Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 189 of 313
Found at i:58062181 original size:27 final size:27
Alignment explanation
Indices: 58062143--58062207 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
58062133 ATTTAGTTGA
58062143 TACTTTAATTTTTTTTGATGTATTTGG
1 TACTTTAATTTTTTTTGATGTATTTGG
58062170 TACTTTAATTTTTTTTGATGTATTTGG
1 TACTTTAATTTTTTTTGATGTATTTGG
*
58062197 TACTTGAATTT
1 TACTTTAATTT
58062208 GTATTCCATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.20, C:0.05, G:0.14, T:0.62
Consensus pattern (27 bp):
TACTTTAATTTTTTTTGATGTATTTGG
Found at i:58076000 original size:63 final size:64
Alignment explanation
Indices: 58075896--58076019 Score: 187
Period size: 63 Copynumber: 2.0 Consensus size: 64
58075886 ATAGAAATGG
* * * *
58075896 TGAAAATGGAGAAATGTGAAACATTTTTAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGTAAATGAATATGGTTTTATCCAAAATGAAAATGAAAA
* *
58075960 TGAAAATGGAGAAAT-AGAATCATTTGTAAATGAATGTGGTTTTATCCAAAATGAAAATGA
1 TGAAAATGGAGAAATGAGAAACATTTGTAAATGAATATGGTTTTATCCAAAATGAAAATGA
58076020 CTTGGAAATG
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
63 39 0.72
64 15 0.28
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.31
Consensus pattern (64 bp):
TGAAAATGGAGAAATGAGAAACATTTGTAAATGAATATGGTTTTATCCAAAATGAAAATGAAAA
Found at i:58081064 original size:12 final size:12
Alignment explanation
Indices: 58081025--58081067 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
58081015 AATTGGTCAT
58081025 GGAGAGATTTGA
1 GGAGAGATTTGA
* *
58081037 GGAGGGATATT-T
1 GGAGAGAT-TTGA
58081049 GGAGAGATTTGA
1 GGAGAGATTTGA
58081061 GGAGAGA
1 GGAGAGA
58081068 ATATTGGGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (12 bp):
GGAGAGATTTGA
Found at i:58081074 original size:24 final size:24
Alignment explanation
Indices: 58081024--58081072 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
58081014 GAATTGGTCA
*
58081024 TGGAGAGATTTGAGGAGGGATATT
1 TGGAGAGATTTGAGGAGGAATATT
58081048 TGGAGAGATTTGAGGAGAGAATATT
1 TGGAGAGATTTGAGGAG-GAATATT
58081073 GGGATTTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.39, T:0.29
Consensus pattern (24 bp):
TGGAGAGATTTGAGGAGGAATATT
Found at i:58082589 original size:15 final size:14
Alignment explanation
Indices: 58082554--58082630 Score: 61
Period size: 15 Copynumber: 5.3 Consensus size: 14
58082544 AGCTAATAGC
58082554 ATACATATATTAAT-
1 ATACATATA-TAATA
*
58082568 TTA-ATATATAAGTA
1 ATACATATATAA-TA
58082582 ATACATATATAATAA
1 ATACATATATAAT-A
*
58082597 AAACATAATAGTAATA
1 ATACAT-ATA-TAATA
58082613 ATACATATTATAA-A
1 ATACATA-TATAATA
58082627 ATAC
1 ATAC
58082631 CAAAACGGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
12 3 0.06
13 6 0.12
14 10 0.19
15 18 0.35
16 11 0.21
17 4 0.08
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
ATACATATATAATA
Found at i:58083830 original size:16 final size:16
Alignment explanation
Indices: 58083809--58083843 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
58083799 TTTTATAGCC
58083809 ATAAAAAGAAAATAAA
1 ATAAAAAGAAAATAAA
* *
58083825 ATAAAAATAAAATACA
1 ATAAAAAGAAAATAAA
58083841 ATA
1 ATA
58083844 TATCGTCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (16 bp):
ATAAAAAGAAAATAAA
Found at i:58084214 original size:27 final size:27
Alignment explanation
Indices: 58084155--58084217 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
58084145 AATTGAGTAG
*
58084155 TATAGCCCCAATAGGATAAAATGACCGA
1 TATA-CCCCAATAGGATAAAATAACCGA
* * * *
58084183 AATACCCCAATAGGGTAAAATAACTGT
1 TATACCCCAATAGGATAAAATAACCGA
58084210 TATACCCC
1 TATACCCC
58084218 TAGGAGATGA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (27 bp):
TATACCCCAATAGGATAAAATAACCGA
Found at i:58086085 original size:27 final size:27
Alignment explanation
Indices: 58086055--58086107 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
58086045 TTATATAAAG
* *
58086055 GAAAGAAATTAATAAATAAAATAAAAC
1 GAAAGAAATTAAAAAATAAAACAAAAC
* *
58086082 GAAAGTAATTAAAAAATGAAACAAAA
1 GAAAGAAATTAAAAAATAAAACAAAA
58086108 TTTAGAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (27 bp):
GAAAGAAATTAAAAAATAAAACAAAAC
Found at i:58086090 original size:23 final size:22
Alignment explanation
Indices: 58086059--58086103 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
58086049 ATAAAGGAAA
*
58086059 GAAATTAATAAATAAAATAAAAC
1 GAAAGTAATAAA-AAAATAAAAC
* *
58086082 GAAAGTAATTAAAAAATGAAAC
1 GAAAGTAATAAAAAAATAAAAC
58086104 AAAATTTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (22 bp):
GAAAGTAATAAAAAAATAAAAC
Found at i:58094231 original size:6 final size:6
Alignment explanation
Indices: 58094220--58094313 Score: 56
Period size: 6 Copynumber: 15.7 Consensus size: 6
58094210 TAGTAAGGTG
*
58094220 AAAAAT AAAAAT -AAAAT AAAACAT ATAAATCT AAAAA- ATAAAAT -AAAA-
1 AAAAAT AAAAAT AAAAAT AAAA-AT A-AAA-AT AAAAAT A-AAAAT AAAAAT
* * *
58094268 ACAAAT AACAAG AAAAAT AAAAAT AAAACAT --AAAT AAAACAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAA-AT AAAA
58094314 TCTAAATAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 21
0.69 0.09 0.21
Matches are distributed among these distances:
4 2 0.03
5 15 0.22
6 32 0.47
7 14 0.21
8 5 0.07
ACGTcount: A:0.77, C:0.06, G:0.01, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:58094256 original size:27 final size:26
Alignment explanation
Indices: 58094226--58094299 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 26
58094216 GGTGAAAAAT
*
58094226 AAAAATAAAATAAAACATATAAATCTA-
1 AAAAATAAAATAAAACATAT-AA-CAAG
*
58094253 AAAAATAAAATAAAAACAAATAACAAG
1 AAAAATAAAAT-AAAACATATAACAAG
58094280 AAAAATAAAAATAAAACATA
1 AAAAAT-AAAATAAAACATA
58094300 AATAAAACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 2 0.05
27 26 0.63
28 13 0.32
ACGTcount: A:0.76, C:0.07, G:0.01, T:0.16
Consensus pattern (26 bp):
AAAAATAAAATAAAACATATAACAAG
Found at i:58094293 original size:18 final size:17
Alignment explanation
Indices: 58094221--58094313 Score: 57
Period size: 17 Copynumber: 5.2 Consensus size: 17
58094211 AGTAAGGTGA
*
58094221 AAAATAAAAAT-AAAAT
1 AAAACAAAAATAAAAAT
58094237 AAAACATATAAATCTAAAAAAT
1 AAAACA-A-AAA--T-AAAAAT
* *
58094259 AAAA-TAAAA-ACAAAT
1 AAAACAAAAATAAAAAT
*
58094274 AACAAGAAAAATAAAAAT
1 AA-AACAAAAATAAAAAT
*
58094292 AAAACATAAATAAAACAT
1 AAAACAAAAATAAAA-AT
58094310 AAAA
1 AAAA
58094314 TCTAAATAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
15 7 0.12
16 7 0.12
17 16 0.27
18 16 0.27
19 3 0.05
20 2 0.03
22 9 0.15
ACGTcount: A:0.76, C:0.06, G:0.01, T:0.16
Consensus pattern (17 bp):
AAAACAAAAATAAAAAT
Found at i:58094306 original size:22 final size:23
Alignment explanation
Indices: 58094254--58094346 Score: 68
Period size: 22 Copynumber: 3.9 Consensus size: 23
58094244 ATAAATCTAA
58094254 AAAATAAAATAAAAACAAATAAC
1 AAAATAAAATAAAAACAAATAAC
* *
58094277 AAGA-AAAATAAAAA-TAA-AAC
1 AAAATAAAATAAAAACAAATAAC
*
58094297 ATAAATAAAACATAAAATCTAAATAATTC
1 A-AAAT-AAA-ATAAAAAC-AAATAA--C
58094326 AAAATAAAATAACAAA-AAATA
1 AAAATAAAATAA-AAACAAATA
58094347 TCTAATACTA
Statistics
Matches: 54, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
20 4 0.07
21 4 0.07
22 10 0.19
23 6 0.11
24 6 0.11
25 5 0.09
26 6 0.11
27 7 0.13
28 4 0.07
29 2 0.04
ACGTcount: A:0.74, C:0.08, G:0.01, T:0.17
Consensus pattern (23 bp):
AAAATAAAATAAAAACAAATAAC
Found at i:58094307 original size:11 final size:11
Alignment explanation
Indices: 58094288--58094312 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
58094278 AGAAAAATAA
58094288 AAATAAAACAT
1 AAATAAAACAT
58094299 AAATAAAACAT
1 AAATAAAACAT
58094310 AAA
1 AAA
58094313 ATCTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATAAAACAT
Found at i:58094319 original size:18 final size:17
Alignment explanation
Indices: 58094253--58094322 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 17
58094243 TATAAATCTA
58094253 AAAAAT-AAA-ATAAA-
1 AAAAATAAAACATAAAT
* *
58094267 AACAAATAACAAGAAAAAT
1 AA-AAATAA-AACATAAAT
58094286 AAAAATAAAACATAAAT
1 AAAAATAAAACATAAAT
58094303 AAAACATAAAATC-TAAAT
1 AAAA-ATAAAA-CATAAAT
58094321 AA
1 AA
58094323 TTCAAAATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
14 2 0.04
15 4 0.09
16 1 0.02
17 13 0.28
18 23 0.50
19 3 0.07
ACGTcount: A:0.76, C:0.07, G:0.01, T:0.16
Consensus pattern (17 bp):
AAAAATAAAACATAAAT
Found at i:58100696 original size:624 final size:624
Alignment explanation
Indices: 58098986--58101726 Score: 4226
Period size: 624 Copynumber: 4.4 Consensus size: 624
58098976 TAATGTTTAA
* *
58098986 ATAATTAATTAAGTAAAAATGACTAAATTGAAAAATGTGCAAAAATAGATTTCTATTAGGTAAAG
1 ATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAAAG
* * *
58099051 AGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCGCCAAATGAACTTAG
66 GGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAATGAACTTTG
*
58099116 AGTGGAAGGTTTTGGGTGATTAAATGCATGAAATTTGA-TTTTTAAGGGAAAAATTGTAAATTTG
131 AGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATTTG
*
58099180 TAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATC-CCTTTTAATTTGCTAT
196 TAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCC-TCTAATTTGCTAT
*
58099244 TTTGCAAACTGAATAACAGAGAGGAAGAAGCTTTCGGTCATGAAGTTTTTACATGCATGATCAAG
260 TTTGCAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGAAGTTTTTACATGCATGATCAAG
* * *
58099309 AAATGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTCATTT
325 AAACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATGAGTCAGCTGCTTCATTT
* * *
58099374 TTACAACTATATTTGCCAAGGTAACTTTGTACTATATAATATATATGTTTGTTTCCTTATGATTA
390 TTACAACTATATTTGCCGAGGTAAGTTTGTATTATATAATATATATGTTTGTTTCCTTATGATTA
* * * * *
58099439 TGTATATCGATTGTTGGTTAAATTGTAATTAATATGAAAATTTCATTGTTTGCTTGTAAATTTTT
455 TGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTATT
* * *
58099504 AAATGTTGGAATTAAGTACAAATGGAAAATGAATATTCGGTCATGGTAAATCTTGTGGCTTCACA
520 AAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGCTTCACA
*
58099569 ATTTTGAAATGAATGTACCAGATTTATATTATGTGTACAG
585 ATTTTGAAATGAATGTAACAGATTTATATTATGTGTACAG
* *
58099609 ATAATTAATTAAGTAAAACTCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTACGTAAAG
1 ATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAAAG
* * * *** ** * ** * *
58099674 GGGTCAATTGTATTAT--ATAAT-ATA-T-AT-G-TTTGTTTCCT-TATG-A--TTATGTA-TAT
66 GGGTCAATT-TATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAATGAACTTT
* * * * * * * * * * **** * *
58099727 CAATTGCTAGTTAAATT--ATAATT-AATG--TGAAAAATTCATTGTTTCCTTG-TAAATTATTA
130 GAGTGGATGGTT---TTGGGTGATTAAATGCATG-AAATTTGATTTTTTAAGGGAAAAATT-GTA
* * ** * *
58099786 AATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGAAAAGACAAAAATGTTATCA
190 AAT-TTGTAATTAAATGGAAAT-TAAAA-CAA-A------C-T--AAAAGACAAAAATGTTATCA
* * *
58099851 TCTCCTCTAATTTGCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCAGTCATGGAGTT
242 TCTCCTCTAATTTGCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGAAGTT
* *
58099916 TTTACATGCATGATCAACAAACGAACCAAACGGATCTAAACAGAGGAAAAGCTAATGTGTCAGAT
307 TTTACATGCATGATCAAGAAACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGAT
* * *
58099981 TAGTCGGCTGCTTCATTTTTACAACTATATTTGCCGAGGTAAGTTTGTATTATATTATATATATG
372 GAGTCAGCTGCTTCATTTTTACAACTATATTTGCCGAGGTAAGTTTGTATTATATAATATATATG
58100046 TTTGTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATT
437 TTTGTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATT
58100111 GTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGC
502 GTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGC
* * *
58100176 AAATGTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTAATATTATGTGTACAG
567 AAATCTTGTGGCTTCACAATTTTGAAATGAATGTAACAGATTTATATTATGTGTACAG
*
58100234 ATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAAAA
1 ATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAAAG
* *
58100299 GGGTCAATTTATAATGGATTATCAAACTAACGGACTTAAATGGTAAATGCACCAAATGAACTTTG
66 GGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAATGAACTTTG
*
58100364 AGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAATGGAAAAATTGTAAATTTG
131 AGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATTTG
*
58100429 TAATTAAATGGAAATTAAAACAAACTAATAGACAAAAATGTTATCATCTCCTCTAATTTGCTATT
196 TAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTGCTATT
* * * *
58100494 TTGCAAACCGAATAACAGAGAGGAACAAACTTGCGGTCATGGAGTTTTTACATGCATGATCAAGA
261 TTGCAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGAAGTTTTTACATGCATGATCAAGA
* *
