Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 78 of 316
Found at i:23267132 original size:17 final size:17
Alignment explanation
Indices: 23267107--23267143 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
23267097 TTCATATTTC
*
23267107 ATTATATTTTATTACAT
1 ATTACATTTTATTACAT
*
23267124 ATTACATTTTATTATAT
1 ATTACATTTTATTACAT
23267141 ATT
1 ATT
23267144 TTTATATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTACATTTTATTACAT
Found at i:23267143 original size:39 final size:38
Alignment explanation
Indices: 23267108--23267184 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 38
23267098 TCATATTTCA
* *
23267108 TTATATTTTATTA-CATAT-TACATTTTATTATATATTT
1 TTATATTAT-TTATCATATGTACATATTATTATATATTT
*
23267145 TTATATTATTTATCATATGGTATATATTATTATATATTT
1 TTATATTATTTATCATAT-GTACATATTATTATATATTT
23267184 T
1 T
23267185 GGTTATAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 3 0.09
37 13 0.38
39 18 0.53
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (38 bp):
TTATATTATTTATCATATGTACATATTATTATATATTT
Found at i:23278832 original size:15 final size:16
Alignment explanation
Indices: 23278812--23278844 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23278802 GACTATTAGT
*
23278812 TTTTTCTATTAA-TCC
1 TTTTTCTAATAATTCC
23278827 TTTTTCTAATAATTCC
1 TTTTTCTAATAATTCC
23278843 TT
1 TT
23278845 GATTTGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTTCTAATAATTCC
Found at i:23281208 original size:15 final size:17
Alignment explanation
Indices: 23281179--23281226 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
23281169 AAGGAAGGTT
23281179 TTTACAAAGAGAGAGTG
1 TTTACAAAGAGAGAGTG
23281196 TTTACAAAGAGAGAGTG
1 TTTACAAAGAGAGAGTG
23281213 TTTACAAAGAGAGA
1 TTTACAAAGAGAGA
23281227 ATACTCAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.44, C:0.06, G:0.27, T:0.23
Consensus pattern (17 bp):
TTTACAAAGAGAGAGTG
Found at i:23282908 original size:46 final size:45
Alignment explanation
Indices: 23282841--23283008 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 45
23282831 AACCCGCCCC
23282841 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TCGGGCGTTCGCATCCA
*
23282887 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAG-TCGG--G-C--GTTCGCATCCA
* * * * *
23282935 TCA-CGAACTCGAACTCAACTCAACGAGTACGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGT-CGGGCGTTCGCATCCA
* *
23282980 TAGGTGAACTCGGACACAACTCAACGAGT
1 TAAGTGAACTCGGACTCAACTCAACGAGT
23283009 TTGGATGCTC
Statistics
Matches: 99, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 55 0.56
47 25 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTCGGGCGTTCGCATCCA
Found at i:23282955 original size:93 final size:93
Alignment explanation
Indices: 23282846--23283016 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
23282836 GCCCCTAAGT
* * * *
23282846 GAACTCGGACTCAACTCAACGAGCT-CGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAG-TACGGACATTCGCATCCATAAGTGAACTCGGACACAACTCA
23282910 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
23282939 GAACTCGAACTCAACTCAACGAGTACGGACATTCGCATCCATAGGTGAACTCGGACACAACTCAA
1 GAACTCGAACTCAACTCAACGAGTACGGACATTCGCATCCATAAGTGAACTCGGACACAACTCAA
*
23283004 CGAGTTTGGATGC
66 CGAGTTCGGATGC
23283017 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGTACGGACATTCGCATCCATAAGTGAACTCGGACACAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:23283471 original size:30 final size:30
Alignment explanation
Indices: 23283437--23283496 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
23283427 ATTTAATACG
23283437 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
23283467 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
23283497 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:23288023 original size:17 final size:17
Alignment explanation
Indices: 23288001--23288050 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
23287991 TAAAAGGATT
*
23288001 ATAAAATAATACATAAC
1 ATAAAATAATACATAAA
*
23288018 ATAAAA-CAT-CATTTAAA
1 ATAAAATAATACA--TAAA
23288035 ATAAAATAATACATAA
1 ATAAAATAATACATAA
23288051 TTAATAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
15 2 0.08
16 2 0.08
17 18 0.69
18 2 0.08
19 2 0.08
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAAATAATACATAAA
Found at i:23288302 original size:19 final size:20
Alignment explanation
Indices: 23288280--23288347 Score: 72
Period size: 19 Copynumber: 3.5 Consensus size: 20
23288270 AGTTTATATG
*
23288280 TAAA-AATAATATGTATAAA
1 TAAATAATAATATATATAAA
23288299 TAAATATATAATATATA-AAA
1 TAAATA-ATAATATATATAAA
* *
23288319 -ATATAATAATACATATAAA
1 TAAATAATAATATATATAAA
23288338 -AAATAATAAT
1 TAAATAATAAT
23288348 TTGAGAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
18 9 0.21
19 20 0.48
20 4 0.10
21 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (20 bp):
TAAATAATAATATATATAAA
Found at i:23288311 original size:21 final size:20
Alignment explanation
Indices: 23288285--23288373 Score: 66
Period size: 19 Copynumber: 4.6 Consensus size: 20
23288275 ATATGTAAAA
23288285 ATAATATGTATAAATAAATAT
1 ATAATAT-TATAAATAAATAT
23288306 ATAATA-TAT-AA-AAATAT
1 ATAATATTATAAATAAATAT
*
23288323 AATAATACATATAAA-AAATA-
1 -ATAATA-TTATAAATAAATAT
* *
23288343 ATAAT-TTGAGAAATTAATAT
1 ATAATATT-ATAAATAAATAT
23288363 ATAA-ATTATAA
1 ATAATATTATAA
23288374 TACATATAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
17 7 0.12
18 12 0.21
19 15 0.27
20 9 0.16
21 13 0.23
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (20 bp):
ATAATATTATAAATAAATAT
Found at i:23288313 original size:17 final size:18
Alignment explanation
Indices: 23288300--23288347 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 18
23288290 ATGTATAAAT
23288300 AAATAT-ATAATATATAA
1 AAATATAATAATATATAA
23288317 AAATATAATAATACATATAA
1 AAATATAATAAT--ATATAA
23288337 AAA-ATAATAAT
1 AAATATAATAAT
23288348 TTGAGAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.21
18 5 0.18
19 8 0.29
20 9 0.32
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATATAATAATATATAA
Found at i:23288316 original size:15 final size:14
Alignment explanation
Indices: 23288297--23288335 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
23288287 AATATGTATA
23288297 AATAAATATATAAT
1 AATAAATATATAAT
*
23288311 ATATAAAAATATAAT
1 A-ATAAATATATAAT
*
23288326 AATACATATA
1 AATAAATATA
23288336 AAAAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAAATATATAAT
Found at i:23288334 original size:22 final size:21
Alignment explanation
Indices: 23288296--23288347 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
23288286 TAATATGTAT
23288296 AAATA-AATATATAATATATAA
1 AAATATAATATATAATATA-AA
23288317 AAATATAATA-ATACATATAAA
1 AAATATAATATATA-ATATAAA
23288338 AAATAATAAT
1 AAAT-ATAAT
23288348 TTGAGAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATATAATATATAATATAAA
Found at i:23288344 original size:16 final size:16
Alignment explanation
Indices: 23288323--23288399 Score: 54
Period size: 16 Copynumber: 5.0 Consensus size: 16
23288313 ATAAAAATAT
23288323 AATAATACATATAAAA
1 AATAATACATATAAAA
* *
23288339 AATAATA-ATTTGAGAA
1 AATAATACATAT-AAAA
* *
23288355 ATTAAT--ATATAAAT
1 AATAATACATATAAAA
*
23288369 TATAATACATAT-AAA
1 AATAATACATATAAAA
* *
23288384 AATAACACTTATAAAA
1 AATAATACATATAAAA
23288400 TAATTTATAG
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
14 6 0.13
15 17 0.38
16 22 0.49
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (16 bp):
AATAATACATATAAAA
Found at i:23288457 original size:21 final size:21
Alignment explanation
Indices: 23288431--23288470 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23288421 AAATAAAACA
*
23288431 AATAATAAAATATATATAGAG
1 AATAATAAAATAAATATAGAG
23288452 AATAATAAAATAAATATAG
1 AATAATAAAATAAATATAG
23288471 GACTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (21 bp):
AATAATAAAATAAATATAGAG
Found at i:23290445 original size:119 final size:118
Alignment explanation
Indices: 23290156--23290868 Score: 1011
Period size: 119 Copynumber: 6.0 Consensus size: 118
23290146 GGAGTCTGTT
* * * **
23290156 TGAGAACATCTGATAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGTCA
1 TGAGAACATCTGAGAGTCAAATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * * * *
23290221 AATCATATTGGATCTGGCTTCATTATAAACATCTGAAGGTTAGATTTGCCATGTGTC
66 AATCATCTTGGATCT-GCTTCAGTATAAACATCTGAA-GTTAGATCTG-C-TATATC
*
23290278 TGAGAACATCTGAGAGTCAAATCTGCTATA-TCCTCGATTTGTTCCTTGTAAACACAAGAATACC
1 TGAGAACATCTGAGAGTCAAATCTGCTA-AGTCCTCGATTTGTTTCTTGTAAACACAAGAATACC
*
23290342 AAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTTTAGATCTACTATATC
65 AAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAG-TTAGATCTGCTATATC
* * *
23290397 TGAGAACGTCTGAGAGTCAAATTTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACTA
1 TGAGAACATCTGAGAGTCAAATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
**
23290462 AATCATCTTGGATCTATTTCAGTATAAACATCTGAAGTTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAG-TTAGATCTGCTATATC
* *
23290516 TGAGAACGTCTAAGAGTCAAATCTGCTATA-TCCTCGATTTGTTTCTTGTAAACACAAGAATACC
1 TGAGAACATCTGAGAGTCAAATCTGCTA-AGTCCTCGATTTGTTTCTTGTAAACACAAGAATACC
*
23290580 AAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA-C
65 AAATCATCTTGGATCTGCTTCAGTATAAACATCTG-AAGTTAGATCTGCTATATC
** * * *
23290634 TGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCAATTTTTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * *
23290699 AATCATCTTGGATCTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATT
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTG-AAGTTAGATCTGCTATATC
* * *
23290753 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACAGAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
*
23290818 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGAT-TGCTATA
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTG-AAGTTAGATCTGCTATA
23290869 CTGCGGCCTA
Statistics
Matches: 545, Mismatches: 39, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
118 119 0.22
119 321 0.59
120 6 0.01
121 27 0.05
122 72 0.13
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (118 bp):
TGAGAACATCTGAGAGTCAAATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTTAGATCTGCTATATC
Found at i:23290771 original size:237 final size:237
Alignment explanation
Indices: 23290156--23290871 Score: 1096
Period size: 237 Copynumber: 3.0 Consensus size: 237
23290146 GGAGTCTGTT
* * * **
23290156 TGAGAACATCTGATAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGTCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * * * * * *
23290221 AATCATATTGGATCTGGCTTCATTATAAACATCTGAAGGTTAGATTTGCCATGTGTCTGAGAACA
66 AATCATCTTGGATCT-GTTTCAGTATAAACATCTGAAAGTTAGATCTGCTATAT-T-TGAGAACA
*
23290286 TCTGAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
128 TCTGAGAGTCAAATCTGCTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCT
* *
23290351 TGGATCTGCTTCAGTATAAACATCTG-AAGTTTAGATCTACTATATC
193 TGGATCTGCTTCAGTATAAACATCTGAAAG-CTAGATCTGCTATA-C
* * *
23290397 TGAGAACGTCTGAGAGTCAAATTTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACTA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * *
23290462 AATCATCTTGGATCTATTTCAGTATAAACATCTG-AAGTTTAGATCTGCTATATCTGAGAACGTC
66 AATCATCTTGGATCTGTTTCAGTATAAACATCTGAAAG-TTAGATCTGCTATATTTGAGAACATC
*
23290526 TAAGAGTCAAATCTGCTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
130 TGAGAGTCAAATCTGCTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
23290591 GATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATAC
195 GATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATAC
* * *
23290634 TGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCAATTTTTTTCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
