Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 175 of 333
Found at i:57546309 original size:67 final size:68
Alignment explanation
Indices: 57546177--57546316 Score: 201
Period size: 67 Copynumber: 2.1 Consensus size: 68
57546167 TCACCAGATA
* * *
57546177 CAGATATTGTGGCTAAGCCACCAGAACAAATATATATGTGGCGAAGCCACCAGATTGCAGCGAGG
1 CAGATATTGTGGCGAAGCCACCAGAAC-AAGATATATGTGGCGAAGCCACCAGATTACAGCGAGG
57546242 CTGC
65 CTGC
* * * *
57546246 CAGATATTGTGTCGAAGTCACCAGAAC-AGATATATGTGGCGAGGCCACCAGATTACAGTGAGGC
1 CAGATATTGTGGCGAAGCCACCAGAACAAGATATATGTGGCGAAGCCACCAGATTACAGCGAGGC
57546310 TGC
66 TGC
57546313 CAGA
1 CAGA
57546317 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
67 40 0.62
69 24 0.38
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.19
Consensus pattern (68 bp):
CAGATATTGTGGCGAAGCCACCAGAACAAGATATATGTGGCGAAGCCACCAGATTACAGCGAGGC
TGC
Found at i:57546984 original size:27 final size:27
Alignment explanation
Indices: 57546954--57547007 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
57546944 ATCGGTAGTC
*
57546954 CTACCCTACAGGGGTATTTCTGTAATT
1 CTACCCTACAAGGGTATTTCTGTAATT
* *
57546981 CTACCTTGCAAGGGTATTTCTGTAATT
1 CTACCCTACAAGGGTATTTCTGTAATT
57547008 TTGTAAATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (27 bp):
CTACCCTACAAGGGTATTTCTGTAATT
Found at i:57547021 original size:27 final size:27
Alignment explanation
Indices: 57546991--57547215 Score: 134
Period size: 27 Copynumber: 8.3 Consensus size: 27
57546981 CTACCTTGCA
* *
57546991 AGGGTATTTCTGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
*** * *
57547018 AGGGTAAAGCGGTAATTCTATAAATCA
1 AGGGTATTTCGGTAATTTTATAAATCG
* * *
57547045 ATGGTACTTT-GGTAATTTTACAATTCG
1 AGGGTA-TTTCGGTAATTTTATAAATCG
* * ** *
57547072 AGGGTATTTCAGTAATTTTACAGGTTG
1 AGGGTATTTCGGTAATTTTATAAATCG
* * * *
57547099 AGAGTATTTCAGTAATTTCACAAATC-
1 AGGGTATTTCGGTAATTTTATAAATCG
* * *
57547125 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTCGGTAATTTTATAAATCG
* * *
57547152 ATGGGTTTTTTGGTAATTTTACAAATC-
1 A-GGGTATTTCGGTAATTTTATAAATCG
* * *
57547179 AGGGGTATTTTGGTAATTTTATAAACCA
1 A-GGGTATTTCGGTAATTTTATAAATCG
57547207 AGGGTATTT
1 AGGGTATTT
57547216 TAGTAATTCT
Statistics
Matches: 157, Mismatches: 35, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
26 5 0.03
27 150 0.96
28 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTATAAATCG
Found at i:57547168 original size:54 final size:54
Alignment explanation
Indices: 57547102--57547223 Score: 181
Period size: 54 Copynumber: 2.3 Consensus size: 54
57547092 CAGGTTGAGA
* * *
57547102 GTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTATGG
1 GTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGG
* * * *
57547156 GTTTTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTATAAACCAAGG
1 GTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGG
57547210 GTATTTTAGTAATT
1 GTATTTTAGTAATT
57547224 CTACAACTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (54 bp):
GTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGG
Found at i:57547216 original size:27 final size:27
Alignment explanation
Indices: 57547028--57547229 Score: 143
Period size: 27 Copynumber: 7.5 Consensus size: 27
57547018 AGGGTAAAGC
* * * * *
57547028 GGTAATTCTATAAATCAATGGTACTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
** * *
57547055 GGTAATTTTACAATTCGAGGGTATTTC
1 GGTAATTTTACAAACCAAGGGTATTTT
* ***** * *
57547082 AGTAATTTTACAGGTTGAGAGTATTTC
1 GGTAATTTTACAAACCAAGGGTATTTT
* * * *
57547109 AGTAATTTCACAAATCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* * *
57547136 GGTAATTTTACAAACTATGGGTTTTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
57547163 GGTAATTTTACAAATCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
*
57547190 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
57547217 AGTAATTCTACAA
1 GGTAATTTTACAA
57547230 CTTATCCACT
Statistics
Matches: 139, Mismatches: 36, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTAATTTTACAAACCAAGGGTATTTT
Found at i:57549887 original size:16 final size:17
Alignment explanation
Indices: 57549868--57549904 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
57549858 ACTAAAAGGT
57549868 TAAACATG-TAAAATAA
1 TAAACATGTTAAAATAA
*
57549884 TAAACATGTTAATATAA
1 TAAACATGTTAAAATAA
57549901 TAAA
1 TAAA
57549905 ACATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (17 bp):
TAAACATGTTAAAATAA
Found at i:57550656 original size:14 final size:13
Alignment explanation
Indices: 57550621--57550660 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 13
57550611 AAATATGAAT
57550621 TATATGCTGAAATA
1 TATATG-TGAAATA
57550635 TATAATGTGATAATA
1 TAT-ATGTGA-AATA
57550650 TATATGTGAAA
1 TATATGTGAAA
57550661 GCCGAATGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.08
14 12 0.50
15 10 0.42
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (13 bp):
TATATGTGAAATA
Found at i:57559977 original size:16 final size:17
Alignment explanation
Indices: 57559958--57559994 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
57559948 ACTTAAATGT
57559958 TAAACATG-TAAAATAA
1 TAAACATGTTAAAATAA
*
57559974 TAAACATGTTAATATAA
1 TAAACATGTTAAAATAA
57559991 TAAA
1 TAAA
57559995 ACTTATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (17 bp):
TAAACATGTTAAAATAA
Found at i:57560736 original size:21 final size:21
Alignment explanation
Indices: 57560712--57560756 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
57560702 ATGATATTAT
57560712 ATAACTTAACATTTAATTTAC
1 ATAACTTAACATTTAATTTAC
57560733 ATAACTTAACATTTAATTTAC
1 ATAACTTAACATTTAATTTAC
57560754 ATA
1 ATA
57560757 TAACCTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAACTTAACATTTAATTTAC
Found at i:57570580 original size:43 final size:42
Alignment explanation
Indices: 57570439--57570598 Score: 194
Period size: 42 Copynumber: 3.8 Consensus size: 42
57570429 TTAGGGTTAC
* * *
57570439 TGAGATTATGTGTAAGACCATATCTGAGATATGGCATCTATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATA
* *
57570481 TGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCAATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATA
** * * *
57570523 TGAGATTTTGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCAATA
* * *
57570566 AGAGATTACATGTAAGACAATATCTGGGATATG
1 TGAGATTACGTGTAAGACCATATCTGGGATATG
57570599 ACATTGGTAC
Statistics
Matches: 100, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 66 0.66
43 34 0.34
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:57570583 original size:85 final size:84
Alignment explanation
Indices: 57570439--57570598 Score: 221
Period size: 85 Copynumber: 1.9 Consensus size: 84
57570429 TTAGGGTTAC
* * * * * *
57570439 TGAGATTATGTGTAAGACCATATCTGAGATATGGCATCTATATGAGATTTCGTGTAAGACCATAT
1 TGAGATTATGTGTAAGACCATAGCTGAGATATGGCATCGATAAGAGATTACATGTAAGACAATAT
57570504 CTAGGATATGGCATCAATA
66 CTAGGATATGGCATCAATA
* * *
57570523 TGAGATTTTGTGTAAGACCATAGCTGGGCTATTGGCATCGATAAGAGATTACATGTAAGACAATA
1 TGAGATTATGTGTAAGACCATAGCTGAGATA-TGGCATCGATAAGAGATTACATGTAAGACAATA
*
57570588 TCTGGGATATG
65 TCTAGGATATG
57570599 ACATTGGTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
84 27 0.42
85 38 0.58
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (84 bp):
TGAGATTATGTGTAAGACCATAGCTGAGATATGGCATCGATAAGAGATTACATGTAAGACAATAT
CTAGGATATGGCATCAATA
Found at i:57584152 original size:49 final size:49
Alignment explanation
Indices: 57584090--57584409 Score: 594
Period size: 49 Copynumber: 6.6 Consensus size: 49
57584080 TAGTATGGCG
*
57584090 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
57584139 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
57584188 TAATGGCCGATGTGATGAATTTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
57584237 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
57584284 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
57584331 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
57584380 TAATGGCCGATGTGATGAATGTGAAAGTGT
1 TAATGGCCGATGTGATGAATGTGAAAGTGT
57584410 GTGATGAATG
Statistics
Matches: 266, Mismatches: 3, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
47 94 0.35
49 172 0.65
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:57584295 original size:96 final size:97
Alignment explanation
Indices: 57584090--57584409 Score: 583
Period size: 96 Copynumber: 3.3 Consensus size: 97
57584080 TAGTATGGCG
*
57584090 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
57584155 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
*
57584188 TAATGGCCGATGTGATGAATTTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
57584253 GAATGTGAAAGTG-TATATATGTGATAAGGCC
66 GAATGTGAAAGTGATATATATGTGATAAGGCC
57584284 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
57584347 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
57584380 TAATGGCCGATGTGATGAATGTGAAAGTGT
1 TAATGGCCGATGTGATGAATGTGAAAGTGT
57584410 GTGATGAATG
Statistics
Matches: 216, Mismatches: 3, Indels: 7
0.96 0.01 0.03
Matches are distributed among these distances:
94 47 0.22
96 93 0.43
98 76 0.35
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (97 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGATATATATGTGATAAGGCC
Found at i:57584414 original size:19 final size:19
Alignment explanation
Indices: 57584390--57584428 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
57584380 TAATGGCCGA
57584390 TGTGATGAATGTGAAAGTG
1 TGTGATGAATGTGAAAGTG
57584409 TGTGATGAATGTGAAAGTG
1 TGTGATGAATGTGAAAGTG
57584428 T
1 T
57584429 ATATATGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (19 bp):
TGTGATGAATGTGAAAGTG
Found at i:57584422 original size:162 final size:160
Alignment explanation
Indices: 57584247--57584536 Score: 499
Period size: 162 Copynumber: 1.8 Consensus size: 160
57584237 TAATGGCCGA
57584247 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * * *
57584312 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
66 GTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA-A-ATGTGATAAG
57584377 GCCTAATGGCCGATGTGATGAATGTGAAAGTG
129 GCCTAATGGCCGATGTGATGAATGTGAAAGTG
57584409 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * *
57584474 GTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
57584537 TCCCGAAGGG
Statistics
Matches: 121, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
160 10 0.08
161 1 0.01
162 110 0.91
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (160 bp):
TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:57584426 original size:115 final size:113
Alignment explanation
Indices: 57584294--57584522 Score: 377
Period size: 115 Copynumber: 2.0 Consensus size: 113
57584284 TAATGGCCGA
57584294 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * * *
57584359 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 G--TATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
