Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 31 of 145
Found at i:9991941 original size:29 final size:30
Alignment explanation
Indices: 9991889--9991961 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
9991879 ACTGCTATTA
*
9991889 TAAAAAAATTATAA-AAAATATTAATTATAT
1 TAAAAAAATTA-AATAAAATATTAATAATAT
*
9991919 TATAAAAATTAAATAAAA-ATTAATAATAT
1 TAAAAAAATTAAATAAAATATTAATAATAT
*
9991948 TAAAAAAATGAAAT
1 TAAAAAAATTAAAT
9991962 TAACCCTTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 24 0.63
30 14 0.37
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (30 bp):
TAAAAAAATTAAATAAAATATTAATAATAT
Found at i:9996328 original size:283 final size:283
Alignment explanation
Indices: 9995520--9997075 Score: 1719
Period size: 283 Copynumber: 5.5 Consensus size: 283
9995510 AATTTTAGAA
* * * * * *
9995520 ATATTGTAATTATTATAAAATAGTGAATATTGACGCCATAATGTAGACCTATCCTAAATTATAGT
1 ATATAGTAATTATTATAAAATAATGAATATTGGCACCATAATTTAGACCTATCCTAAATTATAGC
** * *
9995585 GTTATAACTTAAATCTA-A-ATATTTTGTTTATTTACCCTTATTAAAATCTTTCTTTAAGCTTAA
66 GTTATAACTTAAATCTATATATATTACGTTTATTTACACTTACT-AAATCTTTCTTTAAGCTTAA
* * *
9995648 CATCAAGAATTG-CGT-AACTCAATTGTAGAAATTATTAAGCATAAATTTTAAAAAGAATAATAT
130 CATCATGAA-TGACGTCAACTCAATTGTAGAAATTATTAAACATAAATTTTATAAA-AATAATAT
* * * * *
9995711 TATTGTTTAAATCTAAACATTAATTTCATTTTTTACTTACTAAATCTATCATTAATCTTAACGTC
193 TATTGTTTAAATCTAAACATTAATTCCA-TTTTTACTTACTAAATCTATCATTGAGCTTAACATG
* * * *
9995776 ACGAATAACCGTCAACTAAATTTTAAAA
257 ACCAATGA-CGTCAACTAAATTATAAAG
* * * * * * *
9995804 ATATAGTAAAT-TTATAAAATAATAAATAATT-ACATCATAAATTAGACATATCCTAAATTATTG
1 ATATAGTAATTATTATAAAATAATGAAT-ATTGGCACCATAATTTAGACCTATCCTAAATTATAG
** * * * * * *
9995867 CGTTATTGCTTAAATCTA-A-ACATTAC-TTTCATTTATACTTATTGATTCTTTCTTTAAGCTTT
65 CGTTATAACTTAAATCTATATATATTACGTTT-ATTTACACTTACTAAATCTTTCTTTAAGCTTA
*
9995929 ACATCATGAATCACGTCAACTCAATTGTAGAAATTATTAAACATAAATTTT-TAAAAA-ATATAT
129 ACATCATGAATGACGTCAACTCAATTGTAGAAATTATTAAACATAAATTTTATAAAAATA-ATAT
* * * * *
9995992 TATTGTTTAAATCTGAACATTAATTTCATTTTTACTTACTAAATATATCATTGAGCTTAATACGA
193 TATTGTTTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGA
* * **
9996057 CAAATGACGTCAAGTTTATTATAAAG
258 CCAATGACGTCAACTAAATTATAAAG
* ** * *
9996083 ATATAGTAATTATCAT-AAATAATGAATATTGGTGCCATAATTTAGACCTAACCTAAATTATAGT
1 ATATAGTAATTATTATAAAATAATGAATATTGGCACCATAATTTAGACCTATCCTAAATTATAGC
*
9996147 GTTATAACTTAAATCTAAATATATATTACGTTTATTTACACTTACTAAATCTTT-TTTAAGTTTA
66 GTTATAACTTAAATCT--ATATATATTACGTTTATTTACACTTACTAAATCTTTCTTTAAGCTTA
* ** * *
9996211 ATATCATGAATGACGTTTACTCAATTGTAGAGATGATTAAACATAAATTTTATAAAAATAATATT
129 ACATCATGAATGACGTCAACTCAATTGTAGAAATTATTAAACATAAATTTTATAAAAATAATATT
* *
9996276 ATTGTTTAAATCTAAACAGTAGTTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGAC
194 ATTGTTTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGAC
9996341 CAATGACGTCAACTAAATTATAAAG
259 CAATGACGTCAACTAAATTATAAAG
* * * *
9996366 AAATAATAATTATGATAAAATAATGAATATTGGCACCATAATTTAGACTTATCCTAAATTATAGC
1 ATATAGTAATTATTATAAAATAATGAATATTGGCACCATAATTTAGACCTATCCTAAATTATAGC
* * * * *
9996431 GTTCTAACTTGAATC--TACATATTCCGTTTATTTACACTTACTAAATCTTTTTTTAAGCTTAAC
66 GTTATAACTTAAATCTATATATATTACGTTTATTTACACTTACTAAATCTTTCTTTAAGCTTAAC
* * * ***
9996494 ATTATGAATGACATCAACTCAATTGCAGAAATTATTAAACAT-AATTTT-T-TTTA-AATATTAT
131 ATCATGAATGACGTCAACTCAATTGTAGAAATTATTAAACATAAATTTTATAAAAATAATATTAT
* * *
9996555 TGTTTAAATCTAAACATTAATTCCATTTTTATTTACTAAATCTATCATCGGGCTTAACATGACCA
196 TGTTTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGACCA
* * *
9996620 ATGACGTTAACTAGATTATAGAG
261 ATGACGTCAACTAAATTATAAAG
* *
9996643 ATATAGTAATTATTATAAAATAATGAATATTAGCGCCATAATTTAGACCTATCCTAAATTATAGC
1 ATATAGTAATTATTATAAAATAATGAATATTGGCACCATAATTTAGACCTATCCTAAATTATAGC
* * * * * * *
9996708 GTTATGACTTGAATCTA-A-ACATCACTTTTATTTACACTTACTAGATCTTTCTTTATGCTTAAC
66 GTTATAACTTAAATCTATATATATTACGTTTATTTACACTTACTAAATCTTTCTTTAAGCTTAAC
* * * * * * *
9996771 ATAATAAAT-AGCGTCAATTCAATTGAAGAAATTATTAAACATAAATTTAAAAAAAAAATAGTAT
131 ATCATGAATGA-CGTCAACTCAATTGTAGAAATTATTAAACATAAATTT--TATAAAAATAATAT
* * * *
9996835 TATTGTTTAAATCTAAACATTAACTCCA-TTTTACTTACTAATTCTATTATTGAGCTTGACATGA
193 TATTGTTTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGA
* *
9996899 CGAATGACGTCAACTAAATTATAGAG
258 CCAATGACGTCAACTAAATTATAAAG
* * ** * *
9996925 ATATAGTAATTATTATAAAACAATAAATATTGGCACCATAATTTAGATTTATCCTAAATTACAAC
1 ATATAGTAATTATTATAAAATAATGAATATTGGCACCATAATTTAGACCTATCCTAAATTATAGC
* * ** * * *
9996990 GCTATAACTTAAACCTA-AT-TATTATTTTTATTT--ACTTACTAAATCTATCATTAATCTTAAC
66 GTTATAACTTAAATCTATATATATTACGTTTATTTACACTTACTAAATCTTTCTTTAAGCTTAAC
* *
9997051 GA-CATGAATAACCGTCAACTAAATT
131 -ATCATGAATGA-CGTCAACTCAATT
9997076 TTAAAAATAG
Statistics
Matches: 1073, Mismatches: 171, Indels: 59
0.82 0.13 0.05
Matches are distributed among these distances:
276 1 0.00
277 233 0.22
278 10 0.01
279 73 0.07
280 106 0.10
281 93 0.09
282 224 0.21
283 261 0.24
284 72 0.07
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (283 bp):
ATATAGTAATTATTATAAAATAATGAATATTGGCACCATAATTTAGACCTATCCTAAATTATAGC
GTTATAACTTAAATCTATATATATTACGTTTATTTACACTTACTAAATCTTTCTTTAAGCTTAAC
ATCATGAATGACGTCAACTCAATTGTAGAAATTATTAAACATAAATTTTATAAAAATAATATTAT
TGTTTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGACCA
ATGACGTCAACTAAATTATAAAG
Found at i:9997954 original size:28 final size:28
Alignment explanation
Indices: 9997914--9997969 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
9997904 TCTCAAGGTG
9997914 GGTGACACCCATAATTGTTTTTGGTTTT
1 GGTGACACCCATAATTGTTTTTGGTTTT
9997942 GGTGACACCCATAATTGTTTTTGGTTTT
1 GGTGACACCCATAATTGTTTTTGGTTTT
9997970 CTTTTTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.46
Consensus pattern (28 bp):
GGTGACACCCATAATTGTTTTTGGTTTT
Found at i:9999816 original size:21 final size:21
Alignment explanation
Indices: 9999792--9999838 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
9999782 TGACGATGAT
*
9999792 GATGATGAGGAGGAGGAAGAG
1 GATGATGAGGAAGAGGAAGAG
*
9999813 GATGATGAGGAAGAGGATGAG
1 GATGATGAGGAAGAGGAAGAG
9999834 GATGA
1 GATGA
9999839 GGATGCTGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.49, T:0.13
Consensus pattern (21 bp):
GATGATGAGGAAGAGGAAGAG
Found at i:9999824 original size:15 final size:15
Alignment explanation
Indices: 9999804--9999832 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9999794 TGATGAGGAG
9999804 GAGGAAGAGGATGAT
1 GAGGAAGAGGATGAT
9999819 GAGGAAGAGGATGA
1 GAGGAAGAGGATGA
9999833 GGATGAGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.48, T:0.10
Consensus pattern (15 bp):
GAGGAAGAGGATGAT
Found at i:9999854 original size:15 final size:15
Alignment explanation
Indices: 9999834--9999865 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
9999824 AGAGGATGAG
9999834 GATGAGGATGCTGAC
1 GATGAGGATGCTGAC
9999849 GATGAGGATGCTGAC
1 GATGAGGATGCTGAC
9999864 GA
1 GA
9999866 AGGAAGTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.41, T:0.19
Consensus pattern (15 bp):
GATGAGGATGCTGAC
Found at i:10016404 original size:30 final size:29
Alignment explanation
Indices: 10016368--10016428 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
10016358 TGTTTGCTTT
* *
10016368 TTTAATTATATTAATTACTTTGATATTATA
1 TTTAATTATATTAAATAATTTGAT-TTATA
* *
10016398 TTTAATTGTATTAAATAATTTTATTTATA
1 TTTAATTATATTAAATAATTTGATTTATA
10016427 TT
1 TT
10016429 CAAATTTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTAATTATATTAAATAATTTGATTTATA
Found at i:10016736 original size:194 final size:195
Alignment explanation
Indices: 10016395--10016789 Score: 774
Period size: 194 Copynumber: 2.0 Consensus size: 195
10016385 CTTTGATATT
10016395 ATATTTAATTGTATTAAATAATTTTATTTATATTCAAATTTGAATTTATGGTAACTAATATTATA
1 ATATTTAATTGTATTAAATAATTTTATTTATATTCAAATTTGAATTTATGGTAACTAATATTATA
10016460 TTAATTAATATTATCTTTCAATTTTAAAATTAATATTATATTAATTGTTGTTTATGTCGAAACCA
66 TTAATTAATATTATCTTTCAATTTTAAAATTAATATTATATTAATTGTTGTTTATGTCGAAACCA
10016525 CTTTTTGAAAACAAAAATGGAGTCGACTTTTATTTTGAAAATAAAAAAAACGGGAGTCGCCACCG
131 CTTTTTGAAAACAAAAATGGAGTCGACTTTTATTTTGAAAATAAAAAAAACGGGAGTCGCCACCG
10016590 ATATTTAATTG-ATTAAATAATTTTATTTATATTCAAATTTGAATTTATGGTAACTAATATTATA
1 ATATTTAATTGTATTAAATAATTTTATTTATATTCAAATTTGAATTTATGGTAACTAATATTATA
10016654 TTAATTAATATTATCTTTCAATTTTAAAATTAATATTATATTAATTGTTGTTTATGTCGAAACCA
66 TTAATTAATATTATCTTTCAATTTTAAAATTAATATTATATTAATTGTTGTTTATGTCGAAACCA
10016719 CTTTTTGAAAACAAAAATGGAGTCGACTTTTATTTTGAAAATAAAAAAAACGGGAGTCGCCACCG
131 CTTTTTGAAAACAAAAATGGAGTCGACTTTTATTTTGAAAATAAAAAAAACGGGAGTCGCCACCG
*
10016784 ACATTT
1 ATATTT
10016790 TTTGAGGTGT
Statistics
Matches: 199, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
194 188 0.94
195 11 0.06
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (195 bp):
ATATTTAATTGTATTAAATAATTTTATTTATATTCAAATTTGAATTTATGGTAACTAATATTATA
TTAATTAATATTATCTTTCAATTTTAAAATTAATATTATATTAATTGTTGTTTATGTCGAAACCA
CTTTTTGAAAACAAAAATGGAGTCGACTTTTATTTTGAAAATAAAAAAAACGGGAGTCGCCACCG
Found at i:10017524 original size:17 final size:18
Alignment explanation
Indices: 10017498--10017531 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10017488 ATGAACTACA
10017498 AATAACCAATA-AATACC
1 AATAACCAATACAATACC
*
10017515 AATAAGCAATACAATAC
1 AATAACCAATACAATAC
10017532 ACACAAGAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.18
Consensus pattern (18 bp):
AATAACCAATACAATACC
Found at i:10018157 original size:24 final size:22
Alignment explanation
Indices: 10018120--10018166 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
