Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 14 of 235
Found at i:3847359 original size:15 final size:15
Alignment explanation
Indices: 3847339--3847377 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
3847329 TATAATTTAT
3847339 TATTTTATTCATATG
1 TATTTTATTCATATG
*
3847354 TATTTTATACATATG
1 TATTTTATTCATATG
*
3847369 TATATTATT
1 TATTTTATT
3847378 TTTACACATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (15 bp):
TATTTTATTCATATG
Found at i:3847388 original size:19 final size:21
Alignment explanation
Indices: 3847349--3847389 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
3847339 TATTTTATTC
*
3847349 ATATGTATTTTATACATATGT
1 ATATGTATTTTATACACATGT
3847370 ATAT-TATTTT-TACACATGT
1 ATATGTATTTTATACACATGT
3847389 A
1 A
3847390 AACACCAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 6 0.32
21 4 0.21
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (21 bp):
ATATGTATTTTATACACATGT
Found at i:3855561 original size:13 final size:12
Alignment explanation
Indices: 3855542--3855573 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
3855532 GGTTGTTTAT
3855542 TAACTAATTAAC
1 TAACTAATTAAC
3855554 TAAACTAATTAAC
1 T-AACTAATTAAC
3855567 TAACTAA
1 TAACTAA
3855574 ACTAAACCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (12 bp):
TAACTAATTAAC
Found at i:3858465 original size:18 final size:18
Alignment explanation
Indices: 3858444--3858478 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3858434 AATAAAATTG
*
3858444 AAATGAAAATAAAAAGAA
1 AAATAAAAATAAAAAGAA
3858462 AAATAAAAATAAAAAGA
1 AAATAAAAATAAAAAGA
3858479 TAGGAGGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (18 bp):
AAATAAAAATAAAAAGAA
Found at i:3862380 original size:13 final size:12
Alignment explanation
Indices: 3862361--3862392 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
3862351 GGTTGTTTAT
3862361 TAACTAATTAAC
1 TAACTAATTAAC
3862373 TAAACTAATTAAC
1 T-AACTAATTAAC
3862386 TAACTAA
1 TAACTAA
3862393 ACTAAACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (12 bp):
TAACTAATTAAC
Found at i:3866356 original size:38 final size:38
Alignment explanation
Indices: 3866314--3866474 Score: 196
Period size: 38 Copynumber: 4.2 Consensus size: 38
3866304 ACAGGCTATA
* * *
3866314 TGCTGGAAATATATCCGGGTTAAATCCTGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
3866352 TGCTGGTATTATATCCGGGTTAAATCCCGTAGGTTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
3866390 TGCTGGTATTATATCTGGGTTAAATCCCGCAGGCCTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
3866428 TGCTGGTATTATATCTGAGCTTAAAGTCCCGCAGGTTTTG
1 TGCTGGTATTATATCCG-GGTTAAA-TCCCGCAGGCTTCG
3866468 TGCTGGT
1 TGCTGGT
3866475 GACTGGATTC
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 83 0.78
39 6 0.06
40 18 0.17
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:3866403 original size:76 final size:78
Alignment explanation
Indices: 3866314--3866474 Score: 218
Period size: 76 Copynumber: 2.1 Consensus size: 78
3866304 ACAGGCTATA
* * * * *
3866314 TGCTGGAAATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATCCG-GGTTAAA-T
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCCGAGCTTAAAGT
*
3866377 CCCGTAGGTTTCG
66 CCCGCAGGTTTCG
* * *
3866390 TGCTGGTATTATATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCTGAGCTTAAAGT
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCCGAGCTTAAAGT
*
3866455 CCCGCAGGTTTTG
66 CCCGCAGGTTTCG
3866468 TGCTGGT
1 TGCTGGT
3866475 GACTGGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
76 48 0.66
77 6 0.08
78 19 0.26
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (78 bp):
TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCCGAGCTTAAAGT
CCCGCAGGTTTCG
Found at i:3866576 original size:112 final size:111
Alignment explanation
Indices: 3866444--3866657 Score: 376
Period size: 112 Copynumber: 1.9 Consensus size: 111
3866434 TATTATATCT
3866444 GAGCTTAAAGTCCCGCAGGTTTTGTGCTGGTGACTGGATTCGGGTTTTAAACCTAGCAGGC-TTA
1 GAGCTTAAAGTCCCGCAGGTTTTGTGCTGGTGACTGGATTCGGGTTTTAAACCTAGCA-GCTTTA
* *
3866508 ACGCCGGTGATTCGAGTAAGATTATGAATTCGAAAGTTCGAGGTAAA
65 ACGCCAGTGATTCGAGTAAGATTATGAATTCAAAAGTTCGAGGTAAA
3866555 NGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGTGACTGGATTCGGGTTTTAAACCTAGCAGCTTTA
1 -GAGCTTAAAGTCCCGCAGGTTTTGTGCTGGTGACTGGATTCGGGTTTTAAACCTAGCAGCTTTA
*
3866620 ATGCCAGTGATTCGAGTAAGATTATGAATTCAAAAGTT
65 ACGCCAGTGATTCGAGTAAGATTATGAATTCAAAAGTT
3866658 TGAGATTATT
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
111 2 0.02
112 96 0.98
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (111 bp):
GAGCTTAAAGTCCCGCAGGTTTTGTGCTGGTGACTGGATTCGGGTTTTAAACCTAGCAGCTTTAA
CGCCAGTGATTCGAGTAAGATTATGAATTCAAAAGTTCGAGGTAAA
Found at i:3873671 original size:38 final size:38
Alignment explanation
Indices: 3873629--3873748 Score: 170
Period size: 38 Copynumber: 3.2 Consensus size: 38
3873619 ATGCTAGAAA
*
3873629 TATATTCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAT
3873667 TATATCCGGGTTAAAT-CTCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCT-GCAGGCTTCGTGCTGGTAT
* ** * *
3873705 TATATCCGGGTTCAATCCCACAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAT
3873743 TATATC
1 TATATC
3873749 TGAGCTTAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
37 2 0.03
38 71 0.96
39 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAT
Found at i:3878415 original size:57 final size:57
Alignment explanation
Indices: 3878351--3878497 Score: 153
Period size: 57 Copynumber: 2.6 Consensus size: 57
3878341 TACATACATG
*
3878351 CATATGGCCCA-CTAGGCCCAATCTCAC-TT-ATATTGCCCATTCA-GCCCAAT-TCACGTT
1 CATATGGCCCATC-AGGCCCAAT-TCACATTCATATGGCCCATT-AGGCCCAATCTCA--TT
*
3878408 CATATGGCCCATCAGGCCCAATTGACATTCATATGGCCCATTAGGCCCAATCTCATT
1 CATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCATT
* ** *
3878465 TATATGGCCCATCCTGCCCAAATCACATT-ATAT
1 CATATGGCCCATCAGGCCCAATTCACATTCATAT
3878498 TCATGCTCAC
Statistics
Matches: 78, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
56 7 0.09
57 49 0.63
58 19 0.24
59 3 0.04
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.28
Consensus pattern (57 bp):
CATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCATT
Found at i:3878417 original size:29 final size:29
Alignment explanation
Indices: 3878351--3878476 Score: 138
Period size: 29 Copynumber: 4.4 Consensus size: 29
3878341 TACATACATG
*
3878351 CATATGGCCCACT-AGGCCCAATCTCACTT
1 CATATGGCCCATTCAGGCCCAAT-TCACTT
*
3878380 -ATATTGCCCATTCA-GCCCAATTCACGTT
1 CATATGGCCCATTCAGGCCCAATTCAC-TT
*
3878408 CATATGGCCCA-TCAGGCCCAATTGACATT
1 CATATGGCCCATTCAGGCCCAATTCAC-TT
3878437 CATATGGCCCATT-AGGCCCAATCTCA-TT
1 CATATGGCCCATTCAGGCCCAAT-TCACTT
*
3878465 TATATGGCCCAT
1 CATATGGCCCAT
3878477 CCTGCCCAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.05
28 35 0.42
29 42 0.50
30 3 0.04
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (29 bp):
CATATGGCCCATTCAGGCCCAATTCACTT
Found at i:3878495 original size:28 final size:28
Alignment explanation
Indices: 3878352--3878497 Score: 120
Period size: 29 Copynumber: 5.1 Consensus size: 28
3878342 ACATACATGC
*
3878352 ATATGGCCCA-CTAGGCCC-AATCTCACTT
1 ATATGGCCCATC-AGGCCCAAATCACA-TT
* * *
3878380 ATATTGCCCATTCA-GCCCAATTCACGTT
1 ATATGGCCCA-TCAGGCCCAAATCACATT
* *
3878408 CATATGGCCCATCAGGCCCAATTGACATT
1 -ATATGGCCCATCAGGCCCAAATCACATT
* *
3878437 CATATGGCCCATTAGGCCC-AATCTCATTT
1 -ATATGGCCCATCAGGCCCAAATCACA-TT
**
3878466 ATATGGCCCATCCTGCCCAAATCACATT
1 ATATGGCCCATCAGGCCCAAATCACATT
3878494 ATAT
1 ATAT
3878498 TCATGCTCAC
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
28 43 0.45
29 52 0.54
30 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAAATCACATT
Found at i:3879558 original size:17 final size:17
Alignment explanation
Indices: 3879536--3879596 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
3879526 ACAATAATAT
3879536 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
3879553 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
3879570 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
3879584 AAAATATATATAT
1 AAAATATATATAT
3879597 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:3880385 original size:15 final size:16
Alignment explanation
Indices: 3880350--3880391 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
3880340 CTTTTTGTTG
3880350 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
* *
3880366 ATTTTTTTGCT-GAAT
1 TTTTTTTTGCTGGAAA
3880381 TTTTTTTTGCT
1 TTTTTTTTGCT
3880392 CTTTTTTCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.64
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:3880673 original size:30 final size:30
Alignment explanation
Indices: 3880621--3880731 Score: 127
Period size: 30 Copynumber: 3.7 Consensus size: 30
3880611 TTTTACAAAA
* *
3880621 TTTA-GGGTTAAAATGTAATTTAAAGAAAG
1 TTTAGGGGTCAAAATGAAATTTAAAGAAAG
* *
3880650 TTTAGGGGTCTAAGTGAAATTTAAAGAAAG
1 TTTAGGGGTCAAAATGAAATTTAAAGAAAG
* *
3880680 TTTAAGGGTCAAAATGAAATTT-AGGAAAAG
1 TTTAGGGGTCAAAATGAAATTTAAAG-AAAG
* *
3880710 TTTAGGGGTAAAAATGCAATTT
1 TTTAGGGGTCAAAATGAAATTT
3880732 TTATTTTTTG
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
29 6 0.09
30 63 0.91
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (30 bp):
TTTAGGGGTCAAAATGAAATTTAAAGAAAG
Found at i:3881002 original size:77 final size:77
Alignment explanation
Indices: 3880920--3881088 Score: 338
Period size: 77 Copynumber: 2.2 Consensus size: 77
3880910 TTTATTGTAA
3880920 AAAAAATTGAAAATAGCTCGGATGCGACCCGAAGTTCAACTCACCTCTCGAATTATGAGTTGATC
1 AAAAAATTGAAAATAGCTCGGATGCGACCCGAAGTTCAACTCACCTCTCGAATTATGAGTTGATC
3880985 TTTTGAAAAAGC
66 TTTTGAAAAAGC
3880997 AAAAAATTGAAAATAGCTCGGATGCGACCCGAAGTTCAACTCACCTCTCGAATTATGAGTTGATC
1 AAAAAATTGAAAATAGCTCGGATGCGACCCGAAGTTCAACTCACCTCTCGAATTATGAGTTGATC
3881062 TTTTGAAAAAGC
66 TTTTGAAAAAGC
3881074 AAAAAATTGAAAATA
1 AAAAAATTGAAAATA
3881089 CCTCAATGTG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 92 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (77 bp):
AAAAAATTGAAAATAGCTCGGATGCGACCCGAAGTTCAACTCACCTCTCGAATTATGAGTTGATC
TTTTGAAAAAGC
Found at i:3881219 original size:73 final size:73
Alignment explanation
Indices: 3880955--3881232 Score: 267
Period size: 77 Copynumber: 3.7 Consensus size: 73
3880945 GACCCGAAGT
* * *
3880955 TCAACTCACCTCTCGAATTATGAGTTGATCTTTTGAAAAAGCAAAAAATTGAAAATAGCTCGGAT
1 TCAACTCACCTCTCGAA-TATGAGTTGAT-TTTTGAAAAA-CAAAAAATTGAAAATACCTC-AAC
* * * *
3881020 GCGACCCGAAGT
62 GTGTCCCGAGGC
*
3881032 TCAACTCACCTCTCGAATTATGAGTTGATCTTTTGAAAAAGCAAAAAATTGAAAATACCTCAATG
1 TCAACTCACCTCTCGAA-TATGAGTTGAT-TTTTGAAAAA-CAAAAAATTGAAAATACCTCAACG
**
3881097 TGTCTTGAGGC
63 TGTCCCGAGGC
** * * *
3881108 TCAACTCATTTCTCGCAATATGAGTTGA-ATTT-AAAAA-AAAAGGAATTGAAATTACCTCAGCG
1 TCAACTCACCTCTCG-AATATGAGTTGATTTTTGAAAAACAAAA--AATTGAAAATACCTCAACG
3881170 TGTCCCGAGGC
63 TGTCCCGAGGC
* * *
3881181 TCAACTCACCTCTAGTAATATGAATTGATTTTTGAAAAAC-ATAAATTGAAAA
1 TCAACTCACCTCTCG-AATATGAGTTGATTTTTGAAAAACAAAAAATTGAAAA
3881233 ACGGAAATCG
Statistics
Matches: 171, Mismatches: 24, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
71 4 0.02
73 61 0.36
74 6 0.04
