Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 73 of 276
Found at i:22367522 original size:71 final size:71
Alignment explanation
Indices: 22367424--22367690 Score: 259
Period size: 71 Copynumber: 3.5 Consensus size: 71
22367414 TCAATGTCTT
**
22367424 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTT-AAACAAAACTTAACAATACCTCAGC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTAAAACAAAACTTAACAATACCTCAGC
22367488 GTGTCCC
65 GTGTCCC
*
22367495 GAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACATAATTTGAACAGAAATTGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--AAAAC--AA----AAC-----TT-A
*
22367560 A-AATACCTCAGCATGTGATCCT
52 ACAATACCTCAGC--GTG-TCCC
* * * * * *
22367582 GAGGCTCAATTCACCTCTAGTAATATGAATTGATTTTTGAAACAAAAATTAACAATACCTCAGCG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACAAAACTTAACAATACCTCAGCG
22367647 TGTCCC
66 TGTCCC
*
22367653 GAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
22367691 TTGAAAAGCA
Statistics
Matches: 161, Mismatches: 16, Indels: 38
0.75 0.07 0.18
Matches are distributed among these distances:
70 5 0.03
71 67 0.42
72 3 0.02
73 6 0.04
74 13 0.08
75 2 0.01
79 5 0.03
83 2 0.01
84 13 0.08
85 6 0.04
86 3 0.02
87 36 0.22
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (71 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACAAAACTTAACAATACCTCAGCG
TGTCCC
Found at i:22367685 original size:158 final size:157
Alignment explanation
Indices: 22367324--22367786 Score: 648
Period size: 158 Copynumber: 2.9 Consensus size: 157
22367314 ATTAATTGAA
* *
22367324 AATATCTCAGCGTGCCCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAT
1 AATACCTCAGCGTGTCCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAT
* * * ** *
22367389 AAATTGAACAGAAATTGAAAATACCTCA-A--TG-TCTTGAGGCTCAACTCATTTCTCGCAATAT
66 AATTTGAACAGAAATTGAAAATACCTCAGATGTGATCCTGAGGCTCAATTCACCTCTAGCAATAT
* *
22367450 GAGTTGAGTTTTT-AAACAAAACTTAAC
131 GAATTGA-TTTTTGAAACAAAAATTAAC
22367477 AATACCTCAGCGTGTCCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAT
1 AATACCTCAGCGTGTCCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAT
*
22367542 AATTTGAACAGAAATTGAAAATACCTCAGCATGTGATCCTGAGGCTCAATTCACCTCTAGTAATA
66 AATTTGAACAGAAATTGAAAATACCTCAG-ATGTGATCCTGAGGCTCAATTCACCTCTAGCAATA
22367607 TGAATTGATTTTTGAAACAAAAATTAAC
130 TGAATTGATTTTTGAAACAAAAATTAAC
* * *
22367635 AATACCTCAGCGTGTCCCGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGC
1 AATACCTCAGCGTGTCCCGAGGCTCAACTCACATCTCGCAATATGAGTTGA--TTTTTGAAAAAC
** ** *
22367700 ATAAATTAAAAAACATTAATTGAAAATACCTCGGTATGTGATCCTGAGGCTCAATTCACCTCTAG
64 AT-AATT--TGAACAGAAATTGAAAATACCTCAG-ATGTGATCCTGAGGCTCAATTCACCTCTAG
22367765 CAATATGAATTGATTTTTGAAA
125 CAATATGAATTGATTTTTGAAA
22367787 AACATAAATT
Statistics
Matches: 278, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
153 90 0.32
155 1 0.00
157 7 0.03
158 92 0.33
160 13 0.05
161 4 0.01
163 71 0.26
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (157 bp):
AATACCTCAGCGTGTCCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAT
AATTTGAACAGAAATTGAAAATACCTCAGATGTGATCCTGAGGCTCAATTCACCTCTAGCAATAT
GAATTGATTTTTGAAACAAAAATTAAC
Found at i:22367872 original size:90 final size:91
Alignment explanation
Indices: 22367657--22367891 Score: 287
Period size: 90 Copynumber: 2.6 Consensus size: 91
22367647 TGTCCCGAGG
* * *
22367657 CTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAAATTAAAAAACATTAATTG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACATAAATTAAAAAACATAAATTG
** *
22367722 AAAATACCTCGGTATGTGATCCTGAGG
65 AAAATACCTCGACATGTGATCCTGAGA
* * * *
22367749 CTCAATTCACCTCTAGCAATATGAATTGA-TTTTTGAAAAACATAAATTGAAAAACGA-AAATTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTAAAAAAC-ATAAATTG
*
22367812 TAAATACCTCGACATGTGA-CCTGAGA
65 AAAATACCTCGACATGTGATCCTGAGA
* ** *
22367838 TTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACATAAATTAAAA
22367892 CTACCTCAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
89 31 0.26
90 45 0.37
91 20 0.17
92 25 0.21
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (91 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTAAAAAACATAAATTGA
AAATACCTCGACATGTGATCCTGAGA
Found at i:22367931 original size:75 final size:72
Alignment explanation
Indices: 22367813--22368038 Score: 292
Period size: 74 Copynumber: 3.0 Consensus size: 72
22367803 CGAAAATTGT
* * *
22367813 AAATACCTCGACATGTGACCTGAGATTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATG
1 AAATACCTC-A-ACGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA--
22367878 AACAGAAATTA
62 AACAGAAATTA
*
22367889 AAACTACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-
1 AAA-TACCTCAACGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAC
*
22367953 AAATAGATTGA
65 AGA-A-ATT-A
* * *
22367964 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAACA
1 AAATACCTCAACGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACA
*
22368029 GAAATAA
66 GAAATTA
22368036 AAA
1 AAA
22368039 ATATCAAAAT
Statistics
Matches: 134, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
72 6 0.04
73 5 0.04
74 60 0.45
75 53 0.40
76 4 0.03
77 6 0.04
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (72 bp):
AAATACCTCAACGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACA
GAAATTA
Found at i:22367944 original size:256 final size:250
Alignment explanation
Indices: 22367495--22367953 Score: 663
Period size: 256 Copynumber: 1.8 Consensus size: 250
22367485 AGCGTGTCCC
* * * *
22367495 GAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACATAATTTGAACAGAAATTGA
1 GAGGCTCAACTCACATCTAGCAATATGAATTGATTTTTGAAAAACATAAATTGAAAAGAAATTGA
* * *
22367560 AAATACCTCAGCATGTGATCCTGAGGCTCAATTCACCTCTAGTAATATGAATTGATTTTTGAAAC
66 AAATACCTCAGCATGTGATCCTGAGACTCAACTCACCTCTAGCAATATGAATTGATTTTTGAAAC
*
22367625 AAAAATTAACAATACCTCAGCGTGTCCCGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTT
131 AAAAATTAACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
22367690 TTTGAAAAGCATAAATTAAAAAACATTAATTGAAAATACCTCGGTATGTGATCCT
196 TTTGAAAAGCATAAATTAAAAAACATTAATTGAAAATACCTCGGTATGTGATCCT
* *
22367745 GAGGCTCAATTCACCTCTAGCAATATGAATTGATTTTTGAAAAACATAAATTGAAAAACGAAAAT
