Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8249038
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 38
Found at i:6670545 original size:99 final size:99
Alignment explanation
Indices: 6670374--6670571 Score: 396
Period size: 99 Copynumber: 2.0 Consensus size: 99
6670364 AGGAATAAAA
6670374 AGGGAATTAGCCCATTGTTTTGAGAATAATGTTGAATTTCATTAAGATAGGTGAGGTCACACATT
1 AGGGAATTAGCCCATTGTTTTGAGAATAATGTTGAATTTCATTAAGATAGGTGAGGTCACACATT
6670439 GGAAGAGAAACATTCTTCTTTGTCGTTTTCTTCT
66 GGAAGAGAAACATTCTTCTTTGTCGTTTTCTTCT
6670473 AGGGAATTAGCCCATTGTTTTGAGAATAATGTTGAATTTCATTAAGATAGGTGAGGTCACACATT
1 AGGGAATTAGCCCATTGTTTTGAGAATAATGTTGAATTTCATTAAGATAGGTGAGGTCACACATT
6670538 GGAAGAGAAACATTCTTCTTTGTCGTTTTCTTCT
66 GGAAGAGAAACATTCTTCTTTGTCGTTTTCTTCT
6670572 TCATTTTTCT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.37
Consensus pattern (99 bp):
AGGGAATTAGCCCATTGTTTTGAGAATAATGTTGAATTTCATTAAGATAGGTGAGGTCACACATT
GGAAGAGAAACATTCTTCTTTGTCGTTTTCTTCT
Found at i:6674138 original size:28 final size:26
Alignment explanation
Indices: 6674107--6674175 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 26
6674097 AAAATTAAGG
6674107 ATTTTAAGATTTCAGATTTTCTTTTGTA
1 ATTTTAAGATTT-AGATTTT-TTTTGTA
*
6674135 ATTTTAAAGACATTTAGATTTTTTTTGTG
1 ATTTT-AAG--ATTTAGATTTTTTTTGTA
*
6674164 ATTCTAAGATTT
1 ATTTTAAGATTT
6674176 TTTTTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
26 4 0.11
28 8 0.22
29 13 0.36
30 7 0.19
31 4 0.11
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.55
Consensus pattern (26 bp):
ATTTTAAGATTTAGATTTTTTTTGTA
Found at i:6676861 original size:18 final size:17
Alignment explanation
Indices: 6676827--6676869 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
6676817 ATTCTTAATT
6676827 AATAATTTTAAAATTAA
1 AATAATTTTAAAATTAA
* *
6676844 AATAATATTTACACTTAA
1 AATAAT-TTTAAAATTAA
*
6676862 AATTATTT
1 AATAATTT
6676870 AAATAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAATTTTAAAATTAA
Found at i:6676973 original size:20 final size:20
Alignment explanation
Indices: 6676932--6676973 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
6676922 TAAATTTATA
**
6676932 TTTAAATTTTATTTTTGTTT
1 TTTAAATTTTATTTAAGTTT
6676952 TTTAAATTTTAATTTAAGTTT
1 TTTAAATTTT-ATTTAAGTTT
6676973 T
1 T
6676974 AAAAAATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTAAATTTTATTTAAGTTT
Found at i:6677446 original size:15 final size:12
Alignment explanation
Indices: 6677415--6677442 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
6677405 ATATGTTGAA
6677415 TAAATAATAATT
1 TAAATAATAATT
6677427 TAAATAATAATT
1 TAAATAATAATT
6677439 TAAA
1 TAAA
6677443 AAATTAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TAAATAATAATT
Found at i:6679143 original size:30 final size:29
Alignment explanation
Indices: 6679109--6679166 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
6679099 AAAATTCAAT
*
6679109 ATAAAAAAACCAGTAAATAAATTAAAAAAC
1 ATAAAAAAA-CAGTAAATAAAATAAAAAAC
**
6679139 ATAAAAGTACAGTAAATAAAATAAAAAA
1 ATAAAAAAACAGTAAATAAAATAAAAAA
6679167 TAAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (29 bp):
ATAAAAAAACAGTAAATAAAATAAAAAAC
Found at i:6679169 original size:12 final size:12
Alignment explanation
Indices: 6679152--6679176 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6679142 AAAGTACAGT
6679152 AAATAAAATAAA
1 AAATAAAATAAA
6679164 AAATAAAATAAA
1 AAATAAAATAAA
6679176 A
1 A
6679177 TTTAATTACA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:6679694 original size:209 final size:210
Alignment explanation
Indices: 6679334--6679754 Score: 835
Period size: 209 Copynumber: 2.0 Consensus size: 210
6679324 TCTCATTTCT
6679334 CCCTGTTTTCTATAATCATAATAAATAAATTACTAGTATCTATTTGGCGGGTGAGTTTGTGTTAA
1 CCCTGTTTTCTATAATCATAATAAATAAATTACTAGTATCTATTTGGCGGGTGAGTTTGTGTTAA
6679399 AGGATGGGGATGGTTCACAGAACGGTGTAGTTGAGATTCAAATGCCATCGGTTTTCGATTCAAAT
66 AGGATGGGGATGGTTCACAGAACGGTGTAGTTGAGATTCAAATGCCATCGGTTTTCGATTCAAAT
6679464 GCAAGGATATGCTGGTGGTAAATTTCGTTATTTCTCTTTCTTTAACATCATTTCAGTTTCTCTTT
131 GCAAGGATATGCTGGTGGTAAATTTCGTTATTTCTCTTTCTTTAACATCATTTCAGTTTCTCTTT
6679529 TTCATTTCC-TACCC
196 TTCATTTCCTTACCC
6679543 CCCTGTTTTCTATAATCATAATAAATAAATTACTAGTATCTATTTGGCGGGTGAGTTTGTGTTAA
1 CCCTGTTTTCTATAATCATAATAAATAAATTACTAGTATCTATTTGGCGGGTGAGTTTGTGTTAA
6679608 AGGATGGGGATGGTTCACAGAACGGTGTAGTTGAGATTCAAATGCCATCGGTTTTCGATTCAAAT
66 AGGATGGGGATGGTTCACAGAACGGTGTAGTTGAGATTCAAATGCCATCGGTTTTCGATTCAAAT
6679673 GCAAGGATATGCTGGTGGTAAATTTCGTTATTTCTCTTTCTTTAACATCATTTCAGTTTCTCTTT
131 GCAAGGATATGCTGGTGGTAAATTTCGTTATTTCTCTTTCTTTAACATCATTTCAGTTTCTCTTT
6679738 TTCATTTCCTTACCC
196 TTCATTTCCTTACCC
6679753 CC
1 CC
6679755 TAGTTCTAAC
Statistics
Matches: 211, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
209 204 0.97
210 7 0.03
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (210 bp):
CCCTGTTTTCTATAATCATAATAAATAAATTACTAGTATCTATTTGGCGGGTGAGTTTGTGTTAA
AGGATGGGGATGGTTCACAGAACGGTGTAGTTGAGATTCAAATGCCATCGGTTTTCGATTCAAAT
GCAAGGATATGCTGGTGGTAAATTTCGTTATTTCTCTTTCTTTAACATCATTTCAGTTTCTCTTT
TTCATTTCCTTACCC
Found at i:6685275 original size:18 final size:18
Alignment explanation
Indices: 6685252--6685289 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
6685242 AATAGAGCTC
6685252 TTGAACAGTGATGGAATT
1 TTGAACAGTGATGGAATT
6685270 TTGAACAGTGATGGAATT
1 TTGAACAGTGATGGAATT
6685288 TT
1 TT
6685290 TAAACAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (18 bp):
TTGAACAGTGATGGAATT
Found at i:6685295 original size:19 final size:18
Alignment explanation
Indices: 6685255--6685297 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
6685245 AGAGCTCTTG
*
6685255 AACAGTGATGGAATTTTG
1 AACAGTGATGGAATTTTA
6685273 AACAGTGATGGAATTTTTA
1 AACAGTGATGGAA-TTTTA
6685292 AACAGT
1 AACAGT
6685298 AAAATTCCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (18 bp):
AACAGTGATGGAATTTTA
Found at i:6695939 original size:14 final size:14
Alignment explanation
Indices: 6695920--6695948 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6695910 ATAGATGTTT
6695920 CTGTAGAAAACAGA
1 CTGTAGAAAACAGA
6695934 CTGTAGAAAACAGA
1 CTGTAGAAAACAGA
6695948 C
1 C
6695949 AAGTCTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.14
Consensus pattern (14 bp):
CTGTAGAAAACAGA
Found at i:6698244 original size:51 final size:51
Alignment explanation
Indices: 6698168--6698268 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
6698158 TAAGGAAAGG
6698168 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGTTGAAATTCCTTGTAACTA
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGTTGAAATTCCTTGTAACTA
*
6698219 ATAGGCTGTAAAGAAATATCGGTTTGAATAGGTTGAAATTCCTTGTAACT
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGTTGAAATTCCTTGTAACT
6698269 CTCCTCTTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (51 bp):
ATAGGCTGTAAAGAAATATCGGTTTGAACAGGTTGAAATTCCTTGTAACTA
Found at i:6700051 original size:14 final size:15
Alignment explanation
Indices: 6700016--6700059 Score: 72
Period size: 14 Copynumber: 2.9 Consensus size: 15
6700006 CCTGATACCA
6700016 TGTAGAAAACAGACTG
1 TGTAGAAAACAGAC-G
6700032 TGTAGAAAACAGAC-
1 TGTAGAAAACAGACG
6700046 TGTAGAAAACAGAC
1 TGTAGAAAACAGAC
6700060 AAGTCTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 14 0.50
16 14 0.50
ACGTcount: A:0.48, C:0.14, G:0.23, T:0.16
Consensus pattern (15 bp):
TGTAGAAAACAGACG
Found at i:6703058 original size:47 final size:47
Alignment explanation
Indices: 6703004--6703191 Score: 272
Period size: 47 Copynumber: 4.0 Consensus size: 47
6702994 AAAACACTCA
* *
6703004 AGTAAATGAAGTAACCTAAGTGAAATAAACACTGGCATTGCGCCTTT
1 AGTAAATGAAGTAACCTAAGTGAAATAAACACTGGCCTTGTGCCTTT
* *
6703051 AGTAAATGATGTAAACCTAAGTGAAA-AAACACTGGCCTTGTGCCTTC
1 AGTAAATGAAGT-AACCTAAGTGAAATAAACACTGGCCTTGTGCCTTT
* * *
6703098 CGTAAATGAAGTAACCTAAGAGAAATAAACAATGGCCTTGTGCCTTT
1 AGTAAATGAAGTAACCTAAGTGAAATAAACACTGGCCTTGTGCCTTT
* *
6703145 AGTAAACGAAGTAACCTAGGTGAAATAAA-ACTGGCCTTGTGCCTTT
1 AGTAAATGAAGTAACCTAAGTGAAATAAACACTGGCCTTGTGCCTTT
6703191 A
1 A
6703192 TAATCTCATG
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
46 29 0.23
47 83 0.66
48 13 0.10
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.26
Consensus pattern (47 bp):
AGTAAATGAAGTAACCTAAGTGAAATAAACACTGGCCTTGTGCCTTT
Found at i:6707376 original size:2 final size:2
Alignment explanation
Indices: 6707369--6707398 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6707359 TGAAATTTTA
6707369 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6707399 TAAAACTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6707935 original size:19 final size:19
Alignment explanation
Indices: 6707911--6707950 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
6707901 ATTATGATAT
6707911 TATTTGATTCTAATTTAAA
1 TATTTGATTCTAATTTAAA
6707930 TATTTGATTCTAATTTAAA
1 TATTTGATTCTAATTTAAA
6707949 TA
1 TA
6707951 GTTTTTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
TATTTGATTCTAATTTAAA
Found at i:6708048 original size:6 final size:6
Alignment explanation
Indices: 6707962--6708044 Score: 121
Period size: 6 Copynumber: 13.8 Consensus size: 6
6707952 TTTTTATAAC
* *
6707962 CACACA CACACA CACACG CACACG CACACG CACACG CACACG CACACG
1 CACACG CACACG CACACG CACACG CACACG CACACG CACACG CACACG
* * *
6708010 CACACG CACACG CACACA CACACA CACACA CACAC
1 CACACG CACACG CACACG CACACG CACACG CACAC
6708045 ACACTGTAAC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.40, C:0.51, G:0.10, T:0.00
Consensus pattern (6 bp):
CACACG
Found at i:6712512 original size:4 final size:4
Alignment explanation
Indices: 6712494--6712993 Score: 937
Period size: 4 Copynumber: 124.8 Consensus size: 4
6712484 AGGGGGTTAC
* * *
6712494 ACAT ACGT ACGT ACAT ACAT ACAT ATAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
6712542 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
6712590 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
6712638 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
6712686 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
6712734 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
6712782 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ATAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
