bp):
TTTGCATGACTTTTATTTATT
Found at i:8575372 original size:28 final size:29
Alignment explanation
Indices: 8575327--8575388 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
8575317 TGTTTGCATG
* ** *
8575327 ATTT-TTATGTTATTTTTGCTTGACTTTT
1 ATTTATTATGATATTTTTGCACGAATTTT
8575355 ATTTATTATGATA-TTTTGCACGAATTTT
1 ATTTATTATGATATTTTTGCACGAATTTT
8575383 ATTTAT
1 ATTTAT
8575389 ATATTTGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.23, C:0.06, G:0.10, T:0.61
Consensus pattern (29 bp):
ATTTATTATGATATTTTTGCACGAATTTT
Found at i:8575440 original size:38 final size:35
Alignment explanation
Indices: 8575362--8575453 Score: 112
Period size: 38 Copynumber: 2.5 Consensus size: 35
8575352 TTTATTTATT
* * *
8575362 ATGATATTTTGCACGAATTTTATTTATATATTTGC
1 ATGATATTTTGCATGGATTATATTTATATATTTGC
*
8575397 TTGATATTTTGCATGGATTATAGTTTATATATATTTGC
1 ATGATATTTTGCATGGATTATA--TT-TATATATTTGC
*
8575435 ATGATATCTTGCATGGATT
1 ATGATATTTTGCATGGATT
8575454 TTTTAGTTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
35 18 0.38
37 2 0.04
38 28 0.58
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (35 bp):
ATGATATTTTGCATGGATTATATTTATATATTTGC
Found at i:8586086 original size:13 final size:12
Alignment explanation
Indices: 8586063--8586108 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
8586053 AATTTAGGGT
8586063 AAAATAAATAAA
1 AAAATAAATAAA
*
8586075 ATAAATATATAAA
1 A-AAATAAATAAA
*
8586088 AAAATAAAAACAA
1 AAAATAAATA-AA
8586101 AAAATAAA
1 AAAATAAA
8586109 GCAAAAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.28
13 21 0.72
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:8587297 original size:43 final size:43
Alignment explanation
Indices: 8587232--8587334 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
8587222 GAGGTCCAAC
* * *
8587232 AAACAAATTTGAAATAGGGAATAGGCT-TCTCTATTCAGAGACT
1 AAACAACTTTAAAATAGAGAATAGGCTCT-TCTATTCAGAGACT
* **
8587275 AAACAACTTTAAAATAGAGAATAGGCTCTTTTATTCAGAGGTT
1 AAACAACTTTAAAATAGAGAATAGGCTCTTCTATTCAGAGACT
8587318 AAACAACTTTAAAATAG
1 AAACAACTTTAAAATAG
8587335 TCTTCTAACC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 52 0.98
44 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.29
Consensus pattern (43 bp):
AAACAACTTTAAAATAGAGAATAGGCTCTTCTATTCAGAGACT
Found at i:8599217 original size:15 final size:14
Alignment explanation
Indices: 8599199--8599238 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
8599189 TAAATATATA
8599199 AAAAATAAAAAAATG
1 AAAAA-AAAAAAATG
*
8599214 AAAACAAAAAAAAAG
1 AAAA-AAAAAAAATG
8599229 AAAAAAAAAA
1 AAAAAAAAAA
8599239 GGGATTACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 16 0.70
16 1 0.04
ACGTcount: A:0.88, C:0.03, G:0.05, T:0.05
Consensus pattern (14 bp):
AAAAAAAAAAAATG
Found at i:8599224 original size:16 final size:14
Alignment explanation
Indices: 8599198--8599238 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 14
8599188 ATAAATATAT
8599198 AAAAAATAAAAAAATG
1 AAAAAA-AAAAAAA-G
8599214 AAAACAAAAAAAAAG
1 AAAA-AAAAAAAAAG
8599229 AAAAAAAAAA
1 AAAAAAAAAA
8599239 GGGATTACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.25
15 5 0.21
16 11 0.46
17 2 0.08
ACGTcount: A:0.88, C:0.02, G:0.05, T:0.05
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:8614218 original size:13 final size:14
Alignment explanation
Indices: 8614200--8614235 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
8614190 TATTTTGTTC
8614200 TTTTATATATTAT-
1 TTTTATATATTATA
8614213 TTTTATAT-TTATA
1 TTTTATATATTATA
8614226 TTTTA-ATATT
1 TTTTATATATT
8614236 TGTTATGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATATATTATA
Found at i:8614773 original size:105 final size:106
Alignment explanation
Indices: 8614601--8614794 Score: 273
Period size: 105 Copynumber: 1.8 Consensus size: 106
8614591 TTTTTTTAAA
** ** * *
8614601 AAAATCCTATTAACATATTGGAGTTTAATTTTTTTATAAAAAATCTTACCAACATATTGAAAGAT
1 AAAATCCTACCAACATATTGGAGGATAATTTTTTTATAAAAAATATGACCAACATATTGAAAGAT
* *
8614666 ATTTCTGAAAATTAATTGTTTTCACAAACAAATAAATTTTT
66 ATTTATGAAAATAAATTGTTTTCACAAACAAATAAATTTTT
* * *
8614707 AAAATCCTACCAACATATTGGAGGATAA-TTTTTTATAGAAAATATGACCAACATATTGGAATAT
1 AAAATCCTACCAACATATTGGAGGATAATTTTTTTATAAAAAATATGACCAACATATTGAAAGAT
*
8614771 ATTTATGAGAATAAATTGTTTTCA
66 ATTTATGAAAATAAATTGTTTTCA
8614795 GAAATAAAAG
Statistics
Matches: 76, Mismatches: 12, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
105 52 0.68
106 24 0.32
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.38
Consensus pattern (106 bp):
AAAATCCTACCAACATATTGGAGGATAATTTTTTTATAAAAAATATGACCAACATATTGAAAGAT
ATTTATGAAAATAAATTGTTTTCACAAACAAATAAATTTTT
Found at i:8615332 original size:27 final size:28
Alignment explanation
Indices: 8615290--8615344 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
8615280 GGATATCGAA
*
8615290 AGTAAAGCCATTTCTTGTTATCCAAGCC
1 AGTAAAGCAATTTCTTGTTATCCAAGCC
8615318 AGTAAAG-AATTTCTTGTTATCCAAGCC
1 AGTAAAGCAATTTCTTGTTATCCAAGCC
8615345 TAACCTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (28 bp):
AGTAAAGCAATTTCTTGTTATCCAAGCC
Found at i:8618299 original size:11 final size:11
Alignment explanation
Indices: 8618280--8618315 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
8618270 TGAAAAGTGC
8618280 AAAAAAAAAAG
1 AAAAAAAAAAG
* *
8618291 AAGATAAAAAG
1 AAAAAAAAAAG
8618302 AAAAAAAAAAG
1 AAAAAAAAAAG
8618313 AAA
1 AAA
8618316 TTGATGAGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:8619785 original size:21 final size:21
Alignment explanation
Indices: 8619761--8619802 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8619751 AAGGTTTTAA
*
8619761 ATGTGAATTTTTAAATTTTTT
1 ATGTGAATCTTTAAATTTTTT
*
8619782 ATGTGAATCTTTAAGTTTTTT
1 ATGTGAATCTTTAAATTTTTT
8619803 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (21 bp):
ATGTGAATCTTTAAATTTTTT
Found at i:8619989 original size:15 final size:15
Alignment explanation
Indices: 8619971--8620006 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8619961 TTTGAATGTG
*
8619971 AATCTTTGTCTTACA
1 AATCTTTATCTTACA
*
8619986 AATCTTTATCTTGCA
1 AATCTTTATCTTACA
8620001 AATCTT
1 AATCTT
8620007 CCATTCTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
AATCTTTATCTTACA
Found at i:8620071 original size:16 final size:16
Alignment explanation
Indices: 8620052--8620106 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 16
8620042 AAATTTTTAC
8620052 GAATCTGAATTCTTGT
1 GAATCTGAATTCTTGT
*
8620068 GAATCTTTGAATTCTTAT
1 GAATC--TGAATTCTTGT
* *
8620086 GAAACTGAAGTTTTTGT
1 GAATCTGAA-TTCTTGT
8620103 GAAT
1 GAAT
8620107 TTAAAATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 9 0.29
17 8 0.26
18 14 0.45
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (16 bp):
GAATCTGAATTCTTGT
Found at i:8620115 original size:34 final size:34
Alignment explanation
Indices: 8620025--8620115 Score: 94
Period size: 34 Copynumber: 2.7 Consensus size: 34
8620015 GCAAACTTGA
* * * *
8620025 AAGTTCTTGGGAAATTAAAATTTTTACGAATCTG
1 AAGTTCTTGTGAATTTAAAATTCTTACGAAACTG
** *
8620059 AA-TTCTTGTGAATCTTTGAATTCTTATGAAACTG
1 AAGTTCTTGTGAAT-TTAAAATTCTTACGAAACTG
*
8620093 AAGTTTTTGTGAATTTAAAATTC
1 AAGTTCTTGTGAATTTAAAATTC
8620116 AAATCTTCCA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
33 9 0.20
34 26 0.58
35 10 0.22
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (34 bp):
AAGTTCTTGTGAATTTAAAATTCTTACGAAACTG
Found at i:8620153 original size:16 final size:17
Alignment explanation
Indices: 8620132--8620169 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8620122 TCCATTATTT
8620132 TGAATC-TAAATTCTTG
1 TGAATCTTAAATTCTTG
**
8620148 TGAATCTTCTATTCTTG
1 TGAATCTTAAATTCTTG
8620165 TGAAT
1 TGAAT
8620170 TTGAAAGGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (17 bp):
TGAATCTTAAATTCTTG
Found at i:8620233 original size:35 final size:35
Alignment explanation
Indices: 8620184--8620254 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
8620174 AAGGTCTTTG
* *
8620184 CAAAACTTGAAACCTTTGTAAATCTAGAACCTCTA
1 CAAAACTTGAAACCTATGTAAATCTAAAACCTCTA
* *
8620219 CAAAACTTGGAACCTATGTGAATCTAAAACCTCTA
1 CAAAACTTGAAACCTATGTAAATCTAAAACCTCTA
8620254 C
1 C
8620255 GAAATTTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (35 bp):
CAAAACTTGAAACCTATGTAAATCTAAAACCTCTA
Found at i:8620279 original size:17 final size:18
Alignment explanation
Indices: 8620252--8620293 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
8620242 CTAAAACCTC
8620252 TACGAAATTTAGAATCTT
1 TACGAAATTTAGAATCTT
8620270 TACG-AATTTAGAATCTT
1 TACGAAATTTAGAATCTT
8620287 TAC-AAAT
1 TACGAAAT
8620294 CTTGAAACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (18 bp):
TACGAAATTTAGAATCTT
