Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 60 of 147
Found at i:11480579 original size:36 final size:37
Alignment explanation
Indices: 11480512--11480584 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 37
11480502 ATTATGATTG
11480512 AAAAATTTTATTATAATTATGTTTAAAAAAA-TAATA
1 AAAAATTTTATTATAATTATGTTTAAAAAAATTAATA
**
11480548 AAAAATTTATATTA-AATATAT-TTTATTAAAATTAATA
1 AAAAATTT-TATTATAAT-TATGTTTAAAAAAATTAATA
11480585 TTTAAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 19 0.59
37 13 0.41
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (37 bp):
AAAAATTTTATTATAATTATGTTTAAAAAAATTAATA
Found at i:11494139 original size:2 final size:2
Alignment explanation
Indices: 11494132--11494159 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11494122 TCTTTTTCTC
11494132 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
11494160 TCACTCAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11494226 original size:31 final size:31
Alignment explanation
Indices: 11494188--11494251 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
11494178 CCTTTGTTGG
*
11494188 TTTGTTCTTCTAGCAGTATGCATCTTTATTT
1 TTTGTTCTTCTAGCAATATGCATCTTTATTT
11494219 TTTGTTCTTCTAGCAATATGCATCTTTATTT
1 TTTGTTCTTCTAGCAATATGCATCTTTATTT
11494250 TT
1 TT
11494252 CTATGTATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.17, C:0.16, G:0.11, T:0.56
Consensus pattern (31 bp):
TTTGTTCTTCTAGCAATATGCATCTTTATTT
Found at i:11501021 original size:22 final size:25
Alignment explanation
Indices: 11500996--11501041 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
11500986 ATTCATCGAT
11500996 TTTTAA-AT-TTTTTT-ATATATTA
1 TTTTAATATGTTTTTTAATATATTA
11501018 TTTTAATATGTTTTTTAATATATT
1 TTTTAATATGTTTTTTAATATATT
11501042 TAAATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.29
23 2 0.10
24 6 0.29
25 7 0.33
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTAATATGTTTTTTAATATATTA
Found at i:11501033 original size:12 final size:11
Alignment explanation
Indices: 11500995--11501038 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
11500985 AATTCATCGA
11500995 TTTTTAA-ATT
1 TTTTTAATATT
11501005 TTTTTATATATT
1 TTTTTA-ATATT
*
11501017 ATTTTAATATGT
1 TTTTTAATAT-T
11501029 TTTTTAATAT
1 TTTTTAATAT
11501039 ATTTAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 6 0.21
11 5 0.17
12 18 0.62
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (11 bp):
TTTTTAATATT
Found at i:11501042 original size:22 final size:23
Alignment explanation
Indices: 11500996--11501048 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
11500986 ATTCATCGAT
11500996 TTTTAA-ATTTTTTTATATATTA
1 TTTTAATATTTTTTTATATATTA
11501018 TTTTAATATGTTTTTTA-ATA-TA
1 TTTTAATAT-TTTTTTATATATTA
*
11501040 TTTAAATAT
1 TTTTAATAT
11501049 ATTTAAGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 16 0.57
23 5 0.18
24 7 0.25
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTTAATATTTTTTTATATATTA
Found at i:11507011 original size:105 final size:105
Alignment explanation
Indices: 11506842--11507164 Score: 366
Period size: 105 Copynumber: 3.1 Consensus size: 105
11506832 AATGAAGGTA
* * * * *
11506842 GTTTAGCTAATGACT-GTG-TCGAAGACAATGTAGTCGATTCCAGGTCAACAGATAATGAGGACT
1 GTTTAGCTAATGA-TAGTGCT-GAAGAAAACGTCGTCGATTCCAGGTCAAAAGAGAATGAGGACT
* ** * *
11506905 CTGAAATTTCTGTAGCTGATGATGTTGGTTGCAATGGAGATG
64 CTGAGATGGCTGTAGCTGATGATGGTGATTGCAATGGAGATG
* * * * *
11506947 GTTTAGCTAATGATAGTGCTGAGGAAAATGTCGTTGTTTCCAGGTCAAAAGAGAATGGGGACTCT
1 GTTTAGCTAATGATAGTGCTGAAGAAAACGTCGTCGATTCCAGGTCAAAAGAGAATGAGGACTCT
* *
11507012 GAGATGGCTTTCGCTGATTG-TGGTGATTGCAATGGAGATG
66 GAGATGGCTGTAGCTGA-TGATGGTGATTGCAATGGAGATG
* * * * *
11507052 GTTTA-CGTAATGATAGTGTTGAAGACAACGTTGTCGATTCCAAGTCAAAAGAGAATGAGGCCTC
1 GTTTAGC-TAATGATAGTGCTGAAGAAAACGTCGTCGATTCCAGGTCAAAAGAGAATGAGGACTC
* *
11507116 TGAGATGGCTGTAGTTTATGATGGTGATTGCAATGGAGATG
65 TGAGATGGCTGTAGCTGATGATGGTGATTGCAATGGAGATG
11507157 GTTTAGCT
1 GTTTAGCT
11507165 GATTCCAAGT
Statistics
Matches: 183, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
104 4 0.02
105 175 0.96
106 4 0.02
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.31
Consensus pattern (105 bp):
GTTTAGCTAATGATAGTGCTGAAGAAAACGTCGTCGATTCCAGGTCAAAAGAGAATGAGGACTCT
GAGATGGCTGTAGCTGATGATGGTGATTGCAATGGAGATG
Found at i:11507216 original size:78 final size:78
Alignment explanation
Indices: 11507087--11507242 Score: 260
Period size: 78 Copynumber: 2.0 Consensus size: 78
11507077 CAACGTTGTC
* * *
11507087 GATTCCAAGTCAAAAGAGAATGAGGCCTCTGAGATGGCTGTAGTTTATGATGGTGATTGCAATGG
1 GATTCCAAGTCAAAAGAGAATGAGGACTCTGAGATGGCTGTAGCTGATGATGGTGATTGCAATGG
11507152 -AGATGGTTTAGCT
66 CA-ATGGTTTAGCT
11507165 GATTCCAAGTCAAAAGAGAATGAGGACTCTGAGATGGCTGTAGCTGATGATGGTGATTGCAATGG
1 GATTCCAAGTCAAAAGAGAATGAGGACTCTGAGATGGCTGTAGCTGATGATGGTGATTGCAATGG
*
11507230 CAATGTTTTAGCT
66 CAATGGTTTAGCT
11507243 AATGGTAATG
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 72 0.99
79 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.30, T:0.29
Consensus pattern (78 bp):
GATTCCAAGTCAAAAGAGAATGAGGACTCTGAGATGGCTGTAGCTGATGATGGTGATTGCAATGG
CAATGGTTTAGCT
Found at i:11515156 original size:221 final size:221
Alignment explanation
Indices: 11514736--11515139 Score: 567
Period size: 221 Copynumber: 1.8 Consensus size: 221
11514726 ATATAAAATA
* ** *
11514736 AAGCAATTCAACAATGAATGAATATAATTCTCCTAAGCATAAAAACTGAACTATAAACCCTAGGG
1 AAGCAACTCAACAACAAATGAATATAATTCTCCTAAGCATAAAAACTGAACTATAAACCCTAGAG
* * * * *
11514801 AAACAAATGATAATACATTAATCATCGATATGCCAGAACTATCAAACTATGTAAACAAACCCCTA
66 AAACAAATGATAATACATTAAGCATCGATAGGCCAGAACAATCAAACTAGGCAAACAAACCCCTA
* * * *
11514866 AAAAATCATCATCTACTCAAAAAGATGAAACTATAGCGAAACAAATCCTAACACAATATCATCAC
131 AAAAATCATAATCTACTCAAAAAGATGAAACCATAGAGAAACAAACCCTAACACAATATCATCAC
11514931 TACATTCAAAATAGGAACATATAATG
196 TACATTCAAAATAGGAACATATAATG
* * *
11514957 AAGCAACTCAACAACAAATGAATATAATTCTCCTAAGCATAAACATTGAACTGTAAACCCTAGAG
1 AAGCAACTCAACAACAAATGAATATAATTCTCCTAAGCATAAAAACTGAACTATAAACCCTAGAG
* * * *
11515022 AAACAAATGATAATACATTAAGCATTGATAGGCCAGAACAATC-AGCTTAGGCAAACAAATCCTT
66 AAACAAATGATAATACATTAAGCATCGATAGGCCAGAACAATCAAAC-TAGGCAAACAAACCCCT
* * * * *
11515086 ACAAATTCATAATCTACTCGAAAGGATGAAACCATGGAGAAACAAACCCTAACA
130 AAAAAATCATAATCTACTCAAAAAGATGAAACCATAGAGAAACAAACCCTAACA
11515140 TATCATTGTC
Statistics
Matches: 157, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
220 2 0.01
221 155 0.99
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.22
Consensus pattern (221 bp):
AAGCAACTCAACAACAAATGAATATAATTCTCCTAAGCATAAAAACTGAACTATAAACCCTAGAG
AAACAAATGATAATACATTAAGCATCGATAGGCCAGAACAATCAAACTAGGCAAACAAACCCCTA
AAAAATCATAATCTACTCAAAAAGATGAAACCATAGAGAAACAAACCCTAACACAATATCATCAC
TACATTCAAAATAGGAACATATAATG
Found at i:11515286 original size:470 final size:467
Alignment explanation
Indices: 11514469--11515640 Score: 1485
Period size: 470 Copynumber: 2.6 Consensus size: 467
11514459 GCTTTATATC
* *
11514469 AAATCGGAACATATAATGAAGTAATTCAACAACAAATGAATATAATGCTCCTAAGCATAAAAACT
1 AAAT-GGAACATATAATGAAG-AA-TCAACAACAAATGAATATAATTCTCCTAAGCATAAAAATT
* * * * *
11514534 GAACTATAAACCCTAG-GCAAACAAATGATAATACATCAATCATCAATAGGTTGGAACTATCA-A
63 GAACTATAAACCCTAGAG-AAACAAATGATAATACATTAAGCATCAATAGGCTGGAACAATCAGC
* * * * *
11514597 TACAGGCAAACAAATCCTTAAAAATACATCATCTACTCGAAATGATGAAACTATAGCA-AAACAA
127 T-TAGGCAAACAAATCCTTACAAATTCATCATCTACTCGAAAGGATGAAACTAT-GGAGAAACAA
* * * *
11514661 ATCCTAACATATCATTGTCACTACATACAACTAGGGATTAACAGATACAATTCAATTTCAACTTA
190 ACCCTAACATATCATTGTCACTACATACAACTAAGGATTAACAGATATAATTCAATTTCACCTTA
* * * *
11514726 ATATAAAATAAAGCAATTCAACAATGAATGAATATAATTCTCCTAAGCATAAAAACTGAACTATA
255 ATACAAAATAAAGCAATTCAACAACGAATGAATATAATTCTCCTAAGCATAAAAACTAAACAATA
* * * * *
11514791 AACCCTAGGGAAACAAATGATAATACATTAATCATCGATATGCCAGAACTA-TCAAACTATGTAA
320 AACCCTACGGAAACAAATCATAATACATTAATCATCGATACGCCAAAACTACT-AAACTATGCAA
*
11514855 ACAAACCCCTAAAAAATCATCATCTACTCAAAAAGATGAAACTATAGCGAAACAAATCCTAACAC
384 ACAAACCCCTAAAAAATCATCATCTACTCAAAAAGATGAAACTATAGCAAAACAAATCCTAACAC
11514920 AATATCATCACTACATTCA
449 AATATCATCACTACATTCA
*
11514939 AAATAGGAACATATAATGAAGCAACTCAACAACAAATGAATATAATTCTCCTAAGCATAAACATT
1 AAAT-GGAACATATAATGAAG-AA-TCAACAACAAATGAATATAATTCTCCTAAGCATAAAAATT
* ** **
11515004 GAACTGTAAACCCTAGAGAAACAAATGATAATACATTAAGCATTGATAGGCCAGAACAATCAGCT
63 GAACTATAAACCCTAGAGAAACAAATGATAATACATTAAGCATCAATAGGCTGGAACAATCAGCT
* *
11515069 TAGGCAAACAAATCCTTACAAATTCATAATCTACTCGAAAGGATGAAACCATGGAGAAACAAACC
128 TAGGCAAACAAATCCTTACAAATTCATCATCTACTCGAAAGGATGAAACTATGGAGAAACAAACC
*
11515134 CTAACATATCATTGTCACTACATACAACTAAGGATTAACAGATATAATTCAATTTTACCTTAATA
193 CTAACATATCATTGTCACTACATACAACTAAGGATTAACAGATATAATTCAATTTCACCTTAATA
* ** *
11515199 CACAATGGAGCAATTCAACAACGAATGAATGTAATTCTCCTAAGCATAAAAA-TCAAACAATAAA
258 CAAAATAAAGCAATTCAACAACGAATGAATATAATTCTCCTAAGCATAAAAACT-AAACAATAAA
*
11515263 CCCTACGGAAACAAATCATAATACATTAATCATCGATACGCCAAAACTACTAACCTATGCAAACA
322 CCCTACGGAAACAAATCATAATACATTAATCATCGATACGCCAAAACTACTAAACTATGCAAACA
* * * *
11515328 AACCCCTACAAAATCATGATCTACTCAAAAGGATGAAACTATAGCAAAACAAATCCTAACATAAT
387 AACCCCTAAAAAATCATCATCTACTCAAAAAGATGAAACTATAGCAAAACAAATCCTAACACAAT
11515393 ATCATCACTACATTCA
452 ATCATCACTACATTCA
*
11515409 AAAT----C-------G--G-------AAC------ATATAATTCTCCTAAGCATAAAAATCGAA
1 AAATGGAACATATAATGAAGAATCAACAACAAATGAATATAATTCTCCTAAGCATAAAAATTGAA
* * * *
11515448 CCATAAACCCTACAGAAACAAATGATGATACATTAAGCATCAATAGGCTGGAACAATCAGCCTAG
66 CTATAAACCCTAGAGAAACAAATGATAATACATTAAGCATCAATAGGCTGGAACAATCAGCTTAG
11515513 GCAAACAAATCCTTACAAATTCATCAT-TGACTCGAAAAGGATGAAACTATGGAGAAACAAACCC
131 GCAAACAAATCCTTACAAATTCATCATCT-ACTCG-AAAGGATGAAACTATGGAGAAACAAACCC
* * ** *
11515577 TAACATATCATTATCACTACA-AGCAACCAAGGATGGACATATATAA-TCAAATTTCACCTTAAT
194 TAACATATCATTGTCACTACATA-CAACTAAGGATTAACAGATATAATTC-AATTTCACCTTAAT
11515640 A
257 A
11515641 TCCGCAGGAA
Statistics
Matches: 627, Mismatches: 66, Indels: 46
0.85 0.09 0.06
Matches are distributed among these distances:
440 1 0.00
441 117 0.19
442 81 0.13
447 3 0.00
456 1 0.00
458 1 0.00
465 1 0.00
469 3 0.00
470 416 0.66
471 3 0.00
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.23
Consensus pattern (467 bp):
AAATGGAACATATAATGAAGAATCAACAACAAATGAATATAATTCTCCTAAGCATAAAAATTGAA
CTATAAACCCTAGAGAAACAAATGATAATACATTAAGCATCAATAGGCTGGAACAATCAGCTTAG
GCAAACAAATCCTTACAAATTCATCATCTACTCGAAAGGATGAAACTATGGAGAAACAAACCCTA
ACATATCATTGTCACTACATACAACTAAGGATTAACAGATATAATTCAATTTCACCTTAATACAA
AATAAAGCAATTCAACAACGAATGAATATAATTCTCCTAAGCATAAAAACTAAACAATAAACCCT
ACGGAAACAAATCATAATACATTAATCATCGATACGCCAAAACTACTAAACTATGCAAACAAACC
CCTAAAAAATCATCATCTACTCAAAAAGATGAAACTATAGCAAAACAAATCCTAACACAATATCA
TCACTACATTCA
Found at i:11515403 original size:249 final size:249
Alignment explanation
Indices: 11514953--11515405 Score: 590
Period size: 249 Copynumber: 1.8 Consensus size: 249
11514943 AGGAACATAT
* ** **
11514953 AATGAAGCAACTCAACAACAAATGAATATAATTCTCCTAAGCATAAACATTGAACTGTAAACCCT
1 AATGAAGCAACTCAACAACAAATGAATATAATTCTCCTAAGCATAAAAATCAAACAATAAACCCT
* * * * * * *
11515018 AGAGAAACAAATGATAATACATTAAGCATTGATAGGCCAGAACAATCAGCTTAGGCAAACAAATC
66 AGAGAAACAAATCATAATACATTAAGCATCGATACGCCAAAACAATCAACCTAGGCAAACAAACC
* * * * **
11515083 CTTACAAATTCATAATCTACTCGAAAGGATGAAACCATGGAGAAACAAACCCTAACATATCATTG
131 CCTACAAAATCATAATCTACTCAAAAGGATGAAACCATGCAGAAACAAACCCTAACATATCATCA
11515148 TCACTACATACAACTAAGGATTAACAGATATAATTCAATTTTACCTTAATACAC
196 TCACTACATACAACTAAGGATTAACAGATATAATTCAATTTTACCTTAATACAC
* * * *
11515202 AATGGAGCAATTCAACAACGAATGAATGTAATTCTCCTAAGCATAAAAATCAAACAATAAACCCT
1 AATGAAGCAACTCAACAACAAATGAATATAATTCTCCTAAGCATAAAAATCAAACAATAAACCCT
* * *
11515267 ACG-GAAACAAATCATAATACATTAATCATCGATACGCCAAAACTA-CTAACCTATGCAAACAAA
66 A-GAGAAACAAATCATAATACATTAAGCATCGATACGCCAAAACAATC-AACCTAGGCAAACAAA
* * *