1 GAGGCTCAACTCACATCTAGCAATATGAATTGATTTTTGAAAAACATAAATTG-AAAA-G-AAAT
* * * *
22367810 TGTAAATACCTC-GACATGTGA-CCTGAGATTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
63 TGAAAATACCTCAG-CATGTGATCCTGAGACTCAACTCACCTCTAGCAATATGAATTGA--TTTT
* * *
22367873 TGATGAACAGAAATTAA-AACTACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGA
125 TGA--AACAAAAATTAACAA-TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
22367937 GTTGATTTTTTTGAAAA
187 GTTGATTTTTTTGAAAA
22367954 AATAGATTGA
Statistics
Matches: 183, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
250 48 0.26
251 3 0.02
252 32 0.17
253 22 0.12
254 7 0.04
255 2 0.01
256 69 0.38
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (250 bp):
GAGGCTCAACTCACATCTAGCAATATGAATTGATTTTTGAAAAACATAAATTGAAAAGAAATTGA
AAATACCTCAGCATGTGATCCTGAGACTCAACTCACCTCTAGCAATATGAATTGATTTTTGAAAC
AAAAATTAACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTGAAAAGCATAAATTAAAAAACATTAATTGAAAATACCTCGGTATGTGATCCT
Found at i:22381584 original size:23 final size:22
Alignment explanation
Indices: 22381469--22381603 Score: 66
Period size: 25 Copynumber: 5.9 Consensus size: 22
22381459 ATATATATGT
*
22381469 ATATATAATAATAT-T-TAAGA
1 ATATATAATAATATATATAAAA
*
22381489 ATATATACATAAGATGATAT-AAA
1 ATATATA-ATAATAT-ATATAAAA
* *
22381512 ATACATACATGGAATAGTATA-AGAA
1 ATATATA-AT--AATA-TATATAAAA
*
22381537 ATATATAACTAAT-TGCATTAGAAAA
1 ATATATAA-TAATAT--A-TATAAAA
22381562 ATATATACATAATATATATAAAA
1 ATATATA-ATAATATATATAAAA
*
22381585 TACATATAAT-ATATATATA
1 -ATATATAATAATATATATA
22381604 CGTATTAGAA
Statistics
Matches: 90, Mismatches: 9, Indels: 30
0.70 0.07 0.23
Matches are distributed among these distances:
20 7 0.08
21 7 0.08
22 9 0.10
23 24 0.27
24 11 0.12
25 29 0.32
26 3 0.03
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (22 bp):
ATATATAATAATATATATAAAA
Found at i:22381586 original size:11 final size:11
Alignment explanation
Indices: 22381559--22381603 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
22381549 TTGCATTAGA
*
22381559 AAAATATATAC
1 AAAATATATAT
*
22381570 ATAATATATAT
1 AAAATATATAT
*
22381581 AAAATACATAT
1 AAAATATATAT
*
22381592 AATATATATAT
1 AAAATATATAT
22381603 A
1 A
22381604 CGTATTAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATATAT
Found at i:22386740 original size:20 final size:21
Alignment explanation
Indices: 22386715--22386756 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
22386705 AATCAATTTA
*
22386715 ATTTAACATATA-TTTTAATT
1 ATTTAAAATATATTTTTAATT
22386735 ATTTAAAATATATTTTTAATT
1 ATTTAAAATATATTTTTAATT
22386756 A
1 A
22386757 ATAATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTAAAATATATTTTTAATT
Found at i:22386765 original size:20 final size:21
Alignment explanation
Indices: 22386722--22386767 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
22386712 TTAATTTAAC
*
22386722 ATATA-TTTTAATTATTTAAA
1 ATATATTTTTAATTATATAAA
*
22386742 ATATATTTTTAATTA-ATAAT
1 ATATATTTTTAATTATATAAA
22386762 ATATAT
1 ATATAT
22386768 CATGCTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATATTTTTAATTATATAAA
Found at i:22386900 original size:84 final size:82
Alignment explanation
Indices: 22386800--22386987 Score: 218
Period size: 81 Copynumber: 2.3 Consensus size: 82
22386790 TCTTAATTTT
* * *
22386800 TTTTTAAAAGAAGCAATTAAGCCTTTTTTTTAACACTCAATCGAGCACTTGAACTTTTAAGATAC
1 TTTTTAAAAAAAGCAATTAAGCCTTTTTTTT--CACTCAATCGAGCACTTGAACTTTCAAAATAC
* * **
22386865 AT-AAAAAGGCTCTCAAGC
64 ATAAAAAAGACCCTCAAAA
* * * * *
22386883 TTTTTAAAAAAAAGCAATTAAG-CTTTTTTTTCACTCAATTGGGTATTTGAACTTTCAAAATGCA
1 TTTTT-AAAAAAAGCAATTAAGCCTTTTTTTTCACTCAATCGAGCACTTGAACTTTCAAAATACA
22386947 TAAAAAAGACCCTCAAAA
65 TAAAAAAGACCCTCAAAA
*
22386965 TTTTTCAAAAAAGCAATTAAGCC
1 TTTTTAAAAAAAGCAATTAAGCC
22386988 CCTACTCTTA
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
81 42 0.47
82 18 0.20
83 14 0.16
84 15 0.17
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (82 bp):
TTTTTAAAAAAAGCAATTAAGCCTTTTTTTTCACTCAATCGAGCACTTGAACTTTCAAAATACAT
AAAAAAGACCCTCAAAA
Found at i:22387090 original size:12 final size:12
Alignment explanation
Indices: 22387073--22387103 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
22387063 TTAAAAATTT
22387073 AAAAATTCTTTA
1 AAAAATTCTTTA
22387085 AAAAATTCTTTA
1 AAAAATTCTTTA
22387097 AAAAATT
1 AAAAATT
22387104 ATAAAAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAAATTCTTTA
Found at i:22387108 original size:10 final size:10
Alignment explanation
Indices: 22387095--22387151 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
22387085 AAAAATTCTT
22387095 TAAAAAATTA
1 TAAAAAATTA
*
22387105 TAAAAATCTTA
1 TAAAAA-ATTA
*
22387116 -AAAAAATAAA
1 TAAAAAAT-TA
*
22387126 AAAAAAGATTA
1 TAAAAA-ATTA
22387137 TAAAAAATTA
1 TAAAAAATTA
22387147 TAAAA
1 TAAAA
22387152 TGCATCAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
9 1 0.03
10 21 0.55
11 14 0.37
12 2 0.05
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:22387129 original size:20 final size:20
Alignment explanation
Indices: 22387084--22387130 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
22387074 AAAATTCTTT
* * *
22387084 AAAAAATTCTTTAAAAAATT
1 AAAAAAATCTTAAAAAAATA
*
22387104 ATAAAAATCTTAAAAAAATA
1 AAAAAAATCTTAAAAAAATA
22387124 AAAAAAA
1 AAAAAAA
22387131 AGATTATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAAAATCTTAAAAAAATA
Found at i:22387366 original size:20 final size:20
Alignment explanation
Indices: 22387341--22387397 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
22387331 TACTATAATT
22387341 TTTATAATTTTTTTACGAAA
1 TTTATAATTTTTTTACGAAA
* **
22387361 TTTAT-ATTTCTTTAC-ATT
1 TTTATAATTTTTTTACGAAA
*
22387379 TTGTATAATTTTCTTACGA
1 TT-TATAATTTTTTTACGA
22387398 CTTTATAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.10
19 12 0.41
20 13 0.45
21 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTATAATTTTTTTACGAAA
Found at i:22387414 original size:10 final size:10
Alignment explanation
Indices: 22387399--22387462 Score: 62
Period size: 10 Copynumber: 6.6 Consensus size: 10
22387389 TTCTTACGAC
*
22387399 TTTATAACAT
1 TTTATAATAT