Found at i:8620323 original size:18 final size:18
Alignment explanation
Indices: 8620260--8620323 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
8620250 TCTACGAAAT
8620260 TTAGAATCTTTACGAAT-
1 TTAGAATCTTTACGAATC
*
8620277 TTAGAATCTTTACAAATC
1 TTAGAATCTTTACGAATC
* * *
8620295 TT-GAAACCTTTATGCATC
1 TTAG-AATCTTTACGAATC
8620313 TTAGAATCTTT
1 TTAGAATCTTT
8620324 GAGAATCATG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 17 0.45
18 20 0.53
19 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (18 bp):
TTAGAATCTTTACGAATC
Found at i:8620405 original size:18 final size:18
Alignment explanation
Indices: 8620370--8620423 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
8620360 TGTGAAAGTC
**
8620370 GAAACTTTTGTTAAACTT
1 GAAACTTTTGCGAAACTT
*
8620388 GAAACTTTTGCGAGACTT
1 GAAACTTTTGCGAAACTT
8620406 G--ACTTTTTGCGAAACTT
1 GAAAC-TTTTGCGAAACTT
8620423 G
1 G
8620424 GAACCTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 2 0.06
17 13 0.42
18 16 0.52
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (18 bp):
GAAACTTTTGCGAAACTT
Found at i:8621995 original size:19 final size:19
Alignment explanation
Indices: 8621973--8622016 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
8621963 CTAATTTCTA
8621973 ATTTTATTTTT-TTCTTTAT
1 ATTTTATTTTTATT-TTTAT
*
8621992 ATTTCATTTTTATTTTTAT
1 ATTTTATTTTTATTTTTAT
8622011 ATTTTA
1 ATTTTA
8622017 ATATTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (19 bp):
ATTTTATTTTTATTTTTAT
Found at i:8622227 original size:18 final size:19
Alignment explanation
Indices: 8622176--8622251 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 19
8622166 TATTTAATTA
*
8622176 CATGATAATTAATATTATTG
1 CATGAT-ATTATTATTATTG
8622196 CATGATAGTTTATTATTATTG
1 CATGATA--TTATTATTATTG
8622217 CATGATATATTATATTATTATTG
1 CATG--ATA-T-TATTATTATTG
*
8622240 CATGGTATTATT
1 CATGATATTATT
8622252 TGCATGATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
19 5 0.10
20 7 0.14
21 17 0.35
22 2 0.04
23 18 0.37
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (19 bp):
CATGATATTATTATTATTG
Found at i:8622236 original size:23 final size:22
Alignment explanation
Indices: 8622176--8622243 Score: 97
Period size: 21 Copynumber: 3.2 Consensus size: 22
8622166 TATTTAATTA
8622176 CATGATAATTA-A-TATTATTG
1 CATGATAATTATATTATTATTG
*
8622196 CATGATAGTT-TATTATTATTG
1 CATGATAATTATATTATTATTG
8622217 CATGATATATTATATTATTATTG
1 CATGATA-ATTATATTATTATTG
8622240 CATG
1 CATG
8622244 GTATTATTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
20 10 0.24
21 15 0.36
22 2 0.05
23 15 0.36
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.49
Consensus pattern (22 bp):
CATGATAATTATATTATTATTG
Found at i:8622271 original size:21 final size:22
Alignment explanation
Indices: 8622247--8622287 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8622237 TTGCATGGTA
*
8622247 TTATTTGCA-TGATTTTTTTGT
1 TTATTTGAATTGATTTTTTTGT
*
8622268 TTATTTTAATTGATTTTTTT
1 TTATTTGAATTGATTTTTTT
8622288 TTCATATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (22 bp):
TTATTTGAATTGATTTTTTTGT
Found at i:8622297 original size:22 final size:22
Alignment explanation
Indices: 8622256--8622298 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8622246 ATTATTTGCA
*
8622256 TGATTTTTTTGTTTATTTTAAT
1 TGATTTTTTTGTTCATTTTAAT
8622278 TGATTTTTTT-TTCATATTTAA
1 TGATTTTTTTGTTCAT-TTTAA
8622299 AAAAAGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (22 bp):
TGATTTTTTTGTTCATTTTAAT
Found at i:8622464 original size:38 final size:36
Alignment explanation
Indices: 8622414--8622501 Score: 113
Period size: 38 Copynumber: 2.4 Consensus size: 36
8622404 TAAAAAAGTA
* *
8622414 TTTTAAAAAAAATCCTACCAACATATTGGAGGATAAT
1 TTTTTAAAAAAATCCTACCAACATATTGGAAGAT-AT
* * *
8622451 TTTTTATAGAAAATCTTACTAACATATTGGAAGATAT
1 TTTTTA-AAAAAATCCTACCAACATATTGGAAGATAT
8622488 TTTTTAAAAAAATC
1 TTTTTAAAAAAATC
8622502 ATTTTTACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
36 7 0.16
37 13 0.30
38 24 0.55
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.36
Consensus pattern (36 bp):
TTTTTAAAAAAATCCTACCAACATATTGGAAGATAT
Found at i:8622630 original size:104 final size:104
Alignment explanation
Indices: 8622422--8622617 Score: 275
Period size: 104 Copynumber: 1.9 Consensus size: 104
8622412 TATTTTAAAA
* * *
8622422 AAAATCCTACCAACATATTGGAGGATAATTTTTTATAGAAAATCTTACTAACATATTGGAAGATA
1 AAAATCCTACCAACATATTGGAGGATAAATTTTGACAGAAAATCTTACTAACATATTGGAAGATA
* * *
8622487 TTTTTTAAAAAAATCATTTTTACAAACAAATAAATTTTT
66 TTTCTGAAAAAAATCATTTTCACAAACAAATAAATTTTT
* * * *
8622526 AAAATCTTACCAACATATTTGAGGATAAATTTTGACATAAAATCTTGCTAACATATTGGAAGATA
1 AAAATCCTACCAACATATTGGAGGATAAATTTTGACAGAAAATCTTACTAACATATTGGAAGATA
**
8622591 TTTCTGAAAATAAATTGTTTTCACAAA
66 TTTCTGAAAA-AAATCATTTTCACAAA
8622618 TAAAAGTTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
104 66 0.84
105 13 0.16
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (104 bp):
AAAATCCTACCAACATATTGGAGGATAAATTTTGACAGAAAATCTTACTAACATATTGGAAGATA
TTTCTGAAAAAAATCATTTTCACAAACAAATAAATTTTT
Found at i:8623303 original size:22 final size:21
Alignment explanation
Indices: 8623261--8623307 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
8623251 ATGGTTTAAA
* *
8623261 ATTTTAACAATAATTATATAT
1 ATTTTAACAATAATAAAATAT
8623282 GATTTTAACAA-AACTAAAATAT
1 -ATTTTAACAATAA-TAAAATAT
8623304 ATTT
1 ATTT
8623308 CGCATTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTTTAACAATAATAAAATAT
Found at i:8624280 original size:3 final size:3
Alignment explanation
Indices: 8624272--8624303 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8624262 TAAGTAAAAC
8624272 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8624304 GTAAGATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8625091 original size:3 final size:3
Alignment explanation
Indices: 8625083--8625170 Score: 140
Period size: 3 Copynumber: 29.3 Consensus size: 3
8625073 TTGTTTAAAG
8625083 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
8625131 AAT AAT AAT AAT AAT ATT AAT ATT AAT ATT AAT ATT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8625171 GTAGTAAGAT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:8634460 original size:3 final size:3
Alignment explanation
Indices: 8634454--8634480 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8634444 GTAGTAGTAG
8634454 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
8634481 GATTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8635262 original size:3 final size:3
Alignment explanation
Indices: 8635254--8635291 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8635244 TTTAAAGAAC
8635254 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8635292 GATATTGGTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8637947 original size:3 final size:3
Alignment explanation
Indices: 8637939--8637993 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
8637929 CAACTGGTGT
8637939 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8637987 TTA TTA T
1 TTA TTA T
8637994 ATTCTTTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8638306 original size:20 final size:19
Alignment explanation
Indices: 8638281--8638376 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 19
8638271 TGAATGAGAG
8638281 TGGTTTGAATTTCTAGGTT
1 TGGTTTGAATTTCTAGGTT
*
8638300 CTGGTTTGAAGTTCTAGGATT
1 -TGGTTTGAATTTCTAGG-TT
* * *
8638321 GAGAGTTTGATTTTCTGGGTT
1 -TG-GTTTGAATTTCTAGGTT
8638342 TAGGTTTGAATTTCTAGGTT
1 T-GGTTTGAATTTCTAGGTT
*
8638362 TGGAGTTGAATTTCT
1 TGG-TTTGAATTTCT
8638377 CATAAATATG
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
19 2 0.03
20 42 0.68
21 6 0.10
22 12 0.19
ACGTcount: A:0.18, C:0.06, G:0.28, T:0.48
Consensus pattern (19 bp):
TGGTTTGAATTTCTAGGTT
Found at i:8638329 original size:42 final size:41
Alignment explanation
Indices: 8638283--8638376 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 41
8638273 AATGAGAGTG
8638283 GTTTGAATTTCTAGGTTCT-GGTTTGAAGTTCTAGGATTGAGA
1 GTTTGAATTTCTAGGTT-TAGGTTTGAAGTTCTAGGATTG-GA
* * * *
8638325 GTTTGATTTTCTGGGTTTAGGTTTGAATTTCTAGGTTTGGA
1 GTTTGAATTTCTAGGTTTAGGTTTGAAGTTCTAGGATTGGA
8638366 G-TTGAATTTCT
1 GTTTGAATTTCT
8638377 CATAAATATG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 9 0.20
41 4 0.09
42 33 0.72
ACGTcount: A:0.18, C:0.06, G:0.28, T:0.48
Consensus pattern (41 bp):
GTTTGAATTTCTAGGTTTAGGTTTGAAGTTCTAGGATTGGA
Found at i:8644392 original size:3 final size:3
Alignment explanation
Indices: 8644378--8644424 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
8644368 TGGTGTTTAT
*
8644378 TAC TAT TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