57584409 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * *
57584474 GTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 GTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
57584522 T
1 T
57584523 ATAAATGTGA
Statistics
Matches: 107, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
113 41 0.38
115 66 0.62
ACGTcount: A:0.31, C:0.08, G:0.32, T:0.29
Consensus pattern (113 bp):
TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
Found at i:57584453 original size:66 final size:67
Alignment explanation
Indices: 57584341--57584475 Score: 254
Period size: 66 Copynumber: 2.0 Consensus size: 67
57584331 TAATGGCCGA
57584341 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
57584406 GTG
65 GTG
57584409 TGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
57584473 TG
66 TG
57584475 T
1 T
57584476 ATATATGTGA
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
66 48 0.72
68 19 0.28
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.31
Consensus pattern (67 bp):
TGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TG
Found at i:57584462 original size:47 final size:47
Alignment explanation
Indices: 57584409--57584536 Score: 184
Period size: 47 Copynumber: 2.7 Consensus size: 47
57584399 TGTGAAAGTG
* *
57584409 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAA
* * *
57584456 TGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAA
* * *
57584503 CGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAG
57584537 TCCCGAAGGG
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (47 bp):
TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAA
Found at i:57584469 original size:31 final size:31
Alignment explanation
Indices: 57584367--57584469 Score: 77
Period size: 31 Copynumber: 3.2 Consensus size: 31
57584357 GTGTATATAT
57584367 ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGA
** * * *
57584398 ATGTGA-AAGTGTGTGATGAATG-TGAAAGTGTAT-A
1 ATGTGATAAG-GCCTAATG---GCCG-ATGTG-ATGA
57584432 TATGTGATAAGGCCTAATGGCCGATGTGATGA
1 -ATGTGATAAGGCCTAATGGCCGATGTGATGA
57584464 ATGTGA
1 ATGTGA
57584470 AAGTGTATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 20
0.63 0.12 0.24
Matches are distributed among these distances:
30 3 0.06
31 19 0.37
32 6 0.12
33 2 0.04
34 6 0.12
35 13 0.25
36 3 0.06
ACGTcount: A:0.31, C:0.08, G:0.32, T:0.29
Consensus pattern (31 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:57595172 original size:43 final size:41
Alignment explanation
Indices: 57595061--57595173 Score: 95
Period size: 43 Copynumber: 2.7 Consensus size: 41
57595051 TGTGTTATTG
* * ***
57595061 TGTAAGACCATGTCTGGGACGTTAGCATCGTATTTGATTTTG
1 TGTAAGACCA-GTCTGGGATGTTGGCATCGTATTTGATTACA
* *
57595103 TGTGAGATCCTA-TCTAGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGA-CC-AGTCTGGGAT-GTTGGCATCG-TATTTGATTACA
57595146 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCA-GTCTGGGATGTTGGCAT
57595174 TGTACAAGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
41 1 0.02
42 22 0.40
43 31 0.56
44 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.35
Consensus pattern (41 bp):
TGTAAGACCAGTCTGGGATGTTGGCATCGTATTTGATTACA
Found at i:57601844 original size:33 final size:33
Alignment explanation
Indices: 57601802--57601867 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
57601792 TTAAACATAT
*
57601802 ATTAAATAAACCAAAACATTAAATTGGCTATCA
1 ATTAAATAAAACAAAACATTAAATTGGCTATCA
57601835 ATTAAATAAAACAAAACATTAAATTGGCTATCA
1 ATTAAATAAAACAAAACATTAAATTGGCTATCA
57601868 TATTCACCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (33 bp):
ATTAAATAAAACAAAACATTAAATTGGCTATCA
Found at i:57602789 original size:42 final size:42
Alignment explanation
Indices: 57602686--57602848 Score: 170
Period size: 42 Copynumber: 3.8 Consensus size: 42
57602676 TATGTGTTAT
* **
57602686 CGTGTAAGACCATGTCTGGGATGTTGGCATCG-ACTTATGATCTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGTAC--ATGAT-TA
* *
57602730 CGTGTAAGACCACGTCTGGGACATTGGCATTGTACATGATTT
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGTACATGATTA
* **
57602772 CGTGTAAGACC-CTGTCTGGGACAGTGG-ATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TACATGATTA
* *
57602814 CATGTAAGACCACGTCTGGGACATTGGCATTGTAC
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGTAC
57602849 GAGCTTTCTG
Statistics
Matches: 100, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
41 4 0.04
42 57 0.57
43 9 0.09
44 28 0.28
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGTACATGATTA
Found at i:57602836 original size:84 final size:86
Alignment explanation
Indices: 57602685--57602848 Score: 246
Period size: 84 Copynumber: 1.9 Consensus size: 86
57602675 ATATGTGTTA
* *
57602685 TCGTGTAAGACCATGTCTGGGATGTTGGCATCGACTTATGATCTACGTGTAAGACCACGTCTGGG
1 TCGTGTAAGACCATGTCTGGGAAGTTGGCATCGACTTATGATCTACATGTAAGACCACGTCTGGG
57602750 ACATTGGCATTGTACATGATT
66 ACATTGGCATTGTACATGATT
* *
57602771 TCGTGTAAGACCCTGTCTGGGACAG-TGG-ATCGA-TATTTGAT-TACATGTAAGACCACGTCTG
1 TCGTGTAAGACCATGTCTGGGA-AGTTGGCATCGACT-TATGATCTACATGTAAGACCACGTCTG
57602832 GGACATTGGCATTGTAC
64 GGACATTGGCATTGTAC
57602849 GAGCTTTCTG
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
84 37 0.51
85 10 0.14
86 24 0.33
87 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (86 bp):
TCGTGTAAGACCATGTCTGGGAAGTTGGCATCGACTTATGATCTACATGTAAGACCACGTCTGGG
ACATTGGCATTGTACATGATT
Found at i:57604739 original size:27 final size:27
Alignment explanation
Indices: 57604698--57604751 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
57604688 TGTCATGTGA
* *
57604698 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
57604725 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
57604752 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:57605122 original size:51 final size:49
Alignment explanation
Indices: 57605000--57605188 Score: 171
Period size: 50 Copynumber: 3.8 Consensus size: 49
57604990 TATAGTGAGG
* * * *
57605000 TCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTATCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGA
* * * * *
57605049 TCGCATGTGTAGTACTAAGTGCAGGCAACTATGCGTACCTGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA-TT-GA
* * * ** *
57605100 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT-GA
** * * *
57605150 TCAAATGTGTAATACTAAGTGTAGGCTACTACGTGTACC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
57605189 AGACAACCTT
Statistics
Matches: 113, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
49 37 0.33
50 39 0.35
51 37 0.33
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGA
Found at i:57616456 original size:28 final size:28
Alignment explanation
Indices: 57616391--57616567 Score: 250
Period size: 28 Copynumber: 6.3 Consensus size: 28
57616381 GAGATTGGCG
* *
57616391 CTAAGTGTGCGAGTTTAAAT-TGTACAGCA
1 CTAAGTGTGCGAGTTTGATTATGT--AGCA
*
57616420 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
* *
57616448 CTAAGTGTGCTAATTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
57616476 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
57616504 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
57616532 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
57616559 CTGAGTGTG
1 CTAAGTGTG
57616568 TGGACTTAAT
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
27 22 0.16
28 95 0.69
29 17 0.12
30 3 0.02
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:57624849 original size:16 final size:15
Alignment explanation
Indices: 57624823--57624854 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
57624813 ATTTCAGTAG
57624823 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
57624838 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
57624854 C
1 C
57624855 TGCATTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.28, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:57625160 original size:26 final size:27
Alignment explanation
Indices: 57625111--57625174 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
57625101 ATTTACTAAA
*
57625111 ATACCCCTAAGTATGAAAATTACCACT
1 ATACCCCTAGGTATGAAAATTACCACT
* *
57625138 ATACCCCTAGGTGT-AAAATTACCATT
1 ATACCCCTAGGTATGAAAATTACCACT
*
57625164 ATACCCTTAGG
1 ATACCCCTAGG
57625175 GTTAATTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (27 bp):
ATACCCCTAGGTATGAAAATTACCACT
Found at i:57625319 original size:27 final size:27
Alignment explanation
Indices: 57625278--57625390 Score: 149
Period size: 27 Copynumber: 4.2 Consensus size: 27
57625268 GAGGAAGCGT
*
57625278 TCTGGTGGCTTTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
57625305 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
57625333 TCTGGTGGCTCTGCTACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* *
57625360 TCTGGTGACTCTGTCACAATATCTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
57625386 TCTGG
1 TCTGG
57625391 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 5 0.06
27 57 0.73
28 16 0.21
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:57625384 original size:54 final size:54
Alignment explanation
Indices: 57625276--57625390 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 54
57625266 TGGAGGAAGC
* *
57625276 GTTCTGGTGGCTTTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCT
* *
57625330 GTTTCTGGTGGCTCTGCTAC-AATATCTGTATCTGGTGACTCTGTCAC-AATATCT
1 G-TTCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGACTCTGCCACAAATATCT
57625384 GTTCTGG
1 GTTCTGG
57625391 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
53 6 0.11
54 17 0.31
55 32 0.58
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCT
Found at i:57632605 original size:37 final size:37
Alignment explanation
Indices: 57632555--57632633 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
57632545 TTATTACGAA
* *
57632555 GTCTTACCCGGACATAA-TCTCCACACAAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACAAAGTCATCGG
**
57632592 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACAAAGTCATCGG
57632629 GTCTT
1 GTCTT
57632634 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACAAAGTCATCGG
Found at i:57632830 original size:47 final size:47
Alignment explanation
Indices: 57632752--57633323 Score: 892
Period size: 47 Copynumber: 12.1 Consensus size: 47
57632742 CCCTTCGGGA
** * * * * * * *
57632752 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * * * *
57632799 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
57632846 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
57632893 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
57632940 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
57632987 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCTATTAGGC
57633036 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