*
23290699 AATCATCTTGGATCTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCT
66 AATCATCTTGGATCTGTTTCAGTATAAACATCTGAAAGTTAGATCTGCTATATTTGAGAACATCT
* * *
23290764 GAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACAGAAGAATACCAAATCATCTTGG
131 GAGAGTCAAATCTGCTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGG
23290829 ATCTGCTTCAGTATAAACATCTGAAAGCTAGAT-TGCTATAC
196 ATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATAC
23290870 TG
1 TG
23290872 CGGCCTATTA
Statistics
Matches: 436, Mismatches: 36, Indels: 11
0.90 0.07 0.02
Matches are distributed among these distances:
236 10 0.02
237 211 0.48
238 111 0.25
239 5 0.01
240 28 0.06
241 71 0.16
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (237 bp):
TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGTTTCAGTATAAACATCTGAAAGTTAGATCTGCTATATTTGAGAACATCT
GAGAGTCAAATCTGCTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATAC
Found at i:23290814 original size:356 final size:360
Alignment explanation
Indices: 23290156--23290853 Score: 1064
Period size: 356 Copynumber: 1.9 Consensus size: 360
23290146 GGAGTCTGTT
* * * **
23290156 TGAGAACATCTGATAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGTCA
1 TGAGAACATCTAAGAGTCAAATCTACTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * * * * *
23290221 AATCATATTGGATCTGGCTTCATTATAAACATCTGAAGGTTAGATTTGCCATGTGTCTGAGAACA
66 AATCATATTGGATCTGGCTTCAGTATAAACATCTGAAAGCTAGATCTGCCATATGACTGAGAACA
*
23290286 TCTGAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
131 TCTGAGAGTCAAATCTGCTATATCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
* *
23290351 TGGATCTGCTTCAGTATAAACATCTGAAGTTTAGATCTACTATATCTGAGAACGTCTGAGAGTCA
196 TGGATCTGCTTCAGTATAAACATCTGAAGTCTAGATCTACTATATCTGAGAACATCTGAGAGTCA
* * *
23290416 AATTTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACTAAATCATCTTGGATCTATTT
261 AATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATCTACTT
23290481 CAGTATAAACATCTGAAGTTTAGATCTGCTATATC
326 CAGTATAAACATCTGAAGTTTAGATCTGCTATATC
* *
23290516 TGAGAACGTCTAAGAGTCAAATCTGCTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTAAGAGTCAAATCTACTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* **
23290581 AATCATCTTGGATCT-GCTTCAGTATAAACATCTGAAAGCTAGATCTG-C-TAT-ACTGAGAATG
66 AATCATATTGGATCTGGCTTCAGTATAAACATCTGAAAGCTAGATCTGCCATATGACTGAGAACA
* * *
23290642 TCTGAGAGTCAAATCTGCTATGTCCTCAATTTTTTTCTTGTAAACACAAGAATACCAAATCATCT
131 TCTGAGAGTCAAATCTGCTATATCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
* * *
23290707 TGGATCTGTTTCAGTATAAACATCTGAAAG-CTAGATCTGCTATATTTGAGAACATCTGAGAGTC
196 TGGATCTGCTTCAGTATAAACATCTG-AAGTCTAGATCTACTATATCTGAGAACATCTGAGAGTC
* * * *
23290771 AAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACAGAAGAATACCAAATCATCTTGGATCTGCT
260 AAATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATCTACT
23290836 TCAGTATAAACATCTGAA
325 TCAGTATAAACATCTGAA
23290854 AGCTAGATTG
Statistics
Matches: 305, Mismatches: 32, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
356 199 0.65
357 5 0.02
358 1 0.00
359 28 0.09
360 72 0.24
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (360 bp):
TGAGAACATCTAAGAGTCAAATCTACTATATCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
AATCATATTGGATCTGGCTTCAGTATAAACATCTGAAAGCTAGATCTGCCATATGACTGAGAACA
TCTGAGAGTCAAATCTGCTATATCCTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
TGGATCTGCTTCAGTATAAACATCTGAAGTCTAGATCTACTATATCTGAGAACATCTGAGAGTCA
AATCTGCTAAGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATCTACTT
CAGTATAAACATCTGAAGTTTAGATCTGCTATATC
Found at i:23302624 original size:22 final size:23
Alignment explanation
Indices: 23302599--23302642 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
23302589 GTATTTGCTA
*
23302599 TATAATATAATAACAA-TATATT
1 TATAAGATAATAACAATTATATT
*
23302621 TATAAGATAATAATAATTATAT
1 TATAAGATAATAACAATTATAT
23302643 AAAAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TATAAGATAATAACAATTATATT
Found at i:23302896 original size:18 final size:18
Alignment explanation
Indices: 23302851--23302897 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
23302841 AATATGTAAT
23302851 ATACATATATATAAAAATA
1 ATACATA-ATATAAAAATA
23302870 ATA-AGTAATATAAAAATA
1 ATACA-TAATATAAAAATA
23302888 ATACATAATA
1 ATACATAATA
23302898 AATATTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (18 bp):
ATACATAATATAAAAATA
Found at i:23303012 original size:19 final size:17
Alignment explanation
Indices: 23302969--23303037 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 17
23302959 GTTTATATGT
*
23302969 AAAAATAAT-ATGTATA
1 AAAAATAATAATATATA
23302985 AATAAATATATAATATATGAA
1 AA-AAATA-ATAATATAT--A
23303006 AAAATATAATAATAAATATA
1 AAAA-ATAATAAT--ATATA
23303026 AAAAATAATAAT
1 AAAAATAATAAT
23303038 TTTGAGAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
16 2 0.05
17 5 0.11
18 2 0.05
19 13 0.30
20 12 0.27
21 6 0.14
22 4 0.09
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AAAAATAATAATATATA
Found at i:23303065 original size:39 final size:41
Alignment explanation
Indices: 23302972--23303073 Score: 106
Period size: 38 Copynumber: 2.6 Consensus size: 41
23302962 TATATGTAAA
**
23302972 AATAATATGTATAAATAAATATATAATATATGAAAAAATAT
1 AATAATAAATATAAATAAATATATAATATATGAAAAAATAT
* *
23303013 AATAATAAATATAAA-AAATA-ATAAT-TTTGAGAAAAT-T
1 AATAATAAATATAAATAAATATATAATATATGAAAAAATAT
*
23303050 AATATATAAAT-TATAATACATATA
1 AATA-ATAAATATA-AATAAATATA
23303074 AAAATAACAC
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
37 7 0.13
38 17 0.33
39 9 0.17
40 6 0.12
41 13 0.25
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (41 bp):
AATAATAAATATAAATAAATATATAATATATGAAAAAATAT
Found at i:23325586 original size:17 final size:17
Alignment explanation
Indices: 23325520--23325587 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 17
23325510 GTGATATTTA
*
23325520 ATAAAAATTTAAAATAT
1 ATAAAAATATAAAATAT
*
23325537 AATAAAAATAT---ATTT
1 -ATAAAAATATAAAATAT
* *
23325552 ATAAGAATA-ATAATTAT
1 ATAAAAATATA-AAATAT
23325569 ATAAAAATATAAAATAT
1 ATAAAAATATAAAATAT
23325586 AT
1 AT
23325588 TGGTTTAGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 11
0.68 0.12 0.20
Matches are distributed among these distances:
14 8 0.21
15 3 0.08
17 17 0.45
18 10 0.26
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (17 bp):
ATAAAAATATAAAATAT
Found at i:23326095 original size:35 final size:36
Alignment explanation
Indices: 23326051--23326131 Score: 146
Period size: 35 Copynumber: 2.3 Consensus size: 36
23326041 AATCATATCT
*
23326051 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
23326086 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
23326122 TCTAAGATTG
1 TCTAAGATTG
23326132 CATATCATTG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 29 0.66
36 15 0.34
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGTATCATATCTAAGATTGCATATCACA
Found at i:23326124 original size:19 final size:19
Alignment explanation
Indices: 23326051--23326139 Score: 134
Period size: 17 Copynumber: 4.9 Consensus size: 19
23326041 AATCATATCT
23326051 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
23326068 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
23326086 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
23326103 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
23326122 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
23326140 TGCAGATTAT
Statistics
Matches: 65, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
17 26 0.40
18 16 0.25
19 23 0.35
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:23339601 original size:24 final size:23
Alignment explanation
Indices: 23339550--23339602 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
23339540 TAATTTTTAC
23339550 ATTATATATATGTACCTTAAAAT
1 ATTATATATATGTACCTTAAAAT
* ** *
23339573 TTTATATACTATGTAGTTTAAACT
1 ATTATATA-TATGTACCTTAAAAT
23339597 ATTATA
1 ATTATA
23339603 CGTTAACTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (23 bp):
ATTATATATATGTACCTTAAAAT
Found at i:23346977 original size:13 final size:13
Alignment explanation
Indices: 23346959--23346992 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
23346949 ATTTACTCTG
23346959 AAGGAAAGTCGAC
1 AAGGAAAGTCGAC
23346972 AAGGAAAGTCGAC
1 AAGGAAAGTCGAC
23346985 AAGGAAAG
1 AAGGAAAG
23346993 GGGATACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.12, G:0.32, T:0.06
Consensus pattern (13 bp):
AAGGAAAGTCGAC
Found at i:23351938 original size:51 final size:51
Alignment explanation
Indices: 23351875--23352047 Score: 182
Period size: 51 Copynumber: 3.5 Consensus size: 51
23351865 CTTGTCTCCT
*
23351875 TGAAGTTACAGTGGAGTAGATTGAAGCTGGAAGTTACAAGTCTTATCTCTC
1 TGAAGTTACAGTGGAGCAGATTGAAGCTGGAAGTTACAAGTCTTATCTCTC
* * * * * * *
23351926 TGAAGTTGCAGTGGAGTAAACTGAAGAT---AG-T-GAA-TCTTGTCT-TCC
1 TGAAGTTACAGTGGAGCAGATTGAAGCTGGAAGTTACAAGTCTTATCTCT-C
*
23351971 TGGAGTTACAGTGGAGCAGATTGAAGCTGGAAGTTACAAGTCTTATCTC-C
1 TGAAGTTACAGTGGAGCAGATTGAAGCTGGAAGTTACAAGTCTTATCTCTC
*
23352021 ATGAAGTTGCAGTGGAGCAGATTGAAG
1 -TGAAGTTACAGTGGAGCAGATTGAAG
23352048 ATAGCGAATC
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
44 1 0.01
45 30 0.31
46 2 0.02
47 1 0.01
48 4 0.04
49 1 0.01
50 3 0.03
51 55 0.57
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.29
Consensus pattern (51 bp):
TGAAGTTACAGTGGAGCAGATTGAAGCTGGAAGTTACAAGTCTTATCTCTC
Found at i:23351978 original size:96 final size:96
Alignment explanation
Indices: 23351814--23352092 Score: 400
Period size: 96 Copynumber: 2.9 Consensus size: 96
23351804 ATAGATCAAA
* * * *
23351814 ACAAGTCTTATCTCCTTGAAGTTACAATGAAGTAGATTGAAGATAGTGAATCTTGTC-TCCTTGA
1 ACAAGTCTTATCTCCATGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTGTCTTCC-TGA
*
23351878 AGTTACAGTGGAGTAGATTGAAGCTGGAAGTT
65 AGTTACAGTGGAGCAGATTGAAGCTGGAAGTT
* * *
23351910 ACAAGTCTTATCTCTC-TGAAGTTGCAGTGGAGTAAACTGAAGATAGTGAATCTTGTCTTCCTGG
1 ACAAGTCTTATCTC-CATGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTGTCTTCCTGA
23351974 AGTTACAGTGGAGCAGATTGAAGCTGGAAGTT
65 AGTTACAGTGGAGCAGATTGAAGCTGGAAGTT
* * * *
23352006 ACAAGTCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCCTGAA
1 ACAAGTCTTATCTCCATGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTGTCTTCCTGAA
* *
23352071 GTTGCAGTGGAGCAGAATGAAG
66 GTTACAGTGGAGCAGATTGAAG
23352093 AAAGCAGACC
Statistics
Matches: 164, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
95 1 0.01
96 159 0.97
97 4 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (96 bp):
ACAAGTCTTATCTCCATGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTGTCTTCCTGAA
GTTACAGTGGAGCAGATTGAAGCTGGAAGTT
Found at i:23352110 original size:45 final size:45
Alignment explanation
Indices: 23352012--23352131 Score: 143
Period size: 45 Copynumber: 2.7 Consensus size: 45
23352002 AGTTACAAGT
* * *
23352012 CTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAAT
1 CTTATCTCCATGAAGTTGCAGTGGAGCAGAATGAAGAAAGCGAAC
*
23352057 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGAAAGC-AGAC
1 CTTATCTCCATGAAGTTGCAGTGGAGCAGAATGAAGAAAGCGA-AC
* * * * *
23352102 CTTGTCTCCTTAAAGTTGCAATAGAGCAGA
1 CTTATCTCCATGAAGTTGCAGTGGAGCAGA
23352132 TCAAGTTACA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
44 1 0.02
45 64 0.98
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (45 bp):
CTTATCTCCATGAAGTTGCAGTGGAGCAGAATGAAGAAAGCGAAC
Found at i:23352934 original size:20 final size:19
Alignment explanation
Indices: 23352892--23352935 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
23352882 AGTCTCGTTG
*
23352892 TTCTCTTTTTTTTTTTTAC
1 TTCTCTTTTTTATTTTTAC
23352911 TTCTCGTTTCTTTATTTTTA-
1 TTCTC-TTT-TTTATTTTTAC