6712830 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
6712878 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
6712926 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
6712974 ACAT ATAT ATAT ATCAT ACA
1 ACAT ACAT ACAT A-CAT ACA
6712994 AAGTCGAGGG
Statistics
Matches: 487, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
4 484 0.99
5 3 0.01
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:6715637 original size:2 final size:2
Alignment explanation
Indices: 6715630--6715664 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6715620 TCCCCTTGAA
6715630 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6715665 AAAGGACGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6716083 original size:18 final size:19
Alignment explanation
Indices: 6716060--6716106 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
6716050 TAGAGAAGAA
*
6716060 GAAGAAAAAGGGACGA-TT
1 GAAGAAAAAGAGACGATTT
*
6716078 GAAGAAAAATAGACGATTT
1 GAAGAAAAAGAGACGATTT
6716097 G-AGAAAAAGA
1 GAAGAAAAAGA
6716107 CCAAGAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.55, C:0.04, G:0.28, T:0.13
Consensus pattern (19 bp):
GAAGAAAAAGAGACGATTT
Found at i:6718195 original size:187 final size:187
Alignment explanation
Indices: 6717257--6718197 Score: 1178
Period size: 187 Copynumber: 5.1 Consensus size: 187
6717247 TTATGAATAC
* * * *
6717257 ATCATAGTTTAAGCTGATGTAGTGGTGGATTATCCTAGTATAAGAAAATAAGTTTAAAACTGAAA
1 ATCAAAGTTTAAGCTGATGGAGCGTTGGATTATCCTAGTATAAGAAAATAAGTTTAAAACTGAAA
** *
6717322 ATGTTATGATCATATATAAGAAATATAGTTGCACCTAATAATGTCATGGTTCAATAATAAAAAAA
66 ATGTTATGATCATATATAAGAAATACGGTTGCACCCAATAATGTCATGGTTCAATAAT--AAAAA
* * *
6717387 AGG-TGTAA--T---ATG--GA-A-TTTTAATAATAAAATAGGTTGCGCAGATAATGTT
129 AGGTTGTAATCTGGAATGTTAATATTTTTAATAATAAAATAGGTTGCGCCGAAAATGTT
* * * **
6717436 ATCAGAGTTTAAGCTGATGGAGCGTTGGATTATCCAAATATAAGAAAATAAGTTTACTA-TGAAA
1 ATCAAAGTTTAAGCTGATGGAGCGTTGGATTATCCTAGTATAAGAAAATAAGTTTAAAACTGAAA
* *
6717500 ATGTTATGATCATATATAAGAAATACGGTT--ACTACAATAATGTCATGGTTCAATAATAAAAAG
66 ATGTTATGATCATATATAAGAAATACGGTTGCAC-CCAATAATGTCATGGTTCAATAATAAAAAA
* * * * * * *
6717563 GGTTGTAAGCTGGAATATTAATACTTTCAATAAT-AAACAGGCTACGCCGAAAATGTT
130 GGTTGTAATCTGGAATGTTAATATTTTTAATAATAAAATAGGTTGCGCCGAAAATGTT
* * *
6717620 ATCAAAGTTTAAGCTGATGGAGTC-TTGGATTATCCCAGTATAAGAAAATAAGTTTGAAACTAAA
1 ATCAAAGTTTAAGCTGATGGAG-CGTTGGATTATCCTAGTATAAGAAAATAAGTTTAAAACTGAA
* * *
6717684 AATGTTATGAACATATATATAATAAATACGGTTGCGCCCAATAATGTCATGGTTCAATAATAAAA
65 AATGTTATGATC--ATATATAAGAAATACGGTTGCACCCAATAATGTCATGGTTCAATAAT-AAA
* * * * *
6717749 AAATGTTGTAATCTAGAATATTAATATTTTTAATAATAAAGTAGGTTAG-GCCGAAAATATT
127 AAAGGTTGTAATCTGGAATGTTAATATTTTTAATAATAAAATAGGTT-GCGCCGAAAATGTT
* *
6717810 ATCATAGTTTATGCTGATGGAGCGTTGGATTATCCTAGTATAAGAAAATAAGTTTAAAACTGAAA
1 ATCAAAGTTTAAGCTGATGGAGCGTTGGATTATCCTAGTATAAGAAAATAAGTTTAAAACTGAAA
* *
6717875 ATGTTATGATCATATATAAGAAATACGGTTGCACCCAATAATGCCATGGTT-AATTAATAAAACA
66 ATGTTATGATCATATATAAGAAATACGGTTGCACCCAATAATGTCATGGTTCAA-TAATAAAAAA
* * * * * * *
6717939 TGTTGTAATCTGGAATGTTAATATTTTAAATAATAAAGTAGGTTACGTCAAAAATATT
130 GGTTGTAATCTGGAATGTTAATATTTTTAATAATAAAATAGGTTGCGCCGAAAATGTT
* *
6717997 ATCAGAGTTTAAGCTGATGGAGCGTTGGATTATCCTAGTATAAGAAAATAAGTTTAAAACTAAAA
1 ATCAAAGTTTAAGCTGATGGAGCGTTGGATTATCCTAGTATAAGAAAATAAGTTTAAAACTGAAA
* * *
6718062 ATGTTATGATCATATATAAGAAATAAGGTTGCGCCCAATAATGTCATGGTCCAATAATAAAAAAG
66 ATGTTATGATCATATATAAGAAATACGGTTGCACCCAATAATGTCATGGTTCAATAATAAAAAAG
* ** *
6718127 GTTGTAATTTGGAATGTTAATATTTTTAATAATAAAATAGGTTGTACCTAAAATGTT
131 GTTGTAATCTGGAATGTTAATATTTTTAATAATAAAATAGGTTGCGCCGAAAATGTT
*
6718184 ATGAAAGTTTAAGC
1 ATCAAAGTTTAAGC
6718198 GGATAAGACC
Statistics
Matches: 659, Mismatches: 79, Indels: 40
0.85 0.10 0.05
Matches are distributed among these distances:
175 7 0.01
176 7 0.01
177 22 0.03
178 34 0.05
179 51 0.08
181 2 0.00
183 1 0.00
184 70 0.11
185 24 0.04
187 254 0.39
188 66 0.10
189 36 0.05
190 85 0.13
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (187 bp):
ATCAAAGTTTAAGCTGATGGAGCGTTGGATTATCCTAGTATAAGAAAATAAGTTTAAAACTGAAA
ATGTTATGATCATATATAAGAAATACGGTTGCACCCAATAATGTCATGGTTCAATAATAAAAAAG
GTTGTAATCTGGAATGTTAATATTTTTAATAATAAAATAGGTTGCGCCGAAAATGTT
Found at i:6721763 original size:6 final size:6
Alignment explanation
Indices: 6721752--6721824 Score: 74
Period size: 6 Copynumber: 12.0 Consensus size: 6
6721742 GGATACTTTC
* **** * *
6721752 AATTTT AATTTT AATTTT AATTTT GATTTTT AGGGAT ACTTTC AATTTT
1 AATTTT AATTTT AATTTT AATTTT -AATTTT AATTTT AATTTT AATTTT
6721801 AATTTT AATTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT
6721825 CGCAATTAAG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
6 49 0.91
7 5 0.09
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:6721794 original size:43 final size:43
Alignment explanation
Indices: 6721733--6721824 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
6721723 TATTGTAATC
6721733 GATTTTTAGGGATACTTTCAATTTTAATTTTAATTTTAATTTT
1 GATTTTTAGGGATACTTTCAATTTTAATTTTAATTTTAATTTT
6721776 GATTTTTAGGGATACTTTCAATTTTAATTTTAATTTTAATTTT
1 GATTTTTAGGGATACTTTCAATTTTAATTTTAATTTTAATTTT
*
6721819 AATTTT
1 GATTTT
6721825 CGCAATTAAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (43 bp):
GATTTTTAGGGATACTTTCAATTTTAATTTTAATTTTAATTTT
Found at i:6726543 original size:64 final size:64
Alignment explanation
Indices: 6726290--6726562 Score: 377
Period size: 64 Copynumber: 4.2 Consensus size: 64
6726280 AAGTTGTCTG
* * * * * *
6726290 TCAACAAACAAATTTCAAGTTTCATTCAGAGTCAATTTCAACCTCATAGTGAAGGATATTAGAC
1 TCAACAAACAACTTTCTAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGAC
* * *
6726354 TCAACAAACAACTTTCTAGTTTCATTCAAAGTCAATTTCAACTTCAGAGCGAAGGATATTGAAC
1 TCAACAAACAACTTTCTAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGAC
6726418 TCAACAAACAACTTTCTAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGAC
1 TCAACAAACAACTTTCTAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGAC
* * * * *
6726482 TCAACAAATAACTTTGC-AGTTTTATTCAGAGTCAATTTCAAATTCACAACGAAGGATATTGGTC
1 TCAACAAACAACTTT-CTAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGAC
6726546 TCGAAACAACACAACTT
1 TC--AACAA-ACAACTT
6726563 ACATAATATT
Statistics
Matches: 188, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
64 176 0.94
65 1 0.01
66 5 0.03
67 6 0.03
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (64 bp):
TCAACAAACAACTTTCTAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGAC
Found at i:6726863 original size:65 final size:65
Alignment explanation
Indices: 6726759--6726934 Score: 236
Period size: 65 Copynumber: 2.8 Consensus size: 65
6726749 GCGACACAAT
*
6726759 TTACTCAAGATTGAATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAAC
1 TTACTCAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAAC
* * * *
6726824 TTACTCAAGATTGGATTTAAACTTCACGACGAAGGATATCTAACTCAAAACCAATTTGGTGAAAC
1 TTACTCAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAAC
* * * *
6726889 --AATC---CTTGGATTTCAACTTTAAAACGAAGGATATCCAACTCAAAGC
1 TTACTCAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGC
6726935 TAAACTCAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
60 35 0.36
63 3 0.03
65 60 0.61
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (65 bp):
TTACTCAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAAC
Found at i:6726942 original size:12 final size:12
Alignment explanation
Indices: 6726925--6726952 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
6726915 AAGGATATCC
6726925 AACTCAAAGCTA
1 AACTCAAAGCTA
6726937 AACTCAAAGCTA
1 AACTCAAAGCTA
6726949 AACT
1 AACT
6726953 TCACGACGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.07, T:0.18
Consensus pattern (12 bp):
AACTCAAAGCTA
Found at i:6729722 original size:2 final size:2
Alignment explanation
Indices: 6729717--6729754 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6729707 AATTATTACA
6729717 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6729755 CCACAACCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6730500 original size:101 final size:101
Alignment explanation
Indices: 6730204--6730718 Score: 447
Period size: 101 Copynumber: 5.1 Consensus size: 101
6730194 ACCTAAATGG
* * * * * * * *
6730204 TTGACAATATAAGAATGAGTTACCTGTATTGTTATAAATATAA-CATTTTTTATCTTACATAAGC
1 TTGACAATATAAAAAGGTGCTACCTTTATTGTTATAAATATAACCCTGTTTTGTCTTACATAA-C
* * * **
6730268 -ATAATGAAAAAGGTTTCATACATATAACTTAAACGG
65 TCTAATGAAACAGGTTTCACACATATAACTTAAACAA
* * * * * * * **
6730304 TTGGCAATACAAGAAGGTGCTACATGTGTTGTTATAAAT-TAGGA-CCT-TTTTCGT-GTAGTGT
1 TTGACAATATAAAAAGGTGCTACCTTTATTGTTATAAATATA--ACCCTGTTTT-GTCTTA-CAT
* * * *
6730365 AA---TAATAAAAAAGGTTTCGA-ACATATGACGTAAACAA
62 AACTCTAATGAAACAGGTTTC-ACACATATAACTTAAACAA
* * * * *
6730402 TTGACACTATAAAAAGGTACTACCTTTATTGTTACAAATATAATCATGTTTTGTCTTACATAACT
1 TTGACAATATAAAAAGGTGCTACCTTTATTGTTATAAATATAACCCTGTTTTGTCTTACATAACT
* ** *
6730467 GTAATGAAGTAGGTTTCACACATATAATTTAAACAA
66 CTAATGAAACAGGTTTCACACATATAACTTAAACAA
* * * *
6730503 TTGACAATATAAAAAGGTGCTACCTTTATTGTTGTTAATATAACCCTGTTTTGCCTTACATAACC
1 TTGACAATATAAAAAGGTGCTACCTTTATTGTTATAAATATAACCCTGTTTTGTCTTACATAACT
* **
6730568 CCAATGAAACAGGTTTCACACATATAACTTAAACGG
66 CTAATGAAACAGGTTTCACACATATAACTTAAACAA
* * * * *
6730604 TTGACACTATAAAAAGGTGTTAGCTTTATTGTTATAAATATAACCCTTTTTTATCTTACATAACT
1 TTGACAATATAAAAAGGTGCTACCTTTATTGTTATAAATATAACCCTGTTTTGTCTTACATAACT
** * *
6730669 CTAATGAAACAGGTTTCGTACATATAACTTCAACAG
66 CTAATGAAACAGGTTTCACACATATAACTTAAACAA
6730705 TTGACAATATAAAA
1 TTGACAATATAAAA
6730719 GGGCGATACC
Statistics
Matches: 335, Mismatches: 67, Indels: 25
0.78 0.16 0.06
Matches are distributed among these distances:
97 1 0.00
98 65 0.19
99 11 0.03
100 39 0.12
101 219 0.65
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (101 bp):
TTGACAATATAAAAAGGTGCTACCTTTATTGTTATAAATATAACCCTGTTTTGTCTTACATAACT
CTAATGAAACAGGTTTCACACATATAACTTAAACAA
Found at i:6730738 original size:101 final size:99
Alignment explanation
Indices: 6730203--6730868 Score: 421
Period size: 101 Copynumber: 6.6 Consensus size: 99
6730193 AACCTAAATG
* * * * * *
6730203 GTTGACAATATAAGAATGAGTTACCTGTATTGTTATAAATATAACATTTTTTATCTTACATAAGC