75 7 0.04
76 31 0.18
77 62 0.36
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (73 bp):
TCAACTCACCTCTCGAATATGAGTTGATTTTTGAAAAACAAAAAATTGAAAATACCTCAACGTGT
CCCGAGGC
Found at i:3881251 original size:87 final size:86
Alignment explanation
Indices: 3881142--3881549 Score: 529
Period size: 87 Copynumber: 4.7 Consensus size: 86
3881132 TTGAATTTAA
* * * * * *
3881142 AAAAAAAGGAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGTAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
3881207 GATTTTTGAAAAACATAAATTG
66 GATTTTT-AAAAACATAAATTG
* * * * *
3881229 AAAAACGGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
*
3881294 GATTTTT-GAAACATATAGATTGG
66 GATTTTTAAAAACATA-A-ATT-G
*
3881317 AAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 -AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAAT
*
3881382 TGA--TTTAAAAACAGT-CATT-
65 TGATTTTTAAAAACA-TAAATTG
* *
3881401 AAGAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
* *
3881466 GATTTTTACAAAATATAAACTG
66 GATTTTTA-AAAACATAAATTG
* * *
3881488 AAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCCCCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
3881550 GTCGACTTTT
Statistics
Matches: 281, Mismatches: 29, Indels: 22
0.85 0.09 0.07
Matches are distributed among these distances:
83 64 0.23
85 12 0.04
86 11 0.04
87 124 0.44
88 6 0.02
89 64 0.23
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (86 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
GATTTTTAAAAACATAAATTG
Found at i:3881526 original size:259 final size:250
Alignment explanation
Indices: 3881077--3881560 Score: 659
Period size: 259 Copynumber: 1.9 Consensus size: 250
3881067 AAAAAGCAAA
* * **
3881077 AAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTAA
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTAA
* * *
3881142 AAAAAAAGGAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGTAATATGAATT
66 AAAAAAAGGAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAATT
* *
3881207 GATTTTTGAAAAACATAAATTGAAAAACGGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAA
131 GATTTTTGAAAAACATAAACTGAAAAACAGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAA
* *
3881272 TTCACCTCTCGCAATATGAGTTGA-TTTTTGAAACATATAGATTGGAAAAAACAG
196 CTCACCTCTCGCAATATGAGTCGACTTTTTGAAACATATAGATTGGAAAAAACAG
*
3881326 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTAA
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTAA
* *
3881390 AAACAGTCATTAAGAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
66 AAA-A---A--AAG----G-AATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAG
* * * * *
3881455 CAATATGAATTGATTTTT-ACAAAATATAAACTGAAAAACATAAATTGAAATTACCTCAGCGTGT
120 CAATATGAATTGATTTTTGA-AAAACATAAACTGAAAAACAGAAATCGAAAATACCTCAACGTGT
*
3881519 CCTGAGGCTCAACTCCCCTCTCGCAATATGAGTCGACTTTTT
184 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTTT
3881561 TTTTGACAAA
Statistics
Matches: 202, Mismatches: 20, Indels: 15
0.85 0.08 0.06
Matches are distributed among these distances:
248 9 0.04
249 54 0.27
252 1 0.00
254 3 0.01
258 2 0.01
259 128 0.63
260 5 0.02
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (250 bp):
AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTAA
AAAAAAAGGAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAATT
GATTTTTGAAAAACATAAACTGAAAAACAGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAA
CTCACCTCTCGCAATATGAGTCGACTTTTTGAAACATATAGATTGGAAAAAACAG
Found at i:3881545 original size:170 final size:175
Alignment explanation
Indices: 3881141--3881551 Score: 566
Period size: 172 Copynumber: 2.4 Consensus size: 175
3881131 GTTGAATTTA
* * * * * *
3881141 AAAAAAAAGGAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGTAATATGAAT
1 AAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
3881206 TGATTTTTGAAAAACATAAATTGAAAAACGGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCA
66 TGA-TTTTGAAAAACATAAATTGAAAAACAGAAATCAAAAATACCTCAACGTGTCCTGAGGCTCA
* * * * *
3881271 ATTCACCTCTCGCAATATGAGTTGATTTTTGAAACATATAGATTGG
130 ACTCACCTCTCGCAATATGAATTGATTTTTGAAAAATATAAACTGG
*
3881317 AAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
3881382 TGA-TTT-AAAAACAGT-CATT-AAGAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCA
66 TGATTTTGAAAAACA-TAAATTGAAAAACAGAAATCAAAAATACCTCAACGTGTCCTGAGGCTCA
3881443 ACTCACCTCTCGCAATATGAATTGATTTTT-ACAAAATATAAACT-G
130 ACTCACCTCTCGCAATATGAATTGATTTTTGA-AAAATATAAACTGG
* *
3881488 -AAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCCCCTCTCGCAATATGAGT
1 AAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
3881552 CGACTTTTTT
Statistics
Matches: 212, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
170 61 0.29
171 2 0.01
172 74 0.35
173 10 0.05
174 4 0.02
176 61 0.29
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (175 bp):
AAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTGAAAAACATAAATTGAAAAACAGAAATCAAAAATACCTCAACGTGTCCTGAGGCTCAA
CTCACCTCTCGCAATATGAATTGATTTTTGAAAAATATAAACTGG
Found at i:3881653 original size:259 final size:252
Alignment explanation
Indices: 3881151--3881632 Score: 627
Period size: 259 Copynumber: 1.9 Consensus size: 252
3881141 AAAAAAAAGG
* * *
3881151 AATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGTAATATGAATTGATTTTTGA
1 AATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGA
* * *
3881216 AAAACATAAATTGAAAAACGGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCT
66 AAAACATAAACTGAAAAACAGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
*
3881281 CGCAATATGAGTTGATTTTTGAAACATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCG
131 CGCAATATGAGTCGATTTTT-----ATAT--ATTGGAAAAAACAGAAATTGAAAATACCTCAGCG
* *
3881346 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAACAGTCATTAAGAACAGA
189 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAACAGTCATTAAGAACAGA
* *
3881410 AATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTT-A
1 AATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGA
* * * * * *
3881474 CAAAATATAAACTGAAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCCCCTC
66 -AAAACATAAACTGAAAAACAGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTC
* * *
3881539 TCGCAATATGAGTCGACTTTTT-T-T-TT-G-ACAAACAGTAATTGAAAATACCTCGGCGTGCCC
130 TCGCAATATGAGTCGA-TTTTTATATATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGCCC
* *
3881599 CGAGGCTCAACTCACTTCTC-CGAATATGATTTGA
194 CGAGGCTCAACTCACCTCTCGC-AATATGAGTTGA
3881633 ATTTTGAAAA
Statistics
Matches: 198, Mismatches: 22, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
247 1 0.01
248 58 0.29
249 1 0.01
250 2 0.01
253 1 0.01
254 1 0.01
258 1 0.01
259 128 0.65
260 5 0.03
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (252 bp):
AATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGA
AAAACATAAACTGAAAAACAGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTCGATTTTTATATATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCG
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAACAGTCATTAAGAACAGA
Found at i:3897243 original size:548 final size:548
Alignment explanation
Indices: 3896207--3897300 Score: 2170
Period size: 548 Copynumber: 2.0 Consensus size: 548
3896197 TTACAACTGC
3896207 GAATTGTATGTTTTAACCTCAGCGAACGATTATGGGATATGCAATGAATGAATAAATGAATGAAT
1 GAATTGTATGTTTTAACCTCAGCGAACGATTATGGGATATGCAATGAATGAATAAATGAATGAAT
3896272 GCATAAATGTCAAATGAATGTTAATCATGAAAGAAATGCAAGAAGTTGGTGTTGATTTCAAGATA
66 GCATAAATGTCAAATGAATGTTAATCATGAAAGAAATGCAAGAAGTTGGTGTTGATTTCAAGATA
3896337 GCCCCTATTTTAGGCATTCTATTCATCAAAAGAGTTCATTACAAAATATTTTACCGTTTTCGATT
131 GCCCCTATTTTAGGCATTCTATTCATCAAAAGAGTTCATTACAAAATATTTTACCGTTTTCGATT
*
3896402 CAGCTATTACACAAACTTCCTAGCTATATCGCCGTATTTCTTTACTCGCGCTAAGAACTCTGATA
196 CAGCTATTACACAAACTTCCTAGCTATAACGCCGTATTTCTTTACTCGCGCTAAGAACTCTGATA
3896467 TATTTGATCTTTGACTTGGAGGGAATTGGCAAATGAGAATTTCAGCTTCTTCTGATAATTGCACC
261 TATTTGATCTTTGACTTGGAGGGAATTGGCAAATGAGAATTTCAGCTTCTTCTGATAATTGCACC
3896532 ACGTACATGGCTACCCCACGAACTTCATTGATCAAATAGCTAAGTTGCATTTCTTTTTCTTACAG
326 ACGTACATGGCTACCCCACGAACTTCATTGATCAAATAGCTAAGTTGCATTTCTTTTTCTTACAG
3896597 GCCCTCTTCGTAAGCACGAACGTCTCTATTATACTGACTATCTTTTTCTTCCAAAGCCTTCAAGA
391 GCCCTCTTCGTAAGCACGAACGTCTCTATTATACTGACTATCTTTTTCTTCCAAAGCCTTCAAGA
3896662 GAGTGTCTAGCTGTTGTTGACGATCTTGCAGCATATCTTCTAACTCTCTTATCCTTTCTTTTAGT
456 GAGTGTCTAGCTGTTGTTGACGATCTTGCAGCATATCTTCTAACTCTCTTATCCTTTCTTTTAGT
3896727 TCTTGACGTTTAGATCGACTAGTCATAG
521 TCTTGACGTTTAGATCGACTAGTCATAG
3896755 GAATTGTATGTTTTAACCTCAGCGAACGATTATGGGATATGCAATGAATGAATAAATGAATGAAT
1 GAATTGTATGTTTTAACCTCAGCGAACGATTATGGGATATGCAATGAATGAATAAATGAATGAAT
3896820 GCATAAATGTCAAATGAATGTTAATCATGAAAGAAATGCAAGAAGTTGGTGTTGATTTCAAGATA
66 GCATAAATGTCAAATGAATGTTAATCATGAAAGAAATGCAAGAAGTTGGTGTTGATTTCAAGATA
*
3896885 GCCCCTATTTTAGGCATTCTATTCATCAAAAGAGTTCATTACAAAATATTTTATCGTTTTCGATT
131 GCCCCTATTTTAGGCATTCTATTCATCAAAAGAGTTCATTACAAAATATTTTACCGTTTTCGATT
3896950 CAGCTATTACACAAACTTCCTAGCTATAACGCCGTATTTCTTTACTCGCGCTAAGAACTCTGATA
196 CAGCTATTACACAAACTTCCTAGCTATAACGCCGTATTTCTTTACTCGCGCTAAGAACTCTGATA
3897015 TATTTGATCTTTGACTTGGAGGGAATTGGCAAATGAGAATTTCAGCTTCTTCTGATAATTGCACC
261 TATTTGATCTTTGACTTGGAGGGAATTGGCAAATGAGAATTTCAGCTTCTTCTGATAATTGCACC
3897080 ACGTACATGGCTACCCCACGAACTTCATTGATCAAATAGCTAAGTTGCATTTCTTTTTCTTACAG
326 ACGTACATGGCTACCCCACGAACTTCATTGATCAAATAGCTAAGTTGCATTTCTTTTTCTTACAG
3897145 GCCCTCTTCGTAAGCACGAACGTCTCTATTATACTGACTATCTTTTTCTTCCAAAGCCTTCAAGA
391 GCCCTCTTCGTAAGCACGAACGTCTCTATTATACTGACTATCTTTTTCTTCCAAAGCCTTCAAGA
3897210 GAGTGTCTAGCTGTTGTTGACGATCTTGCAGCATATCTTCTAACTCTCTTATCCTTTCTTTTAGT
456 GAGTGTCTAGCTGTTGTTGACGATCTTGCAGCATATCTTCTAACTCTCTTATCCTTTCTTTTAGT
3897275 TCTTGACGTTTAGATCGACTAGTCAT
521 TCTTGACGTTTAGATCGACTAGTCAT
3897301 TACCTCGGCA
Statistics
Matches: 544, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
548 544 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (548 bp):
GAATTGTATGTTTTAACCTCAGCGAACGATTATGGGATATGCAATGAATGAATAAATGAATGAAT
GCATAAATGTCAAATGAATGTTAATCATGAAAGAAATGCAAGAAGTTGGTGTTGATTTCAAGATA
GCCCCTATTTTAGGCATTCTATTCATCAAAAGAGTTCATTACAAAATATTTTACCGTTTTCGATT
CAGCTATTACACAAACTTCCTAGCTATAACGCCGTATTTCTTTACTCGCGCTAAGAACTCTGATA
TATTTGATCTTTGACTTGGAGGGAATTGGCAAATGAGAATTTCAGCTTCTTCTGATAATTGCACC
ACGTACATGGCTACCCCACGAACTTCATTGATCAAATAGCTAAGTTGCATTTCTTTTTCTTACAG
GCCCTCTTCGTAAGCACGAACGTCTCTATTATACTGACTATCTTTTTCTTCCAAAGCCTTCAAGA
GAGTGTCTAGCTGTTGTTGACGATCTTGCAGCATATCTTCTAACTCTCTTATCCTTTCTTTTAGT
TCTTGACGTTTAGATCGACTAGTCATAG
Found at i:3901164 original size:14 final size:16
Alignment explanation
Indices: 3901130--3901170 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
3901120 TTTTTGTTGT
3901130 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
*
3901146 ATTTTTTTGCT-G-AA
1 TTTTTTTTGCTGGAAA
3901160 TTTTTTTTGCT
1 TTTTTTTTGCT
3901171 CTTTTTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 12 0.52
15 1 0.04
16 10 0.43
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.63
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:3901451 original size:30 final size:30
Alignment explanation
Indices: 3901394--3901509 Score: 101
