Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 178 of 770
Found at i:53212225 original size:25 final size:25
Alignment explanation
Indices: 53212196--53212243 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53212186 TTATAATATG
* * *
53212196 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
53212221 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
53212244 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:53212312 original size:20 final size:20
Alignment explanation
Indices: 53212287--53212345 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
53212277 TAAATATGGT
53212287 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
53212307 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
53212327 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
53212346 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:53212426 original size:23 final size:24
Alignment explanation
Indices: 53212396--53212537 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
53212386 GAGGAAGTGA
53212396 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
53212419 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
53212443 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
53212466 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
53212490 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
53212514 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
53212538 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
23 36 0.33
24 63 0.57
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:53212470 original size:47 final size:47
Alignment explanation
Indices: 53212396--53212537 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
53212386 GAGGAAGTGA
53212396 AAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
53212443 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
53212490 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
53212538 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
47 56 0.64
48 20 0.23
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:53212764 original size:31 final size:31
Alignment explanation
Indices: 53212729--53212792 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
53212719 CGTTTACAGT
53212729 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
53212760 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
53212791 AA
1 AA
53212793 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:53215871 original size:27 final size:27
Alignment explanation
Indices: 53215629--53215862 Score: 294
Period size: 27 Copynumber: 8.7 Consensus size: 27
53215619 AAAGTACTCC
**
53215629 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTATTTTACCCT
* *
53215656 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACTATTTTACCCT
** * **
53215683 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTATTTTACCCT
**
53215710 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTATTTTACCCT
53215737 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACTATTTTACCCT
53215764 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACTATTTTACCCT
*
53215791 C-AGTTTACAGAATTATTATTTTACCCT
1 CGA-TTTACAGAATTACTATTTTACCCT
*
53215818 TGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACTATTTTACCCT
*
53215845 CGATTTACAAAATTACTA
1 CGATTTACAGAATTACTA
53215863 AAATACCCTT
Statistics
Matches: 186, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
26 3 0.02
27 180 0.97
28 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACTATTTTACCCT
Found at i:53215871 original size:81 final size:81
Alignment explanation
Indices: 53215629--53215862 Score: 337
Period size: 81 Copynumber: 2.9 Consensus size: 81
53215619 AAAGTACTCC
* * **
53215629 CGATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTGTTTTACCCTCGATTTGTAAA
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAAA
**
53215694 ATTACCGTTTTACCCT
66 ATTACTATTTTACCCT
*
53215710 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAGA
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAAA
53215775 ATTACTATTTTACCCT
66 ATTACTATTTTACCCT
*** *
53215791 C-AGTTTACAGAATTATTATTTTACCCT-TGATTTACAGAATTACTATTTTACCCTCGATTTACA
1 CGA-TTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACTATTTTACCCTCGATTTACA
53215854 AAATTACTA
64 AAATTACTA
53215863 AAATACCCTT
Statistics
Matches: 139, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
80 2 0.01
81 137 0.99
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (81 bp):
CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAAA
ATTACTATTTTACCCT
Found at i:53217121 original size:25 final size:25
Alignment explanation
Indices: 53217092--53217139 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53217082 TTATAATATG
* * *
53217092 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
53217117 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
53217140 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:53217208 original size:20 final size:20
Alignment explanation
Indices: 53217183--53217241 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
53217173 TAAATATGGT
53217183 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
53217203 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
53217223 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
53217242 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:53217319 original size:24 final size:24
Alignment explanation
Indices: 53217292--53217434 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
53217282 GAGGAAGTGA
53217292 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
53217316 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
53217340 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
53217363 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
53217387 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
53217411 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
53217435 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:53217385 original size:47 final size:47
Alignment explanation
Indices: 53217292--53217434 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
53217282 GAGGAAGTGA
53217292 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
53217340 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
53217387 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
53217435 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:53217408 original size:71 final size:72
Alignment explanation
Indices: 53217292--53217435 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
53217282 GAGGAAGTGA
*
53217292 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
53217355 CCAGTTAT
65 CCAGTTAT
** * *
53217363 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
53217428 CAGTTAT
66 CAGTTAT
53217435 A
1 A
53217436 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:53217659 original size:31 final size:31
Alignment explanation
Indices: 53217624--53217687 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
53217614 CGTTTACAGT
53217624 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
53217655 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
53217686 AA
1 AA
53217688 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:53223671 original size:28 final size:29
Alignment explanation
Indices: 53223640--53223704 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
53223630 AAAGTTATTT
* * *
53223640 TTGATAAAAATGTCAATT-AGGGGTTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
*
53223668 TTGAGAAAAGTGTAAATTGAGGGATTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
*
53223697 TTGTGAAA
1 TTGAGAAA
53223705 TAAATGAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.31
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGGGATTAAA
Found at i:53225763 original size:93 final size:93
Alignment explanation
Indices: 53225600--53225770 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
53225590 GCCCCTAAGT
* * * *
53225600 GAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53225665 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
53225693 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53225758 CGAGTTCGGATGC
66 CGAGTTCGGATGC
53225771 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:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:53225767 original size:46 final size:46
Alignment explanation
Indices: 53225595--53225767 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
53225585 AACCCGCCCC
* * * * *
53225595 TAAGTGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
53225641 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
53225689 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
53225734 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53225768 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 1 0.01
45 2 0.02
46 60 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:53227592 original size:46 final size:46