23352931 TTCTC
1 TTCTC
23352936 AAATTAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 8 0.36
21 9 0.41
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (19 bp):
TTCTCTTTTTTATTTTTAC
Found at i:23354649 original size:25 final size:26
Alignment explanation
Indices: 23354619--23354673 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
23354609 AAATTATTAT
23354619 TTTTTATATATCTA-T-TTTAAAATTG
1 TTTTTATATAT-TATTGTTTAAAATTG
*
23354644 TTTTTATGTATTATTTGTTTAAAATTG
1 TTTTTATATATTA-TTGTTTAAAATTG
23354671 TTT
1 TTT
23354674 CTTTATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 2 0.08
25 10 0.38
26 1 0.04
27 13 0.50
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (26 bp):
TTTTTATATATTATTGTTTAAAATTG
Found at i:23358246 original size:30 final size:30
Alignment explanation
Indices: 23358162--23358246 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
23358152 ATAGTACATA
*
23358162 ATAT-TGTAATTAAATTAAATTAATTATTAT
1 ATATATGTAATTAAATTAAGTTAA-TATTAT
23358192 ATAATATG--ATTAAATTAAGTTAATATTAT
1 AT-ATATGTAATTAAATTAAGTTAATATTAT
23358221 ATATATGTAATTAAATTAAGTTAATA
1 ATATATGTAATTAAATTAAGTTAATA
23358247 GTAGAGCCCA
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
28 5 0.10
29 8 0.16
30 33 0.66
31 2 0.04
32 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (30 bp):
ATATATGTAATTAAATTAAGTTAATATTAT
Found at i:23358356 original size:5 final size:5
Alignment explanation
Indices: 23358346--23358383 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
23358336 GTTCCTTACT
*
23358346 TTATA TTATA TTATA TAATA -TATA TATATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA T-TATA TTATA TTA
23358384 CAAGGTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 3 0.10
5 21 0.72
6 5 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
TTATA
Found at i:23361099 original size:22 final size:21
Alignment explanation
Indices: 23361073--23361133 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
23361063 ATTAAACCTC
23361073 CAAGATTACAAGATCATATCTT
1 CAAGATTAC-AGATCATATCTT
* *
23361095 CAAGATTGCATATCATATC-T
1 CAAGATTACAGATCATATCTT
* *
23361115 -AAGATTGCATATCATATCT
1 CAAGATTACAGATCATATCT
23361134 AAGATTGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 18 0.50
20 1 0.03
21 9 0.25
22 8 0.22
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (21 bp):
CAAGATTACAGATCATATCTT
Found at i:23361120 original size:19 final size:19
Alignment explanation
Indices: 23361085--23361146 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
23361075 AGATTACAAG
23361085 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
23361106 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
23361125 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
23361144 ATC
1 ATC
23361147 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
20 1 0.02
21 8 0.20
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:23361286 original size:7 final size:7
Alignment explanation
Indices: 23361269--23361297 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
23361259 TTGAACTTTG
23361269 TTTTA-T
1 TTTTATT
23361275 TTTTATT
1 TTTTATT
23361282 TTTTATT
1 TTTTATT
23361289 TTTTATT
1 TTTTATT
23361296 TT
1 TT
23361298 AGTTTAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.23
7 17 0.77
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTATT
Found at i:23364838 original size:19 final size:19
Alignment explanation
Indices: 23364798--23364840 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
23364788 TACATGACCT
*
23364798 ACATAATATACATTATAGA
1 ACATAATATACATTATACA
*
23364817 ACATAATATGATATT-TACA
1 ACATAATAT-ACATTATACA
23364836 ACATA
1 ACATA
23364841 TAAAACTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.33
Consensus pattern (19 bp):
ACATAATATACATTATACA
Found at i:23367113 original size:89 final size:89
Alignment explanation
Indices: 23367010--23367311 Score: 276
Period size: 89 Copynumber: 3.4 Consensus size: 89
23367000 GCTGTCTTTT
23367010 GATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACGTCAGCTTGTTACCCTACTGCTT
1 GATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACGTCAGCTTGTTACCCTACTGCTT
23367075 AGGGAGTTAAAGCTCGTTGCCCTC
66 AGGGAGTTAAAGCTCGTTGCCCTC
* * * * * ** * * * *
23367099 GATCTGTTTCCCTACTGCTTAGGG-GTTAAG-GCTTGGTG---GTTTGAATCTGCTT-CACTGCA
1 GATCTGCTTCCCTACTACTTAGGGTGATAAGATCTT-ATGAACGTCAG-CT-TG-TTACCCTACT
* * ** * * ** *
23367158 ACTTCAGGAAG-GCAAGATTCGCTGTCTTTT
62 GCTT-AGGGAGTTAAAG-CTCGTTG-CCCTC
23367188 GATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACGTCAGCTTGTTACCCTACTGCTT
1 GATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACGTCAGCTTGTTACCCTACTGCTT
23367253 AGGGAGTTAAAGCTCGTTGCCCTC
66 AGGGAGTTAAAGCTCGTTGCCCTC
* * * *
23367277 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT
1 GATCTGCTTCCCTACTACTTAGGGTGATAAGATCT
23367312 GTGAATTTAA
Statistics
Matches: 155, Mismatches: 44, Indels: 28
0.68 0.19 0.12
Matches are distributed among these distances:
85 3 0.02
86 1 0.01
87 15 0.10
88 19 0.12
89 79 0.51
90 19 0.12
91 15 0.10
92 1 0.01
93 3 0.02
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (89 bp):
GATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACGTCAGCTTGTTACCCTACTGCTT
AGGGAGTTAAAGCTCGTTGCCCTC
Found at i:23367151 original size:178 final size:178
Alignment explanation
Indices: 23366923--23367659 Score: 887
Period size: 178 Copynumber: 4.2 Consensus size: 178
23366913 AATCTTTAGC
*
23366923 CTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTCAGG
1 CTGTTTCCCTACTGCTTAGGG-GTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTCAGG
23366988 AAGGCAAGATTCGCTGTCTTTTGATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACG
65 AAGGCAAGATTCGCTGTCTTTTGATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACG
23367053 TCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGAT
130 TCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGAT
23367102 CTGTTTCCCTACTGCTTAGGGGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTCAGGA
1 CTGTTTCCCTACTGCTTAGGGGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTCAGGA
23367167 AGGCAAGATTCGCTGTCTTTTGATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACGT
66 AGGCAAGATTCGCTGTCTTTTGATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACGT
23367232 CAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGAT
131 CAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGAT
* * * * **
23367280 CTGTTTCCCTACTGCTTAGGGGGTTAA-GATCT-GTGAATTT-AACCTG-TT-ACCTTACTGCTT
1 CTGTTTCCCTACTGCTTA-GGGGTTAAGGCT-TGGTG-GTTTGAATCTGCTTCA-C-TGCAACTT
* *** * ** * * * * **
23367340 -AGGGATTTAAG-GT--CTGTAAATTTG-GCTTG-TTACCCTACTGCTTAGGG-GTTAA-AGCCC
61 CAGGAAGGCAAGATTCGCTGT-CTTTTGATC-TGCTT-CCCTACTACTTAGGGTGATAAGATCTT
* ** * * * * * **** ** *
23367397 ATCG--CTTTTGATCTATTTCCCTACTGCTTAGGG-GCT-AAGATCTGTAAATCTTTAGC
123 AT-GAACGTCAGCT-TGTTACCCTACTGCTTAGGGAGTTAAAGCTC-GTTGCCCTCGA-T
*
23367453 CTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTCAGG
1 CTGTTTCCCTACTGCTTAGGG-GTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTCAGG
*
23367518 AAGGCAAGATTCGCTGTCTTTTGATCTGCTTCCCTACTGCTTAGGGTGATAAGATCTTATGAACG
65 AAGGCAAGATTCGCTGTCTTTTGATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACG
23367583 TCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGAT
130 TCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGAT
23367632 CTGTTTCCCTACTGCTTAGGGGGTTAAG
1 CTGTTTCCCTACTGCTTA-GGGGTTAAG
23367660 ATCTGTGAAT
Statistics
Matches: 457, Mismatches: 70, Indels: 62
0.78 0.12 0.11
Matches are distributed among these distances:
171 5 0.01
172 14 0.03
173 48 0.11
174 27 0.06
175 30 0.07
176 4 0.01
177 31 0.07
178 202 0.44
179 77 0.17
180 14 0.03
181 5 0.01
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (178 bp):
CTGTTTCCCTACTGCTTAGGGGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTCAGGA
AGGCAAGATTCGCTGTCTTTTGATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACGT
CAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGAT
Found at i:23367341 original size:43 final size:43
Alignment explanation
Indices: 23367280--23367833 Score: 165
Period size: 43 Copynumber: 12.7 Consensus size: 43
23367270 TGCCCTCGAT
* *
23367280 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTGAATTTAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAAC
* ** * **
23367323 CTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAATTTGGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAAC
* * *
23367366 TTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATC-GCT---TTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTT-AAG---ATCTG-TAAATTTAAC
* * * *
23367409 CTATTTCCCTACTGCTTA-GGGGCTAAGATCTGTAAATCTTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA--TTTAAC
* * ** *
23367453 CTGTTACCCTACTGCTTAGGGAGTTAAG-GCTTGGT-GGTTTGAAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATC-T-GTAAATTT-AAC
* * ** * * ** * *
23367497 CTGCTT-CACTGCAACTTCAGGAAGG-CAAGATTCGCTGT-CTTTTGAT
1 CTG-TTACCCTACTGCTT-AGG-GGGTTAAGA-T--CTGTAAATTTAAC
* * * * *
23367543 CTGCTT-CCCTACTGCTTAGGGTGATAAGATCT-TATGAACGTCAGC
1 CTG-TTACCCTACTGCTTAGGGGGTTAAGATCTGTA--AA-TTTAAC
* * * **** ** *
23367588 TTGTTACCCTACTGCTTAGGGAGTTAA-AGCTCGTTGCCCTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-G-TAAATTTAAC
* *
23367632 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTGAATTTAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAAC
* ** * **
23367675 CTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAATTTGGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAAC
* * *
23367718 TTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATC-GCT---TTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTT-AAG---ATCTG-TAAATTTAAC
* * * *
23367761 CTATTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATCTTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA--TTTAAC
*
23367806 CTGTTACCCTACTGCTTAGGGAGTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
23367834 GCTTGGTGGT
Statistics
Matches: 364, Mismatches: 103, Indels: 86
0.66 0.19 0.16
Matches are distributed among these distances:
39 4 0.01
40 5 0.01
41 2 0.01
42 13 0.04
43 161 0.44
44 70 0.19
45 77 0.21
46 24 0.07
47 6 0.02
48 1 0.00
49 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAAC
Found at i:23367383 original size:130 final size:129
Alignment explanation
Indices: 23367234--23367481 Score: 354
Period size: 130 Copynumber: 1.9 Consensus size: 129
23367224 ATGAACGTCA
* * * *
23367234 GCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGATCTGTTTCCCTACTGCTTAG
1 GCTTGTTACCCTACTGCTTAGGG-GTTAAAGCCCATCGCCCTCGATCTATTTCCCTACTGCTTA-
* * * *
23367299 GGGGTTAAGATCTGTGAA-TTTAACCTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAATTT
64 GGGGCTAAGATCTGTAAACTTTAACCTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTAAATTT
23367363 G
129 G
** *
23367364 GCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCGCTTTTGATCTATTTCCCTACTGCTTAGG
1 GCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCGCCCTCGATCTATTTCCCTACTGCTTAGG
*
23367429 GGCTAAGATCTGTAAATCTTTAGCCTGTTACCCTACTGCTTAGGGAGTTAAGG
66 GGCTAAGATCTGTAAA-CTTTAACCTGTTACCCTACTGCTTAGGGAGTTAAGG
23367482 CTTGGTGGTT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
128 16 0.15
129 33 0.32
130 55 0.53
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (129 bp):
GCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCGCCCTCGATCTATTTCCCTACTGCTTAGG
GGCTAAGATCTGTAAACTTTAACCTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTAAATTTG
Found at i:23367504 original size:352 final size:353
Alignment explanation
Indices: 23367102--23367855 Score: 1476