22387409 TTTATAAT-T
1 TTTATAATAT
22387418 TTT-TAATAT
1 TTTATAATAT
*
22387427 TTCTAT-ATGT
1 TT-TATAATAT
*
22387437 TTTATAATAA
1 TTTATAATAT
*
22387447 TTTATAAAAT
1 TTTATAATAT
22387457 TTTATA
1 TTTATA
22387463 TTTTTTTACA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 4 0.09
9 10 0.23
10 29 0.66
11 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (10 bp):
TTTATAATAT
Found at i:22387419 original size:39 final size:37
Alignment explanation
Indices: 22387333--22387430 Score: 94
Period size: 39 Copynumber: 2.6 Consensus size: 37
22387323 TCTTTTGGTA
*
22387333 CTATAATTTTTATAATTTTTTTACGAAATTTATATTT
1 CTATAATTTTTATAATTTTCTTACGAAATTTATATTT
* *
22387370 CTTTACATTTTGTATAATTTTCTTACG-ACTTTATAACATTT
1 CTATA-ATTTT-TATAATTTTCTTACGAAATTTAT---ATTT
22387411 -TATAATTTTT-TAATATTTCT
1 CTATAATTTTTATAAT-TTTCT
22387431 ATATGTTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
37 8 0.16
38 17 0.33
39 19 0.37
40 3 0.06
41 4 0.08
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (37 bp):
CTATAATTTTTATAATTTTCTTACGAAATTTATATTT
Found at i:22387467 original size:28 final size:28
Alignment explanation
Indices: 22387408--22387477 Score: 70
Period size: 30 Copynumber: 2.4 Consensus size: 28
22387398 CTTTATAACA
* *
22387408 TTTTATAATTTTTTAATATTTCTATATG
1 TTTTATAATTTTATAAAATTTCTATATG
*
22387436 TTTTATAATAATTTATAAAATTT-TATATTT
1 TTTTATAAT--TTTATAAAATTTCTATA-TG
*
22387466 TTTTACAATTTT
1 TTTTATAATTTT
22387478 TTCCTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 12 0.34
29 4 0.11
30 19 0.54
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (28 bp):
TTTTATAATTTTATAAAATTTCTATATG
Found at i:22387486 original size:11 final size:12
Alignment explanation
Indices: 22387472--22387501 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22387462 ATTTTTTTAC
22387472 AATTTTTT-CCT
1 AATTTTTTCCCT
22387483 AATTTTTTCCCT
1 AATTTTTTCCCT
22387495 AATTTTT
1 AATTTTT
22387502 AATATTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (12 bp):
AATTTTTTCCCT
Found at i:22389160 original size:212 final size:212
Alignment explanation
Indices: 22388538--22389355 Score: 1370
Period size: 212 Copynumber: 3.9 Consensus size: 212
22388528 AAATAAACCA
* * *
22388538 TTAATTTTAATAATGCATACTTTATCCAGATGAAGTATATATTAACAGATTCACTAATATGATTA
1 TTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAACAGATTCACTAATATGATTA
* * *
22388603 TATATATATAGATATTTAGGCATGTATTACATTACAAAAACAAAATTTTAAATACTTATACCTAA
66 TATATATATAG--ATTTACGCATGTATCACATTACAAAAACAAAAATTTAAATACTTATACCTAA
*
22388668 TAAAACATGTATCTTATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATT
129 TAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATT
22388733 TCTTATTTAATATTTTAGT
194 TCTTATTTAATATTTTAGT
**
22388752 TTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAGTAGATTCACTAATATGATTA
1 TTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAACAGATTCACTAATATGATTA
* * *
22388817 TATATATAT--ATTTACGCATGTATCACATTACAAAAGCAAAAATTTAAATATTTATAACTAATA
66 TATATATATAGATTTACGCATGTATCACATTACAAAAACAAAAATTTAAATACTTATACCTAATA
22388880 AAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTC
131 AAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTC
*
22388945 TTATTTGATATTTTAGT
196 TTATTTAATATTTTAGT
* **
22388962 TTAATTTTAATAATGCATACTTTATCGGGATAAAGTATGTATTAGTAGATTCACTAATATGATTA
1 TTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAACAGATTCACTAATATGATTA
* *
22389027 TATGTATATAGATTTACGCATGTATCACATTACAAAAGCAAAAATTTAAATACTTATACCTAATA
66 TATATATATAGATTTACGCATGTATCACATTACAAAAACAAAAATTTAAATACTTATACCTAATA
22389092 AAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTC
131 AAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTC
*
22389157 TTATTTAATATTTTAAT
196 TTATTTAATATTTTAGT
* * *
22389174 TTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAACAGATTCACTAATATCATTC
1 TTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAACAGATTCACTAATATGATTA
*
22389239 TATATATATATATTTACGCATGTATCACATTACAAAAACAAAAATTTAAATACTTATACCTAATA
66 TATATATATAGATTTACGCATGTATCACATTACAAAAACAAAAATTTAAATACTTATACCTAATA
* * *
22389304 AAACATGTATCTCATTACAATAATAATTATTTTTCAAATAACATATTATTTT
131 AAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTT
22389356 TCAAAAATAA
Statistics
Matches: 571, Mismatches: 31, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
210 200 0.35
212 302 0.53
214 69 0.12
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (212 bp):
TTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAACAGATTCACTAATATGATTA
TATATATATAGATTTACGCATGTATCACATTACAAAAACAAAAATTTAAATACTTATACCTAATA
AAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTC
TTATTTAATATTTTAGT
Found at i:22394024 original size:33 final size:33
Alignment explanation
Indices: 22393982--22394088 Score: 180
Period size: 33 Copynumber: 3.3 Consensus size: 33
22393972 AATATTAAGG
22393982 CAAATATTTCTAAAGCTACTAATGAATCATTTA
1 CAAATATTTCTAAAGCTACTAATGAATCATTTA
22394015 CAAATATTTCTAAAGCTACTAATGAATCATTTA
1 CAAATATTTCTAAAGCTACTAATGAATCATTTA
** *
22394048 CAAATATTTCTAAAGCTACTAACAAAACATTTA
1 CAAATATTTCTAAAGCTACTAATGAATCATTTA
22394081 CAAA-ATTT
1 CAAATATTT
22394089 GTTCTTTTGA
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 4 0.06
33 67 0.94
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.35
Consensus pattern (33 bp):
CAAATATTTCTAAAGCTACTAATGAATCATTTA
Found at i:22396343 original size:6 final size:6
Alignment explanation
Indices: 22396334--22396360 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
22396324 TAACAGATTA
22396334 GGAGTC GGAGTC GGAGTC GGAGTC GGA
1 GGAGTC GGAGTC GGAGTC GGAGTC GGA
22396361 TCCTAAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.15, G:0.52, T:0.15
Consensus pattern (6 bp):
GGAGTC
Found at i:22399159 original size:29 final size:34
Alignment explanation
Indices: 22399126--22399186 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
22399116 TAATTATGAT
22399126 TTAAA-AAA-TTT-ATTAT-AAT-ATTTGAATTG
1 TTAAATAAATTTTAATTATGAATAATTTGAATTG
22399155 TTAAATAAATTTTAATTATGAATAATTTGAAT
1 TTAAATAAATTTTAATTATGAATAATTTGAAT
22399187 AATAAATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 5 0.19