8644425 AGGATTTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.34, C:0.30, G:0.00, T:0.36
Consensus pattern (3 bp):
TAC
Found at i:8646427 original size:13 final size:13
Alignment explanation
Indices: 8646409--8646447 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
8646399 GAAAATCATG
8646409 AAAAAATTTAAAA
1 AAAAAATTTAAAA
*
8646422 AAAAAATTTGAAA
1 AAAAAATTTAAAA
*
8646435 AAAACA-TTAAAA
1 AAAAAATTTAAAA
8646447 A
1 A
8646448 CAAATTGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (13 bp):
AAAAAATTTAAAA
Found at i:8650055 original size:14 final size:13
Alignment explanation
Indices: 8650028--8650100 Score: 57
Period size: 14 Copynumber: 5.8 Consensus size: 13
8650018 AAAAAAAACT
8650028 TCATGC-AAAA-A
1 TCATGCAAAAATA
8650039 TCATGCCAAAAATA
1 TCATG-CAAAAATA
*
8650053 TCAT--AATAA-A
1 TCATGCAAAAATA
8650063 TCATGCAAAAATAA
1 TCATGCAAAAAT-A
*
8650077 ACATGCAAAAAATA
1 TCATGC-AAAAATA
*
8650091 TCAAGCAAAA
1 TCATGCAAAA
8650101 TCATACAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
10 5 0.10
11 9 0.18
12 5 0.10
13 8 0.16
14 16 0.33
15 6 0.12
ACGTcount: A:0.58, C:0.16, G:0.07, T:0.19
Consensus pattern (13 bp):
TCATGCAAAAATA
Found at i:8651398 original size:18 final size:18
Alignment explanation
Indices: 8651372--8651423 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
8651362 AGATAAAATC
* *
8651372 AAATCAAAATCAAGATTA
1 AAATCAAAACCAAAATTA
*
8651390 AAATTAAAACCAAAATT-
1 AAATCAAAACCAAAATTA
*
8651407 AAACCAAAACCAAAATT
1 AAATCAAAACCAAAATT
8651424 TTTGGGCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.63, C:0.15, G:0.02, T:0.19
Consensus pattern (18 bp):
AAATCAAAACCAAAATTA
Found at i:8651696 original size:43 final size:42
Alignment explanation
Indices: 8651648--8651806 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 42
8651638 TTCCTCAACA
* *
8651648 AAGGCTTTCAAAACTTTTG-AAAATAAAATGCTTCCCCATAAAT
1 AAGGCATT-AAAACTTTTGAAAAATAAAATGC-TCCCCATAACT
* * *
8651691 AAGGCTTTAAAGCTTATCGAAAAAATAAAATGCTCCTCCATAACT
1 AAGGCATTAAAACTT-TTG-AAAAATAAAATGCTCC-CCATAACT
* *
8651736 AAGGCATTGAAACTTTTGAAAAATAAAATGATCCCCTATAACT
1 AAGGCATTAAAACTTTTGAAAAATAAAATGCTCCCC-ATAACT
* * *
8651779 AAGGCATTGAAATTTTTGAAAAAAAAAA
1 AAGGCATTAAAACTTTTGAAAAATAAAA
8651807 ATATGTGGTA
Statistics
Matches: 101, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
42 8 0.08
43 57 0.56
44 5 0.05
45 31 0.31
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (42 bp):
AAGGCATTAAAACTTTTGAAAAATAAAATGCTCCCCATAACT
Found at i:8652927 original size:17 final size:16
Alignment explanation
Indices: 8652905--8652958 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 16
8652895 ATTTAAGTCT
8652905 TCTTTTTTTCTCTTTTC
1 TCTTTTTTTCT-TTTTC
8652922 TCTTTTTTTCTTTTT-
1 TCTTTTTTTCTTTTTC
* *
8652937 T-TTATTTTGCTTTTTT
1 TCTT-TTTTTCTTTTTC
8652953 TCTTTT
1 TCTTTT
8652959 CCTTTTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.33
16 7 0.21
17 13 0.39
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81
Consensus pattern (16 bp):
TCTTTTTTTCTTTTTC
Found at i:8652937 original size:8 final size:8
Alignment explanation
Indices: 8652904--8652958 Score: 67
Period size: 8 Copynumber: 6.9 Consensus size: 8
8652894 AATTTAAGTC
8652904 TTCTTTTT
1 TTCTTTTT
8652912 TTCTCTTTT
1 TTCT-TTTT
*
8652921 CTCTTTTT
1 TTCTTTTT
8652929 TTCTTTTT
1 TTCTTTTT
*
8652937 TT-TATTT
1 TTCTTTTT
*
8652944 TGCTTTTT
1 TTCTTTTT
8652952 TTCTTTT
1 TTCTTTT
8652959 CCTTTTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 5 0.13
8 27 0.69
9 7 0.18
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.82
Consensus pattern (8 bp):
TTCTTTTT
Found at i:8652944 original size:14 final size:14
Alignment explanation
Indices: 8652904--8652966 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
8652894 AATTTAAGTC
8652904 TTCTTTTTTTCTCTT
1 TTCTTTTTTTCT-TT
*
8652919 TTC-TCTTTT-TTT
1 TTCTTTTTTTCTTT
* *
8652931 CT-TTTTTTTATTT
1 TTCTTTTTTTCTTT
*
8652944 TGCTTTTTTTCTTT
1 TTCTTTTTTTCTTT
*
8652958 TCCTTTTTT
1 TTCTTTTTT
8652967 ATCACATCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
12 8 0.21
13 4 0.11
14 23 0.61
15 3 0.08
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (14 bp):
TTCTTTTTTTCTTT
Found at i:8652949 original size:23 final size:25
Alignment explanation
Indices: 8652904--8652958 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 25
8652894 AATTTAAGTC
* *
8652904 TTCTTTTTTTCTCTTTTCTCTTTTT
1 TTCTTTTTTTCTATTTTCGCTTTTT
8652929 TTCTTTTTTT-TATTTT-GCTTTTT
1 TTCTTTTTTTCTATTTTCGCTTTTT
8652952 TTCTTTT
1 TTCTTTT
8652959 CCTTTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 13 0.46
24 5 0.18
25 10 0.36
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.82
Consensus pattern (25 bp):
TTCTTTTTTTCTATTTTCGCTTTTT
Found at i:8653267 original size:10 final size:11
Alignment explanation
Indices: 8653250--8653275 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8653240 TTTTGCCCAA
8653250 CTTTTTTTTTT
1 CTTTTTTTTTT
8653261 CTTTTTTTTTT
1 CTTTTTTTTTT
8653272 CTTT
1 CTTT
8653276 CTCTTCTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:8657452 original size:13 final size:13
Alignment explanation
Indices: 8657434--8657529 Score: 57
Period size: 11 Copynumber: 7.8 Consensus size: 13
8657424 TAATAGAAAT
8657434 ATCATGCAAAAAA
1 ATCATGCAAAAAA
8657447 ATCATGC--AAAA
1 ATCATGCAAAAAA
* *
8657458 AT-ATACAAAAAT
1 ATCATGCAAAAAA
*
8657470 ATCAT--AATAAA
1 ATCATGCAAAAAA
8657481 A-CATGC-AAAAA
1 ATCATGCAAAAAA
*
8657492 AT-AT-CAAGCAAA
1 ATCATGCAA-AAAA
8657504 ATCATGCAAATAAGAA
1 ATCATGC-AA-AA-AA
8657520 ATCATGCAAA
1 ATCATGCAAA
8657530 TAATAACAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 23
0.67 0.09 0.24
Matches are distributed among these distances:
10 7 0.11
11 19 0.30
12 10 0.16
13 11 0.17
14 2 0.03
15 5 0.08
16 9 0.14
ACGTcount: A:0.59, C:0.15, G:0.07, T:0.19
Consensus pattern (13 bp):
ATCATGCAAAAAA
Found at i:8657509 original size:24 final size:24
Alignment explanation
Indices: 8657386--8657513 Score: 78
Period size: 24 Copynumber: 5.5 Consensus size: 24
8657376 CATGCAATAT
8657386 AAATCATGCAAAAACATA-C---CA
1 AAATCATGCAAAAA-ATATCAAGCA
* *
8657407 AAATCATG-AAAAGATCATAATAG-A
1 AAATCATGCAAAAAAT-ATCA-AGCA
*
8657431 AATATCATGCAAAAAA-ATCATGCAA
1 AA-ATCATGCAAAAAATATCAAGC-A
* **
8657456 AAAT-ATAC-AAAAATATCATAATA
1 AAATCATGCAAAAAATATCA-AGCA
8657479 AAA-CATGCAAAAAATATCAAGCA
1 AAATCATGCAAAAAATATCAAGCA
8657502 AAATCATGCAAA
1 AAATCATGCAAA
8657514 TAAGAAATCA
Statistics
Matches: 80, Mismatches: 12, Indels: 27
0.67 0.10 0.23
Matches are distributed among these distances:
19 2 0.03
20 5 0.06
21 8 0.10
22 5 0.06
23 20 0.25
24 26 0.32
25 9 0.11
26 5 0.06
ACGTcount: A:0.59, C:0.15, G:0.07, T:0.19
Consensus pattern (24 bp):
AAATCATGCAAAAAATATCAAGCA
Found at i:8657523 original size:16 final size:16
Alignment explanation
Indices: 8657502--8657532 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8657492 ATATCAAGCA
8657502 AAATCATGCAAATAAG
1 AAATCATGCAAATAAG
8657518 AAATCATGCAAATAA
1 AAATCATGCAAATAA
8657533 TAACAAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.13, G:0.10, T:0.19
Consensus pattern (16 bp):
AAATCATGCAAATAAG
Found at i:8658806 original size:6 final size:6
Alignment explanation
Indices: 8658770--8658845 Score: 71
Period size: 6 Copynumber: 12.7 Consensus size: 6
8658760 TTGACCTTAC
* * * * * *
8658770 TAAAAA TAAATT TAAAAT CAAAAT CAAAAT TAAAAT TAGAAT TAAAAC
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
* * *
8658818 TAAAAT TAACAT TAAAAC CAAAAT TAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAA
8658846 CCAAAACCAT
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.64, C:0.08, G:0.01, T:0.26
Consensus pattern (6 bp):
TAAAAT
Found at i:8665762 original size:1 final size:1
Alignment explanation
Indices: 8665756--8665780 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
8665746 TACCATCAAG
8665756 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
8665781 GGAACCCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:8666116 original size:21 final size:21
Alignment explanation
Indices: 8666064--8666116 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
8666054 ATTTAAATTT
8666064 TTAATATTTTATTGTAATTAA
1 TTAATATTTTATTGTAATTAA
* *
8666085 TTAATTTTTTATTTTAATTCAA
1 TTAATATTTTATTGTAATT-AA
8666107 TTAA-ATTTTA
1 TTAATATTTTA
8666117 AATTGAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTAATATTTTATTGTAATTAA
Found at i:8666120 original size:17 final size:17
Alignment explanation
Indices: 8666095--8666133 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
8666085 TTAATTTTTT
*
8666095 ATTTT-AATTCAATTAA
1 ATTTTAAATTCAATAAA