Period size: 352 Copynumber: 2.1 Consensus size: 353
23367092 TGCCCTCGAT
*
23367102 CTGTTTCCCTACTGCTTAGGG-GTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTCAGG
1 CTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTCAGG
23367166 AAGGCAAGATTCGCTGTCTTTTGATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACG
66 AAGGCAAGATTCGCTGTCTTTTGATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACG
23367231 TCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGATCTGTTTCCCTACTGCT
131 TCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGATCTGTTTCCCTACTGCT
23367296 TAGGGGGTTAAGATCTGTGAATTTAACCTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAAT
196 TAGGGGGTTAAGATCTGTGAATTTAACCTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAAT
23367361 TTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCGCTTTTGATCTATTTCCCTACTGCTT
261 TTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCGCTTTTGATCTATTTCCCTACTGCTT
23367426 A-GGGGCTAAGATCTGTAAATCTTTAGC
326 AGGGGGCTAAGATCTGTAAATCTTTAGC
23367453 CTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTCAGG
1 CTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTCAGG
*
23367518 AAGGCAAGATTCGCTGTCTTTTGATCTGCTTCCCTACTGCTTAGGGTGATAAGATCTTATGAACG
66 AAGGCAAGATTCGCTGTCTTTTGATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACG
23367583 TCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGATCTGTTTCCCTACTGCT
131 TCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGATCTGTTTCCCTACTGCT
23367648 TAGGGGGTTAAGATCTGTGAATTTAACCTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAAT
196 TAGGGGGTTAAGATCTGTGAATTTAACCTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAAT
23367713 TTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCGCTTTTGATCTATTTCCCTACTGCTT
261 TTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCGCTTTTGATCTATTTCCCTACTGCTT
23367778 AGGGGGCTAAGATCTGTAAATCTTTAGC
326 AGGGGGCTAAGATCTGTAAATCTTTAGC
23367806 CTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTT
1 CTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTT
23367856 TTAGGAACAT
Statistics
Matches: 399, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
351 20 0.05
352 303 0.76
353 76 0.19
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (353 bp):
CTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTCAGG
AAGGCAAGATTCGCTGTCTTTTGATCTGCTTCCCTACTACTTAGGGTGATAAGATCTTATGAACG
TCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCTCGTTGCCCTCGATCTGTTTCCCTACTGCT
TAGGGGGTTAAGATCTGTGAATTTAACCTGTTACCTTACTGCTTAGGGATTTAAGGTCTGTAAAT
TTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCGCTTTTGATCTATTTCCCTACTGCTT
AGGGGGCTAAGATCTGTAAATCTTTAGC
Found at i:23382422 original size:10 final size:10
Alignment explanation
Indices: 23382330--23382465 Score: 59
Period size: 10 Copynumber: 13.4 Consensus size: 10
23382320 TATTAATATA
*
23382330 TTTTATAACT
1 TTTTATAATT
23382340 TTTTA-AATAAT
1 TTTTATAAT--T
*
23382351 TTTTA-CATT
1 TTTTATAATT
23382360 TTTATATAATT
1 TTT-TATAATT
*
23382371 TTATAATAA-T
1 TT-TTATAATT
* *
23382381 ATTTAAAATTT
1 TTTTATAA-TT
*
23382392 TTTTGTAA-T
1 TTTTATAATT
**
23382401 TTTTAT-CCT
1 TTTTATAATT
23382410 TTTTATAATT
1 TTTTATAATT
23382420 TTTTAT-ATGT
1 TTTTATAAT-T
* *
23382430 TTATATAATA
1 TTTTATAATT
*
23382440 TTTTACAATT
1 TTTTATAATT
23382450 TTTTATGACATT
1 TTTTAT-A-ATT
23382462 TTTT
1 TTTT
23382466 TTATACAAAT
Statistics
Matches: 93, Mismatches: 20, Indels: 24
0.68 0.15 0.18
Matches are distributed among these distances:
9 25 0.27
10 34 0.37
11 26 0.28
12 8 0.09
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTATAATT
Found at i:23384152 original size:14 final size:15
Alignment explanation
Indices: 23384135--23384163 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23384125 GAGTATGGTA
23384135 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
23384149 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
23384164 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:23385946 original size:118 final size:116
Alignment explanation
Indices: 23385631--23385948 Score: 351
Period size: 111 Copynumber: 2.8 Consensus size: 116
23385621 AACAGTTCTA
* ** * *
23385631 TTGCTATTCATTTGTTGTTTTTCTGGCAACTAATGGTTGCTGCTATTTTGCTATTCAATTGCTAG
1 TTGCTATTCATTTGTTGTTTTTC-GGCAACT-GTGACTGCTGCTATTTTGCTATTCAATTGTTGG
* * * * *
23385696 TTGCTGTTATTCAATTGCTGTTTTTCTTGGCACTTCACTGCAATTACTGACTG
64 CTGCTGCTATTCAATTGTTGTTTTTCTTGACACTTCACTGCAACTACTGACTG
* * * * *
23385749 CTACAATTCATTTGTTGTTTTTC--C-A--GTAACTGCTGCTATTTTTCTATTCAATTGTTGGCT
1 TTGCTATTCATTTGTTGTTTTTCGGCAACTGTGACTGCTGCTATTTTGCTATTCAATTGTTGGCT
* *
23385809 GCTGCTATTCAATTGTTGTTTTTCTTGACACTTCTCTGCAACTGCT-AGCTG
66 GCTGCTATTCAATTGTTGTTTTTCTTGACACTTCACTGCAACTACTGA-CTG
* *
23385860 TTGCTATTCATTTGTTGTTTTTCGGGCAACTGTTGCCAGCTGCTATTTTGCTATTCAATTGTTGG
1 TTGCTATTCATTTGTTGTTTTTC-GGCAACTG-TGACTGCTGCTATTTTGCTATTCAATTGTTGG
* * *
23385925 CTACTACTATCCAATTGTTGTTTT
64 CTGCTGCTATTCAATTGTTGTTTT
23385949 AAGATAAGTT
Statistics
Matches: 165, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
110 1 0.01
111 90 0.55
114 2 0.01
115 2 0.01
117 1 0.01
118 69 0.42
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (116 bp):
TTGCTATTCATTTGTTGTTTTTCGGCAACTGTGACTGCTGCTATTTTGCTATTCAATTGTTGGCT
GCTGCTATTCAATTGTTGTTTTTCTTGACACTTCACTGCAACTACTGACTG
Found at i:23389398 original size:50 final size:49
Alignment explanation
Indices: 23389324--23389420 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 49
23389314 TTCAAAAAAG
* * * *
23389324 TTCTCAAAAAGAAAACACTTATATATAATGCGCATTTTTTTTTGTGTAAA
1 TTCTCAAAAAAAAAACACTCATATATAATACGCA-TTTGTTTTGTGTAAA
*
23389374 TTCT-AAAAAAAAAAGCACTCATATATAATATGCATTTGTTTTGTGTA
1 TTCTCAAAAAAAAAA-CACTCATATATAATACGCATTTGTTTTGTGTA
23389421 TCTCTAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 21 0.51
50 20 0.49
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (49 bp):
TTCTCAAAAAAAAAACACTCATATATAATACGCATTTGTTTTGTGTAAA
Found at i:23392697 original size:14 final size:13
Alignment explanation
Indices: 23392670--23392694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23392660 CTATTTATTG
23392670 TTTTTGTTTTTTA
1 TTTTTGTTTTTTA
23392683 TTTTTGTTTTTT
1 TTTTTGTTTTTT
23392695 TATCTTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (13 bp):
TTTTTGTTTTTTA
Found at i:23392702 original size:20 final size:19
Alignment explanation
Indices: 23392661--23392711 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
23392651 TATCTTGGGC
23392661 TATTTATTGTTTTTGTTTTT
1 TATTT-TTGTTTTTGTTTTT
23392681 TATTTTTGTTTTT-TTATCTT
1 TATTTTTGTTTTTGTT-T-TT
*
23392701 TATTTTGGTTT
1 TATTTTTGTTT
23392712 ATAATGGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 9 0.32
20 17 0.61
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.78
Consensus pattern (19 bp):
TATTTTTGTTTTTGTTTTT
Found at i:23400149 original size:18 final size:17
Alignment explanation
Indices: 23400119--23400171 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
23400109 TTGAGACCTT
* *
23400119 AAAAAAATCAAAATAAA
1 AAAAAAATAAAAAGAAA
23400136 AAAAGAAATAAAAAGAAA
1 AAAA-AAATAAAAAGAAA
23400154 AAAATCAAA-AAAAAGAAA
1 AAAA--AAATAAAAAGAAA
23400172 GAATCAATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.13
18 24 0.77
19 3 0.10
ACGTcount: A:0.83, C:0.04, G:0.06, T:0.08
Consensus pattern (17 bp):
AAAAAAATAAAAAGAAA
Found at i:23400150 original size:10 final size:9
Alignment explanation
Indices: 23400133--23400171 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
23400123 AAATCAAAAT
23400133 AAAAAAAGA
1 AAAAAAAGA
23400142 AATAAAAAGA
1 AA-AAAAAGA
**
23400152 AAAAAATCA
1 AAAAAAAGA
23400161 AAAAAAAGA
1 AAAAAAAGA
23400170 AA
1 AA
23400172 GAATCAATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.85, C:0.03, G:0.08, T:0.05
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:23400176 original size:17 final size:16
Alignment explanation
Indices: 23400119--23400178 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
23400109 TTGAGACCTT
23400119 AAAAA-AATCAAAATAA
1 AAAAAGAATCAAAA-AA
*
23400135 AAAAAGAAAT-AAAAAG
1 AAAAAG-AATCAAAAAA
23400151 AAAAA-AATCAAAAAA
1 AAAAAGAATCAAAAAA
23400166 AAGAAAGAATCAA
1 AA-AAAGAATCAA
23400179 TCAAAGAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 3 0.08
15 7 0.19
16 14 0.38
17 10 0.27
18 3 0.08
ACGTcount: A:0.80, C:0.05, G:0.07, T:0.08
Consensus pattern (16 bp):
AAAAAGAATCAAAAAA
Found at i:23401298 original size:64 final size:61
Alignment explanation
Indices: 23401190--23401360 Score: 236
Period size: 64 Copynumber: 2.8 Consensus size: 61
23401180 AATAAATCAC
* *
23401190 ACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAGCAT
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAA-C-T
* * *
23401253 AACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCACT
1 -ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAACT
* * *
23401315 -CATTTAGTTAGGAGCATTGGATTCATTTCAATCATAGCATCCTAAT
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAAT
23401361 CATTGGGCAT
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
60 41 0.42
62 1 0.01
63 1 0.01
64 54 0.56
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (61 bp):
ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAACT
Found at i:23402004 original size:176 final size:175
Alignment explanation
Indices: 23401559--23402008 Score: 452
Period size: 176 Copynumber: 2.5 Consensus size: 175
23401549 CATAACAAAC
* * * * * * **
23401559 CTTATCTCCCTGACGCTGCAGTGGAGCAGGCTCAA-TGTACAAGTCTTATCCCCTTAAGATTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTG-ATAGGTCTTATTTCCTTAAG-TTGTA
* *
23401623 GTAGAGCAGACTGAAGATTAAAGATCTTATCTCCCTAGGCAGTTACGGAGCAGATCGAAGATGGC
64 GTAGAGCAGACTGAAGA-TGAAGATCTTATCTCCCTAAGCAGTTACGGAGCAGATCGAAGATGGC
*
23401688 GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAGC
128 GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAGA
* * * * * * * * *
23401736 CTTATCTCTCTGAGGTAGCAAG-AGAGCAGGTTG--GCGATTGTAGTCTTATCTTCCTGAGGTAG
1 CTTATCTCCCTGAAGTTGC-AGTGGAGCAGGTTGAAGTGATAG--GTCTTAT-TTCCTTAAGTTG
* * *
23401798 CAAGGA-AACA-ACTGAAGATTGAAGATCTTATCTCCCTAAGCAG-TAGCGGAGCAGATCGAAGA
62 -TAGTAGAGCAGACTGAAGA-TGAAGATCTTATCTCCCTAAGCAGTTA-CGGAGCAGATCGAAGA
* *
23401860 TGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTA-CCACT-GAA
124 TGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAG-A
*
23401911 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTGATAGGTCTTATTTCCTTAAAGTTGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTGATAGGTCTTATTTCCTT-AAGTTGTAG
**
23401976 TAGAGCAGACCAAAGATGGCAA-ATCTTATCTCC
65 TAGAGCAGACTGAAGAT-G-AAGATCTTATCTCC
23402009 ATGTATCGGC
Statistics
Matches: 218, Mismatches: 39, Indels: 33
0.75 0.13 0.11
Matches are distributed among these distances:
174 11 0.05
175 48 0.22
176 107 0.49
177 42 0.19
178 10 0.05
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (175 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTGATAGGTCTTATTTCCTTAAGTTGTAGT
AGAGCAGACTGAAGATGAAGATCTTATCTCCCTAAGCAGTTACGGAGCAGATCGAAGATGGCGAA
TCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAGA
Found at i:23402179 original size:176 final size:176
Alignment explanation
Indices: 23401954--23402732 Score: 977
Period size: 176 Copynumber: 4.4 Consensus size: 176
23401944 AAGTGATAGG
* * ** * * **
23401954 TCTTATTTCCTTAAAGTTGTAGTAGAGCAGACCAAAGATGGCAAATCTTATCTCCATGTATCGGC
1 TCTTATCTCCCTAAAGTTGTAGCGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGGC
* * *
23402019 AATGGAGCAGATTTTGCCGCCAACCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAATGA
66 AATGGAGCAGATTTTACCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGA
* * *
23402084 GTCTTATCTTTCTGGGGTAGCAAAAAAGTAGACTGAAAATTGAAGA