1 GTTGACAATATAAAAAGGCGATACCTGTATTGTTATAAATATAACCTTTTTTGTCTTACATAA-C
* * *
6730268 ATAATGAAAAAGGTTTCATACATATAACTTAAACG
65 CTAATGAAAAAGGTTTCACACATATAACTTAAACA
* * * * * * * * * **
6730303 GTTGGCAATACAAGAAGGTGCTACATGTGTTGTTATAAAT-TAGGACCTTTTTCGT-GTAGTGTA
1 GTTGACAATATAAAAAGGCGATACCTGTATTGTTATAAATATA--ACCTTTTTTGTCTTA-CATA
* * *
6730366 A--TAATAAAAAAGGTTTCGA-ACATATGACGTAAACA
63 ACCTAATGAAAAAGGTTTC-ACACATATAACTTAAACA
* * * * * * *
6730401 ATTGACACTATAAAAAGG-TACTACCTTTATTGTTACAAATATAATCATGTTTTGTCTTACATAA
1 GTTGACAATATAAAAAGGCGA-TACCTGTATTGTTATAAATATAA-CCTTTTTTGTCTTACATAA
* ** *
6730465 CTGTAATGAAGTAGGTTTCACACATATAATTTAAACA
64 C-CTAATGAAAAAGGTTTCACACATATAACTTAAACA
* * * * * * * *
6730502 ATTGACAATATAAAAAGGTGCTACCTTTATTGTTGTTAATATAACCCTGTTTTGCCTTACATAAC
1 GTTGACAATATAAAAAGGCGATACCTGTATTGTTATAAATATAA-CCTTTTTTGTCTTACATAA-
* * *
6730567 CCCAATGAAACAGGTTTCACACATATAACTTAAACG
64 CCTAATGAAAAAGGTTTCACACATATAACTTAAACA
* * * * * *
6730603 GTTGACACTATAAAAAGGTGTTAGCTTTATTGTTATAAATATAACCCTTTTTTATCTTACATAAC
1 GTTGACAATATAAAAAGGCGATACCTGTATTGTTATAAATATAA-CCTTTTTTGTCTTACATAAC
* ** *
6730668 TCTAATGAAACAGGTTTCGTACATATAACTTCAACA
65 -CTAATGAAAAAGGTTTCACACATATAACTTAAACA
* * * * * * * * *
6730704 GTTGACAATATAAAAGGGCGATACCTGTAGTGTTATGAATTTAAACATGTTTTTTTATAACAGTT
1 GTTGACAATATAAAAAGGCGATACCTGTATTGTTATAAATAT-AACCT-TTTTTGTCTTACA-TA
* * * * * ** *
6730769 TCTTAAT-AATAAATGTTTCAAACATATTCAA-ATATTCG
63 ACCTAATGAA-AAAGGTTTCACACATA-T-AACTTAAACA
* * * *
6730807 GTTGACACTATAAGAAGGCGCTACTTGTATTGTTATAAATATAACCTTGTTTTGTCTTACAT
1 GTTGACAATATAAAAAGGCGATACCTGTATTGTTATAAATATAACCTT-TTTTGTCTTACAT
6730869 GTCATTAACG
Statistics
Matches: 438, Mismatches: 106, Indels: 43
0.75 0.18 0.07
Matches are distributed among these distances:
97 1 0.00
98 66 0.15
99 7 0.02
100 37 0.08
101 244 0.56
102 42 0.10
103 39 0.09
104 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (99 bp):
GTTGACAATATAAAAAGGCGATACCTGTATTGTTATAAATATAACCTTTTTTGTCTTACATAACC
TAATGAAAAAGGTTTCACACATATAACTTAAACA
Found at i:6732823 original size:60 final size:61
Alignment explanation
Indices: 6732701--6732826 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 61
6732691 AAGATAGAAA
* ** **
6732701 TTGATTGAGCAAGTCATGGAATCATTATTGTATTGGTCAGAGTTCACGAGAAAGTTATTAT
1 TTGATTGAGCAAGTCATGGAATCATTACTACATTCATCAGAGTTCACGAGAAAGTTATTAT
* * *
6732762 TTGATTGATCAAGTCATGGAATCTTTACTACA-TCATCAGAGTT-ATCGGGAAAGTTATTAT
1 TTGATTGAGCAAGTCATGGAATCATTACTACATTCATCAGAGTTCA-CGAGAAAGTTATTAT
6732822 TTGAT
1 TTGAT
6732827 GAATCTTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 1 0.02
60 28 0.50
61 27 0.48
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (61 bp):
TTGATTGAGCAAGTCATGGAATCATTACTACATTCATCAGAGTTCACGAGAAAGTTATTAT
Found at i:6740177 original size:42 final size:41
Alignment explanation
Indices: 6740105--6740237 Score: 128
Period size: 42 Copynumber: 3.2 Consensus size: 41
6740095 CCGCTAATGT
* *
6740105 TAGCGGCGTTTGTAAAATAAAAACG-C-CAAAAGTCAAGATCTA
1 TAGCGGCGTTT-TAGAA-ACAAACGCCGCAAAAGTC-AGATCTA
* *
6740147 TAGCTGCGTTTTTA-AAACAAACTCCGCAAAAGGTCAGATCTA
1 TAGCGGCG-TTTTAGAAACAAACGCCGCAAAA-GTCAGATCTA
* * *
6740189 TAGCGGCGTTTTAGCAACAAACGCCGCAAAAGGTCATATTTA
1 TAGCGGCGTTTTAGAAACAAACGCCGCAAAA-GTCAGATCTA
6740231 TAGCGGC
1 TAGCGGC
6740238 ATAAACACCA
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
40 5 0.06
41 8 0.10
42 59 0.76
43 6 0.08
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (41 bp):
TAGCGGCGTTTTAGAAACAAACGCCGCAAAAGTCAGATCTA
Found at i:6740290 original size:43 final size:43
Alignment explanation
Indices: 6740242--6740326 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
6740232 AGCGGCATAA
6740242 ACACCACAAAAGGACAAATATATAGCGGCATTTTTAGATACAG
1 ACACCACAAAAGGACAAATATATAGCGGCATTTTTAGATACAG
* * * * *
6740285 ACACCACAAAAGGTCAGATTTATAGCGGCGTTTTTGGATACA
1 ACACCACAAAAGGACAAATATATAGCGGCATTTTTAGATACA
6740327 AACGCCGCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (43 bp):
ACACCACAAAAGGACAAATATATAGCGGCATTTTTAGATACAG
Found at i:6744739 original size:39 final size:41
Alignment explanation
Indices: 6744685--6744964 Score: 247
Period size: 41 Copynumber: 6.9 Consensus size: 41
6744675 AGAAACTTAT
* *
6744685 GAGTCTTTAGCGGCGTTTGTA-AAGAAATGCCACT-AAGT-C
1 GAGTCTATAGCGGCGTTTGTACAA-AAACGCCACTAAAGTAC
* * *
6744724 GAGTCTATAGCGGCGTTTGTA-TAAAACTCCACTAATGTAC
1 GAGTCTATAGCGGCGTTTGTACAAAAACGCCACTAAAGTAC
* * **
6744764 GAATCTATAGCGGCATTTGTACAAAAACGCCGTTAAAGTA-
1 GAGTCTATAGCGGCGTTTGTACAAAAACGCCACTAAAGTAC
*
6744804 -AGCCTATAGCGGCGTTTGTAAACAAAAACGCCACTAAAGTAC
1 GAGTCTATAGCGGCGTTTGT--ACAAAAACGCCACTAAAGTAC
* * * *
6744846 GAGTCTATAGCGGCGTTTGTATGAAATA--CC-TTGAAAGTAA
1 GAGTCTATAGCGGCGTTTGTA-CAAAAACGCCACT-AAAGTAC
* * * *
6744886 AACTCTACCA-CGGCGTTTTGTATAAAAACGCCACTAAAGTAC
1 GAGTCTA-TAGCGGCG-TTTGTACAAAAACGCCACTAAAGTAC
* *
6744928 GAGTCTATAGCGGTGTTTGTATAAAAACGCCACTAAA
1 GAGTCTATAGCGGCGTTTGTACAAAAACGCCACTAAA
6744965 ATTATCATTT
Statistics
Matches: 193, Mismatches: 33, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
38 8 0.04
39 41 0.21
40 42 0.22
41 62 0.32
42 21 0.11
43 19 0.10
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (41 bp):
GAGTCTATAGCGGCGTTTGTACAAAAACGCCACTAAAGTAC
Found at i:6745330 original size:21 final size:20
Alignment explanation
Indices: 6745306--6745348 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
6745296 CAATATGACA
* *
6745306 TAAATGGTTCACAATATATCT
1 TAAAAGGTTCAAAATATA-CT
*
6745327 TAAAAGGTTGAAAATATACT
1 TAAAAGGTTCAAAATATACT
6745347 TA
1 TA
6745349 TCGATACTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (20 bp):
TAAAAGGTTCAAAATATACT
Found at i:6747326 original size:19 final size:19
Alignment explanation
Indices: 6747304--6747341 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6747294 TAGAGGTCTT
6747304 CTCTATATTAGTCGAACAA
1 CTCTATATTAGTCGAACAA
6747323 CTCTATATTAGTCGAACAA
1 CTCTATATTAGTCGAACAA
6747342 TTAACAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (19 bp):
CTCTATATTAGTCGAACAA
Found at i:6747394 original size:2 final size:2
Alignment explanation
Indices: 6747387--6747472 Score: 172
Period size: 2 Copynumber: 43.0 Consensus size: 2
6747377 ACAGGTTACT
6747387 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6747429 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6747471 TA
1 TA
6747473 CACTCAATAA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6749216 original size:26 final size:25
Alignment explanation
Indices: 6749161--6749232 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 25
6749151 TGATACTAAA
* * *
6749161 AATTACTAACACAATTACTATTGAC
1 AATTAATAACACAATTAATATTCAC
* *
6749186 GATTAATAACACAATTTAATATTCAT
1 AATTAATAACACAA-TTAATATTCAC
*
6749212 AATTAATATCATCAATTAATA
1 AATTAATAACA-CAATTAATA
6749233 ATGCAATTAC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 12 0.32
26 23 0.61
27 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (25 bp):
AATTAATAACACAATTAATATTCAC
Found at i:6749217 original size:13 final size:13
Alignment explanation
Indices: 6749187--6749232 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
6749177 ACTATTGACG
*
6749187 ATTAATAACA-CA
1 ATTAATATCATCA
6749199 ATTTAATATTCAT-A
1 A-TTAATA-TCATCA
6749213 ATTAATATCATCA
1 ATTAATATCATCA
6749226 ATTAATA
1 ATTAATA
6749233 ATGCAATTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 5 0.17
13 20 0.69
14 4 0.14
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (13 bp):
ATTAATATCATCA
Found at i:6749337 original size:50 final size:50
Alignment explanation
Indices: 6749276--6749381 Score: 149
Period size: 50 Copynumber: 2.1 Consensus size: 50
6749266 AAAATTACCA
* ***
6749276 AATATCATCATTAATATTCACAAGTACCAACACAATTGAAATCGCAAATT
1 AATAACATCATTAATATTCACAAGTACCAACACAATTGAAATAAAAAATT
* * *
6749326 AATAACATCATTAATATTCACAATTACTAACACACTTGAAATAAAAAATT
1 AATAACATCATTAATATTCACAAGTACCAACACAATTGAAATAAAAAATT
6749376 AATAAC
1 AATAAC
6749382 CTTTAACATT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.50, C:0.18, G:0.04, T:0.28
Consensus pattern (50 bp):
AATAACATCATTAATATTCACAAGTACCAACACAATTGAAATAAAAAATT
Found at i:6751293 original size:10 final size:10
Alignment explanation
Indices: 6751272--6751328 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
6751262 TTGAACCCCC
6751272 TTTCATTTTTT
1 TTTCA-TTTTT
6751283 TTTCA--TTT
1 TTTCATTTTT
6751291 TTTCAATTTTCT
1 TTTC-ATTTT-T
*
6751303 CTTCATTTTT
1 TTTCATTTTT
6751313 TTTCATTTTT
1 TTTCATTTTT
*
6751323 CTTCAT
1 TTTCAT
6751329 GTATAGTATC
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
8 7 0.18
9 1 0.03
10 15 0.38
11 12 0.31
12 4 0.10
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTCATTTTT
Found at i:6751325 original size:20 final size:22
Alignment explanation
Indices: 6751288--6751328 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
6751278 TTTTTTTTCA
6751288 TTTTTTCAATTTTCTCTTCATT
1 TTTTTTCAATTTTCTCTTCATT
6751310 TTTTTTC-ATTTT-TCTTCAT
1 TTTTTTCAATTTTCTCTTCAT
6751329 GTATAGTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 5 0.26
22 7 0.37
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTCAATTTTCTCTTCATT
Found at i:6758767 original size:12 final size:12
Alignment explanation
Indices: 6758737--6758770 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6758727 GTATCATAAT
*
6758737 TTTTCAAACATTG
1 TTTTCAAA-ATTA
6758750 TTTTCAAAATTA
1 TTTTCAAAATTA
6758762 TTTTCAAAA
1 TTTTCAAAA
6758771 ATTGCCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (12 bp):
TTTTCAAAATTA
Found at i:6761042 original size:2 final size:2
Alignment explanation
Indices: 6761035--6761067 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6761025 TACATGCATG
6761035 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6761068 CATGTGTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6762922 original size:21 final size:22
Alignment explanation
Indices: 6762881--6762927 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
6762871 CATATGATCA
6762881 TTTAACTACTGTTTCTATTAAT
1 TTTAACTACTGTTTCTATTAAT
*
6762903 TTTAACTA-TCGTTT-TTTTAAT
1 TTTAACTACT-GTTTCTATTAAT
6762924 TTTA
1 TTTA
6762928 CTAATCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTAACTACTGTTTCTATTAAT
Found at i:6769610 original size:15 final size:16
Alignment explanation
Indices: 6769584--6769614 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6769574 CAAAAAACAT
6769584 AAAATATGACTTTTTG
1 AAAATATGACTTTTTG
6769600 AAAAT-TGACTTTTTG
1 AAAATATGACTTTTTG
6769615 GTCAAAGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (16 bp):
AAAATATGACTTTTTG
Found at i:6769717 original size:127 final size:129
Alignment explanation
Indices: 6769512--6769758 Score: 349
Period size: 127 Copynumber: 1.9 Consensus size: 129
6769502 TTAATGAGCT
* *
6769512 CAATTTAGGGCTTTCGGGTCAGAATTTGGAAAAAACGAACTTCGAAATCAGATTCAGGACGTCAA
1 CAATTTAGGGCTTTCGGGTCAGAATTTGGAAAAAACGAACTTCGAAATCAGACTCAAGACGTCAA
6769577 AAAACATAAAATATGACTTTTTGAAAA-TTGACTTTTT-GGTCAAAGTCAACGGGTTTGTCTGA
66 AAAACATAAAATATGACTTTTTGAAAATTTGACTTTTTCGGTCAAAGTCAACGGGTTTGTCTGA
* * * * * *
6769639 CAATTTGGAGGCTTTCGGGTTCA-AATTTGGAAAAACCG-ACTTTGGAATCGGACTCAAGACGTT
1 CAATTTAG-GGCTTTCGGG-TCAGAATTTGGAAAAAACGAACTTCGAAATCAGACTCAAGACGTC
* *
6769702 AAAAAACATAAAATATGACTTTTTTAAAATTTTGACTTTTTCGGTCAAAGTTAACGG
64 AAAAAACATAAAATATGACTTTTTGAAAA-TTTGACTTTTTCGGTCAAAGTCAACGG
6769759 TCAACGGGTT
Statistics
Matches: 105, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
127 54 0.51
128 24 0.23
129 13 0.12
130 14 0.13
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (129 bp):
CAATTTAGGGCTTTCGGGTCAGAATTTGGAAAAAACGAACTTCGAAATCAGACTCAAGACGTCAA
AAAACATAAAATATGACTTTTTGAAAATTTGACTTTTTCGGTCAAAGTCAACGGGTTTGTCTGA
Found at i:6769731 original size:16 final size:17
Alignment explanation
Indices: 6769710--6769742 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6769700 TTAAAAAACA
6769710 TAAAA-TATGACTTTTT
1 TAAAATTATGACTTTTT
*
6769726 TAAAATTTTGACTTTTT
1 TAAAATTATGACTTTTT
6769743 CGGTCAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (17 bp):
TAAAATTATGACTTTTT
Found at i:6776260 original size:18 final size:18
Alignment explanation
Indices: 6776234--6776268 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6776224 AGTCAACGGG
*
6776234 TCAGGTCAACGGTTCGAT
1 TCAGGTCAACGGGTCGAT
*
6776252 TCAGTTCAACGGGTCGA
1 TCAGGTCAACGGGTCGA
6776269 GTCCGGTCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (18 bp):
TCAGGTCAACGGGTCGAT
Found at i:6778522 original size:17 final size:17
Alignment explanation
Indices: 6778500--6778533 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6778490 GATTTATTTG
6778500 ATATTACATATATATAT
1 ATATTACATATATATAT
*
6778517 ATATTACATATTTATAT
1 ATATTACATATATATAT
6778534 CATCATAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTACATATATATAT
Found at i:6779443 original size:23 final size:23
Alignment explanation
Indices: 6779417--6779579 Score: 90
Period size: 23 Copynumber: 7.0 Consensus size: 23
6779407 TATATATATA
6779417 TATTGTATTTTTTATTTTTATTT
1 TATTGTATTTTTTATTTTTATTT
* * *
6779440 TATTTTATTTTTATTTTCTTTATGT
1 TATTGTATTTTT-TATT-TTTATTT
* * *
6779465 T-TTGT-TTTTCT-GTTTTGTTT
1 TATTGTATTTTTTATTTTTATTT
** *
6779485 TATTTGT-TTTTCCATATTTATTT
1 TA-TTGTATTTTTTATTTTTATTT
*
6779508 TATTTTATTTGGATTTA--TTTATTT
1 TATTGTATTT---TTTATTTTTATTT
6779532 TATT-TATTTTTTCATTTTTATTT
1 TATTGTATTTTTT-ATTTTTATTT
*
6779555 TATTTTATTTTAGTT-TTTTTATTT
1 TATTGTATTTT--TTATTTTTATTT
6779579 T
1 T
6779580 TTATTTTACT
Statistics
Matches: 110, Mismatches: 15, Indels: 29
0.71 0.10 0.19
Matches are distributed among these distances:
20 9 0.08
21 2 0.02
22 13 0.12
23 42 0.38
24 33 0.30
25 7 0.06
26 4 0.04
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (23 bp):
TATTGTATTTTTTATTTTTATTT
Found at i:6779456 original size:28 final size:28
Alignment explanation
Indices: 6779425--6779592 Score: 89
Period size: 31 Copynumber: 5.8 Consensus size: 28
6779415 TATATTGTAT
6779425 TTTTTATTTTTATTTTATTTTATTTTTA
1 TTTTTATTTTTATTTTATTTTATTTTTA
* *
6779453 TTTTCTTTATGTTTTGTTTT-TCTGTTTTGTTTTA
1 --TT-TTTAT-TTTTATTTTAT-T-TTAT-TTTTA
**
6779487 TTTGTT-TTTCCATATTTATTTTA-TTTTA
1 TTT-TTATTTTTAT-TTTATTTTATTTTTA
**
6779515 TTTGGA--TTTA-TTTATTTTATTTATT-
1 TTTTTATTTTTATTTTATTTTATTT-TTA
* *
6779540 TTTTCATTTTTATTTTATTTTATTTTAGTT
1 TTTTTATTTTTATTTTATTTTATTTT--TA
6779570 TTTTTATTTTTTATTTTACTTTT
1 TTTTTA-TTTTTATTTTA-TTTT
6779593 TGGAGATTAT
Statistics
Matches: 106, Mismatches: 13, Indels: 36
0.68 0.08 0.23
Matches are distributed among these distances:
24 9 0.08
25 6 0.06
26 4 0.04
27 5 0.05
28 20 0.19
29 1 0.01
30 12 0.11
31 23 0.22
32 18 0.17
33 3 0.03
34 5 0.05
ACGTcount: A:0.15, C:0.04, G:0.05, T:0.77
Consensus pattern (28 bp):
TTTTTATTTTTATTTTATTTTATTTTTA
Found at i:6779551 original size:37 final size:37
Alignment explanation
Indices: 6779422--6779586 Score: 114
Period size: 38 Copynumber: 4.4 Consensus size: 37
6779412 ATATATATTG
*
6779422 TATTTTTTATTTTTATTTTATTTTATTTTTA-TTTTCTT
1 TATTTTTTATTTTTATTTGATTTTA-TTTTAGTTTT-TT
* *
6779460 TATGTTTTGT-TTTTCTGTTTTG-TTTTA-TTT-GTTTTTCCA
1 TAT-TTTT-TATTTT-T-ATTTGATTTTATTTTAGTTTTT--T
6779499 TATTTATTT-TATTTTATTTGGA-TTTA-TTTA-TTTTATT
1 TATTT-TTTAT-TTTTATTT-GATTTTATTTTAGTTTT-TT
*
6779536 TATTTTTTCATTTTTATTTTATTTTATTTTAGTTTTTT
1 TATTTTTT-ATTTTTATTTGATTTTATTTTAGTTTTTT
6779574 TATTTTTTATTTT
1 TATTTTTTATTTT
6779587 ACTTTTTGGA
Statistics
Matches: 103, Mismatches: 6, Indels: 37
0.71 0.04 0.25
Matches are distributed among these distances:
36 4 0.04
37 26 0.25
38 42 0.41
39 21 0.20
40 7 0.07
41 3 0.03
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (37 bp):
TATTTTTTATTTTTATTTGATTTTATTTTAGTTTTTT
Found at i:6779576 original size:47 final size:47
Alignment explanation
Indices: 6779477--6779586 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
6779467 TGTTTTTCTG
* * *
6779477 TTTTGTTTTATTTGTTTTTCCATATTTATTTTATTTTATTTGGATTT
1 TTTTATTTTATTTATTTTTCCATATTTATTTTATTTTATTTAGATTT
* * *
6779524 ATTTATTTTATTTATTTTTTCATTTTTATTTTATTTTATTTTAG-TTT
1 TTTTATTTTATTTATTTTTCCATATTTATTTTATTTTA-TTTAGATTT
6779571 TTTTA-TTT-TTTATTTT
1 TTTTATTTTATTTATTTT
6779587 ACTTTTTGGA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 8 0.15
46 3 0.05
47 40 0.73
48 4 0.07
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (47 bp):
TTTTATTTTATTTATTTTTCCATATTTATTTTATTTTATTTAGATTT
Found at i:6779592 original size:6 final size:5
Alignment explanation
Indices: 6779426--6779579 Score: 88
Period size: 5 Copynumber: 29.8 Consensus size: 5
6779416 ATATTGTATT
*
6779426 TTTTA TTTTTA TTTTA TTTTA TTTTTA TTTT- CTTTA TGTTT- TGTTT-
1 TTTTA -TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA T-TTTA T-TTTA
* * * *
6779472 TTCTG TTTTG TTTTA TTTGT- TTTTCCA TATTTA TTTTA TTTTA TTTGGA
1 TTTTA TTTTA TTTTA TTT-TA TTTT--A T-TTTA TTTTA TTTTA TTT-TA
*
6779521 -TTTA -TTTA TTTTA TTTATT TTTTCA TTTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTT-TA TTTT-A -TTTTA TTTTA TTTTA TTTTA
*
6779567 GTTT- TTTTA TTTT
1 TTTTA TTTTA TTTT
6779580 TTATTTTACT
Statistics
Matches: 122, Mismatches: 11, Indels: 31
0.74 0.07 0.19
Matches are distributed among these distances:
4 14 0.11
5 78 0.64
6 22 0.18
7 5 0.04
8 3 0.02
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:6779593 original size:7 final size:6
Alignment explanation
Indices: 6779425--6779586 Score: 56
Period size: 6 Copynumber: 26.7 Consensus size: 6
6779415 TATATTGTAT
* *
6779425 TTTTTA TTTTTA -TTTTA -TTTTA TTTTTA TTTTCTTTA TGTTTTG TTTTTC
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA --TT-TTTA T-TTTTA TTTTTA
* ** * **
6779475 TGTTTT- GTTTTA TTTGTT- TTTCCA TATTTA -TTTTA -TTTTA TTTGGA
1 T-TTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
6779521 TTTATT- TATTTTA TTTATT- TTTTCA TTTTTA -TTTTA -TTTTA TTTTAGTT
1 TTT-TTA T-TTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT--TA
6779570 TTTTTA TTTTTTA TTTT
1 TTTTTA -TTTTTA TTTT
6779587 ACTTTTTGGA
Statistics
Matches: 119, Mismatches: 18, Indels: 38
0.68 0.10 0.22
Matches are distributed among these distances:
5 34 0.29
6 51 0.43
7 22 0.18
8 8 0.07
9 4 0.03
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:6791029 original size:2 final size:2
Alignment explanation
Indices: 6791022--6791048 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6791012 TACATTTTAT
6791022 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6791049 TTTTATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6791059 original size:5 final size:5
Alignment explanation
Indices: 6791049--6791221 Score: 51
Period size: 5 Copynumber: 35.0 Consensus size: 5
6791039 ATATATATAT
* * * * * *
6791049 TTTTA TTTTA -TTT- TTATA TTTTA TTTTC TTTGTG TTCT- TTTTG TTTCTG
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA TTTTA TTT-TA
* * **
6791098 TTTTC TTTTA -TTTA TTTTA TTTTA TTTGT- TTCCCCTA TTTTA TTTGG
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TT---TTA TTTTA TTTTA
* ** *
6791145 TTTTA -TTTA TTTTA -TTTG TTTTA -TTTA TTTGGG TTTT- TTTCA TTTTCA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA TTTTA TTTT-A
* * *
6791193 TTTTA CTTTA TTTTA GTTT- GTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
6791222 CTATTTTGAT
Statistics
Matches: 125, Mismatches: 25, Indels: 36
0.67 0.13 0.19
Matches are distributed among these distances:
4 30 0.24
5 75 0.60
6 17 0.14
7 1 0.01
8 2 0.02
ACGTcount: A:0.13, C:0.06, G:0.08, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:6791167 original size:18 final size:18
Alignment explanation
Indices: 6791108--6791174 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
6791098 TTTTCTTTTA
6791108 TTTATTTTATTTTATTTGT
1 TTTA-TTTATTTTATTTGT
****
6791127 TTCCCCTATTTTATTTGGT
1 TTTATTTATTTTATTT-GT
6791146 TTTATTTATTTTATTTGT
1 TTTATTTATTTTATTTGT
6791164 TTTATTTATTT
1 TTTATTTATTT
6791175 GGGTTTTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
18 23 0.59
19 16 0.41
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.73
Consensus pattern (18 bp):
TTTATTTATTTTATTTGT
Found at i:6791175 original size:13 final size:14
Alignment explanation
Indices: 6791096--6791170 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
6791086 TTTTTGTTTC
*
6791096 TGTTTTCTTTTATT
1 TGTTTTATTTTATT
*
6791110 TATTTTATTTTATT
1 TGTTTTATTTTATT
6791124 TGTTTCCCCTATTTTATT
1 TGTTT----TATTTTATT
6791142 TGGTTTTA-TTTATT