57633083 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
57633130 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
57633177 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
57633224 CTTATCACACATACACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
57633271 CTTATCACTTATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCTATTAGGC
57633320 CTTA
1 CTTA
57633324 CTATCATTTC
Statistics
Matches: 498, Mismatches: 23, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
47 412 0.83
49 86 0.17
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:57633073 original size:190 final size:188
Alignment explanation
Indices: 57632752--57633323 Score: 928
Period size: 190 Copynumber: 3.0 Consensus size: 188
57632742 CCCTTCGGGA
** * * * * * * * * *
57632752 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACAC
* *
57632817 TTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
*
57632882 GGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 GGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57632940 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCAC--ATATATAC
*
57633005 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
*
57633070 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57633130 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACAC
*
57633195 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
57633260 GGCTATTAGGCCTTATCACTTATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCTATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57633320 CTTA
1 CTTA
57633324 CTATCATTTC
Statistics
Matches: 358, Mismatches: 22, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
188 135 0.38
190 223 0.62
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (188 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
GGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57633262 original size:284 final size:284
Alignment explanation
Indices: 57632752--57633323 Score: 955
Period size: 284 Copynumber: 2.0 Consensus size: 284
57632742 CCCTTCGGGA
** * * * * * *
57632752 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
*
57632817 TTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCACTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
* * * *
57632882 GGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
131 GACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
57632947 CACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCA
196 CACATACACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCA
*
57633012 CATTCATCACATCGGCTATTAGGC
261 CATTCATCACATCGGCCATTAGGC
* * * *
57633036 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
*
57633101 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCACTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
57633166 GACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
131 GACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
57633231 CACATACACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACTTATATATACACTTTCA
196 CACATACACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCA
57633296 CATTCATCACATCGGCCATTAGGC
261 CATTCATCACATCGGCCATTAGGC
57633320 CTTA
1 CTTA
57633324 CTATCATTTC
Statistics
Matches: 267, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
284 267 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (284 bp):
CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
TTTCACATTCATCACATCGGCCACTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
GACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CACATACACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCA
CATTCATCACATCGGCCATTAGGC
Found at i:57645635 original size:17 final size:18
Alignment explanation
Indices: 57645602--57645635 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57645592 TATCCCTTAA
57645602 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
57645620 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
57645636 AAAATTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:57646401 original size:8 final size:7
Alignment explanation
Indices: 57646334--57646491 Score: 51
Period size: 7 Copynumber: 22.7 Consensus size: 7
57646324 ACTAATTAAT
57646334 CTAAACC
1 CTAAACC
*
57646341 TTAAACCC
1 CTAAA-CC
57646349 CT-AACC
1 CTAAACC
* *
57646355 CTTATCC
1 CTAAACC
57646362 CTTAAACC
1 C-TAAACC
*
57646370 CTAAATC
1 CTAAACC
* *
57646377 ATAAA-A
1 CTAAACC
*
57646383 ATAAACC
1 CTAAACC
57646390 CTAAACCC
1 CTAAA-CC
*
57646398 CT-AACA
1 CTAAACC
* *
57646404 GTTAACC
1 CTAAACC
*
57646411 C-CAACC
1 CTAAACC
*
57646417 CTTAATCC
1 C-TAAACC
57646425 CTAAACC
1 CTAAACC
* *
57646432 TTAAACT
1 CTAAACC
57646439 CT-AACC
1 CTAAACC
57646445 CTTAAACC
1 C-TAAACC
57646453 CT-AACC
1 CTAAACC
57646459 CTTAAACC
1 C-TAAACC
*
57646467 ATAAACC
1 CTAAACC
* **
57646474 ATAATTC
1 CTAAACC
57646481 CTAAA-C
1 CTAAACC
57646487 CTAAA
1 CTAAA
57646492 ATTCATAAAC
Statistics
Matches: 112, Mismatches: 27, Indels: 25
0.68 0.16 0.15
Matches are distributed among these distances:
6 31 0.28
7 56 0.50
8 25 0.22
ACGTcount: A:0.41, C:0.35, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:57646435 original size:14 final size:14
Alignment explanation
Indices: 57646416--57646507 Score: 76
Period size: 14 Copynumber: 6.5 Consensus size: 14
57646406 TAACCCCAAC
*
57646416 CCTTAATCCCTAAA
1 CCTTAAACCCTAAA
* *
57646430 CCTTAAACTCTAAC
1 CCTTAAACCCTAAA
*
57646444 CCTTAAACCCTAAC
1 CCTTAAACCCTAAA
*
57646458 CCTTAAACCATAAA
1 CCTTAAACCCTAAA
* **
57646472 CCATAATTCCTAAA
1 CCTTAAACCCTAAA
* * *
57646486 CCTAAAATTCATAAA
1 CCTTAAA-CCCTAAA
57646501 CCTTAAA
1 CCTTAAA
57646508 ATAGTTGTAA
Statistics
Matches: 62, Mismatches: 15, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
14 50 0.81
15 12 0.19
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (14 bp):
CCTTAAACCCTAAA
Found at i:57646509 original size:16 final size:15
Alignment explanation
Indices: 57646466--57646509 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
57646456 ACCCTTAAAC
*
57646466 CATAAACC-ATAATT
1 CATAAACCTAAAATT
*
57646480 CCTAAACCTAAAATT
1 CATAAACCTAAAATT
57646495 CATAAACCTTAAAAT
1 CATAAACC-TAAAAT
57646510 AGTTGTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 7 0.28
15 12 0.48
16 6 0.24
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (15 bp):
CATAAACCTAAAATT
Found at i:57648090 original size:28 final size:28
Alignment explanation
Indices: 57648058--57648127 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
57648048 ATAGTAAGTC
57648058 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
57648086 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
57648114 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57648128 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:57654111 original size:39 final size:40
Alignment explanation
Indices: 57653907--57654129 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
57653897 TTGAATGCTG
* * * * * *
57653907 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
57653947 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
57653987 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
57654027 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
57654067 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
57654106 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57654130 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:57661946 original size:39 final size:40
Alignment explanation
Indices: 57661742--57661964 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
57661732 TTGAATGCTG
* * * * * *
57661742 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
57661782 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
57661822 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
57661862 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
57661902 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
57661941 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57661965 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:57661984 original size:79 final size:80
Alignment explanation
Indices: 57661817--57661999 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
57661807 GTGCGAGATA
* * *
57661817 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
57661882 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
57661897 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
57661961 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
57661976 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
57662000 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:57664619 original size:56 final size:56
Alignment explanation
Indices: 57664533--57664644 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
57664523 GGAACTAAAG
*
57664533 ACACAGCAGTTCGATCTGAGGCTCGTGCACCTGCCAGAGCTTATGCCATTCGCGCT
1 ACACAGCAGTTCAATCTGAGGCTCGTGCACCTGCCAGAGCTTATGCCATTCGCGCT
*
57664589 ACACAGTAGTTCAATCTGAGGCTCGTGCACCTGCCAGAGCTTATGCCATTCGCGCT
1 ACACAGCAGTTCAATCTGAGGCTCGTGCACCTGCCAGAGCTTATGCCATTCGCGCT
57664645 CGTGAGGAGG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.24
Consensus pattern (56 bp):
ACACAGCAGTTCAATCTGAGGCTCGTGCACCTGCCAGAGCTTATGCCATTCGCGCT
Found at i:57672640 original size:27 final size:27
Alignment explanation
Indices: 57672600--57672738 Score: 140
Period size: 27 Copynumber: 5.1 Consensus size: 27
57672590 TACTTGAATG
* *
57672600 TGACTGAAAAACCCTCATAGGGTAAAA
1 TGACCGAAATACCCTCATAGGGTAAAA
*
57672627 TGACCGAAATACCCCCATAGGG-AAGAA
1 TGACCGAAATACCCTCATAGGGTAA-AA
*
57672654 TGACCGAAATACCCCCATAGGGTAAAA
1 TGACCGAAATACCCTCATAGGGTAAAA
* *
57672681 TGACAGAAATACCCT-AGTAGGATAAAA
1 TGACCGAAATACCCTCA-TAGGGTAAAA
* * * *
57672708 TGACTGTAATACTCCT-ATAAGGTGAAA
1 TGACCGAAATAC-CCTCATAGGGTAAAA
57672735 TGAC
1 TGAC
57672739 TATTTTACCC
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
26 3 0.03
27 88 0.91
28 6 0.06
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (27 bp):
TGACCGAAATACCCTCATAGGGTAAAA
Found at i:57672765 original size:27 final size:27
Alignment explanation
Indices: 57672732--57672856 Score: 153
Period size: 27 Copynumber: 4.6 Consensus size: 27
57672722 CTATAAGGTG
* *
57672732 AAATGACTATTTTACCCTTATGTGATA
1 AAATGACTATTTTGCCCTTATGTGGTA
*
57672759 AACTGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
57672786 AAATGAC-AGTTTTGCCCTTATGTGGTA
1 AAATGACTA-TTTTGCCCTTATGTGGTA
* * *
57672813 AAATAACTAATTTGCCCTTAGGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
* * *
57672840 AGATTACTGTTTTGCCC
1 AAATGACTATTTTGCCC
57672857 CTACGTCATG
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 83 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGTGGTA
Found at i:57673130 original size:24 final size:24
Alignment explanation