58100559 AACGATCCAAACGGATCTAAACCGTGGAAAAGCTAATGTGTCAGATGAGTCAGCTGCTTCATTTT
326 AACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATGAGTCAGCTGCTTCATTTT
* ** *
58100624 TACAACTATATTGGTGGAGGTAAGTTTGAATTATATAATATATATGTTTGTTTCCTTATGATTAT
391 TACAACTATATTTGCCGAGGTAAGTTTGTATTATATAATATATATGTTTGTTTCCTTATGATTAT
58100689 GTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTATTA
456 GTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTATTA
58100754 AATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGCTTCACAA
521 AATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGCTTCACAA
58100819 TTTTGAAATGAATGTAACAGATTTATATTATGTGTACAG
586 TTTTGAAATGAATGTAACAGATTTATATTATGTGTACAG
58100858 ATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAAAG
1 ATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAAAG
*
58100923 GGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAATGAGCTTTG
66 GGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAATGAACTTTG
*
58100988 AGTGGATGGTTTTGGGTAATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATTTG
131 AGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATTTG
58101053 TAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTGCTATT
196 TAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTGCTATT
*
58101118 TTGCAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGAAGCTTTTACATGCATGATCAAGA
261 TTGCAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGAAGTTTTTACATGCATGATCAAGA
58101183 AACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATGAGTCAGCTGCTTCATTTT
326 AACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATGAGTCAGCTGCTTCATTTT
* *
58101248 TACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGTTTGTTTCCTTATGATTAT
391 TACAACTATATTTGCCGAGGTAAGTTTGTATTATATAATATATATGTTTGTTTCCTTATGATTAT
* * *
58101313 GTATAACAATTGTTAGTTAAATTATAATTAATGTGAAAATTTAATTTTTTGCTTGTAAATTATTA
456 GTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTATTA
* *
58101378 AATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGTAAATCTTGTGGTTTCACAA
521 AATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGCTTCACAA
*
58101443 TTTTGAAATGAGTGTAACAGATTTATATTATGTGTACAG
586 TTTTGAAATGAATGTAACAGATTTATATTATGTGTACAG
* *
58101482 ATAATTAATTAAGTAAAAATTACTAAATTGAAAAAGGTGAAAAAATAGATTTCTATTAGGTAAAG
1 ATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAAAG
* * *
58101547 GGGTCAATTTATTATGGATTATCAAACTAATGGACTTGAATGGTAAATGCACCAAATGCACTTAG
66 GGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAATGAACTTTG
*
58101612 AGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATTTT
131 AGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATTTG
*
58101677 TAATTAAATGGAAATTAAAACAAACTAAAAGACTAAAATGTTATCATCTC
196 TAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTC
58101727 TGTAATAACA
Statistics
Matches: 1921, Mismatches: 158, Indels: 77
0.89 0.07 0.04
Matches are distributed among these distances:
610 2 0.00
611 11 0.01
612 21 0.01
613 22 0.01
614 4 0.00
615 4 0.00
616 4 0.00
617 4 0.00
618 1 0.00
619 2 0.00
620 1 0.00
621 2 0.00
622 5 0.00
623 70 0.04
624 1231 0.64
625 447 0.23
626 7 0.00
627 3 0.00
628 1 0.00
629 1 0.00
630 1 0.00
631 4 0.00
632 3 0.00
633 4 0.00
634 2 0.00
635 12 0.01
636 27 0.01
637 18 0.01
638 7 0.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.35
Consensus pattern (624 bp):
ATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAAAG
GGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCACCAAATGAACTTTG
AGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATTTG
TAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTGCTATT
TTGCAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGAAGTTTTTACATGCATGATCAAGA
AACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATGAGTCAGCTGCTTCATTTT
TACAACTATATTTGCCGAGGTAAGTTTGTATTATATAATATATATGTTTGTTTCCTTATGATTAT
GTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTATTA
AATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGCTTCACAA
TTTTGAAATGAATGTAACAGATTTATATTATGTGTACAG
Found at i:58102649 original size:12 final size:12
Alignment explanation
Indices: 58102632--58102656 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58102622 TCCGTGCATC
58102632 GACCCGGACCCA
1 GACCCGGACCCA
58102644 GACCCGGACCCA
1 GACCCGGACCCA
58102656 G
1 G
58102657 GATCCGCGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.48, G:0.28, T:0.00
Consensus pattern (12 bp):
GACCCGGACCCA
Found at i:58115254 original size:44 final size:43
Alignment explanation
Indices: 58115151--58115261 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 43
58115141 GATCATGTCA
* * * * * *
58115151 AATCTTGTCTTCCTGAAGTTGTAGTGGAGCTGATTAAAGCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAT
* *
58115194 AATCTTATCTCCCTGAAATTGCAGTGGAGCGGATTAAAACCTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAT
*
58115237 AGATCTTATCTCTCTGAAGTTGCAG
1 A-ATCTTATCTCCCTGAAGTTGCAG
58115262 AGAGCAGATC
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
43 36 0.63
44 21 0.37
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAT
Found at i:58115387 original size:45 final size:44
Alignment explanation
Indices: 58115280--58115675 Score: 159
Period size: 44 Copynumber: 8.6 Consensus size: 44
58115270 TCGCATCTAG
* * *
58115280 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAA
* *
58115324 TCTTATC-CTCCTCAAGTTGCAGT-GAGGCAAACTGAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAAACT-AAGTA-AGCAAA
* * * * **
58115369 TTTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGAGAGTAGATCTCATCT
1 TCTTATCTCCCTGAAGTTGCAGT-G-G-AG--CAAA--CTA-AGTA-A--GCA-AA
* * * *
58115425 AGTCTTATCTCCCTGAAGTTGCAGTCGAGCAGACTAATTAAGCAAG
1 --TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAA
* * * * * *
58115471 TCTTATC-CTTCTGAAGTTGTAG-CGAGGCAGACTGAAG-ATGGTAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAAACT-AAGTA-AGCAAA
* * * *
58115516 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTAATTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAA
* * *
58115560 TCTTATC-CTCCTGAAGTTGCAG-CGAGGCAGACTGAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAAACT-AAGTA-AGCAAA
* * *
58115605 TCTTATCTCCCTGAAATTGCAGTGGAGCAGA-TTA--AAGCCGACAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAG-C-A-AA
*
58115649 TCCTATCTCCCTGAAGTTGCAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
58115676 TAGATTAAAA
Statistics
Matches: 268, Mismatches: 48, Indels: 72
0.69 0.12 0.19
Matches are distributed among these distances:
41 1 0.00
42 2 0.01
43 12 0.04
44 112 0.42
45 86 0.32
46 7 0.03
47 2 0.01
48 2 0.01
49 2 0.01
50 6 0.02
51 3 0.01
52 3 0.01
53 3 0.01
55 4 0.01
56 1 0.00
58 22 0.08
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAA
Found at i:58115488 original size:44 final size:44
Alignment explanation
Indices: 58115437--58115592 Score: 160
Period size: 44 Copynumber: 3.5 Consensus size: 44
58115427 TCTTATCTCC
58115437 CTGAAGTTGCAGTCGA-GCAGACTAATTAAGCAAGTCTTATCCTT
1 CTGAAGTTGCAG-CGAGGCAGACTAATTAAGCAAGTCTTATCCTT
* * * * *
58115481 CTGAAGTTGTAGCGAGGCAGACTGAA-GATGGTAAATCTTAT--TT
1 CTGAAGTTGCAGCGAGGCAGACT-AATTA-AGCAAGTCTTATCCTT
* *
58115524 CCCTGAAGTTGCAGTG-GAGCAGACTAATTAAGCAAGTCTTATCCTC
1 --CTGAAGTTGCAGCGAG-GCAGACTAATTAAGCAAGTCTTATCCTT
58115570 CTGAAGTTGCAGCGAGGCAGACT
1 CTGAAGTTGCAGCGAGGCAGACT
58115593 GAAGATGGCA
Statistics
Matches: 89, Mismatches: 13, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
43 5 0.06
44 51 0.57
45 32 0.36
46 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
CTGAAGTTGCAGCGAGGCAGACTAATTAAGCAAGTCTTATCCTT
Found at i:58115528 original size:147 final size:147
Alignment explanation
Indices: 58115261--58115542 Score: 447
Period size: 147 Copynumber: 1.9 Consensus size: 147
58115251 TGAAGTTGCA
* *
58115261 GAGAGCAGATCGCATCTAGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTC
1 GAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTCGAGCAGACTAAGTAAGCAAGTC
* *
58115326 TTATCCTCCTCAAGTTGCAGTGAGGCAAACTGAAGATGGCAAATTTTATCTCCCTGAAGTTGCAG
66 TTATCCTCCTCAAGTTGCAGCGAGGCAAACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAG
58115391 TGGAGTAGATTAAAGCC
131 TGGAGTAGATTAAAGCC
* * *
58115408 GAGAGTAGATCTCATCTAGTCTTATCTCCCTGAAGTTGCAGTCGAGCAGACTAATTAAGCAAGTC
1 GAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTCGAGCAGACTAAGTAAGCAAGTC
* * * * * *
58115473 TTATCCTTCTGAAGTTGTAGCGAGGCAGACTGAAGATGGTAAATCTTATTTCCCTGAAGTTGCAG
66 TTATCCTCCTCAAGTTGCAGCGAGGCAAACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAG
58115538 TGGAG
131 TGGAG
58115543 CAGACTAATT
Statistics
Matches: 122, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
147 122 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (147 bp):
GAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTCGAGCAGACTAAGTAAGCAAGTC
TTATCCTCCTCAAGTTGCAGCGAGGCAAACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAG
TGGAGTAGATTAAAGCC
Found at i:58115578 original size:89 final size:89
Alignment explanation
Indices: 58115427--58115635 Score: 364
Period size: 89 Copynumber: 2.3 Consensus size: 89
58115417 TCTCATCTAG
* * *
58115427 TCTTATCTCCCTGAAGTTGCAGTCGAGCAGACTAATTAAGCAAGTCTTATCCTTCTGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATTAAGCAAGTCTTATCCTCCTGAAGTTGCA
*
58115492 GCGAGGCAGACTGAAGATGGTAAA
66 GCGAGGCAGACTGAAGATGGCAAA
*
58115516 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTAATTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATTAAGCAAGTCTTATCCTCCTGAAGTTGCA
58115581 GCGAGGCAGACTGAAGATGGCAAA
66 GCGAGGCAGACTGAAGATGGCAAA
*
58115605 TCTTATCTCCCTGAAATTGCAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
58115636 TTAAAGCCGA
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 113 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATTAAGCAAGTCTTATCCTCCTGAAGTTGCA
GCGAGGCAGACTGAAGATGGCAAA
Found at i:58115662 original size:89 final size:89
Alignment explanation
Indices: 58115427--58115670 Score: 312
Period size: 89 Copynumber: 2.7 Consensus size: 89
58115417 TCTCATCTAG
* * ** * * *
58115427 TCTTATCTCCCTGAAGTTGCAGTCGAGCAGACTAATTAAGCAAGTCTTATCCTTCTGAAGTTGTA
1 TCTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAAGAAGCAAGTCCTATCCTCCTGAAGTTGCA
*
58115492 GCGAGGCAGACTGAAGATGGTAAA
66 GCGAGGCAGACTGAAGATGGCAAA
* * ** *
58115516 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTAATTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAAGAAGCAAGTCCTATCCTCCTGAAGTTGCA
58115581 GCGAGGCAGACTGAAGATGGCAAA
66 GCGAGGCAGACTGAAGATGGCAAA
* **
58115605 TCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCCGACAA-TCCTAT-CTCCCTGAAGTTG
1 TCTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAAGAAG-CAAGTCCTATCCT-CCTGAAGTTG
58115668 CAG
64 CAG
58115671 TGGAGTAGAT
Statistics
Matches: 140, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
88 2 0.01
89 135 0.96
90 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (89 bp):
TCTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAAGAAGCAAGTCCTATCCTCCTGAAGTTGCA
GCGAGGCAGACTGAAGATGGCAAA
Found at i:58116846 original size:44 final size:44
Alignment explanation
Indices: 58116783--58116991 Score: 194
Period size: 44 Copynumber: 4.7 Consensus size: 44
58116773 GATCTCATCT
*
58116783 AGTCTTATCTCCCTGAAGTTGCAGTCGACCAGACTAATTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTCGAGCAGACTAATTAAGCA
* * ** *
58116827 AGTCTTATC-CTCCTGAAGTTGTAG-CGAGGCAGACTGAGGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTCGA-GCAGACTAATTA-AGCA
* * *
58116872 AATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTAATTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTCGAGCAGACTAATTAAGCA
* *
58116916 AGTCTTATC-CTCCTGAAGTTGCAG-CGAGGCAGACTGAA-GATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTCGA-GCAGACT-AATTA-AGCA
* * *
58116961 AATCTTATCTCCCTGAAATTGCAGTGGAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTCGAGCA
58116992 AATTAAAGCC
Statistics
Matches: 132, Mismatches: 22, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
43 7 0.05
44 60 0.45
45 59 0.45
46 6 0.05
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTCGAGCAGACTAATTAAGCA
Found at i:58116891 original size:45 final size:45
Alignment explanation
Indices: 58116838--58116984 Score: 158
Period size: 45 Copynumber: 3.3 Consensus size: 45
58116828 GTCTTATCCT
* *
58116838 CCTGAAGTTGTAGCGAGGCAGACTGAGGATGGCAAATCTTATTTC
1 CCTGAAGTTGCAGCGAGGCAGACTGAAGATGGCAAATCTTATTTC
* * * * *
58116883 CCTGAAGTTGCAGTG-GAGCAGACT-AA-TTAAGCAAGTCTTA-TCC