30 3 0.11
31 3 0.11
32 5 0.19
33 3 0.11
34 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (34 bp):
TTAAATAAATTTTAATTATGAATAATTTGAATTG
Found at i:22403293 original size:7 final size:7
Alignment explanation
Indices: 22403281--22403306 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
22403271 AATTCGATAA
22403281 AAATTTT
1 AAATTTT
22403288 AAATTTT
1 AAATTTT
22403295 AAATTTT
1 AAATTTT
22403302 AAATT
1 AAATT
22403307 AAATAGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AAATTTT
Found at i:22403500 original size:21 final size:22
Alignment explanation
Indices: 22403463--22403506 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22403453 ACCTTTTCTA
22403463 AAGTTAAAAAGTCAAAACCATT
1 AAGTTAAAAAGTCAAAACCATT
* *
22403485 AAGTTAAAAGGT-AAAATCATT
1 AAGTTAAAAAGTCAAAACCATT
22403506 A
1 A
22403507 TATTGTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.25
Consensus pattern (22 bp):
AAGTTAAAAAGTCAAAACCATT
Found at i:22404966 original size:17 final size:17
Alignment explanation
Indices: 22404946--22404979 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22404936 ATGTTTAGGT
22404946 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
22404963 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
22404980 AAATCTAGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:22405287 original size:12 final size:12
Alignment explanation
Indices: 22405267--22405305 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
22405257 GCCCTAATTA
* *
22405267 TAATTAATATAT
1 TAATAAATAAAT
22405279 TAATAAATAAAT
1 TAATAAATAAAT
*
22405291 TATTAAATAAAT
1 TAATAAATAAAT
22405303 TAA
1 TAA
22405306 AATATTACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATAAATAAAT
Found at i:22405412 original size:20 final size:20
Alignment explanation
Indices: 22405386--22405429 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
22405376 AGCTTTATTT
22405386 TAAAAAAATG-TAAATTAAT-
1 TAAAAAAA-GATAAATTAATC
22405405 TAAAAAAAGATAAATTAATC
1 TAAAAAAAGATAAATTAATC
22405425 TAAAA
1 TAAAA
22405430 TTTAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
TAAAAAAAGATAAATTAATC
Found at i:22411006 original size:21 final size:23
Alignment explanation
Indices: 22410977--22411020 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
22410967 TAAAATAGTT
*
22410977 AAATTTTAATAA-AAT-ATATAA
1 AAATATTAATAATAATAATATAA
22410998 AAATATTAATAATAATAATATAA
1 AAATATTAATAATAATAATATAA
22411021 TGATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 3 0.15
23 6 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATATTAATAATAATAATATAA
Found at i:22411104 original size:14 final size:14
Alignment explanation
Indices: 22411074--22411124 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
22411064 TGTAATAAAA
*
22411074 ATAATAAATAGTAGT
1 ATAATAAA-AATAGT
22411089 ATAATAAAAATAGT
1 ATAATAAAAATAGT
* *
22411103 ATAACAAAAATAGG
1 ATAATAAAAATAGT
22411117 ATAA-AAAA
1 ATAATAAAA
22411125 GGAAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
13 4 0.12
14 21 0.64
15 8 0.24
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.24
Consensus pattern (14 bp):
ATAATAAAAATAGT
Found at i:22418670 original size:114 final size:114
Alignment explanation
Indices: 22418470--22418831 Score: 724
Period size: 114 Copynumber: 3.2 Consensus size: 114
22418460 TGGGGTCTGA
22418470 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTGAGAGTGCTTGTCGTTAAAAGGGATTTA
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTGAGAGTGCTTGTCGTTAAAAGGGATTTA
22418535 GCCTAAACTGGTAATCCTGACATCACTCCATGAGTTTATATTACAGGGG
66 GCCTAAACTGGTAATCCTGACATCACTCCATGAGTTTATATTACAGGGG
22418584 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTGAGAGTGCTTGTCGTTAAAAGGGATTTA
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTGAGAGTGCTTGTCGTTAAAAGGGATTTA
22418649 GCCTAAACTGGTAATCCTGACATCACTCCATGAGTTTATATTACAGGGG
66 GCCTAAACTGGTAATCCTGACATCACTCCATGAGTTTATATTACAGGGG
22418698 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTGAGAGTGCTTGTCGTTAAAAGGGATTTA
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTGAGAGTGCTTGTCGTTAAAAGGGATTTA
22418763 GCCTAAACTGGTAATCCTGACATCACTCCATGAGTTTATATTACAGGGG
66 GCCTAAACTGGTAATCCTGACATCACTCCATGAGTTTATATTACAGGGG
22418812 ATTTAGCCTGGACTGGTAAT
1 ATTTAGCCTGGACTGGTAAT
22418832 CTTGCCATAA
Statistics
Matches: 248, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 248 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (114 bp):
ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTGAGAGTGCTTGTCGTTAAAAGGGATTTA
GCCTAAACTGGTAATCCTGACATCACTCCATGAGTTTATATTACAGGGG
Found at i:22424519 original size:115 final size:113
Alignment explanation
Indices: 22424315--22424536 Score: 284
Period size: 115 Copynumber: 1.9 Consensus size: 113
22424305 GAGCGTGTTC
* * * * *
22424315 GAACTCACCTCTTCCTGTACTGACAATAATATCGATACCAATCAAATGGAGACTCAACTGGTAAG
1 GAACTCACCTCTTCCTGCACCGACAATAATATCGATACCAATCAAATGGAGACTCAACCGATAAA
*
22424380 TTTAGGTTTTGAATTAACTCAATC-GAGAATGTGAGAACATTATATTTT
66 TTAAGGTTTTGAATTAACTCAATCGGA-AATGTGAGAACATTATATTTT
* * ** * * *
22424428 GAACTCACTTCTTCTTGCACCGACAATATATATCGATATTAATCTAATTGAGACTCGACCGATAA
1 GAACTCACCTCTTCCTGCACCGACAATA-ATATCGATACCAATCAAATGGAGACTCAACCGATAA
*
22424493 ATTAAAGGTTTTGAATTAACTTAATCGGAAATGTGAGAACATTA
65 ATT-AAGGTTTTGAATTAACTCAATCGGAAATGTGAGAACATTA
22424537 GTTTTGTTAA
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
113 24 0.26
114 31 0.34
115 35 0.38
116 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (113 bp):
GAACTCACCTCTTCCTGCACCGACAATAATATCGATACCAATCAAATGGAGACTCAACCGATAAA
TTAAGGTTTTGAATTAACTCAATCGGAAATGTGAGAACATTATATTTT
Found at i:22427317 original size:3 final size:3
Alignment explanation
Indices: 22427309--22427346 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
22427299 ATTACATCCA
22427309 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
22427347 AACATGTGAT
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:22431651 original size:73 final size:73
Alignment explanation
Indices: 22431564--22431749 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
22431554 ACAACTTGAC
*