Period size: 30 Copynumber: 3.9 Consensus size: 30
3901384 GTAATTTTTA
* * *
3901394 GAAAATTTAA-GGTTAAAATGGAATTTAAG
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
* * * *
3901423 GAAATTTTAAGGGTCTAAGTGAAATTTAAA
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
* *
3901453 AAAAGTTTAAGGGTCAAAATTAAATTT-AG
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
* * *
3901482 GAAAAGTTTAGGGGTAAAAATGTAATTT
1 G-AAAGTTTAAGGGTCAAAATGAAATTT
3901510 TTATTTTTTG
Statistics
Matches: 68, Mismatches: 17, Indels: 3
0.77 0.19 0.03
Matches are distributed among these distances:
29 10 0.15
30 58 0.85
ACGTcount: A:0.46, C:0.02, G:0.21, T:0.32
Consensus pattern (30 bp):
GAAAGTTTAAGGGTCAAAATGAAATTTAAG
Found at i:3901643 original size:8 final size:8
Alignment explanation
Indices: 3901632--3901666 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
3901622 CCTTTCAATA
3901632 TTTCGGCT
1 TTTCGGCT
*
3901640 TTTCGGCA
1 TTTCGGCT
3901648 TTTCGGCT
1 TTTCGGCT
3901656 TTTCGGCT
1 TTTCGGCT
3901664 TTT
1 TTT
3901667 TCCGATCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:3903985 original size:14 final size:14
Alignment explanation
Indices: 3903966--3903992 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3903956 TTTTTTTACA
3903966 TATATTTATATATG
1 TATATTTATATATG
3903980 TATATTTATATAT
1 TATATTTATATAT
3903993 ATGTTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
TATATTTATATATG
Found at i:3903987 original size:24 final size:24
Alignment explanation
Indices: 3903960--3904010 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
3903950 AAATATTTTT
3903960 TTTACATATAT-TTATATATGTATA
1 TTTACATATATGTT-TATATGTATA
* *
3903984 TTTATATATATGTTTATATTTATA
1 TTTACATATATGTTTATATGTATA
3904008 TTT
1 TTT
3904011 CTTTTGGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTACATATATGTTTATATGTATA
Found at i:3904005 original size:6 final size:6
Alignment explanation
Indices: 3903966--3904010 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
3903956 TTTTTTTACA
* *
3903966 TATATT TATATAT GTATATT TATATA TATGTT TATATT TATATT T
1 TATATT TATAT-T -TATATT TATATT TATATT TATATT TATATT T
3904011 CTTTTGGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 26 0.79
7 2 0.06
8 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (6 bp):
TATATT
Found at i:3907807 original size:18 final size:18
Alignment explanation
Indices: 3907776--3907815 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
3907766 TCATATTTGA
*
3907776 TTTT-TTTAAGATTAATT
1 TTTTATTTAAAATTAATT
3907793 TTTTATTTAAAATTAATT
1 TTTTATTTAAAATTAATT
3907811 TTTTA
1 TTTTA
3907816 ATAATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTTATTTAAAATTAATT
Found at i:3907954 original size:39 final size:41
Alignment explanation
Indices: 3907881--3907970 Score: 130
Period size: 39 Copynumber: 2.2 Consensus size: 41
3907871 TTAAAAATAT
* *
3907881 TTATATTAAAAAATACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
*
3907922 TTATATTAAAAAACAC-A-AATAAATATAGTAAATATTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
*
3907961 TTGTATTAAA
1 TTATATTAAA
3907971 TATAAATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 29 0.64
40 1 0.02
41 15 0.33
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
Found at i:3908121 original size:29 final size:28
Alignment explanation
Indices: 3908079--3908136 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
3908069 TTTAATATAA
3908079 ATATAAATATATAATTATTATT-TAACAT
1 ATATAAATATATAA-TATTATTATAACAT
* *
3908107 ATATAATTAATATAATATTTTTATAACAT
1 ATATAAAT-ATATAATATTATTATAACAT
3908136 A
1 A
3908137 ATATTTGGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (28 bp):
ATATAAATATATAATATTATTATAACAT
Found at i:3915445 original size:18 final size:17
Alignment explanation
Indices: 3915407--3915449 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3915397 AGATGGATTT
*
3915407 ACTAAA-TGTTTTTAGT
1 ACTAAATTGTTTTTAGG
3915423 A-TAAATTGATTTTTAGG
1 ACTAAATTG-TTTTTAGG
3915440 ACTAAATTGT
1 ACTAAATTGT
3915450 GAAAAAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 4 0.17
16 3 0.13
17 9 0.39
18 7 0.30
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (17 bp):
ACTAAATTGTTTTTAGG
Found at i:3919226 original size:23 final size:23
Alignment explanation
Indices: 3919200--3919244 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3919190 TAGGTATGTG
3919200 ATGAAGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
3919223 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
3919245 TTGAATTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:3927051 original size:145 final size:145
Alignment explanation
Indices: 3926788--3927077 Score: 535
Period size: 145 Copynumber: 2.0 Consensus size: 145
3926778 GATTTGGTAG
*
3926788 GAGACACATCACACTATCAACCTCAGGATTTCGGTATATAAAGAAACTTTATTTTGGAAATCAAT
1 GAGACACATCACACTATCAACCTCAGGATTTCGGTATATAAAGAAACTTTATTTTGGAAATAAAT
* *
3926853 GGCATGTATAAGCTAATAAAGTAAATGTTAACGTGAAATGAATGTAAAGTTAGCCATTAGTATGG
66 GGCATGTATAAGCTAATAAAGAAAATGTTAACATGAAATGAATGTAAAGTTAGCCATTAGTATGG
3926918 TTAACAAACCTGGTT
131 TTAACAAACCTGGTT
*
3926933 GAGACACATCACACTATCAACCTCAGGATTTCGGTATATAAAGAAATTTTATTTTGGAAATAAAT
1 GAGACACATCACACTATCAACCTCAGGATTTCGGTATATAAAGAAACTTTATTTTGGAAATAAAT
*
3926998 GGCATGTATAAGCTAATAAAGAAAATGTTAACATGAAATGAATGTAAATTTAGCCATTAGTATGG
66 GGCATGTATAAGCTAATAAAGAAAATGTTAACATGAAATGAATGTAAAGTTAGCCATTAGTATGG
3927063 TTAACAAACCTGGTT
131 TTAACAAACCTGGTT
3927078 TTGGGTATGT
Statistics
Matches: 140, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 140 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (145 bp):
GAGACACATCACACTATCAACCTCAGGATTTCGGTATATAAAGAAACTTTATTTTGGAAATAAAT
GGCATGTATAAGCTAATAAAGAAAATGTTAACATGAAATGAATGTAAAGTTAGCCATTAGTATGG
TTAACAAACCTGGTT
Found at i:3933916 original size:26 final size:26
Alignment explanation
Indices: 3933886--3933935 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
3933876 CGGGGCATTC
3933886 TATGTGTAC-GTTT-ATCTTCAGAAGTA
1 TATGTG-ACGGTTTAAT-TTCAGAAGTA
3933912 TATGTGACGGTTTAATTTCAGAAG
1 TATGTGACGGTTTAATTTCAGAAG
3933936 GAATTTTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 2 0.09
26 18 0.82
27 2 0.09
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (26 bp):
TATGTGACGGTTTAATTTCAGAAGTA
Found at i:3942490 original size:16 final size:16
Alignment explanation
Indices: 3942469--3942499 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3942459 ATAAAAGTCT
3942469 GAAAATATCTGATGAG
1 GAAAATATCTGATGAG
3942485 GAAAATATCTGATGA
1 GAAAATATCTGATGA
3942500 CATAGAAATA
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:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (16 bp):
GAAAATATCTGATGAG
Found at i:3944228 original size:29 final size:29
Alignment explanation
Indices: 3944186--3944267 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
3944176 TGCAATGAGA
*
3944186 TCGCACACTTAGTGCTCGATAGTTTTACT
1 TCGCACACTTAGTGCTCGATAATTTTACT
* *
3944215 TCGCACACTTAGTGCTCGTTAATTTTTCT
1 TCGCACACTTAGTGCTCGATAATTTTACT
3944244 TCGCACACTTAGTGCTCGATAATT
1 TCGCACACTTAGTGCTCGATAATT
3944268 CACATATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (29 bp):
TCGCACACTTAGTGCTCGATAATTTTACT
Found at i:3953557 original size:29 final size:29
Alignment explanation
Indices: 3953515--3953595 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
3953505 TGCAATGAGA
*
3953515 TCGCACACTTAGTGCTCGATAGT-TTTACT
1 TCGCACACTTAGTGCTCGATAATCTTT-CT
*
3953544 TCGCACACTTAGTGCTCGTTAATCTTTCT
1 TCGCACACTTAGTGCTCGATAATCTTTCT
*
3953573 TCGCGCACTTAGTGCTCGATAAT
1 TCGCACACTTAGTGCTCGATAAT
3953596 TCACATATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
29 44 0.94
30 3 0.06
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (29 bp):
TCGCACACTTAGTGCTCGATAATCTTTCT
Found at i:3960429 original size:12 final size:12
Alignment explanation
Indices: 3960414--3960438 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3960404 TTTTAATTTA
3960414 ATTAAATAAAAT
1 ATTAAATAAAAT
3960426 ATTAAATAAAAT
1 ATTAAATAAAAT
3960438 A
1 A
3960439 GGTTCAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTAAATAAAAT
Found at i:3963012 original size:21 final size:19
Alignment explanation
Indices: 3962972--3963015 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
3962962 ACATTTTAAT
* *
3962972 ATATATTATATTAAATTAA
1 ATATACTATATTAAAATAA
3962991 ATATACTATATTATAACATAA
1 ATATACTATATTA-AA-ATAA
3963012 ATAT
1 ATAT
3963016 TAAAAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
20 2 0.10
21 7 0.33
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATACTATATTAAAATAA
Found at i:3964595 original size:21 final size:23
Alignment explanation
Indices: 3964571--3964615 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
3964561 TTATTTGAAT
3964571 AATTGACTTG-TT-TTTAATATA
1 AATTGACTTGATTATTTAATATA
* *
3964592 AATTTAGTTGATTATTTAATATA
1 AATTGACTTGATTATTTAATATA
3964615 A
1 A
3964616 GAATGGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 2 0.10
23 10 0.50
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (23 bp):
AATTGACTTGATTATTTAATATA
Found at i:3965931 original size:12 final size:12
Alignment explanation
Indices: 3965914--3965946 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3965904 CCAGCCCACC
3965914 ATATTAATTTTT
1 ATATTAATTTTT
*
3965926 ATATTATTTTTT
1 ATATTAATTTTT
3965938 ATA-TAATTT
1 ATATTAATTT
3965947 AAAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:3966126 original size:29 final size:30
Alignment explanation
Indices: 3966070--3966131 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
3966060 ACTTAACAAT
3966070 CAAATGTATCTAAAATAATAACAAAATTAA
1 CAAATGTATCTAAAATAATAACAAAATTAA
* *
3966100 CAAATGTCTTTAAAA-AATAACAAAATTAA
1 CAAATGTATCTAAAATAATAACAAAATTAA
3966129 CAA
1 CAA
3966132 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.60, C:0.11, G:0.03, T:0.26
Consensus pattern (30 bp):
CAAATGTATCTAAAATAATAACAAAATTAA
Found at i:3972296 original size:21 final size:21
Alignment explanation
Indices: 3972270--3972310 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3972260 AGACGAGCAA
* *
3972270 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
3972291 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
3972311 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:3980214 original size:22 final size:22
Alignment explanation
Indices: 3980172--3980216 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
3980162 TTATTTTTGA
*
3980172 AATATGATGTGTTATACATATT
1 AATATGATGTGTAATACATATT
*
3980194 AATAT-ATGTGTAATGCTATATT
1 AATATGATGTGTAATAC-ATATT
3980216 A
1 A
3980217 GCTTGTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (22 bp):
AATATGATGTGTAATACATATT
Found at i:3983918 original size:25 final size:25
Alignment explanation
Indices: 3983888--3983944 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
3983878 ACAAATAAGT
3983888 AAATGAATAAAGAAA-GAAAGAAACA
1 AAATGAA-AAAGAAATGAAAGAAACA
* *
3983913 AAATGAAACAGAAATGAAAGAAAGA
1 AAATGAAAAAGAAATGAAAGAAACA
3983938 AAA-GAAA
1 AAATGAAA
3983945 GAAAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.07