11515330 CCCCTACAAAATCATGATCTACTCAAAAGGATGAAACTATAGCA-AAACAAATCCTAACATAAT-
129 CCCCTACAAAATCATAATCTACTCAAAAGGATGAAACCAT-GCAGAAACAAACCCTAACAT-ATC
11515393 ATCATCACTACAT
192 ATCATCACTACAT
11515406 TCAAAATCGG
Statistics
Matches: 172, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
248 1 0.01
249 166 0.97
250 5 0.03
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (249 bp):
AATGAAGCAACTCAACAACAAATGAATATAATTCTCCTAAGCATAAAAATCAAACAATAAACCCT
AGAGAAACAAATCATAATACATTAAGCATCGATACGCCAAAACAATCAACCTAGGCAAACAAACC
CCTACAAAATCATAATCTACTCAAAAGGATGAAACCATGCAGAAACAAACCCTAACATATCATCA
TCACTACATACAACTAAGGATTAACAGATATAATTCAATTTTACCTTAATACAC
Found at i:11522895 original size:2 final size:2
Alignment explanation
Indices: 11522883--11522922 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
11522873 GTAGAATAAG
*
11522883 CA CA AA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11522923 TATATAGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11531700 original size:33 final size:33
Alignment explanation
Indices: 11531663--11531729 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
11531653 TATAACCTAT
*
11531663 AATTTTTATATAAAATATAATATAAATACATAA
1 AATTTTAATATAAAATATAATATAAATACATAA
*** *
11531696 AATTTTAATATTTTATATAATATAAATATATAA
1 AATTTTAATATAAAATATAATATAAATACATAA
11531729 A
1 A
11531730 TTATCAAATC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (33 bp):
AATTTTAATATAAAATATAATATAAATACATAA
Found at i:11533023 original size:22 final size:22
Alignment explanation
Indices: 11532997--11533048 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
11532987 CCTTGCCACT
*
11532997 AAAT-AATAAAAGATTTATATAC
1 AAATAAAT-AAAGATTAATATAC
* *
11533019 AAATAAATAAGGATTAATATTC
1 AAATAAATAAAGATTAATATAC
11533041 AAATAAAT
1 AAATAAAT
11533049 CCTCAAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (22 bp):
AAATAAATAAAGATTAATATAC
Found at i:11534319 original size:30 final size:30
Alignment explanation
Indices: 11534280--11534336 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
11534270 TTATTTAATT
* * *
11534280 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
11534310 ATATTTATATTTAAAAAATAATATTTT
1 ATATATATATTTAAAAAATAATATTTT
11534337 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:11534352 original size:23 final size:22
Alignment explanation
Indices: 11534309--11534363 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 22
11534299 GATATTTTTA
11534309 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
11534329 AATATTTTATATTTTAAAAAAAT
1 AATATTTTATATTTT-AAAAAAT
11534352 AATATTTTATAT
1 AATATTTTATAT
11534364 AGTATCGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.12
21 6 0.19
22 3 0.09
23 19 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:11535752 original size:21 final size:22
Alignment explanation
Indices: 11535715--11535756 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
11535705 TTAAAAAAAT
11535715 TATATTATATCACTTTCATATA
1 TATATTATATCACTTTCATATA
11535737 TATATATATAT-A-TTTCATAT
1 TATAT-TATATCACTTTCATAT
11535757 CATGTAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (22 bp):
TATATTATATCACTTTCATATA
Found at i:11541946 original size:40 final size:39
Alignment explanation
Indices: 11541877--11541955 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 39
11541867 AAATTATAAC
11541877 ATATAATTTTTACATAAAATATGACACAAAT-ATACAAAT
1 ATATAATTTTTACATAAAATATGACACAAATGAT-CAAAT
*
11541916 ATATAATATTTTACATAATACA-AT-ATACAAATGATCAAAT
1 ATATAAT-TTTTACATAA-A-ATATGACACAAATGATCAAAT
11541956 CTGTCACCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
39 7 0.20
40 22 0.63
41 5 0.14
42 1 0.03
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (39 bp):
ATATAATTTTTACATAAAATATGACACAAATGATCAAAT
Found at i:11543279 original size:31 final size:34
Alignment explanation
Indices: 11543244--11543305 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 34
11543234 TTAATATTCG
11543244 AATAAATCATC-AAATTTTATT-T-TGAAATGCA
1 AATAAATCATCGAAATTTTATTATATGAAATGCA
* *
11543275 AATAAGTCATCGAGATTTTATTATATGAAAT
1 AATAAATCATCGAAATTTTATTATATGAAAT
11543306 TAAAACTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 10 0.38
32 9 0.35
33 1 0.04
34 6 0.23
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.39
Consensus pattern (34 bp):
AATAAATCATCGAAATTTTATTATATGAAATGCA
Found at i:11544350 original size:97 final size:96
Alignment explanation
Indices: 11544172--11544360 Score: 215
Period size: 97 Copynumber: 2.0 Consensus size: 96
11544162 TATTTGAGAA
* *
11544172 TTTTATAAAAAATAAAAATTTTAATCATACCAAATTATTAGAAAATTTAAATATCTAAATTAAGT
1 TTTTATAAAAAATAAAAATTTTAATCATACCAAAATATTAGAAAATTTAAATATCTAAATTAAGA
11544237 ATTATCAAATTATTGAAAGATTTAATGAGTTT
66 ATTATCAAATTATTG-AAGATTTAATGAGTTT
* *** * * *
11544269 TTTTATCAAAAATAATTTTTTTAATCTTATCAAAATATTA-AAAGATTTAAATTTC-AAATTAA-
1 TTTTATAAAAAATAAAAATTTTAATCATACCAAAATATTAGAAA-ATTTAAATATCTAAATTAAG
*
11544331 AACTTA-CTAATCTATTTGAAGATTTAATGA
65 AA-TTATCAAAT-TA-TTGAAGATTTAATGA
11544361 TTCTTCTTAA
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
95 5 0.06
96 27 0.35
97 46 0.59
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (96 bp):
TTTTATAAAAAATAAAAATTTTAATCATACCAAAATATTAGAAAATTTAAATATCTAAATTAAGA
ATTATCAAATTATTGAAGATTTAATGAGTTT
Found at i:11546247 original size:12 final size:12
Alignment explanation
Indices: 11546230--11546255 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11546220 TTTTATTTGA
11546230 TATAAATTTTTT
1 TATAAATTTTTT
11546242 TATAAATTTTTT
1 TATAAATTTTTT
11546254 TA
1 TA
11546256 ATTGTAACTT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATAAATTTTTT
Found at i:11546267 original size:24 final size:24
Alignment explanation
Indices: 11546246--11546300 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
11546236 TTTTTTTATA
11546246 AATTTTTTTAATTGTAACTTTAAT
1 AATTTTTTTAATTGTAACTTTAAT
*
11546270 AATTTTTTTAATTGTAA-TTACAAT
1 AATTTTTTTAATTGTAACTT-TAAT
11546294 AATTTTT
1 AATTTTT
11546301 AACATTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (24 bp):
AATTTTTTTAATTGTAACTTTAAT
Found at i:11546518 original size:18 final size:18
Alignment explanation
Indices: 11546495--11546532 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
11546485 ACTAAAGAGA
*
11546495 TTATGTCAATGAATTTCT
1 TTATGTCAATGAACTTCT
11546513 TTATGTCAATGAACTTCT
1 TTATGTCAATGAACTTCT
11546531 TT
1 TT
11546533 GCACTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (18 bp):
TTATGTCAATGAACTTCT
Found at i:11547378 original size:18 final size:17
Alignment explanation
Indices: 11547344--11547450 Score: 56
Period size: 17 Copynumber: 6.0 Consensus size: 17
11547334 TAAATTTTTT
* *
11547344 AAAAAATTGAAATATTA
1 AAAAAATTAAAAAATTA
11547361 AAAAATATTAAAAAATTA
1 AAAAA-ATTAAAAAATTA
* * * *
11547379 TGAAAACTTAAAAAACTC
1 -AAAAAATTAAAAAATTA
11547397 AAAAAATTATGAAAAATTCA
1 AAAAAATTA--AAAAATT-A
**
11547417 AAAGAAA-TAAAATTTTA
1 AAA-AAATTAAAAAATTA
*
11547434 ATAAAAA-TAAAATATTA
1 A-AAAAATTAAAAAATTA
11547451 TTCAAATTGA
Statistics
Matches: 70, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
17 26 0.37
18 26 0.37
19 10 0.14
20 5 0.07
21 3 0.04
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (17 bp):
AAAAAATTAAAAAATTA
Found at i:11547428 original size:27 final size:26
Alignment explanation
Indices: 11547343--11547428 Score: 86
Period size: 28 Copynumber: 3.2 Consensus size: 26
11547333 TTAAATTTTT
*
11547343 TAAAAAA-T-TGAAATATTAAAAAATA
1 TAAAAAATTATGAAAAATTAAAAAA-A
* *
11547368 TTAAAAAATTATGAAAACTTAAAAAAC
1 -TAAAAAATTATGAAAAATTAAAAAAA
11547395 TCAAAAAATTATGAAAAATTCAAAAGAAA
1 T-AAAAAATTATGAAAAATT-AAAA-AAA
11547424 TAAAA
1 TAAAA
11547429 TTTTAATAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
26 8 0.16
27 18 0.36
28 21 0.42
29 3 0.06
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (26 bp):
TAAAAAATTATGAAAAATTAAAAAAA
Found at i:11547683 original size:27 final size:28
Alignment explanation
Indices: 11547651--11547708 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
11547641 AAAATTTCTC
* *
11547651 TAATTTTTTAGAATGTTTCA-GATTTTT
1 TAATTTTTTAAAATGTTTCATAATTTTT
*
11547678 TAATTTTTTAAAATTTTTCATAATTTTT
1 TAATTTTTTAAAATGTTTCATAATTTTT
11547706 TAA
1 TAA
11547709 AAATTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.60
Consensus pattern (28 bp):
TAATTTTTTAAAATGTTTCATAATTTTT
Found at i:11547692 original size:10 final size:10
Alignment explanation
Indices: 11547679--11547727 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
11547669 CAGATTTTTT
11547679 AATTTTTTAA
1 AATTTTTTAA
* *
11547689 AATTTTTCAT
1 AATTTTTTAA
11547699 AATTTTTTAA
1 AATTTTTTAA
* *
11547709 AAATTTTAAA
1 AATTTTTTAA
11547719 GAATTTTTT
1 -AATTTTTT
11547728 TATTAATTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
10 24 0.80
11 6 0.20
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:11547723 original size:21 final size:20
Alignment explanation
Indices: 11547679--11547727 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
11547669 CAGATTTTTT
** *
11547679 AATTTTTTAAAATTTTTCAT
1 AATTTTTTAAAATTTTAAAG
11547699 AATTTTTTAAAAATTTTAAAG
1 AATTTTTT-AAAATTTTAAAG
11547720 AATTTTTT
1 AATTTTTT
11547728 TATTAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
AATTTTTTAAAATTTTAAAG
Found at i:11547887 original size:27 final size:27
Alignment explanation
Indices: 11547834--11547908 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
11547824 TTTATAAAAA
* * *
11547834 TTTTTATTTTTGAAAGTTTTCTTAATT
1 TTTTTATTTTTAAAAATTTTCTAAATT
11547861 TTTTTATTTTTAAAAATATTT-TAAATT
1 TTTTTATTTTTAAAAAT-TTTCTAAATT
*
11547888 TTATTTTTTTTTCAAAAATTT
1 TT-TTTATTTTT-AAAAATTT
11547909 CATTTAATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 22 0.54
28 13 0.32
29 6 0.15
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (27 bp):
TTTTTATTTTTAAAAATTTTCTAAATT
Found at i:11555075 original size:2 final size:2
Alignment explanation
Indices: 11555070--11555107 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11555060 AAAGGATAAC
11555070 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
11555108 GAAGATAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11556028 original size:15 final size:15
Alignment explanation
Indices: 11556010--11556088 Score: 61
Period size: 15 Copynumber: 4.9 Consensus size: 15
11556000 AATTTTTGTA
11556010 TTTTATATTTATTAT
1 TTTTATATTTATTAT
*
11556025 TTTTGTATTTATATAT
1 TTTTATATTTAT-TAT
*
11556041 TTTTCT-TTTATGTAT
1 TTTTATATTTAT-TAT
*
11556056 TTATTATTTATTTTTTAT
1 TT-TTA--TATTTATTAT
*
11556074 TATTACTATTTATTA
1 TTTTA-TATTTATTA
11556089 ATATATATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
15 21 0.41
16 18 0.35
17 3 0.06
18 5 0.10
19 4 0.08
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (15 bp):
TTTTATATTTATTAT
Found at i:11556039 original size:23 final size:23
Alignment explanation
Indices: 11556001--11556071 Score: 96
Period size: 22 Copynumber: 3.2 Consensus size: 23
11555991 TTTTTTTTTA
11556001 ATTTTTGTATTT-TATATTTATT
1 ATTTTTGTATTTATATATTTATT
11556023 ATTTTTGTATTTATATATTT-TT
1 ATTTTTGTATTTATATATTTATT
*
11556045 CTTTTATGTATTTAT-TATTTATT
1 ATTTT-TGTATTTATATATTTATT
11556068 -TTTT
1 ATTTT
11556072 ATTATTACTA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
22 27 0.60
23 18 0.40
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.73
Consensus pattern (23 bp):
ATTTTTGTATTTATATATTTATT
Found at i:11556060 original size:19 final size:19
Alignment explanation
Indices: 11556015--11556064 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
11556005 TTGTATTTTA
*
11556015 TATTTATTATTTTTGTATT
1 TATTTATTATTTTTGTATG
* *
11556034 TATATATT-TTTCTTTTATG
1 TATTTATTATTT-TTGTATG
11556053 TATTTATTATTT
1 TATTTATTATTT
11556065 ATTTTTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 19 0.76
20 3 0.12
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
TATTTATTATTTTTGTATG