10018110 TTAAAATTAA
*
10018120 ATATATTAAAAAATGAAAGAAT
1 ATATATTAAAAAATGAAAAAAT
*
10018142 ATATATATAAATAAATTAAAAAAT
1 ATATAT-TAAA-AAATGAAAAAAT
10018166 A
1 A
10018167 AAAATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 4 0.19
24 11 0.52
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (22 bp):
ATATATTAAAAAATGAAAAAAT
Found at i:10020342 original size:9 final size:9
Alignment explanation
Indices: 10020325--10020366 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
10020315 TCGAGTTGAT
*
10020325 TCGAATAAC
1 TCGATTAAC
10020334 TCGATTAAC
1 TCGATTAAC
*
10020343 TCGATTAAT
1 TCGATTAAC
*
10020352 TCGAATAAC
1 TCGATTAAC
10020361 TCGATT
1 TCGATT
10020367 TGTTTAACTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (9 bp):
TCGATTAAC
Found at i:10027502 original size:9 final size:9
Alignment explanation
Indices: 10027485--10027515 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10027475 TCGAGTTGAT
10027485 TCGAATAAC
1 TCGAATAAC
*
10027494 TCGATTAAC
1 TCGAATAAC
10027503 TCGAATAAC
1 TCGAATAAC
10027512 TCGA
1 TCGA
10027516 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:10030244 original size:23 final size:23
Alignment explanation
Indices: 10030197--10030244 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
10030187 TAATTGAGAG
** *
10030197 AAAAAAACTCAAACATTAAATTA
1 AAAAAAACTCAAACACCAAAATA
*
10030220 AAAAAAATTCAAACACCAAAATA
1 AAAAAAACTCAAACACCAAAATA
10030243 AA
1 AA
10030245 TATTAAAACC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.17
Consensus pattern (23 bp):
AAAAAAACTCAAACACCAAAATA
Found at i:10035756 original size:20 final size:18
Alignment explanation
Indices: 10035709--10035758 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
10035699 CAAAATAAAC
10035709 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
*
10035726 ATTTAGA-TAATCACTTTAAT
1 A-TTAAATTAAT-A-TTTAAT
10035746 ATTAAATTAATAT
1 ATTAAATTAATAT
10035759 AATAATTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
17 4 0.15
18 5 0.19
19 6 0.23
20 11 0.42
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:10035796 original size:103 final size:103
Alignment explanation
Indices: 10035630--10036192 Score: 1083
Period size: 103 Copynumber: 5.5 Consensus size: 103
10035620 TGATTAAACT
*
10035630 TAATAACTTTAATATTAAATTAATATAATAATTATCAAGATAATATTAAAATAATAGAATGTTCA
1 TAATCACTTTAATATTAAATTAATATAATAATTATCAAGATAATATTAAAATAATAGAATGTTCA
10035695 TATGCAAAATAAACATTAAATTAAATTTAATATTTAGA
66 TATGCAAAATAAACATTAAATTAAATTTAATATTTAGA
10035733 TAATCACTTTAATATTAAATTAATATAATAATTATCAAGATAATATTAAAATAATAGAATGTTCA
1 TAATCACTTTAATATTAAATTAATATAATAATTATCAAGATAATATTAAAATAATAGAATGTTCA
10035798 TATGCAAAATAAACATTAAATTAAATTTAATATTTAGA
66 TATGCAAAATAAACATTAAATTAAATTTAATATTTAGA
10035836 TAATCACTTTAATATTAAATTAATATAATAATTATCAAGATAATATTAAAATAATAGAATGTTCA
1 TAATCACTTTAATATTAAATTAATATAATAATTATCAAGATAATATTAAAATAATAGAATGTTCA
10035901 TATGCAAAATAAACATTAAATTAAATTTAATATTTAGA
66 TATGCAAAATAAACATTAAATTAAATTTAATATTTAGA
10035939 TAATCACTTTAATATTAAATTAATATAATAATTATCAAGATAATATTAAAATAATAGAATGTTCA
1 TAATCACTTTAATATTAAATTAATATAATAATTATCAAGATAATATTAAAATAATAGAATGTTCA
10036004 TATGCAAAATAAACATTAAATTAAATTTAATATTTAGA
66 TATGCAAAATAAACATTAAATTAAATTTAATATTTAGA
10036042 TAATCACTTTAATATTAAATTAATATAATAATTATCAAGATAATATTAAAATAATAGAATGTTCA
1 TAATCACTTTAATATTAAATTAATATAATAATTATCAAGATAATATTAAAATAATAGAATGTTCA
10036107 TATGCAAAATAAACATTAAATTAAATTTAATATTTAGA
66 TATGCAAAATAAACATTAAATTAAATTTAATATTTAGA
* *
10036145 TAATCACTTTAATATTAAATTAATAAAATAA-TATTAAGATAAGTATTA
1 TAATCACTTTAATATTAAATTAATATAATAATTATCAAGATAA-TATTA
10036193 CATTAAAATT
Statistics
Matches: 456, Mismatches: 3, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
102 10 0.02
103 446 0.98
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.38
Consensus pattern (103 bp):
TAATCACTTTAATATTAAATTAATATAATAATTATCAAGATAATATTAAAATAATAGAATGTTCA
TATGCAAAATAAACATTAAATTAAATTTAATATTTAGA
Found at i:10035859 original size:20 final size:18
Alignment explanation
Indices: 10035812--10035861 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
10035802 CAAAATAAAC
10035812 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
*
10035829 ATTTAGA-TAATCACTTTAAT
1 A-TTAAATTAAT-A-TTTAAT
10035849 ATTAAATTAATAT
1 ATTAAATTAATAT
10035862 AATAATTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
17 4 0.15
18 5 0.19
19 6 0.23
20 11 0.42
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:10035962 original size:20 final size:18
Alignment explanation
Indices: 10035915--10035964 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
10035905 CAAAATAAAC
10035915 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
*
10035932 ATTTAGA-TAATCACTTTAAT
1 A-TTAAATTAAT-A-TTTAAT
10035952 ATTAAATTAATAT
1 ATTAAATTAATAT
10035965 AATAATTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
17 4 0.15
18 5 0.19
19 6 0.23
20 11 0.42
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:10036065 original size:20 final size:18
Alignment explanation
Indices: 10036018--10036067 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
10036008 CAAAATAAAC
10036018 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
*
10036035 ATTTAGA-TAATCACTTTAAT
1 A-TTAAATTAAT-A-TTTAAT
10036055 ATTAAATTAATAT
1 ATTAAATTAATAT
10036068 AATAATTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
17 4 0.15
18 5 0.19
19 6 0.23
20 11 0.42
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:10037789 original size:51 final size:49
Alignment explanation
Indices: 10037603--10037790 Score: 216
Period size: 51 Copynumber: 3.7 Consensus size: 49
10037593 GAAAGTGATG
* * * * *
10037603 GTCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACTAGAATG-ATA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-TCGGATGTATA
* * * * *
10037652 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAGTTTT
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGAT-GTATA
*
10037703 GATCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGGTAATA
1 G-TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGAT-GT-ATA
10037755 GTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
10037791 AACCGAACAT
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
49 3 0.03
50 35 0.30
51 76 0.66
52 2 0.02
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.33
Consensus pattern (49 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGTATA
Found at i:10037807 original size:102 final size:101
Alignment explanation
Indices: 10037604--10037788 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 101
10037594 AAAGTGATGG
*
10037604 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACTAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACTAGAATGATAGGTCACATGTGTAGTAC
* * *
10037669 TATGTGCAGGCTACTATGCGTATCAGATAGTTTTGA
66 TATGTGCAGGCTACTATGCGTAACAGATAATATTGA
* * * *
10037705 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTA-TCGGATGGTAATA-GTCACATGTGTAG
1 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACTAGAAT-G--ATAGGTCACATGTGTAG
10037768 TACTATGTGCAGGCTACTATG
63 TACTATGTGCAGGCTACTATG
10037789 TGAACCGAAC
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 4 0.05
101 36 0.47
102 33 0.43
103 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACTAGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTAACAGATAATATTGA
Found at i:10037848 original size:45 final size:45
Alignment explanation
Indices: 10037792--10037884 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
10037782 TACTATGTGA
* *
10037792 ACCGAACATCATTGATTAGTAAGGTGGTTACTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCC
*
10037837 ACCGGACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCC
10037882 ACC
1 ACC
10037885 AAGTATCTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCC
Found at i:10040993 original size:15 final size:15
Alignment explanation
Indices: 10040969--10041000 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10040959 TATGCATGCA
*
10040969 AAATATAAAAGACAT
1 AAATACAAAAGACAT
10040984 AAATACAAAAGACAT
1 AAATACAAAAGACAT
10040999 AA
1 AA
10041001 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:10048819 original size:22 final size:22
Alignment explanation
Indices: 10048791--10048832 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
10048781 TACATAAACT
10048791 TGGTGAAGCTTA-ACCTTATACA
1 TGGTGAAGCTTAGA-CTTATACA
10048813 TGGTGAAGCTTAGACTTATA
1 TGGTGAAGCTTAGACTTATA
10048833 GGCTTGCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (22 bp):
TGGTGAAGCTTAGACTTATACA
Found at i:10049316 original size:16 final size:16
Alignment explanation
Indices: 10049295--10049325 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10049285 AGTAAGCTAT
*
10049295 TAAAGCTTAGCAAATC
1 TAAAGCTTAACAAATC
10049311 TAAAGCTTAACAAAT
1 TAAAGCTTAACAAAT
10049326 TATATAAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (16 bp):
TAAAGCTTAACAAATC
Found at i:10049968 original size:21 final size:21
Alignment explanation
Indices: 10049944--10049993 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
10049934 TGCCCATCAA
10049944 ACTTATTTATCAAATATATAT
1 ACTTATTTATCAAATATATAT
*
10049965 ACTTGATCT-TCAAATATATAT
1 ACTT-ATTTATCAAATATATAT
10049986 A-TTATTTA
1 ACTTATTTA
10049994 CATATCACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 3 0.12
20 2 0.08
21 17 0.68
22 3 0.12
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (21 bp):
ACTTATTTATCAAATATATAT