1 T-GTTTTATTTTATT
*
6791156 T-TATTTGTTTTATT
1 TGT-TTTATTTTATT
6791170 T
1 T
6791171 ATTTGGGTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
12 1 0.02
13 3 0.06
14 30 0.60
15 2 0.04
18 10 0.20
19 4 0.08
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (14 bp):
TGTTTTATTTTATT
Found at i:6796299 original size:31 final size:31
Alignment explanation
Indices: 6796259--6796352 Score: 102
Period size: 30 Copynumber: 3.1 Consensus size: 31
6796249 CTAGGGACCG
* *
6796259 AAATTGAAAACATAAAAACTTAAGAGGACTA
1 AAATAGAAAAAATAAAAACTTAAGAGGACTA
* *
6796290 AAATAGAAAAAAATAGAAAGTTAAG-GGACTA
1 AAATAG-AAAAAATAAAAACTTAAGAGGACTA
* * *
6796321 AAATAGAAAAAACAAAAATTTAA-AGTACTA
1 AAATAGAAAAAATAAAAACTTAAGAGGACTA
6796351 AA
1 AA
6796353 CTGGTATTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
30 21 0.40
31 17 0.32
32 15 0.28
ACGTcount: A:0.63, C:0.06, G:0.13, T:0.18
Consensus pattern (31 bp):
AAATAGAAAAAATAAAAACTTAAGAGGACTA
Found at i:6796351 original size:30 final size:29
Alignment explanation
Indices: 6796272--6796352 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 29
6796262 TTGAAAACAT
6796272 AAAAACTTAAGAGGACTAAAATAGAAAAAA
1 AAAAACTTAA-AGGACTAAAATAGAAAAAA
* *
6796302 ATAGAAAGTTAAGGGACTAAAATAGAAAAAA
1 A-A-AAACTTAAAGGACTAAAATAGAAAAAA
* *
6796333 CAAAAATTTAAAGTACTAAA
1 -AAAAACTTAAAGGACTAAA
6796353 CTGGTATTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
30 15 0.35
31 20 0.47
32 8 0.19
ACGTcount: A:0.63, C:0.06, G:0.14, T:0.17
Consensus pattern (29 bp):
AAAAACTTAAAGGACTAAAATAGAAAAAA
Found at i:6796742 original size:21 final size:21
Alignment explanation
Indices: 6796700--6796750 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
6796690 CTAAAATATA
6796700 AAAGTGAAAAGATAAAGACTC
1 AAAGTGAAAAGATAAAGACTC
*
6796721 AAAGTGAAAAGATAAAGGCTC
1 AAAGTGAAAAGATAAAGACTC
6796742 AAAGTGAAA
1 AAAGTGAAA
6796751 CAATGTAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.57, C:0.08, G:0.22, T:0.14
Consensus pattern (21 bp):
AAAGTGAAAAGATAAAGACTC
Found at i:6797441 original size:18 final size:18
Alignment explanation
Indices: 6797407--6797449 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
6797397 AAAATAAATA
*
6797407 AATAATAATAATATAATT
1 AATAATGATAATATAATT
6797425 AATAATGATAATATAATT
1 AATAATGATAATATAATT
6797443 AATAATG
1 AATAATG
6797450 TTTTTTCGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
AATAATGATAATATAATT
Found at i:6797803 original size:43 final size:40
Alignment explanation
Indices: 6797748--6797850 Score: 102
Period size: 40 Copynumber: 2.5 Consensus size: 40
6797738 ATAACACATT
* *
6797748 TCCTACGCGATGAGGATGGCTGGTTATCTAGGGG-TGATACGGC
1 TCCTACGTGATGAGGATGGCT-G-T-TC-AGGGGATGACACGGC
* * *
6797791 TCCTACGTGATGAGTA-GGTCTGTTCGGGGGATGACACGGT
1 TCCTACGTGATGAGGATGG-CTGTTCAGGGGATGACACGGC
6797831 TCCTACGTGATGAGGATGGC
1 TCCTACGTGATGAGGATGGC
6797851 AGACCATCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
39 4 0.08
40 25 0.49
41 3 0.06
42 3 0.06
43 16 0.31
ACGTcount: A:0.18, C:0.18, G:0.37, T:0.26
Consensus pattern (40 bp):
TCCTACGTGATGAGGATGGCTGTTCAGGGGATGACACGGC
Found at i:6797929 original size:131 final size:131
Alignment explanation
Indices: 6797736--6798126 Score: 457
Period size: 131 Copynumber: 3.0 Consensus size: 131
6797726 TTAGAGAGGG
* * * * * *
6797736 TGATAACACATTTCCTACGCGATGAGGATGGCTGGTTATCTAGGGGTGATACGGCTCCTACGTGA
1 TGATAACACAGTTCCTATGTGATGAGGACGGCTGGTTATCTATGGGTGACACGGCTCCTACGTGA
* *
6797801 TGAGTAGGTCTGTTCGGGGGATGACACGGTTCCTACGTGATGAGGATGGCAGACCATCTTTAGGA
66 TGAGGAGGTCTGTTCGGGGGATGACACGGTTCCTACGTGATGAGGATGACAGACCATCTTTAGGA
6797866 A
131 A
* * * * **
6797867 TGATAACACAGTTCTTATGTGAAGAGGACGGCTGGTTATCTATAGGTGACATGGCTTTTACGTGA
1 TGATAACACAGTTCCTATGTGATGAGGACGGCTGGTTATCTATGGGTGACACGGCTCCTACGTGA
* * * * * *
6797932 TGAGGAGGTCTGGTCAGGGAATGACACAGTTCCTACGTGATAAGGATGACAGGCCATCTTTAGGA
66 TGAGGAGGTCTGTTCGGGGGATGACACGGTTCCTACGTGATGAGGATGACAGACCATCTTTAGGA
6797997 A
131 A
* * * *
6797998 TGAAAACACGAG-TCCTATATGATGAGGACTGCTGGTTATCTATGGGTGACACAGCTCCTACGTG
1 TGATAACAC-AGTTCCTATGTGATGAGGACGGCTGGTTATCTATGGGTGACACGGCTCCTACGTG
* * * * *
6798062 ATAAGGAGGTTTGGTT-GGGGGATAACACGGTT-CTAACGCGATGAGGATGATA-AGCCATCTTT
65 ATGAGGAGGTCT-GTTCGGGGGATGACACGGTTCCT-ACGTGATGAGGATGACAGA-CCATCTTT
6798124 AGG
127 AGG
6798127 GATAATGGTT
Statistics
Matches: 215, Mismatches: 41, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
130 2 0.01
131 209 0.97
132 4 0.02
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.27
Consensus pattern (131 bp):
TGATAACACAGTTCCTATGTGATGAGGACGGCTGGTTATCTATGGGTGACACGGCTCCTACGTGA
TGAGGAGGTCTGTTCGGGGGATGACACGGTTCCTACGTGATGAGGATGACAGACCATCTTTAGGA
A
Found at i:6798265 original size:28 final size:27
Alignment explanation
Indices: 6798225--6798282 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
6798215 TCAAGGGAGA
*
6798225 CAAAATTTGTTTTAATG-GAAACTATAT
1 CAAAATTGGTTTTAA-GAGAAACTATAT
*
6798252 CAAAAGTTGGTTTTAAGAGAAACTATCT
1 CAAAA-TTGGTTTTAAGAGAAACTATAT
6798280 CAA
1 CAA
6798283 GAGAGACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (27 bp):
CAAAATTGGTTTTAAGAGAAACTATAT
Found at i:6798282 original size:64 final size:64
Alignment explanation
Indices: 6798203--6798380 Score: 179
Period size: 64 Copynumber: 2.8 Consensus size: 64
6798193 TTATGTTTCC
*
6798203 AGAGAAACTGCCTCAAGGGAGACAAAATTTGTTTTAATGGAAACTATATCAAA-AGTTGGTT-TT
1 AGAGAAACTGTCTCAA-GGAGACAAAATTTGTTTTAATGGAAACTATATCAAAGA-TT-GTTCTT
6798266 -A
63 CA
* * * * *
6798267 AGAGAAACTATCTCAAGAGAGACAAAAATTTGTTTTCATAGAAAC-AGATTCAAAGATTTTTCTT
1 AGAGAAACTGTCTCAAG-GAGAC-AAAATTTGTTTTAATGGAAACTATA-TCAAAGATTGTTCTT
6798331 CA
63 CA
* *
6798333 AAAGAAACTGTCTCAA-GAGACAAAATTTGTTTTTAA-GAAAACTATATC
1 AGAGAAACTGTCTCAAGGAGACAAAATTTG-TTTTAATGGAAACTATATC
6798381 TAGCGAGACA
Statistics
Matches: 94, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
63 15 0.16
64 35 0.37
65 28 0.30
66 16 0.17
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (64 bp):
AGAGAAACTGTCTCAAGGAGACAAAATTTGTTTTAATGGAAACTATATCAAAGATTGTTCTTCA
Found at i:6799623 original size:11 final size:11
Alignment explanation
Indices: 6799607--6799724 Score: 70
Period size: 11 Copynumber: 10.8 Consensus size: 11
6799597 TTCTTGTCCC
6799607 TTTTTCTTTGT
1 TTTTTCTTTGT
6799618 TTTTTC--T-T
1 TTTTTCTTTGT
**
6799626 TTGCTCTTT-T
1 TTTTTCTTTGT
6799636 TTCTTTCTTTGT
1 TT-TTTCTTTGT
6799648 TTTTTCTTTGATT
1 TTTTTCTTTG--T
*
6799661 TTTTTCTTTTT
1 TTTTTCTTTGT
* *
6799672 TTTTTCTCTGA
1 TTTTTCTTTGT
6799683 TTTTTCTTCT-T
1 TTTTTCTT-TGT
* *
6799694 CTTTGCTTTATGT
1 TTTTTC-TT-TGT
6799707 TTTTTC-TT-T
1 TTTTTCTTTGT
6799716 TTTTTCTTT
1 TTTTTCTTT
6799725 TCTCTTTGTT
Statistics
Matches: 82, Mismatches: 15, Indels: 21
0.69 0.13 0.18
Matches are distributed among these distances:
8 5 0.06
9 8 0.10
10 7 0.09
11 40 0.49
12 7 0.09
13 15 0.18
ACGTcount: A:0.03, C:0.14, G:0.06, T:0.78
Consensus pattern (11 bp):
TTTTTCTTTGT
Found at i:6799643 original size:30 final size:28
Alignment explanation
Indices: 6799609--6799698 Score: 100
Period size: 24 Copynumber: 3.3 Consensus size: 28
6799599 CTTGTCCCTT
*
6799609 TTTCTTTGTTTTTTCTTTTGCTCTTTTTTC
1 TTTCTTTGTTTTTTC-TTTGAT-TTTTTTC
6799639 TTTCTTTGTTTTTTCTTTGATTTTTTTC
1 TTTCTTTGTTTTTTCTTTGATTTTTTTC
*
6799667 --T-TTT-TTTTTTCTCTGATTTTTCTTC
1 TTTCTTTGTTTTTTCTTTGATTTTT-TTC
6799692 -TTCTTTG
1 TTTCTTTG
6799699 CTTTATGTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
24 16 0.30
25 6 0.11
26 2 0.04
27 3 0.06
28 7 0.13
29 5 0.09
30 15 0.28
ACGTcount: A:0.02, C:0.14, G:0.07, T:0.77
Consensus pattern (28 bp):
TTTCTTTGTTTTTTCTTTGATTTTTTTC
Found at i:6799651 original size:24 final size:23
Alignment explanation
Indices: 6799624--6799731 Score: 60
Period size: 24 Copynumber: 4.5 Consensus size: 23
6799614 TTGTTTTTTC
*
6799624 TTTTGCTCTTTTTTCTTTCTTTG
1 TTTTTCTCTTTTTTCTTTCTTTG
* *
6799647 TTTTT-TCTTTGATTTTTTTCTTTTT
1 TTTTTCTCTTT--TTTCTTTC-TTTG
6799672 TTTTTCTCTGATTTTTCTTCTTCTTTG
1 TTTTTCTCT--TTTTTC-T-TTCTTTG
* * * *
6799699 -CTTTATGTTTTTTCTTT-TTTT
1 TTTTTCTCTTTTTTCTTTCTTTG
6799720 TCTTTTCTCTTT
1 T-TTTTCTCTTT
6799732 GTTTTGATTG
Statistics
Matches: 63, Mismatches: 12, Indels: 20
0.66 0.13 0.21
Matches are distributed among these distances:
21 3 0.05
22 7 0.11
23 12 0.19
24 13 0.21
25 8 0.13
26 11 0.17
27 4 0.06
28 5 0.08
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.77
Consensus pattern (23 bp):
TTTTTCTCTTTTTTCTTTCTTTG
Found at i:6799686 original size:13 final size:12
Alignment explanation
Indices: 6799647--6799693 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
6799637 TCTTTCTTTG
6799647 TTTTTTCTTTGAT
1 TTTTTTC-TTGAT
*
6799660 TTTTTTCTT-TT
1 TTTTTTCTTGAT
6799671 TTTTTTCTCTGAT
1 TTTTTTCT-TGAT
6799684 TTTTCTTCTT
1 TTTT-TTCTT
6799694 CTTTGCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 9 0.31
12 3 0.10
13 13 0.45
14 4 0.14
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.79
Consensus pattern (12 bp):
TTTTTTCTTGAT
Found at i:6803436 original size:30 final size:31
Alignment explanation
Indices: 6803402--6803487 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 31
6803392 ACATTTGAAC
*
6803402 ACTTAAGGGACAAAAATTA-TAAAAATAGAA
1 ACTTAAGGGACAAAAATTAGCAAAAATAGAA
*
6803432 ACTTAAGAGGACGAAAA-TAGCAAAAATAGAA
1 ACTTAAG-GGACAAAAATTAGCAAAAATAGAA
** * *
6803463 TGTTAAGGGACTAAAA-TAACAAAAA
1 ACTTAAGGGACAAAAATTAGCAAAAA
6803488 ATATTTAAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
30 25 0.52
31 23 0.48
ACGTcount: A:0.58, C:0.08, G:0.16, T:0.17
Consensus pattern (31 bp):
ACTTAAGGGACAAAAATTAGCAAAAATAGAA
Found at i:6803490 original size:31 final size:30
Alignment explanation
Indices: 6803402--6803487 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 30
6803392 ACATTTGAAC
* *
6803402 ACTTAAGGGACAAAAATTATAAAAATAGAA
1 ACTTAAGGGACAAAAATAACAAAAATAGAA
* *
6803432 ACTTAAGAGGACGAAAATAGCAAAAATAGAA
1 ACTTAAG-GGACAAAAATAACAAAAATAGAA
** *
6803463 TGTTAAGGGACTAAAATAACAAAAA
1 ACTTAAGGGACAAAAATAACAAAAA
6803488 ATATTTAAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 23 0.49
31 24 0.51
ACGTcount: A:0.58, C:0.08, G:0.16, T:0.17
Consensus pattern (30 bp):
ACTTAAGGGACAAAAATAACAAAAATAGAA