1 CCTGAAGTTGCAGCGAG-GCAGACTGAAGAT-GGCAAATCTTATTTC
*
58116926 TCCTGAAGTTGCAGCGAGGCAGACTGAAGATGGCAAATCTTATCTC
1 -CCTGAAGTTGCAGCGAGGCAGACTGAAGATGGCAAATCTTATTTC
*
58116972 CCTGAAATTGCAG
1 CCTGAAGTTGCAG
58116985 TGGAGCAAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
43 3 0.04
44 32 0.40
45 44 0.54
46 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (45 bp):
CCTGAAGTTGCAGCGAGGCAGACTGAAGATGGCAAATCTTATTTC
Found at i:58116936 original size:89 final size:89
Alignment explanation
Indices: 58116785--58116991 Score: 360
Period size: 89 Copynumber: 2.3 Consensus size: 89
58116775 TCTCATCTAG
* * *
58116785 TCTTATCTCCCTGAAGTTGCAGTCGACCAGACTAATTAAGCAAGTCTTATCCTCCTGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATTAAGCAAGTCTTATCCTCCTGAAGTTGCA
*
58116850 GCGAGGCAGACTGAGGATGGCAAA
66 GCGAGGCAGACTGAAGATGGCAAA
*
58116874 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTAATTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATTAAGCAAGTCTTATCCTCCTGAAGTTGCA
58116939 GCGAGGCAGACTGAAGATGGCAAA
66 GCGAGGCAGACTGAAGATGGCAAA
*
58116963 TCTTATCTCCCTGAAATTGCAGTGGAGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCA
58116992 AATTAAAGCC
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 111 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATTAAGCAAGTCTTATCCTCCTGAAGTTGCA
GCGAGGCAGACTGAAGATGGCAAA
Found at i:58117020 original size:89 final size:89
Alignment explanation
Indices: 58116785--58117028 Score: 294
Period size: 89 Copynumber: 2.7 Consensus size: 89
58116775 TCTCATCTAG
* * * * ** * *
58116785 TCTTATCTCCCTGAAGTTGCAGTCGACCAGACTAATTAAGCAAGTCTTATCCTCCTGAAGTTGTA
1 TCTTATCTCCCTGAAATTGCAGTGGAGCAAACTAAAGAAGCAAGTCCTATCCTCCTGAAGTTGCA
*
58116850 GCGAGGCAGACTGAGGATGGCAAA
66 GCGAGGCAGACTGAAGATGGCAAA
* * * ** *
58116874 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTAATTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAATTGCAGTGGAGCAAACTAAAGAAGCAAGTCCTATCCTCCTGAAGTTGCA
58116939 GCGAGGCAGACTGAAGATGGCAAA
66 GCGAGGCAGACTGAAGATGGCAAA
* **
58116963 TCTTATCTCCCTGAAATTGCAGTGGAGCAAATTAAAGCCGACAA-TCCTAT-CTCCCTGAAGTTG
1 TCTTATCTCCCTGAAATTGCAGTGGAGCAAACTAAAGAAG-CAAGTCCTATCCT-CCTGAAGTTG
58117026 CAG
64 CAG
58117029 TGGAGTAGAT
Statistics
Matches: 139, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
88 2 0.01
89 134 0.96
90 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (89 bp):
TCTTATCTCCCTGAAATTGCAGTGGAGCAAACTAAAGAAGCAAGTCCTATCCTCCTGAAGTTGCA
GCGAGGCAGACTGAAGATGGCAAA
Found at i:58121847 original size:113 final size:113
Alignment explanation
Indices: 58121697--58122075 Score: 758
Period size: 113 Copynumber: 3.4 Consensus size: 113
58121687 CAACCTGTGG
58121697 TCATATATTTAAGTCCATTTATGAGGGAAATTAAAGTATTAAAGATAAAAGGATCTTTGCCTTGT
1 TCATATATTTAAGTCCATTTATGAGGGAAATTAAAGTATTAAAGATAAAAGGATCTTTGCCTTGT
58121762 TTTTTTTTTCATTTGCATCCCTTCATTGAGCCCTACAATCCCCTTTTT
66 TTTTTTTTTCATTTGCATCCCTTCATTGAGCCCTACAATCCCCTTTTT
58121810 TCATATATTTAAGTCCATTTATGAGGGAAATTAAAGTATTAAAGATAAAAGGATCTTTGCCTTGT
1 TCATATATTTAAGTCCATTTATGAGGGAAATTAAAGTATTAAAGATAAAAGGATCTTTGCCTTGT
58121875 TTTTTTTTTCATTTGCATCCCTTCATTGAGCCCTACAATCCCCTTTTT
66 TTTTTTTTTCATTTGCATCCCTTCATTGAGCCCTACAATCCCCTTTTT
58121923 TCATATATTTAAGTCCATTTATGAGGGAAATTAAAGTATTAAAGATAAAAGGATCTTTGCCTTGT
1 TCATATATTTAAGTCCATTTATGAGGGAAATTAAAGTATTAAAGATAAAAGGATCTTTGCCTTGT
58121988 TTTTTTTTTCATTTGCATCCCTTCATTGAGCCCTACAATCCCCTTTTT
66 TTTTTTTTTCATTTGCATCCCTTCATTGAGCCCTACAATCCCCTTTTT
58122036 TCATATATTTAAGTCCATTTATGAGGGAAATTAAAGTATT
1 TCATATATTTAAGTCCATTTATGAGGGAAATTAAAGTATT
58122076 TATTCAAAAT
Statistics
Matches: 266, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 266 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (113 bp):
TCATATATTTAAGTCCATTTATGAGGGAAATTAAAGTATTAAAGATAAAAGGATCTTTGCCTTGT
TTTTTTTTTCATTTGCATCCCTTCATTGAGCCCTACAATCCCCTTTTT
Found at i:58124682 original size:20 final size:21
Alignment explanation
Indices: 58124651--58124696 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
58124641 TTCGATGCCC
58124651 TTAAAGTTTTGAGC-TCTGGTT
1 TTAAAGTTTTGAGCAT-TGGTT
58124672 TTAAA-TTTTGAGCATTGGTT
1 TTAAAGTTTTGAGCATTGGTT
58124692 TTAAA
1 TTAAA
58124697 ACAAATTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAAAGTTTTGAGCATTGGTT
Found at i:58125166 original size:10 final size:10
Alignment explanation
Indices: 58125144--58125200 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
58125134 TTAATCACCT
58125144 AATTAACTT-A
1 AATTAA-TTAA
*
58125154 AATTAATCAA
1 AATTAATTAA
58125164 AATTAATTAA
1 AATTAATTAA
*
58125174 ACTTAA-TAA
1 AATTAATTAA
*
58125183 CAATTACTTAA
1 -AATTAATTAA
58125194 AATTAAT
1 AATTAAT
58125201 GGATGTTAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 4 0.11
10 31 0.82
11 3 0.08
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (10 bp):
AATTAATTAA
Found at i:58125169 original size:20 final size:20
Alignment explanation
Indices: 58125144--58125200 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
58125134 TTAATCACCT
58125144 AATTAACTTAAATTAATCAA-
1 AATTAACTTAAATTAAT-AAC
58125164 AATTAA-TTAAACTTAATAAC
1 AATTAACTTAAA-TTAATAAC
58125184 AATT-ACTTAAAATTAAT
1 AATTAACTT-AAATTAAT
58125201 GGATGTTAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.24
20 22 0.67
21 3 0.09
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTAACTTAAATTAATAAC
Found at i:58125665 original size:22 final size:23
Alignment explanation
Indices: 58125630--58125678 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
58125620 TTTTCTTTAG
*
58125630 TTTTGTTTTGCTTT-TGTATTTTC
1 TTTTCTTTTGCTTTAT-TATTTTC
58125653 TTTTCTTTT-CTTTATTATTTTC
1 TTTTCTTTTGCTTTATTATTTTC
58125675 TTTT
1 TTTT
58125679 TATTTAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.78
Consensus pattern (23 bp):
TTTTCTTTTGCTTTATTATTTTC
Found at i:58129566 original size:4 final size:4
Alignment explanation
Indices: 58129557--58129589 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
58129547 AAAATCACAG
58129557 CATA CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA C
58129590 CTGAAGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:58133300 original size:21 final size:21
Alignment explanation
Indices: 58133274--58133314 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58133264 CACCTATAGT
*
58133274 GGTATCGCGAAATCCACCTTA
1 GGTATCACGAAATCCACCTTA
*
58133295 GGTATCACGATATCCACCTT
1 GGTATCACGAAATCCACCTT
58133315 CCAAGAGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (21 bp):
GGTATCACGAAATCCACCTTA
Found at i:58135564 original size:16 final size:17
Alignment explanation
Indices: 58135543--58135577 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
58135533 GTCTCTTGCT
*
58135543 AAAAGAAG-GAGAAAGA
1 AAAAGAAGAGAAAAAGA
58135559 AAAAGAAGAGAAAAAGA
1 AAAAGAAGAGAAAAAGA
58135576 AA
1 AA
58135578 GGAAGATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AAAAGAAGAGAAAAAGA
Found at i:58143211 original size:9 final size:9
Alignment explanation
Indices: 58143199--58143241 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
58143189 ATAACATAAA
*
58143199 AATAATTCT
1 AATAATACT
58143208 AATAATACT
1 AATAATACT
*
58143217 AATAATAAT
1 AATAATACT
* *
58143226 AATAACAAT
1 AATAATACT
58143235 AATAATA
1 AATAATA
58143242 ATTGGGGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (9 bp):
AATAATACT
Found at i:58143222 original size:3 final size:3
Alignment explanation
Indices: 58143207--58143243 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
58143197 AAAATAATTC
* *
58143207 TAA TAA TAC TAA TAA TAA TAA TAA CAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
58143244 TGGGGTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:58143460 original size:15 final size:15
Alignment explanation
Indices: 58143430--58143476 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
58143420 GGAGAGGGGA
* *
58143430 AAAAGTGAAGGAAAG
1 AAAAGAGAAAGAAAG
58143445 AAGAA-AGAAAGAAAG
1 AA-AAGAGAAAGAAAG
*
58143460 AAAAGAGAAGGAAAG
1 AAAAGAGAAAGAAAG
58143475 AA
1 AA
58143477 CGAGAAGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (15 bp):
AAAAGAGAAAGAAAG
Found at i:58143462 original size:19 final size:19
Alignment explanation
Indices: 58143441--58143494 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
58143431 AAAGTGAAGG
58143441 AAAGAAGAAAGAAAGAAAGA
1 AAAG-AGAAAGAAAGAAAGA
* *
58143461 AAAGAGAAGGAAAGAACGA
1 AAAGAGAAAGAAAGAAAGA
* *
58143480 GAAGGGAAA-AAAGAA
1 AAAGAGAAAGAAAGAA
58143495 GAGAGGGAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 6 0.21
19 19 0.66
20 4 0.14
ACGTcount: A:0.69, C:0.02, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAGAGAAAGAAAGAAAGA
Found at i:58152341 original size:96 final size:93
Alignment explanation
Indices: 58152173--58152391 Score: 219
Period size: 96 Copynumber: 2.3 Consensus size: 93
58152163 TTTGTAAGGA
* * * *
58152173 AGTGTAAGA-CATGTCTAGGACAT-GCATTGGCCTCGAGATGTGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATGTGTCAGTGTAAGACAATGTCTGG
* * * * **
58152236 GACATGGCATC-GCATGTATAGAGGTGTT
66 AACAGGGCATCAACATG-ATAGAGGAGCC
** *
58152264 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATTTTGGTAGTCAGTGTAAGACAATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA-GAT-GT-GTCAGTGTAAGACAATGTC
* * *
58152329 TGGAACAGGGCATCAACTTGATGGATGAGCC
63 TGGAACAGGGCATCAACATGATAGAGGAGCC
* *
58152360 AGTGTAAGACTATGTCTGGGATATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
58152392 TATTATACCA
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
91 9 0.09
92 13 0.12
93 11 0.11
94 1 0.01
95 2 0.02
96 65 0.62
97 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (93 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATGTGTCAGTGTAAGACAATGTCTGG
AACAGGGCATCAACATGATAGAGGAGCC
Found at i:58153555 original size:20 final size:21
Alignment explanation
Indices: 58153516--58153555 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58153506 GTCATAGTGG
58153516 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
58153537 CCACATGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
58153556 GTTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:58158169 original size:50 final size:49
Alignment explanation
Indices: 58158054--58158183 Score: 188
Period size: 50 Copynumber: 2.6 Consensus size: 49
58158044 CTGGTACGCA
* * ** *
58158054 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
* *
58158103 TAGTAGCCTGCACTTAGTGCTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACG
58158153 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
58158184 NNNNNNNNNN
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 30 0.42
50 42 0.58
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
Found at i:58161297 original size:49 final size:49
Alignment explanation
Indices: 58161219--58161464 Score: 267
Period size: 49 Copynumber: 5.0 Consensus size: 49
58161209 GTAGCCGAAG
* * * *
58161219 CTATCTGGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * * *
58161268 TTATCCGGTACATGTAGTAGCCTGCACTTAGTGCTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
* * * *
58161318 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * ** * *
58161368 TTTATCAGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
58161418 CAATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
58161465 TCGCAATAGC
Statistics
Matches: 159, Mismatches: 35, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 76 0.48
50 46 0.29
51 37 0.23
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:58161451 original size:100 final size:98
Alignment explanation
Indices: 58161221--58161464 Score: 312
Period size: 100 Copynumber: 2.5 Consensus size: 98
58161211 AGCCGAAGCT
* * * * * *
58161221 ATCTGGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACCAATTATCCGGTACATGTAGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACA-GTAGT
* * *
58161286 AGCCTGCACTTAGTGCTACACACGTGACCTAACC
65 AGCCTGCACTTAGTACTACACACGCGACCTAACA
* *
58161320 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAATTTATCAGGTATGCA-T
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTA--CAGT
*
58161384 AGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
62 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
*
58161420 ATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
58161465 TCGCAATAGC
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
99 38 0.30
100 47 0.37
101 39 0.31