131 GTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAAATTGAAGA
* *
23402130 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACT-GTGAATCTTATCTCCATGTATCGG
1 TCTTATCTCCCTAAAGTTGTAGCGGAGCAGATCGAAGA-TGGTGAATCTTATCTCCATGTATCGG
* * *
23402194 CAATGGAGCAGATTTTACCACTAGCCTTATCTATCTGAGGTAGCAAGAGAGCAGGTTGAAGAATG
65 CAATGGAGCAGATTTTACCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATG
*
23402259 AGTCTTATCTTTCTGGGGTAGCAAGAAAGCAGACTGAAAATTGAAGA
130 AGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAAATTGAAGA
* * * *
23402306 TCTTATCTCCCTAAAGTTGTATCGGAGCAGATCAAAGATGGTGAATCTTATCTCTATGTATTGGC
1 TCTTATCTCCCTAAAGTTGTAGCGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGGC
* * * * *
23402371 AATGGAGCAGATTTT---ACCAATCTTATCTCCCTGAGGTAGCAAGAGAGCAGGTTAAAGATTAA
66 AATGGAGCAGATTTTACCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGA
* *
23402433 GTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGGAGATTGAAGA
131 GTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAAATTGAAGA
* ** * *
23402479 TCTTATCTCCC-CAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCTATGTATCGGC
1 TCTTATCTCCCTAAAGTTGTAGCGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGGC
* *
23402543 AATGGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG--GCAATT
66 AATGGAGCAGATTTTACCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAG-AA-T
* * * * *
23402606 GTAGTCTTATCTTCCTGATGTAGCAAGGAAGTAGACTGAAGATTGAAGA
129 G-AGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAAATTGAAGA
* * * * * *
23402655 TCTTATCTCCCTAAGCAGATGTA---GAGAAAAT-TAAGGATGGCGAATCTTATCTCCATGTATT
1 TCTTATCTCCCTAA--AGTTGTAGCGGAGCAGATCGAA-GATGGTGAATCTTATCTCCATGTATC
23402716 GGCAATGGAGCAGATTT
63 GGCAATGGAGCAGATTT
23402733 AAGTCACCAT
Statistics
Matches: 528, Mismatches: 63, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
172 61 0.12
173 94 0.18
174 1 0.00
175 38 0.07
176 327 0.62
177 2 0.00
179 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (176 bp):
TCTTATCTCCCTAAAGTTGTAGCGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGGC
AATGGAGCAGATTTTACCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGA
GTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAAATTGAAGA
Found at i:23402254 original size:308 final size:308
Alignment explanation
Indices: 23401670--23402254 Score: 840
Period size: 308 Copynumber: 1.9 Consensus size: 308
23401660 GGCAGTTACG
* * * * *
23401670 GAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAG
1 GAGCAGACCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
** *
23401735 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCA
66 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGTAGTCTTATCTTCCTGAGGTAGCA
* * *
23401800 AGGAAACAACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGTG
131 AGAAAACAACTGAAAATTGAAGATCTTATCTCCCTAAGCAGCAGCGGAGCAGATCGAAGATGGTG
* *
23401865 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGAACTTATCTCCCTGAAGTTGC
196 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGAACTTATCTACCTGAAGTAGC
*
23401930 AGTGGAGCAAGTTGAAGTGATAGGTCTTATTTCCTTAAAGTTGTAGTA
261 AGTAGAGCAAGTTGAAGTGATAGGTCTTATTTCCTTAAAGTTGTAGTA
* *
23401978 GAGCAGACCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT-TGCCGCCAA
1 GAGCAGACCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
* * *
23402042 CCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAATG-AGTCTTATCTTTCTGGGGTAGCA
66 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGTAGTCTTATCTTCCTGAGGTAGCA
* **
23402106 A-AAAAGTAGACTGAAAATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACT
131 AGAAAA-CA-ACTGAAAATTGAAGATCTTATCTCCCT-AAGCAGCAGCGGAGCAGATCGAAGA-T
* * *
23402170 -GTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACT-AGCCTTATCTATCTGAG
192 GGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGA-ACTTATCTACCTGAA
*
23402233 GTAGCAAG-AGAGCAGGTTGAAG
256 GTAGC-AGTAGAGCAAGTTGAAG
23402255 AATGAGTCTT
Statistics
Matches: 245, Mismatches: 26, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
305 3 0.01
306 23 0.09
307 69 0.28
308 147 0.60
309 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (308 bp):
GAGCAGACCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGTAGTCTTATCTTCCTGAGGTAGCA
AGAAAACAACTGAAAATTGAAGATCTTATCTCCCTAAGCAGCAGCGGAGCAGATCGAAGATGGTG
AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACTGAACTTATCTACCTGAAGTAGC
AGTAGAGCAAGTTGAAGTGATAGGTCTTATTTCCTTAAAGTTGTAGTA
Found at i:23402473 original size:43 final size:45
Alignment explanation
Indices: 23402390--23402489 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 45
23402380 GATTTTACCA
* **
23402390 ATCTTATCTCCCTGAGGTAGCAAGAGAGCAGGTTAAAGATT-AAG
1 ATCTTATCTCCCTGAGGTAGCAAGAAAGCAGACTAAAGATTGAAG
** **
23402434 -TCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGGAGATTGAAG
1 ATCTTATCTCCCTGAGGTAGCAAGAAAGCAGACTAAAGATTGAAG
23402478 ATCTTATCTCCC
1 ATCTTATCTCCC
23402490 CAAGCAGTAG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
43 33 0.73
44 3 0.07
45 9 0.20
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
ATCTTATCTCCCTGAGGTAGCAAGAAAGCAGACTAAAGATTGAAG
Found at i:23402722 original size:348 final size:347
Alignment explanation
Indices: 23401986--23402732 Score: 1054
Period size: 348 Copynumber: 2.1 Consensus size: 347
23401976 TAGAGCAGAC
* * *
23401986 CAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTGCCGCCAACCTTATCTC
1 CAAAGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTT--CACCAACCTTATCTC
** * * * *
23402051 TTTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGGGGTAGCAAAAAAGTAGA
64 CCTGAGGTAGCAAGAGAGCAGGTTAAAGAATAAGTCTTATCTTTCTGAGGTAGCAAAAAAGCAGA
* **
23402116 CTGAAAATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACTGTGAATCTTAT
129 CTGAAAATTGAAGATCTTATCTCCCTCAAGCAGCAGCGGAGCAGATCGAAGACTGTGAATCTTAT
23402181 CTCCATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTATCTGAGGTAGCAAGAGAGC
194 CTCCATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTATCTGAGGTAGCAAGAGAGC
* *
23402246 AGGTTGAAGAATGAGTCTTATCTTTCTGGGGTAGCAAGAAAGCAGACTGAAAATTGAAGATCTTA
259 AGGTTG-AGAATGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAAATTGAAGATCTTA
* * *
23402311 TCTCCCTAAAGTTGTATCGGAGCAGAT
323 TCTCCCTAAAGATGTA-C-GAGAAAAT
* * *
23402338 CAAAGATGGTGAATCTTATCTCTATGTATTGGCAATGGAGCAGATTTT-ACCAATCTTATCTCCC
1 CAAAGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTTCACCAACCTTATCTCCC
* *
23402402 TGAGGTAGCAAGAGAGCAGGTTAAAGATTAAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACT
66 TGAGGTAGCAAGAGAGCAGGTTAAAGAATAAGTCTTATCTTTCTGAGGTAGCAAAAAAGCAGACT
* * * *
23402467 GGAGATTGAAGATCTTATCTCCC-CAAGCAGTAGTGGAGCAGATCGAAGA-TGGTGAATCTTATC
131 GAAAATTGAAGATCTTATCTCCCTCAAGCAGCAGCGGAGCAGATCGAAGACT-GTGAATCTTATC
* *
23402530 TCTATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
195 TCCATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTATCTGAGGTAGCAAGAGAGCA
* * * *
23402595 GGTTG-GCAATTGTAGTCTTATCTTCCTGATGTAGCAAGGAAGTAGACTGAAGATTGAAGATCTT
260 GGTTGAG-AA-TG-AGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAAATTGAAGATCTT
23402659 ATCTCCCTAAGCAGATGTA-GAGAAAAT
322 ATCTCCCTAA--AGATGTACGAGAAAAT
* *
23402686 TAAGGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTT
1 CAAAGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTT
23402733 AAGTCACCAT
Statistics
Matches: 353, Mismatches: 36, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
346 1 0.00
347 3 0.01
348 152 0.43
349 147 0.42
351 6 0.02
352 44 0.12
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (347 bp):
CAAAGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTTCACCAACCTTATCTCCC
TGAGGTAGCAAGAGAGCAGGTTAAAGAATAAGTCTTATCTTTCTGAGGTAGCAAAAAAGCAGACT
GAAAATTGAAGATCTTATCTCCCTCAAGCAGCAGCGGAGCAGATCGAAGACTGTGAATCTTATCT
CCATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTATCTGAGGTAGCAAGAGAGCAG
GTTGAGAATGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAAATTGAAGATCTTATCT
CCCTAAAGATGTACGAGAAAAT
Found at i:23406389 original size:18 final size:18
Alignment explanation
Indices: 23406329--23406389 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 18
23406319 TGGAAGCTTT
* *
23406329 TAAAACCGTTATATTTTAA
1 TAAAAACGTTGTA-TTTAA
* * *
23406348 TAAAATCGTTTGCATTTAG
1 TAAAAACG-TTGTATTTAA
*
23406367 GAAAAACGTTGTATTTAA
1 TAAAAACGTTGTATTTAA
23406385 TAAAA
1 TAAAA
23406390 CTGAGTTTTC
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
18 12 0.38
19 17 0.53
20 3 0.09
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (18 bp):
TAAAAACGTTGTATTTAA
Found at i:23407313 original size:17 final size:18
Alignment explanation
Indices: 23407280--23407319 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
23407270 CCATGTCGCT
23407280 TGCCCGTGTGAGCCCACA
1 TGCCCGTGTGAGCCCACA
23407298 TGCCCGTGTG-GCCCACA
1 TGCCCGTGTGAGCCCACA
*
23407315 CGCCC
1 TGCCC
23407320 CAATTGGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.12, C:0.45, G:0.28, T:0.15
Consensus pattern (18 bp):
TGCCCGTGTGAGCCCACA
Found at i:23407373 original size:54 final size:54
Alignment explanation
Indices: 23407309--23407427 Score: 229
Period size: 54 Copynumber: 2.2 Consensus size: 54
23407299 GCCCGTGTGG
*
23407309 CCCACACGCCCCAATTGGCCTTGTCCCGTATGGATCACACGGTCTGGCTCAAAC
1 CCCACACGCCCCAATTGGCCTTGGCCCGTATGGATCACACGGTCTGGCTCAAAC
23407363 CCCACACGCCCCAATTGGCCTTGGCCCGTATGGATCACACGGTCTGGCTCAAAC
1 CCCACACGCCCCAATTGGCCTTGGCCCGTATGGATCACACGGTCTGGCTCAAAC
23407417 CCCACACGCCC
1 CCCACACGCCC
23407428 GTGTGGACTA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.20, C:0.42, G:0.20, T:0.18
Consensus pattern (54 bp):
CCCACACGCCCCAATTGGCCTTGGCCCGTATGGATCACACGGTCTGGCTCAAAC
Found at i:23416799 original size:14 final size:14
Alignment explanation
Indices: 23416790--23416822 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23416780 CTAGAATATT
23416790 AAAACA-AGAATTA
1 AAAACACAGAATTA
23416803 AAAACACAGAATTA
1 AAAACACAGAATTA
*
23416817 AGAACA
1 AAAACA
23416823 AATCAAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.67, C:0.12, G:0.09, T:0.12
Consensus pattern (14 bp):
AAAACACAGAATTA
Found at i:23419113 original size:6 final size:6
Alignment explanation
Indices: 23419102--23419131 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
23419092 TAGCTATAAT
23419102 TAATTA TAATTA TAATTA TAATTA TAATTA
1 TAATTA TAATTA TAATTA TAATTA TAATTA
23419132 AATAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATTA
Found at i:23422269 original size:20 final size:20
Alignment explanation
Indices: 23422244--23422281 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23422234 CCAATGTGGT
* *
23422244 CCACACAGCCTCACACATAC
1 CCACACAACATCACACATAC
23422264 CCACACAACATCACACAT
1 CCACACAACATCACACAT
23422282 GCCTGTGTGG
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:0.39, C:0.47, G:0.03, T:0.11
Consensus pattern (20 bp):
CCACACAACATCACACATAC
Found at i:23425831 original size:18 final size:18
Alignment explanation
Indices: 23425808--23425843 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23425798 ATTACTTAGC
23425808 CTTTAAGCTAGTCATTTT
1 CTTTAAGCTAGTCATTTT
23425826 CTTTAAGCTAGTCATTTT
1 CTTTAAGCTAGTCATTTT
23425844 GTCCATTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (18 bp):
CTTTAAGCTAGTCATTTT
Found at i:23427391 original size:40 final size:40
Alignment explanation
Indices: 23427336--23427453 Score: 191
Period size: 40 Copynumber: 3.0 Consensus size: 40
23427326 GAAAAAAAAA
23427336 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
* *
23427376 TATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
* * *
23427416 TATAACCGGGTTAAGTCCCAAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