Found at i:10050169 original size:41 final size:40
Alignment explanation
Indices: 10050079--10050198 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 40
10050069 TGATTTAATA
* * * * * *
10050079 CACCGGCTTTTAGCCTGCTAGACTTATAGTCCGAATAATTT
1 CACCGGCATTAAGCCTGCTAGAC-AATAGTCTGAATTATAT
*
10050120 CACTGGCATTAAGCCTGCTAGACAATGAGTCTGAATTATAT
1 CACCGGCATTAAGCCTGCTAGACAAT-AGTCTGAATTATAT
* *
10050161 CACCGGCATCAAGCCTGCTAGATAATAAGTCTGAATTA
1 CACCGGCATTAAGCCTGCTAGACAAT-AGTCTGAATTA
10050199 CATTCGATCA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
40 2 0.03
41 65 0.97
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACAATAGTCTGAATTATAT
Found at i:10058448 original size:47 final size:47
Alignment explanation
Indices: 10058397--10058507 Score: 134
Period size: 47 Copynumber: 2.4 Consensus size: 47
10058387 CGACCAATGG
* * *
10058397 TTTATCCACAACGTATTTTAGTCTCCAA-TCATCTGCTCAATTAGTGA
1 TTTATCCACAACGTATTTTAGTCGCCAACT-ATCTACTCAAGTAGTGA
* * * *
10058444 TTTATCCACAACATATTTTAGTCGGCAACTATCTACTCGAGTAGTGG
1 TTTATCCACAACGTATTTTAGTCGCCAACTATCTACTCAAGTAGTGA
*
10058491 TTCATCCACAACGTATT
1 TTTATCCACAACGTATT
10058508 AGCAGCTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 53 0.98
48 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (47 bp):
TTTATCCACAACGTATTTTAGTCGCCAACTATCTACTCAAGTAGTGA
Found at i:10058620 original size:90 final size:90
Alignment explanation
Indices: 10058455--10058629 Score: 206
Period size: 90 Copynumber: 1.9 Consensus size: 90
10058445 TTATCCACAA
* * ** * *
10058455 CATATTTTAGTCGGCAACTATCTACTCGAGTAGTGGTTCATCCACAACGTATTAGCAGCTTTTAT
1 CATATTTTAGTCGACAACCATCTACTCGACCAGTGGTTCATCCACAACGTATTAGCAACTTTTAC
* *
10058520 TTGCACAAATGGATGGTTCATTCAC
66 CTGCACAAATGGATAGTTCATTCAC
* * * * * *
10058545 CATATTTTAGTCGACAGCCATCTGCTCGACCATTGTTTCATCTACAATGTATTAGCAACTTTTAC
1 CATATTTTAGTCGACAACCATCTACTCGACCAGTGGTTCATCCACAACGTATTAGCAACTTTTAC
**
10058610 CTGCTTAAATGGATAGTTCA
66 CTGCACAAATGGATAGTTCA
10058630 CCCACTAAAA
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
90 69 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (90 bp):
CATATTTTAGTCGACAACCATCTACTCGACCAGTGGTTCATCCACAACGTATTAGCAACTTTTAC
CTGCACAAATGGATAGTTCATTCAC
Found at i:10062812 original size:23 final size:23
Alignment explanation
Indices: 10062775--10062821 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10062765 TCCATTTTCT
* *
10062775 ATTTAGTTTTATTTTTACTTGTA
1 ATTTAGGTTTATTTTCACTTGTA
* *
10062798 ATTTAGGTTTCTTTTCAGTTGTA
1 ATTTAGGTTTATTTTCACTTGTA
10062821 A
1 A
10062822 GCGTACTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.21, C:0.06, G:0.13, T:0.60
Consensus pattern (23 bp):
ATTTAGGTTTATTTTCACTTGTA
Found at i:10064495 original size:15 final size:14
Alignment explanation
Indices: 10064462--10064494 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10064452 CCTAAAATTC
10064462 TTTTTAACACTTAT
1 TTTTTAACACTTAT
10064476 TTTTTATAC-CTTAT
1 TTTTTA-ACACTTAT
10064490 TTTTT
1 TTTTT
10064495 TGCTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTAACACTTAT
Found at i:10072643 original size:14 final size:15
Alignment explanation
Indices: 10072614--10072643 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10072604 TGTGAAGAAA
10072614 TATTTTTCTTCTCCT
1 TATTTTTCTTCTCCT
10072629 TATTTTTCTTC-CCT
1 TATTTTTCTTCTCCT
10072643 T
1 T
10072644 CGCTGAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTCTTCTCCT
Found at i:10076261 original size:18 final size:19
Alignment explanation
Indices: 10076236--10076274 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
10076226 GATTGAAATC
*
10076236 AATTTTAAAT-ATTT-TTT
1 AATTTTTAATAATTTATTT
10076253 AATTTTTAATAATTTATTT
1 AATTTTTAATAATTTATTT
10076272 AAT
1 AAT
10076275 GGAATAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 4 0.21
19 6 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
AATTTTTAATAATTTATTT
Found at i:10078073 original size:16 final size:16
Alignment explanation
Indices: 10078038--10078077 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
10078028 TTAATAAAAT
* *
10078038 TAAAACTAATTGTGAT
1 TAAAATTAATTGTGAG
*
10078054 TAAAATTAATTGTTAG
1 TAAAATTAATTGTGAG
10078070 TAAAATTA
1 TAAAATTA
10078078 TCAAATTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (16 bp):
TAAAATTAATTGTGAG
Found at i:10078103 original size:20 final size:20
Alignment explanation
Indices: 10078080--10078139 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
10078070 TAAAATTATC
10078080 AAATTATCAAATTATTAATA
1 AAATTATCAAATTATTAATA
* * *
10078100 AAATCTAAC-ATTTGATTAGTA
1 AAAT-TATCAAATT-ATTAATA
*
10078121 AATTTATCAAATTATTAAT
1 AAATTATCAAATTATTAAT
10078140 TGTATTAATT
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (20 bp):
AAATTATCAAATTATTAATA
Found at i:10083642 original size:54 final size:54
Alignment explanation
Indices: 10083583--10083708 Score: 209
Period size: 54 Copynumber: 2.3 Consensus size: 54
10083573 CAACAATAAA
*
10083583 TTATTCCAGCAACTAAATTAACTAAAGATGAACT-TATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACT-AAGATGAACTCAATTAACTAAGATGAGTAAT
* *
10083637 TTATTCCAGCAACTTAATTAGCTAAGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
10083691 TTATTCCAGCAACTAAAT
1 TTATTCCAGCAACTAAAT
10083709 ACTTATTCCA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 10 0.15
54 57 0.85
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
Found at i:10083674 original size:19 final size:19
Alignment explanation
Indices: 10083647--10083685 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10083637 TTATTCCAGC
* *
10083647 AACTTAATTAGCTAAGATG
1 AACTCAATTAACTAAGATG
10083666 AACTCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
10083685 A
1 A
10083686 GTAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:10083704 original size:26 final size:26
Alignment explanation
Indices: 10083621--10083706 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
10083611 TGAACTTATT
10083621 AACTAAGATGAGTAATTTATTCCAGC
1 AACTAAGATGAGTAATTTATTCCAGC
* * ** * * **
10083647 AACTTA-ATTAGCTAAGATGAACTCAATT
1 AACTAAGATGAG-T-A-ATTTATTCCAGC
10083675 AACTAAGATGAGTAATTTATTCCAGC
1 AACTAAGATGAGTAATTTATTCCAGC
10083701 AACTAA
1 AACTAA
10083707 ATACTTATTC
Statistics
Matches: 40, Mismatches: 16, Indels: 8
0.62 0.25 0.12
Matches are distributed among these distances:
25 4 0.10
26 18 0.45
27 2 0.05
28 12 0.30
29 4 0.10
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (26 bp):
AACTAAGATGAGTAATTTATTCCAGC
Found at i:10093565 original size:30 final size:30
Alignment explanation
Indices: 10093523--10093906 Score: 539
Period size: 30 Copynumber: 12.9 Consensus size: 30
10093513 TATATATTTT
*
10093523 CGAATTGA-TTGTATATGGGTATACATTGC
1 CGAATTGATTTGTATATGGATATACATTGC
10093552 CGAATTGATTTGTATATGGATATACATTGC
1 CGAATTGATTTGTATATGGATATACATTGC
* *
10093582 CGAATT-AGTTTTTATATAGATATACATTGC
1 CGAATTGA-TTTGTATATGGATATACATTGC
*
10093612 CAAATTGATTTGTATATGGATATACATTGC
1 CGAATTGATTTGTATATGGATATACATTGC
* *
10093642 CGAATT-AGTTTTTATATAGATATACATTGC
1 CGAATTGA-TTTGTATATGGATATACATTGC
*
10093672 CAAATTGATTTGTATATGGATATACATTGC
1 CGAATTGATTTGTATATGGATATACATTGC
* *
10093702 CGAATT-AGTTTTTATATAGATATACATTGC
1 CGAATTGA-TTTGTATATGGATATACATTGC
*
10093732 CAAATTGATTTGTATATGGATATACATTGC
1 CGAATTGATTTGTATATGGATATACATTGC
* *
10093762 CGAATT-AGTTTTTATATAGATATACATTGC
1 CGAATTGA-TTTGTATATGGATATACATTGC
*
10093792 CAAATTGATTTGTATATGGATATACATTGC
1 CGAATTGATTTGTATATGGATATACATTGC
*
10093822 CGAATTGATTTGTATATGGATATACATTAC
1 CGAATTGATTTGTATATGGATATACATTGC
*
10093852 CGAATTGATTTGTATATAGATATACATTGC
1 CGAATTGATTTGTATATGGATATACATTGC
*
10093882 CGAATTGATTTGTTTAT-G-TATACAT
1 CGAATTGATTTGTATATGGATATACAT
10093907 ATATATTGTC
Statistics
Matches: 317, Mismatches: 29, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
28 7 0.02
29 13 0.04
30 293 0.92
31 4 0.01
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.41
Consensus pattern (30 bp):
CGAATTGATTTGTATATGGATATACATTGC
Found at i:10093894 original size:60 final size:60
Alignment explanation
Indices: 10093542--10093887 Score: 622
Period size: 60 Copynumber: 5.8 Consensus size: 60
10093532 TGTATATGGG
*
10093542 TATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTAGTTTTTATATAGA
1 TATACATTGCCAAATTGATTTGTATATGGATATACATTGCCGAATTAGTTTTTATATAGA
10093602 TATACATTGCCAAATTGATTTGTATATGGATATACATTGCCGAATTAGTTTTTATATAGA
1 TATACATTGCCAAATTGATTTGTATATGGATATACATTGCCGAATTAGTTTTTATATAGA
10093662 TATACATTGCCAAATTGATTTGTATATGGATATACATTGCCGAATTAGTTTTTATATAGA
1 TATACATTGCCAAATTGATTTGTATATGGATATACATTGCCGAATTAGTTTTTATATAGA
10093722 TATACATTGCCAAATTGATTTGTATATGGATATACATTGCCGAATTAGTTTTTATATAGA
1 TATACATTGCCAAATTGATTTGTATATGGATATACATTGCCGAATTAGTTTTTATATAGA
* *
10093782 TATACATTGCCAAATTGATTTGTATATGGATATACATTGCCGAATT-GATTTGTATATGGA
1 TATACATTGCCAAATTGATTTGTATATGGATATACATTGCCGAATTAG-TTTTTATATAGA
* * *
10093842 TATACATTACCGAATTGATTTGTATATAGATATACATTGCCGAATT
1 TATACATTGCCAAATTGATTTGTATATGGATATACATTGCCGAATT
10093888 GATTTGTTTA
Statistics
Matches: 279, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
59 1 0.00
60 278 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (60 bp):
TATACATTGCCAAATTGATTTGTATATGGATATACATTGCCGAATTAGTTTTTATATAGA
Found at i:10094198 original size:43 final size:40
Alignment explanation
Indices: 10094095--10094205 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 40
10094085 TGAGAAAACG
*
10094095 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTCA
1 TGTAAGACCATGTCTGGGATA-TGGCATCGTATATGATTCA
*