Found at i:11556065 original size:7 final size:7
Alignment explanation
Indices: 11556011--11556088 Score: 63
Period size: 7 Copynumber: 11.0 Consensus size: 7
11556001 ATTTTTGTAT
11556011 TTTA-TA
1 TTTATTA
11556017 TTTATTA
1 TTTATTA
*
11556024 TTTTTGTA
1 TTTAT-TA
11556032 TTTATATA
1 TTTAT-TA
*
11556040 TTT-TTCT
1 TTTATT-A
11556047 TTTATGTA
1 TTTAT-TA
11556055 TTTATTA
1 TTTATTA
*
11556062 TTTATTT
1 TTTATTA
11556069 TTTATTA
1 TTTATTA
*
11556076 -TTACTA
1 TTTATTA
11556082 TTTATTA
1 TTTATTA
11556089 ATATATATAT
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
6 10 0.18
7 29 0.51
8 17 0.30
9 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (7 bp):
TTTATTA
Found at i:11556169 original size:12 final size:12
Alignment explanation
Indices: 11556152--11556204 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
11556142 TTTTCTATTA
*
11556152 ATATTTATATAT
1 ATATTTATCTAT
11556164 ATATTTATCTGAT
1 ATATTTATCT-AT
*
11556177 -TATATAT-TAT
1 ATATTTATCTAT
11556187 A-ATTTATCTAT
1 ATATTTATCTAT
11556198 -TATTTAT
1 ATATTTAT
11556205 TTTTAGTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
10 7 0.21
11 10 0.29
12 15 0.44
13 2 0.06
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (12 bp):
ATATTTATCTAT
Found at i:11556199 original size:21 final size:22
Alignment explanation
Indices: 11556156--11556242 Score: 103
Period size: 21 Copynumber: 4.2 Consensus size: 22
11556146 CTATTAATAT
11556156 TTATATA-TA-TATTTATCTGA
1 TTATATATTATTATTTATCTGA
*
11556176 TTATATATTATAATTTATCT-A
1 TTATATATTATTATTTATCTGA
* * *
11556197 TTATTTATTTTTAGTTATCTG-
1 TTATATATTATTATTTATCTGA
11556218 TTA-ATATTATTATTTATCTGA
1 TTATATATTATTATTTATCTGA
11556239 TTAT
1 TTAT
11556243 TTTCTTTTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
20 21 0.39
21 25 0.46
22 8 0.15
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (22 bp):
TTATATATTATTATTTATCTGA
Found at i:11556260 original size:44 final size:41
Alignment explanation
Indices: 11556168--11556265 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 41
11556158 ATATATATAT
*
11556168 TTATCTGATTATATATTATAATTTATCTATTATTTATTTTTAG
1 TTATCTG-TTA-ATATTATAATTTATCTATTATTTATTTTTAA
* *
11556211 TTATCTGTTAATATTATTATTTATCTGATTATTTTCTTTTTAAA
1 TTATCTGTTAATATTATAATTTATCT-ATTA-TTTATTTTT-AA
*
11556255 TTATCTATTAA
1 TTATCTGTTAA
11556266 CAATTTTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 15 0.31
42 7 0.15
43 15 0.31
44 11 0.23
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (41 bp):
TTATCTGTTAATATTATAATTTATCTATTATTTATTTTTAA
Found at i:11556275 original size:44 final size:41
Alignment explanation
Indices: 11556168--11556276 Score: 103
Period size: 44 Copynumber: 2.5 Consensus size: 41
11556158 ATATATATAT
* * *
11556168 TTATCTGATTATATATTATAATTTATCTATTATTTATTTTTAG
1 TTATCT-ATTA-AAATTATTATTTATCTATTATTTATTTTTAA
* * *
11556211 TTATCTGTTAATATTATTATTTATCTGATTATTTTCTTTTTAAA
1 TTATCTATTAAAATTATTATTTATCT-ATTA-TTTATTTTT-AA
11556255 TTATCTATTAACAATT-TTATTT
1 TTATCTATTAA-AATTATTATTT
11556277 TTTTTTTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
41 15 0.27
42 7 0.12
43 14 0.25
44 17 0.30
45 3 0.05
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (41 bp):
TTATCTATTAAAATTATTATTTATCTATTATTTATTTTTAA
Found at i:11557243 original size:58 final size:58
Alignment explanation
Indices: 11557170--11557816 Score: 531
Period size: 58 Copynumber: 10.9 Consensus size: 58
11557160 TTATTTTTTT
* *
11557170 AAATAAA-ATTCAAAAAAATTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAATAAATTTTCAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAA
** * * *
11557228 AAATAAATTTAAAAAAAAAAAAAGAGGTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTCGA
1 AAATAAATTT----TCAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AA
* * * *
11557291 AATTAAAAGTTTCTAAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAAT-AAATTTTCAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTTCTTAA
* ** *** * **
11557350 GAATAAATTTTTTTTTTAAAAAAGGGTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTCGA
1 AAATAAA----TTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAA
* * * * * * *
11557412 AATTAAAAGTTTCCAAAAAATATTTTTAAGAAAAAGTTGACAGTATCAATTTTTATTAA
1 AAAT-AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAA
* * * * * * **
11557471 AAATAAATTTTCAAAAAAAAAAGATTTT-AAGAAAAGATGAAAATATCAATTTTCCTCGA
1 AAATAAATTTTC-AAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAA
*
11557530 AATTAAAGTTTTC-AAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTTCTTAA
1 AAATAAA-TTTTCAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTTCTTAA
* *** *
11557588 AGATAAATTTTC--AAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
1 AAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AA
* * * *
11557645 AAA-AAGCTTTCCATAAAAAAATATTTTTGGGGAAAAGTTGAAAGTGTCAATTTTTCTTAA
1 AAATAA-ATTTTC--AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAA
* * * * *
11557705 AAATAAGTTTTCAAAAATGA-ATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTCAA
1 AAATAAATTTTCAAAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAA
* * * *
11557763 AATTAAAGTTTCAAAAGAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTC
1 AAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
11557817 CTACACAAAA
Statistics
Matches: 462, Mismatches: 96, Indels: 62
0.75 0.15 0.10
Matches are distributed among these distances:
56 38 0.08
57 19 0.04
58 136 0.29
59 105 0.23
60 31 0.07
61 38 0.08
62 49 0.11
63 41 0.09
64 5 0.01
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (58 bp):
AAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAA
Found at i:11557261 original size:63 final size:58
Alignment explanation
Indices: 11557192--11557814 Score: 351
Period size: 59 Copynumber: 10.5 Consensus size: 58
11557182 AAAAAATTAT
*
11557192 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAAAAAAAAAAAAAGAGG
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT-----ATAAAAAAGAGG
* * * * *
11557255 TTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAATTAAAAGTTTCTAAAAAATA-T
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAAT-AAA-TTTATAAAAAAGAGG
* *
11557314 TTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTTTTTTTAAAAAAG-GG
1 TTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-----TTTATAAAAAAGAGG
* * ** * ** * *
11557376 TTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTCGAAATTAAAAGTTTCCAAAAAATA-T
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTATAAAAAAGAGG
* * * ** * * *
11557435 TTTTAAGAAAAAGTTGACAGTATCAATTTTTATTAAAAATAAATTTTCAAAAAAAAAAGA
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTT-ATAAAAAAGAGG
* * * ** * * *
11557495 TTTT-AAGAAAAGATGAAAATATCAATTTTCCTCGAAATTAAAGTTT-TCAAAAAATA-T
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTAT-AAAAAAGAGG
* * * ** *
11557552 TTTTG-GAGAAAAGTTGAAAGTATCAATTTTTCTTAAAGATAAATTT-TCAAAGGGA-T
1 TTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTATAAAAAAGAGG
* **
11557608 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAA-AAGCTTTCCATAAAAAA-ATAT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAA-ATTT--ATAAAAAAGA-GG
* * * * * **
11557669 TTTTGGGGAAAAGTTGAAAGTGTCAATTTTTCTTAAAAATAAGTTT-TCAAAAATGAAT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAT-AAAAAAGAGG
* * * * * * * *
11557727 TTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTCAAAATTAAAGTTTCA-AAAGAATA-T
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTT-ATAAAAAAGAGG
*
11557785 TTTTGAAGAAAAGTTGAAAGTATCAATTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTT
11557815 TCCTACACAA
Statistics
Matches: 441, Mismatches: 87, Indels: 69
0.74 0.15 0.12
Matches are distributed among these distances:
56 38 0.09
57 17 0.04
58 117 0.27
59 120 0.27
60 26 0.06
61 34 0.08
62 45 0.10
63 38 0.09
64 3 0.01
65 3 0.01
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.36
Consensus pattern (58 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTATAAAAAAGAGG
Found at i:11557338 original size:59 final size:57
Alignment explanation
Indices: 11557255--11557814 Score: 396
Period size: 59 Copynumber: 9.5 Consensus size: 57
11557245 AAAAAAGAGG
11557255 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAAGTTTCTAAAAAATAT
1 TTTTGA-GAAAAGTTGAAAGTATCAATTTTCTT-GAAATTAAAAGTTTCTAAAAAATAT
* ** * ***
11557314 TTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTT-AAGAATAAATTTTTTTTTTAAAAAAGGG
1 TTTT-GAGAAAAGTTGAAAGTATCAATTTT-CTTGAA-ATTAAA---AGTTTCTAAAAAATAT
* * *
11557376 TTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTCGAAATTAAAAGTTTCCAAAAAATAT
1 TTTTGA-GAAAAGTTGAAAGTATCAA-TTTTCTTGAAATTAAAAGTTTCTAAAAAATAT
* * * * * * * * *
11557435 TTTTAAGAAAAAGTTGACAGTATCAATTTTTATTAAAAAT-AAATTTTCAAAAAAAAAAGA
1 TTTTGAG-AAAAGTTGAAAGTATCAA-TTTTCTTGAAATTAAAAGTTTC-TAAAAAATA-T
* * * *
11557495 TTTTAAGAAAAGATGAAAATATCAATTTTCCTCGAAATT-AAAGTTT-TCAAAAAATAT
1 TTTTGAGAAAAGTTGAAAGTATCAATTTT-CTTGAAATTAAAAGTTTCT-AAAAAATAT
* * ***
11557552 TTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTT-AAA-GATAAA-TTT-TCAAAGGGAT
1 TTTT-GAGAAAAGTTGAAAGTATCAA-TTTTCTTGAAATTA-AAAGTTTCTAAAAAATAT
11557608 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA--AAAAGCTTTCCATAAAAAAATAT
1 TTTTGA-GAAAAGTTGAAAGTATCAATTTT-CTTGAAATTAAAAG-TTT-C-T-AAAAAATAT
* * *
11557669 TTTTGGGGAAAAGTTGAAAGTGTCAATTTTTCTT-AAA--AATAAGTTT-TCAAAAATGAAT
1 TTTT-GAGAAAAGTTGAAAGTATCAA-TTTTCTTGAAATTAA-AAGTTTCTAAAAAAT--AT
* **
11557727 TTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTCAAAATT-AAAGTTTC-AAAAGAATAT
1 TTTTGAG-AAAAGTTGAAAGTATCAA-TTTTCTTGAAATTAAAAGTTTCTAAAA-AATAT
11557785 TTTTGAAGAAAAGTTGAAAGTATCAATTTT
1 TTTTG-AGAAAAGTTGAAAGTATCAATTTT
11557815 TCCTACACAA
Statistics
Matches: 401, Mismatches: 61, Indels: 80
0.74 0.11 0.15
Matches are distributed among these distances:
55 9 0.02
56 38 0.09
57 24 0.06
58 97 0.24
59 123 0.31
60 25 0.06
61 35 0.09
62 44 0.11
63 6 0.01
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (57 bp):
TTTTGAGAAAAGTTGAAAGTATCAATTTTCTTGAAATTAAAAGTTTCTAAAAAATAT
Found at i:11568222 original size:9 final size:9
Alignment explanation
Indices: 11568208--11568248 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
11568198 TATGCTTGAA
11568208 AAAAAAATG
1 AAAAAAATG
11568217 -AAAAAATG
1 AAAAAAATG
*
11568225 AAAGAAATG
1 AAAAAAATG
*
11568234 AAAAAAAGG
1 AAAAAAATG
11568243 AAAAAA
1 AAAAAA
11568249 TGTGAATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 8 0.29
9 20 0.71
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (9 bp):
AAAAAAATG
Found at i:11568249 original size:17 final size:16
Alignment explanation
Indices: 11568209--11568250 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
11568199 ATGCTTGAAA
*
11568209 AAAAAATGAAAAAATG
1 AAAAAATGAAAAAAGG
11568225 AAAGAAATGAAAAAAAGG
1 AAA-AAATG-AAAAAAGG
11568243 AAAAAATG
1 AAAAAATG
11568251 TGAATGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 10 0.43
18 10 0.43
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.10
Consensus pattern (16 bp):
AAAAAATGAAAAAAGG
Found at i:11569232 original size:22 final size:22
Alignment explanation
Indices: 11569192--11569237 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
11569182 AATCTCCTGA
*
11569192 AATTCCTTCAAACACGATTTTC
1 AATTCCTTCAAACACGATTGTC
* * *
11569214 AATTCCTTTAGACATGATTGTC
1 AATTCCTTCAAACACGATTGTC
11569236 AA
1 AA
11569238 GGAGCAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.37
Consensus pattern (22 bp):
AATTCCTTCAAACACGATTGTC
Found at i:11569312 original size:42 final size:42
Alignment explanation
Indices: 11569237--11569493 Score: 313
Period size: 42 Copynumber: 6.1 Consensus size: 42
11569227 ATGATTGTCA
* *
11569237 AGGAGCAATTTA-CTTTTCAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCCATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * *
11569278 AGGAGCCATTTATTTTTTTAAAGTTGTTAAGCCTCTGATTAG
1 AGGAGCCATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * ** *
11569320 AAGAGCCATTTATTTTTTCAAAGTTGTCAAACCTCTGATTAG
1 AGGAGCCATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAG
* *
11569362 AGGAGCTATTTA-TTTTTCTAAAGTCATTGAGCCTCTGATTAG
1 AGGAGCCATTTATTTTTTC-AAAGTCGTTGAGCCTCTGATTAG
* ** *
11569404 AAGAGTTATTTATTTTTTTAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCCATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAG
* *
11569446 AGGAGTCATTTATTTTTCCAAAGTCGTTGAGCCTCT-ACTTAG
1 AGGAGCCATTTATTTTTTCAAAGTCGTTGAGCCTCTGA-TTAG
11569488 AGGAGC
1 AGGAGC
11569494 TTTGATCAAA
Statistics
Matches: 187, Mismatches: 25, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
41 18 0.10
42 164 0.88
43 5 0.03
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (42 bp):
AGGAGCCATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAG
Found at i:11569437 original size:126 final size:125
Alignment explanation
Indices: 11569237--11569469 Score: 358
Period size: 126 Copynumber: 1.9 Consensus size: 125
11569227 ATGATTGTCA
* *
11569237 AGGAGCAATTTACTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTTTAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCATTGAGCCTCTGATTAGAAGAGCCATTTATTTTTTTAAAGT
* *
11569302 TGTTAAGCCTCTGATTAGAAGAGCCATTTATTTTTTCAAAGTTGTCAAACCTCTGATTAG
66 CGTTAAGCCTCTGATTAGAAGAGCCATTTATTTTTCCAAAGTTGTCAAACCTCTGATTAG
* * **
11569362 AGGAGCTATTTATTTTTCTAAAGTCATTGAGCCTCTGATTAGAAGAGTTATTTATTTTTTTAAAG
1 AGGAGCAATTTACTTTTC-AAAGTCATTGAGCCTCTGATTAGAAGAGCCATTTATTTTTTTAAAG
* * *
11569427 TCGTTGAGCCTCTGATTAGAGGAGTCATTTATTTTTCCAAAGT
65 TCGTTAAGCCTCTGATTAGAAGAGCCATTTATTTTTCCAAAGT
11569470 CGTTGAGCCT
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
125 16 0.17
126 80 0.83
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.40
Consensus pattern (125 bp):
AGGAGCAATTTACTTTTCAAAGTCATTGAGCCTCTGATTAGAAGAGCCATTTATTTTTTTAAAGT
CGTTAAGCCTCTGATTAGAAGAGCCATTTATTTTTCCAAAGTTGTCAAACCTCTGATTAG
Found at i:11569850 original size:15 final size:15
Alignment explanation
Indices: 11569817--11569901 Score: 74
Period size: 15 Copynumber: 5.9 Consensus size: 15
11569807 TGTAAGCCCA
11569817 TTTTATATTT-TTA-
1 TTTTATATTTATTAT
11569830 TTTTATATTTATTAT
1 TTTTATATTTATTAT
*
11569845 TTTTATATATATT-T
1 TTTTATATTTATTAT
*
11569859 CTTT-TATTT-TTAT
1 TTTTATATTTATTAT
* *
11569872 CTTATGTATTTATTAT
1 -TTTTATATTTATTAT
11569888 TTATT-TATTTATTA
1 TT-TTATATTTATTA
11569902 ATACTATTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
12 2 0.03
13 15 0.25
14 9 0.15
15 28 0.47
16 5 0.08
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.72
Consensus pattern (15 bp):
TTTTATATTTATTAT
Found at i:11569911 original size:13 final size:13
Alignment explanation
Indices: 11569893--11569917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11569883 ATTATTTATT
11569893 TATTTATTAATAC
1 TATTTATTAATAC
11569906 TATTTATTAATA
1 TATTTATTAATA
11569918 TATATATCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTATTAATAC
Found at i:11570033 original size:21 final size:21
Alignment explanation
Indices: 11569987--11570081 Score: 70
Period size: 21 Copynumber: 4.5 Consensus size: 21
11569977 ATATATATAT
* *
11569987 TTATCTGATTATATA-TTATAA
1 TTATCT-ATTATTTATTTTTAA
*
11570008 TTTATCTATTATTTATTTTTAG
1 -TTATCTATTATTTATTTTTAA
* * *
11570030 TTATCTGTTA-ATATTTTTAT
1 TTATCTATTATTTATTTTTAA
*
11570050 TTATTTGATTATTT-TTTTTAAA
1 TTATCT-ATTATTTATTTTT-AA
11570072 TTATCTATTA
1 TTATCTATTA
11570082 ACATTTTTTA
Statistics
Matches: 58, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
20 13 0.22
21 28 0.48
22 17 0.29
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (21 bp):
TTATCTATTATTTATTTTTAA
Found at i:11570076 original size:42 final size:41
Alignment explanation
Indices: 11569987--11570094 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 41
11569977 ATATATATAT
* * *
11569987 TTATCTGATTATATATTATAATTTATCTATTATTTATTTTTAG
1 TTATCTG-TTA-ATATTTTTATTTATCTATTATTTATTTTTAA
*
11570030 TTATCTGTTAATATTTTTATTTATTTGATTATTT-TTTTTAAA
1 TTATCTGTTAATATTTTTATTTATCT-ATTATTTATTTTT-AA
* *
11570072 TTATCTATTAACATTTTTTATTT
1 TTATCTGTTAATA-TTTTTATTT
11570095 TCTTTTTCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
41 18 0.32
42 22 0.39
43 16 0.29
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.64
Consensus pattern (41 bp):
TTATCTGTTAATATTTTTATTTATCTATTATTTATTTTTAA
Found at i:11570962 original size:11 final size:12
Alignment explanation
Indices: 11570945--11570979 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
11570935 TGTTTAATAT
11570945 TTTTATTTTTTA
1 TTTTATTTTTTA
11570957 -TTTATTTTTTTA
1 TTTTA-TTTTTTA
11570969 TTTTATTTTTT
1 TTTTATTTTTT
11570980 TAAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 4 0.19
12 13 0.62
13 4 0.19
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:11570964 original size:17 final size:17
Alignment explanation
Indices: 11570942--11570980 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11570932 AATTGTTTAA
11570942 TATTTTTATT-TTTTATT
1 TATTTTT-TTATTTTATT
11570959 TATTTTTTTATTTTATT
1 TATTTTTTTATTTTATT
11570976 T-TTTT
1 TATTTT
11570981 AAAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TATTTTTTTATTTTATT
Found at i:11570967 original size:12 final size:13
Alignment explanation
Indices: 11570945--11570981 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
11570935 TGTTTAATAT
11570945 TTTTA-TTTTTTA
1 TTTTATTTTTTTA
11570957 -TTTATTTTTTTA
1 TTTTATTTTTTTA
11570969 TTTTATTTTTTTA
1 TTTTATTTTTTTA
11570982 AAATAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.17
12 7 0.30
13 12 0.52
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:11571153 original size:62 final size:61
Alignment explanation
Indices: 11571004--11571338 Score: 332
Period size: 62 Copynumber: 5.5 Consensus size: 61
11570994 AAAAAATTAT
* * * *
11571004 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTTTTTTAAAAAAAAAGAGG
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAA---TTTTTCAAAAAAAAAAAAG
11571069 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAA-TTTTCAAAAAAAAAAAAAG
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAATTTTTC-AAAAAAAAAAAAG
* * * * *
11571131 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTTC----AAAAAATAT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAAT-AAATTTTTCAAAAAAAAAAAAG
*
11571190 TTTTCG-GTAAAAGTTGAAAGTATCAATTTTTCCTTAAAATAAA-TTTTCAAAAAAAAAAAAG
1 TTTT-GAGGAAAAGTTGAAAGTATCAA-TTTTCCTTAAAATAAATTTTTCAAAAAAAAAAAAG
* * * * * * *
11571251 ATTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAGTTTTC----AAAAAATAT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAATAAATTTTTCAAAAAAAAAAAAG
*
11571309 TTTTGAGGAAAAGTTGAAATTATCAATTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTT
11571339 TAAAAAAAAT
Statistics
Matches: 235, Mismatches: 22, Indels: 33
0.81 0.08 0.11
Matches are distributed among these distances:
57 5 0.02
58 38 0.16
59 34 0.14
60 16 0.07
61 39 0.17
62 51 0.22
63 5 0.02
64 5 0.02
65 42 0.18
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.36
Consensus pattern (61 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTTTCAAAAAAAAAAAAG
Found at i:11571333 original size:119 final size:119
Alignment explanation
Indices: 11571069--11571461 Score: 487
Period size: 119 Copynumber: 3.3 Consensus size: 119
11571059 AAAAAAGAGG
11571069 TTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTTAAGAATAAATTTTCAAAAAAAAAAAAAGTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCCTTAA-AATAAATTTTC-AAAAAAAAAAAAGTT
11571133 TTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTTCAAAAAATAT
64 TTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAAGTTTTCAAAAAATAT
* *
11571190 TTTTCG-GTAAAAGTTGAAAGTATCAATTTTTCCTTAAAATAAATTTTCAAAAAAAAAAAAGATT
1 TTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCCTTAAAATAAATTTTCAAAAAAAAAAAAGTTT
*
11571254 TGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAATAT
65 TGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAATAT
* **** * *** *
11571309 TTTTGAGGAAAAGTTGAAATTATCAATTTTTAAAAAAAATAAGTTTTC-----AAAGGGATTTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCCTTAAAATAAATTTTCAAAAAAAAAAAAGTTTT
* * *
11571369 GAGGAAAAGTTGAAAGTATTAATTTTCTTCGAAATTAAAGTTTCCAAAAACAAAAATAT
66 GAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTC----A-AAAAATAT
*
11571428 TTTT-ATGAAAAAGTTGAAAGTATCAATTTTTCCT
1 TTTTGA-GGAAAAGTTGAAAGTATCAATTTTTCCT
11571462 GCACAAAAAC
Statistics
Matches: 239, Mismatches: 24, Indels: 20
0.84 0.08 0.07
Matches are distributed among these distances:
114 48 0.20
118 3 0.01
119 92 0.38
120 51 0.21
121 34 0.14
122 11 0.05
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (119 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCCTTAAAATAAATTTTCAAAAAAAAAAAAGTTTT
GAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAATAT
Found at i:11573756 original size:23 final size:23
Alignment explanation
Indices: 11573730--11573773 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11573720 GTTTTCATTT
11573730 TCATAATTTTTTAATTTTTTTAA
1 TCATAATTTTTTAATTTTTTTAA
* **
11573753 TCATGATTTTTTTTTTTTTTT
1 TCATAATTTTTTAATTTTTTT
11573774 TTACATTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (23 bp):
TCATAATTTTTTAATTTTTTTAA
Found at i:11574979 original size:20 final size:20
Alignment explanation
Indices: 11574956--11575003 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
11574946 AAAAGATCTA
*
11574956 AAAATTTTATAAAAATTATC
1 AAAATTTTAGAAAAATTATC
** * *
11574976 AAAAAATTCGAAAAATTATG
1 AAAATTTTAGAAAAATTATC
11574996 AAAATTTT
1 AAAATTTT
11575004 TCTTTTTTTT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAATTTTAGAAAAATTATC
Found at i:11575086 original size:17 final size:18
Alignment explanation
Indices: 11575054--11575088 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11575044 TTTATAACTA
*
11575054 TTTTTGGATCTTTTTATT
1 TTTTTGGATCTCTTTATT
11575072 TTTTTGGAT-TCTTTATT
1 TTTTTGGATCTCTTTATT
11575089 ACAATATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.11, C:0.06, G:0.11, T:0.71
Consensus pattern (18 bp):
TTTTTGGATCTCTTTATT
Found at i:11575305 original size:17 final size:17
Alignment explanation
Indices: 11575279--11575325 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
11575269 ATGAATTTTT
* *
11575279 TTTTAATTTTAAGATAA
1 TTTTATTTTTAAGAAAA
*
11575296 TTTTATTTTTATTGAAAA
1 TTTTATTTTTA-AGAAAA
11575314 TTTTATTTTTAA
1 TTTTATTTTTAA
11575326 AATGTTCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (17 bp):
TTTTATTTTTAAGAAAA
Found at i:11575347 original size:8 final size:9
Alignment explanation
Indices: 11575318--11575386 Score: 54
Period size: 8 Copynumber: 7.8 Consensus size: 9
11575308 TGAAAATTTT
*
11575318 ATTTTTAAA
1 ATTTTTATA
* *
11575327 ATGTTCATA
1 ATTTTTATA
11575336 ATTTTT-TA
1 ATTTTTATA
11575344 ATTTTTATA
1 ATTTTTATA
* *
11575353 ATTTCTAAAA
1 ATTT-TTATA
11575363 ATATTTTAT-
1 AT-TTTTATA
11575372 ATTTTTA-A
1 ATTTTTATA
11575380 ATTTTTA
1 ATTTTTA
11575387 AATAATTTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
8 20 0.43
9 18 0.38
10 7 0.15
11 2 0.04
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.59
Consensus pattern (9 bp):
ATTTTTATA
Found at i:11575364 original size:36 final size:36
Alignment explanation
Indices: 11575318--11575421 Score: 97
Period size: 36 Copynumber: 2.8 Consensus size: 36
11575308 TGAAAATTTT
* * *
11575318 ATTTTTAAAATGTTCATA-ATTTTTTAATTTTT-ATA
1 ATTTTAAAAATATT-ATATATTTTTAAATTTTTAATA
*
11575353 ATTTCTAAAAATATTTTATATTTTTAAATTTTTAAATA
1 ATTT-TAAAAATATTATATATTTTTAAATTTTT-AATA
*
11575391 ATTTTAAAAATATT-TGTATTTATTTAAATTT
1 ATTTTAAAAATATTATATA-TT-TTTAAATTT
11575422 GTTTCAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
35 6 0.10
36 24 0.41
37 12 0.21
38 16 0.28