103 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (98 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACAGTAGTA
GCCTGCACTTAGTACTACACACGCGACCTAACA
Found at i:58163411 original size:24 final size:24
Alignment explanation
Indices: 58163375--58163421 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
58163365 CCCTTATCGA
**
58163375 TTATTTTTTATAGAGATCCGAGGT
1 TTATTTTGGATAGAGATCCGAGGT
58163399 TTATTTTGGATAGAGATCCGAGG
1 TTATTTTGGATAGAGATCCGAGG
58163422 ATTACCTCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (24 bp):
TTATTTTGGATAGAGATCCGAGGT
Found at i:58165609 original size:48 final size:48
Alignment explanation
Indices: 58165549--58165730 Score: 153
Period size: 48 Copynumber: 3.8 Consensus size: 48
58165539 GCTACGAGAT
58165549 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGTATAGAG
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGTATAGAG
* * * *
58165597 GTGTTAGTGTAAGGCCATGTCTGGGACATGGCATCGGCACGGGTAT-GTG
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACAC--GTATAGAG
* * * * * *
58165646 AGAG-CTAGTGTATGACCATGTCTAGG-CATGGCATCAGCCTCGATTTCA-A-
1 -GTGTC-AGTGTAAGACCATGTCTGGGACATGGCATC-GACACG-TAT-AGAG
58165695 -TAG-CAGTGTAAGACCATGTCTGGGACATGGCATCGA
1 GT-GTCAGTGTAAGACCATGTCTGGGACATGGCATCGA
58165731 ATTGACGGAT
Statistics
Matches: 107, Mismatches: 17, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
47 19 0.18
48 49 0.46
49 13 0.12
50 26 0.24
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (48 bp):
GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGTATAGAG
Found at i:58170684 original size:50 final size:50
Alignment explanation
Indices: 58170560--58170808 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
58170550 GATAATAACA
* * ** * *
58170560 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
58170611 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
58170661 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
58170711 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* * *
58170766 ATGCCAATGCCATGTCCCATACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
58170809 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:58170738 original size:100 final size:104
Alignment explanation
Indices: 58170559--58170808 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
58170549 TGATAATAAC
**
58170559 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
58170624 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
58170661 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
58170724 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* * *
58170766 ATGCCAATGCCATGTCCCATACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
58170809 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:58170924 original size:13 final size:13
Alignment explanation
Indices: 58170903--58170934 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
58170893 GCTTGGATCA
*
58170903 TCATCAAATAAAT
1 TCATAAAATAAAT
58170916 TCATAAAATAAAT
1 TCATAAAATAAAT
58170929 TCATAA
1 TCATAA
58170935 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:58171182 original size:30 final size:30
Alignment explanation
Indices: 58171146--58171203 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
58171136 CCTCGACTCT
*
58171146 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
58171176 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
58171204 AAGGCCCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:58172357 original size:58 final size:58
Alignment explanation
Indices: 58172291--58172404 Score: 219
Period size: 58 Copynumber: 2.0 Consensus size: 58
58172281 GTGGCCTTTA
*
58172291 GGCTTCAGGTTATTGGGTTTTAAGGTTTTGTGTTAGCAGATTGGGTCTAGGGTTATCG
1 GGCTTCAGGTTATTGGGTTTTAAGGTTTTGGGTTAGCAGATTGGGTCTAGGGTTATCG
58172349 GGCTTCAGGTTATTGGGTTTTAAGGTTTTGGGTTAGCAGATTGGGTCTAGGGTTAT
1 GGCTTCAGGTTATTGGGTTTTAAGGTTTTGGGTTAGCAGATTGGGTCTAGGGTTAT
58172405 ATATTTGGGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.16, C:0.08, G:0.35, T:0.41
Consensus pattern (58 bp):
GGCTTCAGGTTATTGGGTTTTAAGGTTTTGGGTTAGCAGATTGGGTCTAGGGTTATCG
Found at i:58182582 original size:32 final size:32
Alignment explanation
Indices: 58182541--58182621 Score: 162
Period size: 32 Copynumber: 2.5 Consensus size: 32
58182531 ACACTTGCAC
58182541 AACCACATCGTGGCATTTTTAGGCATCCCAAT
1 AACCACATCGTGGCATTTTTAGGCATCCCAAT
58182573 AACCACATCGTGGCATTTTTAGGCATCCCAAT
1 AACCACATCGTGGCATTTTTAGGCATCCCAAT
58182605 AACCACATCGTGGCATT
1 AACCACATCGTGGCATT
58182622 CACACACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (32 bp):
AACCACATCGTGGCATTTTTAGGCATCCCAAT
Found at i:58184368 original size:48 final size:48
Alignment explanation
Indices: 58184297--58184419 Score: 192
Period size: 48 Copynumber: 2.6 Consensus size: 48
58184287 TGCCTCATGT
**
58184297 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAATGATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATGC
* * *
58184345 CGATGCCATGTCCCAGACATGGTCTTACACTGGTTCACATAACAATTC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATGC
*
58184393 CGATGCCATGTCCCATACATGGTCTTA
1 CGATGCCATGTCCCAAACATGGTCTTA
58184420 TACGGGATCA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATGC
Found at i:58184413 original size:96 final size:89
Alignment explanation
Indices: 58184297--58184474 Score: 223
Period size: 96 Copynumber: 1.9 Consensus size: 89
58184287 TGCCTCATGT
* * *
58184297 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAATGATGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAAACATGGTCTTACACGGGATCAC------ATGCCGATGCCATAT-CCAGA
58184362 CATGGTCTTACACTGGTT-CACATAACAATTC
59 CATGGTCTTACA-TGGTTACACATAACAATTC
* * *
58184393 CGATGCCATGTCCCATACATGGTCTTATACGGGATCACATGCCGATGCCATATCCAGATATGGTC
1 CGATGCCATGTCCCAAACATGGTCTTACACGGGATCACATGCCGATGCCATATCCAGACATGGTC
58184458 TTACATGGTTACACATA
66 TTACATGGTTACACATA
58184475 TTGCCATGGT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
88 5 0.07
89 22 0.29
90 14 0.19
96 34 0.45
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (89 bp):
CGATGCCATGTCCCAAACATGGTCTTACACGGGATCACATGCCGATGCCATATCCAGACATGGTC
TTACATGGTTACACATAACAATTC
Found at i:58187610 original size:40 final size:40
Alignment explanation
Indices: 58187565--58187756 Score: 222
Period size: 40 Copynumber: 4.8 Consensus size: 40
58187555 TATAACCACA
** *
58187565 AGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * *
58187605 CGCACAAATGCCTTCGGATCTTAGTCCGGATAAAATCACA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * **
58187645 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
58187685 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
58187725 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
58187757 TCATTCAAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:58187685 original size:80 final size:79
Alignment explanation
Indices: 58187537--58187757 Score: 318
Period size: 80 Copynumber: 2.8 Consensus size: 79
58187527 ACCCAAGTTT
* * * * *
58187537 CTTCGGAAT-TTAGCCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGT
1 CTTCGG-ATCTTAGCCGGATAAAATCACAAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
58187601 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
58187616 CTTCGGATCTTAGTCCGGATAAAATCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGATCTTAG-CCGGATAAAATCACAAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
58187681 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * *
58187696 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAG-CCGGATAAAATCACAAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
58187758 CATTCAAATG
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
78 2 0.02
79 10 0.08
80 115 0.91
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (79 bp):
CTTCGGATCTTAGCCGGATAAAATCACAAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:58201920 original size:35 final size:37
Alignment explanation
Indices: 58201849--58201946 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
58201839 ATAATCTTCA
58201849 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
58201887 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
58201922 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
58201947 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:58201946 original size:17 final size:19
Alignment explanation
Indices: 58201849--58201939 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
58201839 ATAATCTTCA
58201849 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
58201868 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
58201887 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
58201904 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
58201922 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
58201940 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:58207746 original size:49 final size:49
Alignment explanation
Indices: 58207624--58209142 Score: 2724
Period size: 49 Copynumber: 31.3 Consensus size: 49
58207614 GTGAACATGC
* * *
58207624 ATATATGAGATAAGGCCTAATGGCCGATGAGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
* *
58207671 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAC
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58207720 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
* *
58207767 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAC
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58207816 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
* *
58207863 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAC
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58207912 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
* *
58207959 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAC
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208008 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
*
58208055 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
* * *
58208104 ATTTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
*
58208153 ATTTATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208202 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208251 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208300 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208349 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208398 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208447 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208496 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208545 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208594 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208643 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208692 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208741 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208790 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208839 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208888 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208937 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58208986 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58209035 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
* * * * * * * *
58209082 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
58209131 A-A-ATGTGATAAG
1 ATATATGTGATAAG
58209143 TCCCGAAGGG
Statistics
Matches: 1427, Mismatches: 33, Indels: 24
0.96 0.02 0.02
Matches are distributed among these distances:
47 271 0.19
48 1 0.00
49 1155 0.81
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:58210203 original size:10 final size:10
Alignment explanation
Indices: 58210188--58210219 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
58210178 GGAAAAAAGA
58210188 AAGATCGAGG
1 AAGATCGAGG
*
58210198 AAGATCAAGG
1 AAGATCGAGG
58210208 AAGATCGAGG
1 AAGATCGAGG
58210218 AA
1 AA
58210220 AAAAGGCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.34, T:0.09
Consensus pattern (10 bp):
AAGATCGAGG
Found at i:58219251 original size:131 final size:131
Alignment explanation
Indices: 58219074--58219325 Score: 414
Period size: 131 Copynumber: 1.9 Consensus size: 131
58219064 TAACCTTCAG
*
58219074 GTGTTTAAGCTAAAGCGGATCCAAGATGATTTAACATCTCAGTATTGTCAGAGAACAAATCGAAG
1 GTGTTTAAGCTAAAGCAGATCCAAGATGATTTAACATCTCAGTATTGTCAGAGAACAAATCGAAG
* * *
58219139 AAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAACAGATTTGGCTTTAA
66 AAACAGATTTGACATCTCCATATTCGACGGAGAGAAGATCAAAGACATAACAGATTTGGCTTTAA