10094136 TATAAGACCATGTCTGGGATAGTGGCATCG-ATATGCATTAACA
1 TGTAAGACCATGTCTGGGATA-TGGCATCGTATATG-ATT--CA
* *
10094179 TGTAAGACCATATCCGGGATATGGCAT
1 TGTAAGACCATGTCTGGGATATGGCAT
10094206 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
40 5 0.08
41 30 0.49
42 6 0.10
43 20 0.33
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (40 bp):
TGTAAGACCATGTCTGGGATATGGCATCGTATATGATTCA
Found at i:10101630 original size:13 final size:13
Alignment explanation
Indices: 10101612--10101639 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10101602 TTAGAGGGTA
10101612 TTATTGCAAATTT
1 TTATTGCAAATTT
10101625 TTATTGCAAATTT
1 TTATTGCAAATTT
10101638 TT
1 TT
10101640 GGTGGCAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTATTGCAAATTT
Found at i:10104239 original size:12 final size:12
Alignment explanation
Indices: 10104222--10104254 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
10104212 CGACCCACCC
10104222 ATATTAATTTTT
1 ATATTAATTTTT
10104234 ATATT-ATTTTT
1 ATATTAATTTTT
10104245 ATA-TAATTTT
1 ATATTAATTTT
10104255 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:10120187 original size:36 final size:39
Alignment explanation
Indices: 10120124--10120201 Score: 117
Period size: 36 Copynumber: 2.1 Consensus size: 39
10120114 TTTTGAAACT
*
10120124 ATTAACTTTTTTTTTCTTTTTGGTTACATGAACCAATCA
1 ATTAACTTCTTTTTTCTTTTTGGTTACATGAACCAATCA
*
10120163 ATTAAC-TCTTTTTT-TTTTT-GTTACATGAACCAATTA
1 ATTAACTTCTTTTTTCTTTTTGGTTACATGAACCAATCA
10120199 ATT
1 ATT
10120202 TTGATTCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 19 0.51
37 5 0.14
38 7 0.19
39 6 0.16
ACGTcount: A:0.27, C:0.14, G:0.06, T:0.53
Consensus pattern (39 bp):
ATTAACTTCTTTTTTCTTTTTGGTTACATGAACCAATCA
Found at i:10120322 original size:27 final size:27
Alignment explanation
Indices: 10120275--10120338 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
10120265 AAATATTCTC
10120275 TAAATTAAT-AAATATTAATTTATCGA
1 TAAATTAATAAAATATTAATTTATCGA
* *
10120301 TAAAGTAATAAAATATTTATTTATCGA
1 TAAATTAATAAAATATTAATTTATCGA
10120328 TAAATTAATAA
1 TAAATTAATAA
10120339 TCTCGATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 8 0.24
27 26 0.76
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.41
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATCGA
Found at i:10120346 original size:17 final size:17
Alignment explanation
Indices: 10120324--10120356 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10120314 TATTTATTTA
*
10120324 TCGATAAATTAATAATC
1 TCGATAAAATAATAATC
10120341 TCGATAAAATAATAAT
1 TCGATAAAATAATAAT
10120357 TTTTTCGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (17 bp):
TCGATAAAATAATAATC
Found at i:10120682 original size:18 final size:18
Alignment explanation
Indices: 10120638--10120684 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
10120628 GACCAATGTT
*
10120638 AATAAATAATATTTTTAAA
1 AATATATAA-ATTTTTAAA
*
10120657 TATATATAAATTTATTAAA
1 AATATATAAATTT-TTAAA
10120676 AAT-TATAAA
1 AATATATAAA
10120685 AGATTATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATATAAATTTTTAAA
Found at i:10127605 original size:13 final size:13
Alignment explanation
Indices: 10127587--10127611 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10127577 TTCCACTAAC
10127587 ACTTTTTAAAAGT
1 ACTTTTTAAAAGT
10127600 ACTTTTTAAAAG
1 ACTTTTTAAAAG
10127612 CAATACTAAA
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:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
ACTTTTTAAAAGT
Found at i:10130072 original size:25 final size:25
Alignment explanation
Indices: 10130040--10130087 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
10130030 TTTGACGGCT
10130040 GCTAGACCCAGTCAAAAGAAAACCG
1 GCTAGACCCAGTCAAAAGAAAACCG
*
10130065 GCTAGACCCAGTCAAAGGAAAAC
1 GCTAGACCCAGTCAAAAGAAAAC
10130088 TGGGATTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.27, G:0.21, T:0.08
Consensus pattern (25 bp):
GCTAGACCCAGTCAAAAGAAAACCG
Found at i:10134151 original size:15 final size:16
Alignment explanation
Indices: 10134129--10134166 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
10134119 GTAAAATGCC
*
10134129 AACAATTTATAAT-TT
1 AACAATTTAAAATGTT
*
10134144 ATCAATTTAAAATGTT
1 AACAATTTAAAATGTT
10134160 AACAATT
1 AACAATT
10134167 GTAATTGCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (16 bp):
AACAATTTAAAATGTT
Found at i:10139351 original size:14 final size:14
Alignment explanation
Indices: 10139332--10139360 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10139322 AACCTCAGTT
10139332 TCACAATTAAAGTA
1 TCACAATTAAAGTA
10139346 TCACAATTAAAGTA
1 TCACAATTAAAGTA
10139360 T
1 T
10139361 AGGCTTTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (14 bp):
TCACAATTAAAGTA
Found at i:10140590 original size:20 final size:19
Alignment explanation
Indices: 10140544--10140590 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
10140534 CATAAAAAAT
10140544 TAAAA-ATGTATATAGATA
1 TAAAATATGTATATAGATA
* *
10140562 TATAGATATGTATATAAGTTA
1 TA-AAATATGTATAT-AGATA
10140583 TAAAATAT
1 TAAAATAT
10140591 AAAAATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.09
19 2 0.09
20 13 0.57
21 6 0.26
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (19 bp):
TAAAATATGTATATAGATA
Found at i:10140669 original size:23 final size:23
Alignment explanation
Indices: 10140642--10140687 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
10140632 TAAAAATTAA
10140642 AAAAATATGTATGTATATATATAT
1 AAAAA-ATGTATGTATATATATAT
*
10140666 AAAAAATGTATGTATGTATATA
1 AAAAAATGTATGTATATATATA
10140688 CATATAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (23 bp):
AAAAAATGTATGTATATATATAT
Found at i:10140670 original size:27 final size:27
Alignment explanation
Indices: 10140640--10140699 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
10140630 TATAAAAATT
*
10140640 AAAAAAATATGTATGTATATATATATA
1 AAAAAAATATGTATGTATATACATATA
**
10140667 AAAAATGTATGTATGTATATACATATA
1 AAAAAAATATGTATGTATATACATATA
*
10140694 ACAAAA
1 AAAAAA
10140700 TTTGAAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAAAAATATGTATGTATATACATATA
Found at i:10142621 original size:50 final size:50
Alignment explanation
Indices: 10142558--10142870 Score: 213
Period size: 50 Copynumber: 6.3 Consensus size: 50
10142548 AATGTTAAGC
* * * *
10142558 AAGATTTGTCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCCAGAAAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGAAAGT
* * ** * * ** * * * *
10142608 AAGATTCGCCGTTGTGGCCTT-GATCT-TTTAATTGTAATGTCGGGGAAGC
1 AAGATTCGCCGTTGTAG-CTTCAATCTGTTCCACTGCACCGCCAGGAAAGT
* * * * *
10142657 AAGATTCACCATTGTAGCTTCAATTTATTCCACTACACCGCCAGGAAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGAAAGT
* * * ** * ** * * *
10142707 AAGATTCGTCGTTGTGGCCTCAATCT-TTTAATTGCAATGTCGGGAAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGAAAGT
** * * *
10142756 AAGATTCATCGTTGTAGCTTCAATCTGTTCCACTGTACCACAAGGGAAA-T
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA-GGAAAGT
*
10142806 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAAGG-AAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGC-CAGGAAAGT
*
10142856 AAGATTCGCCATTGT
1 AAGATTCGCCGTTGT
10142871 GACCTCAATC
Statistics
Matches: 190, Mismatches: 66, Indels: 14
0.70 0.24 0.05
Matches are distributed among these distances:
48 3 0.02
49 67 0.35
50 110 0.58
51 10 0.05
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (50 bp):
AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGAAAGT
Found at i:10142711 original size:99 final size:99
Alignment explanation
Indices: 10142503--10142831 Score: 416
Period size: 99 Copynumber: 3.4 Consensus size: 99
10142493 AATCTATTCA
* *
10142503 CCAGAAAAGTAAGATTCGCTGTTGTGGCCTCAATCTTTTAATTGCAATGT----TAAGCAAGATT
1 CCAGAAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGAAAGCAAGATT
** *
10142564 TGTCGTTGTAGCTTCAATCTGTTCCGCTGCACCG
66 CATCGTTGTAGCTTCAATCTGTTCCACTGCACCG
** * *
10142598 CCAGAAAAGTAAGATTCGCCGTTGTGGCCTTGATCTTTTAATTGTAATGTCGGGGAAGCAAGATT
1 CCAGAAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGAAAGCAAGATT
* * * * *
10142663 CACCATTGTAGCTTCAATTTATTCCACTACACCG
66 CATCGTTGTAGCTTCAATCTGTTCCACTGCACCG
* *
10142697 CCAGGAAAGTAAGATTCGTCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGAAAGCAAGATT
1 CCAGAAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGAAAGCAAGATT
* *
10142762 CATCGTTGTAGCTTCAATCTGTTCCACTGTACCA
66 CATCGTTGTAGCTTCAATCTGTTCCACTGCACCG
* * * *
10142796 CAAGGGAAA-TAAGATTCGCCGTTGTAGCTTCAATCT
1 CCA-GAAAAGTAAGATTCGCCGTTGTGGCCTCAATCT
10142832 GTTCCACTGC
Statistics
Matches: 199, Mismatches: 30, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
95 46 0.23
99 148 0.74
100 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (99 bp):
CCAGAAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGAAAGCAAGATT
CATCGTTGTAGCTTCAATCTGTTCCACTGCACCG
Found at i:10142761 original size:49 final size:49
Alignment explanation
Indices: 10142508--10142781 Score: 146
Period size: 49 Copynumber: 5.6 Consensus size: 49
10142498 ATTCACCAGA
* *
10142508 AAAGTAAGATTCG-CTGTTGTGGCCTCAATCTTTTAATTGCAATGT----
1 AAAGCAAGATTCGTC-GTTGTAGCCTCAATCTTTTAATTGCAATGTCAGG
* * * **** ** * *
10142553 TAAGCAAGATTTGTCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCCAGA
1 AAAGCAAGATTCGTCGTTGTAGCCTCAATCT-TTTAATTGCAATGTCAGG
* * * ** * *
10142603 AAAGTAAGATTCGCCGTTGTGGCCTTGATCTTTTAATTGTAATGTCGGG
1 AAAGCAAGATTCGTCGTTGTAGCCTCAATCTTTTAATTGCAATGTCAGG
* ** * * * * * ** *
10142652 GAAGCAAGATTCACCATTGTAGCTTCAAT-TTATTCCACTACACCGCCAGG