*
8666111 ATTTTAAATTGAATAAA
1 ATTTTAAATTCAATAAA
8666128 ATTTTA
1 ATTTTA
8666134 TCACGTAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
ATTTTAAATTCAATAAA
Found at i:8666330 original size:21 final size:21
Alignment explanation
Indices: 8666288--8666330 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
8666278 ATTTTAATCT
*
8666288 ATTTTATTAATATGATATAAA
1 ATTTTATTAATATGATAAAAA
*
8666309 ATTTTAGTTAAT-TGGTAAAAA
1 ATTTTA-TTAATATGATAAAAA
8666330 A
1 A
8666331 ATTAACAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (21 bp):
ATTTTATTAATATGATAAAAA
Found at i:8667419 original size:15 final size:16
Alignment explanation
Indices: 8667401--8667430 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8667391 ATAAAAAACG
8667401 TTACAAAA-AAATTTT
1 TTACAAAATAAATTTT
8667416 TTACAAAATAAATTT
1 TTACAAAATAAATTT
8667431 AGTAGTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
TTACAAAATAAATTTT
Found at i:8667430 original size:236 final size:233
Alignment explanation
Indices: 8666946--8667663 Score: 830
Period size: 236 Copynumber: 3.1 Consensus size: 233
8666936 ATAAAAAATA
* *
8666946 TCAC-AAATAAATTTGGTGGTAAAAGTTTGTGACATTTATATTATTGTTATATAACACCATACAT
1 TCACAAAATAAATTTGGTGGTAAAAGTTTGTGACATTTATGTTATTGTTATATAACACCATAAAT
* * * * * * * * * *
8667010 TAACATGATGAAAATTATAATATTATTAATAATTAACTAAAGTGTTTAATTTGTGATAAAACTGA
66 TAACGTGACG-AAATTATAATATTATTAATAGTTAATTAAAGTATTTAATTTATAACAAAAATTA
* * * * *
8667075 ATAATATCATCTAAAATCTATTAAAAAAATTGTCATAGATAAAATTTTAAATTGATAATAAAATT
130 ATAATATCACCT-AAATCTATCAAAAAAATTATCATAGATAAAATTTTAAATTGATGACAAAATT
* * *
8667140 ATAACGTCATCTAAAATAAAAAATGTCACAACAAAATTTC
194 ATAACGTTATCTAAAATAAAAAATGTCACAAAAAAATTTT
* * * ** * *
8667180 ACACTAAATAAATTTGGTGGTAAAAGTTTGTAACATTTGCGTTATCGTTATATAACACCATATAT
1 TCACAAAATAAATTTGGTGGTAAAAGTTTGTGACATTTATGTTATTGTTATATAACACCATAAAT
* * * *
8667245 TGACGTGACGAAATTGTAATGTTATTAATAGTTAATTAAAGCATTTAATTTATAACAAAAATTAA
66 TAACGTGACGAAATTATAATATTATTAATAGTTAATTAAAGTATTTAATTTATAACAAAAATTAA
* * * *
8667310 TAACATTACCTAAAGTCTATCAGAAAAAATTCATCATAGATAAAATTTAAAATTGGTGACAAAAT
131 TAATATCACCTAAA-TCTATCA-AAAAAATT-ATCATAGATAAAATTTTAAATTGATGACAAAAT
* * * * *
8667375 TATGACGTTATTTCAAATAAAAAACGTTACAAAAAAATTTT
193 TATAACGTTATCTAAAATAAAAAATGTCACAAAAAAATTTT
* * * * *
8667416 TTACAAAATAAATTTAGTAGTAAAAGTTTGTGACATTTATGTTATTATCATATAACACCATAAAT
1 TCACAAAATAAATTTGGTGGTAAAAGTTTGTGACATTTATGTTATTGTTATATAACACCATAAAT
* * ** * *
8667481 TAACGTGACAAAATTACAATACAATTAACAGTTAATTAAAGTATTCAATTTATAACAAAAATTAA
66 TAACGTGACGAAATTATAATATTATTAATAGTTAATTAAAGTATTTAATTTATAACAAAAATTAA
* * * *
8667546 TAATGTCACTTAAATCTATCAAAAAAATTTATCATAAAT-AAATTTTAAATTGACGACAAAATTA
131 TAATATCACCTAAATCTATCAAAAAAA-TTATCATAGATAAAATTTTAAATTGATGACAAAATTA
** *
8667610 TAAAATTATCTAAAATAAAAAATGTCA-AAAAAAAATTT
195 TAACGTTATCTAAAATAAAAAATGTCACAAAAAAATTTT
*
8667648 TCACCAAATAAATTTG
1 TCACAAAATAAATTTG
8667664 ACGATAAAAT
Statistics
Matches: 400, Mismatches: 79, Indels: 12
0.81 0.16 0.02
Matches are distributed among these distances:
232 23 0.06
233 45 0.11
234 75 0.19
235 78 0.19
236 179 0.45
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (233 bp):
TCACAAAATAAATTTGGTGGTAAAAGTTTGTGACATTTATGTTATTGTTATATAACACCATAAAT
TAACGTGACGAAATTATAATATTATTAATAGTTAATTAAAGTATTTAATTTATAACAAAAATTAA
TAATATCACCTAAATCTATCAAAAAAATTATCATAGATAAAATTTTAAATTGATGACAAAATTAT
AACGTTATCTAAAATAAAAAATGTCACAAAAAAATTTT
Found at i:8668757 original size:17 final size:18
Alignment explanation
Indices: 8668737--8668770 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8668727 TTTAAAAAAA
*
8668737 TTAATCATTT-ATGATTT
1 TTAATAATTTCATGATTT
8668754 TTAATAATTTCATGATT
1 TTAATAATTTCATGATT
8668771 CGATAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
TTAATAATTTCATGATTT
Found at i:8669461 original size:30 final size:30
Alignment explanation
Indices: 8669420--8669476 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
8669410 TTAATTATTT
* * *
8669420 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
8669450 ATATTTATATTTAAAAAATAATATTTT
1 ATATATATATTTAAAAAATAATATTTT
8669477 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:8669479 original size:21 final size:22
Alignment explanation
Indices: 8669449--8669500 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
8669439 GATATTTTTA
8669449 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
8669469 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
8669491 AATATTTTAT
1 AATATTTTAT
8669501 TAATTTCGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:8670946 original size:52 final size:53
Alignment explanation
Indices: 8670831--8670950 Score: 136
Period size: 52 Copynumber: 2.3 Consensus size: 53
8670821 ATAAACTAAC
* * * * * *
8670831 TCCTTAAGTTGATAAACTTCAATATAGATGAATAATTCATGATATCAACTGAT
1 TCCTTATGTTGATAAACTTCAATAAACATGAAAAATCCATAATATCAACTGAT
* * *
8670884 TCCTTGTGTTGATAAACTTTAATAAACAT-AAAAATCCATAATATCTACT-ACT
1 TCCTTATGTTGATAAACTTCAATAAACATGAAAAATCCATAATATCAACTGA-T
8670936 TCCTTATGTTGATAA
1 TCCTTATGTTGATAA
8670951 TTTTAAAATA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
51 1 0.02
52 31 0.55
53 24 0.43
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (53 bp):
TCCTTATGTTGATAAACTTCAATAAACATGAAAAATCCATAATATCAACTGAT
Found at i:8672555 original size:2 final size:2
Alignment explanation
Indices: 8672536--8672574 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
8672526 AGCTTAGCCA
* *
8672536 AT AT AT AC AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8672575 AAGGTAATGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:8673479 original size:17 final size:17
Alignment explanation
Indices: 8673453--8673485 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8673443 TTAATTATTA
*
8673453 TAAAACTAAATAATTTG
1 TAAAAATAAATAATTTG
8673470 TAAAAATAAATAATTT
1 TAAAAATAAATAATTT
8673486 TTATAACCTT
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:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
TAAAAATAAATAATTTG
Found at i:8673966 original size:2 final size:2
Alignment explanation
Indices: 8673959--8673984 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8673949 AATAGATTTC
8673959 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
8673985 ATAACAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8674275 original size:15 final size:15
Alignment explanation
Indices: 8674243--8674288 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
8674233 ATATTTAAAA
* *
8674243 ATATTAATATA-TAA
1 ATATTAAAATATTAT
8674257 ATA-TAAAATATTTAT
1 ATATTAAAATA-TTAT
8674272 ATATTAAAATATTAT
1 ATATTAAAATATTAT
8674287 AT
1 AT
8674289 GGAAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 6 0.22
14 3 0.11
15 11 0.41
16 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATTAAAATATTAT
Found at i:8677171 original size:28 final size:28
Alignment explanation
Indices: 8677131--8677188 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
8677121 ATAGAACACT
8677131 TTTTACTACTTATATTTATAAATTTGCA
1 TTTTACTACTTATATTTATAAATTTGCA
8677159 TTTTACTACTTATATTTATAAATTTGCA
1 TTTTACTACTTATATTTATAAATTTGCA
8677187 TT
1 TT
8677189 CAAACCCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.55
Consensus pattern (28 bp):
TTTTACTACTTATATTTATAAATTTGCA
Found at i:8678235 original size:2 final size:2
Alignment explanation
Indices: 8678228--8678266 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
8678218 AACGGCACTC
*
8678228 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8678267 CTTAAAACGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8679411 original size:52 final size:52
Alignment explanation
Indices: 8679281--8679427 Score: 152
Period size: 52 Copynumber: 2.8 Consensus size: 52
8679271 GACTTGCAAA
* * * **
8679281 AGAAGAATTCTAAGAGAAAGAGGG-TTCTTAATAGGTAAGTTTGATTTGCAAG
1 AGAAGAATTCTAAGAG-GAGAGGGATTCTTAATAGGCAAGTTTGACTTAAAAG
* * * * ** * *
8679333 AAAAAAATTCTAAAAGGAAAAAGATTCGTAATAAGCAAGTTTGACTTAAAAG
1 AGAAGAATTCTAAGAGGAGAGGGATTCTTAATAGGCAAGTTTGACTTAAAAG
*
8679385 AGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTTG
1 AGAAGAATTCTAAGAGGAGAGGGATTCTTAATAGGCAAGTTTG
8679428 TATGGTTATG
Statistics
Matches: 72, Mismatches: 22, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
51 3 0.04
52 69 0.96
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (52 bp):
AGAAGAATTCTAAGAGGAGAGGGATTCTTAATAGGCAAGTTTGACTTAAAAG
Found at i:8680034 original size:25 final size:23
Alignment explanation
Indices: 8680006--8680084 Score: 70
Period size: 25 Copynumber: 3.3 Consensus size: 23
8679996 TCAAGATATG
8680006 GGAAGAGCCGATGGTTTGAGACAT
1 GGAAGAG-CGATGGTTTGAGACAT
* * *