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (36 bp):
ATTTTAAAAATATTATATATTTTTAAATTTTTAATA
Found at i:11575369 original size:27 final size:25
Alignment explanation
Indices: 11575339--11575397 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 25
11575329 GTTCATAATT
11575339 TTTTAATTTTTATAATTTCTAAAAATA
1 TTTTAATTTTTA-AATTTCTAAAAA-A
* *
11575366 TTTTATATTTTTAAATTTTTAAATAA
1 TTTTA-ATTTTTAAATTTCTAAAAAA
11575392 TTTTAA
1 TTTTAA
11575398 AAATATTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 1 0.03
26 6 0.21
27 15 0.52
28 7 0.24
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTTAATTTTTAAATTTCTAAAAAA
Found at i:11575371 original size:20 final size:19
Alignment explanation
Indices: 11575346--11575405 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
11575336 ATTTTTTAAT
11575346 TTTTATAATTTCTAAAAATA
1 TTTTATAATTT-TAAAAATA
*
11575366 TTTTAT-ATTTT-TAAAT-
1 TTTTATAATTTTAAAAATA
11575382 TTTTAAATAATTTTAAAAATA
1 TTTT--ATAATTTTAAAAATA
11575403 TTT
1 TTT
11575406 GTATTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
16 4 0.12
17 4 0.12
18 3 0.09
19 9 0.27
20 10 0.30
21 3 0.09
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTATAATTTTAAAAATA
Found at i:11575417 original size:38 final size:35
Alignment explanation
Indices: 11575336--11575421 Score: 113
Period size: 38 Copynumber: 2.4 Consensus size: 35
11575326 AATGTTCATA
11575336 ATTTTTT-AATTTTTATAATTTCTAAAAATATTTT
1 ATTTTTTAAATTTTTATAATTTCTAAAAATATTTT
11575370 ATATTTTTAAATTTTTAAATAATTT-TAAAAATATTTGT
1 AT-TTTTTAAATTTTT--ATAATTTCTAAAAATATTT-T
11575408 ATTTATTTAAATTT
1 ATTT-TTTAAATTT
11575422 GTTTCAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
34 2 0.04
35 5 0.11
36 7 0.15
37 13 0.28
38 19 0.41
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (35 bp):
ATTTTTTAAATTTTTATAATTTCTAAAAATATTTT
Found at i:11580794 original size:206 final size:208
Alignment explanation
Indices: 11580569--11580947 Score: 570
Period size: 207 Copynumber: 1.8 Consensus size: 208
11580559 GCTTTTTTAT
*
11580569 TTTTTTTAATTCAAGGAAAAGAGATTGAACATTGTTTTTTGAAT-AAAAGATTATGTCAATGAAT
1 TTTTTTTAATTCAAGGAAAAGAGACTGAACATTGTTTTTTGAATAAAAAGATTATGTCAATGAAT
* * **
11580633 CCCGAA-ATTAATTTAATTAGTTCATATAATTATTTT-TAAGCGATGAAATTTATTAAATCTGA-
66 CCC-AAGATTAATTTAATTAATTCATATAATTATTTTCAAAAAG-TGAAATTTATTAAAT-TGAG
* **
11580695 AGTTTAAATTTTTGTATTTATAA-ATTTTTTATTAATTATGTCAATAATTTTAGTATTGTAAAGC
128 AGTTCAAATTTGAGTATTTATAATATTTTTTATTAATTATGTCAATAATTTTAGTATTGTAAAGC
11580759 ATTTCTTTTTTCTTTC
193 ATTTCTTTTTTCTTTC
*
11580775 TTTTTTTAATTCGAGGAAAAGAGACTGAACATTGTTTTTTGAATAAAAAGATTATGTCAATGAAT
1 TTTTTTTAATTCAAGGAAAAGAGACTGAACATTGTTTTTTGAATAAAAAGATTATGTCAATGAAT
* * * *
11580840 CCCAAGATTAATTTAATTAATTTATATAATTATTTTCAAAAAGTGATATTTATTAAGTTTAGAGT
66 CCCAAGATTAATTTAATTAATTCATATAATTATTTTCAAAAAGTGAAATTTATTAAATTGAGAGT
*
11580905 TCAAATTTGAGTATTTATAATTTTTTTTATTAATTATGTCAAT
131 TCAAATTTGAGTATTTATAATATTTTTTATTAATTATGTCAAT
11580948 CATTAAACTA
Statistics
Matches: 154, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
206 46 0.30
207 84 0.55
208 24 0.16
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.46
Consensus pattern (208 bp):
TTTTTTTAATTCAAGGAAAAGAGACTGAACATTGTTTTTTGAATAAAAAGATTATGTCAATGAAT
CCCAAGATTAATTTAATTAATTCATATAATTATTTTCAAAAAGTGAAATTTATTAAATTGAGAGT
TCAAATTTGAGTATTTATAATATTTTTTATTAATTATGTCAATAATTTTAGTATTGTAAAGCATT
TCTTTTTTCTTTC
Found at i:11587317 original size:27 final size:27
Alignment explanation
Indices: 11587287--11587342 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
11587277 GCTTTGATTA
11587287 TTGACTTTTGATTTT-TCTGTATTCATT
1 TTGACTTTTGATTTTCT-TGTATTCATT
* *
11587314 TTGATTTTTGATTTTCTTGTATTTATT
1 TTGACTTTTGATTTTCTTGTATTCATT
11587341 TT
1 TT
11587343 TTTAAAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.14, C:0.07, G:0.11, T:0.68
Consensus pattern (27 bp):
TTGACTTTTGATTTTCTTGTATTCATT
Found at i:11588417 original size:20 final size:20
Alignment explanation
Indices: 11588392--11588450 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
11588382 CAGGTCCGGG
11588392 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
11588412 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
11588432 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
11588451 CCCCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:11588506 original size:13 final size:13
Alignment explanation
Indices: 11588490--11588514 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11588480 TTACCCGTAT
11588490 TTTTTATTTTATA
1 TTTTTATTTTATA
11588503 TTTTTATTTTAT
1 TTTTTATTTTAT
11588515 TTTATTTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTATA
Found at i:11588557 original size:22 final size:20
Alignment explanation
Indices: 11588494--11588559 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 20
11588484 CCGTATTTTT
11588494 TATTTTA-TATTTTTATTT-
1 TATTTTATTATTTTTATTTG
*
11588512 TATTTTATT-TTTCTCTCTTGTG
1 TATTTTATTATTT-T-TATT-TG
11588534 TATTTTATTATTTATTATTATG
1 TATTTTATTATTT-TTATT-TG
11588556 TATT
1 TATT
11588560 AATATATGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 10 0.26
19 2 0.05
20 3 0.08
21 1 0.03
22 18 0.47
23 4 0.11
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.71
Consensus pattern (20 bp):
TATTTTATTATTTTTATTTG
Found at i:11588764 original size:11 final size:12
Alignment explanation
Indices: 11588744--11588776 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
11588734 TTATCTAGAT
*
11588744 TTTTTTTTTTAA
1 TTTTTATTTTAA
11588756 -TTTTATTTTAA
1 TTTTTATTTTAA
11588767 TTTTTATTTT
1 TTTTTATTTT
11588777 GGAGGGCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTATTTTAA
Found at i:11589127 original size:31 final size:31
Alignment explanation
Indices: 11589089--11589150 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
11589079 AAATTTCCAG
*
11589089 ATTCCGGCG-ACTTTTGAATTTTCCGGCGACA
1 ATTCCGGCGAAC-TTTGAAGTTTCCGGCGACA
11589120 ATTCCGGCGAACTTTGAAGTTTCCGGCGACA
1 ATTCCGGCGAACTTTGAAGTTTCCGGCGACA
11589151 GACCCAGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (31 bp):
ATTCCGGCGAACTTTGAAGTTTCCGGCGACA
Found at i:11589205 original size:11 final size:11
Alignment explanation
Indices: 11589191--11589218 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
11589181 CCGGCGACCA
11589191 TCCGGCCAACT
1 TCCGGCCAACT
11589202 TCCGGCCAACT
1 TCCGGCCAACT
11589213 TCCGGC
1 TCCGGC
11589219 GAAAAAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.46, G:0.21, T:0.18
Consensus pattern (11 bp):
TCCGGCCAACT
Found at i:11589622 original size:25 final size:25
Alignment explanation
Indices: 11589588--11589648 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
11589578 GCTCCAGGTT
***
11589588 TTTTTTTTTTTTTTTTTTTTTTGAA
1 TTTTTTTTTTTGAATTTTTTTTGAA
11589613 TTTTTTTTTTTGAATTTTTTTTGAA
1 TTTTTTTTTTTGAATTTTTTTTGAA
11589638 TTTTTTTTTTT
1 TTTTTTTTTTT
11589649 ATTTGACTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.85
Consensus pattern (25 bp):
TTTTTTTTTTTGAATTTTTTTTGAA
Found at i:11589624 original size:14 final size:14
Alignment explanation
Indices: 11589586--11589648 Score: 80
Period size: 14 Copynumber: 4.8 Consensus size: 14
11589576 CCGCTCCAGG
**
11589586 TTTTTTTTTTT-TT
1 TTTTTTTTTTTGAA
11589599 TTTTTTTTTTTGAA
1 TTTTTTTTTTTGAA
11589613 TTTTTTTTTTTGAA
1 TTTTTTTTTTTGAA
11589627 ---TTTTTTTTGAA
1 TTTTTTTTTTTGAA
11589638 TTTTTTTTTTT
1 TTTTTTTTTTT
11589649 ATTTGACTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
11 11 0.25
13 11 0.25
14 22 0.50
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.86
Consensus pattern (14 bp):
TTTTTTTTTTTGAA
Found at i:11589630 original size:11 final size:11
Alignment explanation
Indices: 11589602--11589645 Score: 61
Period size: 11 Copynumber: 3.7 Consensus size: 11
11589592 TTTTTTTTTT
11589602 TTTTTTTTGAA
1 TTTTTTTTGAA
11589613 TTTTTTTTTTTGAA
1 ---TTTTTTTTGAA
11589627 TTTTTTTTGAA
1 TTTTTTTTGAA
11589638 TTTTTTTT
1 TTTTTTTT
11589646 TTTATTTGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 19 0.63
14 11 0.37
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:11589669 original size:29 final size:29
Alignment explanation
Indices: 11589613--11589680 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
11589603 TTTTTTTGAA
*
11589613 TTTTTTTT-TTTGAATTTTTTTTGAATTT
1 TTTTTTTTATTTGAATTTATTTTGAATTT
*
11589641 TTTTTTTTATTTGACTTTGATTTTG-ATTT
1 TTTTTTTTATTTGAATTT-ATTTTGAATTT
11589670 TTTTTTTTATT
1 TTTTTTTTATT
11589681 AATCCGACGA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 8 0.22
29 23 0.64
30 5 0.14
ACGTcount: A:0.13, C:0.01, G:0.07, T:0.78
Consensus pattern (29 bp):
TTTTTTTTATTTGAATTTATTTTGAATTT
Found at i:11589848 original size:159 final size:158
Alignment explanation
Indices: 11589658--11589973 Score: 587
Period size: 159 Copynumber: 2.0 Consensus size: 158
11589648 TATTTGACTT
*
11589658 TGATTTTGATTTTTTTTTTTATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTT
1 TGATTTTGATTTTTTTTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTT
*
11589723 CTTGCATACTCCTGAAGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAG
66 CTTGCATACTCCTGAAGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAG
*
11589788 AATAATTTTCGATAATTAATTACTTGGC
131 AATAATTTTCAATAATTAATTACTTGGC
11589816 TGATTTTGATTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTT
1 TGATTTTGATTTTTTT-TTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTT
*
11589881 TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
65 TCTTGCATACTCCTGAAGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
11589946 GAATAATTTTCAATAATTAATTACTTGG
130 GAATAATTTTCAATAATTAATTACTTGG
11589974 TAAAATTTTA
Statistics
Matches: 153, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
158 16 0.10
159 137 0.90
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (158 bp):
TGATTTTGATTTTTTTTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTT
CTTGCATACTCCTGAAGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAG
AATAATTTTCAATAATTAATTACTTGGC
Found at i:11593254 original size:1 final size:1
Alignment explanation
Indices: 11593250--11593282 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
11593240 GTAATTTTTG
11593250 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11593283 CACCACAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11593696 original size:9 final size:9
Alignment explanation
Indices: 11593682--11593717 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
11593672 AGAAGATGAT
11593682 GAAAAAAAA
1 GAAAAAAAA
11593691 GAAAAAAATA
1 GAAAAAAA-A
11593701 GAAAAAAAA
1 GAAAAAAAA
11593710 GGAAAAAA
1 -GAAAAAA
11593718 TGAGAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:11593704 original size:19 final size:20
Alignment explanation
Indices: 11593657--11593725 Score: 76
Period size: 19 Copynumber: 3.6 Consensus size: 20
11593647 ACAATGGATG
11593657 AAAAATGAG-AAAAAAAG--
1 AAAAATGAGAAAAAAAAGAA
*
11593674 -AAGATGATGAAAAAAAAGAA
1 AAAAATGA-GAAAAAAAAGAA
*
11593694 AAAAAT-AGAAAAAAAAGGA
1 AAAAATGAGAAAAAAAAGAA
11593713 AAAAATGAGAAAA
1 AAAAATGAGAAAA
11593726 TGAAAAAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
16 6 0.14
17 1 0.02
18 8 0.19
19 17 0.40
20 7 0.16
21 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.07
Consensus pattern (20 bp):
AAAAATGAGAAAAAAAAGAA
Found at i:11595022 original size:42 final size:41
Alignment explanation
Indices: 11594950--11595443 Score: 718
Period size: 42 Copynumber: 12.0 Consensus size: 41
11594940 GTCTAGGAGT
*
11594950 ATTTACTTTTCCAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
11594990 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
11595032 ATTTACTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
*
11595073 ATTTATTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
11595114 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