Alignment explanation
Indices: 53227542--53227670 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
53227532 TGGTTGAGCA
*
53227542 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
53227588 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
53227634 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53227671 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:53229669 original size:21 final size:21
Alignment explanation
Indices: 53229629--53229669 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
53229619 TATATTAGTG
*
53229629 AAAGATTTATTGATCAGAAGT
1 AAAGATTTATTGAGCAGAAGT
* *
53229650 AAAGATTTCTTGAGCTGAAG
1 AAAGATTTATTGAGCAGAAG
53229670 CAAGGTAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (21 bp):
AAAGATTTATTGAGCAGAAGT
Found at i:53235056 original size:46 final size:46
Alignment explanation
Indices: 53235006--53235181 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
53234996 TGGTTGAGCA
53235006 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53235052 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
53235097 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53235145 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53235182 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53235162 original size:93 final size:93
Alignment explanation
Indices: 53235003--53235174 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53234993 GGATGGTTGA
* *
53235003 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53235068 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
53235096 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53235161 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53235175 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53242406 original size:2 final size:2
Alignment explanation
Indices: 53242399--53242426 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
53242389 ACGTATATTC
53242399 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53242427 TTAACTCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53242712 original size:42 final size:41
Alignment explanation
Indices: 53242625--53242730 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 41
53242615 AACGCCAACA
* * *
53242625 TCCCAGAC-GTGGTCTTACATGTAATCACATATCGATGCCACTG
1 TCCCAGACAG-GGTCTTACACG-AA-CTCATATCGATGCCAATG
* *
53242668 TCCTAGATAGGGTCTTACACGAACTCATATACGATGCCAATG
1 TCCCAGACAGGGTCTTACACGAACTCATAT-CGATGCCAATG
*
53242710 TCCCAGACATGGTCTTACACG
1 TCCCAGACAGGGTCTTACACG
53242731 CAAATCACAA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 6 0.11
42 30 0.57
43 16 0.30
44 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (41 bp):
TCCCAGACAGGGTCTTACACGAACTCATATCGATGCCAATG
Found at i:53247732 original size:37 final size:37
Alignment explanation
Indices: 53247682--53247753 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
53247672 TTTAGCTCGA
*
53247682 ATAATCCCCACACGTAGTCATCGGGTCTTACCCGGGC
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
*
53247719 ATAATCTCCACACGTAGCCATCGGGTCTTACCCGG
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGG
53247754 AATATATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (37 bp):
ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
Found at i:53247947 original size:48 final size:48
Alignment explanation
Indices: 53247887--53247992 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
53247877 CGGCCACAAT
* *
53247887 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
53247935 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
53247983 ACATATATAT
1 ATATACATAT
53247993 TTTATCTTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:53251419 original size:28 final size:28
Alignment explanation
Indices: 53251388--53251467 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 28
53251378 ACTGACCGAT
53251388 CTCGCACACATAGTGCTCGGTTGA-AGAA
1 CTCGCACACATAGTGCTCGGTT-ACAGAA
* ** * *
53251416 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTG-CTCGGTTACAGAA
53251445 CTCGCACACATAGTGCTCGGTTA
1 CTCGCACACATAGTGCTCGGTTA
53251468 ACGGAATTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (28 bp):
CTCGCACACATAGTGCTCGGTTACAGAA
Found at i:53251707 original size:43 final size:43
Alignment explanation
Indices: 53251658--53251858 Score: 368
Period size: 43 Copynumber: 4.7 Consensus size: 43
53251648 CACTGGCATT
* *
53251658 AAGCCTGCTAGGCACGAAGACCCGAATACATATCACCAGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
53251701 AAGCCTGCTAGGCACGAAGG-CCGAATACATATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
53251743 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
*
53251786 AAGCCTGCTAGGCACGAAGGCCCTAATACATATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
53251829 AAGCCTGCTAGGCACGAAGGCCCGAATACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACA
53251859 CATAACCGAG
Statistics
Matches: 153, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
42 41 0.27
43 112 0.73
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
Found at i:53251789 original size:85 final size:86
Alignment explanation
Indices: 53251658--53251858 Score: 368
Period size: 85 Copynumber: 2.3 Consensus size: 86
53251648 CACTGGCATT
*
53251658 AAGCCTGCTAGGCACGAAGACCCGAATACATATCACCAGCACGAAGCCTGCTAGGCACGAAGG-C
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCAGCACGAAGCCTGCTAGGCACGAAGGCC
53251722 CGAATACATATCACCGGCACG
66 CGAATACATATCACCGGCACG
*
53251743 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACGAAGCCTGCTAGGCACGAAGGCC
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCAGCACGAAGCCTGCTAGGCACGAAGGCC
*
53251808 CTAATACATATCACCGGCACG
66 CGAATACATATCACCGGCACG
53251829 AAGCCTGCTAGGCACGAAGGCCCGAATACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACA
53251859 CATAACCGAG
Statistics
Matches: 112, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
85 61 0.54
86 51 0.46
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (86 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCAGCACGAAGCCTGCTAGGCACGAAGGCC
CGAATACATATCACCGGCACG
Found at i:53253608 original size:37 final size:37
Alignment explanation
Indices: 53253558--53253628 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
53253548 TTTAGCTCGA
*
53253558 ATAATCCCCACACGTAGTCATCGGGTCTTACCCGGGC
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
*
53253595 ATAATCTCCACACGTAGCCATCGGGTCTTACCCG
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCG
53253629 AATATATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.23
Consensus pattern (37 bp):
ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
Found at i:53253822 original size:48 final size:48
Alignment explanation
Indices: 53253762--53253867 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
53253752 CGGCCACAAT
* *
53253762 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
53253810 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
53253858 ACATATATAT
1 ATATACATAT
53253868 ATTTATCTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:53256684 original size:38 final size:37
Alignment explanation
Indices: 53256633--53256706 Score: 121
Period size: 38 Copynumber: 2.0 Consensus size: 37
53256623 TCAATCTCAG
53256633 CATATACTAGGCCGAAGCCTTTTCATATTTCATATTT
1 CATATACTAGGCCGAAGCCTTTTCATATTTCATATTT
* *
53256670 CATATCACTGGGCCGAAGCCTTTTCGTATTTCATATT
1 CATAT-ACTAGGCCGAAGCCTTTTCATATTTCATATT
53256707 GCTGGGCCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 5 0.15
38 29 0.85
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (37 bp):
CATATACTAGGCCGAAGCCTTTTCATATTTCATATTT
Found at i:53256703 original size:31 final size:31
Alignment explanation
Indices: 53256660--53256723 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
53256650 CCTTTTCATA
53256660 TTTCATATTTCATATCACTGGGCCGAAGCCT
1 TTTCATATTTCATATCACTGGGCCGAAGCCT
* **
53256691 TTTCGTATTTCATATTGCTGGGCCGAAGCCT
1 TTTCATATTTCATATCACTGGGCCGAAGCCT
53256722 TT
1 TT
53256724 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATCACTGGGCCGAAGCCT
Found at i:53256987 original size:25 final size:23
Alignment explanation
Indices: 53256931--53257013 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 23
53256921 CTGGAGGCCT
*
53256931 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACT-GGGCAA
53256955 AGCCCTTTTGATAAACTAGGGCACA
1 AGCCCTTTTGATAAACT-GGGCA-A
53256980 AGCCCTTTTCTG-TAAACTGGGCAAA
1 AGCCC-TTT-TGATAAACTGGGC-AA
53257005 AGCCCTTTT
1 AGCCCTTTT
53257014 TGCACTTCCT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
23 8 0.15
24 16 0.31
25 16 0.31
26 10 0.19
27 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (23 bp):
AGCCCTTTTGATAAACTGGGCAA
Found at i:53267579 original size:55 final size:53
Alignment explanation
Indices: 53267453--53267641 Score: 218
Period size: 55 Copynumber: 3.5 Consensus size: 53
53267443 AACTTACCAT
* * *
53267453 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* ** * *
53267506 TGGCATGCCTTGGGATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
53267561 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
53267615 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
53267642 ATATCCTTAT
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 32 0.28
54 35 0.31
55 42 0.37
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:53267636 original size:54 final size:54
Alignment explanation
Indices: 53267442--53267649 Score: 231
Period size: 54 Copynumber: 3.9 Consensus size: 54
53267432 TTTCCTTTTT
* * * * *
53267442 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* ** ** *
53267495 GAACTCACCAATGGCATGCCTTGGGATGGTCTTACATGGGA-CCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
53267549 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
53267604 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
53267650 ATCTTACCAA
Statistics
Matches: 129, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
52 2 0.02
53 41 0.32
54 42 0.33
55 42 0.33
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:53267683 original size:47 final size:47
Alignment explanation
Indices: 53267628--53267727 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 47
53267618 CATGCCTTGG
*
53267628 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATACCATGTTCCAAA
* *
53267675 CATGGTCTTACATGGTATCCTTGTCTTACCAAATACCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATACCATGTTCCAAA
53267722 CATGGT
1 CATGGT
53267728 ATCCTTGTCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATACCATGTTCCAAA
Found at i:53267927 original size:44 final size:44
Alignment explanation
Indices: 53267878--53267962 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
53267868 ATCCTTAATC
* *
53267878 GTCAATTCCTCATTAAATGCCATGTTATGAA-CATGGACTTTTTT
1 GTCAATTCCTCATTAAATGCCATGGTA-CAATCATGGACTTTTTT
* * *
53267922 GTCAATTCTTCCTTAATTGCCATGGTACAATCATGGACTTT
1 GTCAATTCCTCATTAAATGCCATGGTACAATCATGGACTTT
53267963 GAGATATCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (44 bp):
GTCAATTCCTCATTAAATGCCATGGTACAATCATGGACTTTTTT
Found at i:53274551 original size:29 final size:28
Alignment explanation
Indices: 53274519--53274621 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
53274509 GGGACGAGAT
* *
53274519 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
53274548 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
53274577 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
53274606 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53274622 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:53281786 original size:29 final size:28
Alignment explanation
Indices: 53281754--53281856 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
53281744 GGGACGAGAT
* *
53281754 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
53281783 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
53281812 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
53281841 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53281857 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:53289024 original size:29 final size:28
Alignment explanation
Indices: 53288991--53289093 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
53288981 GGGACGAGAT
* *
53288991 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
53289020 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
53289049 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
53289078 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53289094 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:53299221 original size:29 final size:29
Alignment explanation
Indices: 53299189--53299261 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
53299179 CTTCGAGCTC
* * *
53299189 GCACACCCAGTGTCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
53299218 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
53299247 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
53299262 ATCTCGTCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:53300460 original size:15 final size:14
Alignment explanation
Indices: 53300442--53300491 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
53300432 CTTTTCTTTG
53300442 TTTTTCTTCATATTC
1 TTTTTCTTCAT-TTC
*
53300457 TTTTTTTTC-TTT-
1 TTTTTCTTCATTTC
53300469 TTTTT-TTCATTTC
1 TTTTTCTTCATTTC
53300482 TTTATTCTTC
1 TTT-TTCTTC
53300492 CTACATAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
11 3 0.10
12 8 0.27
13 5 0.17
14 3 0.10
15 11 0.37
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTCTTCATTTC
Found at i:53300473 original size:9 final size:9
Alignment explanation
Indices: 53300422--53300473 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
53300412 GAATGAACAC
53300422 TTTTTTT-T
1 TTTTTTTCT
*
53300430 TTCTTTTCT
1 TTTTTTTCT
53300439 TTGTTTTTCT
1 TT-TTTTTCT
** *
53300449 TCATATTCT
1 TTTTTTTCT
53300458 TTTTTTTCT
1 TTTTTTTCT
53300467 TTTTTTT
1 TTTTTTT
53300474 TTCATTTCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
8 6 0.18
9 21 0.62
10 7 0.21
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:53300482 original size:34 final size:31
Alignment explanation
Indices: 53300424--53300490 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
53300414 ATGAACACTT
53300424 TTTTTTTTCTTTTCTTTGTTTTTCTTCATATTC
1 TTTTTTTTCTTTTCTTTGTTTTTCTT--TATTC
*
53300457 TTTTTTTTCTTTT-TTTTTTCATTTCTTTATTC
1 TTTTTTTTCTTTTCTTTGTT--TTTCTTTATTC
53300489 TT
1 TT
53300491 CCTACATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 12 0.39
33 13 0.42
34 6 0.19
ACGTcount: A:0.06, C:0.13, G:0.01, T:0.79
Consensus pattern (31 bp):
TTTTTTTTCTTTTCTTTGTTTTTCTTTATTC
Found at i:53301096 original size:55 final size:53
Alignment explanation
Indices: 53300971--53301158 Score: 191
Period size: 55 Copynumber: 3.5 Consensus size: 53
53300961 AACTTACCAT
* * * *
53300971 TGCCATGTCTTGACATGGTATTACGT-GGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATAGG-A-CCTTGCCTTATAGAACTCATCAA
* * *
53301024 TGCCATGCCTTGGCATGGTCTTACCTAGGACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATAGGACC-TTGCCTTATAG-AACTCATCAA
* * *** *
53301079 TTCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACAT-AGGACCTTGCCTTATAGAACTCATCAA
*
53301133 TGCCATGCCTTGGCATGGTCTTACAT
1 TGCCATGCCTTGACATGGTCTTACAT
53301159 GATATCCTTA
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 31 0.28
54 35 0.31
55 41 0.37
56 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATAGGACCTTGCCTTATAGAACTCATCAA
Found at i:53301153 original size:54 final size:54
Alignment explanation
Indices: 53300960--53301167 Score: 215
Period size: 54 Copynumber: 3.9 Consensus size: 54
53300950 TTTGCTTTTT
* * * * * *
53300960 GAACTTACCATTGCCATGTCTTGACATGGTATTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
53301013 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACCT-AGGA-CCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGA-TATCC-TTGCCTTATA
* * * *
53301067 GTAACTCATCAATTCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
53301122 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
53301168 ATCTTACCAA
Statistics
Matches: 127, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
52 2 0.02
53 40 0.31
54 41 0.32
55 41 0.32
56 3 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:53301212 original size:47 final size:47
Alignment explanation
Indices: 53301153--53301242 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
53301143 TGGCATGGTC
53301153 TTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATCGTT
1 TTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATCGTT
* *
53301200 TTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACAT
1 TTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACAT
53301243 GGTATCCTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.36
Consensus pattern (47 bp):
TTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATCGTT
Found at i:53305532 original size:39 final size:40
Alignment explanation
Indices: 53305448--53305532 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
53305438 ACTTAATTCA
* * *
53305448 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
* *
53305488 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATGCAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
53305527 TCAGCA
1 CCAGCA
53305533 CAATTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:53305663 original size:45 final size:46
Alignment explanation
Indices: 53305603--53305711 Score: 141
Period size: 47 Copynumber: 2.3 Consensus size: 46
53305593 TGCACACTTT
* *
53305603 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATAACACTTACACAT-TCA
* *
53305649 TCACATTGTCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATA-ACACTTACACATTCA
53305696 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
53305712 ATCTTAAGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
45 24 0.44
46 5 0.09
47 26 0.47