Found at i:6804361 original size:13 final size:13
Alignment explanation
Indices: 6804343--6804390 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
6804333 TGCGTCATAA
*
6804343 ATTTATGACGCAC
1 ATTTATGACACAC
*
6804356 ATTTATGACACAA
1 ATTTATGACACAC
*
6804369 ATTTATGACACGC
1 ATTTATGACACAC
6804382 ATTTATGAC
1 ATTTATGAC
6804391 GTTCATTGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (13 bp):
ATTTATGACACAC
Found at i:6804377 original size:26 final size:26
Alignment explanation
Indices: 6804341--6804390 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
6804331 TATGCGTCAT
*
6804341 AAATTTATGACGCACATTTATGACAC
1 AAATTTATGACACACATTTATGACAC
*
6804367 AAATTTATGACACGCATTTATGAC
1 AAATTTATGACACACATTTATGAC
6804391 GTTCATTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTTATGACACACATTTATGACAC
Found at i:6804483 original size:85 final size:85
Alignment explanation
Indices: 6804367--6804526 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 85
6804357 TTTATGACAC
* *
6804367 AAATTTATGACACGCATTTATGACGTTCATTGAGCGTCATTGAAGC-C-C-CCATCATAAATTAA
1 AAATTTATGACACGCATGTATGACGTTCATTGAGCGTCATTGAAGCACACGCCAT--TAAA-AAA
6804429 GATGACACACATTTGTGTGTCAT
63 GATGACACACATTTGTGTGTCAT
* *
6804452 AAATTTATGACACGCATGTATGAC-TTACATTGCGTGTCATTGAAGCACACGCCATTAAAAAAGA
1 AAATTTATGACACGCATGTATGACGTT-CATTGAGCGTCATTGAAGCACACGCCATTAAAAAAGA
6804516 TGACACACATT
65 TGACACACATT
6804527 CGCGTGTCGT
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
84 2 0.03
85 55 0.82
86 5 0.07
87 1 0.01
88 4 0.06
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (85 bp):
AAATTTATGACACGCATGTATGACGTTCATTGAGCGTCATTGAAGCACACGCCATTAAAAAAGAT
GACACACATTTGTGTGTCAT
Found at i:6809894 original size:15 final size:15
Alignment explanation
Indices: 6809876--6809904 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6809866 AATAAAAATT
6809876 ATATAATTAATAATA
1 ATATAATTAATAATA
6809891 ATATAATTAATAAT
1 ATATAATTAATAAT
6809905 GTTTTTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATAATTAATAATA
Found at i:6810359 original size:131 final size:130
Alignment explanation
Indices: 6810188--6810578 Score: 480
Period size: 131 Copynumber: 3.0 Consensus size: 130
6810178 TTATGGAGGG
* ** * * * * *
6810188 TGATAACACGGTTCCTACACGATGAGGACGGCTTGTTATCTAGGGGTGACACAGTTTCTATGTGA
1 TGATAACACAGTTCCTACGTGATGAGGACGACTGGTTATCTATGGGTGACACAGCTCCTATGTGA
* * *
6810253 TAAAGAGGTCTGGTTGAGGGATTACACGTTTTCTATGTGATGAGGATGGCAGACCATCTTTAGGA
66 TGAGGAGGTCTGGTTGAGGGATGACACGTTTTCTATGTGATGAGGATGGCAG-CCATCTTTAGGA
6810318 A
130 A
* * * * *
6810319 TGATAACACAGTTCCTACGTAATGAGGATGACTGGTTATCTATGGGTGACACGGCTCCAACGTGA
1 TGATAACACAGTTCCTACGTGATGAGGACGACTGGTTATCTATGGGTGACACAGCTCCTATGTGA
* * * * ** * *
6810384 TGAGGAGGTCTGGTTGGGGGATGACATGGTTCCTACATGATAAGGATGGAAGGCCATCTTTAGGA
66 TGAGGAGGTCTGGTTGAGGGATGACACGTTTTCTATGTGATGAGGATGGCA-GCCATCTTTAGGA
6810449 A
130 A
* *
6810450 TTATAACACAGTTTCTACGTGATGAGGACGACTGGTTATCTATGGGTGACACAGCTCCTATGTGA
1 TGATAACACAGTTCCTACGTGATGAGGACGACTGGTTATCTATGGGTGACACAGCTCCTATGTGA
*
6810515 TGAGGAGGTCTGGTT-AGGGGATGACACGATTTT-TATGCGATGAGGATGGCATGCCATCTTTAG
66 TGAGGAGGTCTGGTTGA-GGGATGACACG-TTTTCTATGTGATGAGGATGGCA-GCCATCTTTAG
6810578 G
128 G
6810579 GATAATGGTT
Statistics
Matches: 216, Mismatches: 41, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
131 213 0.99
132 3 0.01
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (130 bp):
TGATAACACAGTTCCTACGTGATGAGGACGACTGGTTATCTATGGGTGACACAGCTCCTATGTGA
TGAGGAGGTCTGGTTGAGGGATGACACGTTTTCTATGTGATGAGGATGGCAGCCATCTTTAGGAA
Found at i:6810627 original size:32 final size:31
Alignment explanation
Indices: 6810586--6810670 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 31
6810576 AGGGATAATG
6810586 GTTTCAAGAGAAACTGACTCAAAGATGATTT-T
1 GTTTCAAGAGAAACTGACTCAAAGAT--TTTGT
*
6810618 GTTTCAAGAGAAA-TATACTCAAAGATTTTGT
1 GTTTCAAGAGAAACT-GACTCAAAGATTTTGT
* * *
6810649 GTTTCCATAGAAACTGCCTCAA
1 GTTTCAAGAGAAACTGACTCAA
6810671 GGGAGACAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
30 3 0.07
31 18 0.40
32 24 0.53
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (31 bp):
GTTTCAAGAGAAACTGACTCAAAGATTTTGT
Found at i:6814131 original size:21 final size:23
Alignment explanation
Indices: 6814091--6814134 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
6814081 TGGCCTCGGA
*
6814091 ACATGAGAAGTTATTTTCAAAAT
1 ACATGAAAAGTTATTTTCAAAAT
6814114 ACATGAAAAG-TA-TTTCAAAAT
1 ACATGAAAAGTTATTTTCAAAAT
6814135 TGAAATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 9 0.45
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (23 bp):
ACATGAAAAGTTATTTTCAAAAT
Found at i:6818754 original size:22 final size:22
Alignment explanation
Indices: 6818729--6818771 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
6818719 TTTTTTTGAT
6818729 TTAACAAAAAGGGGGAG-AAATC
1 TTAA-AAAAAGGGGGAGTAAATC
**
6818751 TTAAAGTAAGGGGGAGTAAAT
1 TTAAAAAAAGGGGGAGTAAAT
6818772 TTTTCAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.47, C:0.05, G:0.30, T:0.19
Consensus pattern (22 bp):
TTAAAAAAAGGGGGAGTAAATC
Found at i:6819408 original size:44 final size:44
Alignment explanation
Indices: 6819265--6819380 Score: 205
Period size: 44 Copynumber: 2.6 Consensus size: 44
6819255 TACCATGTTC
6819265 GGTATCGATACTACTATACATAGTAGTAACGATATTTACTGGAT
1 GGTATCGATACTACTATACATAGTAGTAACGATATTTACTGGAT
6819309 GGTATCGATACTACTATACATAGTAGTAACGATATTTACTGGAT
1 GGTATCGATACTACTATACATAGTAGTAACGATATTTACTGGAT
* * *
6819353 GGTATCAATACTAATATACAAAGTAGTA
1 GGTATCGATACTACTATACATAGTAGTA
6819381 TCGAGATTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (44 bp):
GGTATCGATACTACTATACATAGTAGTAACGATATTTACTGGAT
Found at i:6820521 original size:16 final size:17
Alignment explanation
Indices: 6820502--6820584 Score: 62
Period size: 16 Copynumber: 4.6 Consensus size: 17
6820492 TTTTGAGGTT
6820502 TTTTTTCTTT-ATTTTG
1 TTTTTTCTTTGATTTTG
*
6820518 TTTTTTCTTTGATTTTTTCTT
1 TTTTTTCTTTGA---TTT-TG
6820539 TTTTTCTCTTTGATTTT-
1 TTTTT-TCTTTGATTTTG
* * *
6820556 TTTCTTCTTTGGTCTGTG
1 TTTTTTCTTTGAT-TTTG
6820574 TTTTTTCTTTG
1 TTTTTTCTTTG
6820585 CTTATTTTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
16 17 0.31
17 7 0.13
18 11 0.20
19 3 0.06
20 3 0.06
21 6 0.11
22 7 0.13
ACGTcount: A:0.04, C:0.11, G:0.10, T:0.76
Consensus pattern (17 bp):
TTTTTTCTTTGATTTTG
Found at i:6820548 original size:22 final size:21
Alignment explanation
Indices: 6820518--6820583 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
6820508 CTTTATTTTG
6820518 TTTTTTCTTTGATTTTTTCTT
1 TTTTTTCTTTGATTTTTTCTT
6820539 TTTTTCTCTTTGATTTTTTTCTT
1 TTTTT-TCTTTGA-TTTTTTCTT
** *
6820562 CTTTGGTCTGTG-TTTTTTCTT
1 -TTTTTTCTTTGATTTTTTCTT
6820583 T
1 T
6820584 GCTTATTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 1 0.03
21 14 0.36
22 7 0.18
23 14 0.36
24 3 0.08
ACGTcount: A:0.03, C:0.12, G:0.09, T:0.76
Consensus pattern (21 bp):
TTTTTTCTTTGATTTTTTCTT
Found at i:6820557 original size:15 final size:14
Alignment explanation
Indices: 6820537--6820603 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 14
6820527 TGATTTTTTC
6820537 TTTTTTTCTCTTTG
1 TTTTTTTCTCTTTG
6820551 ATTTTTTTCTTCTTTGG
1 -TTTTTTTC-TCTTT-G
*
6820568 TCTGTGTTTTTTCTTTG
1 T-T-T-TTTTCTCTTTG
*
6820585 CTTATTTTCTCTTTG
1 -TTTTTTTCTCTTTG
6820600 TTTT
1 TTTT
6820604 GATTGGGTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
14 3 0.07
15 18 0.43
16 6 0.14
17 4 0.10
18 7 0.17
19 4 0.10
ACGTcount: A:0.03, C:0.13, G:0.10, T:0.73
Consensus pattern (14 bp):
TTTTTTTCTCTTTG
Found at i:6822443 original size:32 final size:32
Alignment explanation
Indices: 6822407--6822468 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
6822397 ATGAAAAATG
* *
6822407 ACACAAACAACATAAAAGAAATAAGTTAGTGC
1 ACACAAACAAAAGAAAAGAAATAAGTTAGTGC
* *
6822439 ACACAAATAAAAGAAAAGAAATTAGTTAGT
1 ACACAAACAAAAGAAAAGAAATAAGTTAGT
6822469 ACAAGTATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (32 bp):
ACACAAACAAAAGAAAAGAAATAAGTTAGTGC
Found at i:6824369 original size:31 final size:31
Alignment explanation
Indices: 6824282--6824391 Score: 107
Period size: 31 Copynumber: 3.5 Consensus size: 31
6824272 ACATTTGAGC
* * *
6824282 ACTTAAGGGACCAAAATTG-CAAAAATAGAA
1 ACTTAAGGGACTAAAATAGAAAAAAATAGAA
** *
6824312 ACTTAAGAGGACTCAATTTA-ATAAAAATAGAA
1 ACTTAAG-GGACT-AAAATAGAAAAAAATAGAA
*
6824344 AGTTAAGGGACTAAAATAGAAAAAAATAGAA
1 ACTTAAGGGACTAAAATAGAAAAAAATAGAA
* *
6824375 ATTTAAAGGACTAAAAT
1 ACTTAAGGGACTAAAAT
6824392 GGTATTAATA
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
30 11 0.17
31 35 0.54
32 19 0.29
ACGTcount: A:0.55, C:0.08, G:0.15, T:0.21
Consensus pattern (31 bp):
ACTTAAGGGACTAAAATAGAAAAAAATAGAA
Found at i:6825972 original size:3 final size:3
Alignment explanation
Indices: 6825953--6825989 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
6825943 ATGTAAATTA
*
6825953 AAT AA- AAT AAT ACT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6825990 TAAAAATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6828746 original size:3 final size:3
Alignment explanation
Indices: 6828738--6828807 Score: 86
Period size: 3 Copynumber: 23.3 Consensus size: 3
6828728 CCTCACTCTA
* **
6828738 ATC ATC ATC ACC GCC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
6828786 ATT ATC ATC ATC GTC GTC ATC A
1 ATC ATC ATC ATC ATC ATC ATC A
6828808 GGAGTAGATA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.30, C:0.34, G:0.04, T:0.31
Consensus pattern (3 bp):
ATC
Found at i:6828835 original size:21 final size:21
Alignment explanation
Indices: 6828809--6828853 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
6828799 TCGTCATCAG
6828809 GAGTAGATACATTTTATTGAT
1 GAGTAGATACATTTTATTGAT
6828830 GAGTAGATACATTTTATTGAT
1 GAGTAGATACATTTTATTGAT
6828851 GAG
1 GAG
6828854 GAACGGATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.40
Consensus pattern (21 bp):
GAGTAGATACATTTTATTGAT
Found at i:6829739 original size:2 final size:2
Alignment explanation
Indices: 6829732--6829776 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
6829722 ATTCAAACTA
6829732 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6829773 AT AT
1 AT AT