11595156 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
11595198 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
11595239 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
11595281 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
11595322 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
11595364 ATTTACTTTCCAAAGTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGT-CGTGGTGCCTCTGTTTAGAGGAGCA
* * *
11595404 ATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
11595444 TTCGGCCAAA
Statistics
Matches: 424, Mismatches: 15, Indels: 29
0.91 0.03 0.06
Matches are distributed among these distances:
39 6 0.01
40 48 0.11
41 180 0.42
42 186 0.44
43 4 0.01
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (41 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:11595066 original size:83 final size:82
Alignment explanation
Indices: 11594950--11595443 Score: 750
Period size: 83 Copynumber: 6.0 Consensus size: 82
11594940 GTCTAGGAGT
* * *
11594950 ATTTACTTTTCCAAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTG
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTG
11595014 CCTCTGTTTAGAGGAGCA
65 CCTCTGTTTAGAGGAGCA
11595032 ATTTACTTTTCAAAGTTCCGT-TGCCTCTGTTTAGAGGAGCAATTTATTTTT-CAAAGTTCCGT-
1 ATTTACTTTTCAAAG-T-CGTGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG-T-CGTG
11595094 -TGCCTCTGTTTAGAGGAGCA
62 GTGCCTCTGTTTAGAGGAGCA
11595114 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGT
1 ATTTACTTTTC-AAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGT
11595179 GCCTCTGTTTAGAGGAGCA
64 GCCTCTGTTTAGAGGAGCA
11595198 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTG
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTG
11595263 CCTCTGTTTAGAGGAGCA
65 CCTCTGTTTAGAGGAGCA
*
11595281 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTG
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTG
*
11595346 CCTCTGTTGAGAGGAGCA
65 CCTCTGTTTAGAGGAGCA
* * * * *
11595364 ATTTACTTTCCAAAGTCCGT-TGCCTCTGTTTAGAGGAGCAATTTA-CTTTCAAAAGTCGTTGAG
1 ATTTACTTTTCAAAGT-CGTGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTG
*
11595427 TCTCTGTTTAGAGGAGC
65 CCTCTGTTTAGAGGAGC
11595444 TTCGGCCAAA
Statistics
Matches: 389, Mismatches: 13, Indels: 21
0.92 0.03 0.05
Matches are distributed among these distances:
81 32 0.08
82 79 0.20
83 236 0.61
84 42 0.11
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (82 bp):
ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGC
CTCTGTTTAGAGGAGCA
Found at i:11595551 original size:9 final size:9
Alignment explanation
Indices: 11595490--11595552 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
11595480 AAACAAAAAA
11595490 AAAAAAATC
1 AAAAAAATC
11595499 -AAAAAATC
1 AAAAAAATC
11595507 AAAAAAATC
1 AAAAAAATC
11595516 AAAAAAA--
1 AAAAAAATC
*
11595523 ATAAAAA-C
1 AAAAAAATC
11595531 AAAAATAA--
1 AAAAA-AATC
11595539 AAAAAAATC
1 AAAAAAATC
11595548 AAAAA
1 AAAAA
11595553 TGAAAATGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
7 8 0.17
8 17 0.36
9 22 0.47
ACGTcount: A:0.83, C:0.08, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAATC
Found at i:11595552 original size:1 final size:1
Alignment explanation
Indices: 11595451--11595545 Score: 91
Period size: 1 Copynumber: 95.0 Consensus size: 1
11595441 AGCTTCGGCC
* * ** ** **
11595451 AAAAAAAAAAAAAAAAAAAAAAAAAACAAAAACAAAAAAAAAAAAATCAAAAAATCAAAAAAATC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
11595516 AAAAAAAATAAAAACAAAAATAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11595546 TCAAAAATGA
Statistics
Matches: 75, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 75 1.00
ACGTcount: A:0.88, C:0.06, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:11595553 original size:17 final size:16
Alignment explanation
Indices: 11595450--11595552 Score: 120
Period size: 16 Copynumber: 6.4 Consensus size: 16
11595440 GAGCTTCGGC
*
11595450 CAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAT
* *
11595466 AAAAAAAAAAACAAAAA
1 CAAAAAAAAAA-AAAAT
11595483 C-AAAAAAAAAAAAAT
1 CAAAAAAAAAAAAAAT
*
11595498 CAAAAAATCAAAAAAAT
1 CAAAAAA-AAAAAAAAT
*
11595515 CAAAAAAAATAAAAA-
1 CAAAAAAAAAAAAAAT
11595530 CAAAAATAAAAAAAAAT
1 CAAAAA-AAAAAAAAAT
11595547 CAAAAA
1 CAAAAA
11595553 TGAAAATGTC
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
15 11 0.15
16 38 0.51
17 26 0.35
ACGTcount: A:0.86, C:0.08, G:0.00, T:0.06
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAT
Found at i:11595686 original size:20 final size:20
Alignment explanation
Indices: 11595661--11595719 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
11595651 CAGGTCCGGG
11595661 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
11595681 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
11595701 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
11595720 CCCCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:11595775 original size:13 final size:13
Alignment explanation
Indices: 11595759--11595783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11595749 TTACCCGTAT
11595759 TTTTTATTTTATA
1 TTTTTATTTTATA
11595772 TTTTTATTTTAT
1 TTTTTATTTTAT
11595784 TTTATTTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTATA
Found at i:11595826 original size:22 final size:20
Alignment explanation
Indices: 11595763--11595828 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 20
11595753 CCGTATTTTT
11595763 TATTTTA-TATTTTTATTT-
1 TATTTTATTATTTTTATTTG
*
11595781 TATTTTATT-TTTCTCTCTTGTG
1 TATTTTATTATTT-T-TATT-TG
11595803 TATTTTATTATTTATTATTATG
1 TATTTTATTATTT-TTATT-TG
11595825 TATT
1 TATT
11595829 AATATATGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 10 0.26
19 2 0.05
20 3 0.08
21 1 0.03
22 18 0.47
23 4 0.11
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.71
Consensus pattern (20 bp):
TATTTTATTATTTTTATTTG
Found at i:11596035 original size:11 final size:12
Alignment explanation
Indices: 11596015--11596047 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
11596005 TTATCTAGAT
*
11596015 TTTTTTTTTTAA
1 TTTTTATTTTAA
11596027 -TTTTATTTTAA
1 TTTTTATTTTAA
11596038 TTTTTATTTT
1 TTTTTATTTT
11596048 GGAGGGCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTATTTTAA
Found at i:11596432 original size:31 final size:31
Alignment explanation
Indices: 11596361--11596433 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
11596351 AATTTCCAGA
* *
11596361 TTCCGGCGAAAATTCCGGCGACTTTTGAATT
1 TTCCGGCGACAATTCCGGCGACTTTTGAAGT
11596392 TTCCGGCGACAATTCCGGCGAAC-TTTGAAGT
1 TTCCGGCGACAATTCCGGCG-ACTTTTGAAGT
11596423 TTCCGGCGACA
1 TTCCGGCGACA
11596434 GACCCAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 37 0.95
32 2 0.05
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (31 bp):
TTCCGGCGACAATTCCGGCGACTTTTGAAGT
Found at i:11596785 original size:5 final size:5
Alignment explanation
Indices: 11596775--11596803 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
11596765 CCCTCCTCCA
11596775 AGCCG AGCCG AGCCG AGCCG AGCCG AGCC
1 AGCCG AGCCG AGCCG AGCCG AGCCG AGCC
11596804 TCCAAGCCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.41, G:0.38, T:0.00
Consensus pattern (5 bp):
AGCCG
Found at i:11596931 original size:10 final size:10
Alignment explanation
Indices: 11596918--11596944 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
11596908 TTGAATTTTT
11596918 TTTTTTTGAA
1 TTTTTTTGAA
11596928 TTTTTTTGAA
1 TTTTTTTGAA
11596938 TTTTTTT
1 TTTTTTT
11596945 TTTTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:11596944 original size:1 final size:1
Alignment explanation
Indices: 11596884--11596924 Score: 55
Period size: 1 Copynumber: 41.0 Consensus size: 1
11596874 CCGCTCCAGG
***
11596884 TTTTTTTTTTTTTTTTTTTTTTTTTTGAATTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
11596925 GAATTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.05, C:0.00, G:0.02, T:0.93
Consensus pattern (1 bp):
T
Found at i:11596949 original size:15 final size:15
Alignment explanation
Indices: 11596884--11596934 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
11596874 CCGCTCCAGG
**
11596884 TTTTTTTTTTTT-TT
1 TTTTTTTTTTTTGAA
11596898 TTTTTTTTTTTTGAA
1 TTTTTTTTTTTTGAA
11596913 TTTTTTTTTTTTGAA
1 TTTTTTTTTTTTGAA
11596928 TTTTTTT
1 TTTTTTT
11596935 GAATTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTTTTGAA
Found at i:11596966 original size:25 final size:24
Alignment explanation
Indices: 11596889--11596954 Score: 105
Period size: 25 Copynumber: 2.7 Consensus size: 24
11596879 CCAGGTTTTT
*
11596889 TTTTTTTTTTTTTTTTTTTTTGAA
1 TTTTTTTTTTTTTATTTTTTTGAA
*
11596913 TTTTTTTTTTTTGAATTTTTTTGAA
1 TTTTTTTTTTTT-TATTTTTTTGAA
11596938 TTTTTTTTTTTTTATTT
1 TTTTTTTTTTTTTATTT
11596955 GACTTTGATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 16 0.42
25 22 0.58
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.85
Consensus pattern (24 bp):
TTTTTTTTTTTTTATTTTTTTGAA
Found at i:11596983 original size:30 final size:30
Alignment explanation
Indices: 11596913--11596980 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
11596903 TTTTTTTGAA
11596913 TTTTTTTTT-TTTGAATTTTTTTGAATTTT
1 TTTTTTTTTATTTGAATTTTTTTGAATTTT
*
11596942 TTTTTTTTTATTTGACTTTGATTTTG-ATTTT
1 TTTTTTTTTATTTGAATTT--TTTTGAATTTT
11596973 TTTTTTTT
1 TTTTTTTT
11596981 ATTAATCCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
29 9 0.26
30 8 0.23
31 13 0.37
32 5 0.14
ACGTcount: A:0.12, C:0.01, G:0.07, T:0.79
Consensus pattern (30 bp):
TTTTTTTTTATTTGAATTTTTTTGAATTTT
Found at i:11597132 original size:159 final size:159
Alignment explanation
Indices: 11596960--11597276 Score: 598
Period size: 159 Copynumber: 2.0 Consensus size: 159
11596950 TATTTGACTT
* *
11596960 TGATTTTGATTTTTTTTTTTTATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTT
1 TGATTTTGATTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTT
*
11597025 TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGA
66 TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
*
11597090 GAATAATTTTCGATAATTAATTACTTGGC
131 GAATAATTTTCAATAATTAATTACTTGGC
11597119 TGATTTTGATTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTT
1 TGATTTTGATTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTT
11597184 TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
66 TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
11597249 GAATAATTTTCAATAATTAATTACTTGG
131 GAATAATTTTCAATAATTAATTACTTGG
11597277 TAAAATTTTA
Statistics
Matches: 154, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
159 154 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.40
Consensus pattern (159 bp):
TGATTTTGATTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTT
TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
GAATAATTTTCAATAATTAATTACTTGGC
Found at i:11597711 original size:14 final size:13
Alignment explanation
Indices: 11597692--11597792 Score: 80
Period size: 13 Copynumber: 7.2 Consensus size: 13
11597682 AAAATTTGTC
11597692 AAAAATAAAACCA-A
1 AAAAATAAAA--ATA
11597706 AAAAATAAAAATA
1 AAAAATAAAAATA
11597719 AAAAATAAAATAAGTTA
1 AAAAAT-AAA-AA--TA
11597736 AAAAATATAAAATAA
1 AAAAATA-AAAAT-A
*
11597751 ATAAAATCAAAA-A
1 A-AAAATAAAAATA
* *
11597764 ATAAATAAAATTA
1 AAAAATAAAAATA
11597777 AAAAATAAAAATA
1 AAAAATAAAAATA
11597790 AAA
1 AAA
11597793 TGAGAAAAGA
Statistics
Matches: 72, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
12 8 0.11
13 24 0.33
14 14 0.19
15 8 0.11
16 8 0.11
17 10 0.14
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:11597756 original size:17 final size:17
Alignment explanation
Indices: 11597714--11597785 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
11597704 AAAAAAATAA
*
11597714 AAATAAAAA-ATAAAAT
1 AAATAAAAATAAAAAAT
* *
11597730 AAGTTAAAAAATATAAAAT
1 AA-AT-AAAAATAAAAAAT
11597749 AAAT-AAAATCAAAAAAT
1 AAATAAAAAT-AAAAAAT
*
11597766 AAATAAAATTAAAAAAT