Consensus pattern (25 bp):
AAATGAAAAAGAAATGAAAGAAACA
Found at i:3983960 original size:29 final size:29
Alignment explanation
Indices: 3983896--3983967 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
3983886 GTAAATGAAT
* *
3983896 AAAGAAAGAAAGAAACAAAATGAAACAGA
1 AAAGAAAGAAAGAAACAAAATGAAAAAAA
*
3983925 AATGAAAGAAAGAAA-AGAAA-GAAAAAAA
1 AAAGAAAGAAAGAAACA-AAATGAAAAAAA
3983953 AAGAGAAAGACAAGA
1 AA-AGAAAGA-AAGA
3983968 CTAGGGTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 9 0.25
29 23 0.64
30 4 0.11
ACGTcount: A:0.74, C:0.04, G:0.19, T:0.03
Consensus pattern (29 bp):
AAAGAAAGAAAGAAACAAAATGAAAAAAA
Found at i:3983960 original size:34 final size:33
Alignment explanation
Indices: 3983896--3983960 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
3983886 GTAAATGAAT
**
3983896 AAAGAAAGAAAGAAACAAAATGAAACAGAAATG
1 AAAGAAAGAAAGAAACAAAAAAAAACAGAAATG
* *
3983929 AAAGAAAGAAAAGAAAGAAAAAAAAAGAGAAA
1 AAAGAAAG-AAAGAAACAAAAAAAAACAGAAA
3983961 GACAAGACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 8 0.30
34 19 0.70
ACGTcount: A:0.75, C:0.03, G:0.18, T:0.03
Consensus pattern (33 bp):
AAAGAAAGAAAGAAACAAAAAAAAACAGAAATG
Found at i:3989216 original size:9 final size:9
Alignment explanation
Indices: 3989197--3989231 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
3989187 TTCCTCATCA
3989197 TTTAGAAAGT
1 TTTA-AAAGT
3989207 TTTAAAAGT
1 TTTAAAAGT
3989216 TTTAAAAGT
1 TTTAAAAGT
3989225 TTTAAAA
1 TTTAAAA
3989232 TAGAAATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 21 0.84
10 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (9 bp):
TTTAAAAGT
Found at i:3993421 original size:31 final size:29
Alignment explanation
Indices: 3993383--3993459 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 29
3993373 TTTAATTTTT
*
3993383 TTTAAAATTTTAATTAAGCTCATTAAAAC
1 TTTAAAATTTTAATTAAGCTCATAAAAAC
* * *
3993412 GTTTGAAAATTCTCATTAATCTCATAAAAAC
1 -TTT-AAAATTTTAATTAAGCTCATAAAAAC
3993443 TTTAAAATTTTCAATTA
1 TTTAAAATTTT-AATTA
3993460 GACTCTCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 7 0.18
30 10 0.26
31 22 0.56
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.42
Consensus pattern (29 bp):
TTTAAAATTTTAATTAAGCTCATAAAAAC
Found at i:3993969 original size:47 final size:47
Alignment explanation
Indices: 3993916--3994010 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
3993906 TGATCAAATT
3993916 AATCTGTGTACTATTAAAAGAATCAAATAAGATCAAATTGAAATAGA
1 AATCTGTGTACTATTAAAAGAATCAAATAAGATCAAATTGAAATAGA
3993963 AATCTGTGTACTATTAAAAGAATCAAATAAGATCAAATTGAAATAGA
1 AATCTGTGTACTATTAAAAGAATCAAATAAGATCAAATTGAAATAGA
3994010 A
1 A
3994011 GTAACATTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (47 bp):
AATCTGTGTACTATTAAAAGAATCAAATAAGATCAAATTGAAATAGA
Found at i:3996903 original size:20 final size:20
Alignment explanation
Indices: 3996875--3996913 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3996865 ATAAAATTTA
3996875 TTTAGAATATATAAACTATAT
1 TTTAGAATATATAAA-TATAT
*
3996896 TTTA-AATATTTAAATATA
1 TTTAGAATATATAAATATA
3996914 ACCATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTAGAATATATAAATATAT
Found at i:4017336 original size:20 final size:21
Alignment explanation
Indices: 4017301--4017346 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
4017291 AATATGATAA
* *
4017301 TTTATGTATATTTTATATTTT
1 TTTAAGTATATTTTATAATTT
4017322 TTTAAGTAT-TTTTATAATTT
1 TTTAAGTATATTTTATAATTT
4017342 TTTAA
1 TTTAA
4017347 TTTTTTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTAAGTATATTTTATAATTT
Found at i:4023932 original size:40 final size:40
Alignment explanation
Indices: 4023839--4024063 Score: 249
Period size: 40 Copynumber: 5.7 Consensus size: 40
4023829 GCTCCTCGTT
* * * *
4023839 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
4023879 C-AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
4023918 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
4023958 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
4023998 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
4024039 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
4024064 CAGCATTCAA
Statistics
Matches: 161, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.22
40 114 0.71
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:4024072 original size:41 final size:41
Alignment explanation
Indices: 4023995--4024072 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
4023985 TTAGTATCTC
* * *
4023995 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
4024036 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
4024073 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:4030621 original size:43 final size:43
Alignment explanation
Indices: 4030563--4030711 Score: 126
Period size: 42 Copynumber: 3.5 Consensus size: 43
4030553 CAATGCCAAC
*
4030563 GTCCCAGAC-GTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACAG-GGTCTTACATGTAATTCAATATCGATGCCTAT
** * *
4030606 GTCCCAGACAGGGTCTTACA-CAAAATCAGATA-CGATGCCGAT
1 GTCCCAGACAGGGTCTTACATGTAATTCA-ATATCGATGCCTAT
* * * *
4030648 GTCCCAGACATGGTCTTACATGTGAATCTCAA-ATCAAAGCCTGT
1 GTCCCAGACAGGGTCTTACATGT-AAT-TCAATATCGATGCCTAT
** *
4030692 GTCTGAGACATGGTCTTACA
1 GTCCCAGACAGGGTCTTACA
4030712 CGATATTTCA
Statistics
Matches: 85, Mismatches: 15, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
42 32 0.38
43 22 0.26
44 28 0.33
45 3 0.04
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACATGTAATTCAATATCGATGCCTAT
Found at i:4035680 original size:54 final size:54
Alignment explanation
Indices: 4035616--4035985 Score: 555
Period size: 54 Copynumber: 6.9 Consensus size: 54
4035606 TTGGTAAGAT
*
4035616 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
4035670 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
4035724 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
4035778 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * *
4035832 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTAATATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGGC
*** * * *
4035887 AAAGG-TCCCATGTAACACCATGCCAAGGCATGGCATTGGTGAGTT-TATAAGGC
1 -AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * * * *
4035940 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
4035986 AAAAAGGAAA
Statistics
Matches: 293, Mismatches: 19, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
52 4 0.01
53 41 0.14
54 204 0.70
55 40 0.14
56 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
Found at i:4038163 original size:18 final size:18
Alignment explanation
Indices: 4038138--4038174 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4038128 TGTGTATTTG
4038138 TATGAATTATGTTGTGAT
1 TATGAATTATGTTGTGAT
4038156 TATGAATTATGTTGTGAT
1 TATGAATTATGTTGTGAT
4038174 T
1 T
4038175 GATCGATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (18 bp):
TATGAATTATGTTGTGAT
Found at i:4043472 original size:31 final size:31
Alignment explanation
Indices: 4043437--4043503 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
4043427 TTTCGAAAGT
4043437 AAACCAAAATATCATCTATAAATACAACCAC
1 AAACCAAAATATCATCTATAAATACAACCAC
*
4043468 AAACCAAAATATCATCTATAAATACCACCAC
1 AAACCAAAATATCATCTATAAATACAACCAC
4043499 AAACC
1 AAACC
4043504 TGTCTAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (31 bp):
AAACCAAAATATCATCTATAAATACAACCAC
Found at i:4045655 original size:39 final size:39
Alignment explanation
Indices: 4045545--4045727 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 39
4045535 GAATGATGTC
* * * *
4045545 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
* * *
4045584 CCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTACTAATT
1 -CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
4045624 CTGGGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAAT
1 C-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
4045663 CCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAAT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
*
4045704 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
4045728 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
39 32 0.27
40 75 0.64
41 11 0.09
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:4067488 original size:21 final size:22
Alignment explanation
Indices: 4067444--4067485 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4067434 CGATGGATGC
*
4067444 GCATTGAGTTATAATATGTAAT
1 GCATTGAGTTATAAAATGTAAT
4067466 GCATT-AGTTAGTAAAATGTA
1 GCATTGAGTTA-TAAAATGTA
4067486 TGCCATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (22 bp):
GCATTGAGTTATAAAATGTAAT
Found at i:4067492 original size:22 final size:23
Alignment explanation
Indices: 4067440--4067492 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
4067430 TAAACGATGG
*
4067440 ATGCGCATTGAGTTATAATATGTA
1 ATGC-CATTGAGTTATAAAATGTA
4067464 ATG-CATT-AGTTAGTAAAATGT-
1 ATGCCATTGAGTTA-TAAAATGTA
4067485 ATGCCATT
1 ATGCCATT
4067493 TATATGTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 8 0.31
22 15 0.58
24 3 0.12
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (23 bp):
ATGCCATTGAGTTATAAAATGTA
Found at i:4069055 original size:47 final size:47
Alignment explanation
Indices: 4069001--4069194 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
4068991 TTAGGATTTT
** * * *
4069001 ATGTGATGAATGTGAATGTGTATACATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
4069048 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
4069095 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
4069142 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
4069189 ATGTGA
1 ATGTGA
4069195 AATATGTATG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:4069101 original size:22 final size:22
Alignment explanation
Indices: 4069030--4069101 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
4069020 GTATACATGA
4069030 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
4069052 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
4069077 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
4069099 GAT
1 GAT
4069102 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:4069150 original size:25 final size:25
Alignment explanation
Indices: 4069075--4069150 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
4069065 ATGCATATAT
4069075 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
4069100 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
4069122 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
4069147 GTGA
1 GTGA
4069151 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:4069322 original size:52 final size:48
Alignment explanation
Indices: 4069164--4069350 Score: 277
Period size: 48 Copynumber: 3.8 Consensus size: 48
4069154 TGAACATGCA
*
4069164 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
4069212 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
4069260 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATGTATGAGATATG
*
4069312 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
4069351 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 1 0.01
50 2 0.02
51 1 0.01
52 40 0.32