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATATAACACTTACACATTCA
Found at i:53308307 original size:22 final size:20
Alignment explanation
Indices: 53308267--53308307 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
53308257 AGTCCTATTA
*
53308267 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
53308287 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
53308308 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:53311781 original size:14 final size:14
Alignment explanation
Indices: 53311762--53311790 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
53311752 TAAAGATGTT
53311762 TTTGGATGTTTTCA
1 TTTGGATGTTTTCA
53311776 TTTGGATGTTTTCA
1 TTTGGATGTTTTCA
53311790 T
1 T
53311791 AGTCTATTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.59
Consensus pattern (14 bp):
TTTGGATGTTTTCA
Found at i:53321434 original size:46 final size:46
Alignment explanation
Indices: 53321288--53321460 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
53321278 GGGTTATTGT
* * ** *
53321288 GAGCTAGTGTAAGACATGTCTAGGATATGCATCAGCC-ACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGA-GATGA
* * * *
53321334 GAGCTAGTGTAAGACCATGTTTGGGACATGGCACCGGCATTGAGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTTGAGATGA
* *
53321382 GCGCTAGTGTAAGACATGTCCGGGACATGCATCAGCCTTGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATG-A
*
53321429 -AGCTAGTATAAGACATGTCTGGGACATGCATC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC
53321461 TGCTACAAGA
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 57 0.54
47 24 0.23
48 23 0.22
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATGA
Found at i:53321472 original size:46 final size:46
Alignment explanation
Indices: 53321384--53321473 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
53321374 TGAGATGAGC
* **
53321384 GCTAGTGTAAGACATGTCCGGGACATGCATCAGCCTTGAGATGTAA
1 GCTAGTATAAGACATGTCCGGGACATGCATCAGCCTCAAGATGTAA
* *
53321430 GCTAGTATAAGACATGTCTGGGACATGCATCTG-CTACAAGATGT
1 GCTAGTATAAGACATGTCCGGGACATGCATCAGCCT-CAAGATGT
53321474 GTCAGTGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
45 2 0.05
46 36 0.95
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (46 bp):
GCTAGTATAAGACATGTCCGGGACATGCATCAGCCTCAAGATGTAA
Found at i:53325647 original size:29 final size:28
Alignment explanation
Indices: 53325600--53325654 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
53325590 GCGAGTTATA
*
53325600 CTGATTTGGCTTTGGGCCATGAATATCTG
1 CTGATTTGGCTTTGAGCCATG-ATATCTG
53325629 CTGATTTGGCTTCT-AGCCATGATATC
1 CTGATTTGGCTT-TGAGCCATGATATC
53325655 AATACTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 5 0.21
29 18 0.75
30 1 0.04
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (28 bp):
CTGATTTGGCTTTGAGCCATGATATCTG
Found at i:53327973 original size:33 final size:33
Alignment explanation
Indices: 53327936--53328013 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
53327926 TGGCCCTGCC
* * *
53327936 ATGGTCTTACATTCATAGTGCCATAACCTGGTT
1 ATGGTCTTACATTCAGAATGCCATAACCTGGCT
* * *
53327969 ATGGTCTTATCA-TCAGAATGCCATAGCTTTGCT
1 ATGGTCTTA-CATTCAGAATGCCATAACCTGGCT
53328002 ATGGTCTTACAT
1 ATGGTCTTACAT
53328014 ACTAATGTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
32 2 0.05
33 33 0.89
34 2 0.05
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (33 bp):
ATGGTCTTACATTCAGAATGCCATAACCTGGCT
Found at i:53329835 original size:12 final size:12
Alignment explanation
Indices: 53329818--53329842 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53329808 TTTTGGCACA
53329818 GCCAAGCACACG
1 GCCAAGCACACG
53329830 GCCAAGCACACG
1 GCCAAGCACACG
53329842 G
1 G
53329843 GCGTGTATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.40, G:0.28, T:0.00
Consensus pattern (12 bp):
GCCAAGCACACG
Found at i:53336781 original size:40 final size:40
Alignment explanation
Indices: 53336688--53336899 Score: 246
Period size: 40 Copynumber: 5.3 Consensus size: 40
53336678 GTATCCTGGC
* * * *
53336688 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAACCGGGT
* * *
53336729 CAA-TCCCAAAGGCATTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
* *
53336768 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAATCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
* *
53336808 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
* * * * * *
53336848 TAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
*
53336888 TATGTCCCGAAG
1 TAAGTCCCGAAG
53336900 ACAATCGAGT
Statistics
Matches: 148, Mismatches: 22, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
39 16 0.11
40 130 0.88
41 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGT
Found at i:53344508 original size:43 final size:43
Alignment explanation
Indices: 53344373--53344523 Score: 196
Period size: 43 Copynumber: 3.5 Consensus size: 43
53344363 AACGCCACTA
* * *
53344373 ACAAATGCCGCTAAAATTCATGGCCTTTAGCAGCGCTTTTCCC
1 ACAAACGCCGCTAAAAGTCATGGCCTTTAGCGGCGCTTTTCCC
* * *
53344416 ACAAACACCGCTAAAATTCATGGCCTTTAGTGGCGCTTTTCCC
1 ACAAACGCCGCTAAAAGTCATGGCCTTTAGCGGCGCTTTTCCC
* *
53344459 ACAAACGCCGCTAAAGGTCATGGCCTGTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAAGTCATGGCCTTTAGCGGCGCTTTTCCC
* *
53344502 -CAAAACGCCCCTAAAGGTCATG
1 AC-AAACGCCGCTAAAAGTCATG
53344524 AAATTTTAAA
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 1 0.01
43 96 0.99
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (43 bp):
ACAAACGCCGCTAAAAGTCATGGCCTTTAGCGGCGCTTTTCCC
Found at i:53344691 original size:19 final size:19
Alignment explanation
Indices: 53344646--53344692 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
53344636 ATCAAATTAA
*
53344646 AATAAAAATAAAAATATAC
1 AATAAAAATAAAAATAAAC
* *
53344665 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAC
53344684 AATAAAAAT
1 AATAAAAAT
53344693 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAC
Found at i:53358754 original size:34 final size:35
Alignment explanation
Indices: 53358711--53358784 Score: 141
Period size: 34 Copynumber: 2.1 Consensus size: 35
53358701 CATCTCGAAA
53358711 TGAACTTACACATATTCTCATCTTTAACATACCCG
1 TGAACTTACACATATTCTCATCTTTAACATACCCG
53358746 TGAA-TTACACATATTCTCATCTTTAACATACCCG
1 TGAACTTACACATATTCTCATCTTTAACATACCCG
53358780 TGAAC
1 TGAAC
53358785 CACTCAGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 34 0.89
35 4 0.11
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (35 bp):
TGAACTTACACATATTCTCATCTTTAACATACCCG
Found at i:53361552 original size:27 final size:27
Alignment explanation
Indices: 53361430--53361544 Score: 185
Period size: 27 Copynumber: 4.3 Consensus size: 27
53361420 AGTACCTTCA
* *
53361430 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACTGTTTTACCCTCG
*
53361457 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACTGTTTTACCCTCG
* *
53361484 ATTTATAGAATTACTGTTTTACCCTTG
1 ATTTACAGAATTACTGTTTTACCCTCG
53361511 ATTTACAGAATTACTGTTTTACCCTCG
1 ATTTACAGAATTACTGTTTTACCCTCG
53361538 ATTTACA
1 ATTTACA
53361545 AAAGTACTAA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
ATTTACAGAATTACTGTTTTACCCTCG
Found at i:53361560 original size:27 final size:27
Alignment explanation
Indices: 53361530--53361593 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
53361520 ATTACTGTTT
*
53361530 TACCCTCGATTTACAAAAGTACTAAAA
1 TACCCTCGATTTACAAAAGTACCAAAA
* * *
53361557 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAAGTACCAAAA
*
53361584 CACCCTCGAT
1 TACCCTCGAT
53361594 CAGTAAATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.27
Consensus pattern (27 bp):
TACCCTCGATTTACAAAAGTACCAAAA
Found at i:53361561 original size:54 final size:54
Alignment explanation
Indices: 53361449--53361579 Score: 163
Period size: 54 Copynumber: 2.4 Consensus size: 54
53361439 ATTACCGTTT
* * * * ****
53361449 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACTAAAA
*
53361503 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAAGTACTAAAA
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACTAAAA
* *
53361557 TACCCTTGGTTTACAAAATTACC
1 TACCCTTGATTTACAGAATTACC
53361580 AAAACACCCT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (54 bp):
TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACTAAAA
Found at i:53361577 original size:81 final size:81
Alignment explanation
Indices: 53361430--53361578 Score: 181
Period size: 81 Copynumber: 1.8 Consensus size: 81
53361420 AGTACCTTCA
* * * **** * *
53361430 ATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAAT
1 ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCAAAATACCCTCGATTTACAAAAT
53361495 TACTGTTTTACCCTTG
66 TACTGTTTTACCCTTG
* * * *
53361511 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAAGTACTAAAATACCCTTGGTTTACAAAAT
1 ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCAAAATACCCTCGATTTACAAAAT
53361576 TAC
66 TAC
53361579 CAAAACACCC
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 55 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (81 bp):