8680030 AGGAAGAGTTGATAGTTTGAGATAT
1 -GGAAGAG-CGATGGTTTGAGACAT
*
8680055 GAGAAGAGC-TTGGTTTGAGACAT
1 G-GAAGAGCGATGGTTTGAGACAT
8680078 GGGAAGA
1 -GGAAGA
8680085 AGTAAGCTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
23 16 0.36
24 2 0.05
25 26 0.59
ACGTcount: A:0.33, C:0.06, G:0.37, T:0.24
Consensus pattern (23 bp):
GGAAGAGCGATGGTTTGAGACAT
Found at i:8680041 original size:50 final size:48
Alignment explanation
Indices: 8679982--8680084 Score: 127
Period size: 50 Copynumber: 2.1 Consensus size: 48
8679972 CGAAACGTGA
*
8679982 GAAGAGTTGA-AGATTCAAGATATGGGAAGAGCCGATGGTTTGAGACATAG
1 GAAGAGTTGATAG-TTCAAGATATGAGAAGAG-C-ATGGTTTGAGACATAG
** * *
8680032 GAAGAGTTGATAGTTTGAGATATGAGAAGAGCTTGGTTTGAGACATGG
1 GAAGAGTTGATAGTTCAAGATATGAGAAGAGCATGGTTTGAGACATAG
8680080 GAAGA
1 GAAGA
8680085 AGTAAGCTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
48 19 0.40
49 1 0.02
50 25 0.53
51 2 0.04
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.24
Consensus pattern (48 bp):
GAAGAGTTGATAGTTCAAGATATGAGAAGAGCATGGTTTGAGACATAG
Found at i:8680281 original size:28 final size:30
Alignment explanation
Indices: 8680233--8680292 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
8680223 GTTTAGCATG
*
8680233 AAGATAGATGATTTGATGGAAT-TTGAGTC
1 AAGATAGATGATTTGATGGAATATTGACTC
*
8680262 AAGATAGA-GA-TTGTTAGGAATATTGACTC
1 AAGATAGATGATTTGAT-GGAATATTGACTC
8680291 AA
1 AA
8680293 ATCCTATAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.15
28 7 0.26
29 16 0.59
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (30 bp):
AAGATAGATGATTTGATGGAATATTGACTC
Found at i:8680318 original size:11 final size:11
Alignment explanation
Indices: 8680302--8680330 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
8680292 AATCCTATAA
8680302 GAGATTTGTTT
1 GAGATTTGTTT
8680313 GAGATTTGTTT
1 GAGATTTGTTT
8680324 GAGATTT
1 GAGATTT
8680331 ATCAGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:8680513 original size:52 final size:52
Alignment explanation
Indices: 8680369--8680502 Score: 182
Period size: 52 Copynumber: 2.6 Consensus size: 52
8680359 CTTGCAAAAA
*
8680369 AAGAATTCTAAGAGAA-AAA-AGATTCTTAATAGGTAAGTTTGACTTACAAGAG
1 AAGAATTCTAA-A-AAGAAAGAGATTCTTAATAGGTAAGTTTGACTTAAAAGAG
8680421 AAGAATTCTAAAAAGAAAGAGATTCTTAATAGGTAAGTTTGACTTAAAAGAG
1 AAGAATTCTAAAAAGAAAGAGATTCTTAATAGGTAAGTTTGACTTAAAAGAG
* * * * *
8680473 AAGAATTTTAAGAGGAGAGGGATTCTTAAT
1 AAGAATTCTAAAAAGAAAGAGATTCTTAAT
8680503 GGACAAGTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
50 2 0.03
51 4 0.05
52 68 0.92
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (52 bp):
AAGAATTCTAAAAAGAAAGAGATTCTTAATAGGTAAGTTTGACTTAAAAGAG
Found at i:8680528 original size:25 final size:25
Alignment explanation
Indices: 8680494--8680541 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
8680484 GAGGAGAGGG
8680494 ATTCTTAATGGACAAGTTTGTATGA
1 ATTCTTAATGGACAAGTTTGTATGA
*
8680519 ATTCTTAATGGGCAAGTTTGTAT
1 ATTCTTAATGGACAAGTTTGTAT
8680542 AGTTATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (25 bp):
ATTCTTAATGGACAAGTTTGTATGA
Found at i:8684670 original size:3 final size:3
Alignment explanation
Indices: 8684662--8684701 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
8684652 TAACAATAAG
8684662 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8684702 CAAAAGTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8685297 original size:65 final size:65
Alignment explanation
Indices: 8685169--8685410 Score: 239
Period size: 65 Copynumber: 3.8 Consensus size: 65
8685159 TATGGAGGTT
* * *
8685169 AAAACAAGTGACTGAGATTGAACCACGAGTC---AA-A-AAAATAATTTGGATTGAGCTGAGATC
1 AAAACATGTGACTGAGATTGAACCACGAGTCAGAAACATAAAATGATTTGGATTGAGCCGAGATC
* * *
8685229 AAAAGATGTGACT-ATGATTGAACCACGAGTCAGAAACATAAAATGATCTGGATTGAACCGAGAT
1 AAAACATGTGACTGA-GATTGAACCACGAGTCAGAAACATAAAATGATTTGGATTGAGCCGAGAT
8685293 C
65 C
* * * * * *
8685294 AAAATATATGA-TCAGGATTGAATCACGAGTCAGAAACATAAAATGATTTAGACTGAGCCGAGAT
1 AAAACATGTGACTGA-GATTGAACCACGAGTCAGAAACATAAAATGATTTGGATTGAGCCGAGAT
*
8685358 A
65 C
* ** * *
8685359 AAAACAAGTGACTGAGATTG-ACTCGTGAGTCAAAAAAATAAAATGATTTGGA
1 AAAACATGTGACTGAGATTGAAC-CACGAGTCAGAAACATAAAATGATTTGGA
8685411 CCAAATTGAG
Statistics
Matches: 148, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
59 1 0.01
60 27 0.18
63 2 0.01
64 3 0.02
65 113 0.76
66 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (65 bp):
AAAACATGTGACTGAGATTGAACCACGAGTCAGAAACATAAAATGATTTGGATTGAGCCGAGATC
Found at i:8685496 original size:128 final size:128
Alignment explanation
Indices: 8685308--8685669 Score: 313
Period size: 128 Copynumber: 2.8 Consensus size: 128
8685298 TATATGATCA
* * * *
8685308 GGATTGAATCACGAGTCAGAAACATAAAATGATTTAGACTGAGCCGAGATAAAAACAAGTGACTG
1 GGATTGAATCACGACTCAAAAACATAAAAGGATTTAGACTGAGCCGAGATAAAAACAAGTGAC-C
* *
8685373 AG-ATTGACTCGTGAGTCAAAAAA-ATAAAATGATTTGGACCAAATTGAGATCAATAGGTGATTG
65 AGCATTGAATCGTGAGT-AAAAAACATAAAATAATTTGGACCAAATTGAGATCAATAGGTGATTG
* * * * *
8685436 GGATTGAATCACGACTCAAAAACATAAAAGGATTT-GAACTGAGTCGATATCAAAATAAGTGGCC
1 GGATTGAATCACGACTCAAAAACATAAAAGGATTTAG-ACTGAGCCGAGATAAAAACAAGTGACC
* *** ** *
8685500 AGCATTGAATCGTGAGTAAAAAACATAAGATAATTTGGATTGAATCAAGATCAAAAATAGGTGAC
65 AGCATTGAATCGTGAGTAAAAAACATAAAATAATTTGGACCAAATTGAGATC---AATAGGTGAT
*
8685565 CG
127 TG
* * * * ** * ** * *
8685567 AGATCGAATCGCGAGTCAAAAA-ATAAAATAATTTAGATTGAGCTAAGATAAAAACAGGTGATCA
1 GGATTGAATCACGACTCAAAAACATAAAAGGATTTAGACTGAGCCGAGATAAAAACAAGTGACCA
* * *
8685631 GGATCGAA-CTGTGAGTCAAAAAA-ATAAAATGATTTGGAC
66 GCATTGAATC-GTGAGT-AAAAAACATAAAATAATTTGGAC
8685670 TGAGTCAAGA
Statistics
Matches: 185, Mismatches: 40, Indels: 16
0.77 0.17 0.07
Matches are distributed among these distances:
127 9 0.05
128 87 0.47
129 1 0.01
130 53 0.29
131 35 0.19
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (128 bp):
GGATTGAATCACGACTCAAAAACATAAAAGGATTTAGACTGAGCCGAGATAAAAACAAGTGACCA
GCATTGAATCGTGAGTAAAAAACATAAAATAATTTGGACCAAATTGAGATCAATAGGTGATTG
Found at i:8685553 original size:65 final size:65
Alignment explanation
Indices: 8685487--8685723 Score: 169
Period size: 66 Copynumber: 3.6 Consensus size: 65
8685477 AGTCGATATC
* * * * *
8685487 AAAATAAGTGGCC-AGCATTGAATCGTGAGTAAAAAACATAAGATAATTTGGATTGAATCAAGAT
1 AAAATAAGTGACCGAG-ATCGAATCGCGAGTAAAAAA-ATAAAATAATTTAGATTGAATCAAGAT
8685551 CA
64 CA
* * *
8685553 AAAATAGGTGACCGAGATCGAATCGCGAGTCAAAAAATAAAATAATTTAGATTG-AGCTAAGAT-
1 AAAATAAGTGACCGAGATCGAATCGCGAGTAAAAAAATAAAATAATTTAGATTGAATC-AAGATC
8685616 A
65 A
* * * * * * * *
8685617 AAAACAGGTGATC-AGGATCGAA-CTGTGAGTCAAAAAAATAAAATGATTTGGACTGAGTCAAGA
1 AAAATAAGTGACCGA-GATCGAATC-GCGAGT-AAAAAAATAAAATAATTTAGATTGAATCAAGA
8685680 TCA
63 TCA
* * ** * **
8685683 ACAACAAGTGATTGGGATCGAATAACGAGTTAAAAAAATAA
1 AAAATAAGTGACCGAGATCGAATCGCGAG-TAAAAAAATAA
8685724 GATGATTTGA
Statistics
Matches: 137, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
63 2 0.01
64 26 0.19
65 46 0.34
66 60 0.44
67 3 0.02
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.22
Consensus pattern (65 bp):
AAAATAAGTGACCGAGATCGAATCGCGAGTAAAAAAATAAAATAATTTAGATTGAATCAAGATCA
Found at i:8685683 original size:258 final size:258
Alignment explanation
Indices: 8685262--8685750 Score: 576
Period size: 258 Copynumber: 1.9 Consensus size: 258
8685252 CACGAGTCAG
* * * *
8685262 AAACATAAAATGATCTGGATTGAACCGAGATCAAAATATATGATCAGGATTGAATCACGAGTCAG
1 AAACATAAAATAATCTGGATTGAACCAAGATCAAAATATATGACCAGGATCGAATCACGAGTCAG
* * * * *
8685327 AAACATAAAATGATTTAGACTGAGCCGAGATAAAAACAAGTGACTGAGATTGACTCGTGAGTCAA
66 AAAAATAAAATAATTTAGACTGAGCCAAGATAAAAACAAGTGACAGAGATCGACTCGTGAGTCAA
** * * * *
8685392 AAAAATAAAATGATTTGGACCAAATTGAGAT-CAATAGGTGATTGGGATTGAATCACGACTCAAA
131 AAAAATAAAATGATTTGGACCAAATCAAGATACAACAAGTGATTGGGATCGAATAACGACTCAAA
* *
8685456 AACATAAAAGGATTTGAACTGAGTCGATATCAAAATAAGTGGCCAGCATTGAATCGTGAGTAAA
196 AAAATAAAAGGATTTGAACT-AGTCGAGATCAAAATAAGTGGCCAGCATTGAATCGTGAGTAAA
* * * *
8685520 AAACATAAGATAATTTGGATTGAATCAAGATCAAAA-ATAGGTGACC-GAGATCGAATCGCGAGT
1 AAACATAAAATAATCTGGATTGAACCAAGATCAAAATATA--TGACCAG-GATCGAATCACGAGT
* * *
8685583 CA-AAAAATAAAATAATTTAGATTGAGCTAAGATAAAAACAGGTGATCAG-GATCGAACT-GTGA
63 CAGAAAAATAAAATAATTTAGACTGAGCCAAGATAAAAACAAGTGA-CAGAGATCG-ACTCGTGA
** *
8685645 GTCAAAAAAATAAAATGATTTGGACTGAGTCAAGATCAACAACAAGTGATTGGGATCGAATAACG
126 GTCAAAAAAATAAAATGATTTGGACCAAATCAAGAT--ACAACAAGTGATTGGGATCGAATAACG
* * * * *
8685710 AGTTAAAAAAATAAGATGATTTGAGCTAGTCGAGATCAAAA
189 ACTCAAAAAAATAAAAGGATTTGAACTAGTCGAGATCAAAA
8685751 CAGGTGATGC
Statistics
Matches: 191, Mismatches: 32, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
257 3 0.02
258 108 0.57
259 24 0.13
260 13 0.07
261 43 0.23