53 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:4069334 original size:100 final size:96
Alignment explanation
Indices: 4069165--4069350 Score: 284
Period size: 100 Copynumber: 1.9 Consensus size: 96
4069155 GAACATGCAT
*
4069165 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
4069230 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
4069261 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAA
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATATATGAGAAATGTATATGTGGTAAA
*
4069325 GCCGAATGGCTAGTGTGAAATATGTA
61 GCCGAATGGCTAATGTGAAATATGTA
4069351 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
98 1 0.01
99 1 0.01
100 52 0.64
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:4069531 original size:13 final size:13
Alignment explanation
Indices: 4069513--4069540 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4069503 AAGACCCGAT
4069513 GACTACGTGTGGA
1 GACTACGTGTGGA
4069526 GACTACGTGTGGA
1 GACTACGTGTGGA
4069539 GA
1 GA
4069541 TTATGTCCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.14, G:0.39, T:0.21
Consensus pattern (13 bp):
GACTACGTGTGGA
Found at i:4069617 original size:37 final size:37
Alignment explanation
Indices: 4069527--4069617 Score: 137
Period size: 37 Copynumber: 2.5 Consensus size: 37
4069517 ACGTGTGGAG
* *
4069527 ACTACGTGTGGAGATTATGTCCGAGTAAGACCCGATG
1 ACTACGTGTGGAGATTTTGTCCGAGTAAGACCCGATA
* *
4069564 ACTACGTGTGGAGATTTTGTCCGGGTAAGACCTGATA
1 ACTACGTGTGGAGATTTTGTCCGAGTAAGACCCGATA
*
4069601 ACTTCGTGTGGAGATTT
1 ACTACGTGTGGAGATTT
4069618 CGTCTGAGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (37 bp):
ACTACGTGTGGAGATTTTGTCCGAGTAAGACCCGATA
Found at i:4072240 original size:17 final size:17
Alignment explanation
Indices: 4072209--4072241 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4072199 TAACGCAAGG
4072209 GACCTTTTCATGATCCC
1 GACCTTTTCATGATCCC
4072226 GACCTGTTTCA-GATCC
1 GACCT-TTTCATGATCC
4072242 GTCACTGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.33, G:0.15, T:0.33
Consensus pattern (17 bp):
GACCTTTTCATGATCCC
Found at i:4077561 original size:41 final size:41
Alignment explanation
Indices: 4077516--4077597 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
4077506 ATGATTAAAG
4077516 AATGGCAGGTGAATACTTGGTAATGATTAGCTTATAATATA
1 AATGGCAGGTGAATACTTGGTAATGATTAGCTTATAATATA
*
4077557 AATGGCAGGTGAATACTTGGTAATGATTAGCTTATGATATA
1 AATGGCAGGTGAATACTTGGTAATGATTAGCTTATAATATA
4077598 GCTAAACAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.34
Consensus pattern (41 bp):
AATGGCAGGTGAATACTTGGTAATGATTAGCTTATAATATA
Found at i:4084562 original size:54 final size:54
Alignment explanation
Indices: 4084504--4084693 Score: 204
Period size: 54 Copynumber: 3.5 Consensus size: 54
4084494 AGGATACCAA
* *
4084504 GTAAGACCATGCCAAGGCATGTCATTGGTAAGTTTTACAAGGTAAGGAAATCAT
1 GTAAGACCATGCCAAGACATGACATTGGTAAGTTTTACAAGGTAAGGAAATCAT
* * ** ** * ***
4084558 GTAAGACCATGTCAAGACATGACATTGATAA--ACTACGATAATTCAAAGATCCCAT
1 GTAAGACCATGCCAAGACATGACATTGGTAAGTTTTAC-A-AGGT-AAGGAAATCAT
* *
4084613 GTAAGACCATGCCAAGGCATGTCATTGGTAAGTTTTACAAGGTAAGGAAATCAT
1 GTAAGACCATGCCAAGACATGACATTGGTAAGTTTTACAAGGTAAGGAAATCAT
*
4084667 GTAAGACCATGTCAAGACATGACATTG
1 GTAAGACCATGCCAAGACATGACATTG
4084694 ATAAACTACG
Statistics
Matches: 104, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
52 3 0.03
53 1 0.01
54 60 0.58
55 36 0.35
56 1 0.01
57 3 0.03
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (54 bp):
GTAAGACCATGCCAAGACATGACATTGGTAAGTTTTACAAGGTAAGGAAATCAT
Found at i:4084622 original size:55 final size:55
Alignment explanation
Indices: 4084555--4084958 Score: 381
Period size: 55 Copynumber: 7.4 Consensus size: 55
4084545 GTAAGGAAAT
*
4084555 CATGTAAGACCATGTCAAGACATGACATTGATAAACTACGATAATTCAAAGATCC
1 CATGTAAGACCATGCCAAGACATGACATTGATAAACTACGATAATTCAAAGATCC
* * * ** ** * ***
4084610 CATGTAAGACCATGCCAAGGCATGTCATTGGTAAGTTTTAC-A-AGGT-AAGGAAAT
1 CATGTAAGACCATGCCAAGACATGACATTGATAA--ACTACGATAATTCAAAGATCC
*
4084664 CATGTAAGACCATGTCAAGACATGACATTGATAAACTACGATAATTCAAAGATCC
1 CATGTAAGACCATGCCAAGACATGACATTGATAAACTACGATAATTCAAAGATCC
* * * * * * * ** * *
4084719 CATGTAAGACCATGCCAAGGCATGGCAATGGT-GAGTTC-ATAAGGCAATGATAC
1 CATGTAAGACCATGCCAAGACATGACATTGATAAACTACGATAATTCAAAGATCC
* *
4084772 CACGTAAGACCATGTCAAGACATGACATTGATAAACTACGATAATTCAAAGATCC
1 CATGTAAGACCATGCCAAGACATGACATTGATAAACTACGATAATTCAAAGATCC
* * * * * * * ** * *
4084827 CATGTAAGACCATGCCAAGGCATGGCAATGGT-GAGTTC-ATAAGGCAATGATAC
1 CATGTAAGACCATGCCAAGACATGACATTGATAAACTACGATAATTCAAAGATCC
* *
4084880 CACGTAAGACCATGTCAAGACATGACATTGATAAACTACGATAATTCAAAGATCC
1 CATGTAAGACCATGCCAAGACATGACATTGATAAACTACGATAATTCAAAGATCC
*
4084935 CATGTAAGACCATGCCAAGGCATG
1 CATGTAAGACCATGCCAAGACATG
4084959 GCAATGGTGA
Statistics
Matches: 262, Mismatches: 78, Indels: 18
0.73 0.22 0.05
Matches are distributed among these distances:
52 3 0.01
53 75 0.29
54 48 0.18
55 132 0.50
56 1 0.00
57 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (55 bp):
CATGTAAGACCATGCCAAGACATGACATTGATAAACTACGATAATTCAAAGATCC
Found at i:4084856 original size:108 final size:108
Alignment explanation
Indices: 4084504--4085011 Score: 818
Period size: 108 Copynumber: 4.7 Consensus size: 108
4084494 AGGATACCAA
* * * * * * * * * *
4084504 GTAAGACCATGCCAAGGCATGTCATTGGTAAGTTTTACAAGGTAAGGAAATCATGTAAGACCATG
1 GTAAGACCATGCCAAGGCATGGCAATGGTGAG-TTCATAAGGCAATGATACCACGTAAGACCATG
4084569 TCAAGACATGACATTGATAAACTACGATAATTCAAAGATCCCAT
65 TCAAGACATGACATTGATAAACTACGATAATTCAAAGATCCCAT
* * * * * * * * * *
4084613 GTAAGACCATGCCAAGGCATGTCATTGGTAAGTTTTACAAGGTAAGGAAATCATGTAAGACCATG
1 GTAAGACCATGCCAAGGCATGGCAATGGTGAG-TTCATAAGGCAATGATACCACGTAAGACCATG
4084678 TCAAGACATGACATTGATAAACTACGATAATTCAAAGATCCCAT
65 TCAAGACATGACATTGATAAACTACGATAATTCAAAGATCCCAT
4084722 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAATGATACCACGTAAGACCATGT
1 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAATGATACCACGTAAGACCATGT
4084787 CAAGACATGACATTGATAAACTACGATAATTCAAAGATCCCAT
66 CAAGACATGACATTGATAAACTACGATAATTCAAAGATCCCAT
4084830 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAATGATACCACGTAAGACCATGT
1 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAATGATACCACGTAAGACCATGT
4084895 CAAGACATGACATTGATAAACTACGATAATTCAAAGATCCCAT
66 CAAGACATGACATTGATAAACTACGATAATTCAAAGATCCCAT
4084938 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAATGATACCACGTAAGACCATGT
1 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAATGATACCACGTAAGACCATGT
4085003 CAAGACATG
66 CAAGACATG
4085012 GCAATGGTAA
Statistics
Matches: 389, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
108 251 0.65
109 138 0.35
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (108 bp):
GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAATGATACCACGTAAGACCATGT
CAAGACATGACATTGATAAACTACGATAATTCAAAGATCCCAT
Found at i:4084893 original size:53 final size:53
Alignment explanation
Indices: 4084496--4085024 Score: 320
Period size: 55 Copynumber: 9.8 Consensus size: 53
4084486 AGGGTTTAAG
* * * * * * * *
4084496 GATACCAAGTAAGACCATGCCAAGGCATGTCATTGGTAAGTTTTACAAGGTAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAT
* * * * * * * * * ** *
4084550 GAAATCATGTAAGACCATGTCAAGACATGACATTGATAAACTACGATAATTCAAA
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAT
* * * * * * * * *
4084605 GATCCCATGTAAGACCATGCCAAGGCATGTCATTGGTAAGTTTTACAAGGTAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAT
* * * * * * * * * ** *
4084659 GAAATCATGTAAGACCATGTCAAGACATGACATTGATAAACTACGATAATTCAAA
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAT
* * * *
4084714 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAT
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAT
* * * * * * ** *
4084767 GATACCACGTAAGACCATGTCAAGACATGACATTGATAAACTACGATAATTCAAA
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAT
* * * *
4084822 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAT
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAT
* * * * * * ** *
4084875 GATACCACGTAAGACCATGTCAAGACATGACATTGATAAACTACGATAATTCAAA
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAT
* * * *
4084930 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAT
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAT
*
4084983 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
4085025 TAAAAAGGAA
Statistics
Matches: 350, Mismatches: 116, Indels: 19
0.72 0.24 0.04
Matches are distributed among these distances:
53 118 0.34
54 84 0.24
55 148 0.42
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (53 bp):
GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAT
Found at i:4087723 original size:50 final size:49
Alignment explanation
Indices: 4087611--4087786 Score: 158
Period size: 50 Copynumber: 3.5 Consensus size: 49
4087601 TAAGGTCGCA
*** * * *
4087611 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTAT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTA-CC--AGACTGTAGGTCACG
* * **
4087662 TGTGTCGTACTAAGTGCAGGCTGCTACATGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACT-GT-AGGTCACG
* * * * *
4087712 TGTGTAGTACTAAGTGCGGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCACG
4087761 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
4087787 TGCGTACCAG
Statistics
Matches: 101, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 30 0.30
50 39 0.39
51 28 0.28
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCACG
Found at i:4087771 original size:49 final size:49
Alignment explanation
Indices: 4087604--4087797 Score: 167
Period size: 49 Copynumber: 3.9 Consensus size: 49
4087594 TCTATTGTAA
* * * *
4087604 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACT-AT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AGACTGTT
* * * * ** ** *
4087655 GATCACGTGTGTCGTACTAAGTGCAGGCTGCTACATGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT-T
* * *
4087705 GGTCACGTGTGTAGTACTAAGTGCGGGCTACTACGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
* *
4087754 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
4087798 TAGCTTCGGC
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
47 1 0.01
48 2 0.02
49 39 0.35
50 39 0.35
51 32 0.28
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
Found at i:4094058 original size:16 final size:17
Alignment explanation
Indices: 4094039--4094072 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4094029 CCGAATGTAC
4094039 TTTTCATATACA-CATA
1 TTTTCATATACATCATA
*
4094055 TTTTCATTTACATCATA
1 TTTTCATATACATCATA
4094072 T
1 T
4094073 ATAATTTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTCATATACATCATA
Found at i:4094299 original size:43 final size:43
Alignment explanation
Indices: 4094252--4094549 Score: 365
Period size: 43 Copynumber: 7.1 Consensus size: 43
4094242 AATGCCAACG
4094252 TCCCAGACATGGTCTTACATGTAATCACATATCAATGCCACTA
1 TCCCAGACATGGTCTTACATGTAATCACATATCAATGCCACTA
* * * * * *
4094295 TCCCAGACAGGGTCTTACACG-AATCAAATA-CGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACATATCAATGCCACTA
*
4094336 TCCCAAACATGGTCTTACATGTAATCACATATCAATGCCACTA
1 TCCCAGACATGGTCTTACATGTAATCACATATCAATGCCACTA