Indices: 57673085--57673130 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
57673075 TTATTCCTAA
* *
57673085 ATGGTGTGTAGGGTTGGTATGGAG
1 ATGGTGTGTAGGGCTAGTATGGAG
57673109 ATGGTGTGTAGAGGCTAG-ATGG
1 ATGGTGTGTAG-GGCTAGTATGG
57673131 GTAGGACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.20, C:0.02, G:0.48, T:0.30
Consensus pattern (24 bp):
ATGGTGTGTAGGGCTAGTATGGAG
Found at i:57673184 original size:18 final size:18
Alignment explanation
Indices: 57673143--57673197 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
57673133 AGGACCTACA
57673143 TACTG-TTACT-TCTACTG
1 TACTGTTTACTGT-TACTG
* * *
57673160 CACTGTTTATTGTTATTG
1 TACTGTTTACTGTTACTG
57673178 TACTGTTTACTGTTACTG
1 TACTGTTTACTGTTACTG
57673196 TA
1 TA
57673198 ATGGGCCAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 4 0.13
18 25 0.83
19 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.51
Consensus pattern (18 bp):
TACTGTTTACTGTTACTG
Found at i:57677051 original size:15 final size:15
Alignment explanation
Indices: 57677012--57677056 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
57677002 AAACCAGAAT
57677012 AAAGAAATCCAAGAC
1 AAAGAAATCCAAGAC
* *
57677027 AGAGGAAATCCAAGAG
1 A-AAGAAATCCAAGAC
57677043 AAAGAAATCCAAGA
1 AAAGAAATCCAAGA
57677057 TACCATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.58, C:0.16, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAGAAATCCAAGAC
Found at i:57683696 original size:18 final size:18
Alignment explanation
Indices: 57683670--57683709 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
57683660 TGATGCCATA
*
57683670 ATAAACATAATCATAAAC
1 ATAAACATAAGCATAAAC
* *
57683688 ATAACCATAGGCATAAAC
1 ATAAACATAAGCATAAAC
57683706 ATAA
1 ATAA
57683710 GTTTATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.20
Consensus pattern (18 bp):
ATAAACATAAGCATAAAC
Found at i:57686065 original size:27 final size:27
Alignment explanation
Indices: 57686049--57686339 Score: 420
Period size: 27 Copynumber: 10.8 Consensus size: 27
57686039 CTTACCATAA
* **
57686049 AAGGGCAAAACAATCATTTTACCATAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
*
57686076 AAGGGCAAAACAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
*
57686103 AAGGGCAAAATAGTCATTTTACCCCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
* *
57686130 AAGGGAAAAACAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
* **
57686157 AAGGGAAAAATGGTCATTTTACCCCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
57686184 AAGGGCAAAACAGTCATTTTACCCCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
* *
57686211 AAGGGTAAAATAGTCATTTTACCCCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
57686238 AAGGGCAAAACAGTCATTTTACCCCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
*
57686265 AAGGGCAAAACAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
* *
57686292 AAGGGCAAATCAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
** *
57686319 AAATGCAAAATAGTCATTTTA
1 AAGGGCAAAACAGTCATTTTA
57686340 TCGATTAAGG
Statistics
Matches: 240, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 240 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (27 bp):
AAGGGCAAAACAGTCATTTTACCCCAT
Found at i:57688975 original size:28 final size:29
Alignment explanation
Indices: 57688910--57689008 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 29
57688900 CATGAGATTG
* *
57688910 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
57688939 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
57688967 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
*
57688995 GAACTAAGTGTGCG
1 GCACTAAGTGTGCG
57689009 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
27 4 0.06
28 41 0.65
29 14 0.22
30 4 0.06
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:57696392 original size:49 final size:49
Alignment explanation
Indices: 57696172--57696415 Score: 229
Period size: 49 Copynumber: 4.9 Consensus size: 49
57696162 AGACAAGGCC
* * * * * * *
57696172 ATCTGGTACGCATAGTAGCTTGAACTTAGTGCTACACATGCGACAAATT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATT
** * * * * * *
57696221 ATCCAGTACATGTAGTAGCCTGCACTCAGTACTATATACGTGACCTAATC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AATT
* * *
57696271 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TT
** * *
57696322 ATC-GAGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATT
1 ATCTG-GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATT
* *
57696371 ATCTGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
57696416 TCACAATAGA
Statistics
Matches: 153, Mismatches: 37, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
49 70 0.46
50 46 0.30
51 37 0.24
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (49 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATT
Found at i:57696398 original size:100 final size:101
Alignment explanation
Indices: 57696233--57696413 Score: 283
Period size: 100 Copynumber: 1.8 Consensus size: 101
57696223 CCAGTACATG
* * *
57696233 TAGTAGCCTGCACTCAGTACTATATACGTGACCTAATCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTCAGTACTACACACGCGACCTAATCATCTGATACACGTAGTAGCCTGCACTT
57696298 AGTACTACACACGTGATCGAAGTTATCGAGTATGCA
66 AGTACTACACACGTGATCGAAGTTATCGAGTATGCA
* * * * *
57696334 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCTGGTACACGTAGTAGCCTGTACTT
1 TAGTAGCCTGCACTCAGTACTACACACGCGACCTAATCATCTGATACACGTAGTAGCCTGCACTT
57696398 AGTACTACACACGTGA
66 AGTACTACACACGTGA
57696414 CCTCACAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 44 0.61
101 28 0.39
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (101 bp):
TAGTAGCCTGCACTCAGTACTACACACGCGACCTAATCATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTATCGAGTATGCA
Found at i:57696692 original size:27 final size:27
Alignment explanation
Indices: 57696662--57696715 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
57696652 TCATACAACC
* *
57696662 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
57696689 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
57696716 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:57720584 original size:19 final size:20
Alignment explanation
Indices: 57720560--57720597 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
57720550 GGTACCACCA
57720560 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
57720579 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
57720598 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:57720893 original size:46 final size:46
Alignment explanation
Indices: 57720826--57720996 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
57720816 CGCCCCTAAG
* * *
57720826 TGAACTCGGACCCAACTCAACGAGCTCGGGTGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAA
* * * * **
57720872 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCATCCAT-AAA
* * ** *
57720919 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAA
57720965 TGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATG
57720997 CTCAACCATC
Statistics
Matches: 98, Mismatches: 24, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
46 63 0.64
47 35 0.36
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAA
Found at i:57720942 original size:93 final size:93
Alignment explanation
Indices: 57720827--57720997 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
57720817 GCCCCTAAGT
* ***
57720827 GAACTCGGACCCAACTCAACGAGCTCGGGTGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
57720892 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
57720920 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
57720985 CGAGTTCGGATGC
66 CGAGTTCGGATGC
57720998 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57726494 original size:93 final size:93
Alignment explanation
Indices: 57726383--57726553 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
57726373 GCCCCTAAGT
* * *
57726383 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
57726448 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
57726476 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
57726541 TGAGTTCGGATGC
66 CGAGTTCGGATGC
57726554 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57726550 original size:46 final size:46
Alignment explanation
Indices: 57726378--57726550 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
57726368 AACCCGCCCC
* * *
57726378 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
57726424 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
57726472 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
57726517 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57726551 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 58 0.55
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:57730715 original size:28 final size:28
Alignment explanation
Indices: 57730683--57730752 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
57730673 AATGAGATTG
*
57730683 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
57730711 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
57730739 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
57730753 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:57739391 original size:28 final size:27
Alignment explanation
Indices: 57739328--57739479 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
57739318 ATATTAAGTC
* *
57739328 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
57739355 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
57739383 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
57739410 CCCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
57739438 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
57739465 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57739480 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:57739416 original size:55 final size:55
Alignment explanation
Indices: 57739328--57739504 Score: 255
Period size: 55 Copynumber: 3.2 Consensus size: 55
57739318 ATATTAAGTC
* * *
57739328 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
57739383 CGCACACTTAGTGCTACATAGTCAACTCCCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
57739438 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
57739494 CGCACACTTAG
1 CGCACACTTAG
57739505 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:57742717 original size:27 final size:27
Alignment explanation
Indices: 57742686--57742890 Score: 216
Period size: 27 Copynumber: 7.6 Consensus size: 27
57742676 TAAATTGTAC
*
57742686 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
57742713 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
57742739 ATGCACTAAGTGTGCGAAATGAATATG-
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
57742766 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
57742794 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