6829777 TCTTATCAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6830780 original size:30 final size:30
Alignment explanation
Indices: 6830736--6830798 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
6830726 AATATTATAG
* * * *
6830736 AAATTAATATATAAACTAATACTAATAAAT
1 AAATAAATAAATAAAATAATACCAATAAAT
* *
6830766 AAATAAATAAATAAAATATTACCAATAATT
1 AAATAAATAAATAAAATAATACCAATAAAT
6830796 AAA
1 AAA
6830799 ATTAAAATAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.30
Consensus pattern (30 bp):
AAATAAATAAATAAAATAATACCAATAAAT
Found at i:6831006 original size:17 final size:17
Alignment explanation
Indices: 6830984--6831023 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
6830974 AATTTGACCA
6830984 GGTTTGAGCTTTAAGAT
1 GGTTTGAGCTTTAAGAT
* *
6831001 GGTTTGAGCTTTGATAT
1 GGTTTGAGCTTTAAGAT
6831018 GGTTTG
1 GGTTTG
6831024 CGAGGATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.05, G:0.33, T:0.45
Consensus pattern (17 bp):
GGTTTGAGCTTTAAGAT
Found at i:6833589 original size:75 final size:75
Alignment explanation
Indices: 6833493--6833687 Score: 225
Period size: 75 Copynumber: 2.6 Consensus size: 75
6833483 CATAAATAAA
* * *
6833493 GTCAAATATCAAGACTCAAACCACATTATTAAGTTTAGAATAGTAAAATCCATAA-ACAAACCAC
1 GTCAAATTTCAAGACTCAAACCACAATATTAAGTTTAGAATAATAAAATCCATAATA-AAACCAC
*
6833557 ATTATTAAAAT
65 AATATTAAAAT
* * * * *
6833568 GTCAAATTTCAAGATTTAAACCACAATATTAA-TTCTAGAATAATAAAATTCATAATAAAATCAT
1 GTCAAATTTCAAGACTCAAACCACAATATTAAGTT-TAGAATAATAAAATCCATAATAAAACCAC
*
6833632 AATATTAAAGT
65 AATATTAAAAT
* * *
6833643 GTCAAATCTT-AAGACTCAAACCATAATATTAAGTCTAGAAAAATA
1 GTCAAAT-TTCAAGACTCAAACCACAATATTAAGTTTAGAATAATA
6833688 TTAAACCCAA
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
74 2 0.02
75 95 0.94
76 4 0.04
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (75 bp):
GTCAAATTTCAAGACTCAAACCACAATATTAAGTTTAGAATAATAAAATCCATAATAAAACCACA
ATATTAAAAT
Found at i:6833633 original size:11 final size:12
Alignment explanation
Indices: 6833607--6833635 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6833597 TAATTCTAGA
6833607 ATAATAAAATTC
1 ATAATAAAATTC
6833619 ATAATAAAA-TC
1 ATAATAAAATTC
6833630 ATAATA
1 ATAATA
6833636 TTAAAGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAATAAAATTC
Found at i:6835740 original size:45 final size:45
Alignment explanation
Indices: 6835675--6836137 Score: 764
Period size: 45 Copynumber: 10.3 Consensus size: 45
6835665 ATTATTCATT
6835675 ATTTCCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
1 ATTT-CATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
*
6835721 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
*
6835766 ATTTCATTTATGGCATCCTTTCATGCTTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * *
6835811 ATTTCATTTATGACATTCTTTCATGCCTTTAATTCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
6835856 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * *
6835901 ATTTCAGTTATGGCATTCTTTCATGCCTTTAATGCACCGCTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * *
6835946 ATTTCATTTATGGCATCATTTCATCCCTTTAATACACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* *
6835991 ATTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGT
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* *
6836036 ATTTCATTTATGGCATCATTTCATGCCTTTAATGCACCGTTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* *
6836081 ATTTCATTTATGGCATCCTTTCATGCCTCTAATTCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
6836126 ATTTCATTTATG
1 ATTTCATTTATG
6836138 TAATGAAAAC
Statistics
Matches: 385, Mismatches: 32, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
45 381 0.99
46 4 0.01
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.43
Consensus pattern (45 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
Found at i:6836696 original size:95 final size:95
Alignment explanation
Indices: 6836501--6836700 Score: 240
Period size: 95 Copynumber: 2.1 Consensus size: 95
6836491 CCCTACCATG
* * * * *
6836501 GTATCGATACTTCTATACTATGGTACTGATACCCCCTTTCAGTATCGATACCATTTCTATATTCC
1 GTATCGATACTACTATACTATGGTACCGATACCCCCTTTCAATATCGATACCATTTCGACATTCC
* *
6836566 GTAATTCACGGTATCGATACATTTCTCTCA
66 GGAATCCACGGTATCGATACATTTCTCTCA
* ** * *
6836596 ATATCGATACTACTATACTATGGTACCGATATTCCCTTTCAATATCGATACCATTT-GGCATTCT
1 GTATCGATACTACTATACTATGGTACCGATACCCCCTTTCAATATCGATACCATTTCGACATTCC
* * * *
6836660 GGAATCCATGGTATCGATACTTTTCCTTTTA
66 GGAATCCACGGTATCGATACATTT-CTCTCA
6836691 GTATCGATAC
1 GTATCGATAC
6836701 CCCATTAGTA
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
94 24 0.28
95 63 0.72
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.38
Consensus pattern (95 bp):
GTATCGATACTACTATACTATGGTACCGATACCCCCTTTCAATATCGATACCATTTCGACATTCC
GGAATCCACGGTATCGATACATTTCTCTCA
Found at i:6842542 original size:45 final size:45
Alignment explanation
Indices: 6842474--6842891 Score: 613
Period size: 45 Copynumber: 9.3 Consensus size: 45
6842464 ATTATTCATT
* *
6842474 ATTTCCATTTATGGCATCCTTTCATGCATTTAATGCACCGTTATAC
1 ATTT-CATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * * *
6842520 ATTTCATTTATGGCATCATTTCATGCCTTTAATACACCATTATGT
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * * *
6842565 TTTTCATTTTTGACAT-CTTTCCATGCCTTTAATGCACCATTATGC
1 ATTTCATTTATGGCATCCTTT-CATGCCTTTAATGCACCGTTATGC
* *
6842610 ATTTTATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * * * *
6842655 ATTTTATTTATGGCATTCTTTCATGGCTTTTATGCACCGTTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
6842700 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
*
6842745 ATTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
*
6842790 ATTTCATTTATGGCATCCTTTCATGTCTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
* * *
6842835 ATTTCATTTATGTCATCATTTCTTGCCTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
6842880 ATTTCATTTATG
1 ATTTCATTTATG
6842892 AAATTGATAC
Statistics
Matches: 337, Mismatches: 33, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
44 3 0.01
45 326 0.97
46 8 0.02
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.45
Consensus pattern (45 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGC
Found at i:6848316 original size:23 final size:23
Alignment explanation
Indices: 6848271--6848320 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
6848261 ATTCGGTAAT
***
6848271 GAAAATAAACTGAAAAGGGTAGA
1 GAAAATAAACTGAAAAACATAGA
*
6848294 GAAAATAAATTGAAAAACATAGA
1 GAAAATAAACTGAAAAACATAGA
6848317 GAAA
1 GAAA
6848321 TGGAGAACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.62, C:0.04, G:0.20, T:0.14
Consensus pattern (23 bp):
GAAAATAAACTGAAAAACATAGA
Found at i:6849890 original size:16 final size:16
Alignment explanation
Indices: 6849869--6849900 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6849859 AATCCAAGTT
6849869 TAAAAATAAAAAAATA
1 TAAAAATAAAAAAATA
*
6849885 TAAAAATATAAAAATA
1 TAAAAATAAAAAAATA
6849901 AAGGTGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAAATAAAAAAATA
Found at i:6851557 original size:13 final size:13
Alignment explanation
Indices: 6851539--6851569 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6851529 ATGGTAGGGA
6851539 AAAGGCTGAAAAC
1 AAAGGCTGAAAAC
*
6851552 AAAGGCTGAAAAG
1 AAAGGCTGAAAAC
6851565 AAAGG
1 AAAGG
6851570 TTTAAAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.10, G:0.29, T:0.06
Consensus pattern (13 bp):
AAAGGCTGAAAAC
Found at i:6853178 original size:6 final size:6
Alignment explanation
Indices: 6853144--6853221 Score: 59
Period size: 6 Copynumber: 12.3 Consensus size: 6
6853134 AAAATCAAAG
* * *
6853144 AAAAAT AAAAAC AAAAAT AAATCAA- AAAAAT AAAATT GAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAA--AAT AAAAAT AAAAAT AAAAAT AAAAAT
**
6853193 AAAAATT GAACAACG AAAAAT AAAAAT AA
1 AAAAA-T -AA-AAAT AAAAAT AAAAAT AA
6853222 TAATGGGTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
5 2 0.04
6 42 0.75
7 6 0.11
8 4 0.07
9 2 0.04
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:6853190 original size:19 final size:19
Alignment explanation
Indices: 6853169--6853217 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
6853159 AATAAATCAA
*
6853169 AAAAATAAAATTGAA-AAT
1 AAAAATAAAATTGAACAAC
6853187 AAAAATAAAAATTGAACAAC
1 AAAAAT-AAAATTGAACAAC
6853207 GAAAAATAAAA
1 -AAAAATAAAA
6853218 ATAATAATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 6 0.22
19 9 0.33
20 6 0.22
21 6 0.22
ACGTcount: A:0.73, C:0.04, G:0.06, T:0.16
Consensus pattern (19 bp):
AAAAATAAAATTGAACAAC
Found at i:6853211 original size:21 final size:19
Alignment explanation
Indices: 6853169--6853219 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
6853159 AATAAATCAA
*
6853169 AAAAAT-AAAATTGAAAAT
1 AAAAATAAAAATTGAAAAG
6853187 AAAAATAAAAATTGAACAACG
1 AAAAATAAAAATTGAA-AA-G
6853208 AAAAATAAAAAT
1 AAAAATAAAAAT
6853220 AATAATGGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 6 0.21
19 9 0.31
20 2 0.07
21 12 0.41
ACGTcount: A:0.73, C:0.04, G:0.06, T:0.18
Consensus pattern (19 bp):
AAAAATAAAAATTGAAAAG
Found at i:6854704 original size:21 final size:21
Alignment explanation
Indices: 6854675--6854721 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6854665 ACTTTGGAAT
* *
6854675 TTTTACTGGGATGCAACTAGC
1 TTTTCCTGGGATGCAACCAGC
*
6854696 TTTTCCTGGGATGTAACCAGC
1 TTTTCCTGGGATGCAACCAGC
6854717 TTTTC
1 TTTTC
6854722 TTGTAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (21 bp):
TTTTCCTGGGATGCAACCAGC
Found at i:6855762 original size:139 final size:139
Alignment explanation
Indices: 6855512--6855790 Score: 558
Period size: 139 Copynumber: 2.0 Consensus size: 139
6855502 AAAGCTCTCA
6855512 ATTTAATTTGATCTTCGGAAACTCCCTGTAGTTTCATGCTAATGCAAACCATGTGGAATTCCAAT
1 ATTTAATTTGATCTTCGGAAACTCCCTGTAGTTTCATGCTAATGCAAACCATGTGGAATTCCAAT
6855577 AATTGTTTGCGTGGAATTTCATTGGGAAGGCCGTGGAAAGTGAGAAGAAGATGAATAAGTCCCAT
66 AATTGTTTGCGTGGAATTTCATTGGGAAGGCCGTGGAAAGTGAGAAGAAGATGAATAAGTCCCAT
6855642 CTTTAATTG
131 CTTTAATTG
6855651 ATTTAATTTGATCTTCGGAAACTCCCTGTAGTTTCATGCTAATGCAAACCATGTGGAATTCCAAT
1 ATTTAATTTGATCTTCGGAAACTCCCTGTAGTTTCATGCTAATGCAAACCATGTGGAATTCCAAT
6855716 AATTGTTTGCGTGGAATTTCATTGGGAAGGCCGTGGAAAGTGAGAAGAAGATGAATAAGTCCCAT
66 AATTGTTTGCGTGGAATTTCATTGGGAAGGCCGTGGAAAGTGAGAAGAAGATGAATAAGTCCCAT