ATTTACAGAATTACCGTTTTACCCTCGATTTACAAAAGTACCAAAATACCCTCGATTTACAAAAT
TACTGTTTTACCCTTG
Found at i:53361628 original size:27 final size:27
Alignment explanation
Indices: 53361596--53361778 Score: 183
Period size: 27 Copynumber: 6.8 Consensus size: 27
53361586 CCCTCGATCA
* * *
53361596 GTAAATTTACCAAAATA-CCTTAGTCT
1 GTAAAATTACCAAAATACCCCTAGTTT
* * * *
53361622 GTAAAATTGCTAAAGTACCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTAGTTT
** *
53361649 GTAAAATTACTGAAATA-CCCTCAATTT
1 GTAAAATTACCAAAATACCCCT-AGTTT
*
53361676 GTAAAATTACCAAAATATCCCTAGTTT
1 GTAAAATTACCAAAATACCCCTAGTTT
*
53361703 GTAAAATTACCAAAATACCACTAGTTT
1 GTAAAATTACCAAAATACCCCTAGTTT
* * * *
53361730 GTGAAATTACCGAAATA-TCCTCAATTT
1 GTAAAATTACCAAAATACCCCT-AGTTT
53361757 GTAAAATTACCAAAATACCCCT
1 GTAAAATTACCAAAATACCCCT
53361779 GATTTACAAA
Statistics
Matches: 127, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
26 19 0.15
27 101 0.80
28 7 0.06
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTAGTTT
Found at i:53361738 original size:81 final size:80
Alignment explanation
Indices: 53361571--53361776 Score: 259
Period size: 81 Copynumber: 2.6 Consensus size: 80
53361561 CTTGGTTTAC
* * * ** * * * *
53361571 AAAATTACCAAAACACCCTCGATCAGTAAATTTACCAAAATACCTTAGTCTGTAAAATTGCTAAA
1 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTAGTCTGTAAAATTACCAAA
* * *
53361636 GTACCCCTGGTTTGT
66 ATACCACTAGTTTGT
* *
53361651 AAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATATCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATA-CCCTAGTCTGTAAAATTACCAA
53361716 AATACCACTAGTTTGT
65 AATACCACTAGTTTGT
* *
53361732 GAAATTACCGAAATATCCTCAATTTGTAAAATTACCAAAATACCC
1 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCC
53361777 CTGATTTACA
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 38 0.35
81 70 0.65
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTAGTCTGTAAAATTACCAAA
ATACCACTAGTTTGT
Found at i:53361941 original size:27 final size:27
Alignment explanation
Indices: 53361911--53361989 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
53361901 GACTAAAATA
*
53361911 CCCCTATTA-GGTAAAAAGACTGTAAAG
1 CCCCTA-TAGGGTAAAAAGACCGTAAAG
**
53361938 CCCCTATAGGGTAAAGTGACCGTAAAG
1 CCCCTATAGGGTAAAAAGACCGTAAAG
* **
53361965 CCCCTGTAGGGTAAAGTGACCGTAA
1 CCCCTATAGGGTAAAAAGACCGTAA
53361990 TACCCTTGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
26 2 0.04
27 45 0.96
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:53361999 original size:27 final size:27
Alignment explanation
Indices: 53361932--53362006 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
53361922 TAAAAAGACT
*
53361932 GTAAAGCCCCTATAGGGTAAAGTGACC
1 GTAAAGCCCCTGTAGGGTAAAGTGACC
53361959 GTAAAGCCCCTGTAGGGTAAAGTGACC
1 GTAAAGCCCCTGTAGGGTAAAGTGACC
* *
53361986 GTAATA-CCCTTGTATGGTAAA
1 GTAA-AGCCCCTGTAGGGTAAA
53362007 ATGATGAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (27 bp):
GTAAAGCCCCTGTAGGGTAAAGTGACC
Found at i:53362761 original size:15 final size:16
Alignment explanation
Indices: 53362741--53362770 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
53362731 CAAATATGGG
53362741 CATGACAT-TTGCATA
1 CATGACATGTTGCATA
53362756 CATGACATGTTGCAT
1 CATGACATGTTGCAT
53362771 TGGGTTGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:53362832 original size:26 final size:25
Alignment explanation
Indices: 53362803--53362944 Score: 152
Period size: 26 Copynumber: 5.8 Consensus size: 25
53362793 GAGGAAGTGC
53362803 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTATTG
53362829 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTATTG
*
53362855 AAAA-GG----GCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATTG
*
53362875 AAAAGGGCTCATGCCCCAGTTTATTG
1 AAAAGGGCT-TTGCCCCAGTTTATTG
* ***
53362901 AAAA-GGCTTTGCCCCAATTTACCA
1 AAAAGGGCTTTGCCCCAGTTTATTG
*
53362925 AAAAAGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
53362945 ATTAAAGAGG
Statistics
Matches: 101, Mismatches: 8, Indels: 15
0.81 0.06 0.12
Matches are distributed among these distances:
20 17 0.17
21 2 0.02
24 15 0.15
25 20 0.20
26 47 0.47
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTG
Found at i:53362866 original size:20 final size:20
Alignment explanation
Indices: 53362841--53362882 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
53362831 AAGGGCTTAT
*
53362841 GCCCCAGTTTATTGAAAAGG
1 GCCCCAGTTTATCGAAAAGG
53362861 GCCCCAGTTTATCGAAAAGG
1 GCCCCAGTTTATCGAAAAGG
53362881 GC
1 GC
53362883 TCATGCCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (20 bp):
GCCCCAGTTTATCGAAAAGG
Found at i:53362882 original size:46 final size:46
Alignment explanation
Indices: 53362815--53362906 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
53362805 AAGGGCTTAT
* *
53362815 GCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTATTGAAAAGG
1 GCCCCAGTTTATCGAAAAGGGCTCATGCCCCAGTTTATTGAAAAGG
53362861 GCCCCAGTTTATCGAAAAGGGCTCATGCCCCAGTTTATTGAAAAGG
1 GCCCCAGTTTATCGAAAAGGGCTCATGCCCCAGTTTATTGAAAAGG
53362907 CTTTGCCCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (46 bp):
GCCCCAGTTTATCGAAAAGGGCTCATGCCCCAGTTTATTGAAAAGG
Found at i:53363148 original size:42 final size:42
Alignment explanation
Indices: 53363089--53363180 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
53363079 TAGTCTCCCC
* ** *
53363089 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
53363131 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
53363173 AAATGGGC
1 AAATGGGC
53363181 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:53367007 original size:23 final size:23
Alignment explanation
Indices: 53366977--53367023 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
53366967 ATTGTGTTTG
53366977 AGCCTTAGTAACGAAAATGAAAT
1 AGCCTTAGTAACGAAAATGAAAT
53367000 AGCCTTAGTAACGAAAATGAAAT
1 AGCCTTAGTAACGAAAATGAAAT
53367023 A
1 A
53367024 TGTAGGTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (23 bp):
AGCCTTAGTAACGAAAATGAAAT
Found at i:53367216 original size:40 final size:40
Alignment explanation
Indices: 53367110--53367293 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
53367100 TGCTGGAAAT
* * * * * **
53367110 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
53367150 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
53367190 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
53367228 TGATATCCGGGTTAAGTCCCGTAGGCCTTAGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
53367269 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
53367294 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:53368912 original size:54 final size:54
Alignment explanation
Indices: 53368854--53368969 Score: 124
Period size: 54 Copynumber: 2.1 Consensus size: 54
53368844 CTCAAATTGT
* * *
53368854 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTAC
1 AAAATTACCAAAGTACCCTCAATTTATAGAATTACCATTTTAACCTCAATTTAC
* **** * **
53368908 AAAATTATCGTTTTACCCTCAATTTATAGAATTACTATTTTAACCTTGATTTAC
1 AAAATTACCAAAGTACCCTCAATTTATAGAATTACCATTTTAACCTCAATTTAC
*
53368962 AGAATTAC
1 AAAATTAC
53368970 TGTTTTACCA
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (54 bp):
AAAATTACCAAAGTACCCTCAATTTATAGAATTACCATTTTAACCTCAATTTAC
Found at i:53368997 original size:27 final size:27
Alignment explanation
Indices: 53368867--53368997 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 27
53368857 ATTACCAAAG
* *
53368867 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
53368894 TACCCTCAATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* * *
53368921 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
53368948 TAACCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
53368975 TACCATCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
53368998 AAAATACCAT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
27 85 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:53369005 original size:27 final size:27
Alignment explanation
Indices: 53368975--53369245 Score: 99
Period size: 27 Copynumber: 10.1 Consensus size: 27
53368965 ATTACTGTTT
*
53368975 TACCATCGATTTACAAAATTACTAAAA
1 TACCATCGATTTACAAAATTACCAAAA
* *
53369002 TACCATTGGTTTACAAAATTACCAAAA
1 TACCATCGATTTACAAAATTACCAAAA
* * * *
53369029 TACCCTCGA-TCAGTAAAATTACCACAA
1 TACCATCGATTTA-CAAAATTACCAAAA
* * * ** * *
53369056 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCATCGATTTACAAAATTACCAAAA
* ** *
53369082 TACC-TCTGGTTTGTAAAATTACCGAAA
1 TACCATC-GATTTACAAAATTACCAAAA
* * **
53369109 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCATCGATTTACAAAATTACCAAAA
* * **
53369136 TATCCCTAG-TTTGTAAAATTACC-AAA
1 TA-CCATCGATTTACAAAATTACCAAAA
* *** * *
53369162 TACCA-CTAGTTTGTGAAGTTACCGAAA
1 TACCATCGA-TTTACAAAATTACCAAAA
* * **
53369189 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCATCGATTTACAAAATTACCAAAA
* *
53369216 TACC-CCTGATTTACAAAGTTA-CAAAA
1 TACCATC-GATTTACAAAATTACCAAAA
53369242 TACC
1 TACC
53369246 CTTGACTTTC
Statistics
Matches: 192, Mismatches: 41, Indels: 23
0.75 0.16 0.09