22431564 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCATTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
22431629 CACTAACA
66 CACTAACA
22431637 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
22431702 CACTAACA
66 CACTAACA
*
22431710 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
22431750 AATAATAATA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 111 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:22431758 original size:3 final size:3
Alignment explanation
Indices: 22431750--22431781 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
22431740 ATTACATCCA
22431750 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22431782 AACATGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22436862 original size:20 final size:21
Alignment explanation
Indices: 22436824--22436862 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
22436814 TAAAATGATA
22436824 TATACTAAACTTCAATTTAAT
1 TATACTAAACTTCAATTTAAT
22436845 TATAC-AAA-TTCAAATTTA
1 TATACTAAACTTC-AATTTA
22436863 GATGATGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 9 0.53
21 5 0.29
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (21 bp):
TATACTAAACTTCAATTTAAT
Found at i:22441895 original size:24 final size:24
Alignment explanation
Indices: 22441843--22441896 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
22441833 TATATCAAAT
* *
22441843 AAAATA-TATATGTACAATAATAT
1 AAAATATTATATGTACAACAATAA
*
22441866 ATAATATTATAATGTA-AACAATAA
1 AAAATATTAT-ATGTACAACAATAA
22441890 AAAATAT
1 AAAATAT
22441897 ATTATTTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 5 0.20
24 15 0.60
25 5 0.20
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAATATTATATGTACAACAATAA
Found at i:22448197 original size:15 final size:15
Alignment explanation
Indices: 22448177--22448216 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
22448167 GATAAACTGG
22448177 AAATTAAGTGCGGAA
1 AAATTAAGTGCGGAA
* *
22448192 AAATTAAGTACTGAA
1 AAATTAAGTGCGGAA
*
22448207 AATTTAAGTG
1 AAATTAAGTG
22448217 GTGAATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.28
Consensus pattern (15 bp):
AAATTAAGTGCGGAA
Found at i:22448423 original size:5 final size:5
Alignment explanation
Indices: 22448415--22448443 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
22448405 AGTATAATAT
22448415 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
22448444 TTAATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:22450039 original size:23 final size:23
Alignment explanation
Indices: 22450000--22450045 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
22449990 CATCTGTCAC
*
22450000 AATCAGTTGGTATCATGTATTAT
1 AATCAGTTGGGATCATGTATTAT
*
22450023 AATCAGTTGGCGA-CATGTGTTAT
1 AATCAGTTGG-GATCATGTATTAT
22450046 CGACTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (23 bp):
AATCAGTTGGGATCATGTATTAT
Found at i:22455179 original size:50 final size:51
Alignment explanation
Indices: 22455125--22455237 Score: 176
Period size: 50 Copynumber: 2.2 Consensus size: 51
22455115 TTCCAAAATG
*
22455125 AAAATGAAAATGGAGAAAT-GAAATCATTTGG-AATGATTATGGTTTCCTCC
1 AAAATGAAAATGGAGAAATAG-AATCATTTGGAAATGAATATGGTTTCCTCC
* *
22455175 AAAATGAAAATGGAGAAATAGAATCATTTGGAAATGAATGTGGTTTTCTCC
1 AAAATGAAAATGGAGAAATAGAATCATTTGGAAATGAATATGGTTTCCTCC
22455226 AAAATGAAAATG
1 AAAATGAAAATG
22455238 AGTATGAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
50 29 0.50
51 29 0.50
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.28
Consensus pattern (51 bp):
AAAATGAAAATGGAGAAATAGAATCATTTGGAAATGAATATGGTTTCCTCC
Found at i:22463143 original size:22 final size:21
Alignment explanation
Indices: 22463090--22463144 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
22463080 TATTTTATAG
* *
22463090 ATATTTTTAAAATATTTATATT
1 ATATTTTT-TAATATTAATATT
22463112 ATATTATTTTAATATTAATAATT
1 ATATT-TTTTAATATTAAT-ATT
*
22463135 TTATTTTTTA
1 ATATTTTTTA
22463145 TTTATTGCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATTTTTTAATATTAATATT
Found at i:22465568 original size:20 final size:19
Alignment explanation
Indices: 22465523--22465588 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
22465513 AAATATACAA
22465523 ATTTTAGAATTTTTATAAA-T
1 ATTTTA-AATTTTTA-AAATT
*
22465543 AGTTTAAATTTTTAAAATT
1 ATTTTAAATTTTTAAAATT
* *
22465562 ATTTTTAAAATTTGAAAATT
1 A-TTTTAAATTTTTAAAATT
22465582 ACTTTTA
1 A-TTTTA
22465589 TTTTATTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
18 3 0.08
19 10 0.26
20 26 0.67
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTTTAAATTTTTAAAATT
Found at i:22478297 original size:10 final size:11
Alignment explanation
Indices: 22478265--22478299 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
22478255 CGACCTGGCC
22478265 ATATTAATTTTT
1 ATATT-ATTTTT
22478277 ATATTATTTTT
1 ATATTATTTTT
22478288 ATATTATTTTT
1 ATATTATTTTT
22478299 A
1 A
22478300 AATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:22478676 original size:52 final size:52
Alignment explanation
Indices: 22478617--22478727 Score: 154
Period size: 53 Copynumber: 2.1 Consensus size: 52
22478607 GAATTCGACC
* * *
22478617 TATTTTTTAAACAGACTTTA-TTTTTTTG-TCTAAGCCCATTTTTTGGGCCTCT
1 TATTTTTTAAACAGACCTTATTTTTTTTGTTC-AAGCCCATTTTTCGGGCCT-A
*
22478669 TATTTTTTAAACAGGCCTTATTTTTTTTGTTCAAGCCCATTTTTCGGGCCTA
1 TATTTTTTAAACAGACCTTATTTTTTTTGTTCAAGCCCATTTTTCGGGCCTA
22478721 TATTTTT
1 TATTTTT
22478728 GCCGAAACCC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
52 25 0.47
53 26 0.49
54 2 0.04
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.52
Consensus pattern (52 bp):
TATTTTTTAAACAGACCTTATTTTTTTTGTTCAAGCCCATTTTTCGGGCCTA
Found at i:22482731 original size:24 final size:24
Alignment explanation
Indices: 22482700--22482745 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
22482690 ATACTAATAG
22482700 TATAAAT-ATTAGTACTAATATTAT
1 TATAAATAATTAGTAC-AATATTAT
*
22482724 TATAAATAATTATTACAATATT
1 TATAAATAATTAGTACAATATT
22482746 TTAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
TATAAATAATTAGTACAATATTAT
Found at i:22483095 original size:25 final size:25
Alignment explanation
Indices: 22483052--22483101 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