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (258 bp):
AAACATAAAATAATCTGGATTGAACCAAGATCAAAATATATGACCAGGATCGAATCACGAGTCAG
AAAAATAAAATAATTTAGACTGAGCCAAGATAAAAACAAGTGACAGAGATCGACTCGTGAGTCAA
AAAAATAAAATGATTTGGACCAAATCAAGATACAACAAGTGATTGGGATCGAATAACGACTCAAA
AAAATAAAAGGATTTGAACTAGTCGAGATCAAAATAAGTGGCCAGCATTGAATCGTGAGTAAA
Found at i:8687757 original size:18 final size:19
Alignment explanation
Indices: 8687721--8687761 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
8687711 TTATCATTTT
8687721 TTGTTGCTTGATCTAGGTA
1 TTGTTGCTTGATCTAGGTA
8687740 TTGTTGACTT-AT-TAGGTA
1 TTGTTG-CTTGATCTAGGTA
8687758 TTGT
1 TTGT
8687762 AAAATGTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
19 8 0.38
20 3 0.14
ACGTcount: A:0.17, C:0.07, G:0.24, T:0.51
Consensus pattern (19 bp):
TTGTTGCTTGATCTAGGTA
Found at i:8697244 original size:16 final size:16
Alignment explanation
Indices: 8697225--8697259 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
8697215 TAAGAAACAT
8697225 TTTTTTATTCATATAA
1 TTTTTTATTCATATAA
*
8697241 TTTTTTATTTATATAA
1 TTTTTTATTCATATAA
8697257 TTT
1 TTT
8697260 AAAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTATTCATATAA
Found at i:8697288 original size:12 final size:14
Alignment explanation
Indices: 8697272--8697304 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
8697262 AAAAAAAAGA
8697272 AATTTAAAA-AAAT
1 AATTTAAAATAAAT
8697285 -ATTTAAAATAAAT
1 AATTTAAAATAAAT
8697298 AATTTAA
1 AATTTAA
8697305 TTTAAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 4 0.22
14 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTTAAAATAAAT
Found at i:8698153 original size:3 final size:3
Alignment explanation
Indices: 8698145--8698193 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
8698135 AAAGAAAGAA
* *
8698145 AAT AAT AAT AAT GAT AAT AAT AAT -AT AAT CAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8698192 AA
1 AA
8698194 CAAAAGTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8698173 original size:23 final size:23
Alignment explanation
Indices: 8698146--8698192 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
8698136 AAGAAAGAAA
*
8698146 ATAATAATAATGATAATAATAAT
1 ATAATAATAATAATAATAATAAT
*
8698169 ATAATCATAATAATAATAATAAT
1 ATAATAATAATAATAATAATAAT
8698192 A
1 A
8698193 ACAAAAGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAATAATAATAATAATAATAAT
Found at i:8702799 original size:25 final size:25
Alignment explanation
Indices: 8702731--8702920 Score: 115
Period size: 26 Copynumber: 7.4 Consensus size: 25
8702721 TGGGGATTAA
8702731 TTTAGGGTTTAAGGTTT--GGTTTAGG
1 TTTAGGGTTT--GGTTTAGGGTTTAGG
* *
8702756 ATTTATGGTTTAGGGTTTAGGGTTTAAG
1 -TTTAGGGTTT--GGTTTAGGGTTTAGG
* * *
8702784 TTTTGGTTTTGGTTTAGGGCTTAGG
1 TTTAGGGTTTGGTTTAGGGTTTAGG
* *
8702809 TTTGGGGTTTGGTTTAGGATTT-GG
1 TTTAGGGTTTGGTTTAGGGTTTAGG
* **
8702833 TTTAGGGTTAGGTTTAGGG-TCCGCAG
1 TTTAGGGTTTGGTTTAGGGTTTAG--G
*
8702859 TTT--GGTTTAAGGTTTAGAGTTT-GG
1 TTTAGGGTTT--GGTTTAGGGTTTAGG
*
8702883 TATTTAGGGTTTAGATTTAGGGTTTAGG
1 --TTTAGGGTTT-GGTTTAGGGTTTAGG
8702911 TTTAGGGTTT
1 TTTAGGGTTT
8702921 AATATTTATG
Statistics
Matches: 130, Mismatches: 21, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
23 1 0.01
24 24 0.18
25 31 0.24
26 41 0.32
27 19 0.15
28 14 0.11
ACGTcount: A:0.15, C:0.02, G:0.35, T:0.47
Consensus pattern (25 bp):
TTTAGGGTTTGGTTTAGGGTTTAGG
Found at i:8702812 original size:18 final size:17
Alignment explanation
Indices: 8702791--8702847 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
8702781 AAGTTTTGGT
8702791 TTTGGTTTAGGGCTTAGG
1 TTTGGTTTAGGG-TTAGG
*
8702809 TTTGGGGTTT-GGTTTAGG
1 TTT--GGTTTAGGGTTAGG
8702827 ATTTGGTTTAGGGTTAGG
1 -TTTGGTTTAGGGTTAGG
8702845 TTT
1 TTT
8702848 AGGGTCCGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
17 8 0.24
18 15 0.45
19 5 0.15
20 5 0.15
ACGTcount: A:0.11, C:0.02, G:0.39, T:0.49
Consensus pattern (17 bp):
TTTGGTTTAGGGTTAGG
Found at i:8702834 original size:24 final size:24
Alignment explanation
Indices: 8702736--8702850 Score: 85
Period size: 24 Copynumber: 4.8 Consensus size: 24
8702726 ATTAATTTAG
*
8702736 GGTTTAAGGTTTGGTTTAGGATTTA
1 GGTTTAGGGTTTGGTTTAGGA-TTA
* *
8702761 TGGTTTAGGGTTTAG----GGTTTA
1 -GGTTTAGGGTTTGGTTTAGGATTA
* * * *
8702782 AGTTTTGGTTTTGGTTTAGGGCTTA
1 GGTTTAGGGTTTGGTTTA-GGATTA
* *
8702807 GGTTTGGGGTTTGGTTTAGGATTT
1 GGTTTAGGGTTTGGTTTAGGATTA
*
8702831 GGTTTAGGGTTAGGTTTAGG
1 GGTTTAGGGTTTGGTTTAGG
8702851 GTCCGCAGTT
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
20 10 0.14
21 3 0.04
22 2 0.03
24 22 0.32
25 20 0.29
26 12 0.17
ACGTcount: A:0.14, C:0.01, G:0.37, T:0.48
Consensus pattern (24 bp):
GGTTTAGGGTTTGGTTTAGGATTA
Found at i:8702836 original size:12 final size:12
Alignment explanation
Indices: 8702769--8702920 Score: 101
Period size: 12 Copynumber: 12.0 Consensus size: 12
8702759 TATGGTTTAG
8702769 GGTTTAGGGTTT
1 GGTTTAGGGTTT
* * *
8702781 AAGTTTTGGTTTT
1 -GGTTTAGGGTTT
*
8702794 GGTTTAGGGCTTA
1 GGTTTAGGG-TTT
*
8702807 GGTTTGGGGTTT
1 GGTTTAGGGTTT
*
8702819 GGTTTAGGATTT
1 GGTTTAGGGTTT
*
8702831 GGTTTAGGGTTA
1 GGTTTAGGGTTT
**
8702843 GGTTTAGGGTCC
1 GGTTTAGGGTTT
8702855 GCAGTTT--GGTTT
1 G--GTTTAGGGTTT
*
8702867 AAGGTTTAGAGTTT
1 --GGTTTAGGGTTT
8702881 GGTATTTAGGGTTT
1 GG--TTTAGGGTTT
*
8702895 AGATTTAGGGTTT
1 -GGTTTAGGGTTT
8702908 AGGTTTAGGGTTT
1 -GGTTTAGGGTTT
8702921 AATATTTATG
Statistics
Matches: 108, Mismatches: 21, Indels: 20
0.72 0.14 0.13
Matches are distributed among these distances:
12 48 0.44
13 41 0.38
14 18 0.17
15 1 0.01
ACGTcount: A:0.14, C:0.03, G:0.36, T:0.47
Consensus pattern (12 bp):
GGTTTAGGGTTT
Found at i:8702849 original size:6 final size:6
Alignment explanation
Indices: 8702731--8702921 Score: 95
Period size: 7 Copynumber: 29.7 Consensus size: 6
8702721 TGGGGATTAA
8702731 TTTAGGG TTTAAGG TTT-GG TTTAGG ATTTATGG TTTAGGG TTTAGGG
1 TTTA-GG TTT-AGG TTTAGG TTTAGG -TTTA-GG TTTA-GG TTTA-GG
* * * * *
8702778 TTTAAG TTTTGG TTTTGG TTTAGGG CTTAGG TTTGGGG TTT-GG TTTAGG
1 TTTAGG TTTAGG TTTAGG TTTA-GG TTTAGG TTT-AGG TTTAGG TTTAGG
* * **
8702827 ATTT-GG TTTAGG GTTAGG TTTAGG GTCCGCAG TTT-GG TTTAAGG TTTAGAG
1 -TTTAGG TTTAGG TTTAGG TTTAGG TTTAG--G TTTAGG TTT-AGG TTTAG-G
*
8702878 TTT-GG TATTTAGGG TTTAGA TTTAGGG TTTAGG TTTAGGG TTTA
1 TTTAGG --TTTA-GG TTTAGG TTTA-GG TTTAGG TTTA-GG TTTA
8702922 ATATTTATGT
Statistics
Matches: 147, Mismatches: 17, Indels: 40
0.72 0.08 0.20
Matches are distributed among these distances:
5 18 0.12
6 52 0.35
7 70 0.48
8 5 0.03
9 2 0.01
ACGTcount: A:0.16, C:0.02, G:0.35, T:0.47
Consensus pattern (6 bp):
TTTAGG
Found at i:8702893 original size:21 final size:19
Alignment explanation
Indices: 8702857--8702920 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
8702847 TAGGGTCCGC
8702857 AGTTTGGTTTAAGGTTTAG
1 AGTTTGGTTTAAGGTTTAG
*
8702876 AGTTTGGTATTTAGGGTTTAG
1 AGTTTGG--TTTAAGGTTTAG
8702897 A-TTTAGGGTTT-AGGTTTAG
1 AGTTT--GGTTTAAGGTTTAG
*
8702916 GGTTT
1 AGTTT
8702921 AATATTTATG
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 14 0.38
20 9 0.24
21 12 0.32
22 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (19 bp):
AGTTTGGTTTAAGGTTTAG
Found at i:8702902 original size:13 final size:13
Alignment explanation
Indices: 8702884--8702921 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
8702874 AGAGTTTGGT
8702884 ATTTAGGGTTTAG
1 ATTTAGGGTTTAG
8702897 ATTTAGGGTTTAG
1 ATTTAGGGTTTAG
*
8702910 GTTTAGGGTTTA
1 ATTTAGGGTTTA
8702922 ATATTTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (13 bp):
ATTTAGGGTTTAG
Found at i:8702948 original size:40 final size:40
Alignment explanation
Indices: 8702863--8702948 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 40
8702853 CCGCAGTTTG
** *
8702863 GTTTAAGGTTTAGAGTTTGGTATTTAGGGTTTAGATTTAGG
1 GTTT-AGGTTTAGAGTTTAATATTTAGGGTTTAGATTTAGA
* * *
8702904 GTTTAGGTTTAGGGTTTAATATTTA-TGTTTAAGCTTTAGA
1 GTTTAGGTTTAGAGTTTAATATTTAGGGTTT-AGATTTAGA
8702944 GTTTA
1 GTTTA
8702949 AAGTTTGCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 4 0.11
40 30 0.79
41 4 0.11
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.49
Consensus pattern (40 bp):
GTTTAGGTTTAGAGTTTAATATTTAGGGTTTAGATTTAGA
Found at i:8702996 original size:19 final size:18
Alignment explanation
Indices: 8702974--8703041 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 18
8702964 GGGTTTACGA
8702974 TTTGGTTTAGAGTTTAGGG
1 TTTGGTTTAG-GTTTAGGG
* *
8702993 TTTGGTTTAGGGTTA-GT
1 TTTGGTTTAGGTTTAGGG
8703010 TTTAGGATTTAGGTTTAGGG
1 TTT-GG-TTTAGGTTTAGGG
8703030 CTTTGGTTTAGG
1 -TTTGGTTTAGG
8703042 GTTTGCATGG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 4 0.10