Matches are distributed among these distances:
25 3 0.02
26 45 0.23
27 136 0.71
28 8 0.04
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCATCGATTTACAAAATTACCAAAA
Found at i:53369092 original size:80 final size:80
Alignment explanation
Indices: 53368989--53369220 Score: 306
Period size: 80 Copynumber: 2.9 Consensus size: 80
53368979 ATCGATTTAC
** * * **
53368989 AAAATTACTAAAATACCAT-TGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACC-TCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
*
53369053 CAATACCCTAGTCTGT
65 AAATACCCTAGTCTGT
*
53369069 AAAATTGCTAAAATACCTCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACCTCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
53369134 AATATCCCTAGTTTGT
66 AATA-CCCTAGTCTGT
* * * * *
53369150 AAAATTAC-CAAATACCACTAGTTTGTGAAGTTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACCTCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
53369214 AATACCC
66 AATACCC
53369221 CTGATTTACA
Statistics
Matches: 135, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
79 4 0.03
80 114 0.84
81 17 0.13
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCTCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCTAGTCTGT
Found at i:53369098 original size:53 final size:51
Alignment explanation
Indices: 53369016--53369220 Score: 221
Period size: 53 Copynumber: 3.8 Consensus size: 51
53369006 ATTGGTTTAC
* ** *
53369016 AAAATTACCAAAATACCCTCGATCAGTAAAATTACCACAATACCCTAGTCTGT
1 AAAATTACCAAAATACCCTAG-TTTGTAAAATTACCA-AATACCCTAGTTTGT
* * * *
53369069 AAAATTGCTAAAATACCTCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACC-CTAGTTTGTAAAATTACC-AAATACCCT-AGTTTGT
53369123 AAAATTACCAAAATATCCCTAGTTTGTAAAATTACCAAATACCACTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAATACC-CTAGTTTGT
* * * *
53369176 GAAGTTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCC
1 AAAATTACCAAAATACCCT-AGTTTGTAAAATTACC-AAATACCC
53369221 CTGATTTACA
Statistics
Matches: 130, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
52 4 0.03
53 76 0.58
54 48 0.37
55 2 0.02
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (51 bp):
AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAATACCCTAGTTTGT
Found at i:53369260 original size:107 final size:107
Alignment explanation
Indices: 53368989--53369260 Score: 266
Period size: 107 Copynumber: 2.5 Consensus size: 107
53368979 ATCGATTTAC
* ** * * **
53368989 AAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAC
1 AAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAC
* * **
53369054 AATACCCTAGTCTGTAAAATTGCTAAAATACCTCTGGTTTGT
66 AATACCCTAGTCTGTAAAATTACCAAAATACCTCTAATTTGT
* * ** *
53369096 AAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATATCCCTAG-TTTGTAAAATTACC
1 AAAATTACCAAAATACCCCT-GATTTACAAAATTACCAAAATA-CCCTTGATTTGTAAAATTACC
* * * *
53369159 A-AATACCACTAGTTTGTGAAGTTACCGAAATACC-CTCAATTTGT
64 ACAATACC-CTAGTCTGTAAAATTACCAAAATACCTCT-AATTTGT
* *
53369203 AAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAAAATACCCTTGACTTTCTAAAA
1 AAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCTTGA-TTTGTAAAA
53369261 ATTATGGAAA
Statistics
Matches: 132, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
105 5 0.04
106 17 0.13
107 101 0.77
108 9 0.07
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (107 bp):
AAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAC
AATACCCTAGTCTGTAAAATTACCAAAATACCTCTAATTTGT
Found at i:53369404 original size:27 final size:27
Alignment explanation
Indices: 53369370--53369448 Score: 124
Period size: 27 Copynumber: 2.9 Consensus size: 27
53369360 TTAGGTAAAA
*
53369370 GACCGTAAAGCTCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
53369397 GACCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
*
53369424 GACCGTAATA-CCCCTGTATGGTAAA
1 GACCGTAA-AGCCCCTGTAGGGTAAA
53369449 ATGATGAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (27 bp):
GACCGTAAAGCCCCTGTAGGGTAAAGT
Found at i:53370333 original size:52 final size:51
Alignment explanation
Indices: 53370255--53370377 Score: 221
Period size: 52 Copynumber: 2.4 Consensus size: 51
53370245 GAGGAAGTGC
53370255 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
*
53370307 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
53370358 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
53370378 ATTAAAGAGG
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
50 9 0.13
51 25 0.36
52 35 0.51
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:53370352 original size:25 final size:26
Alignment explanation
Indices: 53370255--53370377 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
53370245 GAGGAAGTGC
**
53370255 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
53370281 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
53370307 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
53370333 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
53370358 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
53370378 ATTAAAGAGG
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 32 0.36
26 57 0.64
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:53370577 original size:42 final size:42
Alignment explanation
Indices: 53370518--53370609 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
53370508 TAGTCTCCCC
* ** *
53370518 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
53370560 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
53370602 AAATGGGC
1 AAATGGGC
53370610 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:53370711 original size:31 final size:31
Alignment explanation
Indices: 53370633--53370703 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
53370623 CGTTTACAGT
*
53370633 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
53370664 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
53370695 AAAGGCTTC
1 AAAGGCTTC
53370704 AGTCCAGTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:53373176 original size:38 final size:38
Alignment explanation
Indices: 53373134--53373210 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
53373124 CTTTGAATGC
*
53373134 CTAAGAGCCCTCAAAATTAGCCTTTTCTGAATTGGACT
1 CTAAGAGCCCTCAAAATTAGCCTTTTCTAAATTGGACT
53373172 CTAAGAGCCCTCAAAATTAGCCTTTTCTAAATTGGACT
1 CTAAGAGCCCTCAAAATTAGCCTTTTCTAAATTGGACT
53373210 C
1 C
53373211 AACTTGGGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (38 bp):
CTAAGAGCCCTCAAAATTAGCCTTTTCTAAATTGGACT
Found at i:53375057 original size:22 final size:23
Alignment explanation
Indices: 53375015--53375057 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
53375005 ATAAGCCGTG
*
53375015 TTAAAAAAATGAATATTAAAAAC
1 TTAAAAAAATGAAAATTAAAAAC
*
53375038 TTAATAAAA-GAAAATTAAAA
1 TTAAAAAAATGAAAATTAAAA
53375058 TAAAATAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (23 bp):
TTAAAAAAATGAAAATTAAAAAC
Found at i:53375084 original size:9 final size:10
Alignment explanation
Indices: 53375057--53375081 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
53375047 GAAAATTAAA
53375057 ATAAAATAAG
1 ATAAAATAAG
53375067 ATAAAATAAG
1 ATAAAATAAG
53375077 ATAAA
1 ATAAA
53375082 TAATCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (10 bp):
ATAAAATAAG
Found at i:53387584 original size:57 final size:57
Alignment explanation
Indices: 53387516--53387629 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
53387506 TTATTAAAGG
*
53387516 AATGAATAAAGGTTAAAATAATAATGAAAATAAGAAAACATAAGTTTCTTCTTCATT
1 AATGAATAAAGGTTAAAATAATAATAAAAATAAGAAAACATAAGTTTCTTCTTCATT
53387573 AATGAATAAAGGTTAAAATAATAATAAAAATAAGAAAACATAAGTTTCTTCTTCATT
1 AATGAATAAAGGTTAAAATAATAATAAAAATAAGAAAACATAAGTTTCTTCTTCATT
53387630 TTGGCTTGTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.32
Consensus pattern (57 bp):
AATGAATAAAGGTTAAAATAATAATAAAAATAAGAAAACATAAGTTTCTTCTTCATT
Found at i:53399388 original size:29 final size:29
Alignment explanation
Indices: 53399353--53399410 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
53399343 AAAATAACCA
53399353 TATTTACCATAATGCCAAACCATATCATT
1 TATTTACCATAATGCCAAACCATATCATT
*
53399382 TATTTACCGTAATGCCAAACCATATCATT
1 TATTTACCATAATGCCAAACCATATCATT
53399411 CACTAACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (29 bp):
TATTTACCATAATGCCAAACCATATCATT
Found at i:53406808 original size:17 final size:18
Alignment explanation
Indices: 53406766--53406814 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
53406756 AGTTGAAAAG
53406766 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
53406785 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
53406802 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
53406815 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:53407703 original size:40 final size:40
Alignment explanation
Indices: 53407637--53407803 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
53407627 AAATTGAATG
* * *
53407637 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