22483042 TAATATAATA
* *
22483052 ATTTAAATATTATTAATCTATTATT
1 ATTTAAATATTAATAATCTAATATT
22483077 ATTTCAAATATTAAT-ATCTAATATT
1 ATTT-AAATATTAATAATCTAATATT
22483102 TATATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTAAATATTAATAATCTAATATT
Found at i:22483104 original size:26 final size:25
Alignment explanation
Indices: 22483035--22483104 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 25
22483025 TTTTGGGTTT
*
22483035 TTAATAT-TAATATAATAATTTAAATA
1 TTAATATCTAATAT--TTATTTAAATA
* *
22483061 TTATTAATCTATTA-TTATTTCAAATA
1 TTAAT-ATCTAATATTTATTT-AAATA
22483087 TTAATATCTAATATTTAT
1 TTAATATCTAATATTTAT
22483105 ATATATTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
25 12 0.34
26 17 0.49
27 2 0.06
28 4 0.11
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (25 bp):
TTAATATCTAATATTTATTTAAATA
Found at i:22484010 original size:14 final size:15
Alignment explanation
Indices: 22483984--22484013 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
22483974 ATACATTAGA
22483984 TTAATTAAAATAAAT
1 TTAATTAAAATAAAT
22483999 TTAATT-AAATAAAT
1 TTAATTAAAATAAAT
22484013 T
1 T
22484014 ATTTCTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATTAAAATAAAT
Found at i:22485565 original size:21 final size:22
Alignment explanation
Indices: 22485540--22485588 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
22485530 ATTATTAATC
*
22485540 CTTAAAGTCAATTTCAC-CTAA
1 CTTAAAGTCAATTCCACACTAA
* *
22485561 -TTTAATTCAATTCCACACTAA
1 CTTAAAGTCAATTCCACACTAA
22485582 CTTAAAG
1 CTTAAAG
22485589 AAAATGGCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
20 13 0.62
21 4 0.19
22 4 0.19
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (22 bp):
CTTAAAGTCAATTCCACACTAA
Found at i:22487077 original size:55 final size:55
Alignment explanation
Indices: 22486995--22487146 Score: 205
Period size: 55 Copynumber: 2.8 Consensus size: 55
22486985 ATTCCACTAT
** * ** *
22486995 AACAATCGATTCAAAAGAAGCGGTATTCCAATATGACAATTTATTTAAACATATA
1 AACAATCGATTCAAAAGAAGCAATATTCCAACATGACAATCAATTTAAACATAAA
* * *
22487050 AACAATCGATTAAAAAGAAGTAATATTCCAACATGACAGTCAATTTAAACATAAA
1 AACAATCGATTCAAAAGAAGCAATATTCCAACATGACAATCAATTTAAACATAAA
* *
22487105 AAAAATCGATTCAAAAGAAGCAATATTCCAACATAACAATCA
1 AACAATCGATTCAAAAGAAGCAATATTCCAACATGACAATCA
22487147 GTTCAATCCA
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 83 1.00
ACGTcount: A:0.51, C:0.16, G:0.09, T:0.24
Consensus pattern (55 bp):
AACAATCGATTCAAAAGAAGCAATATTCCAACATGACAATCAATTTAAACATAAA
Found at i:22488239 original size:17 final size:18
Alignment explanation
Indices: 22488219--22488262 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
22488209 AGGCTTCAAT
*
22488219 TAAAATTACTAAAAAA-A
1 TAAAATTAATAAAAAATA
22488236 T-AAATTAATAAAAAATA
1 TAAAATTAATAAAAAATA
22488253 TAAATATTAA
1 TAAA-ATTAA
22488263 AAGTGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 13 0.57
17 3 0.13
18 2 0.09
19 5 0.22
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAATTAATAAAAAATA
Found at i:22488242 original size:16 final size:17
Alignment explanation
Indices: 22488221--22488257 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
22488211 GCTTCAATTA
*
22488221 AAATTACTAAAAAA-AT
1 AAATTAATAAAAAATAT
22488237 AAATTAATAAAAAATAT
1 AAATTAATAAAAAATAT
22488254 AAAT
1 AAAT
22488258 ATTAAAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATTAATAAAAAATAT
Found at i:22488697 original size:31 final size:31
Alignment explanation
Indices: 22488662--22488725 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
22488652 TTCAATCTTC
*
22488662 AATCTTTC-AATATTCTCTCAAATTTCTCTCA
1 AATCTTTCAAAT-TTCTCTCAAATTCCTCTCA
*
22488693 AATCTTTCAAATTTCTCTTAAATTCCTCTCA
1 AATCTTTCAAATTTCTCTCAAATTCCTCTCA
22488724 AA
1 AA
22488726 ACTCTAGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (31 bp):
AATCTTTCAAATTTCTCTCAAATTCCTCTCA
Found at i:22488700 original size:13 final size:11
Alignment explanation
Indices: 22488674--22488725 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
22488664 TCTTTCAATA
22488674 TTCTCTCAAAT
1 TTCTCTCAAAT
22488685 TTCTCTCAAA-
1 TTCTCTCAAAT
*
22488695 -TCTTTCAAAT
1 TTCTCTCAAAT
*
22488705 TTCTCTTAAAT
1 TTCTCTCAAAT
*
22488716 TCCTCTCAAA
1 TTCTCTCAAA
22488726 ACTCTAGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
11 26 0.76
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:22490535 original size:18 final size:18
Alignment explanation
Indices: 22490512--22490554 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
22490502 TGCCAGGTAC
*
22490512 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
22490530 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
22490548 GTTTCCT
1 GTATCCT
22490555 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:22491143 original size:116 final size:116
Alignment explanation
Indices: 22490939--22491321 Score: 667
Period size: 116 Copynumber: 3.3 Consensus size: 116
22490929 TATTTGTACA
22490939 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
22491004 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
22491055 AACATTTTGGATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
22491120 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * *
22491171 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* * * *
22491236 TATAATTTAGTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGT
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* *
22491287 AATATTTTGAATATTTTTATATTATTTCAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
22491322 AAAATATAAA
Statistics
Matches: 254, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 254 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:22493785 original size:100 final size:100
Alignment explanation
Indices: 22493612--22493811 Score: 364
Period size: 100 Copynumber: 2.0 Consensus size: 100
22493602 GCTGGAGGCG
22493612 AGTATGCCCTGAATCATGGATCTTCTTCTTCATCTGAACCCCCTTCAACATCTTCAGGTTCAGTT
1 AGTATGCCCTGAATCATGGATCTTCTTCTTCATCTGAACCCCCTTCAACATCTTCAGGTTCAGTT
*
22493677 GGAATAGGCTCCGGTTCAGAAAATAATCCAACTTC
66 GGAATAGGCTCCAGTTCAGAAAATAATCCAACTTC
*