57742822 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
57742849 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
57742876 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57742891 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:57742881 original size:109 final size:108
Alignment explanation
Indices: 57742687--57742890 Score: 286
Period size: 109 Copynumber: 1.9 Consensus size: 108
57742677 AAATTGTACA
* *
57742687 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
57742752 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
** *
57742795 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
** * *
57742859 GTGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
64 GTGCGAAATGAATATGAT-GCACTAAGTGTGCG
57742891 GACTCAATAT
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
108 18 0.21
109 66 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
Found at i:57750839 original size:27 final size:27
Alignment explanation
Indices: 57750808--57750985 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57750798 TAAATTGTAC
57750808 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57750835 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57750861 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57750889 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57750917 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57750944 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57750971 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57750986 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57750922 original size:82 final size:81
Alignment explanation
Indices: 57750809--57750964 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57750799 AAATTGTACA
* *
57750809 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57750873 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57750890 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57750955 TGCGAGTTGA
65 TGCGAATTGA
57750965 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57750976 original size:82 final size:81
Alignment explanation
Indices: 57750805--57750985 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
57750795 GATTAAATTG
* *
57750805 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57750870 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57750886 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57750950 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57750968 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57750986 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57752443 original size:49 final size:49
Alignment explanation
Indices: 57752337--57752722 Score: 640
Period size: 49 Copynumber: 8.0 Consensus size: 49
57752327 GGTGTTACAG
*
57752337 TCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* * * * * *
57752386 TCAC--ATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCCTG
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
57752433 TCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
57752482 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
57752529 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
57752578 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
57752627 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATAAGGCCTTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
57752674 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
57752723 CTATCATTTC
Statistics
Matches: 312, Mismatches: 19, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 131 0.42
49 181 0.58
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:57752500 original size:96 final size:97
Alignment explanation
Indices: 57752337--57752719 Score: 639
Period size: 96 Copynumber: 4.0 Consensus size: 97
57752327 GGTGTTACAG
57752337 TCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACT
1 TCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACT
* * * * *
57752401 TTCACATTCATCACGTTGGCCACTCGGCCCTG
66 TTCACATTCATCACATCGGCCATTAGGCCCTA
57752433 TCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACT
1 TCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACT
57752497 TTCACATTCATCACATCGGCCATTAGGCCCTA
66 TTCACATTCATCACATCGGCCATTAGGCCCTA
*
57752529 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACAC
*
57752594 TTTCACATTCATCACATCGGCCATTAGGCCTTA
65 TTTCACATTCATCACATCGGCCATTAGGCCCTA
* *
57752627 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATAAGGCCTTATCACATATATATACAC
1 TCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACAC
57752690 TTTCACATTCATCACATCGGCCATTAGGCC
65 TTTCACATTCATCACATCGGCCATTAGGCC
57752720 TTACTATCAT
Statistics
Matches: 277, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
96 231 0.83
98 46 0.17
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (97 bp):
TCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCCTA
Found at i:57752601 original size:145 final size:145
Alignment explanation
Indices: 57752343--57752722 Score: 656
Period size: 145 Copynumber: 2.6 Consensus size: 145
57752333 ACAGTCACAT
*
57752343 ATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
* * * * * *
57752406 ATTCATCACGTTGGCCACTCGGCCCTGTCACATATATATACACTTCCACATTCATCACATCGGCC
66 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTCCACATTCATCACATCGGCC
57752471 ATTAGGCCTTATCAC
131 ATTAGGCCTTATCAC
*
57752486 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
*
57752551 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCC
66 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTCCACATTCATCACATCGGCC
57752616 ATTAGGCCTTATCAC
131 ATTAGGCCTTATCAC
*
57752631 ATATATACACTTTCACATTCATCACATCGGCCATAAGGCCTTATCACATATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
57752696 ATTCATCACATCGGCCATTAGGCCTTA
66 ATTCATCACATCGGCCATTAGGCCTTA
57752723 CTATCATTTC
Statistics
Matches: 224, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
143 45 0.20
145 179 0.80
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (145 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTCCACATTCATCACATCGGCC
ATTAGGCCTTATCAC
Found at i:57754688 original size:12 final size:11
Alignment explanation
Indices: 57754661--57754691 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
57754651 GATGAACACC
57754661 CTTTCTTTTTT
1 CTTTCTTTTTT
57754672 CTTTCTTTTTT
1 CTTTCTTTTTT
57754683 CTTTTCTTT
1 C-TTTCTTT
57754692 GTCTAGTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
CTTTCTTTTTT
Found at i:57757253 original size:46 final size:46
Alignment explanation
Indices: 57757158--57757368 Score: 200
Period size: 46 Copynumber: 4.6 Consensus size: 46
57757148 AGGCTAACAC
* * * * *
57757158 CATGTCCCGGACATGGTCTTACACT-G-ACACATCTCGTAGCTGATA
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGTAGCCGATG
57757203 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGTA-GCCGATG
* * * *
57757249 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTC-AATGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTA-GCCGATG
* * *
57757295 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTAGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGTAGCCGATG
*
57757343 CATGTCCCAAACATGTCTTACACTGG
1 CATGTCCCAGACATGTCTTACACTGG
57757369 AACACAAATA
Statistics
Matches: 140, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 62 0.44
47 28 0.20
48 23 0.16
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTAGCCGATG
Found at i:57759390 original size:43 final size:43
Alignment explanation
Indices: 57759324--57759450 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 43
57759314 AGCTCGTACA
**
57759324 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATATCCCAGACGTGGTCTTACATGTAATCAAATATCG
* * * *
57759367 ATGCCACTATCCCAGACAG-GGTCTTACACGAAATCATATA-C-
1 ATGCCAATATCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
* *
57759408 ATGCCAATGTCCCAGACGTGGTCTTACATGATAA-CACATATCG
1 ATGCCAATATCCCAGACGTGGTCTTACATG-TAATCAAATATCG
57759451 GAATCCTATG
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 30 0.44
42 4 0.06
43 32 0.47
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATATCCCAGACGTGGTCTTACATGTAATCAAATATCG
Found at i:57759424 original size:41 final size:43
Alignment explanation
Indices: 57759324--57759435 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
57759314 AGCTCGTACA
* * *
57759324 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
* * *
57759367 ATGCCACTATCCCAGACAG-GGTCTTACACGAAATCATATA-C-
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAAATATCG
57759408 ATGCCAATGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
57759436 TGATAACACA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
40 1 0.02
41 24 0.41
42 1 0.02
43 32 0.54
44 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:57765189 original size:18 final size:18
Alignment explanation
Indices: 57765166--57765201 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
57765156 CCTTCGGGAC
57765166 TTAGCCCGGTTATAGTAA
1 TTAGCCCGGTTATAGTAA
57765184 TTAGCCCGGTTATAGTAA
1 TTAGCCCGGTTATAGTAA
57765202 CTCGCACAAT
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:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (18 bp):
TTAGCCCGGTTATAGTAA
Found at i:57765216 original size:58 final size:58
Alignment explanation
Indices: 57765126--57765241 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
57765116 CCTTCGGGAC
57765126 TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
57765184 TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
57765242 CTCGCACAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (58 bp):
TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:57765242 original size:40 final size:40
Alignment explanation
Indices: 57765184--57765315 Score: 203
Period size: 40 Copynumber: 3.3 Consensus size: 40
57765174 GTTATAGTAA
*
57765184 TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
*
57765224 TTGGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
* * * *
57765264 TTAGCCCGGATATAGTAACTGGCAAAAATGCCTTTGGG-C
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
57765303 TTAGCCCGGTTAT
1 TTAGCCCGGTTAT
57765316 CAATTCGAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 13 0.15
40 71 0.85
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:57770911 original size:40 final size:40
Alignment explanation
Indices: 57770827--57771051 Score: 294
Period size: 40 Copynumber: 5.7 Consensus size: 40
57770817 TTGAATGATG
* * * *
57770827 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
57770867 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57770907 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
57770946 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