53407676 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
53407716 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
53407756 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
53407796 ATATCCGG
1 ATATCCGG
53407804 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:53414488 original size:17 final size:18
Alignment explanation
Indices: 53414446--53414494 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
53414436 AGTTGAAAAG
53414446 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
53414465 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
53414482 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
53414495 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:53415383 original size:40 final size:40
Alignment explanation
Indices: 53415317--53415483 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
53415307 AAATTGAATG
* * *
53415317 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
53415356 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
53415396 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
53415436 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
53415476 ATATCCGG
1 ATATCCGG
53415484 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:53422905 original size:13 final size:14
Alignment explanation
Indices: 53422879--53422910 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
53422869 ACTTACCTCG
53422879 TACTCGGAATTGTC
1 TACTCGGAATTGTC
53422893 TACTCGG-ATTGTC
1 TACTCGGAATTGTC
53422906 TACTC
1 TACTC
53422911 TATAACCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (14 bp):
TACTCGGAATTGTC
Found at i:53439919 original size:28 final size:27
Alignment explanation
Indices: 53439856--53439925 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
53439846 ATAGTGAGTC
53439856 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
53439883 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
53439911 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53439926 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:53446849 original size:68 final size:64
Alignment explanation
Indices: 53446732--53446918 Score: 198
Period size: 64 Copynumber: 2.9 Consensus size: 64
53446722 ATACAGATAG
* ** * * * *
53446732 TATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGGGTGATACTGAGTGTACACCATGTGTACAAGAGAGCTAC--GACA-
53446797 TA
63 TA
**
53446799 TGATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGGGA
1 T-ATGTAGCTAGGTCGCATGGGTGATACTGA-GTGTACACCATGT-GTACAAGAGAGCTACGACA
53446862 TA
63 TA
* * *
53446864 TATGTTGCTAGGTCGCATGGGTGGTACTGAGTGTTCACCATGTGTACAAGAGAGC
1 TATGTAGCTAGGTCGCATGGGTGATACTGAGTGTACACCATGTGTACAAGAGAGC
53446919 CGAACTATAT
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
63 1 0.01
64 47 0.46
65 4 0.04
66 2 0.02
67 2 0.02
68 46 0.45
69 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGATACTGAGTGTACACCATGTGTACAAGAGAGCTACGACATA
Found at i:53449617 original size:37 final size:37
Alignment explanation
Indices: 53449564--53449649 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
53449554 TTATTACGAA
53449564 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
53449601 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
53449638 GTCTCACCCGGA
1 GTCTTACCCGGA
53449650 ACATTTTCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:53449756 original size:49 final size:49
Alignment explanation
Indices: 53449703--53449966 Score: 361
Period size: 49 Copynumber: 5.2 Consensus size: 49
53449693 TTCACATTAG
53449703 CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
*
53449752 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
53449801 CACATATACATACACTTTCACACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
1 CACATAT--AT--A---T---ACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
* *
53449860 CACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
* * *
53449909 CAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
*
53449956 CACACATATAT
1 CACATATATAT
53449967 GTATATCATA
Statistics
Matches: 196, Mismatches: 7, Indels: 24
0.86 0.03 0.11
Matches are distributed among these distances:
47 44 0.22
49 101 0.52
51 1 0.01
52 1 0.01
53 1 0.01
55 1 0.01
56 1 0.01
57 1 0.01
59 45 0.23
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.30
Consensus pattern (49 bp):
CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
Found at i:53449804 original size:31 final size:31
Alignment explanation
Indices: 53449769--53449864 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 31
53449759 ACATACACTT
53449769 TCACATTCACCACATCGGCCATTAGGCCTTA
1 TCACATTCACCACATCGGCCATTAGGCCTTA
* * * **
53449800 TCACA-T-A-TACATAC--ACTTTCACACACTT-
1 TCACATTCACCACAT-CGGCCATT-AGGC-CTTA
53449828 TCACATTCACCACATCGGCCATTAGGCCTTA
1 TCACATTCACCACATCGGCCATTAGGCCTTA
53449859 TCACAT
1 TCACAT
53449865 ATACATACAC
Statistics
Matches: 46, Mismatches: 10, Indels: 18
0.62 0.14 0.24
Matches are distributed among these distances:
27 3 0.07
28 11 0.24
29 6 0.13
30 6 0.13
31 17 0.37
32 3 0.07
ACGTcount: A:0.29, C:0.34, G:0.08, T:0.28
Consensus pattern (31 bp):
TCACATTCACCACATCGGCCATTAGGCCTTA
Found at i:53449831 original size:59 final size:59
Alignment explanation
Indices: 53449763--53449928 Score: 248
Period size: 59 Copynumber: 3.0 Consensus size: 59
53449753 ACATATACAT
53449763 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
1 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
53449822 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTT--C
1 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
53449879 ACA--TT--CA-T---CACATCGGCCATTAGGCCTTATCACATAT--ATACACTTTCAC
1 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
53449928 A
1 A
53449929 TTCATCACAT
Statistics
Matches: 105, Mismatches: 0, Indels: 14
0.88 0.00 0.12
Matches are distributed among these distances:
47 9 0.09
49 31 0.30
52 1 0.01
53 2 0.02
55 2 0.02
57 4 0.04
59 56 0.53
ACGTcount: A:0.31, C:0.33, G:0.07, T:0.30
Consensus pattern (59 bp):
ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
Found at i:53449833 original size:108 final size:106
Alignment explanation
Indices: 53449714--53449928 Score: 403
Period size: 108 Copynumber: 2.0 Consensus size: 106
53449704 ACATATATAT
53449714 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCAC
1 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCAC
53449779 CACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
66 CACATCGGCCATTAGGCCTTATCACATAT--ATACACTTTCAC
*
53449822 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCAT
1 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCAC
53449887 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
66 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
53449928 A
1 A
53449929 TTCATCACAT
Statistics
Matches: 106, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
106 13 0.12
108 93 0.88
ACGTcount: A:0.31, C:0.33, G:0.07, T:0.29
Consensus pattern (106 bp):
ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCAC
CACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
Found at i:53449938 original size:47 final size:47
Alignment explanation
Indices: 53449822--53449965 Score: 234
Period size: 47 Copynumber: 3.0 Consensus size: 47
53449812 ACACTTTCAC
*
53449822 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT--AT
53449871 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
* * *
53449918 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
53449965 A
1 A
53449966 TGTATATCAT
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
47 47 0.52
49 44 0.48
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
Found at i:53453542 original size:29 final size:29
Alignment explanation
Indices: 53453506--53453637 Score: 246
Period size: 29 Copynumber: 4.6 Consensus size: 29
53453496 TGTTGAAAAA
*
53453506 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
53453535 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
53453564 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
53453593 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
53453622 CTCGCACACATAGTGC
1 CTCGCACACATAGTGC
53453638 TCGGTTAACG
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 101 1.00
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACTGAT
Found at i:53453658 original size:87 final size:87
Alignment explanation
Indices: 53453506--53453669 Score: 233
Period size: 87 Copynumber: 1.9 Consensus size: 87
53453496 TGTTGAAAAA
*
53453506 CTCGCACACACAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCAATTACTGATCTCGCAC
1 CTCGCACACACAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCAATTACGGATCTCGCAC
*
53453571 ACATAGTGCCTCAATTACTGAT
66 ACACAGTGCCTCAATTACTGAT
* * ** *
53453593 CTCGCACACATAGTGCCTCGATTACTGATCTCGCACACATAGTG-CTCGGTTAACGGAAT-TTGC
1 CTCGCACACACAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCAATT-ACGG-ATCTCGC
53453656 ACACACAGTGCCTC
64 ACACACAGTGCCTC