6855781 CTTTAATTG
131 CTTTAATTG
6855790 A
1 A
6855791 AATGAAGTCC
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 140 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (139 bp):
ATTTAATTTGATCTTCGGAAACTCCCTGTAGTTTCATGCTAATGCAAACCATGTGGAATTCCAAT
AATTGTTTGCGTGGAATTTCATTGGGAAGGCCGTGGAAAGTGAGAAGAAGATGAATAAGTCCCAT
CTTTAATTG
Found at i:6856416 original size:21 final size:21
Alignment explanation
Indices: 6856378--6856417 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6856368 ATATTGTTTG
*
6856378 AAAATAAGATAAAGATAAATA
1 AAAATAAGAAAAAGATAAATA
6856399 AAAATAA-AAAAAGAATAAA
1 AAAATAAGAAAAAG-ATAAA
6856418 ATAGTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (21 bp):
AAAATAAGAAAAAGATAAATA
Found at i:6857242 original size:25 final size:24
Alignment explanation
Indices: 6857197--6857251 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
6857187 AATTCTAATA
* * *
6857197 AAAATACTTAAAACTATTTAA-ACT
1 AAAATACTAAAAACAAGTTAAGA-T
6857221 AAAATACTAAAAACAAAGTTAAGAT
1 AAAATACTAAAAAC-AAGTTAAGAT
6857246 AAAATA
1 AAAATA
6857252 TAATATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 13 0.50
25 12 0.46
26 1 0.04
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAATACTAAAAACAAGTTAAGAT
Found at i:6858501 original size:3 final size:3
Alignment explanation
Indices: 6858495--6858535 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
6858485 CAACAACAAC
6858495 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AATT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT A
6858536 TTTTTAAGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:6858942 original size:135 final size:132
Alignment explanation
Indices: 6858718--6859075 Score: 335
Period size: 132 Copynumber: 2.7 Consensus size: 132
6858708 AGTTCGGTCG
* ** * * * *
6858718 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGATCGGTGAATGACACGGTTCCTATGC
1 TCTAAAGGTGACGTGGCTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACAGTTCCTATGT
* * * ** * * * * *
6858783 AATGAGGACGACTGACTATCTTTAGGGGTAATGATAATATAATTCCTACGTGATGAGAACGACTT
66 GATGAAGATGGTTGGCTATCTTTAGGGG--ATGATAACACAATTCCTACATGATGAGAACGACTC
*
6858848 TTTA
129 GTTA
** * * *
6858852 TCTAGGGGTGACGCT-GTTCTTACGTGATGAGGAGATCTGGTCGGGGGGATGACACAGTTCCTAT
1 TCTAAAGGTGACG-TGGCTCCTACGTGATGAGGAGATCTGGTC-GGTGGATGACACAGTTCCTAT
** * * * *
6858916 GTGATGAAGATGGTTGGCTATCTTTA-GGGATGATAACACGGTTCCTACATGGTGAGGATGGCTC
64 GTGATGAAGATGGTTGGCTATCTTTAGGGGATGATAACACAATTCCTACATGATGAGAACGACTC
6858980 GTTA
129 GTTA
* * * *
6858984 TCTAAAGTTGATGTGGCTCCTATGTGATGAGGAGATCTGGTCAGTGGATGACACAGTTCCTATGT
1 TCTAAAGGTGACGTGGCTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACAGTTCCTATGT
* *
6859049 GAT-AAGGATGGTTGGCCATATTTAGGG
66 GATGAA-GATGGTTGGCTATCTTTAGGG
6859076 ATTTATTTTA
Statistics
Matches: 181, Mismatches: 38, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
130 2 0.01
131 41 0.23
132 63 0.35
134 38 0.21
135 37 0.20
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (132 bp):
TCTAAAGGTGACGTGGCTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACAGTTCCTATGT
GATGAAGATGGTTGGCTATCTTTAGGGGATGATAACACAATTCCTACATGATGAGAACGACTCGT
TA
Found at i:6859148 original size:29 final size:28
Alignment explanation
Indices: 6859115--6859232 Score: 76
Period size: 29 Copynumber: 3.8 Consensus size: 28
6859105 AGACAAAATT
6859115 TGTTTCAAGGGAAACGATCTCAAAGATGA
1 TGTTTCAAGGGAAACG-TCTCAAAGATGA
** *
6859144 TGTTTCAAGATAAAATGTCTCAATAGA-GACAAAA
1 TGTTTCAAG-GGAAACGTCTCAA-AGATG-----A
*
6859178 TTTGTTTCAAGGGAAACGATCTCAAAGATAA
1 --TGTTTCAAGGGAAACG-TCTCAAAGATGA
*
6859209 TGTTTCAAGAGAAACTGTCTCAAA
1 TGTTTCAAGGGAAAC-GTCTCAAA
6859233 AGAGACAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
29 37 0.54
30 8 0.12
31 1 0.01
34 1 0.01
35 7 0.10
36 15 0.22
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (28 bp):
TGTTTCAAGGGAAACGTCTCAAAGATGA
Found at i:6859260 original size:37 final size:35
Alignment explanation
Indices: 6859209--6859324 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 35
6859199 TCAAAGATAA
6859209 TGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAAAGA-ACAAAA-TT
* * * *
6859246 TGTTTCAAGGGAAACAGACTC-AAAGATC----TT
1 TGTTTCAAGAGAAACTGTCTCAAAAGAACAAAATT
* *
6859276 TGTTTCAAGAGAAACTGTCTCAAGAGAAACAAAACT
1 TGTTTCAAGAGAAACTGTCTCAAAAG-AACAAAATT
6859312 TGTTTCAAG-GAAA
1 TGTTTCAAGAGAAA
6859325 ACTTATTTCA
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
30 20 0.32
31 3 0.05
32 2 0.03
35 5 0.08
36 15 0.24
37 18 0.29
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (35 bp):
TGTTTCAAGAGAAACTGTCTCAAAAGAACAAAATT
Found at i:6859315 original size:66 final size:65
Alignment explanation
Indices: 6859085--6859326 Score: 351
Period size: 65 Copynumber: 3.7 Consensus size: 65
6859075 GATTTATTTT
* *
6859085 AAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACGATCTCAAAGATGATGTTTC
1 AAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACGATCTCAAAGATAATGTTTC
* * *
6859150 AAGATAAAATGTCTCAATAGAGACAAAATTTGTTTCAAGGGAAACGATCTCAAAGATAATGTTTC
1 AAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACGATCTCAAAGATAATGTTTC
* **
6859215 AAGAGAAACTGTCTCAAAAGAGACAAAATTTTGTTTCAAGGGAAACAGA-CTCAAAGATCTTTGT
1 AAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAAC-GATCTCAAAGAT-AATGT
6859279 TTC
63 TTC
* * *
6859282 AAGAGAAACTGTCTCAAGAGAAACAAAACTTGTTTCAAGGAAAAC
1 AAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC
6859327 TTATTTCAAG
Statistics
Matches: 161, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
65 86 0.53
66 41 0.25
67 34 0.21
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.25
Consensus pattern (65 bp):
AAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACGATCTCAAAGATAATGTTTC
Found at i:6859320 original size:132 final size:130
Alignment explanation
Indices: 6859085--6859326 Score: 360
Period size: 132 Copynumber: 1.8 Consensus size: 130
6859075 GATTTATTTT
* *
6859085 AAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACGATCTCAAAGATGATGTTTC
1 AAGAGAAACTGTCTCAAAAGAGACAAAATTTGTTTCAAGGGAAACGATCTCAAAGATGATGTTTC
* * * * *
6859150 AAGATAAAATGTCTCAATAGAGACAAAATTTGTTTCAAGGGAAACGATCTCAAAGATAATGTTTC
66 AAGAGAAAATGTCTCAAGAGAAACAAAACTTGTTTCAAGGAAAACGATCTCAAAGATAATGTTTC
**
6859215 AAGAGAAACTGTCTCAAAAGAGACAAAATTTTGTTTCAAGGGAAACAGA-CTCAAAGATCTTTGT
1 AAGAGAAACTGTCTCAAAAGAGACAAAA-TTTGTTTCAAGGGAAAC-GATCTCAAAGAT-GATGT
*
6859279 TTCAAGAGAAACTGTCTCAAGAGAAACAAAACTTGTTTCAAGGAAAAC
63 TTCAAGAGAAAATGTCTCAAGAGAAACAAAACTTGTTTCAAGGAAAAC
6859327 TTATTTCAAG
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
130 26 0.26
131 26 0.26
132 47 0.47
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.25
Consensus pattern (130 bp):
AAGAGAAACTGTCTCAAAAGAGACAAAATTTGTTTCAAGGGAAACGATCTCAAAGATGATGTTTC
AAGAGAAAATGTCTCAAGAGAAACAAAACTTGTTTCAAGGAAAACGATCTCAAAGATAATGTTTC
Found at i:6859327 original size:16 final size:16
Alignment explanation
Indices: 6859306--6859337 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6859296 CAAGAGAAAC
*
6859306 AAAACTTGTTTCAAGG
1 AAAACTTATTTCAAGG
6859322 AAAACTTATTTCAAGG
1 AAAACTTATTTCAAGG
6859338 GAAATAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (16 bp):
AAAACTTATTTCAAGG
Found at i:6860982 original size:26 final size:26
Alignment explanation
Indices: 6860942--6861002 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
6860932 CTTGTCCTAT
6860942 TTTTTCTTTTGCT-TTT-TTTTCTT-TG
1 TTTTTC-TTTGCTCTTTATTTT-TTCTG
6860967 TTTTTCTTTGCTCTTTATTTTTTCTG
1 TTTTTCTTTGCTCTTTATTTTTTCTG
6860993 TTTTTCTTTG
1 TTTTTCTTTG
6861003 TTTTAACCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
24 6 0.18
25 11 0.33
26 16 0.48
ACGTcount: A:0.02, C:0.13, G:0.08, T:0.77
Consensus pattern (26 bp):
TTTTTCTTTGCTCTTTATTTTTTCTG
Found at i:6864480 original size:21 final size:21
Alignment explanation
Indices: 6864454--6864495 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6864444 TTTGTTTTAT
6864454 TCATGAAAACTATCTATAAAA
1 TCATGAAAACTATCTATAAAA
6864475 TCATGAAAACTATCTATAAAA
1 TCATGAAAACTATCTATAAAA
6864496 ATAATTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (21 bp):
TCATGAAAACTATCTATAAAA
Found at i:6864901 original size:15 final size:16
Alignment explanation
Indices: 6864881--6864913 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6864871 TCTTTAGGTT
6864881 TGAATA-ATACTTTTG
1 TGAATATATACTTTTG
*
6864896 TGAATATCTACTTTTG
1 TGAATATATACTTTTG
6864912 TG
1 TG
6864914 TCTTGAAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.48
Consensus pattern (16 bp):
TGAATATATACTTTTG
Found at i:6887477 original size:74 final size:75
Alignment explanation
Indices: 6887370--6887555 Score: 234
Period size: 74 Copynumber: 2.5 Consensus size: 75
6887360 TAAATATGGA
*
6887370 GGTACCGATA-CTCCTCATAGGGTGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACA
1 GGTACCGATACCT-CTCATAGAG-GTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACA
* *
6887434 TAATGCCCATTG
64 AAATGCCCAATG
* * * *
6887446 GGTACCGATACCTC-CATAGAGGTACCGATACCCTTTTGTCAATTTTGGCTCCGAGAAAAATAAA
1 GGTACCGATACCTCTCATAGAGGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAAA
*
6887510 ATGCCTAATG
66 ATGCCCAATG
* * *
6887520 GGTACCGATACC-CTCTTTGAGGTATCGATACCCCTA
1 GGTACCGATACCTCTCATAGAGGTACCGATACCCCTA
6887556 GTCATTTAAC
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
73 1 0.01
74 75 0.79
75 6 0.06
76 11 0.12
77 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (75 bp):
GGTACCGATACCTCTCATAGAGGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAAA
ATGCCCAATG
Found at i:6893301 original size:21 final size:19
Alignment explanation
Indices: 6893275--6893352 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 19
6893265 TTGTGCAGAT
6893275 TGTATCGATACCCCTTCAACG
1 TGTATCGATACCCCTT-AA-G
6893296 TGTATCGATACCCTCTTTTAATG
1 TGTATCGATACCC-C--TTAA-G
*
6893319 TGTATCGATAACCCTATAAG
1 TGTATCGATACCCCT-TAAG
*
6893339 GGTATCGATACCCC
1 TGTATCGATACCCC
6893353 CTTCGGGTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
20 14 0.29
21 16 0.33
22 2 0.04
23 15 0.31
24 2 0.04
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (19 bp):
TGTATCGATACCCCTTAAG
Done.