18 6 0.15
19 25 0.61
20 3 0.07
21 3 0.07
ACGTcount: A:0.15, C:0.01, G:0.35, T:0.49
Consensus pattern (18 bp):
TTTGGTTTAGGTTTAGGG
Found at i:8703006 original size:7 final size:7
Alignment explanation
Indices: 8702977--8703045 Score: 53
Period size: 7 Copynumber: 10.7 Consensus size: 7
8702967 TTTACGATTT
8702977 GGTTTAG
1 GGTTTAG
*
8702984 AGTTTAG
1 GGTTTAG
8702991 GGTTT--
1 GGTTTAG
8702996 GGTTTAG
1 GGTTTAG
8703003 GG-TTA-
1 GGTTTAG
*
8703008 GTTTTAG
1 GGTTTAG
*
8703015 GATTTA-
1 GGTTTAG
8703021 GGTTTAG
1 GGTTTAG
8703028 GGCTTT--
1 GG-TTTAG
8703034 GGTTTAG
1 GGTTTAG
8703041 GGTTT
1 GGTTT
8703046 GCATGGTGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
5 9 0.18
6 13 0.27
7 24 0.49
8 3 0.06
ACGTcount: A:0.14, C:0.01, G:0.36, T:0.48
Consensus pattern (7 bp):
GGTTTAG
Found at i:8703026 original size:13 final size:12
Alignment explanation
Indices: 8702977--8703041 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 12
8702967 TTTACGATTT
8702977 GGTTTAGAGTTTA
1 GGTTTAG-GTTTA
8702990 GGGTTT-GGTTTA
1 -GGTTTAGGTTTA
* *
8703002 GGGTTAGTTTTA
1 GGTTTAGGTTTA
8703014 GGATTTAGGTTTA
1 GG-TTTAGGTTTA
8703027 GGGCTTT-GGTTTA
1 -GG-TTTAGGTTTA
8703040 GG
1 GG
8703042 GTTTGCATGG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
11 4 0.09
12 14 0.33
13 15 0.35
14 10 0.23
ACGTcount: A:0.15, C:0.02, G:0.37, T:0.46
Consensus pattern (12 bp):
GGTTTAGGTTTA
Found at i:8703042 original size:13 final size:12
Alignment explanation
Indices: 8702985--8703046 Score: 79
Period size: 12 Copynumber: 5.0 Consensus size: 12
8702975 TTGGTTTAGA
8702985 GTTTAGGGTTTG
1 GTTTAGGGTTTG
*
8702997 GTTTAGGGTTAG
1 GTTTAGGGTTTG
* *
8703009 TTTTAGGATTTAG
1 GTTTAGGGTTT-G
8703022 GTTTAGGGCTTTG
1 GTTTAGGG-TTTG
8703035 GTTTAGGGTTTG
1 GTTTAGGGTTTG
8703047 CATGGTGGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
12 23 0.55
13 16 0.38
14 3 0.07
ACGTcount: A:0.13, C:0.02, G:0.37, T:0.48
Consensus pattern (12 bp):
GTTTAGGGTTTG
Found at i:8712901 original size:178 final size:179
Alignment explanation
Indices: 8712602--8712959 Score: 700
Period size: 178 Copynumber: 2.0 Consensus size: 179
8712592 AAAAATTTTC
8712602 AACATTTAGGCGGACTTTTGGAGCAAGCTAGTTTTTATAATTCTTTTAAAAAATGAAAAATTTTT
1 AACATTTAGGCGGACTTTTGGAGCAAGCTAGTTTTTATAATTCTTTTAAAAAATGAAAAATTTTT
8712667 ATTCTTACAATATAAGCTTGTTTTTCACAACCTACAAAAATTGATTTTCTTTTATC-TTTTTTTT
66 ATTCTTACAATATAAGCTTGTTTTTCACAACCTACAAAAATTGATTTTCTTTTATCTTTTTTTTT
8712731 TTCGTTAAAATTTTTATTATTATTATTTGTTATTATCATTTATCTTATT
131 TTCGTTAAAATTTTTATTATTATTATTTGTTATTATCATTTATCTTATT
8712780 AACATTTAGGCGGACTTTTGGAGCAAGCTAGTTTTTATAATTCTTTTAAAAAATGAAAAATTTTT
1 AACATTTAGGCGGACTTTTGGAGCAAGCTAGTTTTTATAATTCTTTTAAAAAATGAAAAATTTTT
8712845 ATTCTTACAATATAAGCTTGTTTTTCACAACCTACAAAAATTGATTTTCTTTTATCTTTTTTTTT
66 ATTCTTACAATATAAGCTTGTTTTTCACAACCTACAAAAATTGATTTTCTTTTATCTTTTTTTTT
*
8712910 TTCGTTAAAATTTTTATTATTATTATTTGTTATTATTATTTATCTTATT
131 TTCGTTAAAATTTTTATTATTATTATTTGTTATTATCATTTATCTTATT
8712959 A
1 A
8712960 GTAATAATTC
Statistics
Matches: 178, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
178 121 0.68
179 57 0.32
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.51
Consensus pattern (179 bp):
AACATTTAGGCGGACTTTTGGAGCAAGCTAGTTTTTATAATTCTTTTAAAAAATGAAAAATTTTT
ATTCTTACAATATAAGCTTGTTTTTCACAACCTACAAAAATTGATTTTCTTTTATCTTTTTTTTT
TTCGTTAAAATTTTTATTATTATTATTTGTTATTATCATTTATCTTATT
Found at i:8712942 original size:13 final size:13
Alignment explanation
Indices: 8712926--8712950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8712916 AAAATTTTTA
8712926 TTATTATTATTTG
1 TTATTATTATTTG
8712939 TTATTATTATTT
1 TTATTATTATTT
8712951 ATCTTATTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTATTATTTG
Found at i:8713061 original size:3 final size:3
Alignment explanation
Indices: 8713053--8713078 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8713043 GAAATTTAAA
8713053 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
8713079 CATCATCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8714499 original size:26 final size:29
Alignment explanation
Indices: 8714463--8714535 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 29
8714453 CTCTTAAAAA
*
8714463 TCTTTTCTTTTTTC-TTAG-CTTTT-CTT
1 TCTTTTTTTTTTTCTTTAGTCTTTTACTT
* *
8714489 TCTTTTTTTTTTTCTTTTGTGTTTTACTT
1 TCTTTTTTTTTTTCTTTAGTCTTTTACTT
8714518 TCTCTTTTTTTTTT-TTTA
1 TCT-TTTTTTTTTTCTTTA
8714536 CTAGTAGCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 13 0.33
27 3 0.08
28 4 0.10
29 9 0.23
30 10 0.26
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (29 bp):
TCTTTTTTTTTTTCTTTAGTCTTTTACTT
Found at i:8714502 original size:33 final size:34
Alignment explanation
Indices: 8714465--8714534 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
8714455 CTTAAAAATC
8714465 TTTTCTTTT-T-TCTTAGCTTT-TCTTTCTTTTTTT
1 TTTTCTTTTGTGTCTTA-CTTTCTCTTT-TTTTTTT
*
8714498 TTTTCTTTTGTGTTTTACTTTCTCTTTTTTTTTT
1 TTTTCTTTTGTGTCTTACTTTCTCTTTTTTTTTT
8714532 TTT
1 TTT
8714535 ACTAGTAGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
33 9 0.27
34 15 0.45
35 9 0.27
ACGTcount: A:0.03, C:0.13, G:0.04, T:0.80
Consensus pattern (34 bp):
TTTTCTTTTGTGTCTTACTTTCTCTTTTTTTTTT
Found at i:8714530 original size:17 final size:16
Alignment explanation
Indices: 8714464--8714530 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 16
8714454 TCTTAAAAAT
*
8714464 CTTTTCTTTTTTCTTA
1 CTTTTCTTTTTTTTTA
8714480 GCTTTTCTTTCTTTTTT-
1 -CTTTTCTTT-TTTTTTA
*
8714497 TTTTTCTTTTGTGTTTTA
1 CTTTTCTTTT-T-TTTTA
8714515 CTTTCTCTTTTTTTTT
1 CTTT-TCTTTTTTTTT
8714531 TTTTACTAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
15 1 0.02
16 9 0.21
17 17 0.40
18 9 0.21
19 6 0.14
ACGTcount: A:0.03, C:0.15, G:0.04, T:0.78
Consensus pattern (16 bp):
CTTTTCTTTTTTTTTA
Found at i:8716078 original size:130 final size:127
Alignment explanation
Indices: 8715835--8716215 Score: 415
Period size: 130 Copynumber: 2.9 Consensus size: 127
8715825 ATTACACTTG
* * ** *
8715835 GAGATCTTAGAGATTATGCCTTGAGGTCTTATAA-ATCTCAACGTCTTTGAATGATCCTCATACA
1 GAGATCTTAGAAATTATGCCTT-AGGTCTTA-AAGATTTCAAAATCTTTGAATGCTCCTCATACA
* * * * *
8715899 ATAGAGACATTGAAACTTTGAAAATTTAAAATGCTTTGCTCAAAAGTCTTAAAAAAATGTACCGT
64 ATAGAGACATTGAAACTTTGAAATTTTAAAATGCTTTCCT-AGAGGTCTTAAAAAAATGTACC-C
*
8715964 T
127 A
* * *
8715965 GAGATTTTAGAAATTATGCCTATAGATCTTAAAGATTTCAAAATCTTTGAATGCTTCTCATACAA
1 GAGATCTTAGAAATTATGCCT-TAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTCATACAA
* * * *
8716030 TAGAGGCATTGAAACTTTGAAATTTTAAAATGCTTTACCTGGAGGTCTTAAAGAAATTGTGCCCA
65 TAGAGACATTGAAACTTTGAAATTTTAAAATGCTTT-CCTAGAGGTCTTAAA-AAAATGTACCCA
* * * *
8716095 AAGGTCTTAGAAATTATG-CTTGGAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTTATATA
1 GAGATCTTAGAAATTATGCCTT--AGGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTCATACA
* *** *
8716159 ATAAAGTTGTTGAAACTTTGAAATTTTGAAATGCTTTGCCTAGAGGTCTTAAAAAAA
64 ATAGAGACATTGAAACTTTGAAATTTTAAAATGCTTT-CCTAGAGGTCTTAAAAAAA
8716216 ATTGATTTCT
Statistics
Matches: 212, Mismatches: 33, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
128 1 0.00
129 7 0.03
130 193 0.91
131 11 0.05
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (127 bp):
GAGATCTTAGAAATTATGCCTTAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTCATACAAT
AGAGACATTGAAACTTTGAAATTTTAAAATGCTTTCCTAGAGGTCTTAAAAAAATGTACCCA
Found at i:8716415 original size:129 final size:127
Alignment explanation
Indices: 8716231--8716716 Score: 613
Period size: 129 Copynumber: 3.8 Consensus size: 127
8716221 TTTCTCGAAT
* * **
8716231 GTCTTAAAGATTTCAAAATCTTTGAATGCTCCTTACACAATAGAGGTGTTAAAACTTTGAAAATT
1 GTCTTAAAGATTTCAAAATCTTTGAATGCTCCTTATACAATAAAGGCATTAAAACTTTGAAAATT
* *
8716296 TAAAATGCTTTGCCAGAGGTCTTAAAGAAATTGTGCCCAAAGGTCTTAGAAATTATGCTTGGA
66 TAAAATGCTTTGCCAGAGGTCTTAAAGAAATTATGCCCGAAGGTCTTAGAAATTATGC-TGGA
* * *
8716359 GGTTTTAAAGATTTCAAAATCTTTGAATGCTCCTTATACTATAAAGGCATTGAAACTTTGAAAAT
1 -GTCTTAAAGATTTCAAAATCTTTGAATGCTCCTTATACAATAAAGGCATTAAAACTTTGAAAAT
* *
8716424 TTAAAATGCTTTGCCCCA-AGGTCTTAAAGAAATTATGCCTGGAGGTCTTAGAAATTATGCCTGG
65 TTAAAATGCTTTG--CCAGAGGTCTTAAAGAAATTATGCCCGAAGGTCTTAGAAATTATG-CTGG
8716488 A
127 A
* *
8716489 TGTCTTAAAGATTTCAAAATCTTTGAATGCT-TTTCATTCAATAAAGGCATTAAAACTTTGAAAA
1 -GTCTTAAAGATTTCAAAATCTTTGAATGCTCCTT-ATACAATAAAGGCATTAAAACTTTGAAAA
* * * * *
8716553 TCTAAAATGGTTTGCCAGAGGTCCTAAAGAAATTGTGCCCGAAGGTCTTAGAAATTATGCT-CA
64 TTTAAAATGCTTTGCCAGAGGTCTTAAAGAAATTATGCCCGAAGGTCTTAGAAATTATGCTGGA
* * * * * * * *
8716616 --CTTAAGGATTTCCAAATTTTTTAATGCTTCTCATACAATAGAGGCATTGAAACTTTGAAAATT
1 GTCTTAAAGATTTCAAAATCTTTGAATGCTCCTTATACAATAAAGGCATTAAAACTTTGAAAATT
* *