23427454 GTTACATCCG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
Found at i:23431486 original size:16 final size:17
Alignment explanation
Indices: 23431465--23431506 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
23431455 TCTGTTCTCT
*
23431465 TTTTTTTGTTTC-TTTA
1 TTTTTTTATTTCTTTTA
23431481 -TTTTTTATTTCTTTTA
1 TTTTTTTATTTCTTTTA
23431497 TTTCTTTTAT
1 TTT-TTTTAT
23431507 GTTTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 10 0.45
16 4 0.18
17 2 0.09
18 6 0.27
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTTTTATTTCTTTTA
Found at i:23431505 original size:25 final size:24
Alignment explanation
Indices: 23431468--23431514 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
23431458 GTTCTCTTTT
* *
23431468 TTTTGTTTCTTTATTTTTTATTTC
1 TTTTATTTCTTTATGTTTTATTTC
23431492 TTTTATTTCTTTTATGTTTTATT
1 TTTTATTTC-TTTATGTTTTATT
23431515 ATATTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.11, C:0.06, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTTATTTCTTTATGTTTTATTTC
Found at i:23431527 original size:8 final size:8
Alignment explanation
Indices: 23431516--23431549 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
23431506 TGTTTTATTA
23431516 TATTATAT
1 TATTATAT
23431524 TATTAT-T
1 TATTATAT
*
23431531 TAATATAT
1 TATTATAT
23431539 TATTATAT
1 TATTATAT
23431547 TAT
1 TAT
23431550 ATACTTAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:23432596 original size:19 final size:19
Alignment explanation
Indices: 23432572--23432634 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
23432562 AATCTTTAAG
23432572 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATGT
*
23432591 GATATGGAATCTTAGATGT
1 GATATGCAATCTTAGATGT
*
23432610 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATGT
23432629 GATATG
1 GATATG
23432635 ATATGATATG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATGT
Found at i:23432634 original size:5 final size:5
Alignment explanation
Indices: 23432624--23432653 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
23432614 TGCAATCTTA
23432624 GATAT GATAT GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT
23432654 ACAATCTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
GATAT
Found at i:23439305 original size:23 final size:23
Alignment explanation
Indices: 23439255--23439305 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
23439245 ACCTTTAATG
23439255 ATAATAATGTATAAATAAAAAAC
1 ATAATAATGTATAAATAAAAAAC
**
23439278 A-AATAATAGTATAAA-AAATGAC
1 ATAATAAT-GTATAAATAAAAAAC
23439300 ATAATA
1 ATAATA
23439306 TAAAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (23 bp):
ATAATAATGTATAAATAAAAAAC
Found at i:23439374 original size:22 final size:22
Alignment explanation
Indices: 23439311--23439374 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 22
23439301 TAATATAAAA
23439311 TAAT-TATAATATAT-AAT-AT
1 TAATGTATAATATATAAATAAT
* * *
23439330 GAAAGTAT-ATATGTAAA-AA-
1 TAATGTATAATATATAAATAAT
23439349 TAATGTATAATATATAAATAAT
1 TAATGTATAATATATAAATAAT
23439371 TAAT
1 TAAT
23439375 AAAGATATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
19 13 0.39
20 14 0.42
21 2 0.06
22 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (22 bp):
TAATGTATAATATATAAATAAT
Found at i:23439384 original size:19 final size:18
Alignment explanation
Indices: 23439360--23439408 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
23439350 AATGTATAAT
23439360 ATATAAATAATTAATAAAG
1 ATATAAATAATTAA-AAAG
* * *
23439379 ATATAATACAAGTAAAAAT
1 ATATAA-ATAATTAAAAAG
23439398 ATATAAATAAT
1 ATATAAATAAT
23439409 AATGTAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
ATATAAATAATTAAAAAG
Found at i:23439404 original size:38 final size:36
Alignment explanation
Indices: 23439357--23439459 Score: 111
Period size: 38 Copynumber: 2.7 Consensus size: 36
23439347 AATAATGTAT
23439357 AATATATAAATAATTAATAAAGAT-ATAATACAAGTAAA
1 AATATATAAATAA-TAATAAA-ATAATAATA-AAGTAAA
**
23439395 AATATATAAATAATAATGTAAAATAATAATAATTTAAA
1 AATATATAAATAATAA--TAAAATAATAATAAAGTAAA
23439433 AATATAT-AATAAATAATAATAATAATA
1 AATATATAAAT-AATAATAA-AATAATA
23439460 TGAAATAATA
Statistics
Matches: 58, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
36 3 0.05
37 13 0.22
38 32 0.55
39 10 0.17
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (36 bp):
AATATATAAATAATAATAAAATAATAATAAAGTAAA
Found at i:23439424 original size:16 final size:16
Alignment explanation
Indices: 23439403--23439469 Score: 68
Period size: 16 Copynumber: 4.2 Consensus size: 16
23439393 AAAATATATA
*
23439403 AATAATAATGTAAAAT
1 AATAATAATATAAAAT
*
23439419 AATAATAAT-TTAAA-
1 AATAATAATATAAAAT
23439433 AATATATAATA-AATAAT
1 AATA-ATAATATAA-AAT
*
23439450 AATAATAATATGAAAT
1 AATAATAATATAAAAT
23439466 AATA
1 AATA
23439470 TATGGTTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
14 4 0.09
15 10 0.23
16 24 0.56
17 5 0.12
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
AATAATAATATAAAAT
Found at i:23439605 original size:20 final size:19
Alignment explanation
Indices: 23439577--23439618 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
23439567 AGGAAGATAT
23439577 TAAGTAAT-ATAATAAAATA
1 TAAGTAATAAT-ATAAAATA
23439596 TAAGTAAATAATATAAAATA
1 TAAGT-AATAATATAAAATA
23439616 TAA
1 TAA
23439619 TACATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 14 0.67
21 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAGTAATAATATAAAATA
Found at i:23441477 original size:21 final size:23
Alignment explanation
Indices: 23441430--23441480 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
23441420 TGATAATAGA
23441430 AAAATATGAAGTAATAATATAAT
1 AAAATATGAAGTAATAATATAAT
23441453 AAAATATG-AGTAAATAAT-T-AT
1 AAAATATGAAGT-AATAATATAAT
23441474 AAAATAT
1 AAAATAT
23441481 ATATAATACG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.33
22 4 0.15
23 14 0.52
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (23 bp):
AAAATATGAAGTAATAATATAAT
Found at i:23443317 original size:7 final size:6
Alignment explanation
Indices: 23443271--23443338 Score: 59
Period size: 7 Copynumber: 10.8 Consensus size: 6
23443261 CTTCTATTTC
* *
23443271 AAAAA- AAAAAG AAAAAG AGAAAA- AAAATAA AAAAAT AAAAAGG AAAAAG
1 AAAAAG AAAAAG AAAAAG A-AAAAG AAAA-AG AAAAAG AAAAA-G AAAAAG
23443320 AAAAGAG AAAAGAG AAAAA
1 AAAA-AG AAAA-AG AAAAA
23443339 TGGAGAGGCT
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
5 8 0.15
6 21 0.38
7 26 0.47
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:23444439 original size:79 final size:79
Alignment explanation
Indices: 23444285--23444886 Score: 715
Period size: 79 Copynumber: 7.4 Consensus size: 79
23444275 CAAAATTTAG
*
23444285 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTA
**
23444350 GTAGAGCAGATCGAAGACT
61 GCGGAGCAGATCGAAGACT
* *
23444369 CACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCTCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
23444434 GCAGATCGAAGACT
66 GCAGATCGAAGACT
* * * * *
23444448 CGCCTTAATCCCTTAAGTAGTAGGGTAACAAGTTCGCAGATCTTATCGCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
23444513 GCAGATCGATGACGACT
66 GCAGATCGA--A-GACT
* * * *
23444530 CACCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTA
* * *
23444595 GTGGAGTAGATTGAAGACT
61 GCGGAGCAGATCGAAGACT
*
23444614 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
*
23444679 GTAGATCGAAGACT
66 GCAGATCGAAGACT
* *
23444693 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAAATCTTATCTCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
*
23444758 ACAGATCGATGACGACT
66 GCAGATCGA--A-GACT
* *
23444775 CGCCTTAATCCCCTAAGCAGTAGGGAAACAGGTTAAATTTGCAGATCTTA--TCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTA
* *
23444838 GCAGAGCAAATCGAAGACGAT
61 GCGGAGCAGATCGAAGAC--T
* *
23444859 GCACCTTAA-CCCCTAAGCAGTAGCGTAA
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAA
23444887 TAGACCAAAG
Statistics
Matches: 457, Mismatches: 42, Indels: 38
0.85 0.08 0.07
Matches are distributed among these distances:
79 218 0.48
81 2 0.00
82 75 0.16
83 2 0.00
84 87 0.19
85 32 0.07
87 41 0.09
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (79 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
GCAGATCGAAGACT
Found at i:23444625 original size:166 final size:160
Alignment explanation
Indices: 23444285--23444886 Score: 707
Period size: 166 Copynumber: 3.7 Consensus size: 160
23444275 CAAAATTTAG
* *
23444285 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAAC-----AAGTTCGCAGATCTTATCTCCCTAAGCAGTA
*
23444350 GTAGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCA---CAGATCT
61 GCAGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-ATTGCAGATCT
* *
23444412 TATCTCTCTAAGCAGTAGCGGAGCAGATCGAAGACT
125 TATCTCCCTAAGCAGTAGCGGAGCAGATTGAAGACT
* * * *
23444448 CGCCTTAATCCCTTAAGTAGTAGGGTAACAAGTTCGCAGATCTTATCGCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAAGTTCGCAGATCTTATCTCCCTAAGCAGTAGCAGA
* *
23444513 GCAGATCGATGACGACTCACCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCT
66 GCAGATCGA--A-GACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTT--A-TTGCAGATCT
* *
23444578 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACT
125 TATCTCCCTAAGCAGTAGCGGAGCAGATTGAAGACT
* *
23444614 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAAGTTCGCAGATCTTATCTCCCTAAGCAGTAGCAGA
* * * *
23444679 GTAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-T-TCGCAAATCTTATCTC
66 GCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTATTGCAGATCTTATCTC
* *
23444742 CCTAAGCAGTAGCGGAACAGATCGATGACGACT
131 CCTAAGCAGTAGCGGAGCAGAT---TGAAGACT
* * *
23444775 CGCCTTAATCCCCTAAGCAGTAGGGAAACAGGTTAAATTTGCAGATCTTA--TCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAAC-----AAGTTCGCAGATCTTATCTCCCTAAGCAGTA
* *
23444838 GCAGAGCAAATCGAAGACGATGCACCTTAA-CCCCTAAGCAGTAGCGTAA
61 GCAGAGCAGATCGAAGAC--T-CACCTTAATCCCCTAAGCAGTAGGGTAA
23444887 TAGACCAAAG
Statistics
Matches: 383, Mismatches: 37, Indels: 35
0.84 0.08 0.08
Matches are distributed among these distances:
158 72 0.19
160 1 0.00
161 72 0.19
162 2 0.01
163 61 0.16
164 29 0.08
166 139 0.36
167 7 0.02
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (160 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAAGTTCGCAGATCTTATCTCCCTAAGCAGTAGCAGA
GCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTATTGCAGATCTTATCTC
CCTAAGCAGTAGCGGAGCAGATTGAAGACT
Found at i:23444717 original size:245 final size:245
Alignment explanation
Indices: 23444287--23444886 Score: 972
Period size: 245 Copynumber: 2.4 Consensus size: 245
23444277 AAATTTAGCG
23444287 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
23444352 AGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCT
66 AGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCT
* * *
23444417 CTCTAAGCAGTAGCGGAGCAGATCGAAGACTCGCCTTAATCCCTTAAGTAGTAGGGTAACAAGTT
131 CCCTAAGCAGTAGCGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAAGTT
* *
23444482 CGCAGATCTTATCGCCCTAAGCAGTAGCGGAGCAGATCGATGACGACTCA
196 CGCAAATCTTATCGCCCTAAGCAGTAGCGGAACAGATCGATGACGACTCA
* *
23444532 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
* * * * *
23444597 GGAGTAGATTGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCT
66 AGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCT
* *
23444662 CCCTAAGCAGTAGCGGAGTAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
131 CCCTAAGCAGTAGCGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAAGTT
* *
23444727 CGCAAATCTTATCTCCCTAAGCAGTAGCGGAACAGATCGATGACGACTCG
196 CGCAAATCTTATCGCCCTAAGCAGTAGCGGAACAGATCGATGACGACTCA
* *
23444777 CCTTAATCCCCTAAGCAGTAGGGAAACAGGTTAAATTTGCAGATCTTA--TCCCTAAGCAGTAGC
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