1 AAAGCAAGATTCGTCGTTGTAGCCTCAATCTT-TT-AATTGCAATGTCAGG
* * *
10142702 AAAGTAAGATTCGTCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGG
1 AAAGCAAGATTCGTCGTTGTAGCCTCAATCTTTTAATTGCAATGTCAGG
* *
10142751 AAAGCAAGATTCATCGTTGTAGCTTCAATCT
1 AAAGCAAGATTCGTCGTTGTAGCCTCAATCT
10142782 GTTCCACTGT
Statistics
Matches: 156, Mismatches: 64, Indels: 14
0.67 0.27 0.06
Matches are distributed among these distances:
45 24 0.15
46 8 0.05
48 2 0.01
49 66 0.42
50 54 0.35
51 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (49 bp):
AAAGCAAGATTCGTCGTTGTAGCCTCAATCTTTTAATTGCAATGTCAGG
Found at i:10142971 original size:45 final size:45
Alignment explanation
Indices: 10142898--10142997 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
10142888 CTGCAAACTA
* *
10142898 TGGTATCTTCGATCTGCTTCGCTATCAGTACAGGAAGGCAAGATC
1 TGGTATCTTCGATCTGCTTCGCTATCAGTACAGGAAAGCAAAATC
* * *
10142943 TGGTGTCTTCGATCTGCTTTGCTGTCAGTACAGGAAAGCAAAATC
1 TGGTATCTTCGATCTGCTTCGCTATCAGTACAGGAAAGCAAAATC
*
10142988 TGCTATCTTC
1 TGGTATCTTC
10142998 ATTGATCTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (45 bp):
TGGTATCTTCGATCTGCTTCGCTATCAGTACAGGAAAGCAAAATC
Found at i:10143513 original size:18 final size:18
Alignment explanation
Indices: 10143487--10143531 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
10143477 AACTTTCTCT
*
10143487 TCTTATCACTCAATA-ATA
1 TCTTGTCAC-CAATACATA
10143505 TCTTGTCACCAATACGATA
1 TCTTGTCACCAATAC-ATA
10143524 TCTTGTCA
1 TCTTGTCA
10143532 TTTTGTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 8 0.33
19 11 0.46
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (18 bp):
TCTTGTCACCAATACATA
Found at i:10143950 original size:108 final size:107
Alignment explanation
Indices: 10143740--10143953 Score: 268
Period size: 108 Copynumber: 2.0 Consensus size: 107
10143730 TCAATGTTTG
* *
10143740 AAAAAGATTATCACAATGGACAAAGAAAATGTTATTGAGAAAAAATCTCGAAATGAATAAGTTAA
1 AAAAAGATTATCACAATGGACAAAGAAAATGTTATTGAGAAAAAAGCTCGAAATGAATAAATTAA
* * * * * *
10143805 TTAAGATAGCAAATTTTGCTAATATACGAACTGAATAAGATT
66 TCAAGATAGCAAATTTTGCCAAGATACAAAATAAATAAGATT
* * * ** *
10143847 AAAAAGATTATCACAATGGAC-AGGATGGAATTTTATTGAGAGCAAAGCTTGAAATGAATAAATT
1 AAAAAGATTATCACAATGGACAAAGA--AAATGTTATTGAGAAAAAAGCTCGAAATGAATAAATT
*
10143911 AATCAAGATAGCAAATTTTGCCAAGATTCAAAATAAATAAGAT
64 AATCAAGATAGCAAATTTTGCCAAGATACAAAATAAATAAGAT
10143954 GACGACAGGT
Statistics
Matches: 90, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
106 3 0.03
107 21 0.23
108 66 0.73
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.27
Consensus pattern (107 bp):
AAAAAGATTATCACAATGGACAAAGAAAATGTTATTGAGAAAAAAGCTCGAAATGAATAAATTAA
TCAAGATAGCAAATTTTGCCAAGATACAAAATAAATAAGATT
Found at i:10153179 original size:173 final size:169
Alignment explanation
Indices: 10152876--10153224 Score: 619
Period size: 173 Copynumber: 2.0 Consensus size: 169
10152866 TCAGATCACC
* *
10152876 TTGAAAA-GTGGTTGTTTTTAATAAACGATTTGATTTTATTAAAACAACGATTTTGGTCCACAAA
1 TTGAAAACGTGGTTATTTTTAATAAACGATTCGATTTTATTAAAACAACGATTTTGGTCCACAAA
10152940 ATTCAGAAAATGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAGCACCCTCGTAACGCCCAA
66 ATTCAGAAAATGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAGCACCCTCGTAACGCCCAA
*
10153005 AAATTGGTACCTAGTTAATTAGCTAATGTCTTGATGTCGAAAA
131 AAATTGGTACCTAGTTAA-T---TAATGTCTTAATGTCGAAAA
10153048 TTGAAAACGTGGTTATTTTTAATAAACGATTCGATTTTATTAAAACAACGATTTTGGTCCACAAA
1 TTGAAAACGTGGTTATTTTTAATAAACGATTCGATTTTATTAAAACAACGATTTTGGTCCACAAA
10153113 ATTCAGAAAATGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAGCACCCTCGTAACGCCCAA
66 ATTCAGAAAATGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAGCACCCTCGTAACGCCCAA
*
10153178 AAATTGGTACCTAGTTAATTAATGTCTTAATGTCGAGAA
131 AAATTGGTACCTAGTTAATTAATGTCTTAATGTCGAAAA
10153217 TTGAAAAC
1 TTGAAAAC
10153225 TTAGAAGAAT
Statistics
Matches: 172, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
169 26 0.15
172 8 0.05
173 138 0.80
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (169 bp):
TTGAAAACGTGGTTATTTTTAATAAACGATTCGATTTTATTAAAACAACGATTTTGGTCCACAAA
ATTCAGAAAATGAGTTCGGGAGTCGGTTACGTACGAGGAAGGATTAGCACCCTCGTAACGCCCAA
AAATTGGTACCTAGTTAATTAATGTCTTAATGTCGAAAA
Found at i:10154021 original size:20 final size:19
Alignment explanation
Indices: 10153975--10154021 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
10153965 CATAAAAAAT
10153975 TAAAA-ATGTATATAGATA
1 TAAAATATGTATATAGATA
* *
10153993 TATAGATATGTATATAAGTTA
1 TA-AAATATGTATAT-AGATA
10154014 TAAAATAT
1 TAAAATAT
10154022 AAAAATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.09
19 2 0.09
20 13 0.57
21 6 0.26
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (19 bp):
TAAAATATGTATATAGATA
Found at i:10154100 original size:23 final size:23
Alignment explanation
Indices: 10154073--10154118 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
10154063 TAAAAATTAA
10154073 AAAAATATGTATGTATATATATAT
1 AAAAA-ATGTATGTATATATATAT
*
10154097 AAAAAATGTATGTATGTATATA
1 AAAAAATGTATGTATATATATA
10154119 CATATAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (23 bp):
AAAAAATGTATGTATATATATAT
Found at i:10154101 original size:27 final size:27
Alignment explanation
Indices: 10154071--10154130 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
10154061 TATAAAAATT
*
10154071 AAAAAAATATGTATGTATATATATATA
1 AAAAAAATATGTATGTATATACATATA
**
10154098 AAAAATGTATGTATGTATATACATATA
1 AAAAAAATATGTATGTATATACATATA
*
10154125 ACAAAA
1 AAAAAA
10154131 TTTGAAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAAAAATATGTATGTATATACATATA
Found at i:10154223 original size:6 final size:6
Alignment explanation
Indices: 10154214--10154254 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
10154204 ATAATAACAA
* * *
10154214 TAATAT TAATAA TAATTC TAATAC TAATAC TAATAC TAATA
1 TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC TAATA
10154255 ATATAATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (6 bp):
TAATAC
Found at i:10154235 original size:18 final size:18
Alignment explanation
Indices: 10154204--10154254 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
10154194 AAATATAATG
* * *
10154204 ATAATAACAATAATATTA
1 ATAATAATACTAATACTA
*
10154222 ATAATAATTCTAATACTA
1 ATAATAATACTAATACTA
*
10154240 ATACTAATACTAATA
1 ATAATAATACTAATA
10154255 ATATAATTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAATAATACTAATACTA
Found at i:10155758 original size:24 final size:24
Alignment explanation
Indices: 10155731--10155784 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
10155721 AATTAAAGTC
* **
10155731 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
10155755 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
10155779 AAATAT
1 AAATAT
10155785 TCTAGAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:10158827 original size:24 final size:24
Alignment explanation
Indices: 10158800--10158851 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
10158790 AATCAAAGTC
* * *
10158800 AAATATATTATGCTAATAAATGCT
1 AAATACATTATACTAATAAATACT
*
10158824 AAATACATTATACTCATAAATACT
1 AAATACATTATACTAATAAATACT
10158848 AAAT
1 AAAT
10158852 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATACATTATACTAATAAATACT
Found at i:10168699 original size:31 final size:30
Alignment explanation
Indices: 10168664--10168723 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
10168654 AATAACATTT
* *
10168664 GTAAATAATCTTTAAACAATTTAATATAATG
1 GTAAATAATATATAAA-AATTTAATATAATG
*
10168695 GTAAATTATATATAAAAATTTAATATAAT
1 GTAAATAATATATAAAAATTTAATATAAT
10168724 CATGCATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (30 bp):
GTAAATAATATATAAAAATTTAATATAATG
Found at i:10169635 original size:14 final size:14
Alignment explanation
Indices: 10169616--10169642 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10169606 GAACCCTAGG
10169616 TTCAAGGTTCAGGA
1 TTCAAGGTTCAGGA
10169630 TTCAAGGTTCAGG
1 TTCAAGGTTCAGG
10169643 TTCGGGTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (14 bp):
TTCAAGGTTCAGGA
Found at i:10169715 original size:7 final size:7
Alignment explanation
Indices: 10169703--10169731 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
10169693 TAATTTAGGG
10169703 TTTGAGT
1 TTTGAGT
10169710 TTTGAGT
1 TTTGAGT
10169717 TTTGAG-
1 TTTGAGT
10169723 TTTGAGT
1 TTTGAGT
10169730 TT
1 TT
10169732 AGTATTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.59
Consensus pattern (7 bp):
TTTGAGT
Found at i:10169726 original size:13 final size:14
Alignment explanation
Indices: 10169703--10169731 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10169693 TAATTTAGGG
10169703 TTTGAGTTTTGAGT
1 TTTGAGTTTTGAGT
10169717 TTTGAG-TTTGAGT
1 TTTGAGTTTTGAGT
10169730 TT
1 TT
10169732 AGTATTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.59
Consensus pattern (14 bp):
TTTGAGTTTTGAGT
Found at i:10169771 original size:20 final size:20
Alignment explanation
Indices: 10169702--10169771 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
10169692 ATAATTTAGG
* * *
10169702 GTTTGAGTTTTGAGTTTTGA
1 GTTTGAGGTTAGAGTTTGGA
*
10169722 GTTTGAGTTTAGTA-TTTAGG-
1 GTTTGAGGTTAG-AGTTT-GGA
* *
10169742 GTTCGGGGTTAGAGTTTGGA
1 GTTTGAGGTTAGAGTTTGGA
10169762 GTTTGAGGTT
1 GTTTGAGGTT
10169772 TTAGGTTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 3 0.08
20 34 0.87
21 2 0.05
ACGTcount: A:0.16, C:0.01, G:0.36, T:0.47
Consensus pattern (20 bp):
GTTTGAGGTTAGAGTTTGGA
Found at i:10175566 original size:40 final size:40