1 AAATAAAAATAAAAAAT
11597783 AAA
1 AAA
11597786 AATAAAATGA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
16 7 0.15
17 21 0.45
18 10 0.21
19 9 0.19
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (17 bp):
AAATAAAAATAAAAAAT
Found at i:11597762 original size:24 final size:22
Alignment explanation
Indices: 11597704--11597787 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 22
11597694 AAATAAAACC
*
11597704 AAAAAAAT-AAAAATAAAAAAT
1 AAAAAAATAAAAAATATAAAAT
*
11597725 AAAATAAGTTAAAAAATATAAAAT
1 AAAA-AA-ATAAAAAATATAAAAT
11597749 AAATAAAATCAAAAAATAAATAAAAT
1 AAA-AAAAT-AAAAAAT--ATAAAAT
*
11597775 TAAAAAATAAAAA
1 AAAAAAATAAAAA
11597788 TAAAATGAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
21 4 0.08
22 2 0.04
23 2 0.04
24 29 0.56
25 6 0.12
26 9 0.17
ACGTcount: A:0.79, C:0.01, G:0.01, T:0.19
Consensus pattern (22 bp):
AAAAAAATAAAAAATATAAAAT
Found at i:11597770 original size:40 final size:41
Alignment explanation
Indices: 11597704--11597791 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
11597694 AAATAAAACC
*
11597704 AAAA-AAATAAAAATAAAAAATAAAAT-AAGTTAAAAAATA
1 AAAATAAATAAAAATAAAAAATAAAATAAAATTAAAAAATA
11597743 TAAAATAAAT-AAAATCAAAAAAT-AAATAAAATTAAAAAATA
1 -AAAATAAATAAAAAT-AAAAAATAAAATAAAATTAAAAAATA
11597784 AAAATAAA
1 AAAATAAA
11597792 ATGAGAAAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
40 21 0.48
41 23 0.52
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.19
Consensus pattern (41 bp):
AAAATAAATAAAAATAAAAAATAAAATAAAATTAAAAAATA
Found at i:11597793 original size:24 final size:23
Alignment explanation
Indices: 11597692--11597793 Score: 71
Period size: 21 Copynumber: 4.7 Consensus size: 23
11597682 AAAATTTGTC
**
11597692 AAAAATAAAACCAAAA-AAA-T-
1 AAAAATAAAAATAAAATAAATTA
*
11597712 AAAAATAAAAAATAAAATAAGTTA
1 AAAAAT-AAAAATAAAATAAATTA
11597736 AAAAAT----ATAAAATAAA-TA
1 AAAAATAAAAATAAAATAAATTA
*
11597754 AAATCA-AAAAAT-AAATAAAATTA
1 AAA-AATAAAAATAAAAT-AAATTA
11597777 AAAAATAAAAATAAAAT
1 AAAAATAAAAATAAAAT
11597794 GAGAAAAGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
18 5 0.08
19 10 0.16
20 6 0.10
21 12 0.19
22 8 0.13
23 12 0.19
24 10 0.16
ACGTcount: A:0.77, C:0.03, G:0.01, T:0.19
Consensus pattern (23 bp):
AAAAATAAAAATAAAATAAATTA
Found at i:11598367 original size:21 final size:22
Alignment explanation
Indices: 11598338--11598378 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11598328 AGAACACCTA
11598338 TTCTCTAAAAATCAACTTTTTT
1 TTCTCTAAAAATCAACTTTTTT
* *
11598360 TTCT-TAAAATTCACCTTTT
1 TTCTCTAAAAATCAACTTTT
11598379 CCTGTTCTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (22 bp):
TTCTCTAAAAATCAACTTTTTT
Found at i:11598619 original size:3 final size:3
Alignment explanation
Indices: 11598611--11598671 Score: 97
Period size: 3 Copynumber: 20.3 Consensus size: 3
11598601 AAGAAAGAAA
11598611 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
*
11598657 AAT -AT AAC AAT AAT A
1 AAT AAT AAT AAT AAT A
11598672 TATTGCCATA
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 2 0.04
3 49 0.91
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11600045 original size:357 final size:353
Alignment explanation
Indices: 11599183--11600292 Score: 1077
Period size: 357 Copynumber: 3.1 Consensus size: 353
11599173 AACCACGAGT
* * ** * * * *
11599183 TCATAAGAAATGATCTGGACCGAGCCAAGATCAGGTGATCAAGACAAAACCATGAGTTAAAAATG
1 TCATAAGAAATGATCTAGACTGAGCCAAGATCAGGTGATCGGGAC-AAACTAAGAGTCAAAAAGG
* * * *
11599248 AAACGACTAGAACCGAGTCGAGGTTGAAAATAAATGATCGAGATAAAACCATGAGTCAT-AAAAA
65 AAAC--CAAG-A-CGAGTCGAGGTTGAAAATAAATGATCGGGATGAAACCACGAGTCATAAAAAA
* * * * *
11599312 TGATCTAGATTGAG-CAAGATCAAGTGAGT-GGGACAAAACCATGAGT-CAAATGAGGCGACCAG
126 TGATCTAGATTGAGCCAAGATCAGGTGA-TCGGGATAAAACCACGAGTAAAAATGAAGCGACCAG
* * * *
11599374 GACCAAGTCAAGGTAAAAAATAAATAATCGAAATGGAATCACGAGTTATAAGAAATGATATGGAC
190 GATCAAGTCAAGGTAAAAAATAAATAATCGAAA-AGAATCATGAGTCATAAGAAATGATATGGAC
* ** *
11599439 TGAGCCAAGATCAGGTGACCGAGACA--AAA-TCATGAGTCCAAAATGAAGCGACCAAGATCGAG
254 TGAGCCAAGATCAGGTGACCAAGA-ATGAAACT-ATGAGTAAAAAATAAAGCGACCAAGATCGAG
* * * * *
11599501 T-AAGATAAAAAAAAAATGATTGGGGCAAAACTACGAG
317 TCAAGGTAAAAAATAAATGATCGGGAC-AAACTATGAG
* * * * *
11599538 TTATAAGAAATGATCTAAACTGAGCTAAGATTAGGTGA-CTGGGATGAAACTACA-AGTCAAAAA
1 TCATAAGAAATGATCTAGACTGAGCCAAGATCAGGTGATC-GGGA-CAAACTA-AGAGTCAAAAA
* * * * ** * *
11599601 TGAAATGATCAGGACTGAGTCAAGGTAAAAAATAAATGA-CAGGGAGGGAACCACGAGTCATAAA
63 -GGAA--ACCAAGAC-GAGTCGAGGTTGAAAATAAATGATC-GGGATGAAACCACGAGTCATAAA
*
11599665 AAATGAT-TTGAATTGAGCCAAGATCAGGTGATCGGGATAAAACCACGAGTAAAAAATGAAGCGA
123 AAATGATCTAG-ATTGAGCCAAGATCAGGTGATCGGGATAAAACCACGAGT-AAAAATGAAGCGA
* * ** * * *
11599729 CCTGAATCAAGTTGAGGTAAAAAATAAATAACCGAGAAAGAACCATGAGTCATAAGAAATGATCT
186 CCAGGATCAAGTCAAGGTAAAAAATAAATAATCGA-AAAGAATCATGAGTCATAAGAAATGATAT
* * * * *
11599794 AGACTGAACCAAGATCAGATGA-CTAGAATGAAACTATGAGTAAAAAATAAAGCAACCAAGATCG
250 GGACTGAGCCAAGATCAGGTGACCAAGAATGAAACTATGAGTAAAAAATAAAGCGACCAAGATCG
* * *
11599858 AGTCTAGGTAAAAAATAAATGATCGAGACATAAGTATGAG
315 AGTCAAGGTAAAAAATAAATGATCGGGACA-AACTATGAG
* * *
11599898 TCATAAGAAATGTTCTGGACTAAGCCAAGATCAGGTGATCGGGACAAACTAAGAGTCAAATAAGG
1 TCATAAGAAATGATCTAGACTGAGCCAAGATCAGGTGATCGGGACAAACTAAGAGTCAAA-AAGG
* *
11599963 CAACCAAGATCGAGTCGAGGTTGAAAATAAATGATCGGGATGAAACCACGAGTCATAAAAAATAA
65 AAACCAAGA-CGAGTCGAGGTTGAAAATAAATGATCGGGATGAAACCACGAGTCATAAAAAATGA
* * *
11600028 TCTAGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACAAGTCAAAAATGAAGTGACCAGGAT
129 TCTAGATTGAGCCAAGATCAGGTGATCGGGATAAAACCACGAGT-AAAAATGAAGCGACCAGGAT
* * * * * * *
11600093 CGAGTCAAGATAAAAAATAAATGATC-AAAATGGAATCATTAGTCATAAAAAATGATTTGGATTG
193 CAAGTCAAGGTAAAAAATAAATAATCGAAAA--GAATCATGAGTCATAAGAAATGATATGGACTG
* * * * * *
11600157 AGTCAAGATTAGGTGATCAAG-ATGAAACCACGAGTAAAAAATAAAGCGACCAAGA-CTGAGTCG
256 AGCCAAGATCAGGTGACCAAGAATGAAACTATGAGTAAAAAATAAAGCGACCAAGATC-GAGTCA
*
11600220 AGGTAAAAAATAAATGA-CTGGGATGAAACTATGAG
320 AGGTAAAAAATAAATGATC-GGGA-CAAACTATGAG
*
11600255 TCATAAGAAATGAT-TCAGACTGAGCCAAGATTAGGTGA
1 TCATAAGAAATGATCT-AGACTGAGCCAAGATCAGGTGA
11600293 CCAGGATGAA
Statistics
Matches: 611, Mismatches: 111, Indels: 64
0.78 0.14 0.08
Matches are distributed among these distances:
354 3 0.00
355 88 0.14
356 24 0.04
357 288 0.47
358 14 0.02
359 127 0.21
360 66 0.11
361 1 0.00
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.19
Consensus pattern (353 bp):
TCATAAGAAATGATCTAGACTGAGCCAAGATCAGGTGATCGGGACAAACTAAGAGTCAAAAAGGA
AACCAAGACGAGTCGAGGTTGAAAATAAATGATCGGGATGAAACCACGAGTCATAAAAAATGATC
TAGATTGAGCCAAGATCAGGTGATCGGGATAAAACCACGAGTAAAAATGAAGCGACCAGGATCAA
GTCAAGGTAAAAAATAAATAATCGAAAAGAATCATGAGTCATAAGAAATGATATGGACTGAGCCA
AGATCAGGTGACCAAGAATGAAACTATGAGTAAAAAATAAAGCGACCAAGATCGAGTCAAGGTAA
AAAATAAATGATCGGGACAAACTATGAG
Found at i:11600139 original size:477 final size:474
Alignment explanation
Indices: 11599008--11600311 Score: 1328
Period size: 477 Copynumber: 2.7 Consensus size: 474
11598998 AGTCAAATGA
* * * * * *
11599008 GAAGCGACTAAGATCGAATTGAGATTAAAAATAAATGA-CTGAGATGAAACCACAAGTCATAGGA
1 GAAGCAACCAAGATCG-AGTGAGATTAAAAATAAATGATC-GGGATGAAACCACGAGTCATAAGA
* * ** * * * *
11599072 AATGATCTAGATTGAGCCAAGATTAGGTGACCGAGATGAAATCATGAGTTAAATACG-ATGACTA
64 AATGATCTAGATTGAGCCAAGATTAGGTGACCGGGATGAAACCACAAGTCAAAAATGAATGACCA
* * * * * *
11599136 GGATCGAGTCGAGATTAAAAATAAATGACTGAGATGAAACCACGAGTTCATAAGAAATGATCTGG
129 GGATCGAGTCAAGATAAAAAATAAATGAC-AAGATGGAACCACGAG-TCATAAAAAATGATTTGG
** * * * * *
11599201 ACCGAGCCAAGATCAGGTGATCAAGACAAAACCATGAGTTAAAAATGAAACGA-CTAGAACCGAG
192 ATTGAGCCAAGATCAGGTGATCAAGATAAAACCACGAGTAAAAAATGAAGCGACCT-GAATCGAG
** * * *
11599265 TCGAGGTTGAAAATAAATGATCGAGATAA-AACCATGAGTCATAA-AAATGATCTAGATTG-AGC
256 TCGAGGTAAAAAATAAATGACCGAGA-AAGAACCATGAGTCATAAGAAATGATCTAGACTGAACC
* * ** * * * * *
11599327 AAGATCA-AGTGAGTGGGACAAAACCATGAGTCAAATGAGGCGACCAGGACCAAGTCAAGGTAAA
320 AAGATCAGA-TGACTAGGATGAAACCATGAGTAAAATAAAGCAACCAAGACCAAGTCAAGGTAAA
* *
11599391 AAATAAATAATCGAAATGGAATCACGAGTTATAAGAAATGATATGGACTGAGCCAAGATCAGGTG
384 AAATAAATAATCGAAAT-GAATCACGAGTCATAAGAAATGATATGGACTAAGCCAAGATCAGGTG
*
11599456 ACCGAGACAAAATCATGAGTCCAAAAT
448 ACCGAGACAAAATCAAGAGTCCAAAAT
* * * * * *** * *
11599483 GAAGCGACCAAGATCGAGTAAGATAAAAAAAAAATGATTGGGGCAAAACTACGAGTTATAAGAAA
1 GAAGCAACCAAGATCGAGTGAGATTAAAAATAAATGATCGGGATGAAACCACGAGTCATAAGAAA
* * * * * *
11599548 TGATCTAAACTGAGCTAAGATTAGGTGACTGGGATGAAACTACAAGTCAAAAATGAAATGATCAG
66 TGATCTAGATTGAGCCAAGATTAGGTGACCGGGATGAAACCACAAGTCAAAAATG-AATGACCAG
* * * *
11599613 GA-CTGAGTCAAGGTAAAAAATAAATGACAGGGAGGGAACCACGAGTCATAAAAAATGATTTGAA
130 GATC-GAGTCAAGATAAAAAATAAATGACA-AGATGGAACCACGAGTCATAAAAAATGATTTGGA
** * *
11599677 TTGAGCCAAGATCAGGTGATCGGGATAAAACCACGAGTAAAAAATGAAGCGACCTGAATCAAGTT
193 TTGAGCCAAGATCAGGTGATCAAGATAAAACCACGAGTAAAAAATGAAGCGACCTGAATCGAGTC
*
11599742 GAGGTAAAAAATAAATAACCGAGAAAGAACCATGAGTCATAAGAAATGATCTAGACTGAACCAAG
258 GAGGTAAAAAATAAATGACCGAGAAAGAACCATGAGTCATAAGAAATGATCTAGACTGAACCAAG
* * * * *
11599807 ATCAGATGACTAGAATGAAACTATGAGTAAAAAATAAAGCAACCAAGATCGAGTCTAGGTAAAAA
323 ATCAGATGACTAGGATGAAACCATGAGT--AAAATAAAGCAACCAAGACCAAGTCAAGGTAAAAA
* * * *
11599872 ATAAATGATCGAGACAT-AAGT-ATGAGTCATAAGAAATGTTCTGGACTAAGCCAAGATCAGGTG
386 ATAAATAATCGA-A-ATGAA-TCACGAGTCATAAGAAATGATATGGACTAAGCCAAGATCAGGTG
* * *
11599935 ATCGGGACAAACT-AAGAGT-C-AAAT
448 ACCGAGACAAAATCAAGAGTCCAAAAT
* * *
11599959 -AAGGCAACCAAGATCGAGTCGAGGTTGAAAATAAATGATCGGGATGAAACCACGAGTCATAAAA
1 GAA-GCAACCAAGATCGAGT-GAGATTAAAAATAAATGATCGGGATGAAACCACGAGTCATAAGA
* * *
11600023 AATAATCTAGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACAAGTCAAAAATGAAGTGACC
64 AATGATCTAGATTGAGCCAAGATTAGGTGACCGGGATGAAACCACAAGTCAAAAATGAA-TGACC
* * **
11600088 AGGATCGAGTCAAGATAAAAAATAAATGATCAAAATGGAATCATTAGTCATAAAAAATGATTTGG
128 AGGATCGAGTCAAGATAAAAAATAAATGA-CAAGATGGAACCACGAGTCATAAAAAATGATTTGG
* * * * * *
11600153 ATTGAGTCAAGATTAGGTGATCAAGATGAAACCACGAGTAAAAAATAAAGCGACCAAGACT-GAG
192 ATTGAGCCAAGATCAGGTGATCAAGATAAAACCACGAGTAAAAAATGAAGCGACC-TGAATCGAG
* * * * *
11600217 TCGAGGTAAAAAATAAATGACTG-GGATGAAACTATGAGTCATAAGAAATGAT-TCAGACTGAGC
256 TCGAGGTAAAAAATAAATGACCGAGAAAG-AACCATGAGTCATAAGAAATGATCT-AGACTGAAC
* * * *
11600280 CAAGATTAGGTGACCAGGATGAAACCACGAGT
319 CAAGATCAGATGACTAGGATGAAACCATGAGT
11600312 CATAAGAAAT
Statistics
Matches: 675, Mismatches: 131, Indels: 44
0.79 0.15 0.05
Matches are distributed among these distances:
474 80 0.12
475 120 0.18
476 82 0.12
477 290 0.43
478 12 0.02
479 87 0.13
480 2 0.00
481 2 0.00
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.19
Consensus pattern (474 bp):
GAAGCAACCAAGATCGAGTGAGATTAAAAATAAATGATCGGGATGAAACCACGAGTCATAAGAAA
TGATCTAGATTGAGCCAAGATTAGGTGACCGGGATGAAACCACAAGTCAAAAATGAATGACCAGG
ATCGAGTCAAGATAAAAAATAAATGACAAGATGGAACCACGAGTCATAAAAAATGATTTGGATTG
AGCCAAGATCAGGTGATCAAGATAAAACCACGAGTAAAAAATGAAGCGACCTGAATCGAGTCGAG
GTAAAAAATAAATGACCGAGAAAGAACCATGAGTCATAAGAAATGATCTAGACTGAACCAAGATC
AGATGACTAGGATGAAACCATGAGTAAAATAAAGCAACCAAGACCAAGTCAAGGTAAAAAATAAA
TAATCGAAATGAATCACGAGTCATAAGAAATGATATGGACTAAGCCAAGATCAGGTGACCGAGAC
AAAATCAAGAGTCCAAAAT
Found at i:11600307 original size:120 final size:119
Alignment explanation
Indices: 11598889--11600311 Score: 889
Period size: 120 Copynumber: 11.9 Consensus size: 119
11598879 GTCAAGAATG
* * ** * *
11598889 AAGCGAACAAGATC-AGGTTGAGGTAAAAAATAAATGACCAAGATGAAATCACGAGTCATAAAAA
1 AAGCGACCAAGATCGA-GTCGAGGTAAAAAATAAATGACTGAGATGAAACCACGAGTCATAAGAA
* * * * * ** * ** *
11598953 ATGATCTAGATTAAGTCAAGATTAGATGATTGGGATGAAACCATAAGT-CAAATGA
65 ATGATCTAGACTGAGCCAAGATCAGGTGACCGGGATAAAACCACGAGTAAAAAT-A
* * * * * * *
11599008 GAAGCGACTAAGATCGAATTGAGATTAAAAATAAATGACTGAGATGAAACCACAAGTCATAGGAA
1 -AAGCGACCAAGATCGAGTCGAGGTAAAAAATAAATGACTGAGATGAAACCACGAGTCATAAGAA
* * * * * * *
11599073 ATGATCTAGATTGAGCCAAGATTAGGTGACCGAGATGAAATCATGAGT-TAAAT-