* *
23444840 AGAGCAAATCGAAGACGATGCACCTTAA-CCCCTAAGCAGTAGCGTAA
66 AGAGCAGATCGAAGAC--T-CACCTTAATCCCCTAAGCAGTAGGGTAA
23444887 TAGACCAAAG
Statistics
Matches: 326, Mismatches: 26, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
243 26 0.08
245 293 0.90
246 7 0.02
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (245 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
AGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCT
CCCTAAGCAGTAGCGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAAGTT
CGCAAATCTTATCGCCCTAAGCAGTAGCGGAACAGATCGATGACGACTCA
Found at i:23444761 original size:38 final size:38
Alignment explanation
Indices: 23444624--23444761 Score: 133
Period size: 38 Copynumber: 3.6 Consensus size: 38
23444614 CGCCTTAATC
*
23444624 CCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTCGCAAATCTTATCT
** *
23444662 CCCTAAGCAGTAGCGG-AGTA-GATCG-AAGACTCGCCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTCGCAA-A-T---CTT-ATCT
23444703 CCCTAAGCAGTAGGGTAACAGGTTCGCAAATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTCGCAAATCTTATCT
23444741 CCCTAAGCAGTAGCGG-AACAG
1 CCCTAAGCAGTAG-GGTAACAG
23444762 ATCGATGACG
Statistics
Matches: 81, Mismatches: 7, Indels: 24
0.72 0.06 0.21
Matches are distributed among these distances:
36 1 0.01
37 8 0.10
38 37 0.46
39 4 0.05
40 2 0.02
41 19 0.23
42 8 0.10
43 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (38 bp):
CCCTAAGCAGTAGGGTAACAGGTTCGCAAATCTTATCT
Found at i:23445224 original size:175 final size:175
Alignment explanation
Indices: 23444976--23445359 Score: 624
Period size: 175 Copynumber: 2.2 Consensus size: 175
23444966 CTTTGACAGA
* **
23444976 GAGCAAATCGAAGACATAGCAGATTTGACTTCCGGATGTTCTCACACCAAAACAGATCCAAGATA
1 GAGCAAATCGAAGACATAGCAGATTTGACTTTCAAATGTTCTCACACCAAAACAGATCCAAGATA
* * * *
23445041 ACAGATCTGGAATCTCCATTTTGACGGAGAGCAGATACATGGTAGATCTAACCTTCAGATGATTT
66 ACAGATCTGGAATCTCCATTTCGACGGAGAGCAGATACATAGCAGAGCTAACCTTCAGATGATTT
* * *
23445106 TACTGAAGCAGATCCAAAATGATTTGGCATCCTTGTGTTCACAAG
131 TAATGAAGCAGATCCAAAATGATTCGGCATCCTTATGTTCACAAG
*
23445151 GAGCAAATCGAAGACATAGCAGATTTGACTTTCAAATGTTCTCACACCAAAGCAGATCCAAGATA
1 GAGCAAATCGAAGACATAGCAGATTTGACTTTCAAATGTTCTCACACCAAAACAGATCCAAGATA
* *
23445216 ATAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGAGCTAACCTTCAGATGATTT
66 ACAGATCTGGAATCTCCATTTCGACGGAGAGCAGATACATAGCAGAGCTAACCTTCAGATGATTT
* *
23445281 TAATGAAGCAGATCCAAGATGATTCGGCATCTTTATGTTCACAAG
131 TAATGAAGCAGATCCAAAATGATTCGGCATCCTTATGTTCACAAG
*
23445326 GAGCAAATCGAAGACATAGCAGATTTGGCTTTCA
1 GAGCAAATCGAAGACATAGCAGATTTGACTTTCA
23445360 CGTGTTTACG
Statistics
Matches: 193, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
175 193 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (175 bp):
GAGCAAATCGAAGACATAGCAGATTTGACTTTCAAATGTTCTCACACCAAAACAGATCCAAGATA
ACAGATCTGGAATCTCCATTTCGACGGAGAGCAGATACATAGCAGAGCTAACCTTCAGATGATTT
TAATGAAGCAGATCCAAAATGATTCGGCATCCTTATGTTCACAAG
Found at i:23445297 original size:86 final size:86
Alignment explanation
Indices: 23445028--23445300 Score: 220
Period size: 86 Copynumber: 3.1 Consensus size: 86
23445018 CACACCAAAA
* * * * *
23445028 CAGATCCAAGATAACAGATCTGGAATCTCCATTTTGACGGAGAGCAGATACATGGTAGATCTAAC
1 CAGATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAAC
*
23445093 CTTCAGATGATTTTACTGAAG
66 CTTCAGATGATTTTAATGAAG
* ** * *
23445114 CAGATCC-A-A-AAT-GATTTGGCATC-CTTGTGTTC-ACAAGGAGCA-AATCGAAGACATAGCA
1 CAGATCCAAGATAATAGATCTGGCATCTC-CAT-TTCGAC--GGAG-AGCA--G-ATACATAGCA
* * * * * **
23445172 GATTTGACTTTCAAATG-TTCTCACACCAAAG
58 GATCTAACCTTCAGATGATT-TTA-A-TGAAG
*
23445203 CAGATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGAGCTAAC
1 CAGATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAAC
23445268 CTTCAGATGATTTTAATGAAG
66 CTTCAGATGATTTTAATGAAG
23445289 CAGATCCAAGAT
1 CAGATCCAAGAT
23445301 GATTCGGCAT
Statistics
Matches: 137, Mismatches: 31, Indels: 38
0.67 0.15 0.18
Matches are distributed among these distances:
81 1 0.01
82 12 0.09
83 4 0.03
84 6 0.04
85 2 0.01
86 25 0.18
87 23 0.17
88 23 0.17
89 13 0.09
90 2 0.01
91 6 0.04
92 6 0.04
93 13 0.09
94 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (86 bp):
CAGATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAAC
CTTCAGATGATTTTAATGAAG
Found at i:23445840 original size:19 final size:19
Alignment explanation
Indices: 23445816--23445893 Score: 124
Period size: 19 Copynumber: 4.2 Consensus size: 19
23445806 AATCTTTAAG
*
23445816 GATATGCAATCTTCGATAT
1 GATATGCAATCTTAGATAT
*
23445835 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
23445854 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
23445873 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
23445890 GATA
1 GATA
23445894 CGATATGATA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
17 17 0.30
19 39 0.70
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:23445846 original size:36 final size:35
Alignment explanation
Indices: 23445806--23445921 Score: 104
Period size: 38 Copynumber: 3.4 Consensus size: 35
23445796 ATGGAAATAT
23445806 AATCTTTAAGGATATGCAATCTTCGATATGATATGC
1 AATC-TTAAGGATATGCAATCTTCGATATGATATGC
*
23445842 AATCTTAGATGTGATATGCAATCTTAGATATGATA--C
1 AATCTTA-A-G-GATATGCAATCTTCGATATGATATGC
*
23445878 AATCTT-A-GATATG--A--TACGATATGATATGC
1 AATCTTAAGGATATGCAATCTTCGATATGATATGC
* *
23445907 AATCTTGACGATATG
1 AATCTTAAGGATATG
23445922 ATTTTGTAAT
Statistics
Matches: 70, Mismatches: 3, Indels: 19
0.76 0.03 0.21
Matches are distributed among these distances:
27 10 0.14
29 8 0.11
30 1 0.01
31 12 0.17
34 1 0.01
35 3 0.04
36 12 0.17
37 1 0.01
38 22 0.31
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (35 bp):
AATCTTAAGGATATGCAATCTTCGATATGATATGC
Found at i:23445873 original size:14 final size:15
Alignment explanation
Indices: 23445854--23445891 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
23445844 TCTTAGATGT
23445854 GATATG-CAATCTTA
1 GATATGACAATCTTA
23445868 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
23445885 GATATGA
1 GATATGA
23445892 TACGATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:23456419 original size:27 final size:27
Alignment explanation
Indices: 23456386--23456563 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
23456376 ATATTGAGTC
* *
23456386 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
23456413 CGTACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
23456440 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
23456468 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
23456495 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
23456522 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
23456549 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23456564 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:23456546 original size:54 final size:55
Alignment explanation
Indices: 23456386--23456563 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 55
23456376 ATATTGAGTC
* * * * * * *
23456386 CGCACACTCAGTGCTATATAATC-AACTCGTACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
23456440 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
23456495 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
23456549 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23456564 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
54 60 0.58
55 44 0.42
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:23464510 original size:27 final size:27
Alignment explanation
Indices: 23464480--23464657 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23464470 ATATTGAGTC
* * * *
23464480 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
23464507 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23464534 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
23464562 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
23464589 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
23464616 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23464643 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23464658 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:23464619 original size:82 final size:81
Alignment explanation
Indices: 23464501--23464656 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23464491 TGCTATATAA
* *
23464501 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
23464566 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
23464583 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
23464647 CACTTAGTGC
65 CACTTAGTGC
23464657 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:23469806 original size:9 final size:9
Alignment explanation
Indices: 23469774--23469842 Score: 68
Period size: 10 Copynumber: 7.4 Consensus size: 9
23469764 CCGTCATGGT
23469774 AATTTTTTGA
1 AATTTTTT-A
*
23469784 AATTTTGTGA
1 AATTTT-TTA
*
23469794 AATTTTTTT
1 AATTTTTTA
*
23469803 AATTTATTTT
1 AATTT-TTTA
*
23469813 TATTTTTTA
1 AATTTTTTA
23469822 AATTTTTTA
1 AATTTTTTA
23469831 AA-TTTTTA
1 AATTTTTTA
23469839 AATT
1 AATT
23469843 ATTCATTGAG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
8 8 0.16
9 20 0.40
10 21 0.42
11 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (9 bp):
AATTTTTTA
Found at i:23469818 original size:18 final size:18
Alignment explanation
Indices: 23469797--23469845 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
23469787 TTTGTGAAAT
* *
23469797 TTTTTTAATTTATTTTTA
1 TTTTTTAAATTATTTTAA
23469815 TTTTTTAAATT-TTTTAA
1 TTTTTTAAATTATTTTAA
*
23469832 ATTTTTAAATTATT
1 TTTTTTAAATTATT
23469846 CATTGAGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTAAATTATTTTAA
Found at i:23472567 original size:31 final size:31
Alignment explanation
Indices: 23472529--23472598 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
23472519 CGTGTAACCT
23472529 ACACGGGCGTGTGAGCCCACACAGGCAAGGC
1 ACACGGGCGTGTGAGCCCACACAGGCAAGGC
*
23472560 ACACGGGCGTGTGGGCCCACACAGGCAAGGC
1 ACACGGGCGTGTGAGCCCACACAGGCAAGGC
23472591 ACACGGGC
1 ACACGGGC
23472599 ATGTAAGCTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.24, C:0.33, G:0.37, T:0.06
Consensus pattern (31 bp):
ACACGGGCGTGTGAGCCCACACAGGCAAGGC
Found at i:23474328 original size:23 final size:23
Alignment explanation
Indices: 23474298--23474344 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
23474288 CCTCAAAGTT
23474298 TGAAAACCCTAGCTACTTAGTCC
1 TGAAAACCCTAGCTACTTAGTCC
*
23474321 TGAAAACCCTAGCTATTTAGTCC
1 TGAAAACCCTAGCTACTTAGTCC
23474344 T
1 T
23474345 TCCTAGTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (23 bp):
TGAAAACCCTAGCTACTTAGTCC
Found at i:23475596 original size:85 final size:85
Alignment explanation
Indices: 23475500--23475731 Score: 324
Period size: 85 Copynumber: 2.7 Consensus size: 85
23475490 AAAAACCCAG
* *
23475500 TGGCAGTTTGTTTAAATTGCTAA-TATGTTGTGCACTCACAACAAGTGGCAGTAATTGCAAATAT
1 TGGCAGTTTGTTTAAATTGC-AACCATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAATAT
23475564 GTGACTCGTCCACAAACCAAA
65 GTGACTCGTCCACAAACCAAA
* *
23475585 TGGCAGTTTGTTTAATTTGCAACCATGTTATGCACTCACAACAAGTGGCAGTAACTGCAAATATG
1 TGGCAGTTTGTTTAAATTGCAACCATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAATATG
* * * *
23475650 TGGCTCGTCCCCAAACCCAG
66 TGACTCGTCCACAAACCAAA
* * * *
23475670 TGGTAGATTGTTT-AATCTGCAACCATGTTGTGCACTCACAACAAGTGACAGTAACTGGAAAT
1 TGGCAGTTTGTTTAAAT-TGCAACCATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAAT
23475732 GTTTTTATCT
Statistics
Matches: 131, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
84 4 0.03
85 127 0.97
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (85 bp):
TGGCAGTTTGTTTAAATTGCAACCATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAATATG
TGACTCGTCCACAAACCAAA
Found at i:23480630 original size:24 final size:25
Alignment explanation
Indices: 23480577--23480624 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
23480567 TTGGCCATCT
23480577 CGAGCTTCCTGTTATATAGTTCTTG
1 CGAGCTTCCTGTTATATAGTTCTTG
23480602 CGAGCTTCCTGTTA-ATAGTTCTT
1 CGAGCTTCCTGTTATATAGTTCTT
23480625 CGGAGCATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.44
Consensus pattern (25 bp):
CGAGCTTCCTGTTATATAGTTCTTG
Found at i:23480717 original size:26 final size:26
Alignment explanation
Indices: 23480688--23480832 Score: 81
Period size: 26 Copynumber: 5.8 Consensus size: 26
23480678 CTTATGAGTG
23480688 TCCCGA-TATATGGCTCTTCGTGAGCT
1 TCCCGATTA-ATGGCTCTTCGTGAGCT
* * * *
23480714 TCCCAATTAAAGGCTCTTTGTGAGTT
1 TCCCGATTAATGGCTCTTCGTGAGCT
** *
23480740 TCCTTATTAATAGCTC-TC-TGGAGCT
1 TCCCGATTAATGGCTCTTCGT-GAGCT
* * *
23480765 TCCCGA-T-ATGGCTC-GCTTGAACT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* * *
23480788 TCCCGA-TATATGTCTATCCG-GAGCT
1 TCCCGATTA-ATGGCTCTTCGTGAGCT
*
23480813 CCCCGATTAATGGCTCTTCG
1 TCCCGATTAATGGCTCTTCG
23480833 AAGCTACCCG
Statistics
Matches: 88, Mismatches: 24, Indels: 15
0.69 0.19 0.12
Matches are distributed among these distances:
23 18 0.20
24 3 0.03
25 31 0.35
26 34 0.39
27 2 0.02
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (26 bp):
TCCCGATTAATGGCTCTTCGTGAGCT
Found at i:23481492 original size:61 final size:61
Alignment explanation
Indices: 23481397--23481519 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
23481387 GCCAAAATAG
23481397 GGTACGAGGCATTATCGGACTTAATCATACACAATATGTAAAAACCGGGCTACAAAATTTC
1 GGTACGAGGCATTATCGGACTTAATCATACACAATATGTAAAAACCGGGCTACAAAATTTC
*
23481458 GGTACGAGGCATTATCGGACTTAATCATACACAATATGTAAAAACTGGGCTACAAAATTTC
1 GGTACGAGGCATTATCGGACTTAATCATACACAATATGTAAAAACCGGGCTACAAAATTTC
23481519 G
1 G
23481520 CTCATATCAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (61 bp):
GGTACGAGGCATTATCGGACTTAATCATACACAATATGTAAAAACCGGGCTACAAAATTTC
Found at i:23485183 original size:13 final size:13
Alignment explanation
Indices: 23485165--23485189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23485155 GTCTAACACA
23485165 TGGCCGTGTGACT
1 TGGCCGTGTGACT
23485178 TGGCCGTGTGAC
1 TGGCCGTGTGAC
23485190 CCCTTCACCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.24, G:0.40, T:0.28
Consensus pattern (13 bp):
TGGCCGTGTGACT
Found at i:23486671 original size:30 final size:30
Alignment explanation
Indices: 23486637--23486696 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
23486627 AATGACCGAA
*
23486637 GAATGTGAACTTTCTACTTACGACCGTCAC
1 GAATGTGAACTTTCTACTTACGACCATCAC
23486667 GAATGTGAACTTTCTACTTACGACCATCAC
1 GAATGTGAACTTTCTACTTACGACCATCAC
23486697 AAATTAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (30 bp):
GAATGTGAACTTTCTACTTACGACCATCAC
Found at i:23497151 original size:3 final size:3
Alignment explanation
Indices: 23497143--23497167 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23497133 TTGGGTCCCC
23497143 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
23497168 TTCCATATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:23504146 original size:29 final size:30
Alignment explanation
Indices: 23504112--23504177 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
23504102 TAAGAATTAG
* *
23504112 ATTAAATTAGTTCTTCTATTATTAAATA-A
1 ATTAAATTAATTCTTCTACTATTAAATAGA
* *
23504141 ATTAAATTAATTTTTGTACTATTAAATAGA
1 ATTAAATTAATTCTTCTACTATTAAATAGA
23504171 ATTAAAT
1 ATTAAAT
23504178 AAATCTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 24 0.75
30 8 0.25
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (30 bp):
ATTAAATTAATTCTTCTACTATTAAATAGA
Found at i:23504284 original size:16 final size:16
Alignment explanation
Indices: 23504263--23504297 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
23504253 CGCAAATGAA
23504263 AAAAAAAGTATTTTCC
1 AAAAAAAGTATTTTCC
23504279 AAAAAAAGTATTTTCC
1 AAAAAAAGTATTTTCC
23504295 AAA
1 AAA
23504298 TTCTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (16 bp):
AAAAAAAGTATTTTCC
Found at i:23510782 original size:42 final size:42
Alignment explanation
Indices: 23510681--23510847 Score: 201
Period size: 42 Copynumber: 4.0 Consensus size: 42
23510671 ACAGTTCCGC
* * * *
23510681 ACCAATGCCATATCCCAAATATGGTCTTACATGTAA-CTCGT
1 ACCAATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT
* * * * *
23510722 ATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCAT
1 ACCAATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCAT
23510765 ACCAATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT
1 ACCAATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT
** * *
23510807 ATTAATACCATATCCAAGATATGGTCTTACACGAAATCTCA
1 ACCAATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
23510848 AAAACCCTAA
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
41 7 0.07
42 88 0.83
43 11 0.10
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (42 bp):
ACCAATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT
Found at i:23514802 original size:22 final size:23
Alignment explanation
Indices: 23514776--23514821 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
23514766 CAACCAAACC
23514776 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
23514798 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
23514821 A
1 A
23514822 CGTCATCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:23514827 original size:23 final size:23
Alignment explanation
Indices: 23514783--23514827 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23514773 ACCAATTCAA
*
23514783 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
23514806 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
23514828 CTCATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:23518700 original size:2 final size:2
Alignment explanation
Indices: 23518693--23518727 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
23518683 TCTTTTGGGG
23518693 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
23518728 GCTACTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:23518858 original size:23 final size:24
Alignment explanation
Indices: 23518830--23518874 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
23518820 AGAAAAGATC
23518830 TTTCTTTCCA-GTGTTTGTTCCCT
1 TTTCTTTCCAGGTGTTTGTTCCCT
* *
23518853 TTTCTTTGCAGGTTTTTGTTCC
1 TTTCTTTCCAGGTGTTTGTTCC
23518875 TTGATTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.04, C:0.22, G:0.16, T:0.58
Consensus pattern (24 bp):
TTTCTTTCCAGGTGTTTGTTCCCT
Found at i:23526489 original size:15 final size:15
Alignment explanation
Indices: 23526471--23526523 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
23526461 GACGGGTTAG
23526471 ATAATTTTAAATTTT
1 ATAATTTTAAATTTT
*
23526486 ATAAGTTATAAATATTT
1 ATAA-TTTTAAAT-TTT
* *
23526503 A-AATTTTAAATATA
1 ATAATTTTAAATTTT
23526517 ATAATTT
1 ATAATTT
23526524 ATTTTACTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 2 0.06
15 16 0.52
16 9 0.29
17 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATAATTTTAAATTTT
Found at i:23526851 original size:27 final size:28
Alignment explanation
Indices: 23526812--23526866 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
23526802 AAATTCAAAT
* * *
23526812 AATAAACTCATTATTGTCC-AAACTCAA
1 AATAAACTAATTATAGCCCAAAACTCAA
23526839 AATAAACTAATTATAGCCCAAAACTCAA
1 AATAAACTAATTATAGCCCAAAACTCAA
23526867 GTCCAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.25
Consensus pattern (28 bp):
AATAAACTAATTATAGCCCAAAACTCAA
Found at i:23527088 original size:23 final size:24
Alignment explanation
Indices: 23527033--23527090 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 24
23527023 ACTATTGGTG
23527033 CTATATC-TTTTATTATAATAATA
1 CTATATCATTTTATTATAATAATA
23527056 CTTAATATATCATTTTATTAT-ATAATA
1 C----TATATCATTTTATTATAATAATA
23527083 CTATATCA
1 CTATATCA
23527091 CATACTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
23 8 0.27
27 13 0.43
28 9 0.30
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (24 bp):
CTATATCATTTTATTATAATAATA
Found at i:23527337 original size:18 final size:20
Alignment explanation
Indices: 23527314--23527354 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
23527304 TATCATAATC
23527314 TATAATA-TAATA-ATTATA
1 TATAATAGTAATACATTATA
*
23527332 TATAATAGTACTACATTATA
1 TATAATAGTAATACATTATA
23527352 TAT
1 TAT
23527355 TACTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 4 0.20
20 9 0.45
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (20 bp):
TATAATAGTAATACATTATA
Found at i:23546321 original size:46 final size:46
Alignment explanation
Indices: 23546271--23546443 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
23546261 TTGAGCATCC
23546271 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* *
23546317 GAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G--TCT
* * * *
23546364 GAGCTCATTGAGTTGTGTCCGAGTTCACTTATGGATGCGAATGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
*
23546410 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23546444 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
45 1 0.01
46 60 0.57
47 26 0.25
48 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:23546424 original size:93 final size:93
Alignment explanation
Indices: 23546265--23546436 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
23546255 GGATGGTTGA
* *
23546265 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAACTCGTTGAGT
23546330 TGAGTCCGAGTTCAAGAGATGTAACTAG
66 TGAGTCCGAGTTCAAGAGATGTAACTAG
* * *
23546358 GCATCCGAGCTCATTGAGTTGTGTCCGAGTTCACTTATGGATGCGAATGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAACTCGTTGAGT
23546423 TGAGTCCGAGTTCA
66 TGAGTCCGAGTTCA
23546437 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAACTCGTTGAGT
TGAGTCCGAGTTCAAGAGATGTAACTAG
Found at i:23548067 original size:37 final size:37
Alignment explanation
Indices: 23548026--23548097 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
23548016 CGCATTATAT
23548026 GTACAAACTTGTTGTACACAAATAGAGAACATAGTAC
1 GTACAAACTTGTTGTACACAAATAGAGAACATAGTAC
*
23548063 GTACAAACTTGTTGTATACAAATAGAGAACATAGT
1 GTACAAACTTGTTGTACACAAATAGAGAACATAGT
23548098 TAAAATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (37 bp):
GTACAAACTTGTTGTACACAAATAGAGAACATAGTAC
Found at i:23549969 original size:23 final size:23
Alignment explanation
Indices: 23549939--23549988 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
23549929 AGAGGTCTTC
23549939 TTAAAGACATTGGAGTTCGAAAG
1 TTAAAGACATTGGAGTTCGAAAG
23549962 TTAAAGACATTGGAGTTCGAAAG
1 TTAAAGACATTGGAGTTCGAAAG
23549985 TTAA
1 TTAA
23549989 GTTTTTGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (23 bp):
TTAAAGACATTGGAGTTCGAAAG
Found at i:23552906 original size:20 final size:20
Alignment explanation
Indices: 23552878--23552916 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23552868 TTGTACTGGA
* * *
23552878 TTTGTACTTTGGTGTCTCTG
1 TTTGCACTTCGGTGCCTCTG
23552898 TTTGCACTTCGGTGCCTCT
1 TTTGCACTTCGGTGCCTCT
23552917 ATTATGCATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.23, G:0.23, T:0.49
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:23553896 original size:24 final size:24
Alignment explanation
Indices: 23553864--23553920 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
23553854 AAAAATGATG
*
23553864 CACACGGCCTGGGACACGAGTTGT
1 CACACGGCCTAGGACACGAGTTGT
* *
23553888 CACACGGCCTAGGACATGGGTTGT
1 CACACGGCCTAGGACACGAGTTGT
*
23553912 CATACGGCC
1 CACACGGCC
23553921 GTGTACCACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.21, C:0.30, G:0.32, T:0.18
Consensus pattern (24 bp):
CACACGGCCTAGGACACGAGTTGT
Done.