Alignment explanation
Indices: 10175498--10175649 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
10175488 CAGTCGTTTG
** *
10175498 TGGACAAGCCACTGGTAATCGCAGATAAACTATCAGTATTA
1 TGGACAAGCCACCAGT-ATTGCAGATAAACTATCAGTATTA
* * * ** *
10175539 TGGACAAGTCGCCAGTATTACAGATAAACTGCCAGTATTG
1 TGGACAAGCCACCAGTATTGCAGATAAACTATCAGTATTA
10175579 TGGACAAGCCACCAGTATTGCAGATAAA--ATGCTAGTATTA
1 TGGACAAGCCACCAGTATTGCAGATAAACTAT-C-AGTATTA
*
10175619 TGGACAAACCACCAGTATTGCAGATAAACTA
1 TGGACAAGCCACCAGTATTGCAGATAAACTA
10175650 CAAGTACTTC
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 1 0.01
40 77 0.85
41 12 0.13
42 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (40 bp):
TGGACAAGCCACCAGTATTGCAGATAAACTATCAGTATTA
Found at i:10175634 original size:80 final size:80
Alignment explanation
Indices: 10175495--10175648 Score: 204
Period size: 80 Copynumber: 1.9 Consensus size: 80
10175485 ACACAGTCGT
** ** *
10175495 TTGTGGACAAGCCACTGGTAATCGCAGATAAACTATCAGTATTATGGACAAGTCGCCAGTATTAC
1 TTGTGGACAAGCCACCAGTAATCGCAGATAAAC-ATCAGTATTATGGACAAACCACCAGTATTAC
10175560 AGATAAACTGCCAGTA
65 AGATAAACTGCCAGTA
* *
10175576 TTGTGGACAAGCCACCAGT-ATTGCAGATAAA-ATGCTAGTATTATGGACAAACCACCAGTATTG
1 TTGTGGACAAGCCACCAGTAATCGCAGATAAACAT-C-AGTATTATGGACAAACCACCAGTATTA
10175639 CAGATAAACT
64 CAGATAAACT
10175649 ACAAGTACTT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 1 0.02
80 44 0.69
81 17 0.27
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (80 bp):
TTGTGGACAAGCCACCAGTAATCGCAGATAAACATCAGTATTATGGACAAACCACCAGTATTACA
GATAAACTGCCAGTA
Found at i:10175647 original size:20 final size:20
Alignment explanation
Indices: 10175550--10175647 Score: 61
Period size: 20 Copynumber: 4.9 Consensus size: 20
10175540 GGACAAGTCG
* **
10175550 CCAGTATTACAGATAAACTG
1 CCAGTATTGCAGATAAACCA
** * *
10175570 CCAGTATTGTGGACAAGCCA
1 CCAGTATTGCAGATAAACCA
***
10175590 CCAGTATTGCAGATAAAATG
1 CCAGTATTGCAGATAAACCA
* *** *
10175610 CTAGTATTATGGACAAACCA
1 CCAGTATTGCAGATAAACCA
10175630 CCAGTATTGCAGATAAAC
1 CCAGTATTGCAGATAAAC
10175648 TACAAGTACT
Statistics
Matches: 51, Mismatches: 27, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (20 bp):
CCAGTATTGCAGATAAACCA
Found at i:10176900 original size:42 final size:43
Alignment explanation
Indices: 10176844--10176938 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 43
10176834 TCGGTATTTT
* *
10176844 GCCAATGGGTGAATTGTA-AAAGACTGCTTGTGTATAGTATTC
1 GCCAATGGGCGAATTGTATAAAGACTACTTGTGTATAGTATTC
**
10176886 GCCAATGGGCGAATTGTATAAAGTTTACTTGTGTATAGTATTC
1 GCCAATGGGCGAATTGTATAAAGACTACTTGTGTATAGTATTC
**
10176929 ATCAATGGGC
1 GCCAATGGGC
10176939 TAACTATGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 17 0.37
43 29 0.63
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (43 bp):
GCCAATGGGCGAATTGTATAAAGACTACTTGTGTATAGTATTC
Found at i:10183182 original size:32 final size:32
Alignment explanation
Indices: 10183130--10183242 Score: 106
Period size: 33 Copynumber: 3.5 Consensus size: 32
10183120 GTTTGGATAG
* *
10183130 TAAACACATG-ACA-AATATAGTTCGTTGGATAG
1 TAAACACA-GAACAGAA-ATAGTTCGTTGGACAA
*
10183162 TAAACACATAACAGAAATAG-TCTGTTAGGACAA
1 TAAACACAGAACAGAAATAGTTC-GTT-GGACAA
* * *
10183195 TAAACACAGAACATAGATAGTTCGCTGGGACAA
1 TAAACACAGAACAGAAATAGTTCG-TTGGACAA
10183228 TAAACACAGAACAGA
1 TAAACACAGAACAGA
10183243 TAAAGTCCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
31 2 0.03
32 18 0.27
33 44 0.66
34 3 0.04
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.20
Consensus pattern (32 bp):
TAAACACAGAACAGAAATAGTTCGTTGGACAA
Found at i:10185694 original size:9 final size:9
Alignment explanation
Indices: 10185647--10185722 Score: 91
Period size: 9 Copynumber: 8.4 Consensus size: 9
10185637 TTTGGTTAAA
10185647 AATTAACCG
1 AATTAACCG
* *
10185656 AATTGACCA
1 AATTAACCG
10185665 AATTAACCG
1 AATTAACCG
10185674 AATTAACCG
1 AATTAACCG
*
10185683 AATTAACAG
1 AATTAACCG
*
10185692 AATTACCCG
1 AATTAACCG
10185701 AATT-ACCTG
1 AATTAACC-G
*
10185710 AATTACCCG
1 AATTAACCG
10185719 AATT
1 AATT
10185723 GAATCACTAC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
8 2 0.04
9 52 0.93
10 2 0.04
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:10186018 original size:13 final size:13
Alignment explanation
Indices: 10186000--10186024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10185990 TTTTAGTTTT
10186000 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
10186013 ATTGGGTTGGGT
1 ATTGGGTTGGGT
10186025 TGGGTTGGGT
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:10186263 original size:22 final size:22
Alignment explanation
Indices: 10186238--10186303 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
10186228 GCACACCCCT
10186238 AGTAGGCACCGAAGTGCAAAAC
1 AGTAGGCACCGAAGTGCAAAAC
** **
10186260 AGTAGGCATTGAAGTGCGGAAC
1 AGTAGGCACCGAAGTGCAAAAC
**
10186282 -GATAAACACCGAAGTGCAAAAC
1 AG-TAGGCACCGAAGTGCAAAAC
10186304 GGTAAGCGCT
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
21 1 0.03
22 32 0.97
ACGTcount: A:0.41, C:0.20, G:0.27, T:0.12
Consensus pattern (22 bp):
AGTAGGCACCGAAGTGCAAAAC
Found at i:10191534 original size:24 final size:24
Alignment explanation
Indices: 10191462--10191537 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 24
10191452 GTGATCATCA
* * *
10191462 TCTTCATCTTCACCTCGACCCCCG
1 TCTTCATCTTCATCTCTACCCTCG
* *
10191486 TATTCATCTTCATCT-TGACCATCG
1 TCTTCATCTTCATCTCT-ACCCTCG
10191510 TCTTCATCTTCATCTCTACCCTCG
1 TCTTCATCTTCATCTCTACCCTCG
10191534 TCTT
1 TCTT
10191538 TGTCTTCGTC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
24 42 0.98
25 1 0.02
ACGTcount: A:0.14, C:0.39, G:0.07, T:0.39
Consensus pattern (24 bp):
TCTTCATCTTCATCTCTACCCTCG
Found at i:10192697 original size:17 final size:17
Alignment explanation
Indices: 10192663--10192702 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
10192653 ACAAAATAAA
* *
10192663 ATAATTTTAAATATTTT
1 ATAATTTTAAAAACTTT
10192680 ATAATTTTAAAAACTTT
1 ATAATTTTAAAAACTTT
*
10192697 AAAATT
1 ATAATT
10192703 AACTTAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATAATTTTAAAAACTTT
Found at i:10193139 original size:21 final size:21
Alignment explanation
Indices: 10193115--10193155 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10193105 TAATTTTTTT
10193115 AAAAAAAA-TAGAATATTTGGC
1 AAAAAAAATTAGAAT-TTTGGC
10193136 AAAAAAAATTAGAATTTTGG
1 AAAAAAAATTAGAATTTTGG
10193156 TTTTTCAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.56, C:0.02, G:0.15, T:0.27
Consensus pattern (21 bp):
AAAAAAAATTAGAATTTTGGC
Found at i:10193140 original size:22 final size:21
Alignment explanation
Indices: 10193115--10193155 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
10193105 TAATTTTTTT
10193115 AAAAAAAATAGAATATTTGGCA
1 AAAAAAAATAGAAT-TTTGGCA
*
10193137 AAAAAAATTAGAATTTTGG
1 AAAAAAAATAGAATTTTGG
10193156 TTTTTCAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.56, C:0.02, G:0.15, T:0.27
Consensus pattern (21 bp):
AAAAAAAATAGAATTTTGGCA
Found at i:10201149 original size:16 final size:16
Alignment explanation
Indices: 10201115--10201151 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
10201105 GAATTAATTC
*
10201115 ATTTTTTTATTTCATA
1 ATTTTTTTATTTCAAA
*
10201131 ATTTTTTTATTTTAAA
1 ATTTTTTTATTTCAAA
10201147 ATTTT
1 ATTTT
10201152 AAAATTCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTTTATTTCAAA
Found at i:10201841 original size:23 final size:24
Alignment explanation
Indices: 10201789--10201841 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
10201779 AAATGCCTCT
*
10201789 AAATAATAACAAAATTAACATTTA
1 AAATAATAACAAAATTAACATATA
10201813 AAATAATAACAAAATTAACA-ATA
1 AAATAATAACAAAATTAACATATA
10201836 AAATAA
1 AAATAA
10201842 GTTTTATACA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.25
Consensus pattern (24 bp):
AAATAATAACAAAATTAACATATA
Found at i:10208037 original size:2 final size:2
Alignment explanation
Indices: 10208030--10208054 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10208020 TTCATTAATA
10208030 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10208055 AAGAAAGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10213580 original size:18 final size:17
Alignment explanation
Indices: 10213549--10213582 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10213539 ATCATCAATT
10213549 CATTAATCAAACACATA
1 CATTAATCAAACACATA
*
10213566 CATTATATCATACACAT
1 CATTA-ATCAAACACAT
10213583 TTTCTATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (17 bp):
CATTAATCAAACACATA
Found at i:10217158 original size:40 final size:41
Alignment explanation
Indices: 10217114--10217203 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
10217104 GCTTTCCCTA
10217114 ACTCTTCA-AAGCATTTTAATACATTTTCATTTCCAAGACT
1 ACTCTTCACAAGCATTTTAATACATTTTCATTTCCAAGACT
** *
10217154 ACTCTTCACTTGCGTTTTAATACATTTTCATTTCCAAGACT
1 ACTCTTCACAAGCATTTTAATACATTTTCATTTCCAAGACT
10217195 ACTCTTCAC
1 ACTCTTCAC
10217204 TTTCTCTAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 8 0.17
41 38 0.83
ACGTcount: A:0.28, C:0.26, G:0.06, T:0.41
Consensus pattern (41 bp):
ACTCTTCACAAGCATTTTAATACATTTTCATTTCCAAGACT
Found at i:10217175 original size:41 final size:41
Alignment explanation
Indices: 10217127--10217205 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
10217117 CTTCAAAGCA
10217127 TTTTAATACATTTTCATTTCCAAGACTACTCTTCACTTGCG
1 TTTTAATACATTTTCATTTCCAAGACTACTCTTCACTTGCG
10217168 TTTTAATACATTTTCATTTCCAAGACTACTCTTCACTT
1 TTTTAATACATTTTCATTTCCAAGACTACTCTTCACTT