* * * * * *
4094379 TCCCAGACAGGGTCTTACACG-AATCAAATA-CGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACATATCAATGCCACTA
*
4094420 TCCCAAACATGGTCTTACATGTAATCACATATCAATGCCACTA
1 TCCCAGACATGGTCTTACATGTAATCACATATCAATGCCACTA
* * * * * *
4094463 TCCCAGACAGGGTCTTACACG-AATCAAATA-CGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACATATCAATGCCACTA
*
4094504 TCCCAAACATGGTCTTACATGTAATCACATATCAATGCCACTA
1 TCCCAGACATGGTCTTACATGTAATCACATATCAATGCCACTA
4094547 TCC
1 TCC
4094550 TAGCTATTCC
Statistics
Matches: 208, Mismatches: 41, Indels: 12
0.80 0.16 0.05
Matches are distributed among these distances:
41 78 0.38
42 48 0.23
43 82 0.39
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATCACATATCAATGCCACTA
Found at i:4094384 original size:84 final size:84
Alignment explanation
Indices: 4094238--4094549 Score: 597
Period size: 84 Copynumber: 3.7 Consensus size: 84
4094228 CACACATATC
* * *
4094238 ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCAATGCCACTATCCCAGAC
1 ATACGATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCAATGCCACTATCCCAGAC
4094303 AGGGTCTTACACGAATCAA
66 AGGGTCTTACACGAATCAA
4094322 ATACGATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCAATGCCACTATCCCAGAC
1 ATACGATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCAATGCCACTATCCCAGAC
4094387 AGGGTCTTACACGAATCAA
66 AGGGTCTTACACGAATCAA
4094406 ATACGATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCAATGCCACTATCCCAGAC
1 ATACGATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCAATGCCACTATCCCAGAC
4094471 AGGGTCTTACACGAATCAA
66 AGGGTCTTACACGAATCAA
4094490 ATACGATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCAATGCCACTATCC
1 ATACGATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCAATGCCACTATCC
4094550 TAGCTATTCC
Statistics
Matches: 225, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 225 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (84 bp):
ATACGATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCAATGCCACTATCCCAGAC
AGGGTCTTACACGAATCAA
Found at i:4097525 original size:46 final size:46
Alignment explanation
Indices: 4097373--4097540 Score: 139
Period size: 46 Copynumber: 3.6 Consensus size: 46
4097363 TGTGTAAGCT
* * *
4097373 AGTGTAAGACATGTCTGGGACATACATCAGCCA-C-ATTATGAG-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCATCGA-GA-GAGTAGCC
* *
4097419 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAAGAGT-GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAG-AGAGTAGCC
* * * * *
4097467 AGTGTAAAACATGTATGGGACATGCTTCGGCCTCGAG-GCGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAGAGT-AGCC
*
4097513 AGTGTAAGACATGTCTAGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
4097541 AGCTACGAGA
Statistics
Matches: 98, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
44 3 0.03
46 46 0.47
47 30 0.31
48 17 0.17
49 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAGAGTAGCC
Found at i:4109550 original size:40 final size:40
Alignment explanation
Indices: 4109495--4109678 Score: 282
Period size: 40 Copynumber: 4.6 Consensus size: 40
4109485 CGGATGATAA
* *
4109495 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
4109535 CCGGGCTAAGTCCCGAA-GCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
4109574 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
4109614 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTTTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-TAAAT
4109654 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
4109679 AGCAAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 35 0.26
40 96 0.72
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:4109626 original size:79 final size:80
Alignment explanation
Indices: 4109492--4109678 Score: 315
Period size: 79 Copynumber: 2.4 Consensus size: 80
4109482 ATTCGGATGA
*
4109492 TAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAATCCGGGCTAAGTCCCG-AAGCAT
1 TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGTCCCGAAAGCAT
4109556 TTGTGCGAGTTA-TT
66 TTGTGCGAGTTACTT
* * *
4109570 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAAGCA
1 -TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGTCCCGAAAGCA
4109635 TTTGTGCGAGTTACTT
65 TTTGTGCGAGTTACTT
4109651 TAACCGGGCTAAGTCCCGAAGGCATTTG
1 TAACCGGGCTAAGTCCCGAAGGCATTTG
4109679 AGCAAGTAGC
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
79 54 0.53
80 45 0.45
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGTCCCGAAAGCAT
TTGTGCGAGTTACTT
Found at i:4109692 original size:80 final size:79
Alignment explanation
Indices: 4109491--4109701 Score: 304
Period size: 79 Copynumber: 2.7 Consensus size: 79
4109481 TATTCGGATG
* *
4109491 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTAAATCCGGGCTAAGTCCCGAAGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATATCCGGGCTAAGTCCCGAAGCA
4109555 TTTGTGCGAGTTATT
65 TTTGTGCGAGTTATT
* *
4109570 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAAGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCCGGGCTAAGTCCCG-AAGC
4109634 ATTTGTGCGAGTTACTT
64 ATTTGTGCGAGTTA-TT
* *
4109651 -TAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATTC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAA
4109702 ATTCTGAAGG
Statistics
Matches: 120, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
79 61 0.51
80 57 0.47
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGTCCCGAAGCAT
TTGTGCGAGTTATT
Found at i:4114961 original size:46 final size:46
Alignment explanation
Indices: 4114908--4115037 Score: 131
Period size: 46 Copynumber: 2.8 Consensus size: 46
4114898 TATATATACA
* * *
4114908 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
4114954 CATCTCATACACGTTTCGCATTAGCCATTCGGCCTTACCACATAT-
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* *
4114999 -AT-TCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
1 CATCTCA--TACACA-TC-TCACATTAGCCATTCGGCCTTA
4115038 TCNNNNNNNN
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
43 3 0.04
44 2 0.03
45 4 0.06
46 40 0.58
47 20 0.29
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:4118335 original size:28 final size:27
Alignment explanation
Indices: 4118294--4118393 Score: 83
Period size: 28 Copynumber: 3.6 Consensus size: 27
4118284 GAAACACACT
* * *
4118294 TCGCATACACAGTGCCCACTGACTGATT
1 TCGCACACATAGTGCCCACT-ACTGATC
* * ** *
4118322 TCGCACACATAGTGCTCGATTAAAGAAC
1 TCGCACACATAGTGC-CCACTACTGATC
4118350 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCC-C-ACTACTGATC
*
4118379 TGGCACACATAGTGC
1 TCGCACACATAGTGC
4118394 TCAGTTGAAG
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
27 1 0.02
28 31 0.56
29 23 0.42
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (27 bp):
TCGCACACATAGTGCCCACTACTGATC
Found at i:4118385 original size:57 final size:57
Alignment explanation
Indices: 4118294--4118423 Score: 158
Period size: 57 Copynumber: 2.3 Consensus size: 57
4118284 GAAACACACT
* * *
4118294 TCGCATACACAGTGCC-CACTGACTGATTTCGCACACATAGTGCTC-GATTAAAGAAC
1 TCGCACACATAGTGCCTCACTGACTGATCTCGCACACATAGTGCTCAG-TTAAAGAAC
* * *
4118350 TCGCACACATAGTGCCTCAACT-ACTGATCTGGCACACATAGTGCTCAGTTGAAGAGC
1 TCGCACACATAGTGCCTC-ACTGACTGATCTCGCACACATAGTGCTCAGTTAAAGAAC
*
4118407 TTGCACACATAGTGCCT
1 TCGCACACATAGTGCCT
4118424 TATAATTCCA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
56 14 0.22
57 46 0.72
58 4 0.06
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (57 bp):
TCGCACACATAGTGCCTCACTGACTGATCTCGCACACATAGTGCTCAGTTAAAGAAC
Found at i:4118413 original size:28 final size:27
Alignment explanation
Indices: 4118322--4118421 Score: 85
Period size: 28 Copynumber: 3.6 Consensus size: 27
4118312 CTGACTGATT
4118322 TCGCACACATAGTGCTC-GATTAAAGAAC
1 TCGCACACATAGTGCTCAG-TT-AAGAAC
** * *
4118350 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCAGTTA-AGAAC
* *
4118379 TGGCACACATAGTGCTCAGTTGAAGAGC
1 TCGCACACATAGTGCTCAGTT-AAGAAC
*
4118407 TTGCACACATAGTGC
1 TCGCACACATAGTGC
4118422 CTTATAATTC
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
28 37 0.64
29 21 0.36
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (27 bp):
TCGCACACATAGTGCTCAGTTAAGAAC
Found at i:4118488 original size:40 final size:40
Alignment explanation
Indices: 4118433--4118548 Score: 205
Period size: 40 Copynumber: 2.9 Consensus size: 40
4118423 TTATAATTCC
* *
4118433 AGCACGAATGCTCTTCAGGACTTAGCCCGTATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
4118473 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
*
4118513 AGCACGAATGCTCTTTGGGACTTAGCCCGGATATAT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
4118549 AACTCTCAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
Found at i:4125462 original size:25 final size:25
Alignment explanation
Indices: 4125404--4125473 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
4125394 GTTATAAATG
*
4125404 GTAAGCTCCA-CCGAGCTGAATAACC
1 GTAAGCT-CATCCGAGCTAAATAACC
4125429 GTAAGCTCATCCGAGCTAAATAA-C
1 GTAAGCTCATCCGAGCTAAATAACC
**
4125453 GATAAGCTCATAAGAGCTAAA
1 G-TAAGCTCATCCGAGCTAAA
4125474 ATCGGTAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.10
25 36 0.90
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (25 bp):
GTAAGCTCATCCGAGCTAAATAACC
Found at i:4133015 original size:31 final size:31
Alignment explanation
Indices: 4132980--4133053 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
4132970 CGGGTTAGGG
*
4132980 ACACGGGCGTGTGTGACCACACGGTCAACCT
1 ACACGGGCATGTGTGACCACACGGTCAACCT
4133011 ACACGGGCATGTGTGACCACACGGTCAACCT
1 ACACGGGCATGTGTGACCACACGGTCAACCT
*
4133042 ACACAGGCATGT
1 ACACGGGCATGT
4133054 CTCCAGCTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.26, C:0.31, G:0.27, T:0.16
Consensus pattern (31 bp):
ACACGGGCATGTGTGACCACACGGTCAACCT
Found at i:4140985 original size:17 final size:17
Alignment explanation
Indices: 4140939--4140986 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
4140929 ATAAGGGACA
*
4140939 AATTGATTG-A-GAATG
1 AATTGATTGAATGTATG
*
4140954 AA-TGA-TGACTGTATG
1 AATTGATTGAATGTATG
4140969 AATTGATTGAATGTATG
1 AATTGATTGAATGTATG
4140986 A
1 A
4140987 GAAAAGTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
13 2 0.08
14 3 0.12
15 8 0.31
16 3 0.12
17 10 0.38
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (17 bp):
AATTGATTGAATGTATG
Found at i:4152098 original size:53 final size:53
Alignment explanation
Indices: 4152018--4152124 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
4152008 ATTTATTTTT
4152018 CCTGCAGACTTTGTCATTCTAGACTTTGAAGCAGAAAAAAAAGTGCCAATCAC
1 CCTGCAGACTTTGTCATTCTAGACTTTGAAGCAGAAAAAAAAGTGCCAATCAC
*
4152071 CCTGCTGACTTTGTCATTCTAGACTTTGAAGCAGAAAAAAAAGTGCCAATCAC
1 CCTGCAGACTTTGTCATTCTAGACTTTGAAGCAGAAAAAAAAGTGCCAATCAC
4152124 C
1 C
4152125 TACGAAGGCC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (53 bp):
CCTGCAGACTTTGTCATTCTAGACTTTGAAGCAGAAAAAAAAGTGCCAATCAC
Found at i:4157002 original size:23 final size:23
Alignment explanation
Indices: 4156976--4157043 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 23
4156966 GATGGATTAT
4156976 ATTATTCTGGTGTGTTTGGGAGG
1 ATTATTCTGGTGTGTTTGGGAGG