58219204 C
131 C
* * * *
58219205 GTGTTTATGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCGAAG
1 GTGTTTAAGCTAAAGCAGATCCAAGATGATTTAACATCTCAGTATTGTCAGAGAACAAATCGAAG
* *
58219270 AAATAGATTTGACATCTCCATATTCGACGGAGAGAAGATCAAAGACATAATAGATT
66 AAACAGATTTGACATCTCCATATTCGACGGAGAGAAGATCAAAGACATAACAGATT
58219326 GGACCTTAAT
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 111 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.27
Consensus pattern (131 bp):
GTGTTTAAGCTAAAGCAGATCCAAGATGATTTAACATCTCAGTATTGTCAGAGAACAAATCGAAG
AAACAGATTTGACATCTCCATATTCGACGGAGAGAAGATCAAAGACATAACAGATTTGGCTTTAA
C
Found at i:58219613 original size:37 final size:37
Alignment explanation
Indices: 58219569--58219696 Score: 97
Period size: 37 Copynumber: 3.4 Consensus size: 37
58219559 TTAGACGGGG
*
58219569 AGCAGATCGAAGACATAACAGATTGGACCTTTATTGA
1 AGCAGATCCAAGACATAACAGATTGGACCTTTATTGA
*
58219606 AGCAGATCCAAG--AT----GATTTGGCATCTCTGTATTAGA
1 AGCAGATCCAAGACATAACAGA-TTGG-A-C-CTTTATT-GA
*
58219642 CGGGGAGCAGATCGAAGACATAACAGATTGGACCTTTATTGA
1 -----AGCAGATCCAAGACATAACAGATTGGACCTTTATTGA
58219684 AGCAGATCCAAGA
1 AGCAGATCCAAGA
58219697 TGATTTGGCA
Statistics
Matches: 70, Mismatches: 5, Indels: 32
0.65 0.05 0.30
Matches are distributed among these distances:
31 2 0.03
32 4 0.06
33 1 0.01
34 1 0.01
35 8 0.11
36 2 0.03
37 23 0.33
41 11 0.16
42 2 0.03
43 8 0.11
44 1 0.01
45 1 0.01
46 4 0.06
47 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (37 bp):
AGCAGATCCAAGACATAACAGATTGGACCTTTATTGA
Found at i:58219771 original size:77 final size:77
Alignment explanation
Indices: 58219523--58220221 Score: 1125
Period size: 77 Copynumber: 9.0 Consensus size: 77
58219513 TGAAGTCTTT
* * *
58219523 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAAC
1 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCAAAGACACAGC
* *
58219588 AGAT-TGGACCTTT
65 AGATCT-AACCTTC
* * *
58219601 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAAC
1 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCAAAGACACAGC
* *
58219666 AGAT-TGGACCTTT
65 AGATCT-AACCTTC
58219679 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAGACACAGCA
1 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAGACACAGCA
58219744 GATCTAACCTTC
66 GATCTAACCTTC
58219756 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAGACACAGCA
1 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAGACACAGCA
58219821 GATCTAACCTTC
66 GATCTAACCTTC
58219833 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAGACACAGCA
1 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAGACACAGCA
58219898 GATCTAACCTTC
66 GATCTAACCTTC
58219910 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAGACACAGCA
1 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAGACACAGCA
58219975 GATCTAACCTTC
66 GATCTAACCTTC
58219987 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAGACACAGCA
1 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAGACACAGCA
58220052 GATCTAACCTTC
66 GATCTAACCTTC
* * *
58220064 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAAC
1 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACG-GGAGCAGATCAAAGACACAGC
* *
58220129 AGAT-TGGACCTTT
65 AGATCT-AACCTTC
* * * *
58220142 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGGGAGCAAATCGAAGACATAGC
1 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCAAAGACACAGC
* *
58220207 AAATCTGACCTTC
65 AGATCTAACCTTC
58220220 AT
1 AT
58220222 GTGTTTACAT
Statistics
Matches: 601, Mismatches: 15, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
77 380 0.63
78 219 0.36
79 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (77 bp):
ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAGACACAGCA
GATCTAACCTTC
Found at i:58220593 original size:89 final size:89
Alignment explanation
Indices: 58220251--58220586 Score: 582
Period size: 89 Copynumber: 3.8 Consensus size: 89
58220241 TCCAAGATGA
** * * * *
58220251 CAGATTTGGTATCTCTGTATTAGACAGGGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTAT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAT
58220316 TAGACGGGGAGCAGATTGAAGAAG
66 TAGACGGGGAGCAGATTGAAGAAG
*
58220340 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGTGTCTCTGTAT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAT
58220405 TAGACGGGGAGCAGATTGAAGAAG
66 TAGACGGGGAGCAGATTGAAGAAG
*
58220429 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGTGTCTCTGTAT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAT
58220494 TAGACGGGGAGCAGATTGAAGAAG
66 TAGACGGGGAGCAGATTGAAGAAG
* *
58220518 CAGATTTGGCGTCTCTGTTTTAGACGGGGAGCAGATCGAAGATAACAGATTTAGCGTCTCTGTAT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAT
58220583 TAGA
66 TAGA
58220587 TAGGGAGTAA
Statistics
Matches: 237, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 237 1.00
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.27
Consensus pattern (89 bp):
CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAT
TAGACGGGGAGCAGATTGAAGAAG
Found at i:58220606 original size:45 final size:45
Alignment explanation
Indices: 58220244--58220586 Score: 512
Period size: 45 Copynumber: 7.7 Consensus size: 45
58220234 AAGTAAATCC
* ** * *
58220244 AAGATGACAGATTTGGTATCTCTGTATTAGACAGGGAGCAAATCG
1 AAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
* * *
58220289 GAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTG
1 AAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
*
58220334 AAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
* *
58220378 AAGATAACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATTG
1 AAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
*
58220423 AAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
* *
58220467 AAGATAACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATTG
1 AAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
* *
58220512 AAGA-AGCAGATTTGGCGTCTCTGTTTTAGACGGGGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
*
58220556 AAGATAACAGATTTAGCGTCTCTGTATTAGA
1 AAGATAACAGATTTGGCGTCTCTGTATTAGA
58220587 TAGGGAGTAA
Statistics
Matches: 269, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
44 122 0.45
45 147 0.55
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.27
Consensus pattern (45 bp):
AAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
Found at i:58221077 original size:17 final size:19
Alignment explanation
Indices: 58220957--58221070 Score: 139
Period size: 17 Copynumber: 5.9 Consensus size: 19
58220947 ATAATCTTCA
58220957 ATGATATGCAATCTTAG--
1 ATGATATGCAATCTTAGAT
58220974 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
58220993 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
58221010 ATGAT-TGCAATCTTAGAAGAT
1 ATGATATGCAATCTT---AGAT
58221031 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTT---AGAT
58221053 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
58221071 AGATATGATT
Statistics
Matches: 89, Mismatches: 0, Indels: 14
0.86 0.00 0.14
Matches are distributed among these distances:
17 33 0.37
18 7 0.08
19 9 0.10
21 9 0.10
22 31 0.35
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.34
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:58221096 original size:22 final size:22
Alignment explanation
Indices: 58220974--58221079 Score: 149
Period size: 22 Copynumber: 5.2 Consensus size: 22
58220964 GCAATCTTAG
58220974 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
58220993 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
58221010 ATGAT-TGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
58221031 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
58221053 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
58221075 ATGAT
1 ATGAT
58221080 TTTGTAATTT
Statistics
Matches: 81, Mismatches: 0, Indels: 9
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.20
18 7 0.09
19 6 0.07
21 9 0.11
22 43 0.53
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:58221306 original size:20 final size:20
Alignment explanation
Indices: 58221269--58221306 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58221259 TCCCTCTTAC
*
58221269 GTTCTTATTTTCTACTTTTT
1 GTTCTTATTTTATACTTTTT
*
58221289 GTTCTTATTTTATTCTTT
1 GTTCTTATTTTATACTTT
58221307 GTTCATCTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.13, G:0.05, T:0.71
Consensus pattern (20 bp):
GTTCTTATTTTATACTTTTT
Found at i:58221381 original size:16 final size:17
Alignment explanation
Indices: 58221360--58221392 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
58221350 TGTTTCCCTG
*
58221360 ATTTTTTTAT-ATTTTA
1 ATTTTTTAATAATTTTA
58221376 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
58221393 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:58223467 original size:7 final size:7
Alignment explanation
Indices: 58223457--58223525 Score: 120
Period size: 7 Copynumber: 9.9 Consensus size: 7
58223447 TAAAATAAAT
*
58223457 TCTTGAT
1 TCTTGAA
*
58223464 TCTTGAT
1 TCTTGAA
58223471 TCTTGAA
1 TCTTGAA
58223478 TCTTGAA
1 TCTTGAA
58223485 TCTTGAA
1 TCTTGAA
58223492 TCTTGAA
1 TCTTGAA
58223499 TCTTGAA
1 TCTTGAA
58223506 TCTTGAA
1 TCTTGAA
58223513 TCTTGAA
1 TCTTGAA
58223520 TCTTGA
1 TCTTGA
58223526 GAAATTTCAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 61 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.46
Consensus pattern (7 bp):
TCTTGAA
Found at i:58224136 original size:80 final size:80
Alignment explanation
Indices: 58224042--58224201 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
58224032 TTGACCTCCT
58224042 AAATTAAATTAAAAATTACTATTAACCCAATAAATTCTTAAATTCATTCTCGGAACCCAAAACTA
1 AAATTAAATTAAAAATTACTATTAACCCAATAAATTCTTAAATTCATTCTCGGAACCCAAAACTA
58224107 GTAGACCCGGTTTAA
66 GTAGACCCGGTTTAA
58224122 AAATTAAATTAAAAATTACTATTAACCCAATAAATTCTTAAATTCATTCTCGGAACCCAAAACTA
1 AAATTAAATTAAAAATTACTATTAACCCAATAAATTCTTAAATTCATTCTCGGAACCCAAAACTA
58224187 GTAGACCCGGTTTAA
66 GTAGACCCGGTTTAA
58224202 GGATATTACA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (80 bp):
AAATTAAATTAAAAATTACTATTAACCCAATAAATTCTTAAATTCATTCTCGGAACCCAAAACTA
GTAGACCCGGTTTAA
Found at i:58228135 original size:15 final size:15
Alignment explanation
Indices: 58228105--58228137 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
58228095 AGGTTTAGTC
58228105 TTTATCTTCATCTTT
1 TTTATCTTCATCTTT
58228120 TTTACTCTTCAT-TTT
1 TTTA-TCTTCATCTTT
58228135 TTT
1 TTT
58228138 GCCATTATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTATCTTCATCTTT
Found at i:58236986 original size:30 final size:30
Alignment explanation
Indices: 58236930--58236987 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
58236920 TACGAGCCTT
*
58236930 GGGGCAAAAGTGTAAATATGTGAAAGTTTA
1 GGGGCAAAAGTGTAAATATGTCAAAGTTTA
* *
58236960 GGGGCAAAA-TAGTAATTTTGTCAAAGTT
1 GGGGCAAAAGT-GTAAATATGTCAAAGTT
58236988 CGTACTAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGTCAAAGTTTA
Found at i:58237203 original size:16 final size:17
Alignment explanation
Indices: 58237182--58237214 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
58237172 AAGTGATTTA
58237182 ATGATATTTA-TATGAT
1 ATGATATTTATTATGAT
58237198 ATGATATTTATTATGAT
1 ATGATATTTATTATGAT
58237215 GAAATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (17 bp):
ATGATATTTATTATGAT
Found at i:58237487 original size:47 final size:47
Alignment explanation
Indices: 58237418--58237530 Score: 217
Period size: 47 Copynumber: 2.4 Consensus size: 47
58237408 TCCGAACTCC
58237418 TTGAGTTGAGTCCGAGTTCGTGAGATATAACTAGGCATTCGAGCTCG
1 TTGAGTTGAGTCCGAGTTCGTGAGATATAACTAGGCATTCGAGCTCG
*
58237465 TTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATTCGAGCTCG
1 TTGAGTTGAGTCCGAGTTCGTGAGATATAACTAGGCATTCGAGCTCG
58237512 TTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTC
58237531 ACTTATGGAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (47 bp):
TTGAGTTGAGTCCGAGTTCGTGAGATATAACTAGGCATTCGAGCTCG
Found at i:58240040 original size:100 final size:99
Alignment explanation
Indices: 58239910--58240204 Score: 302
Period size: 100 Copynumber: 2.9 Consensus size: 99
58239900 GGGACTTAGG
* * * * * *
58239910 ATTTGTAGCTTCATCTTGCTCCACAACATCTTTATGAAGATGAGATTTGTTACTGTAGTTTCAAT
1 ATTTGTAGCTTCATCTTGCCCCACTACATCTTCATG-AGATGAGATTTGCTACTGAAGTTTTAAT
*
58239975 CCAATCCACTGCATCTTCAGGGATACGGGATTTCA
65 CCAATCCACTGCATCTTCAGGGATACAGGATTTCA
* *
58240010 ATTTGTAGCTTCATCTTGCCCCACTGCATCTTCATTGAGATGAGATCTGCTACTGAAGTTTTAAT