10217206 TCTCTAGAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.25, C:0.24, G:0.05, T:0.46
Consensus pattern (41 bp):
TTTTAATACATTTTCATTTCCAAGACTACTCTTCACTTGCG
Found at i:10222092 original size:43 final size:43
Alignment explanation
Indices: 10222031--10222128 Score: 178
Period size: 43 Copynumber: 2.3 Consensus size: 43
10222021 TCTGGCACTG
*
10222031 TAGTGCATCATCAGATATATTAAAGAAAAGATACTGACACACA
1 TAGTGCATCATCAGATATATTAAAGAAAAGATACTAACACACA
*
10222074 TAGTGCAACATCAGATATATTAAAGAAAAGATACTAACACACA
1 TAGTGCATCATCAGATATATTAAAGAAAAGATACTAACACACA
10222117 TAGTGCATCATC
1 TAGTGCATCATC
10222129 GAGCAAGCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.23
Consensus pattern (43 bp):
TAGTGCATCATCAGATATATTAAAGAAAAGATACTAACACACA
Found at i:10222267 original size:42 final size:42
Alignment explanation
Indices: 10222177--10222311 Score: 155
Period size: 42 Copynumber: 3.2 Consensus size: 42
10222167 TCATCAAACG
* * **
10222177 AACTGAAGCAATTATACTGGCAA-GCATAGCACATCATTGGATA
1 AACTGAAGCAAATATACTGG-AACGTA-AGTGCATCATTGGATA
*
10222220 AACTGAAGCAAATATACTGGAACGTAAGTGCATCATCGGATA
1 AACTGAAGCAAATATACTGGAACGTAAGTGCATCATTGGATA
* * * *
10222262 AACTGAAGCAAATATACTAGCACATAAGTGCATCATTGGCTA
1 AACTGAAGCAAATATACTGGAACGTAAGTGCATCATTGGATA
*
10222304 AACCGAAG
1 AACTGAAG
10222312 TATAAACCTG
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 59 0.74
43 21 0.26
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (42 bp):
AACTGAAGCAAATATACTGGAACGTAAGTGCATCATTGGATA
Found at i:10227970 original size:4 final size:4
Alignment explanation
Indices: 10227961--10227986 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
10227951 ATTTAATTGG
10227961 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
10227987 ATTTTAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:10233370 original size:22 final size:21
Alignment explanation
Indices: 10233335--10233392 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
10233325 AAAGGGTATC
* *
10233335 TACAAATTAAATCTCTAAAAT
1 TACAAATCATATCTCTAAAAT
*
10233356 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAAAT
* *
10233379 TGCATATCATATCT
1 TACAAATCATATCT
10233393 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAAAT
Found at i:10233792 original size:43 final size:44
Alignment explanation
Indices: 10233688--10233794 Score: 119
Period size: 43 Copynumber: 2.4 Consensus size: 44
10233678 AAGAATTGGT
*
10233688 GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
1 GCTTCAATCTACTCCACTGC-ATACCAAGGAGATAGGACTTACAA
* * * * *
10233733 TCTTCAACCTATTCCACTGC-TGACCAAGGAGATATGA-TTACTA
1 GCTTCAATCTACTCCACTGCAT-ACCAAGGAGATAGGACTTACAA
*
10233776 GCTTCAATGTACTCCACTG
1 GCTTCAATCTACTCCACTG
10233795 TAACCACAGG
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
43 21 0.41
44 13 0.25
45 17 0.33
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (44 bp):
GCTTCAATCTACTCCACTGCATACCAAGGAGATAGGACTTACAA
Found at i:10242587 original size:19 final size:19
Alignment explanation
Indices: 10242562--10242847 Score: 374
Period size: 19 Copynumber: 15.1 Consensus size: 19
10242552 TAGTAAGCCA
*
10242562 CATATCTAAGATTATATAT
1 CATATCTAAGATTACATAT
* *
10242581 TATATCTAAGATTGCATAT
1 CATATCTAAGATTACATAT
*
10242600 CATATCTAAGATTATATAT
1 CATATCTAAGATTACATAT
* *
10242619 TATATCTAAGATTGCATAT
1 CATATCTAAGATTACATAT
*
10242638 CATATCTAAGATTATATAT
1 CATATCTAAGATTACATAT
* *
10242657 TATATCTAAGATTGCATAT
1 CATATCTAAGATTACATAT
*
10242676 CATATCTAAGATTATATAT
1 CATATCTAAGATTACATAT
* *
10242695 TATATCTAAGATTGCATAT
1 CATATCTAAGATTACATAT
*
10242714 CATATCTAAGATTATATAT
1 CATATCTAAGATTACATAT
* *
10242733 TATATCTAAGATTGCATAT
1 CATATCTAAGATTACATAT
*
10242752 CATATCTAAGATTATATAT
1 CATATCTAAGATTACATAT
* *
10242771 TATATCTAAGATTGCATAT
1 CATATCTAAGATTACATAT
*
10242790 CATATCTAAGATTATATAT
1 CATATCTAAGATTACATAT
* *
10242809 TATATCTAAGATTGCATAT
1 CATATCTAAGATTACATAT
*
10242828 CATATCTAAGATTGCATAT
1 CATATCTAAGATTACATAT
10242847 C
1 C
10242848 CCTGAAGATT
Statistics
Matches: 227, Mismatches: 40, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 227 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (19 bp):
CATATCTAAGATTACATAT
Found at i:10242613 original size:38 final size:38
Alignment explanation
Indices: 10242562--10242840 Score: 558
Period size: 38 Copynumber: 7.3 Consensus size: 38
10242552 TAGTAAGCCA
10242562 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
1 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
10242600 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
1 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
10242638 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
1 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
10242676 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
1 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
10242714 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
1 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
10242752 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
1 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
10242790 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
1 CATATCTAAGATTATATATTATATCTAAGATTGCATAT
10242828 CATATCTAAGATT
1 CATATCTAAGATT
10242841 GCATATCCCT
Statistics
Matches: 241, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 241 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (38 bp):
CATATCTAAGATTATATATTATATCTAAGATTGCATAT
Found at i:10244608 original size:22 final size:20
Alignment explanation
Indices: 10244577--10244627 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
10244567 ATAGTTTATT
* *
10244577 TTTTTCTATATATATTTGTGAA
1 TTTTTATATATATATTTCT--A
*
10244599 TTTTTATATATTTATTTCTA
1 TTTTTATATATATATTTCTA
10244619 TTTTTATAT
1 TTTTTATAT
10244628 TTTTAATGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 10 0.38
22 16 0.62
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTTATATATATATTTCTA
Found at i:10250745 original size:55 final size:53
Alignment explanation
Indices: 10250495--10250746 Score: 195
Period size: 55 Copynumber: 4.6 Consensus size: 53
10250485 ACTGGGGTAT
* *** * * *
10250495 CGACCATCAGTGT-TCCAGCACCTCGATTTTTTTAAAAAATCTGGTATTGGGGTGT
1 CGACCATCAGTGTCT-CAGCACC-CAATTTTTTTTTTAAATTTGGTA-TAGGGTGC
** * * *
10250550 CGGTCATCAATGTCCCAGCACCCAA-TTTTTTTTTAAATTTGGTATTGGAGTGC
1 CGACCATCAGTGTCTCAGCACCCAATTTTTTTTTTAAATTTGGTATAGG-GTGC
* * ** * * *
10250603 CGGCCATCAGTGT-TCCAGTACCCCAAAATTGTTTTTAAATCTGGTATTAGGGTGT
1 CGACCATCAGTGTCT-CAGCA-CCCAATTTTTTTTTTAAATTTGGTA-TAGGGTGC
* * *
10250658 CGACCATAAGTGTCTCAGCATCCAATTTTTTTTTTAAAATTTGGTACAAGGGTGC
1 CGACCATCAGTGTCTCAGCACCCAATTTTTTTTTT-AAATTTGGTA-TAGGGTGC
*
10250713 CGACCATCAGTATCTCAGCACCCAATTTTTTTTT
1 CGACCATCAGTGTCTCAGCACCCAATTTTTTTTT
10250747 AATTTTAAAA
Statistics
Matches: 155, Mismatches: 34, Indels: 16
0.76 0.17 0.08
Matches are distributed among these distances:
52 3 0.02
53 33 0.21
54 18 0.12
55 97 0.63
56 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (53 bp):
CGACCATCAGTGTCTCAGCACCCAATTTTTTTTTTAAATTTGGTATAGGGTGC
Found at i:10250746 original size:108 final size:106
Alignment explanation
Indices: 10250495--10250748 Score: 271
Period size: 108 Copynumber: 2.3 Consensus size: 106
10250485 ACTGGGGTAT
* ** * **
10250495 CGACCATCAGTGTTCCAGCACCTCGATTTTTTTAAAAAATCTGGTATTGGGGTGTCGGTCATCAA
1 CGACCATCAGTGTTCCAGCACC-CAATTTTTTT-TTAAATCTGGTATTAGGGTGTCGACCATCAA
**
10250560 TGTCCCAGCACCCAATTTTTTTTTAAATTTGGTATTGGAGTGC
64 TGTCCCAGCACCCAATTTTTTTTTAAATTTGGTAAAGGAGTGC
* * * *
10250603 CGGCCATCAGTGTTCCAGTACCCCAAAATTGTTTTTAAATCTGGTATTAGGGTGTCGACCAT-AA
1 CGACCATCAGTGTTCCAGCA-CCC-AATTTTTTTTTAAATCTGGTATTAGGGTGTCGACCATCAA
* *
10250667 GTGTCTCAGCATCCAATTTTTTTTTTAAAATTTGGTACAAGG-GTGC
64 -TGTCCCAGCACCCAA-TTTTTTTTT-AAATTTGGTA-AAGGAGTGC
*
10250713 CGACCATCAGT-ATCTCAGCACCCAATTTTTTTTTAA
1 CGACCATCAGTGTTC-CAGCACCCAATTTTTTTTTAA
10250749 TTTTAAAAGG
Statistics
Matches: 120, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
107 2 0.02
108 66 0.55
109 22 0.18
110 28 0.23
111 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (106 bp):
CGACCATCAGTGTTCCAGCACCCAATTTTTTTTTAAATCTGGTATTAGGGTGTCGACCATCAATG
TCCCAGCACCCAATTTTTTTTTAAATTTGGTAAAGGAGTGC
Found at i:10250770 original size:51 final size:53
Alignment explanation
Indices: 10250651--10250770 Score: 129
Period size: 55 Copynumber: 2.3 Consensus size: 53
10250641 ATCTGGTATT
* * * * *
10250651 AGGGTGTCGACCATAAGTGTCTCAGCATCCAATTTTTTTTTTAAAATTTGGTACA
1 AGGGTGCCAACCATAAGTATCTCAGCACCCAATTTTTTTTTT-AAATTT-GTAAA
* *
10250706 AGGGTGCCGACCATCAGTATCTCAGCACCCAA-TTTTTTTTT-AATTT-TAAA
1 AGGGTGCCAACCATAAGTATCTCAGCACCCAATTTTTTTTTTAAATTTGTAAA
10250756 AGGGGTGCCAACCAT
1 A-GGGTGCCAACCAT
10250771 TGGTGTGCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
50 4 0.07
51 12 0.21
52 5 0.09
54 9 0.16
55 28 0.48
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (53 bp):
AGGGTGCCAACCATAAGTATCTCAGCACCCAATTTTTTTTTTAAATTTGTAAA
Found at i:10256951 original size:18 final size:17
Alignment explanation
Indices: 10256916--10256954 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
10256906 AAAGACTTAG
* *
10256916 TTAGTTTCTTCTTTCCC
1 TTAGTTTCTGCTTCCCC
10256933 TTAGCTTTCTGCTTCCCC
1 TTAG-TTTCTGCTTCCCC
10256951 TTAG
1 TTAG
10256955 AAGACAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.08, C:0.31, G:0.10, T:0.51
Consensus pattern (17 bp):
TTAGTTTCTGCTTCCCC
Found at i:10258866 original size:13 final size:13
Alignment explanation