57770986 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57771026 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57771052 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 33 0.20
40 123 0.75
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57771069 original size:80 final size:80
Alignment explanation
Indices: 57770918--57771084 Score: 225
Period size: 80 Copynumber: 2.1 Consensus size: 80
57770908 CCGGGCTAAG
* ** *
57770918 CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACT
1 CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAATTCCCGAAGGCATTTGAACGAGTGACT
57770983 AAATCCGGGTT-AATT
66 AAATCC-GGTTAAATT
*
57770998 CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCT-ATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAT-TCCCGAAGGCATTTGAACGAGTGA-
*
57771061 CTATATCCGGTTAAATT
64 CTAAATCCGGTTAAATT
57771078 -CCGAAGG
1 CCCGAAGG
57771085 TACGTGATTT
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
79 14 0.18
80 64 0.82
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAATTCCCGAAGGCATTTGAACGAGTGACT
AAATCCGGTTAAATT
Found at i:57778820 original size:40 final size:39
Alignment explanation
Indices: 57778740--57779029 Score: 184
Period size: 40 Copynumber: 7.4 Consensus size: 39
57778730 ATGATGTCCG
* * * * * *
57778740 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGCTAAATTCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * *
57778779 GGACTAAGATT-CGAAGGCATTTGTGTGAGATACTAATTCC
1 GG-CTAA-ATTCCGAAGGCATTTGTGCGAGTTACTAAATCC
** *
57778819 GGGCT-AAGCCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 -GGCTAAATTCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
57778858 GGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGCTAAATT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
57778898 GGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGCTAAATT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
* * *
57778938 GGGTTAAGTCCCG-A---ATTTGTGCGAGTTACTATAA-CC
1 -GGCTAAATTCCGAAGGCATTTGTGCGAGTTACTA-AATCC
** * ** * *
57778974 GGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC
1 -GGCTAAATTCCGAAGGCATTTGTGCGAGTTA-CTAAATCC
*
57779014 GGTTAAATTCCGAAGG
1 GGCTAAATTCCGAAGG
57779030 TACGTGATTT
Statistics
Matches: 203, Mismatches: 33, Indels: 30
0.76 0.12 0.11
Matches are distributed among these distances:
36 30 0.15
37 3 0.01
38 4 0.02
39 45 0.22
40 107 0.53
41 14 0.07
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
GGCTAAATTCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:57778938 original size:80 final size:80
Alignment explanation
Indices: 57778736--57778996 Score: 288
Period size: 80 Copynumber: 3.3 Consensus size: 80
57778726 TTGAATGATG
* * * * * ** *
57778736 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-TCGAAGGCAT
1 TCCGGGCTAATTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
57778799 TTGTGTGAGATACTAAT
64 TTGTGCGAGTTACTAAA
* * *
57778816 TCCGGGCTAA-GCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCATTT
1 TCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
57778880 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
*
57778895 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG-A---ATTT
1 TCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
57778956 GTGCGAGTTACTATAA
66 GTGCGAGTTACTA-AA
57778972 -CCGGGCT-ATGTCCCGAAGGCATTTG
1 TCCGGGCTAAT-TCCCGAAGGCATTTG
57778997 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
75 2 0.01
76 38 0.24
77 2 0.01
78 1 0.01
79 57 0.36
80 58 0.37
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (80 bp):
TCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:57779014 original size:76 final size:75
Alignment explanation
Indices: 57778797--57779019 Score: 211
Period size: 76 Copynumber: 2.9 Consensus size: 75
57778787 ATTCGAAGGC
* * * * * ** *
57778797 ATTTGTGTGAGATACTAATTCCGGGCTAA-GCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGG
1 ATTTGTGCGAGTTACTAAATCCGGGCTAATTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GG
*
57778861 TTAATTCCCGAA
65 TTAAGTCCCG-A
* ** *
57778873 GGCATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 ---ATTTGTGCGAGTTACTAAATCCGGGCTAATTCCCGAAGGCATTTGAACGAGTGACTAAATCC
57778938 GGGTTAAGTCCCGA
63 -GGTTAAGTCCCGA
*
57778952 ATTTGTGCGAGTTACTATAA-CCGGGCT-ATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC
1 ATTTGTGCGAGTTACTA-AATCCGGGCTAAT-TCCCGAAGGCATTTGAACGAGTGA-CTAAATCC
57779014 GGTTAA
63 GGTTAA
57779020 ATTCCGAAGG
Statistics
Matches: 128, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
75 9 0.07
76 49 0.38
77 2 0.02
79 26 0.20
80 42 0.33
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (75 bp):
ATTTGTGCGAGTTACTAAATCCGGGCTAATTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGT
TAAGTCCCGA
Found at i:57779014 original size:116 final size:116
Alignment explanation
Indices: 57778736--57779029 Score: 280
Period size: 119 Copynumber: 2.5 Consensus size: 116
57778726 TTGAATGATG
* ** * * * *
57778736 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATT-CGAAGGCAT
1 TCCGGGCTAATTCCCGAAGGCATTTGAAC-GAGTGACTAAATCCGG-TTAA-ATTCCGAAGGCAT
* *
57778799 TTGTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
63 TTGTGCGAGATACTAAATCCGGGCTAAGCCCGAA-G-ATTGGTGCGAGTTACTAAA
* ** *
57778855 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTT-AATTCCCGAAGGCATT
1 TCCGGGCTAATTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATT-CCGAAGGCATT
* * *
57778919 TGTGCGAGTTACTAAATCCGGGTTAAGTCCCG-A-ATTTGTGCGAGTTACTATAA
64 TGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGATTGGTGCGAGTTACTA-AA
*
57778972 -CCGGGCT-ATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAT-TCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATTCCGAAGG
57779030 TACGTGATTT
Statistics
Matches: 149, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
115 14 0.09
116 52 0.35
117 5 0.03
118 1 0.01
119 64 0.43
120 13 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (116 bp):
TCCGGGCTAATTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATTCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGATTGGTGCGAGTTACTAAA
Found at i:57780401 original size:28 final size:28
Alignment explanation
Indices: 57780344--57780407 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
57780334 TGGGAAGTAG
* *
57780344 TTGGGCCTGATGGACCATATGAATGTGA
1 TTGGGCCTGATGGACCATATGAACGAGA
* *
57780372 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGACCATATGAACGAGA
*
57780400 TTAGGCCT
1 TTGGGCCT
57780408 AAAGGGGCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGACCATATGAACGAGA
Found at i:57780761 original size:27 final size:27
Alignment explanation
Indices: 57780723--57781061 Score: 336
Period size: 27 Copynumber: 12.7 Consensus size: 27
57780713 TAATAAAGAG
*
57780723 AAATTACTGAAATGCCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
57780750 AAATTATTGAAATACCC-CTAATTTTTG
1 AAATTACTGAAATACCCTC-GATTTGTA
*
57780777 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
57780804 AAATTACCGAAATACCCTC-ATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
57780830 AAATTA-TCAAAATACCCTCGA-TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
*
57780856 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
57780883 AAATTACTAAAATACCCT-AATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* ** * *
57780909 AAAGTACCAAAACACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
57780936 AAATTA-TCGAAATACCCTCAATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
57780963 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
57780990 AAATTACTGAAACATTCCT-GATTTGTA
1 AAATTACTGAAATA-CCCTCGATTTGTA
* * *
57781017 AAATTA-TCGAAATATCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
*
57781044 AAATTACCGAAATACCCT
1 AAATTACTGAAATACCCT
57781062 TATAGTGTAA
Statistics
Matches: 266, Mismatches: 32, Indels: 28
0.82 0.10 0.09
Matches are distributed among these distances:
26 75 0.28
27 186 0.70
28 5 0.02
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:57780880 original size:53 final size:54
Alignment explanation
Indices: 57780790--57780995 Score: 267
Period size: 53 Copynumber: 3.9 Consensus size: 54
57780780 TTACTGAAAC
* *
57780790 ACCCTCGATTTGTAAAATTACCGAAATACCCTC-ATTTGTAAAATTATCAAAAT
1 ACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTATCAAAAT
* * *
57780843 ACCCTCGA-TTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTA-CTAAAAT
1 ACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTATC-AAAAT
* * * *
57780896 ACCCT-AATTTGTAAAAGTACCAAAACACCCTCAATTTGTAAAATTATCGAAAT
1 ACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTATCAAAAT
** *
57780949 ACCCTCAATTTGTAAAATTACTGAAATACCCTTGATTTGTAAAATTA
1 ACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTA
57780996 CTGAAACATT
Statistics
Matches: 132, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
52 23 0.17
53 73 0.55
54 36 0.27
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
ACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTATCAAAAT
Found at i:57781071 original size:54 final size:53
Alignment explanation
Indices: 57780932--57781101 Score: 148
Period size: 54 Copynumber: 3.2 Consensus size: 53
57780922 ACCCTCAATT
* * *
57780932 TGTAAAATTATCGAAATACCCTCA-ATTTGTAAAATTACTGAAATACCCTTG-ATT
1 TGTAAAATTACCGAAATACCCTCATA-TTGTAAAATTAC-GAAATATCCTTGTA-G
* * * *
57780986 TGTAAAATTACTGAAACATTCCTGAT-TTGTAAAATTATCGAAATATCCTTGTAG
1 TGTAAAATTACCGAAATA-CCCTCATATTGTAAAATTA-CGAAATATCCTTGTAG
* * * * *
57781040 TGTAAAATTACCGAAATACCCTTATAGTGTAAAATGACCGACATATCCCTGTAG
1 TGTAAAATTACCGAAATACCCTCATATTGTAAAATTA-CGAAATATCCTTGTAG
*
57781094 GGTAAAAT
1 TGTAAAAT
57781102 AACTGTTTTG
Statistics
Matches: 94, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
53 5 0.05
54 83 0.88
55 6 0.06
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (53 bp):
TGTAAAATTACCGAAATACCCTCATATTGTAAAATTACGAAATATCCTTGTAG
Found at i:57781098 original size:27 final size:27
Alignment explanation
Indices: 57780932--57781101 Score: 116
Period size: 27 Copynumber: 6.3 Consensus size: 27
57780922 ACCCTCAATT
* ** *
57780932 TGTAAAATTATCGAAATA-CCCTCAATT
1 TGTAAAATTACCGAAATATCCCTGTA-G
* *
57780959 TGTAAAATTACTGAAATA-CCCT-TGATT
1 TGTAAAATTACCGAAATATCCCTGT-A-G
* * * *
57780986 TGTAAAATTACTGAAACATTCCTG-ATT
1 TGTAAAATTACCGAAATATCCCTGTA-G
* *
57781013 TGTAAAATTATCGAAATATCCTTGTAG
1 TGTAAAATTACCGAAATATCCCTGTAG
*
57781040 TGTAAAATTACCGAAATA-CCCTTATAG
1 TGTAAAATTACCGAAATATCCC-TGTAG
* *
57781067 TGTAAAATGACCGACATATCCCTGTAG
1 TGTAAAATTACCGAAATATCCCTGTAG
*
57781094 GGTAAAAT
1 TGTAAAAT
57781102 AACTGTTTTG
Statistics
Matches: 119, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 110 0.92
28 7 0.06
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (27 bp):
TGTAAAATTACCGAAATATCCCTGTAG
Found at i:57784588 original size:40 final size:40