22493712 AGTATGCCCTGAATCATGGATCTTCTTCTTCATCTGAACCCCCTTCCACATCTTCAGGTTCAGTT
1 AGTATGCCCTGAATCATGGATCTTCTTCTTCATCTGAACCCCCTTCAACATCTTCAGGTTCAGTT
* *
22493777 TGAATAGGCTCCAGTTCAGAAAATAATTCAACTTC
66 GGAATAGGCTCCAGTTCAGAAAATAATCCAACTTC
22493812 TGTACCATCG
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (100 bp):
AGTATGCCCTGAATCATGGATCTTCTTCTTCATCTGAACCCCCTTCAACATCTTCAGGTTCAGTT
GGAATAGGCTCCAGTTCAGAAAATAATCCAACTTC
Found at i:22494840 original size:126 final size:126
Alignment explanation
Indices: 22494611--22495148 Score: 774
Period size: 126 Copynumber: 4.3 Consensus size: 126
22494601 GCCCAAGTTA
* * ** *
22494611 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCATTTGGGAGCTTCTTTTAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
** *
22494676 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGATACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
22494737 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
22494802 TGGATCCTGCTTGAAACGTTTTT-ACCACTATTTGTGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * * *
22494863 TTTTAGAGACTACTGTAGCAAAAGAGCGTCTACGTGGAAGCTTCTTTCAGTACTTTTGTTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
22494928 TGCATCTTGCTTGAAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
22494989 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTTAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
22495054 TGCATCTTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTTTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
22495115 TTT-AGAGACTACTGTAGCAAAAGAGCGTCAACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
22495149 AGAAACTTTT
Statistics
Matches: 372, Mismatches: 38, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
125 30 0.08
126 341 0.92
127 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:22495251 original size:15 final size:15
Alignment explanation
Indices: 22495231--22495260 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22495221 TTTCTTAAAT
22495231 ACCCTAAAACCCTAA
1 ACCCTAAAACCCTAA
*
22495246 ACCCTAAAATCCTAA
1 ACCCTAAAACCCTAA
22495261 TCTAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (15 bp):
ACCCTAAAACCCTAA
Found at i:22495406 original size:97 final size:99
Alignment explanation
Indices: 22495236--22495442 Score: 262
Period size: 97 Copynumber: 2.1 Consensus size: 99
22495226 TAAATACCCT
* * * **
22495236 AAAACCCTAAACCCTAAAATCCTAATCTAATTTTTTTTAAAATTTATAATTAATTTACTCAAGTA
1 AAAACCATAAACACTAAAATCCTAATCTAATTTTTTTTAAAATTTATAATTAATTTAATCAACAA
*
22495301 ACCTTAAACCCTAATTTATTTGATTTTTTCCTTA
66 ACCTTAAACCCTAATTTATTTAATTTTTTCCTTA
*
22495335 AAAACCATAAACACT-AAA-CCATAATCTAA-TTTTTTTAAAA-TTAGTAATTAATTTAATTAAC
1 AAAACCATAAACACTAAAATCC-TAATCTAATTTTTTTTAAAATTTA-TAATTAATTTAATCAAC
* *
22495396 AAACAC-TAAACCCTAATTTATTTAATTTTTTTCTTT
64 AAAC-CTTAAACCCTAATTTATTTAATTTTTTCCTTA
*
22495432 AAAACCTTAAA
1 AAAACCATAAA
22495443 ATTTAGAAAT
Statistics
Matches: 95, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
96 3 0.03
97 67 0.71
98 12 0.13
99 13 0.14
ACGTcount: A:0.42, C:0.16, G:0.01, T:0.41
Consensus pattern (99 bp):
AAAACCATAAACACTAAAATCCTAATCTAATTTTTTTTAAAATTTATAATTAATTTAATCAACAA
ACCTTAAACCCTAATTTATTTAATTTTTTCCTTA
Found at i:22496134 original size:3 final size:3
Alignment explanation
Indices: 22496126--22496153 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22496116 AATTGACAAA
22496126 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
22496154 GAACACCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22504340 original size:23 final size:22
Alignment explanation
Indices: 22504314--22504370 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
22504304 AAGTTGATGA
* *
22504314 AAAAAAATAATAATTATTTTTTT
1 AAAAAAATAATAAATA-TTTCTT
* *
22504337 AAAATAATATAGAAATATTTCTT
1 AAAAAAATA-ATAAATATTTCTT
22504360 AAAAAAATAAT
1 AAAAAAATAAT
22504371 TATACCATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 1 0.04
23 21 0.78
24 5 0.19
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAAAAATAATAAATATTTCTT
Found at i:22504996 original size:48 final size:48
Alignment explanation
Indices: 22504926--22505029 Score: 165
Period size: 48 Copynumber: 2.2 Consensus size: 48
22504916 TATAACACTT
*
22504926 TAAAA-TTTTTAGGTGGTGACATGTCACAATCTTAAAATACCATAAGA
1 TAAAATTTTTTAGGTGATGACATGTCACAATCTTAAAATACCATAAGA
*
22504973 TAAAATTTTTTAGTTGATGACATGTCACAATCTTAAAATACCATAAGA
1 TAAAATTTTTTAGGTGATGACATGTCACAATCTTAAAATACCATAAGA
* *
22505021 CAAACTTTT
1 TAAAATTTT
22505030 ATATTTTTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 5 0.10
48 47 0.90
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (48 bp):
TAAAATTTTTTAGGTGATGACATGTCACAATCTTAAAATACCATAAGA
Found at i:22510874 original size:11 final size:11
Alignment explanation
Indices: 22510849--22510885 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
22510839 ATATATCATA
22510849 TATCAAAATAT
1 TATCAAAATAT
22510860 TATCTAAAATA-
1 TATC-AAAATAT
22510871 TATCAAAATAT
1 TATCAAAATAT
22510882 TATC
1 TATC
22510886 TTTCCATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 6 0.25
11 12 0.50
12 6 0.25
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (11 bp):
TATCAAAATAT
Found at i:22513338 original size:16 final size:16
Alignment explanation
Indices: 22513313--22513352 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
22513303 AAATAAGATA
* *
22513313 AAATATATTACTATTT
1 AAATAAATTACTAATT
*
22513329 AAATAAATTATTAATT
1 AAATAAATTACTAATT
22513345 AAATAAAT
1 AAATAAAT
22513353 AATTATAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATAAATTACTAATT
Found at i:22513357 original size:16 final size:16
Alignment explanation
Indices: 22513327--22513357 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22513317 ATATTACTAT
*
22513327 TTAAATAAATTATTAA
1 TTAAATAAATAATTAA
22513343 TTAAATAAATAATTA
1 TTAAATAAATAATTA
22513358 TAACTAATTA
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAATAAATAATTAA
Found at i:22516846 original size:6 final size:5
Alignment explanation
Indices: 22516816--22516845 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
22516806 ATTAACCTTA