Indices: 10258848--10258891 Score: 81
Period size: 13 Copynumber: 3.5 Consensus size: 13
10258838 ACAACCTTGG
10258848 TAAAAAAATTATA
1 TAAAAAAATTATA
10258861 T-AAAAAATTATA
1 TAAAAAAATTATA
10258873 TAAAAAAATTATA
1 TAAAAAAATTATA
10258886 TAAAAA
1 TAAAAA
10258892 TATATAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.40
13 18 0.60
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAAAAAATTATA
Found at i:10258867 original size:12 final size:12
Alignment explanation
Indices: 10258850--10258891 Score: 75
Period size: 12 Copynumber: 3.4 Consensus size: 12
10258840 AACCTTGGTA
10258850 AAAAAATTATAT
1 AAAAAATTATAT
10258862 AAAAAATTATAT
1 AAAAAATTATAT
10258874 AAAAAAATTATAT
1 -AAAAAATTATAT
10258887 AAAAA
1 AAAAA
10258892 TATATAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 17 0.59
13 12 0.41
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAAAATTATAT
Found at i:10258872 original size:10 final size:11
Alignment explanation
Indices: 10258850--10258898 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 11
10258840 AACCTTGGTA
10258850 AAAAAATTATAT
1 AAAAAA-TATAT
10258862 AAAAAATTATAT
1 AAAAAA-TATAT
10258874 AAAAAA-ATTAT
1 AAAAAATA-TAT
10258885 ATAAAAATATAT
1 A-AAAAATATAT
10258897 AA
1 AA
10258899 TATTGCATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.03
11 5 0.15
12 27 0.79
13 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAAAATATAT
Found at i:10258876 original size:25 final size:23
Alignment explanation
Indices: 10258848--10258898 Score: 84
Period size: 25 Copynumber: 2.1 Consensus size: 23
10258838 ACAACCTTGG
10258848 TAAAAAAATTATATAAAAAATTATA
1 TAAAAAAATTATAT-AAAAA-TATA
10258873 TAAAAAAATTATATAAAAATATA
1 TAAAAAAATTATATAAAAATATA
10258896 TAA
1 TAA
10258899 TATTGCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 7 0.27
24 5 0.19
25 14 0.54
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
TAAAAAAATTATATAAAAATATA
Found at i:10268990 original size:21 final size:21
Alignment explanation
Indices: 10268964--10269003 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10268954 CAGAATCGCT
* *
10268964 GATATACTACCAGAATGTGTG
1 GATATACCACCAAAATGTGTG
10268985 GATATACCACCAAAATGTG
1 GATATACCACCAAAATGTG
10269004 CTGATCATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (21 bp):
GATATACCACCAAAATGTGTG
Found at i:10270488 original size:13 final size:14
Alignment explanation
Indices: 10270463--10270495 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10270453 AGGGGGATGT
10270463 TGAAAAAATTTAAA
1 TGAAAAAATTTAAA
10270477 TGAAAAAA-TTAAA
1 TGAAAAAATTTAAA
10270490 -GAAAAA
1 TGAAAAA
10270496 TATTGATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 5 0.26
14 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (14 bp):
TGAAAAAATTTAAA
Found at i:10274096 original size:43 final size:43
Alignment explanation
Indices: 10274043--10274146 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 43
10274033 CCCGAGGTGT
* * *
10274043 GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCAATATGA
1 GATTACGTGTAAGACCATGTCTGAGACAGTGGCATCAATATGA
* * * * *
10274086 GATTACGTGTAAAATTC-TTTCTGAGACAGTGGCATCGATATGT
1 GATTACGTGTAAGA-CCATGTCTGAGACAGTGGCATCAATATGA
* *
10274129 GATAACATGTAAGACCAT
1 GATTACGTGTAAGACCAT
10274147 ATTTGAGATA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
42 1 0.02
43 45 0.96
44 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGAGACAGTGGCATCAATATGA
Found at i:10281656 original size:43 final size:42
Alignment explanation
Indices: 10281608--10281721 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
10281598 GTGTGATTTT
*
10281608 GTGTAAGACCATGTCTGGGACATTGGCATCAATATGAGATTAC
1 GTGTAAGACCATGTCTGGGACA-TGGCATCAATATGAGATAAC
* * *
10281651 GTGTAAGACTC-TGTCTGGGACAGTGACATCGATATGTGATAAC
1 GTGTAAGAC-CATGTCTGGGACA-TGGCATCAATATGAGATAAC
* * *
10281694 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
10281722 TGTATGTGAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 6 0.10
43 53 0.88
44 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAATATGAGATAAC
Found at i:10285216 original size:31 final size:31
Alignment explanation
Indices: 10285178--10285282 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 31
10285168 TATTTAATTT
*
10285178 AATTTAATATTTATATTGATATTAATTTATG
1 AATTTAATATTAATATTGATATTAATTTATG
* * *
10285209 AATTTAATATTAATGTGAGATATTAAATT-TG
1 AATTTAATATTAATAT-TGATATTAATTTATG
* * * * * * *
10285240 -GTTAAATATTGATCTTGATAGTATTTTATT
1 AATTTAATATTAATATTGATATTAATTTATG
10285270 AATTTAATATTAA
1 AATTTAATATTAA
10285283 CGTGAGTAAT
Statistics
Matches: 55, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
29 8 0.15
30 12 0.22
31 25 0.45
32 10 0.18
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.50
Consensus pattern (31 bp):
AATTTAATATTAATATTGATATTAATTTATG
Found at i:10287067 original size:31 final size:31
Alignment explanation
Indices: 10287029--10287133 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 31
10287019 TATTTAATTT
*
10287029 AATTTAATATTTATATTGATATTAATTTATG
1 AATTTAATATTAATATTGATATTAATTTATG
* * *
10287060 AATTTAATATTAATGTGAGATATTAAATT-TG
1 AATTTAATATTAATAT-TGATATTAATTTATG
* * * * * * *
10287091 -GTTAAATATTGATCTTGATAGTATTTTATT
1 AATTTAATATTAATATTGATATTAATTTATG
10287121 AATTTAATATTAA
1 AATTTAATATTAA
10287134 CGTGAGTAAT
Statistics
Matches: 55, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
29 8 0.15
30 12 0.22
31 25 0.45
32 10 0.18
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.50
Consensus pattern (31 bp):
AATTTAATATTAATATTGATATTAATTTATG
Found at i:10288478 original size:3 final size:3
Alignment explanation
Indices: 10288470--10288519 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
10288460 TAAAATAGCT
10288470 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10288518 TA
1 TA
10288520 NNNNNNNNNN
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:10289375 original size:23 final size:22
Alignment explanation
Indices: 10289335--10289378 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
10289325 AAATTATAAA
*
10289335 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
10289357 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
10289379 TGTGAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:10289523 original size:38 final size:36
Alignment explanation
Indices: 10289481--10289558 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 36
10289471 TGAAACATAG
*
10289481 AAAATATATAAAAGTATGT-GTATATATATATATTTATA
1 AAAAT-TA-AAAAATATGTAGTATATATATATA-TTATA
*
10289519 AAAATTAAAAAATATGTACGTATATGTATATATTATA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATA
10289556 AAA
1 AAA
10289559 TGCATGTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
36 9 0.25
37 10 0.28
38 17 0.47
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (36 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATA
Found at i:10290101 original size:22 final size:21
Alignment explanation
Indices: 10290066--10290142 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 21
10290056 AAATAGTATC
* *
10290066 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
10290087 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
10290110 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
10290129 TGCATATCATATCT
1 TACAAATCATATCT
10290143 AAGATTGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 19 0.40
21 4 0.08
22 15 0.31
23 10 0.21
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:10290109 original size:23 final size:22
Alignment explanation
Indices: 10290066--10290123 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
10290056 AAATAGTATC
* *
10290066 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
10290087 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
10290110 TGCATATCATATCT
1 TACAAATCATATCT
10290124 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:10290126 original size:19 final size:19
Alignment explanation
Indices: 10290102--10290171 Score: 131
Period size: 19 Copynumber: 3.7 Consensus size: 19
10290092 AATCATATCT
10290102 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10290121 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
10290140 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
10290159 TCTAAGATTGCAT
1 TCTAAGATTGCAT
10290172 GAAGATTATG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10298817 original size:26 final size:26
Alignment explanation
Indices: 10298778--10298834 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
10298768 ATCGGGTGAA
* * *
10298778 CTTTAATATCGGGCGTATACTTTCTT
1 CTTTAACATCGGGCGAATACTTTCAT
*
10298804 CTTTAACATTGGGCGAATACTTTCAT
1 CTTTAACATCGGGCGAATACTTTCAT
10298830 CTTTA
1 CTTTA
10298835 CACCAAAGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (26 bp):
CTTTAACATCGGGCGAATACTTTCAT
Found at i:10299162 original size:48 final size:48
Alignment explanation
Indices: 10299070--10299166 Score: 115
Period size: 48 Copynumber: 2.0 Consensus size: 48
10299060 GTCAGCAATT
* * * *
10299070 ATACATAACATTTAACACATACACTATCATGTTAATTTAATCTTTTCA
1 ATACATAACATATAACACATACACGATCATATTAACTTAATCTTTTCA
* * *
10299118 ATACATAACATATATCAGATACA-GAGTCATATTAACTTACTCTTTTCA
1 ATACATAACATATAACACATACACGA-TCATATTAACTTAATCTTTTCA
10299166 A
1 A
10299167 ATCTCTCATT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.02
48 40 0.98
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.37
Consensus pattern (48 bp):
ATACATAACATATAACACATACACGATCATATTAACTTAATCTTTTCA
Done.