53453670 TAATCATTCG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
86 5 0.07
87 61 0.90
88 2 0.03
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (87 bp):
CTCGCACACACAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCAATTACGGATCTCGCAC
ACACAGTGCCTCAATTACTGAT
Found at i:53455770 original size:37 final size:37
Alignment explanation
Indices: 53455717--53455802 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
53455707 TTATTACGAA
53455717 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
53455754 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
53455791 GTCTCACCCGGA
1 GTCTTACCCGGA
53455803 ACATTTCCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:53455982 original size:103 final size:96
Alignment explanation
Indices: 53455860--53456106 Score: 395
Period size: 103 Copynumber: 2.5 Consensus size: 96
53455850 ATTAGCACAT
53455860 ATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
1 ATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
53455925 ATTCACCACATCGGCCATTAGGCCTTATCAC
66 ATTCACCACATCGGCCATTAGGCCTTATCAC
53455956 ATATACATACACTACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACA
1 --AT--AT--A-TACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACA
*
53456021 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
59 CTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
* * *
53456059 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 ATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACA
53456107 CATATATGTA
Statistics
Matches: 140, Mismatches: 4, Indels: 12
0.90 0.03 0.08
Matches are distributed among these distances:
96 40 0.29
97 1 0.01
98 2 0.01
99 2 0.01
100 2 0.01
101 2 0.01
102 1 0.01
103 90 0.64
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (96 bp):
ATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
ATTCACCACATCGGCCATTAGGCCTTATCAC
Found at i:53455996 original size:54 final size:49
Alignment explanation
Indices: 53455855--53456106 Score: 400
Period size: 49 Copynumber: 5.1 Consensus size: 49
53455845 TTCACATTAG
*
53455855 CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
53455904 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
53455953 CACATATACATACACTACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
1 CAC--AT--ATACA-TACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
*
53456007 CACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
* * *
53456056 CACATAT--ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
53456103 CACA
1 CACA
53456107 CATATATGTA
Statistics
Matches: 194, Mismatches: 4, Indels: 12
0.92 0.02 0.06
Matches are distributed among these distances:
47 42 0.22
49 96 0.49
50 5 0.03
51 2 0.01
52 2 0.01
53 5 0.03
54 42 0.22
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.30
Consensus pattern (49 bp):
CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
Found at i:53461629 original size:3 final size:3
Alignment explanation
Indices: 53461621--53461658 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
53461611 GGTTAAAATA
53461621 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
53461659 AACATAAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:53464500 original size:40 final size:40
Alignment explanation
Indices: 53464404--53464556 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
53464394 CGAATGGTAT
* * * *
53464404 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
53464445 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
53464485 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
53464525 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
53464557 CGCTATATCC
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 69 0.73
41 25 0.27
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:53472456 original size:40 final size:40
Alignment explanation
Indices: 53472360--53472512 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
53472350 CGAATGGTAT
* * * *
53472360 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
53472401 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
53472441 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
53472481 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
53472513 CGCTATATCC
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 69 0.73
41 25 0.27
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:53474636 original size:29 final size:29
Alignment explanation
Indices: 53474596--53474698 Score: 145
Period size: 29 Copynumber: 3.6 Consensus size: 29
53474586 GTTGAGAGAT
*
53474596 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
53474625 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* * **
53474654 TGGTACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
53474683 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53474699 CGGCTGATTA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 5 0.07
29 62 0.93
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:53477103 original size:2 final size:2
Alignment explanation
Indices: 53477096--53477126 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
53477086 GAGACTAGTC
53477096 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53477127 CATGTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:53486907 original size:20 final size:20
Alignment explanation
Indices: 53486882--53486919 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53486872 GTTTATTCGC
*
53486882 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
53486902 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
53486920 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:53488547 original size:28 final size:28
Alignment explanation
Indices: 53488512--53488592 Score: 146
Period size: 28 Copynumber: 2.9 Consensus size: 28
53488502 GCTTGTGCAG
53488512 GAGCAAAATTACCGAAATTACCCCTAAA
1 GAGCAAAATTACCGAAATTACCCCTAAA
53488540 GAGCAAAATTACCGAAATTACCCCTAAA
1 GAGCAAAATTACCGAAATTACCCCTAAA
*
53488568 GAGCAAAATTACCGATA-TACCCCTA
1 GAGCAAAATTACCGAAATTACCCCTA
53488593 GGGTTTTAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 8 0.15
28 44 0.85
ACGTcount: A:0.44, C:0.26, G:0.11, T:0.19
Consensus pattern (28 bp):
GAGCAAAATTACCGAAATTACCCCTAAA
Found at i:53496714 original size:46 final size:44
Alignment explanation
Indices: 53496571--53496714 Score: 98
Period size: 46 Copynumber: 3.1 Consensus size: 44
53496561 CCCGCCCATA
* *
53496571 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * * *
53496620 --CGAACTCGAACTCAACTCAACGAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAATCC-T
53496663 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
53496710 AGTGA
1 AGTGA
53496715 CATGTCACTT
Statistics
Matches: 73, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
45 1 0.01
46 30 0.41
47 25 0.34
48 5 0.07
49 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:53499812 original size:40 final size:39
Alignment explanation
Indices: 53499652--53499814 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
53499642 TGTGTATGAA
*
53499652 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
53499691 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
53499730 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
53499769 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
53499809 TGTGCG
1 TGTGCG
53499815 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:53499830 original size:40 final size:39
Alignment explanation
Indices: 53499652--53499845 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
53499642 TGTGTATGAA
* *
53499652 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
53499691 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
53499730 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
53499769 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
53499809 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
53499846 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:53508027 original size:93 final size:93
Alignment explanation
Indices: 53507915--53508086 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53507905 GCCCATAAGT
* *
53507915 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53507980 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
53508008 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53508073 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
53508087 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:53508082 original size:46 final size:46
Alignment explanation
Indices: 53507907--53508082 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
53507897 TGTAACCCGC
* * *
53507907 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
53507953 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
53508003 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
53508046 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53508083 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Done.