65 ATGATCTAGACTGAGCCAAGATCAGGTGACCGGGATAAAACCACGAGTAAAAATA
* * * * * *
11599126 ACGATGACTAGGATCGAGTCGAGATTAAAAATAAATGACTGAGATGAAACCACGAGTTCATAAGA
1 AAG-CGACCAAGATCGAGTCGAGGTAAAAAATAAATGACTGAGATGAAACCACGAG-TCATAAGA
* * * ** * *
11599191 AATGATCTGGACCGAGCCAAGATCAGGTGATCAAGACAAAACCATGAGTTAAAAATGA
64 AATGATCTAGACTGAGCCAAGATCAGGTGACCGGGATAAAACCACGAG-TAAAAAT-A
* * ** * *
11599249 AA-CGA-CTAGAACCGAGTCGAGGTTGAAAATAAATGA-TCGAGATAAAACCATGAGTCATAA-A
1 AAGCGACCAAG-ATCGAGTCGAGGTAAAAAATAAATGACT-GAGATGAAACCACGAGTCATAAGA
* * ** * * * *
11599310 AATGATCTAGATTGAG-CAAGATCAAGTGAGTGGGACAAAACCATGAGT-CAAATG
64 AATGATCTAGACTGAGCCAAGATCAGGTGACCGGGATAAAACCACGAGTAAAAATA
* * * * * * * * * *
11599364 AGGCGACCAGGACCAAGTCAAGGTAAAAAATAAAT-AATCGAAATGGAATCACGAGTTATAAGAA
1 AAGCGACCAAGATCGAGTCGAGGTAAAAAATAAATGACT-GAGATGAAACCACGAGTCATAAGAA
* * * * * * * *
11599428 ATGATATGGACTGAGCCAAGATCAGGTGACCGAGACAAAATCATGAGTCCAAAATG
65 ATGATCTAGACTGAGCCAAGATCAGGTGACCGGGATAAAACCACGAGT-AAAAATA
* * * * * *** * *
11599484 AAGCGACCAAGATCGAGT-AAGATAAAAAAAAAATGATTGGGGCAAAACTACGAGTTATAAGAAA
1 AAGCGACCAAGATCGAGTCGAGGTAAAAAATAAATGACTGAGATGAAACCACGAGTCATAAGAAA
* * * * * * *
11599548 TGATCTAAACTGAGCTAAGATTAGGTGACTGGGATGAAACTACAAGTCAAAAATGA
66 TGATCTAGACTGAGCCAAGATCAGGTGACCGGGATAAAACCACGAGT-AAAAAT-A
* * * * * * * * *
11599604 AA-TGATCAGGA-CTGAGTCAAGGTAAAAAATAAATGACAGGGAGGGAACCACGAGTCATAAAAA
1 AAGCGACCAAGATC-GAGTCGAGGTAAAAAATAAATGACTGAGATGAAACCACGAGTCATAAGAA
* * * *
11599667 ATGAT-TTGAATTGAGCCAAGATCAGGTGATCGGGATAAAACCACGAGTAAAAAATG
65 ATGATCTAG-ACTGAGCCAAGATCAGGTGACCGGGATAAAACCACGAGT-AAAAATA
* * * * * * *
11599723 AAGCGACC-TGAATCAAGTTGAGGTAAAAAATAAATAACCGAGA-AAGAACCATGAGTCATAAGA
1 AAGCGACCAAG-ATCGAGTCGAGGTAAAAAATAAATGACTGAGATGA-AACCACGAGTCATAAGA
* * ** * * * *
11599786 AATGATCTAGACTGAACCAAGATCAGATGACTAGAATGAAACTATGAGTAAAAAATA
64 AATGATCTAGACTGAGCCAAGATCAGGTGACCGGGATAAAACCACGAGT-AAAAATA
* * * ** *
11599843 AAGCAACCAAGATCGAGTCTAGGTAAAAAATAAATGA-TCGAGA-CATAAGTATGAGTCATAAGA
1 AAGCGACCAAGATCGAGTCGAGGTAAAAAATAAATGACT-GAGATGA-AACCACGAGTCATAAGA
* * * * * * * *
11599906 AATGTTCTGGACTAAGCCAAGATCAGGTGATCGGGA-CAAACTAAGAGT-CAAATA
64 AATGATCTAGACTGAGCCAAGATCAGGTGACCGGGATAAAACCACGAGTAAAAATA
* * ** * *
11599960 AGGCAACCAAGATCGAGTCGAGGTTGAAAATAAATGA-TCGGGATGAAACCACGAGTCATAAAAA
1 AAGCGACCAAGATCGAGTCGAGGTAAAAAATAAATGACT-GAGATGAAACCACGAGTCATAAGAA
* * * *
11600024 ATAATCTAGATTGAGCCAAGATCAGGTGACCGGGATAAAACCACAAGTCAAAAATG
65 ATGATCTAGACTGAGCCAAGATCAGGTGACCGGGATAAAACCACGAGT-AAAAATA
* * * * * * * * ** *
11600080 AAGTGACCAGGATCGAGTCAAGATAAAAAATAAATGA-TCAAAATGGAATCATTAGTCATAAAAA
1 AAGCGACCAAGATCGAGTCGAGGTAAAAAATAAATGACT-GAGATGAAACCACGAGTCATAAGAA
* * * * * * ** *
11600144 ATGATTTGGATTGAGTCAAGATTAGGTGATCAAGATGAAACCACGAGTAAAAAATA
65 ATGATCTAGACTGAGCCAAGATCAGGTGACCGGGATAAAACCACGAGT-AAAAATA
* * *
11600200 AAGCGACCAAGA-CTGAGTCGAGGTAAAAAATAAATGACTGGGATGAAACTATGAGTCATAAGAA
1 AAGCGACCAAGATC-GAGTCGAGGTAAAAAATAAATGACTGAGATGAAACCACGAGTCATAAGAA
* * *
11600264 ATGAT-TCAGACTGAGCCAAGATTAGGTGACCAGGATGAAACCACGAGT
65 ATGATCT-AGACTGAGCCAAGATCAGGTGACCGGGATAAAACCACGAGT
11600312 CATAAGAAAT
Statistics
Matches: 1019, Mismatches: 249, Indels: 70
0.76 0.19 0.05
Matches are distributed among these distances:
115 2 0.00
116 45 0.04
117 105 0.10
118 110 0.11
119 158 0.16
120 549 0.54
121 49 0.05
123 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (119 bp):
AAGCGACCAAGATCGAGTCGAGGTAAAAAATAAATGACTGAGATGAAACCACGAGTCATAAGAAA
TGATCTAGACTGAGCCAAGATCAGGTGACCGGGATAAAACCACGAGTAAAAATA
Found at i:11600337 original size:56 final size:56
Alignment explanation
Indices: 11600240--11600348 Score: 157
Period size: 56 Copynumber: 1.9 Consensus size: 56
11600230 TAAATGACTG
* * * *
11600240 GGATGAAACTATGAGTCATAAGAAATGATTCAGACTGAGCCAAGATTAGGTGACCA
1 GGATGAAACCACGAGTCATAAGAAATGATTCAGACTAAGCCAAGATCAGGTGACCA
*
11600296 GGATGAAACCACGAGTCATAAGAAATGATT-TGAACTAAGCCAAGATCAGGTGA
1 GGATGAAACCACGAGTCATAAGAAATGATTCAG-ACTAAGCCAAGATCAGGTGA
11600349 TCGAAATGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
55 1 0.02
56 46 0.98
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (56 bp):
GGATGAAACCACGAGTCATAAGAAATGATTCAGACTAAGCCAAGATCAGGTGACCA
Found at i:11600358 original size:56 final size:56
Alignment explanation
Indices: 11600242--11600367 Score: 148
Period size: 56 Copynumber: 2.2 Consensus size: 56
11600232 AATGACTGGG
* * * * *
11600242 ATGAAACTATGAGTCATAAGAAATGATTCAGACTGAGCCAAGATTAGGTGACCAGG
1 ATGAAACCACGAGTCATAAGAAATGATTCAGACTAAGCCAAGATCAGGTGACCAGA
* *
11600298 ATGAAACCACGAGTCATAAGAAATGATT-TGAACTAAGCCAAGATCAGGTGATC-GAA
1 ATGAAACCACGAGTCATAAGAAATGATTCAG-ACTAAGCCAAGATCAGGTGACCAG-A
*
11600354 ATGAAATCACGAGT
1 ATGAAACCACGAGT
11600368 TAAAATGAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
55 2 0.03
56 58 0.97
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (56 bp):
ATGAAACCACGAGTCATAAGAAATGATTCAGACTAAGCCAAGATCAGGTGACCAGA
Found at i:11600467 original size:175 final size:176
Alignment explanation
Indices: 11600133--11600467 Score: 417
Period size: 175 Copynumber: 1.9 Consensus size: 176
11600123 TGGAATCATT
* * * * *
11600133 AGTCATAAAAAATGATTTGGATTGAGTCAAGATTAGGTGATCAAGATGAAACCACGAGTAAAAAA
1 AGTCATAAAAAATGATTTGAACTAAGCCAAGATCAGGTGATCAAGATGAAACCACGAGTAAAAAA
** * *
11600198 TAAAGCGACCAAGACTGAGTCGAGGTAAAAAATAAATGACTGGGATGAAACTATGAGTCATAAGA
66 TAAAGCGACCAAGACCAAGTCGAGGTAAAAAATAAATGACAGGGATGAAACCATGAGTCATAAGA
*
11600263 AATGATTCAGACTGAGCCAAGATTAGGTGACCAGGATGAAACCACG
131 AATGATTCAGACTGAACCAAGATTAGGTGACCAGGATGAAACCACG
* * *
11600309 AGTCATAAGAAATGATTTGAACTAAGCCAAGATCAGGTGATCGAA-ATGAAATCACGAGT-TAAA
1 AGTCATAAAAAATGATTTGAACTAAGCCAAGATCAGGTGATC-AAGATGAAACCACGAGTAAAAA
* * * ** * *
11600372 ATGAAA-TGACCAGGACCAAGTTGAGGTCGAAAATAAATGACAGGGATGGAACCATGAGTTATAA
65 AT-AAAGCGACCAAGACCAAGTCGAGGTAAAAAATAAATGACAGGGATGAAACCATGAGTCATAA
* *
11600436 GAAATGA-TCTAGATTGAACCAATATTAGGTGA
129 GAAATGATTC-AGACTGAACCAAGATTAGGTGA
11600468 TTGGAACGAA
Statistics
Matches: 134, Mismatches: 22, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
174 2 0.01
175 78 0.58
176 52 0.39
177 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.21
Consensus pattern (176 bp):
AGTCATAAAAAATGATTTGAACTAAGCCAAGATCAGGTGATCAAGATGAAACCACGAGTAAAAAA
TAAAGCGACCAAGACCAAGTCGAGGTAAAAAATAAATGACAGGGATGAAACCATGAGTCATAAGA
AATGATTCAGACTGAACCAAGATTAGGTGACCAGGATGAAACCACG
Found at i:11600556 original size:120 final size:120
Alignment explanation
Indices: 11600297--11600707 Score: 316
Period size: 120 Copynumber: 3.4 Consensus size: 120
11600287 AGGTGACCAG
* * * * *
11600297 GATGAAACCACGAGTCATAAGAAATGAT-TTGAACT-AAGCCAAGATCAGGTGA-TCGAAATGAA
1 GATGAAACCATGAGTCATAAGAAATGATCTAG-ACTGAA-CCAAGATTAGGTGACT-GGAACGAA
* * * * ** ** ** *
11600359 ATCACGAGT-TAAAATGAAA-TGACCAGGACCAAGTTGAGGTCGAAAATAAATGAC-AGG
63 ACCACGAATAAAAAAT-AAAGCGACCAGGACTGAGTCAAGGTAAAAAATAAATGACTA-A
* * * * *
11600416 GATGGAACCATGAGTTATAAGAAATGATCTAGATTGAACCAATATTAGGTGATTGGAACGAAACC
1 GATGAAACCATGAGTCATAAGAAATGATCTAGACTGAACCAAGATTAGGTGACTGGAACGAAACC
** * * *
11600481 ACGAATCGAATATGAAGCGACCAGGATTGAGTCAAGGTAAAAAATAAATGACTAA
66 ACGAATAAAAAATAAAGCGACCAGGACTGAGTCAAGGTAAAAAATAAATGACTAA
* * * * * *
11600536 GATGAAATCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATTAGGTGACTGGGATGAAACC
1 GATGAAACCATGAGTCATAAGAAATGATCTAGACTGAACCAAGATTAGGTGACTGGAACGAAACC
* * * * * * *
11600601 ATGAGTAAAAAATAAAGTGACTAGGACTGAGTCGAGGTCAAAAATAAATTA-TCAA
66 ACGAATAAAAAATAAAGCGACCAGGACTGAGTCAAGGTAAAAAATAAATGACT-AA
* * * *
11600656 GATGAAACCATGAGTCATAAAAAATGAT-TTGAACTGAGCCAAGATCAGGTGA
1 GATGAAACCATGAGTCATAAGAAATGATCTAG-ACTGAACCAAGATTAGGTGA
11600708 GTGATAATAG
Statistics
Matches: 233, Mismatches: 51, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
119 57 0.24
120 175 0.75
121 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.20
Consensus pattern (120 bp):
GATGAAACCATGAGTCATAAGAAATGATCTAGACTGAACCAAGATTAGGTGACTGGAACGAAACC
ACGAATAAAAAATAAAGCGACCAGGACTGAGTCAAGGTAAAAAATAAATGACTAA
Found at i:11601829 original size:42 final size:42
Alignment explanation
Indices: 11601751--11601832 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
11601741 TTTTTGCTTA
* * **
11601751 TTTTTGGGTGGAGCACATTGACATTTTGCCTTATCAATTTTT
1 TTTTTGGGTAGAGCACATTGACATTTTACCCCATCAATTTTT
* *
11601793 TTTTTTGGTAGAGCACATTGATATTTTACCCCATCAATTT
1 TTTTTGGGTAGAGCACATTGACATTTTACCCCATCAATTT
11601833 CTCTTCATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (42 bp):
TTTTTGGGTAGAGCACATTGACATTTTACCCCATCAATTTTT
Found at i:11605964 original size:20 final size:20
Alignment explanation
Indices: 11605941--11605979 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
11605931 TGTTCTTCCA
11605941 AAAAAT-CTAGATTTTTTTAG
1 AAAAATCCTA-ATTTTTTTAG
11605961 AAAAATCCTAATTTTTTTA
1 AAAAATCCTAATTTTTTTA
11605980 AACCTATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (20 bp):
AAAAATCCTAATTTTTTTAG
Found at i:11606427 original size:3 final size:3
Alignment explanation
Indices: 11606419--11606464 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
11606409 AATAAAAAGT
*
11606419 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA AT- ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11606465 TATTGCCATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11606954 original size:16 final size:17
Alignment explanation
Indices: 11606928--11606959 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11606918 TATTATTAAG
11606928 TTTTCATTTTTATAATT
1 TTTTCATTTTTATAATT
11606945 TTTTCATTTTT-TAAT
1 TTTTCATTTTTATAAT
11606960 CATGATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTCATTTTTATAATT
Found at i:11607717 original size:27 final size:26
Alignment explanation
Indices: 11607665--11607717 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
11607655 CATAACTTTT
* *
11607665 TATTTTATTTTGAAGGTATGAATTGA
1 TATTTTATTTTGAAGGAATCAATTGA
* *
11607691 TATTTTATTTTTAGGGAATCAAGTTGA
1 TATTTTATTTTGAAGGAATCAA-TTGA
11607718 CATAAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (26 bp):
TATTTTATTTTGAAGGAATCAATTGA
Found at i:11608164 original size:13 final size:12
Alignment explanation
Indices: 11608125--11608157 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
11608115 ATAAAAAAAT
11608125 AAAAAAATTGCA
1 AAAAAAATTGCA
11608137 AAAAAAATTGCA
1 AAAAAAATTGCA
11608149 AAAAAAATT
1 AAAAAAATT
11608158 ATGAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (12 bp):
AAAAAAATTGCA
Found at i:11608501 original size:17 final size:18
Alignment explanation
Indices: 11608468--11608501 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11608458 ATCTTAAGAT
11608468 AATTTTATTTTTATAAAA
1 AATTTTATTTTTATAAAA
11608486 AATTTTATTTTT-TAAA
1 AATTTTATTTTTATAAA
11608502 GTTTTCATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTTATTTTTATAAAA
Found at i:11608520 original size:8 final size:9
Alignment explanation
Indices: 11608494--11608559 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 9
11608484 AAAATTTTAT
11608494 TTTTTA-AA
1 TTTTTATAA
*
11608502 GTTTTCATAA
1 -TTTTTATAA
11608512 TTTTT-TAA
1 TTTTTATAA
11608520 TTTTTATAA
1 TTTTTATAA
* *
11608529 TTTCTAAAAA
1 TTT-TTATAA
11608539 TATTTTAT-A
1 T-TTTTATAA
11608548 TTTTTA-AA
1 TTTTTATAA
11608556 TTTT
1 TTTT
11608560 AAATTATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
8 18 0.39
9 17 0.37
10 9 0.20
11 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:11608523 original size:17 final size:19
Alignment explanation
Indices: 11608492--11608531 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
11608482 AAAAAATTTT
11608492 ATTTTTTAAAGTTTTCATA
1 ATTTTTTAAAGTTTTCATA
*
11608511 ATTTTTT-AA-TTTTTATA
1 ATTTTTTAAAGTTTTCATA
11608528 ATTT
1 ATTT
11608532 CTAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 2 0.10
19 7 0.35
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTTTTAAAGTTTTCATA
Done.