1 ATTTGTAGCTTCATCTTGCCCCACTACATCTTCA-TGAGATGAGATTTGCTACTGAAGTTTTAAT
** * ** * *
58240075 CTGATCCATTAAATCTTCAGGGATATAGGATTTGA
65 CCAATCCACTGCATCTTCAGGGATACAGGATTTCA
** * * * * * * *
58240110 GCTTATAACTTCATCTAGCCCCACTACATCTACATGGACATGAGATTTGCTACTGCAGTTTTGAT
1 ATTTGTAGCTTCATCTTGCCCCACTACATCTTCAT-GAGATGAGATTTGCTACTGAAGTTTTAAT
* * * *
58240175 CCATTCCACTGCAACTCCAGGGATATAGGA
65 CCAATCCACTGCATCTTCAGGGATACAGGA
58240205 GTTATTGTTT
Statistics
Matches: 158, Mismatches: 35, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
99 1 0.01
100 155 0.98
101 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (99 bp):
ATTTGTAGCTTCATCTTGCCCCACTACATCTTCATGAGATGAGATTTGCTACTGAAGTTTTAATC
CAATCCACTGCATCTTCAGGGATACAGGATTTCA
Found at i:58243377 original size:19 final size:20
Alignment explanation
Indices: 58243353--58243391 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
58243343 TTTTTCTTTT
58243353 TTCTCTA-CT-TCTGTTTCTG
1 TTCTCTATCTCTCT-TTTCTG
58243372 TTCTCTATCTCTCTTTTCTG
1 TTCTCTATCTCTCTTTTCTG
58243392 CCTTTGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 8 0.44
21 3 0.17
ACGTcount: A:0.05, C:0.28, G:0.08, T:0.59
Consensus pattern (20 bp):
TTCTCTATCTCTCTTTTCTG
Found at i:58244126 original size:30 final size:30
Alignment explanation
Indices: 58244091--58244186 Score: 138
Period size: 30 Copynumber: 3.2 Consensus size: 30
58244081 GCCTTTGCCG
*
58244091 CCACCAACTCCACTAGCCACAATTGCTCCA
1 CCACCAACTCCACTAGCCACACTTGCTCCA
* *
58244121 CCACCAACTCCACTAGCTACACTTACTCCA
1 CCACCAACTCCACTAGCCACACTTGCTCCA
* * *
58244151 CTACCTACTCCACTAGTCACACTTGCTCCA
1 CCACCAACTCCACTAGCCACACTTGCTCCA
58244181 CCACCA
1 CCACCA
58244187 CTTGTACCTA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.28, C:0.47, G:0.05, T:0.20
Consensus pattern (30 bp):
CCACCAACTCCACTAGCCACACTTGCTCCA
Found at i:58248011 original size:35 final size:34
Alignment explanation
Indices: 58247961--58248031 Score: 124
Period size: 35 Copynumber: 2.1 Consensus size: 34
58247951 CCATACCGAA
58247961 GGAAATGTGAGCACAGTAGGGAAAAAAGATGAAT
1 GGAAATGTGAGCACAGTAGGGAAAAAAGATGAAT
*
58247995 GGAANATGTGAGCACAGTAGGGAAAGAAGATGAAT
1 GGAA-ATGTGAGCACAGTAGGGAAAAAAGATGAAT
58248030 GG
1 GG
58248032 CAAGTTAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.44, C:0.06, G:0.35, T:0.14
Consensus pattern (34 bp):
GGAAATGTGAGCACAGTAGGGAAAAAAGATGAAT
Found at i:58254772 original size:73 final size:73
Alignment explanation
Indices: 58254647--58254812 Score: 242
Period size: 73 Copynumber: 2.2 Consensus size: 73
58254637 TTCCGTTTTC
*
58254647 TCAATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TCAATTTATGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGC
*
58254712 TGAGGTAATT
64 CGAGGTAATT
* *
58254722 TCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCG
1 TCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCCG
*
58254787 AGGTATTT
66 AGGTAATT
* * *
58254795 TTAATTTCTGTTTTTCAA
1 TCAATTTATGCTTTTCAA
58254813 TTTCTGCTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
73 67 0.81
75 16 0.19
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (73 bp):
TCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCCG
AGGTAATT
Found at i:58254814 original size:14 final size:13
Alignment explanation
Indices: 58254792--58254836 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
58254782 CGCCGAGGTA
58254792 TTTTTAATTTCTG
1 TTTTTAATTTCTG
58254805 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
* *
58254819 CTTTTAATTTCTA
1 TTTTTAATTTCTG
58254832 TTTTT
1 TTTTT
58254837 TTAAAAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:58254827 original size:13 final size:13
Alignment explanation
Indices: 58254793--58254830 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
58254783 GCCGAGGTAT
*
58254793 TTTTAATTTCTGT
1 TTTTAATTTCTGC
58254806 TTTTCAATTTCTGC
1 TTTT-AATTTCTGC
58254820 TTTTAATTTCT
1 TTTTAATTTCT
58254831 ATTTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.16, C:0.13, G:0.05, T:0.66
Consensus pattern (13 bp):
TTTTAATTTCTGC
Found at i:58254865 original size:101 final size:100
Alignment explanation
Indices: 58254733--58255009 Score: 380
Period size: 101 Copynumber: 2.8 Consensus size: 100
58254723 CAATTTATGC
* * * * *
58254733 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTTTTA
1 TTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
** * *
58254798 ATTTCTGTTTTTCAATTTCTG-CTTTTAATTTCTATT
66 ATTTCTGTTTTTCAATTTCTGCCTTACAAATTC--TG
*
58254834 TTTTTAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
1 TTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
*
58254899 ATTTCTGTTTTTCAATTTTTGCCTTACAAATTCTG
66 ATTTCTGTTTTTCAATTTCTGCCTTACAAATTCTG
* * *
58254934 CTTTT-CAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
1 TTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
58254998 ATTT-TCGTTTTT
66 ATTTCT-GTTTTT
58255010 TTAATTTATG
Statistics
Matches: 159, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
98 1 0.01
99 66 0.42
100 5 0.03
101 79 0.50
102 8 0.05
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (100 bp):
TTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
ATTTCTGTTTTTCAATTTCTGCCTTACAAATTCTG
Found at i:58255188 original size:77 final size:75
Alignment explanation
Indices: 58255022--58256109 Score: 396
Period size: 71 Copynumber: 13.8 Consensus size: 75
58255012 AATTTATGTT
* * * * *
58255022 TCAAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAAGATGCTGAGGTAATTTC-AAT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTGAGGTATTTTCAAAT
*
58255086 T-T-TTGTTTG
66 TCTATT-TTTA
* * *
58255095 TC--AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGTTGAGATATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACGCTGAGGTATTTTCAA
58255158 ATTCTATTTTTA
64 ATTCTATTTTTA
* *
58255170 TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--AACACGCTGAGGTATTTTCAA
* **
58255235 TTTCTGCTTTT-
64 ATTCTATTTTTA
* * * * * *
58255246 T-AAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCCATT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTGAGGTATTTTCAAAT
*
58255310 TCTATTTTAA
66 TCTATTTTTA
* * * **
58255320 TTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACG-TCGAAGTCCTT
1 -TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C-C--TCAACACGCT-GAGGTATTT
*
58255383 TCAAATTCTGTTTTTAA
60 TCAAATTCTATTTTT-A
******* * * * * * * * ** * * * *** * * * * **
58255400 TTTCTTTTTTTTTAATTTATGTGTTTCAAAAAAATCAGCTCATATTGCGAGA-GGTGAGTTGAAC
1 --TCAAAAAAATCAACTCA--TATTGC-GAGAGGTGAGTTGAGCCT-CAACACGCTGAGGT-ATT
* **
58255464 CTCAAGACGCTGAGGTGTTTTCCA
59 TTCAA-ATTCT-A--T-TTTT--A
* **
58255488 TTTCTATTTTAATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACATTG
1 --TC-A----AA---AA--AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA--CACGCTG
*
58255553 AGGTATTTTC-AATT-TA---TCA
52 AGGTATTTTCAAATTCTATTTTTA
* * * *
58255572 TC-AAAAAATCAACTCATGTTGCAAGAGGTGAGTTGAGCCTCAAGACCCGTTGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-A-ACACGCTGAGGTATTTTCAA
* *
58255636 TTTCTGCTCAATTTATGTT
64 -AT-T-CT--ATTT-T-TA
*** * * *
58255655 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-ACATGCTGAGGTGTTTTCAATT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTGAGGTATTTTCAAAT
*
58255719 TCT-GTTTT-
66 TCTATTTTTA
*
58255727 TC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTTACACGCTGAGGTATTTTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--C-AACACGCTGAGGTA-TTTT
* * *
58255791 C-AATT-TCTGTTTG
61 CAAATTCTATTTTTA
* * * *
58255804 TCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTCC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC----AACACGCTGAGGTATTTTC
* *
58255869 AACTTCT-GTTTT-
62 AAATTCTATTTTTA
* *
58255881 TCAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAGTTTT--
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACGCTGAGGTA-TTTTCA
* * *
58255944 AATT-TCTGTTCA
63 AATTCTATTTTTA
* **
58255956 TC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGGCACGCTGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--AACACGCTGAGGTATTTTC--
* *
58256020 TTAATGATTTTTCAATTTATGTTTT
62 --AA--A---TTC----TATTTTTA
* **
58256045 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGGCACGCTGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--AACACGCTGAGGTATTTTCAA
58256110 TTAATGATTT
Statistics
Matches: 762, Mismatches: 155, Indels: 183
0.69 0.14 0.17
Matches are distributed among these distances:
71 119 0.16
72 4 0.01
73 50 0.07
74 60 0.08
75 94 0.12
76 27 0.04
77 115 0.15
78 59 0.08
79 25 0.03
80 3 0.00
81 24 0.03
82 16 0.02
83 4 0.01
84 43 0.06
85 7 0.01
86 4 0.01
87 4 0.01
88 5 0.01
89 7 0.01
90 60 0.08
92 1 0.00
93 1 0.00
94 3 0.00
95 9 0.01
96 8 0.01
97 5 0.01
98 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (75 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTGAGGTATTTTCAAAT
TCTATTTTTA
Found at i:58255327 original size:150 final size:149
Alignment explanation
Indices: 58255022--58255364 Score: 442
Period size: 150 Copynumber: 2.3 Consensus size: 149
58255012 AATTTATGTT
* * * * *
58255022 TCAAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTC--AAGATGCTGAGGTAATTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
* * * * *
58255085 TTTTTGTTTGTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGTTGAGAT
66 TTTCTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA-GACACGCTGAGAT
*
58255150 ATTTTCAAATTCTATTTTTA
130 ATTTTCAAATTCTATTTTAA
* *
58255170 TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
* * *
58255235 TTTCTGCTTTTTAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA-AGACGCTGAGG
66 TTTCTG-TTTGTAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGACACGCTGAGA
* * *
58255299 TGTTTTCCATTTCTATTTTAA
129 TATTTTCAAATTCTATTTTAA
*
58255320 TTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGG
1 -TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
58255365 CCACACGTCG
Statistics
Matches: 169, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
148 39 0.23
150 87 0.51
151 9 0.05
152 34 0.20
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (149 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
TTTCTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGACACGCTGAGATA
TTTTCAAATTCTATTTTAA
Found at i:58255331 original size:75 final size:73
Alignment explanation
Indices: 58255020--58255357 Score: 387
Period size: 75 Copynumber: 4.5 Consensus size: 73
58255010 TTAATTTATG
* * * * *
58255020 TTTCAAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAAGATGCTGAGGTAATTTCAA
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTGAGGTATTTTCAA
58255085 TTT-T-TGTT
65 TTTCTAT-TT
* * * *
58255093 TGTC-AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGTTGAGATATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACGCTGAGGTATTTTCA
*
58255157 AATTCTATTT
64 ATTTCTATTT
* *
58255167 TTATCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTT
1 TT-TC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--AACACGCTGAGGTATTTT
**
58255232 CAATTTCTGCTT
62 CAATTTCTATTT
* * * *
58255244 TTT-AAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCCA
1 TTTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTGAGGTATTTTCAA
58255308 TTTCTATTT
65 TTTCTATTT
58255317 TAATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 T--TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
58255358 TCTCGGGCCA
Statistics
Matches: 224, Mismatches: 28, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
71 36 0.16
73 45 0.20
74 8 0.04
75 68 0.30
76 5 0.02
77 62 0.28
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (73 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTGAGGTATTTTCAAT
TTCTATTT
Found at i:58255731 original size:155 final size:146
Alignment explanation
Indices: 58255643--58255992 Score: 449
Period size: 155 Copynumber: 2.4 Consensus size: 146
58255633 CAATTTCTGC
* *
58255643 TCAATTTATGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCTGA
1 TCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCTGA
*
58255706 GGTGTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
66 GGTGTTTTCAA-TTCTGTTTTTCAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCC-T--C
** * *
58255771 -TTACACGCTGAGGTATTTT
127 AAGACACGTTGAGGTAGTTT
* *
58255790 TCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACAC
1 TCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C-C---TCACAT
*
58255855 GCTGAGGTGTTTCCAACTTCTGTTTTTCAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGC
61 GCTGAGGTGTTTTCAA-TTCTGTTTTTC-AAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGC
*
58255920 CTCAGGACACGTTGAGGTAGTTT
124 CTCAAGACACGTTGAGGTAGTTT
**
58255943 T-AATTTCTGTTCATC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
58255993 TCTCGGGGCA
Statistics
Matches: 180, Mismatches: 14, Indels: 14
0.87 0.07 0.07
Matches are distributed among these distances:
147 14 0.08
149 33 0.18
150 1 0.01
151 35 0.19
152 13 0.07
153 16 0.09
154 32 0.18
155 36 0.20
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (146 bp):
TCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCTGA
GGTGTTTTCAATTCTGTTTTTCAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAAGA
CACGTTGAGGTAGTTT
Found at i:58255832 original size:78 final size:74
Alignment explanation
Indices: 58255643--58256021 Score: 493
Period size: 77 Copynumber: 5.1 Consensus size: 74
58255633 CAATTTCTGC
* *
58255643 TCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--ACATGCTG
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTG
58255705 AGGT-GTTT
66 AGGTAGTTT
*
58255713 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTTACACG
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACG
*
58255778 CTGAGGTATTTT
63 CTGAGGTAGTTT
* *
58255790 TCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACAC
1 TCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG--ACAC
58255855 GCTGAGGT-GTTT
62 GCTGAGGTAGTTT
* * * *
58255867 CCAACTTCTGTTTTTCAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAGGACACGT
1 TCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGC
58255932 TGAGGTAGTTT
64 TGAGGTAGTTT
** * *
58255943 T-AATTTCTGTTCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGGCACGCT
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCT
58256007 GAGGTA-TTT
65 GAGGTAGTTT
58256016 TCAATT
1 TCAATT
58256022 AATGATTTTT
Statistics
Matches: 273, Mismatches: 25, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
70 15 0.05
71 37 0.14
73 4 0.01
74 54 0.20
75 22 0.08
76 15 0.05
77 74 0.27
78 50 0.18
79 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (74 bp):
TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTG
AGGTAGTTT
Found at i:58256044 original size:14 final size:15
Alignment explanation
Indices: 58256013--58256048 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
58256003 CGCTGAGGTA
58256013 TTTTCAATTAATGAT
1 TTTTCAATTAATGAT
*
58256028 TTTTCAATTTATG-T
1 TTTTCAATTAATGAT
58256042 TTTTCAA
1 TTTTCAA
58256049 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTTCAATTAATGAT
Found at i:58256096 original size:90 final size:88
Alignment explanation
Indices: 58255959--58256344 Score: 405
Period size: 90 Copynumber: 4.4 Consensus size: 88
58255949 CTGTTCATCA
*
58255959 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGGCACGCTGAGGTATTTTCAATTAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGTCTCGGGGCACGCTGAGGTATTTTCAATTAA
58256024 TGATTTTTCAATTTATGTTTTTC
66 TGATTTTTCAATTTATGTTTTTC
*
58256047 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGGCACGCTGAGGTATTTTCAATT
1 --AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGTCTCGGGGCACGCTGAGGTATTTTCAATT
58256112 AATGATTTTTCAATTTATGTTTTTC
64 AATGATTTTTCAATTTATGTTTTTC
* * * * * **
58256137 AAGAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGGGTCACATATCGAGGTATTTTCAA--
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGTCTCGGGGCAC-GCT-GAGGTATTTTCAATT
58256200 AAT-ATGTTTTACAAATTT-TG-TTTT-
64 AATGAT-TTTT-C-AATTTATGTTTTTC
* * * *** *
58256224 AAAAATCAACTCATTTTGCGAGAAGTGAGTTGAGCCTTGACTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGTCTCGGGGCAC--GCTGAGGTATTTTCAATT
** * *
58256289 TCT-A-TTTT-AATGTCTGTTTTT-
64 AATGATTTTTCAATTTATGTTTTTC
* * *
58256310 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAG
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTTGAG
58256345 CTCACGATCA
Statistics
Matches: 259, Mismatches: 26, Indels: 25
0.84 0.08 0.08
Matches are distributed among these distances:
84 4 0.02
85 2 0.01
86 7 0.03
87 83 0.32
88 51 0.20
89 6 0.02
90 106 0.41
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGTCTCGGGGCACGCTGAGGTATTTTCAATTAA
TGATTTTTCAATTTATGTTTTTC
Found at i:58256134 original size:14 final size:15
Alignment explanation
Indices: 58256103--58256138 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
58256093 CGCTGAGGTA
58256103 TTTTCAATTAATGAT
1 TTTTCAATTAATGAT
*
58256118 TTTTCAATTTATG-T
1 TTTTCAATTAATGAT
58256132 TTTTCAA
1 TTTTCAA
58256139 GAATCAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTTCAATTAATGAT
Found at i:58259872 original size:66 final size:66
Alignment explanation
Indices: 58259760--58259897 Score: 179
Period size: 66 Copynumber: 2.1 Consensus size: 66
58259750 GCAACTTGCT
** * * *
58259760 CAACTTAAAGCGAAGGCAGCATTGAGAGAAGCAGAGGCTCAAAGAAAATATGAAGAACTCCAGTT
1 CAACTTAAAGCGAAGGCAGCAGCGAGAGAAACAGAGGCTAAAAGAAAATATGAAGAACTCCAGCT
58259825 A
66 A
* * * *
58259826 CAACTTAAAGCGGAGGCAGCAGCGAGGGAAACAGAGGC-AAACAGAAAATATGACGAACTCTAGC
1 CAACTTAAAGCGAAGGCAGCAGCGAGAGAAACAGAGGCTAAA-AGAAAATATGAAGAACTCCAGC
58259890 TA
65 TA
58259892 CAACTT
1 CAACTT
58259898 CAGAATATGA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 2 0.03
66 60 0.97
ACGTcount: A:0.43, C:0.19, G:0.25, T:0.14
Consensus pattern (66 bp):
CAACTTAAAGCGAAGGCAGCAGCGAGAGAAACAGAGGCTAAAAGAAAATATGAAGAACTCCAGCT
A
Found at i:58260292 original size:43 final size:43
Alignment explanation
Indices: 58260239--58260343 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 43
58260229 AAAAGCACCA
* * * *
58260239 CTAAAGGTCATGTTCTATAGTGGCGTTTGTGGTAAAAGTGCCG
1 CTAAAGGTCATGTTCTATAGCGACGCTTGTGATAAAAGTGCCG
* *
58260282 CTAAAAGTCATGTTCTTTAGCGACGCTTGTGATAAAAGTGCCG
1 CTAAAGGTCATGTTCTATAGCGACGCTTGTGATAAAAGTGCCG
* *
58260325 CGAAAGGTTATGTTCTATA
1 CTAAAGGTCATGTTCTATA
58260344 ACGTTTGTGG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
CTAAAGGTCATGTTCTATAGCGACGCTTGTGATAAAAGTGCCG
Found at i:58266461 original size:36 final size:35
Alignment explanation
Indices: 58266398--58266470 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 35
58266388 ATACGTGTTG
* *
58266398 TTATTATTATTAATTTCAAACTTTACATTTTATTAT
1 TTATTATTATTAATTTCAAACTATACATATTA-TAT
* *
58266434 TTATTATATATTATTTTTAAAC-ATACATATTATAT
1 TTATTAT-TATTAATTTCAAACTATACATATTATAT
58266469 TT
1 TT
58266471 TAAATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 5 0.16
36 15 0.47
37 12 0.38
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (35 bp):
TTATTATTATTAATTTCAAACTATACATATTATAT
Found at i:58272123 original size:3 final size:3
Alignment explanation
Indices: 58272115--58272142 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
58272105 GGAACTTGTA
58272115 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
58272143 GTATGGCCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:58276275 original size:56 final size:56
Alignment explanation
Indices: 58276213--58276347 Score: 162
Period size: 56 Copynumber: 2.4 Consensus size: 56
58276203 ATGTTCGTGC
* * * * **
58276213 CCGTGTGGGTATACTAACTTGTGACACACGACCAAGCCATACGCCCGTGTGCTAGG
1 CCGTGTGAGTATACTGACTTGTGACACACGACCAAGCCATAAGCCCATGTGCTAAA
* * * * *
58276269 CCGTGTGAGTATACTGACTTGGGTCACATGGCCAAGCCATAAGCCTATGTGCTAAA
1 CCGTGTGAGTATACTGACTTGTGACACACGACCAAGCCATAAGCCCATGTGCTAAA
*
58276325 CCGTGTGAGCATACTGACTTGTG
1 CCGTGTGAGTATACTGACTTGTG
58276348 CTCTTTAAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 66 1.00
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (56 bp):
CCGTGTGAGTATACTGACTTGTGACACACGACCAAGCCATAAGCCCATGTGCTAAA
Found at i:58277475 original size:25 final size:25
Alignment explanation
Indices: 58277429--58277514 Score: 88
Period size: 25 Copynumber: 3.5 Consensus size: 25
58277419 TACATGTATA
*
58277429 CTCATACGAGCT-ACA-ACCGGTAAG
1 CTCATACGAGCTGA-ATAACGGTAAG
*
58277453 CTCCT-CTGAGCTGAATAACGGTAAG
1 CTCATAC-GAGCTGAATAACGGTAAG
* *
58277478 CTCATACGAGCTGAGTATCGGTAAG
1 CTCATACGAGCTGAATAACGGTAAG
*
58277503 CTCATAAGAGCT
1 CTCATACGAGCT
58277515 AAAATCGGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.02
24 10 0.19
25 40 0.77
26 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (25 bp):
CTCATACGAGCTGAATAACGGTAAG
Found at i:58279229 original size:25 final size:25
Alignment explanation
Indices: 58279191--58279263 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
58279181 AGCTTTCTGA
* *
58279191 TATACAACTTACATGAGCTTCCCGT
1 TATATAACTCACATGAGCTTCCCGT
* *
58279216 TATTTAGCTCACATGAGCTTCCCGT
1 TATATAACTCACATGAGCTTCCCGT
* *
58279241 TATATAACTCAGAAGAGCTTCCC
1 TATATAACTCACATGAGCTTCCC
58279264 ATTTACATGC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (25 bp):
TATATAACTCACATGAGCTTCCCGT
Found at i:58280424 original size:56 final size:56
Alignment explanation
Indices: 58280334--58280465 Score: 158
Period size: 56 Copynumber: 2.4 Consensus size: 56
58280324 GCTCAAATTG
* * * ** * *
58280334 CTCACATGGCCTAGCATACGGGTGTGTGGTTTGGCCGTGTGACCTAAGTCAGTATA
1 CTCACACGGCCTAGCACACGAGCATGTGGCTTGGCCGTGTGACCCAAGTCAGTATA
*
58280390 CTCACACGGCCTAGCACACGAGCATGTGGCTTGGCCGTGTGTCCCAAGTCAGTATA
1 CTCACACGGCCTAGCACACGAGCATGTGGCTTGGCCGTGTGACCCAAGTCAGTATA
* *
58280446 TTCACACAGGCATAG-ACACG
1 CTCACAC-GGCCTAGCACACG
58280466 GGCTGGGACA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
56 59 0.91
57 6 0.09
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (56 bp):
CTCACACGGCCTAGCACACGAGCATGTGGCTTGGCCGTGTGACCCAAGTCAGTATA
Found at i:58282288 original size:86 final size:86
Alignment explanation
Indices: 58282180--58282578 Score: 480
Period size: 86 Copynumber: 4.6 Consensus size: 86
58282170 TTCTTTAGTA
* * ** *
58282180 TTTTTTAGTTTTCCTAGCATATTTGTTTAGCATTTGAAG-AATTTTTTTTTATTCGTATAATTTT
1 TTTTTTAGTATTCGTAAAATATTTGTTTAGCATATGAAGAAATTTTTTTTTATTCGTATAATTTT
58282244 TGTTTAGCAGTTGATGAAATT
66 TGTTTAGCAGTTGATGAAATT
* * *
58282265 TTTTTTCAGTATTCGTAAAATATTTGTTTAGCATATAAAGAAA-TATTTTTTATTCTTAT-ATCT
1 TTTTTT-AGTATTCGTAAAATATTTGTTTAGCATATGAAGAAATTTTTTTTTATTCGTATAAT-T
*
58282328 TTTGTTTAGCAGTTGATGAAAAT
64 TTTGTTTAGCAGTTGATGAAATT
* *
58282351 TTTTTTAGTATTCTTAAAATATTTGTTTAGCATATGAAGAAATATTTTTTTATTCGTATAATTTT
1 TTTTTTAGTATTCGTAAAATATTTGTTTAGCATATGAAGAAATTTTTTTTTATTCGTATAATTTT
* **
58282416 TGTTTAGCAGCTGATGATTTT
66 TGTTTAGCAGTTGATGAAATT
*
58282437 TTTTTTAGTATTTGTAAAATATTTGTTTAGCATATGAAGAAATATTTTGTTTCTATTCGTATAAT
1 TTTTTTAGTATTCGTAAAATATTTGTTTAGCATATGAAGAAAT-TTTT-TTT-TATTCGTATAAT
* * ** *
58282502 ATATGTTTATTAGTCGATGAAATAT
63 TTTTGTTTAGCAGTTGATGAAAT-T
* * * * * *
58282527 TGTTTTAGTATTTGTATAATATTTGTCTAGCATCTTAAGAAATATTTTTTTT
1 TTTTTTAGTATTCGTAAAATATTTGTTTAGCATATGAAGAAAT-TTTTTTTT
58282579 GTACTTGTAA
Statistics
Matches: 271, Mismatches: 34, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
85 42 0.15
86 144 0.53
87 7 0.03
88 4 0.01
89 30 0.11
90 44 0.16
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.53
Consensus pattern (86 bp):
TTTTTTAGTATTCGTAAAATATTTGTTTAGCATATGAAGAAATTTTTTTTTATTCGTATAATTTT
TGTTTAGCAGTTGATGAAATT
Found at i:58282291 original size:45 final size:42
Alignment explanation
Indices: 58282198--58282600 Score: 289
Period size: 45 Copynumber: 9.3 Consensus size: 42
58282188 TTTTCCTAGC
*
58282198 ATATTTGTTTAGCATTTGAAG-AATTTTTTTT-TATTCGTATA
1 ATATTTGTTTAGCA-TTGAAGAAATTTTTTTTGTATTCGTAAA
* *
58282239 ATTTTTGTTTAGCAGTTGATGAAATTTTTTTTCAGTATTCGTAAA
1 ATATTTGTTTAGCA-TTGAAGAAATTTTTTTT--GTATTCGTAAA
* * * *
58282284 ATATTTGTTTAGCATATAAAGAAA-TATTTTT-TATTC-TTAT
1 ATATTTGTTTAGCAT-TGAAGAAATTTTTTTTGTATTCGTAAA
* * * *
58282324 ATCTTTTGTTTAGCAGTTGATGAAAATTTTTTTAGTATTCTTAAA
1 AT-ATTTGTTTAGCA-TTGAAG-AAATTTTTTTTGTATTCGTAAA
* *
58282369 ATATTTGTTTAGCATATGAAGAAATATTTTTT-TATTCGTATA
1 ATATTTGTTTAGCAT-TGAAGAAATTTTTTTTGTATTCGTAAA
* * * ** *
58282411 ATTTTTGTTTAGCAGCTGATGATTTTTTTTTTAGTATTTGTAAA
1 ATATTTGTTTAGCA-TTGAAGAAATTTTTTTT-GTATTCGTAAA
* *
58282455 ATATTTGTTTAGCATATGAAGAAATATTTTGTTTCTATTCGTATA
1 ATATTTGTTTAGCAT-TGAAGAAAT-TTTT-TTTGTATTCGTAAA
* ** * * * * *
58282500 ATATATGTTTATTAGTCGATGAAATATTGTTTTAGTATTTGTATA
1 ATATTTGTTTAGCA-TTGAAGAAAT-TT-TTTTTGTATTCGTAAA
* *
58282545 ATATTTGTCTAGCATCTTAAGAAATATTTTTTTTGTACTT-GTAAA
1 ATATTTGTTTAGCAT-TGAAG-AA-ATTTTTTTTGTA-TTCGTAAA
58282590 ATATTTGTTTA
1 ATATTTGTTTA
58282601 CCATCTTAAG
Statistics
Matches: 281, Mismatches: 57, Indels: 44
0.74 0.15 0.12
Matches are distributed among these distances:
40 4 0.01
41 37 0.13
42 47 0.17
43 15 0.05
44 55 0.20