Alignment explanation
Indices: 57784533--57784796 Score: 379
Period size: 40 Copynumber: 6.6 Consensus size: 40
57784523 TATTCGAATG
* * *
57784533 ATATCCGGGTTAAGTCCCGAGGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
57784573 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
57784613 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
57784653 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * * *
57784693 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTCACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * * *
57784733 ATATCCGGGCTAAGACCCGAAGGCATCTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
*
57784773 ATATCC-GGCTAAATCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCA
57784797 CTTGAGTTTG
Statistics
Matches: 204, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 16 0.08
40 187 0.92
41 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
Found at i:57788852 original size:46 final size:46
Alignment explanation
Indices: 57788785--57788910 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
57788775 AACCCGCCCC
* * *
57788785 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
57788831 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
57788877 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57788911 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:57788929 original size:46 final size:45
Alignment explanation
Indices: 57788787--57788929 Score: 146
Period size: 46 Copynumber: 3.1 Consensus size: 45
57788777 CCCGCCCCTA
* ** * *
57788787 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*** *
57788832 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
57788878 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
57788925 AGTGA
1 AGTGA
57788930 CATGTCACTT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 82 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:57794925 original size:43 final size:43
Alignment explanation
Indices: 57794785--57794942 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
57794775 AGCTCGTACA
* * *
57794785 ATGCCAACGTCCCAGACGTAGTCTTACATGT-AATCAAATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAAATCAAAT-TCG
* * *
57794828 ATGCC-ACTGTCCCAGATAG-GGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-ATCCCAGA-CGTGGTCTTACACGTAAATCAAATTCG
57794870 ATGCCAACAT-CCAGACGTGGTCTTACACGTAAATCATAATTCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAAATCA-AATTCG
* * *
57794913 ATGCCAACATCCAAGACATGGTTTTACACG
1 ATGCCAACATCCCAGACGTGGTCTTACACG
57794943 ATAACACATA
Statistics
Matches: 97, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
40 1 0.01
41 16 0.16
42 16 0.16
43 47 0.48
44 17 0.18
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGTAAATCAAATTCG
Found at i:57794940 original size:85 final size:85
Alignment explanation
Indices: 57794785--57794943 Score: 198
Period size: 85 Copynumber: 1.9 Consensus size: 85
57794775 AGCTCGTACA
* * * * *
57794785 ATGCCAACGTCCCAGACGTAGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGATAGGGT
1 ATGCCAACATCCCAGACGTAGTCTTACACGTAATCAAATATCGATGCCACTATCCAAGACAGGGT
57794850 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
* *
57794870 ATGCCAACAT-CCAGACGTGGTCTTACACGTAAATCATAAT-TCGATGCCAAC-ATCCAAGACAT
1 ATGCCAACATCCCAGACGTAGTCTTACACGT-AATCA-AATATCGATGCC-ACTATCCAAGACAG
*
57794932 GGTTTTACACGA
63 GGTCTTACACGA
57794944 TAACACATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
84 18 0.29
85 40 0.63
86 5 0.08
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (85 bp):
ATGCCAACATCCCAGACGTAGTCTTACACGTAATCAAATATCGATGCCACTATCCAAGACAGGGT
CTTACACGAAATCAAATACG
Found at i:57797072 original size:5 final size:5
Alignment explanation
Indices: 57797062--57797114 Score: 61
Period size: 5 Copynumber: 10.2 Consensus size: 5
57797052 AATAACCAGA
* * *
57797062 AAAAT AAAAT AAATT AAAAG AAAAGA ACAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAA-T A-AAAT AAAAT AAAAT AAAAT AAAAT
57797114 A
1 A
57797115 GACTCAATGG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
5 36 0.88
6 2 0.05
7 3 0.07
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:57797075 original size:27 final size:27
Alignment explanation
Indices: 57797044--57797112 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
57797034 AAGTCTTAGG
*
57797044 AAAATACAAATAACCAGAA-AAATAAAAT
1 AAAATA-AAATAA-AAGAACAAATAAAAT
* *
57797072 AAATTAAAAGAAAAGAACAAATAAAAT
1 AAAATAAAATAAAAGAACAAATAAAAT
57797099 AAAATAAAATAAAA
1 AAAATAAAATAAAA
57797113 TAGACTCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 4 0.11
27 26 0.74
28 5 0.14
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.14
Consensus pattern (27 bp):
AAAATAAAATAAAAGAACAAATAAAAT
Found at i:57798716 original size:16 final size:16
Alignment explanation
Indices: 57798691--57798721 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57798681 ACTAATTAAA
*
57798691 GAAATGAATAAATAAC
1 GAAATAAATAAATAAC
57798707 GAAATAAATAAATAA
1 GAAATAAATAAATAA
57798722 ATAAGTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.19
Consensus pattern (16 bp):
GAAATAAATAAATAAC
Found at i:57798799 original size:3 final size:3
Alignment explanation
Indices: 57798738--57798787 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
57798728 AAATAAGGAA
* *
57798738 AAT AAT AAT AAT GAG AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
57798786 AA
1 AA
57798788 GGTCAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:57805058 original size:46 final size:46
Alignment explanation
Indices: 57804967--57805133 Score: 151
Period size: 46 Copynumber: 3.5 Consensus size: 46
57804957 GAGAACCAGC
*** *
57804967 GTAAGACCATGTCTGGGACATGGCATCGGTATCGAGACGAGAGCTAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCCCCATCGAGACGAAAGCTAGT
*
57805015 GTAAGACATGTCTGGGACATGCATCCCCCTCGAGAC-ATAAGCTAGT
1 GTAAGACATGTCTGGGACATGCATCCCCATCGAGACGA-AAGCTAGT
* ** * * *
57805061 GTAAGATATGTCTGGGACATGCATCGAC-TACAAGAGGATAG-TCAGT
1 GTAAGACATGTCTGGGACATGCATCCCCAT-CGAGACGAAAGCT-AGT
57805107 GTAAGACCATGTCTGGGACATGGCATC
1 GTAAGA-CATGTCTGGGACAT-GCATC
57805134 AGCACCTTAC
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
45 3 0.03
46 59 0.58
47 28 0.28
48 11 0.11
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCCCCATCGAGACGAAAGCTAGT
Found at i:57810851 original size:31 final size:29
Alignment explanation
Indices: 57810796--57810853 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 29
57810786 TGCATTATAT
*
57810796 ATATATATGCTGAATTAAGTTGTAAAAGA
1 ATATAAATGCTGAATTAAGTTGTAAAAGA
57810825 ATATAAATG-TGAAGTTGAAGTATGTAAAA
1 ATATAAATGCTGAA-TT-AAGT-TGTAAAA
57810854 TATGAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (29 bp):
ATATAAATGCTGAATTAAGTTGTAAAAGA
Found at i:57812105 original size:13 final size:13
Alignment explanation
Indices: 57812087--57812111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57812077 CGTGTGTGAC
57812087 ACACAGCCATGTT
1 ACACAGCCATGTT
57812100 ACACAGCCATGT
1 ACACAGCCATGT
57812112 GTCCCCTGGG
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:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (13 bp):
ACACAGCCATGTT
Found at i:57815118 original size:46 final size:44
Alignment explanation
Indices: 57815065--57815332 Score: 170
Period size: 47 Copynumber: 5.8 Consensus size: 44
57815055 ATTTTTGGCT
*
57815065 AGTGTAAGACAT-TTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTT-TGGGACATGCATCGG-CACATGA-GAGAGCC
* * ***
57815111 AGTGTAAGACCATGTCTGGAACATGGCATCGGCAC-TGAGACAAGAATT
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCACATGAG---AGAGCC
*
57815159 AGTGTAAGACATGTTTGGGACATGAATCGGC-CATGAGACGTAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCACATGAGA-G--AGCC
* *
57815205 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGA-GATGATAGTC
1 AGTGTAAGACATGTTTGGGACATGCATCGGC-AC-ATGA-GAGAGCC
** * *
57815251 AGTGTAAGACCATGTCAGGGACACGGCATC-G-ACTTGAGATGTGAGCC
1 AGTGTAAGA-CATGTTTGGGACA-TGCATCGGCACATGAGA---GAGCC
* *
57815298 AGTGTAAGACCATGTCTGGGACATGGCATTGGCAC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCAC
57815333 CTTACCCATG
Statistics
Matches: 175, Mismatches: 24, Indels: 43
0.72 0.10 0.18
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 6 0.03
46 65 0.37
47 66 0.38
48 29 0.17
49 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCACATGAGAGAGCC
Found at i:57815312 original size:140 final size:140
Alignment explanation
Indices: 57815065--57815322 Score: 326
Period size: 140 Copynumber: 1.8 Consensus size: 140
57815055 ATTTTTGGCT
* *
57815065 AGTGTAAGACATTTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATTTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCAGG
* ** *
57815130 AACATGGCATCGGCACTGAGACAAGAATTAGTGTAAGACATGTTTGGGACATGAATCGGCCATGA
66 AACACGGCATCGGCACTGAGACAAGAACCAGTGTAAGACATGTCTGGGACATGAATCGGCCATGA
57815195 GACGTAAGCC
131 GACGTAAGCC
* * *
57815205 AGTGTAAGACATGTT-TGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCA
1 AGTGTAAGACAT-TTCTGGGACATGCATCGGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCA
* *** *
57815268 GGGACACGGCATC-G-ACTTGAGATGTGAGCCAGTGTAAGACCATGTCTGGGACATG
64 GGAACACGGCATCGGCAC-TGAGACAAGAACCAGTGTAAGA-CATGTCTGGGACATG
57815323 GCATTGGCAC
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
138 2 0.02
139 17 0.17
140 78 0.78
141 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (140 bp):
AGTGTAAGACATTTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCAGG
AACACGGCATCGGCACTGAGACAAGAACCAGTGTAAGACATGTCTGGGACATGAATCGGCCATGA
GACGTAAGCC
Found at i:57815326 original size:47 final size:48
Alignment explanation
Indices: 57815106--57815326 Score: 197
Period size: 47 Copynumber: 4.7 Consensus size: 48
57815096 CACATTATGA
* **
57815106 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCAC-TGAGACAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-ACTTGAGACGT
*** * * * *
57815154 GAATTAGTGTAAGA-CATGTTTGGGACAT-GAATCGGCCATGAGACGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGACTTGAGACGT
* * * *
57815200 AAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGG-CTACGAGATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGACT-TGAGACG-T
* * * *
57815247 -AGTCAGTGTAAGACCATGTCAGGGACACGGCATC-GACTTGAGATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGACTTGAGACGT
57815293 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
57815327 TGGCACCTTA
Statistics
Matches: 141, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.01
46 60 0.43
47 61 0.43
48 18 0.13
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGACTTGAGACGT
Found at i:57816948 original size:19 final size:20
Alignment explanation
Indices: 57816911--57816949 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
57816901 ATAATGAGCA
57816911 TATATAACATATCATTCATT