*
4156999 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTGTTTGGGAGG
* *
4157027 ATCATACTGGTGTGTTT
1 ATTATTCTGGTGTGTTT
4157044 TGGTTGGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
23 12 0.32
24 1 0.03
25 3 0.08
26 2 0.05
27 2 0.05
28 17 0.46
ACGTcount: A:0.18, C:0.06, G:0.32, T:0.44
Consensus pattern (23 bp):
ATTATTCTGGTGTGTTTGGGAGG
Found at i:4157002 original size:28 final size:28
Alignment explanation
Indices: 4156949--4157028 Score: 124
Period size: 28 Copynumber: 2.8 Consensus size: 28
4156939 CACTTTGTGC
4156949 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
4156978 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
4157006 GATACTGGTGTGTTTTGGAGGAT
1 TATTCTGGTGTGTTTTGGAGGAT
4157029 CATACTGGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 29 0.62
29 18 0.38
ACGTcount: A:0.17, C:0.04, G:0.33, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:4161029 original size:48 final size:48
Alignment explanation
Indices: 4160958--4161193 Score: 264
Period size: 48 Copynumber: 4.9 Consensus size: 48
4160948 GACAATTGGG
* *
4160958 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATAAGCAT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
* *
4161006 TGATATGTGTA-CTAGTGTAAGACCATGTTTCGGACATGGCATC-GCCA-
1 TGATATGTG-AGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CAT
* * * * *
4161053 -CATTATGAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCGGCAT
1 TGA-TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
* * * * *
4161101 TGAGATGAGAGCTTGTGTAAGACCATGTTTGGGACATGGCATCAGCCT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
* * *
4161149 CGACATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG
4161194 TGATTTACCC
Statistics
Matches: 158, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
46 2 0.01
47 37 0.23
48 118 0.75
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
Found at i:4161136 original size:95 final size:96
Alignment explanation
Indices: 4160968--4161193 Score: 305
Period size: 95 Copynumber: 2.4 Consensus size: 96
4160958 TGATATGTGT
* * *
4160968 GCTAGTGTAAGACCATGTCTGGGACATGGCATAAGCATTGATATGTGTACTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGATGAGTACTAGTGTAAGACCATG
*
4161033 TTTCGGACATGGCATC-GCCAC-ATTATGAGA
66 TTTCGGACATGGCATCAGCCACGA-CATGAGA
* * * *
4161063 GCTAGTGTAAGACCATGTCTAGGAAATGGCATCGGCATTGAGATGAG-AGCTTGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGATGAGTA-CTAGTGTAAGACCAT
* * *
4161127 GTTTGGGACATGGCATCAGCCTCGACATGTGA
65 GTTTCGGACATGGCATCAGCCACGACATGAGA
*
4161159 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAG
4161194 TGATTTACCC
Statistics
Matches: 113, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
94 1 0.01
95 71 0.63
96 40 0.35
97 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGATGAGTACTAGTGTAAGACCATG
TTTCGGACATGGCATCAGCCACGACATGAGA
Found at i:4166137 original size:27 final size:26
Alignment explanation
Indices: 4166099--4166211 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 26
4166089 GAGGAAGTGT
4166099 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCAC-AATATCTGA
4166126 TCTGGTGGCTCTGCCACAAATATCT-A
1 TCTGGTGGCTCTGCCAC-AATATCTGA
*
4166152 TTTCTGGTGGCTTTGCCACAATATCTGTA
1 --TCTGGTGGCTCTGCCACAATATCTG-A
* * *
4166181 TCTGGTGACTCTGTCACAATATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGA
4166207 TCTGG
1 TCTGG
4166212 CAGTCGTGCT
Statistics
Matches: 77, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
26 6 0.08
27 54 0.70
28 16 0.21
29 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACAATATCTGA
Found at i:4166184 original size:55 final size:54
Alignment explanation
Indices: 4166098--4166204 Score: 162
Period size: 55 Copynumber: 2.0 Consensus size: 54
4166088 GGAGGAAGTG
*
4166098 TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCCAC-AATATCTAT
* *
4166153 TTCTGGTGGCTTTGCCAC-AATATCTGTATCTGGTGACTCTGTCACAATATCT
1 TTCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGACTCTGCCACAATATCT
4166205 GTTCTGGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
54 15 0.31
55 33 0.69
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (54 bp):
TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCCACAATATCTAT
Found at i:4169948 original size:27 final size:26
Alignment explanation
Indices: 4169918--4169979 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 26
4169908 ATTTACTAAA
4169918 ATACCCCTAAGT-CTAAAAATTACCATT
1 ATACCCCTAAGTGC--AAAATTACCATT
*
4169945 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAAGTGCAAAATTACCATT
4169971 ATACCCCTA
1 ATACCCCTA
4169980 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 21 0.64
27 11 0.33
28 1 0.03
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.27
Consensus pattern (26 bp):
ATACCCCTAAGTGCAAAATTACCATT
Found at i:4170124 original size:28 final size:27
Alignment explanation
Indices: 4170084--4170165 Score: 128
Period size: 27 Copynumber: 3.0 Consensus size: 27
4170074 GGAGGAAGCG
4170084 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
4170112 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
* * *
4170139 ATCTGGTGACTCTGTCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
4170166 CCTGGCAGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 33 0.65
28 18 0.35
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTGT
Found at i:4173524 original size:42 final size:42
Alignment explanation
Indices: 4173371--4173525 Score: 102
Period size: 42 Copynumber: 3.7 Consensus size: 42
4173361 TGAGTTGTTG
* * * * *
4173371 TGTAAGACCACGTATGGGATGTTGGCGTCAAT-TTGAGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTACA
* ** * ** * *
4173414 TGTAAGACCATGTCCAGGACATAAGCATTGA-ATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATA-TTGATTACA
* *
4173456 TGTAAGACC-CTGTCTGGAATAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATTGATTACA
4173498 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
4173526 TGTACTTGCT
Statistics
Matches: 80, Mismatches: 25, Indels: 15
0.67 0.21 0.12
Matches are distributed among these distances:
41 1 0.01
42 55 0.69
43 22 0.28
44 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTACA
Found at i:4183624 original size:19 final size:20
Alignment explanation
Indices: 4183602--4183639 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4183592 TCATATCATC
*
4183602 TCAAGATTTTCATG-CCATG
1 TCAAGAGTTTCATGTCCATG
4183621 TCAAGAGTTTCATGTCCAT
1 TCAAGAGTTTCATGTCCAT
4183640 TGAATCATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (20 bp):
TCAAGAGTTTCATGTCCATG
Found at i:4189989 original size:72 final size:72
Alignment explanation
Indices: 4189903--4190047 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
4189893 TCGGATTTAT
* *
4189903 TCGCGGTTTTCAATATTTTGTAAAGATTTTAAAATTTTTTTATTTGGATGTGAAATTAATATTTT
1 TCGCGGTTTTCAATATTTTGTAAAGATTTTAAAAATTTTGTATTTGGATGTGAAATTAATATTTT
4189968 GAGTAGA
66 GAGTAGA
4189975 TCGCGGTTTTCAATATTTTGTAAAGATTTTAAAAATTTTGTATTTGGATGTGAAATTAATATTTT
1 TCGCGGTTTTCAATATTTTGTAAAGATTTTAAAAATTTTGTATTTGGATGTGAAATTAATATTTT
4190040 GAGTAGA
66 GAGTAGA
4190047 T
1 T
4190048 AAATGGGCTT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (72 bp):
TCGCGGTTTTCAATATTTTGTAAAGATTTTAAAAATTTTGTATTTGGATGTGAAATTAATATTTT
GAGTAGA
Found at i:4193664 original size:27 final size:27
Alignment explanation
Indices: 4193633--4193809 Score: 194
Period size: 27 Copynumber: 6.5 Consensus size: 27
4193623 TAAATTGTAC
4193633 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
4193660 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4193686 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
4193714 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
4193742 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
** * *
4193769 AGCACTAAGTGTGCGAGATGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
4193796 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
4193810 AGACTCAATA
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:4193747 original size:82 final size:81
Alignment explanation
Indices: 4193634--4193784 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
4193624 AAATTGTACA
* *
4193634 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
4193698 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
4193715 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
4193780 TGCGA
65 TGCGA
4193785 GATGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:4193951 original size:129 final size:129
Alignment explanation
Indices: 4193787--4194043 Score: 496
Period size: 129 Copynumber: 2.0 Consensus size: 129
4193777 GTGTGCGAGA
4193787 TGATTATATAGCACTGAGTGTGCAGACTCAATATACATTCGTGAATCATTATGGACACTATGTGT
1 TGATTATATAGCACTGAGTGTGCAGACTCAATATACATTCGTGAATCATTATGGACACTATGTGT
*
4193852 GCGACACTATTGAGTCGATCGCGGACAGTGGATCGGGTAAGTGTCTTGAGTACATGGCTAATAT
66 GCGACACTATTGAGTCGATCGCGGACAGCGGATCGGGTAAGTGTCTTGAGTACATGGCTAATAT
*
4193916 TGATTATATAGCACTGAGTGTGCGGACTCAATATACATTCGTGAATCATTATGGACACTATGTGT
1 TGATTATATAGCACTGAGTGTGCAGACTCAATATACATTCGTGAATCATTATGGACACTATGTGT
4193981 GCGACACTATTGAGTCGATCGCGGACAGCGGATCGGGTAAGTGTCTTGAGTACATGGCTAATA
66 GCGACACTATTGAGTCGATCGCGGACAGCGGATCGGGTAAGTGTCTTGAGTACATGGCTAATA
4194044 GGTGCTATGC
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (129 bp):
TGATTATATAGCACTGAGTGTGCAGACTCAATATACATTCGTGAATCATTATGGACACTATGTGT
GCGACACTATTGAGTCGATCGCGGACAGCGGATCGGGTAAGTGTCTTGAGTACATGGCTAATAT
Found at i:4198465 original size:190 final size:190
Alignment explanation
Indices: 4198142--4198522 Score: 753
Period size: 190 Copynumber: 2.0 Consensus size: 190
4198132 TCAGAAAAGT
*
4198142 TTCGATCAACTGAAAACTTATTTGACTGAAGCTCCAATTTTGGTGCAACCCGAATCGGGTAAAGA
1 TTCGATCAACTGAAAACTCATTTGACTGAAGCTCCAATTTTGGTGCAACCCGAATCGGGTAAAGA
4198207 GTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTATTGATGCAAGAAGGTCGAG
66 GTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTATTGATGCAAGAAGGTCGAG
4198272 TTGTGGCCTATGCGTCGAGACAATTGAAGCCACACGAGAGAAATTATCCGACCCATGATC
131 TTGTGGCCTATGCGTCGAGACAATTGAAGCCACACGAGAGAAATTATCCGACCCATGATC
4198332 TTCGATCAACTGAAAACTCATTTGACTGAAGCTCCAATTTTGGTGCAACCCGAATCGGGTAAAGA
1 TTCGATCAACTGAAAACTCATTTGACTGAAGCTCCAATTTTGGTGCAACCCGAATCGGGTAAAGA
4198397 GTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTATTGATGCAAGAAGGTCGAG
66 GTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTATTGATGCAAGAAGGTCGAG
4198462 TTGTGGCCTATGCGTCGAGACAATTGAAGCCACACGAGAGAAATTATCCGACCCATGATC
131 TTGTGGCCTATGCGTCGAGACAATTGAAGCCACACGAGAGAAATTATCCGACCCATGATC
4198522 T
1 T
4198523 CGAACTAGCC
Statistics
Matches: 190, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
190 190 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (190 bp):
TTCGATCAACTGAAAACTCATTTGACTGAAGCTCCAATTTTGGTGCAACCCGAATCGGGTAAAGA
GTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTATTGATGCAAGAAGGTCGAG
TTGTGGCCTATGCGTCGAGACAATTGAAGCCACACGAGAGAAATTATCCGACCCATGATC
Found at i:4203260 original size:37 final size:37
Alignment explanation
Indices: 4203210--4203282 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
4203200 CGAGCGATGG