8716679 TAAAATGCTTTGCCTGGAGATCTTAAAGAAATTATGCC
66 TAAAATGCTTTGCC-AGAGGTCTTAAAGAAATTATGCC
8716717 TAGAGGTTTT
Statistics
Matches: 311, Mismatches: 39, Indels: 18
0.85 0.11 0.05
Matches are distributed among these distances:
124 64 0.21
125 20 0.06
127 1 0.00
128 5 0.02
129 109 0.35
130 108 0.35
131 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (127 bp):
GTCTTAAAGATTTCAAAATCTTTGAATGCTCCTTATACAATAAAGGCATTAAAACTTTGAAAATT
TAAAATGCTTTGCCAGAGGTCTTAAAGAAATTATGCCCGAAGGTCTTAGAAATTATGCTGGA
Found at i:8716415 original size:240 final size:247
Alignment explanation
Indices: 8715839--8716710 Score: 870
Period size: 240 Copynumber: 3.5 Consensus size: 247
8715829 CACTTGGAGA
* * ** * * *
8715839 TCTTAGAGATTATGCCTT-GAGGTCTTATAA-ATCTCAACGTCTTTGAATGATCCTCATACAATA
1 TCTTAGAAATTATG-CTTGGAGGTCTTA-AAGATTTCAAAATCTTTGAATGCTCCTTATACTATA
* * * * *
8715902 GAGACATTGAAACTTTGAAAATTTAAAATGCTTTG-CTCAAAAGTCTTAAAAAAATGTACCGTTG
64 AAGGCATTGAAACTTTGAAAATTTAAAATGCTTTGCCT-AGAGGTCTTAAAGAAA--TA-----G
* *
8715966 AGATTTTAGAAATTATGCCT--ATAGATCTTAAAGATTTCAAAATCTTTGAATGCTTCTCATACA
121 AG---TTAG-AATTATGCCTGAAT-G-TCTTAAAGATTTCAAAATCTTTGAATGC-TCTTACACA
* * * *
8716029 ATAGAGGCATTGAAACTTTGAAATTTTAAAATGCTTTACCTGGAGGTCTTAAAGAAATTGTGCCC
179 ATAGAGGCATTAAAACTTTGAAAATTTAAAATGCTTTGCC-AGAGGTCTTAAAGAAATTGTGCCC
8716094 AAAGG
243 AAAGG
8716099 TCTTAGAAATTATGCTTGGAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTTATA-TAATAA
1 TCTTAGAAATTATGCTTGGAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTTATACT-ATAA
*** * *
8716163 AGTTGTTGAAACTTTGAAATTTTGAAATGCTTTGCCTAGAGGTCTTAAA-AAA-A-A-TT-G-AT
65 AGGCATTGAAACTTTGAAAATTTAAAATGCTTTGCCTAGAGGTCTTAAAGAAATAGAGTTAGAAT
**
8716222 T-T--CTCGAATGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTTACACAATAGAGGTGTTAAA
130 TATGCCT-GAATGTCTTAAAGATTTCAAAATCTTTGAATGCT-CTTACACAATAGAGGCATTAAA
8716284 ACTTTGAAAATTTAAAATGCTTTGCCAGAGGTCTTAAAGAAATTGTGCCCAAAGG
193 ACTTTGAAAATTTAAAATGCTTTGCCAGAGGTCTTAAAGAAATTGTGCCCAAAGG
*
8716339 TCTTAGAAATTATGCTTGGAGGTTTTAAAGATTTCAAAATCTTTGAATGCTCCTTATACTATAAA
1 TCTTAGAAATTATGCTTGGAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTTATACTATAAA
*
8716404 GGCATTGAAACTTTGAAAATTTAAAATGCTTTGCCCCA-AGGTCTTAAAGAAATTATGCCTGGAG
66 GGCATTGAAACTTTGAAAATTTAAAATGCTTTG-CCTAGAGGTCTTAAAGAAA-TA------GA-
* *
8716468 GTCTTAGAAATTATGCCTGGATGTCTTAAAGATTTCAAAATCTTTGAATGCT-TTTCATTCAATA
122 G--TTAG-AATTATGCCTGAATGTCTTAAAGATTTCAAAATCTTTGAATGCTCTTACA--CAATA
* * * * *
8716532 AAGGCATTAAAACTTTGAAAATCTAAAATGGTTTGCCAGAGGTCCTAAAGAAATTGTGCCCGAAG
182 GAGGCATTAAAACTTTGAAAATTTAAAATGCTTTGCCAGAGGTCTTAAAGAAATTGTGCCCAAAG
8716597 G
247 G
* * * * * * * * *
8716598 TCTTAGAAATTATGC-T-CA---CTTAAGGATTTCCAAATTTTTTAATGCTTCTCATACAATAGA
1 TCTTAGAAATTATGCTTGGAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTTATACTATAAA
* *
8716658 GGCATTGAAACTTTGAAAATTTAAAATGCTTTGCCTGGAGATCTTAAAGAAAT
66 GGCATTGAAACTTTGAAAATTTAAAATGCTTTGCCTAGAGGTCTTAAAGAAAT
8716711 TATGCCTAGA
Statistics
Matches: 527, Mismatches: 52, Indels: 73
0.81 0.08 0.11
Matches are distributed among these distances:
240 131 0.25
241 76 0.14
242 2 0.00
243 6 0.01
245 1 0.00
246 2 0.00
250 2 0.00
253 3 0.01
254 81 0.15
255 1 0.00
256 1 0.00
257 8 0.02
258 2 0.00
259 120 0.23
260 89 0.17
261 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (247 bp):
TCTTAGAAATTATGCTTGGAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTTATACTATAAA
GGCATTGAAACTTTGAAAATTTAAAATGCTTTGCCTAGAGGTCTTAAAGAAATAGAGTTAGAATT
ATGCCTGAATGTCTTAAAGATTTCAAAATCTTTGAATGCTCTTACACAATAGAGGCATTAAAACT
TTGAAAATTTAAAATGCTTTGCCAGAGGTCTTAAAGAAATTGTGCCCAAAGG
Found at i:8716469 original size:24 final size:24
Alignment explanation
Indices: 8716442--8716499 Score: 93
Period size: 22 Copynumber: 2.5 Consensus size: 24
8716432 CTTTGCCCCA
8716442 AGGTCTTAAAGAAATTATGCCTGG
1 AGGTCTTAAAGAAATTATGCCTGG
8716466 AGGTCTT--AGAAATTATGCCTGG
1 AGGTCTTAAAGAAATTATGCCTGG
*
8716488 ATGTCTTAAAGA
1 AGGTCTTAAAGA
8716500 TTTCAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 21 0.68
24 10 0.32
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (24 bp):
AGGTCTTAAAGAAATTATGCCTGG
Found at i:8716717 original size:24 final size:24
Alignment explanation
Indices: 8716689--8716735 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
8716679 TAAAATGCTT
* *
8716689 TGCCTGGAGATCTTAAAGAAATTA
1 TGCCTAGAGATCTTAAAAAAATTA
* *
8716713 TGCCTAGAGGTTTTAAAAAAATT
1 TGCCTAGAGATCTTAAAAAAATT
8716736 GTTTGGGTGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (24 bp):
TGCCTAGAGATCTTAAAAAAATTA
Found at i:8718431 original size:18 final size:18
Alignment explanation
Indices: 8718402--8718446 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
8718392 CTTCTTTACT
8718402 TTTTTCTTTTTGTT-TTTA
1 TTTTT-TTTTTGTTGTTTA
8718420 TGTTTTTTTTTGTTGTTTA
1 T-TTTTTTTTTGTTGTTTA
8718439 TTTTTTTT
1 TTTTTTTT
8718447 ATTAACACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.04, C:0.02, G:0.09, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTTGTTGTTTA
Found at i:8719320 original size:9 final size:9
Alignment explanation
Indices: 8719300--8719339 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
8719290 TAACCAAATA
8719300 TTTTTCATTT
1 TTTTTCA-TT
8719310 TTTTTCATT
1 TTTTTCATT
8719319 TTTTTCATT
1 TTTTTCATT
*
8719328 TATTT-ATT
1 TTTTTCATT
8719336 TTTT
1 TTTT
8719340 ATTTGTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 6 0.21
9 15 0.54
10 7 0.25
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTCATT
Found at i:8719339 original size:19 final size:18
Alignment explanation
Indices: 8719300--8719339 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
8719290 TAACCAAATA
8719300 TTTTTCATTTTTTTTCATT
1 TTTTTCATTTTTTTT-ATT
*
8719319 TTTTTCA-TTTATTTATT
1 TTTTTCATTTTTTTTATT
8719336 TTTT
1 TTTT
8719340 ATTTGTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 6 0.30
19 7 0.35
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTCATTTTTTTTATT
Found at i:8719737 original size:20 final size:21
Alignment explanation
Indices: 8719690--8719737 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
8719680 AAAAAGCTCC
*
8719690 TTTTTTTGTTTTCATTTTGTT
1 TTTTTTTGTCTTCATTTTGTT
* *
8719711 TTGTTTTG-CTTCGTTTTGTT
1 TTTTTTTGTCTTCATTTTGTT
8719731 TTTTTTT
1 TTTTTTT
8719738 TGTTATAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.02, C:0.06, G:0.12, T:0.79
Consensus pattern (21 bp):
TTTTTTTGTCTTCATTTTGTT
Found at i:8725023 original size:19 final size:19
Alignment explanation
Indices: 8724999--8725035 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8724989 ACTTGTCAAG
8724999 AGAAAAT-TTATTTTTTTAA
1 AGAAAATGTT-TTTTTTTAA
8725018 AGAAAATGTTTTTTTTTA
1 AGAAAATGTTTTTTTTTA
8725036 TTGTCTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
AGAAAATGTTTTTTTTTAA
Found at i:8726995 original size:3 final size:3
Alignment explanation
Indices: 8726981--8727051 Score: 133
Period size: 3 Copynumber: 23.7 Consensus size: 3
8726971 AAAATTTAAA
*
8726981 ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8727029 ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
8727052 GTTTTTGTAG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8735995 original size:43 final size:43
Alignment explanation
Indices: 8735948--8736049 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
8735938 GTTTAGCATA
* *
8735948 TGTTTAGAGGA-CTCAATTTCTTATTTTAAAATTGTTTAACCTC
1 TGTTTAGAGGAGCTC-AGTTCTTATTATAAAATTGTTTAACCTC
* * * *
8735991 TGTTTAAAGGAGCTCAGTTCTTATTATAAAGTTGTTTAGCCTT
1 TGTTTAGAGGAGCTCAGTTCTTATTATAAAATTGTTTAACCTC
*
8736034 TGTTTAGAGAAGCTCA
1 TGTTTAGAGGAGCTCA
8736050 TTTTTTTAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
43 47 0.94
44 3 0.06
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (43 bp):
TGTTTAGAGGAGCTCAGTTCTTATTATAAAATTGTTTAACCTC
Found at i:8736071 original size:39 final size:39
Alignment explanation
Indices: 8735971--8736117 Score: 152
Period size: 38 Copynumber: 3.7 Consensus size: 39
8735961 CAATTTCTTA
* * * *
8735971 TTTTAAAATTGTTTAACCTCTGTTTAAAGGAGCTCAGTTCT
1 TTTTAAAGTTGTTTAGCCTCTGTTTAGAGAAGCTCA-TT-T
*
8736012 TATTATAAAGTTGTTTAGCCTTTGTTTAGAGAAGCTCATTT
1 T-TT-TAAAGTTGTTTAGCCTCTGTTTAGAGAAGCTCATTT
* * * * *
8736053 TTTTAAAGTTATTTAGCCTCTATTTAGAAAATCTTA-TT
1 TTTTAAAGTTGTTTAGCCTCTGTTTAGAGAAGCTCATTT
*
8736091 TTTTAAAGTTGTTTAGCCTCTATTTAG
1 TTTTAAAGTTGTTTAGCCTCTGTTTAG
8736118 TAGAGACAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
38 28 0.30
39 27 0.29
40 2 0.02
41 3 0.03
42 4 0.04
43 28 0.30
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.48
Consensus pattern (39 bp):
TTTTAAAGTTGTTTAGCCTCTGTTTAGAGAAGCTCATTT
Done.