1 TATATAACATATCATTCATT
57816931 TATAT-ACAT-TCATATCATT
1 TATATAACATATCAT-TCATT
57816950 CTTTGTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATAACATATCATTCATT
Found at i:57819757 original size:24 final size:24
Alignment explanation
Indices: 57819720--57819806 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 24
57819710 AGACTCACCA
57819720 CAGCTCATATGAGCTTACTATTTT
1 CAGCTCATATGAGCTTACTATTTT
**
57819744 CAGCTCAT-TGGAGCTTACCGTTTT
1 CAGCTCATAT-GAGCTTACTATTTT
*
57819768 -AGCTCATATGAGCTTAC--TGTT
1 CAGCTCATATGAGCTTACTATTTT
57819789 CAGCTCGATA-GAGCTTAC
1 CAGCTC-ATATGAGCTTAC
57819807 CGTTTCAGCT
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
21 3 0.05
22 13 0.23
23 19 0.34
24 21 0.38
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (24 bp):
CAGCTCATATGAGCTTACTATTTT
Found at i:57819780 original size:23 final size:23
Alignment explanation
Indices: 57819721--57819843 Score: 110
Period size: 23 Copynumber: 5.3 Consensus size: 23
57819711 GACTCACCAC
*
57819721 AGCTCATATGAGCTTACTATTTT
1 AGCTCATATGAGCTTACTGTTTT
*
57819744 CAGCTCAT-TGGAGCTTACCGTTTT
1 -AGCTCATAT-GAGCTTACTGTTTT
*
57819768 AGCTCATATGAGCTTACTG-TTC
1 AGCTCATATGAGCTTACTGTTTT
* *
57819790 AGCTCGATA-GAGCTTACCGTTTC
1 AGCTC-ATATGAGCTTACTGTTTT
*
57819813 AGCTTA-ATAGAGCTTACTGTTCATT
1 AGCTCATAT-GAGCTTACTGTT--TT
57819838 AGCTCA
1 AGCTCA
57819844 GGAGGAGCCG
Statistics
Matches: 82, Mismatches: 9, Indels: 15
0.77 0.08 0.14
Matches are distributed among these distances:
21 1 0.01
22 17 0.21
23 38 0.46
24 20 0.24
25 6 0.07
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (23 bp):
AGCTCATATGAGCTTACTGTTTT
Found at i:57819806 original size:45 final size:45
Alignment explanation
Indices: 57819720--57819835 Score: 146
Period size: 45 Copynumber: 2.5 Consensus size: 45
57819710 AGACTCACCA
* *
57819720 CAGCTCATATGAGCTTACTATTTTCAGCTCATTGGAGCTTACCGTTT
1 CAGCTCATATGAGCTTAC--TGTTCAGCTCATTAGAGCTTACCGTTT
*
57819767 TAGCTCATATGAGCTTACTGTTCAGCTCGA-TAGAGCTTACCGTTT
1 CAGCTCATATGAGCTTACTGTTCAGCTC-ATTAGAGCTTACCGTTT
*
57819812 CAGCTTA-ATAGAGCTTACTGTTCA
1 CAGCTCATAT-GAGCTTACTGTTCA
57819836 TTAGCTCAGG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
44 2 0.03
45 42 0.68
46 1 0.02
47 17 0.27
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.36
Consensus pattern (45 bp):
CAGCTCATATGAGCTTACTGTTCAGCTCATTAGAGCTTACCGTTT
Found at i:57821520 original size:40 final size:39
Alignment explanation
Indices: 57821446--57821670 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 39
57821436 AACCCAAGTA
* * *
57821446 CCTTCGGGATTTAG-TCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
* * *
57821485 CCTTTGGGTCTTAGCCCGGATATAGTCACTAGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
*
57821525 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
* *
57821568 CCTTCGGGACTTCGCTCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* *
57821608 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
57821648 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
57821671 CATCCGAATA
Statistics
Matches: 161, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
39 12 0.07
40 112 0.70
41 2 0.01
43 34 0.21
44 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:57821566 original size:83 final size:80
Alignment explanation
Indices: 57821446--57821670 Score: 326
Period size: 83 Copynumber: 2.8 Consensus size: 80
57821436 AACCCAAGTA
* * * * *
57821446 CCTTCGGGATTTAG-TCGGATATAGCAACTCGCACAAATGCCTTTGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
57821510 TCACTAGCACAAATT
66 TCACTAGCACAAATG
* * *
57821525 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCTCGGATA
1 CCTTCGGGACTTAGCCCGGATATAG-AA--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
57821590 TAGTCACTAGCACAAATG
63 TAGTCACTAGCACAAATG
*
57821608 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
57821671 CATCCGAATA
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
79 13 0.10
80 42 0.33
81 1 0.01
82 1 0.01
83 72 0.56
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:57830194 original size:15 final size:15
Alignment explanation
Indices: 57830174--57830204 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57830164 GTGTTCTTGA
57830174 AAGTATCTCCATGGG
1 AAGTATCTCCATGGG
*
57830189 AAGTATCTCTATGGG
1 AAGTATCTCCATGGG
57830204 A
1 A
57830205 GAAAGTTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (15 bp):
AAGTATCTCCATGGG
Found at i:57833294 original size:40 final size:40
Alignment explanation
Indices: 57833207--57833407 Score: 232
Period size: 40 Copynumber: 5.0 Consensus size: 40
57833197 AATAATGTCA
* *
57833207 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCC
**
57833247 GAACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* *
57833287 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
57833326 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* **
57833366 GGGCTATGTCCCGAAGGCATTTGAACGAGTTGA-TATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTT-ACTATATCC
57833406 GG
1 GG
57833408 TTAAATTCCG
Statistics
Matches: 138, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.25
40 94 0.68
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:57833410 original size:79 final size:79
Alignment explanation
Indices: 57833257--57833421 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
57833247 GAACTAAGAT
* **
57833257 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
57833322 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
57833336 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTTGA-
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTT-AC
* *
57833399 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
57833415 CCGAAGG
1 CCGAAGG
57833422 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.63
80 25 0.33
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:57836374 original size:86 final size:85
Alignment explanation
Indices: 57836217--57836376 Score: 195
Period size: 86 Copynumber: 1.9 Consensus size: 85
57836207 AGCTCATACA
* *
57836217 ATGCCAACGTCCCAAATATGGTCTTACATGTAATCAAATATCGATGCCACTATCCTAGATAGGGT
1 ATGCCAACGCCCCAAATATGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGATAGGGT
57836282 CTTACACAAAATCAAATATG
66 CTTACACAAAATCAAATATG
*
57836302 ATGCCAACGCCCCAAA-AGTGGTCTTAC-TCGTCAATCATAA-GTCGATGCCAAC-ATCCCAGA-
1 ATGCCAACGCCCCAAATA-TGGTCTTACAT-GT-AATCA-AATATCGATGCC-ACTATCCCAGAT
*
57836362 CGTGGTCTTACACAA
61 AG-GGTCTTACACAA
57836377 GAACACATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
84 2 0.03
85 27 0.42
86 32 0.49
87 4 0.06
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (85 bp):
ATGCCAACGCCCCAAATATGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGATAGGGT
CTTACACAAAATCAAATATG
Found at i:57838842 original size:93 final size:93
Alignment explanation
Indices: 57838729--57838901 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
57838719 CGCCCATAAG
* *
57838729 CGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCAATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACGCTCGCATCAATAAGTGAACTCGGACTCAACTCA
57838794 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * *
57838822 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACGCTCGCATCAATAAGTGAACTCGGACTCAACTCA
*
57838887 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
57838902 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACGCTCGCATCAATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:57838897 original size:46 final size:46
Alignment explanation
Indices: 57838722--57838897 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
57838712 TGTAACCCGC
* * *
57838722 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
57838768 CAATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
57838818 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
57838861 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
57838898 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 66 0.61
47 31 0.29
48 2 0.02
50 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:57841317 original size:15 final size:15
Alignment explanation
Indices: 57841286--57841374 Score: 76
Period size: 15 Copynumber: 6.0 Consensus size: 15
57841276 CAAAGATAAC
*
57841286 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
57841300 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
**
57841315 AAGAAA-CCCGGAATA
1 AAGAAATCCAAG-ATA
*
57841330 AAGAAAT-CTAGAATA
1 AAGAAATCCAAG-ATA
* *
57841345 AAGAGATCCAGGATA
1 AAGAAATCCAAGATA
*
57841360 AAGAAACCCAAGATA
1 AAGAAATCCAAGATA
57841375 CGATACTATG
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
14 13 0.22
15 45 0.75
16 2 0.03
ACGTcount: A:0.58, C:0.15, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:57841332 original size:30 final size:31
Alignment explanation
Indices: 57841296--57841374 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 31
57841286 AAGAAAACCA
*
57841296 AATAAAGAAATCCAAGATAAAGA-AACCCGG
1 AATAAAGAAATCCAAGATAAAGAGAACCAGG
* *
57841326 AATAAAGAAAT-CTAGAATAAAGAGATCCAGG
1 AATAAAGAAATCCAAG-ATAAAGAGAACCAGG
*
57841357 -ATAAAGAAACCCAAGATA
1 AATAAAGAAATCCAAGATA
57841375 CGATACTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
29 3 0.07
30 30 0.73
31 8 0.20
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.13
Consensus pattern (31 bp):
AATAAAGAAATCCAAGATAAAGAGAACCAGG
Found at i:57844407 original size:93 final size:93
Alignment explanation
Indices: 57844295--57844467 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
57844285 CGCCCATAAG
* *
57844295 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
57844360 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
57844388 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
57844453 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
57844468 CAAATATCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:57844463 original size:46 final size:46
Alignment explanation
Indices: 57844288--57844463 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
57844278 TGTAACCCGC
* *
57844288 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
57844334 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
57844384 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
57844427 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
57844464 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.61
47 30 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:57845688 original size:11 final size:11
Alignment explanation
Indices: 57845672--57845698 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
57845662 TCATAGACCT
57845672 TAAAATAATCA
1 TAAAATAATCA
57845683 TAAAATAATCA
1 TAAAATAATCA
57845694 TAAAA
1 TAAAA
57845699 CATGAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAATAATCA
Done.