4203210 ATGTGCACTTGTCTGTTCTACCCGACAATGTGTTAAA
1 ATGTGCACTTGTCTGTTCTACCCGACAATGTGTTAAA
*
4203247 ATGTGCACTTGTCTGTTCTACTCGACAATGTGTTAA
1 ATGTGCACTTGTCTGTTCTACCCGACAATGTGTTAA
4203283 TAGCTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (37 bp):
ATGTGCACTTGTCTGTTCTACCCGACAATGTGTTAAA
Found at i:4206043 original size:12 final size:12
Alignment explanation
Indices: 4206026--4206051 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4206016 CATTCCGAAG
4206026 TATATATATACA
1 TATATATATACA
4206038 TATATATATACA
1 TATATATATACA
4206050 TA
1 TA
4206052 AGTATGCCAT
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:4206564 original size:27 final size:27
Alignment explanation
Indices: 4206533--4206710 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4206523 TAAATTGTAC
4206533 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
4206560 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4206586 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
4206614 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
4206642 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4206669 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
4206696 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
4206711 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:4206647 original size:82 final size:81
Alignment explanation
Indices: 4206534--4206689 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4206524 AAATTGTACA
* *
4206534 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
4206598 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
4206615 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
4206680 TGCGAGTTGA
65 TGCGAATTGA
4206690 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:4206701 original size:82 final size:81
Alignment explanation
Indices: 4206530--4206710 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
4206520 GATTAAATTG
* *
4206530 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
4206595 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
4206611 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
4206675 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
4206693 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
4206711 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:4218894 original size:63 final size:63
Alignment explanation
Indices: 4218816--4218941 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
4218806 TAGAAGAAAT
4218816 TGCAAGAAGCTTTGGGTACCAAGTTGCATTTTAGTACCACTTTTCACCCCCAAACCGATGGTC
1 TGCAAGAAGCTTTGGGTACCAAGTTGCATTTTAGTACCACTTTTCACCCCCAAACCGATGGTC
4218879 TGCAAGAAGCTTTGGGTACCAAGTTGCATTTTAGTACCACTTTTCACCCCCAAACCGATGGTC
1 TGCAAGAAGCTTTGGGTACCAAGTTGCATTTTAGTACCACTTTTCACCCCCAAACCGATGGTC
4218942 AATCCGAGCG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (63 bp):
TGCAAGAAGCTTTGGGTACCAAGTTGCATTTTAGTACCACTTTTCACCCCCAAACCGATGGTC
Found at i:4220591 original size:178 final size:176
Alignment explanation
Indices: 4220232--4220766 Score: 822
Period size: 176 Copynumber: 3.0 Consensus size: 176
4220222 CATGTGACTC
* * ** *
4220232 GTCCAGCGGCAAAAACGCAAATATTTCGTTATCAAATCGAGTTAAATTTTAAAACATCGTTCGCG
1 GTCCAGCGGCAAAAAGGCAAATATTTCGTTATCAAATCGAGGTAAATTTTGCAACATCGGTCGCG
* * * *
4220297 CAAGTTGAAAAACCAATG-GATGCCTACACATCTAGAGCCTTTGAGCTTTCATTTAAAACAAATC
66 CAAATTGAAAAACCAATGAG-TGCCTGCACATCTAGGGCCTATGAGCTTTCATTTAAAACAAATC
* *
4220361 AGAGGAAAATCGGTCCAATAGTTTCCGAGATCGAATTAGGACAAACT
130 CGAGGAAAATCGGTCCAGTAGTTTCCGAGATCGAATTAGGACAAACT
* * *
4220408 GTCCAGCGGTAAAAAGGCAAATATTTCGCTATCAAATCGAGGTAAATTTTGCAACGTCGGTCGCG
1 GTCCAGCGGCAAAAAGGCAAATATTTCGTTATCAAATCGAGGTAAATTTTGCAACATCGGTCGCG
* *
4220473 CAAATTTAAAAACCAATGAGTGCCTGCACATCTAGGTGGCCTATCAGCTTTCATTTAAAACAAAT
66 CAAATTGAAAAACCAATGAGTGCCTGCACATCTA-G-GGCCTATGAGCTTTCATTTAAAACAAAT
*
4220538 CCGAGGAAAATCGGTTCAGTAGTTTCCGAGATCGAATTAGGACAAACT
129 CCGAGGAAAATCGGTCCAGTAGTTTCCGAGATCGAATTAGGACAAACT
*
4220586 GTCCAGCGGCAAAAAGGCAAAT-TTGTCGTTATCAAATCGAGGTAAATTTTGCAAAATCGGTCGC
1 GTCCAGCGGCAAAAAGGCAAATATT-TCGTTATCAAATCGAGGTAAATTTTGCAACATCGGTCGC
* * *
4220650 GCAAATTGAAAAACCAATGATTGCCTGCACATCTAGGGCCTAAGAGCTTTCATTTAAAACAAATT
65 GCAAATTGAAAAACCAATGAGTGCCTGCACATCTAGGGCCTATGAGCTTTCATTTAAAACAAATC
*
4220715 CGAGGAAAATCGGTCCAGTAGTTTCCGAGATTGAATTAGGACAAACT
130 CGAGGAAAATCGGTCCAGTAGTTTCCGAGATCGAATTAGGACAAACT
4220762 GTCCA
1 GTCCA
4220767 AAGTGAAGGA
Statistics
Matches: 327, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
176 162 0.50
177 5 0.02
178 160 0.49
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (176 bp):
GTCCAGCGGCAAAAAGGCAAATATTTCGTTATCAAATCGAGGTAAATTTTGCAACATCGGTCGCG
CAAATTGAAAAACCAATGAGTGCCTGCACATCTAGGGCCTATGAGCTTTCATTTAAAACAAATCC
GAGGAAAATCGGTCCAGTAGTTTCCGAGATCGAATTAGGACAAACT
Found at i:4220779 original size:24 final size:24
Alignment explanation
Indices: 4220752--4220807 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
4220742 AGATTGAATT
4220752 AGGACAAACTGTCCAAAGTGAAGG
1 AGGACAAACTGTCCAAAGTGAAGG
4220776 AGGACAAACTGTCCAAAGTGAAGG
1 AGGACAAACTGTCCAAAGTGAAGG
4220800 AGGACAAA
1 AGGACAAA
4220808 AAAAGCCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.29, T:0.11
Consensus pattern (24 bp):
AGGACAAACTGTCCAAAGTGAAGG
Found at i:4223571 original size:82 final size:82
Alignment explanation
Indices: 4223485--4223938 Score: 867
Period size: 82 Copynumber: 5.5 Consensus size: 82
4223475 GTAAAATGGC
4223485 AAAGGCGTGGTTTTTTTTTAGAGAGAAAACATCACATTCGATGCACTCACTTACCAATTTTAACA
1 AAAGGCGTGGTTTTTTTTTAGAGAGAAAACATCACATTCGATGCACTCACTTACCAATTTTAACA
4223550 AAGAAATTCAACGTACT
66 AAGAAATTCAACGTACT
4223567 AAAGGCGTGGTTTTTTTTTAGAGAGAAAACATCACATTCGATGCACTCACTTACCAATTTTAACA
1 AAAGGCGTGGTTTTTTTTTAGAGAGAAAACATCACATTCGATGCACTCACTTACCAATTTTAACA
4223632 AAGAAATTCAACGTACT
66 AAGAAATTCAACGTACT
4223649 AAAGGCGTGGTTTTTTTTTAGAGAGAAAACATCACATTCGATGCACTCACTTACCAATTTTAACA
1 AAAGGCGTGGTTTTTTTTTAGAGAGAAAACATCACATTCGATGCACTCACTTACCAATTTTAACA
4223714 AAGAAATTCAACGTACT
66 AAGAAATTCAACGTACT
4223731 AAAGGCGTGGTTTTTTTTTAGAGAGAAAACATCACATTCGATGCACTCACTTACCAATTTTAACA
1 AAAGGCGTGGTTTTTTTTTAGAGAGAAAACATCACATTCGATGCACTCACTTACCAATTTTAACA
4223796 AAGAAATTCAACGTACT
66 AAGAAATTCAACGTACT
4223813 AAAGGCGTGGTTTTTTTTTAGAGAGAAAACATCACATTCGATGCACTCACTTACCAATTTTAACA
1 AAAGGCGTGGTTTTTTTTTAGAGAGAAAACATCACATTCGATGCACTCACTTACCAATTTTAACA
4223878 AAGAAATTCAACGTACT
66 AAGAAATTCAACGTACT
* *
4223895 AAAGGCGTGG--TTTTTTTAGAGAGAAAATATCGCATTCGAGTGCA
1 AAAGGCGTGGTTTTTTTTTAGAGAGAAAACATCACATTCGA-TGCA
4223939 GTTTCGATAT
Statistics
Matches: 369, Mismatches: 2, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
80 27 0.07
81 4 0.01
82 338 0.92
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (82 bp):
AAAGGCGTGGTTTTTTTTTAGAGAGAAAACATCACATTCGATGCACTCACTTACCAATTTTAACA
AAGAAATTCAACGTACT
Found at i:4224727 original size:123 final size:119
Alignment explanation
Indices: 4224512--4224740 Score: 361
Period size: 123 Copynumber: 1.9 Consensus size: 119
4224502 AATTAAATGT
* *
4224512 AATCAAGTTGAAACATGTTTCAACTTAAAGTATTGCTGGTTACCTATCTTTAGATTTTGAACAAC
1 AATCAAGTTGAAACATGTTTCAAATTAAAGTATTGCTGGTTACCAATCTTTAGATTTTGAACAAC
4224577 TTCGGTTCAATAATCTTGCAATCTCAGCAGGTTGCAACTTTATCTCCCGATCGC
66 TTCGGTTCAATAATCTTGCAATCTCAGCAGGTTGCAACTTTATCTCCCGATCGC
*
4224631 AATCAAGTTGAAACATGTTTCAAATTAAAATGTATTGCTGGTTATACCAATCTTTAGATTTTGTA
1 AATCAAGTTGAAACATGTTTCAAATT-AAA-GTATTGCTGG-T-TACCAATCTTTAGATTTTGAA
* *
4224696 CCACTTCGGTTCAGTAAT-TTCGCAATCTCAGCAGGTTGCAACTTT
62 CAACTTCGGTTCAATAATCTT-GCAATCTCAGCAGGTTGCAACTTT
4224741 GCCTTTCGAA
Statistics
Matches: 100, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
119 25 0.25
120 3 0.03
121 10 0.10
122 3 0.03
123 59 0.59
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (119 bp):
AATCAAGTTGAAACATGTTTCAAATTAAAGTATTGCTGGTTACCAATCTTTAGATTTTGAACAAC
TTCGGTTCAATAATCTTGCAATCTCAGCAGGTTGCAACTTTATCTCCCGATCGC
Found at i:4226020 original size:324 final size:324
Alignment explanation
Indices: 4225431--4226238 Score: 1535
Period size: 324 Copynumber: 2.5 Consensus size: 324
4225421 AAATAGGCAN
* * * *
4225431 TAAAATAATTGATTCATAAAAATCGTCGACACCAAGTATATCTTTCTTTTTTTCTGAATAATCAG
1 TAAAATAATTGATTCATAAAAATCGTCGACACAAAGTATATCTTTCATTTTCTCTGAATATTCAG
*
4225496 CGGCTTTGCCAACAAATTTGTTCAGGATGAGAGTAGCATACTATGAAAGGCAATAATAAGGCGAA
66 CGGCTTTGCCAACAAATTTATTCAGGATGAGAGTAGCATACTATGAAAGGCAATAATAAGGCGAA
4225561 TTTCTTATACTTAAAACAGGTAATATACACCATCTAACCTTCTTTACGGAGTTGGTTGACACCAT
131 TTTCTTATACTTAAAACAGGTAATATACACCATCTAACCTTCTTTACGGAGTTGGTTGACACCAT
4225626 ACACTCTAAAAAGAGTCGCTAACTTTACCGTAAAGTTTTCATCAATGCTCGTTCTGATACAGCTT
196 ACACTCTAAAAAGAGTCGCTAACTTTACCGTAAAGTTTTCATCAATGCTCGTTCTGATACAGCTT
4225691 TTTTCCGAACCAATACCTCACAATACAAATATTCTTGCCGATTTGGGACGGCAGTAAACAATCC
261 TTTTCCGAACCAATACCTCACAATACAAATATTCTTGCCGATTTGGGACGGCAGTAAACAATCC
4225755 TAAAATAATTGATTCATAAAAATCGTCGACACAAAGTATATCTTTCATTTTCTCTGAATATTCAG
1 TAAAATAATTGATTCATAAAAATCGTCGACACAAAGTATATCTTTCATTTTCTCTGAATATTCAG
*
4225820 CGGCTTTACCAACAAATTTATTCAGGATGAGAGTAGCATACTATGAAAGGCAATAATAAGGCGAA
66 CGGCTTTGCCAACAAATTTATTCAGGATGAGAGTAGCATACTATGAAAGGCAATAATAAGGCGAA
4225885 TTTCTTATACTTAAAACAGGTAATATACACCATCTAACCTTCTTTACGGAGTTGGTTGACACCAT
131 TTTCTTATACTTAAAACAGGTAATATACACCATCTAACCTTCTTTACGGAGTTGGTTGACACCAT
4225950 ACACTCTAAAAAGAGTCGCTAACTTTACCGTAAAGTTTTCATCAATGCTCGTTCTGATACAGCTT
196 ACACTCTAAAAAGAGTCGCTAACTTTACCGTAAAGTTTTCATCAATGCTCGTTCTGATACAGCTT
4226015 TTTTCCGAACCAATACCTCACAATACAAATATTCTTGCCGATTTGGGACGGCAGTAAACAATCC
261 TTTTCCGAACCAATACCTCACAATACAAATATTCTTGCCGATTTGGGACGGCAGTAAACAATCC
4226079 TAAAATAATTGATTCATAAAAATCGTCGACACAAAGTATATCTTTCATTTTCTCTGAATATTCAG
1 TAAAATAATTGATTCATAAAAATCGTCGACACAAAGTATATCTTTCATTTTCTCTGAATATTCAG
* *
4226144 CGGCTTTGCCAACAAATTTATTCAGGATGAGAGTAGCAGACTATGAAATGCAATAATAAGGCGAA
66 CGGCTTTGCCAACAAATTTATTCAGGATGAGAGTAGCATACTATGAAAGGCAATAATAAGGCGAA
*
4226209 TTTCTTATGCTTAAAACAGGTAATATACAC
131 TTTCTTATACTTAAAACAGGTAATATACAC
4226239 TGTTGAAGCA
Statistics
Matches: 474, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
324 474 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (324 bp):
TAAAATAATTGATTCATAAAAATCGTCGACACAAAGTATATCTTTCATTTTCTCTGAATATTCAG
CGGCTTTGCCAACAAATTTATTCAGGATGAGAGTAGCATACTATGAAAGGCAATAATAAGGCGAA
TTTCTTATACTTAAAACAGGTAATATACACCATCTAACCTTCTTTACGGAGTTGGTTGACACCAT
ACACTCTAAAAAGAGTCGCTAACTTTACCGTAAAGTTTTCATCAATGCTCGTTCTGATACAGCTT
TTTTCCGAACCAATACCTCACAATACAAATATTCTTGCCGATTTGGGACGGCAGTAAACAATCC
Found at i:4226593 original size:34 final size:31
Alignment explanation
Indices: 4226550--4226642 Score: 114
Period size: 34 Copynumber: 2.8 Consensus size: 31
4226540 GACTCAGTTG
4226550 TTGGTTATGGCTTTTGCTAATACCACCTTGGATT
1 TTGGTTATGGCTTTTGCTAATACCA---TGGATT
4226584 TTGGTTATGGCTTTTGCTAATACCATGGATT
1 TTGGTTATGGCTTTTGCTAATACCATGGATT
*
4226615 TTGAACGGTTATGGCTTTTGCTGATACC
1 TT----GGTTATGGCTTTTGCTAATACC
4226643 GGATGGATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
31 8 0.15
34 25 0.46
35 21 0.39
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.43
Consensus pattern (31 bp):
TTGGTTATGGCTTTTGCTAATACCATGGATT
Done.