45 109 0.39
46 12 0.04
47 2 0.01
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (42 bp):
ATATTTGTTTAGCATTGAAGAAATTTTTTTTGTATTCGTAAA
Found at i:58282463 original size:171 final size:176
Alignment explanation
Indices: 58282180--58282577 Score: 515
Period size: 171 Copynumber: 2.3 Consensus size: 176
58282170 TTCTTTAGTA
* * ** * *
58282180 TTTTTTAGTTTTCCTAGCATATTTGTTTAGCATTTGAAG-AATTTTTTTTTATTCGTATAATTTT
1 TTTTTTAGTATTCTTAAAATATTTGTTTAGCATATGAAGAAATATTTTTTTATTCGTATAATTTT
*
58282244 TGTTTAGCAGTTGATGAAATTTTTTTTCAGTATTCGTAAAATATTTGTTTAGCATATAAAGAAAT
66 TGTTTAGCAGCTGATGAAATTTTTTTTCAGTATTCGTAAAATATTTGTTTAGCATATAAAGAAAT
* * * *
58282309 A-TT-TTT-TATTCTTAT-ATCTTTTGTTTAGCAGTTGATGAAA-AT
131 ATTTGTTTCTATTCGTATAAT-ATATGTTTAGCAGTCGATGAAATAT
58282351 TTTTTTAGTATTCTTAAAATATTTGTTTAGCATATGAAGAAATATTTTTTTATTCGTATAATTTT
1 TTTTTTAGTATTCTTAAAATATTTGTTTAGCATATGAAGAAATATTTTTTTATTCGTATAATTTT
* * * *
58282416 TGTTTAGCAGCTGATG-ATTTTTTTTTTAGTATTTGTAAAATATTTGTTTAGCATATGAAGAAAT
66 TGTTTAGCAGCTGATGAAATTTTTTTTCAGTATTCGTAAAATATTTGTTTAGCATATAAAGAAAT
**
58282480 ATTTTGTTTCTATTCGTATAATATATGTTTATTAGTCGATGAAATAT
131 A-TTTGTTTCTATTCGTATAATATATGTTTAGCAGTCGATGAAATAT
* * * * *
58282527 TGTTTTAGTATT-TGTATAATATTTGTCTAGCATCTTAAGAAATATTTTTTT
1 TTTTTTAGTATTCT-TAAAATATTTGTTTAGCATATGAAGAAATATTTTTTT
58282578 TGTACTTGTA
Statistics
Matches: 197, Mismatches: 22, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
171 79 0.40
172 39 0.20
173 2 0.01
174 3 0.02
175 26 0.13
176 48 0.24
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.53
Consensus pattern (176 bp):
TTTTTTAGTATTCTTAAAATATTTGTTTAGCATATGAAGAAATATTTTTTTATTCGTATAATTTT
TGTTTAGCAGCTGATGAAATTTTTTTTCAGTATTCGTAAAATATTTGTTTAGCATATAAAGAAAT
ATTTGTTTCTATTCGTATAATATATGTTTAGCAGTCGATGAAATAT
Found at i:58282465 original size:22 final size:22
Alignment explanation
Indices: 58282440--58282600 Score: 85
Period size: 22 Copynumber: 7.2 Consensus size: 22
58282430 TGATTTTTTT
58282440 TTTAGTATTTGTAAAATATTTG
1 TTTAGTATTTGTAAAATATTTG
* * *
58282462 TTTAGCATATGAAGAAATATTTTG
1 TTTAGTATTTGTA-AAATA-TTTG
* * * *
58282486 TTT-CTATTCGTATAATATATG
1 TTTAGTATTTGTAAAATATTTG
* * * *
58282507 TTTATTAGTCGATGAAATA-TTG
1 TTTAGTATTTG-TAAAATATTTG
*
58282529 TTTTAGTATTTGTATAATATTTG
1 -TTTAGTATTTGTAAAATATTTG
* * * *
58282552 TCTAGCATCTT-AAGAAATATTTT
1 TTTAGTAT-TTGTA-AAATATTTG
* *
58282575 TTTTGTACTTGTAAAATATTTG
1 TTTAGTATTTGTAAAATATTTG
58282597 TTTA
1 TTTA
58282601 CCATCTTAAG
Statistics
Matches: 98, Mismatches: 32, Indels: 18
0.66 0.22 0.12
Matches are distributed among these distances:
21 6 0.06
22 46 0.47
23 39 0.40
24 7 0.07
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (22 bp):
TTTAGTATTTGTAAAATATTTG
Found at i:58282606 original size:45 final size:45
Alignment explanation
Indices: 58282368--58282730 Score: 208
Period size: 45 Copynumber: 8.4 Consensus size: 45
58282358 GTATTCTTAA
* * *
58282368 AATATTTGTTTAGCATATGAAGAAATA--TTTTTT-TA-TTCGTAT
1 AATATTTGTTTACCATCTTAAGAAATATTTTTTTTGTACTT-GTAT
* * * * * * * *
58282410 AATTTTTGTTTAGCAGCTGATG--ATTTTTTTTTTAGTATTTGTAA
1 AATATTTGTTTACCATCTTAAGAAATATTTTTTTT-GTACTTGTAT
* * * * *
58282454 AATATTTGTTTAGCATATGAAGAAATATTTTGTTTCTA-TTCGTAT
1 AATATTTGTTTACCATCTTAAGAAATATTTTTTTTGTACTT-GTAT
* ** * * * * *
58282499 AATATATGTTTATTAGTC-GATGAAATATTGTTTTAGTATTTGTAT
1 AATATTTGTTTACCA-TCTTAAGAAATATTTTTTTTGTACTTGTAT
* * *
58282544 AATATTTGTCTAGCATCTTAAGAAATATTTTTTTTGTACTTGTAA
1 AATATTTGTTTACCATCTTAAGAAATATTTTTTTTGTACTTGTAT
* *
58282589 AATATTTGTTTACCATCTTAAG-GAT-TATTTTTTG-ACTTGTAT
1 AATATTTGTTTACCATCTTAAGAAATATTTTTTTTGTACTTGTAT
* *
58282631 -A-A-TTGTTTACCATCTTAAG-GAT-TATTTTTTG-ACTTGTAT
1 AATATTTGTTTACCATCTTAAGAAATATTTTTTTTGTACTTGTAT
* * * * *
58282670 AATATTTATTTATCATGTTAAGGAATA-TTTATTT-TA-TTCGTAT
1 AATATTTGTTTACCATCTTAAGAAATATTTTTTTTGTACTT-GTAT
*
58282713 AATATTTGCTTACCATCT
1 AATATTTGTTTACCATCT
58282731 CAGCATAGGG
Statistics
Matches: 255, Mismatches: 48, Indels: 35
0.75 0.14 0.10
Matches are distributed among these distances:
39 37 0.15
40 4 0.02
41 2 0.01
42 47 0.18
43 34 0.13
44 29 0.11
45 90 0.35
46 12 0.05
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.51
Consensus pattern (45 bp):
AATATTTGTTTACCATCTTAAGAAATATTTTTTTTGTACTTGTAT
Found at i:58282644 original size:39 final size:39
Alignment explanation
Indices: 58282594--58282672 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
58282584 TGTAAAATAT
58282594 TTGTTTACCATCTTAAGGATTATTTTTTGACTTGTATAA
1 TTGTTTACCATCTTAAGGATTATTTTTTGACTTGTATAA
58282633 TTGTTTACCATCTTAAGGATTATTTTTTGACTTGTATAA
1 TTGTTTACCATCTTAAGGATTATTTTTTGACTTGTATAA
58282672 T
1 T
58282673 ATTTATTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.10, G:0.13, T:0.52
Consensus pattern (39 bp):
TTGTTTACCATCTTAAGGATTATTTTTTGACTTGTATAA
Found at i:58283375 original size:75 final size:78
Alignment explanation
Indices: 58283296--58283447 Score: 213
Period size: 78 Copynumber: 2.0 Consensus size: 78
58283286 TTGGGTTTTG
58283296 CTCAAAATATCTT-TT-TT-TGTTTAT-TTCCCCCAATTTTTTTCTTTCTAAACTATACAATTTT
1 CTCAAAATATCTTCTTCTTCT-TTTATGTTCCCCCAATTTTTTTCTTTCTAAACTATACAATTTT
*
58283357 TTAAATAAAAAATA
65 TGAAATAAAAAATA
* * * **
58283371 CTCAAAATATCTTCTTCTTCTTTTTTGTTTCCTCTTTTTTTTTCTTTCTAAACTATACAATTTTT
1 CTCAAAATATCTTCTTCTTCTTTTATGTTCCCCCAATTTTTTTCTTTCTAAACTATACAATTTTT
58283436 GAAATAAAAAAT
66 GAAATAAAAAAT
58283448 TAACCACACA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
75 13 0.19
76 2 0.03
77 6 0.09
78 46 0.69
ACGTcount: A:0.30, C:0.16, G:0.02, T:0.51
Consensus pattern (78 bp):
CTCAAAATATCTTCTTCTTCTTTTATGTTCCCCCAATTTTTTTCTTTCTAAACTATACAATTTTT
GAAATAAAAAATA
Found at i:58284744 original size:28 final size:28
Alignment explanation
Indices: 58284704--58284763 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
58284694 ATAAATGATA
* *
58284704 AATTGATACTCAAAATGAGCCACTTGTG
1 AATTGATACTCAAAATAAGCCACCTGTG
* *
58284732 AATTGATGCTCAAAGTAAGCCACCTGTG
1 AATTGATACTCAAAATAAGCCACCTGTG
58284760 AATT
1 AATT
58284764 ATGTTGAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (28 bp):
AATTGATACTCAAAATAAGCCACCTGTG
Found at i:58296662 original size:42 final size:43
Alignment explanation
Indices: 58296510--58296706 Score: 211
Period size: 43 Copynumber: 4.6 Consensus size: 43
58296500 CAATGTCATA
* * * * *
58296510 TCCCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCACTG
1 TCCCAGACATGGTCTTACATGTAATCTCAATA-CAATGCCAATG
* * * * * *
58296553 TCCCAGACAGGGTCTTACACGAAATC-GATTAACGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCTCAAT-ACAATGCCAATG
* *
58296596 TCCCAGACATGGTCTTACACGTAATCTCAGTACAATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCTCAATACAATGCCAATG
*
58296639 -CCCAGACATGGTCTGACATGTAATCTCAATACAATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCTCAATACAATGCCAATG
**
58296681 TCCCAGACATTTTCTTACATGTAATC
1 TCCCAGACATGGTCTTACATGTAATC
58296707 ACATCTCGAT
Statistics
Matches: 131, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
42 39 0.30
43 89 0.68
44 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATCTCAATACAATGCCAATG
Found at i:58298834 original size:19 final size:19
Alignment explanation
Indices: 58298810--58298855 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
58298800 ATAATAAATT
*
58298810 AAATATTAACTG-CTTAATA
1 AAATATTAACAGACTTAA-A
*
58298829 AAATA-TAACAGATTTAAA
1 AAATATTAACAGACTTAAA
58298847 AAATATTAA
1 AAATATTAA
58298856 ACTAGTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (19 bp):
AAATATTAACAGACTTAAA
Found at i:58298935 original size:5 final size:6
Alignment explanation
Indices: 58298920--58298945 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
58298910 CGTGATGGAG
58298920 GGGGGA GGGGGA GGGGGA GGGGGA GG
1 GGGGGA GGGGGA GGGGGA GGGGGA GG
58298946 NATATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.85, T:0.00
Consensus pattern (6 bp):
GGGGGA
Found at i:58299133 original size:16 final size:18
Alignment explanation
Indices: 58299090--58299140 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 18
58299080 TAAATTTGCG
58299090 AAAATTTATTATATTAATT
1 AAAATTTATT-TATTAATT
*
58299109 AAAAATTATTT-TT-ATT
1 AAAATTTATTTATTAATT
* *
58299125 TAAATTTATTTCTTAA
1 AAAATTTATTTATTAA
58299141 AATATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 12 0.44
17 4 0.15
18 2 0.07
19 9 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
AAAATTTATTTATTAATT
Found at i:58300536 original size:13 final size:13
Alignment explanation
Indices: 58300518--58300558 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
58300508 CCTCTTTACT
58300518 ATATTTAAATTTA
1 ATATTTAAATTTA
58300531 ATATTTAAGATTT-
1 ATATTTAA-ATTTA
*
58300544 ATATTTTAATTTA
1 ATATTTAAATTTA
58300557 AT
1 AT
58300559 TTAATTTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 4 0.16
13 17 0.68
14 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
ATATTTAAATTTA
Found at i:58302909 original size:15 final size:15
Alignment explanation
Indices: 58302889--58302926 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
58302879 TTAATATAAA
58302889 AAGAAAAGGGAGAAG
1 AAGAAAAGGGAGAAG
*
58302904 AAGAAAGGGGAGAAG
1 AAGAAAAGGGAGAAG
58302919 AAGAAAAG
1 AAGAAAAG
58302927 AAAAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (15 bp):
AAGAAAAGGGAGAAG
Found at i:58306119 original size:22 final size:22
Alignment explanation
Indices: 58306080--58306124 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
58306070 TGGCATGTAT
*
58306080 ATATTTGGCTTTAAAATGGTTG
1 ATATTTGGCTTTAAAATGCTTG
*
58306102 ATATCTTGGC-TTATAATGCTTG
1 ATAT-TTGGCTTTAAAATGCTTG
58306124 A
1 A
58306125 ATGATTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (22 bp):
ATATTTGGCTTTAAAATGCTTG
Found at i:58308530 original size:21 final size:20
Alignment explanation
Indices: 58308497--58308537 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
58308487 CTTTGAAATG
58308497 GGGCACACCCCCGTGTGGAA
1 GGGCACACCCCCGTGTGGAA
*
58308517 GGGCAACACGCCCGTGTGGAA
1 GGGC-ACACCCCCGTGTGGAA
58308538 TTAATTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.22, C:0.32, G:0.37, T:0.10
Consensus pattern (20 bp):
GGGCACACCCCCGTGTGGAA
Found at i:58308848 original size:15 final size:13
Alignment explanation
Indices: 58308817--58308849 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
58308807 CGTACAAGGG
58308817 ACACACGGCCGGA
1 ACACACGGCCGGA
58308830 ACACACGGCCGGA
1 ACACACGGCCGGA
*
58308843 CCACACG
1 ACACACG
58308850 CCTATGGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.42, G:0.27, T:0.00
Consensus pattern (13 bp):
ACACACGGCCGGA
Found at i:58309737 original size:44 final size:45
Alignment explanation
Indices: 58309684--58309830 Score: 122
Period size: 46 Copynumber: 3.2 Consensus size: 45
58309674 CTCAGATATG
* * *
58309684 GTCTTACACTGAC-ACCTCTCGTA-GCCGATGCATGTCCCAGACAT
1 GTCTTACACTGACTACATCTCG-AGGCCGAAGCATGTCCCAAACAT
* *
58309728 GTTTTACACTGGCTTACATCTCGAGGCCGAAGCATGTCCCAAACAT
1 GTCTTACACTGAC-TACATCTCGAGGCCGAAGCATGTCCCAAACAT
* * * *
58309774 GTCTTACATTAGCACT-CGTCTCAATGCC-AATGCCATGTCCCAAACAT
1 GTCTTACACT-G-ACTACATCTCGAGGCCGAA-G-CATGTCCCAAACAT
*
58309821 GTCATACACT
1 GTCTTACACT
58309831 AGCACTCGTC
Statistics
Matches: 83, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
44 11 0.13
45 3 0.04
46 44 0.53
47 24 0.29
48 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (45 bp):
GTCTTACACTGACTACATCTCGAGGCCGAAGCATGTCCCAAACAT
Found at i:58319432 original size:18 final size:18
Alignment explanation
Indices: 58319401--58319435 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58319391 TTCAACTTCT
58319401 TTAGTGACTATGGACAAC
1 TTAGTGACTATGGACAAC
* *
58319419 TTAGTTACTCTGGACAA
1 TTAGTGACTATGGACAA
58319436 TATCGCATCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (18 bp):
TTAGTGACTATGGACAAC
Found at i:58327255 original size:5 final size:5
Alignment explanation
Indices: 58327245--58327276 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
58327235 CAATTTATGA
58327245 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
58327277 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:58327270 original size:9 final size:9
Alignment explanation
Indices: 58327246--58327276 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
58327236 AATTTATGAA
58327246 AAATAAAAT
1 AAATAAAAT
58327255 AAAATAAAAT
1 -AAATAAAAT
58327265 AAATAAAAT
1 AAATAAAAT
58327274 AAA
1 AAA
58327277 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Done.