22516816 AAAAT AAAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
22516846 AACGTGGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:22520050 original size:46 final size:44
Alignment explanation
Indices: 22519946--22520053 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
22519936 TGTCTTTGAC
** * * *
22519946 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
22519990 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
22520036 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
22520054 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:22523513 original size:5 final size:6
Alignment explanation
Indices: 22523497--22523553 Score: 93
Period size: 6 Copynumber: 10.0 Consensus size: 6
22523487 CAATCAACCT
22523497 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T-AAAA T-AAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
22523543 T-AAAA TAAAAA
1 TAAAAA TAAAAA
22523554 AACGTGGACA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 15 0.30
6 35 0.70
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:22526097 original size:14 final size:14
Alignment explanation
Indices: 22526078--22526107 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
22526068 GCATTCATCT
22526078 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
22526092 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
22526106 TT
1 TT
22526108 ATATACATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:22526227 original size:23 final size:24
Alignment explanation
Indices: 22526182--22526229 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
22526172 TATAAGTTTT
*
22526182 TTTTAAAATTTTTTTTATAATATTA
1 TTTTAAAA-TTTTTGTATAATATTA
*
22526207 TTTTAAAA-TTTTGTATGATATTA
1 TTTTAAAATTTTTGTATAATATTA
22526230 CATTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.62
25 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTAAAATTTTTGTATAATATTA
Found at i:22527169 original size:127 final size:125
Alignment explanation
Indices: 22526921--22527480 Score: 559
Period size: 128 Copynumber: 4.4 Consensus size: 125
22526911 CTTAAGGAAT
* * * * * * *
22526921 TATTTTGTGTTTGGAGGTTCGAGAAATCGTGCACAATCGTGCTGGGTTTCGATTTTTCGTTC-AG
1 TATTTCGTATTTGGAAGTTCGAGAGATCGTGCCCAATCGTGCTGGGTTGCGATTTTTCATTCGA-
* * * *
22526985 CTAAAATACGGAATATCCTTTGGAAATTTCATCCATATTTTGTTAAAATTAAAACGAGGCAA
65 CTAAAATACGGAATATCCTTTGGAAATTTCATCCATGTTTTCTT-AAACTAAAACGAGGCAG
* * *
22527047 TATTTCGTATTTGGGGAGTTCGAGAGTTCGTGCCCAATCATGCTGGGTTGCGATTTTTCATTCGA
1 TATTTCGTATTT-GGAAGTTCGAGAGATCGTGCCCAATCGTGCTGGGTTGCGATTTTTCATTCGA
** ** ** * * * **
22527112 CTAAAATGTGGAGCATCCTCTTTAAAATTTCATCCATGTTTTCTTAAGCTGAGACGAGGCCC
65 CTAAAATACGGAATATCCT-TTGGAAATTTCATCCATGTTTTCTTAAACTAAAACGAGGCAG
* * * *
22527174 TATTTCGTGTTTGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTCTTTCATTC
1 TATTTCGTATTTGGAAGTTCGAGAGATCGTGCCCAATCGTGCTGGGTTGCGA--TT-TTTCATTC
** * * * * * *
22527239 GACTAGGATACGAAATATCCTTTTGAAATTTCATCCGTGTTTTCTCAAACTAGAACAAGGCAG
63 GACTAAAATACGGAATATCCTTTGGAAATTTCATCCATGTTTTCTTAAACTAAAACGAGGCAG
* * * * * *
22527302 CATTTCGTGTTTGGAAGTTTGAGGGATCGTGCCCAATCGTGCTGGGTTGCAATCTTTCATTCGAC
1 TATTTCGTATTTGGAAGTTCGAGAGATCGTGCCCAATCGTGCTGGGTTGCGATTTTTCATTCGAC
* * * * *
22527367 TAAAACATGGAATATCCCTTGGAAATTTCATCCATG-TTTCTTAGA-TAAAAATGAGGCAG
66 TAAAATACGGAATATCCTTTGGAAATTTCATCCATGTTTTCTTAAACT-AAAACGAGGCAG
* * * *
22527426 TATTTCGTATTTGGAAATTCGATAAATCGTGCCCAATCGTGCTGGGTTGTGATTT
1 TATTTCGTATTTGGAAGTTCGAGAGATCGTGCCCAATCGTGCTGGGTTGCGATTT
22527481 ATCGTCTGGA
Statistics
Matches: 352, Mismatches: 75, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
123 1 0.00
124 61 0.17
125 39 0.11
126 47 0.13
127 79 0.22
128 103 0.29
129 22 0.06
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (125 bp):
TATTTCGTATTTGGAAGTTCGAGAGATCGTGCCCAATCGTGCTGGGTTGCGATTTTTCATTCGAC
TAAAATACGGAATATCCTTTGGAAATTTCATCCATGTTTTCTTAAACTAAAACGAGGCAG
Found at i:22527989 original size:20 final size:20
Alignment explanation
Indices: 22527966--22528008 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22527956 ACATATTATT
*
22527966 ATTGTTCACGACATGACCTC
1 ATTGTTCACGACATGACCCC
* *
22527986 ATTGTTCATGACTTGACCCC
1 ATTGTTCACGACATGACCCC
22528006 ATT
1 ATT
22528009 ATTCTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (20 bp):
ATTGTTCACGACATGACCCC
Found at i:22533071 original size:72 final size:72
Alignment explanation
Indices: 22532954--22533091 Score: 240
Period size: 72 Copynumber: 1.9 Consensus size: 72
22532944 GCCATTATAC
* * *
22532954 TTCATTAGTCTAGTAAAAATCAAGTTGAAAGGGTGCACTCGTGCATTAAGCCTCAAAGGTTAGTG
1 TTCATTAGTCTAGTAAAAATCAAGTTGAAAGGGTGAACTCGTGCATTAAGCCTAAAAGCTTAGTG
22533019 TCTTTTG
66 TCTTTTG
*
22533026 TTCATTAGTCTAGTAAAAATCAAGTTGAAAGGGTGAATTCGTGCATTAAGCCTAAAAGCTTAGTG
1 TTCATTAGTCTAGTAAAAATCAAGTTGAAAGGGTGAACTCGTGCATTAAGCCTAAAAGCTTAGTG
22533091 T
66 T
22533092 AATATAAATC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (72 bp):
TTCATTAGTCTAGTAAAAATCAAGTTGAAAGGGTGAACTCGTGCATTAAGCCTAAAAGCTTAGTG
TCTTTTG
Found at i:22533258 original size:20 final size:20
Alignment explanation
Indices: 22533214--22533261 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
22533204 TTTTATTAAA
22533214 AAAATCATATTTTTTACATTT
1 AAAAT-ATATTTTTTACATTT
22533235 --AATATATTTTTTA-ATTT
1 AAAATATATTTTTTACATTT
22533252 CAAAATATAT
1 -AAAATATAT
22533262 AATGACAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 4 0.17
18 10 0.42
19 3 0.12
20 7 0.29
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (20 bp):
AAAATATATTTTTTACATTT
Found at i:22533388 original size:19 final size:19
Alignment explanation
Indices: 22533364--22533401 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
22533354 AAAGTTAATA
22533364 ACAAATTTGATTACGGTGG
1 ACAAATTTGATTACGGTGG
*
22533383 ACAAATTTGATTACTGTGG
1 ACAAATTTGATTACGGTGG
22533402 GTGACAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (19 bp):
ACAAATTTGATTACGGTGG
Found at i:22537583 original size:48 final size:48
Alignment explanation
Indices: 22537527--22537621 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
22537517 TCGATGTCTC
* * *
22537527 ATATCGATGCTAATGCCATATCCCAGATATGATTTTACATGGGATCAA
1 ATATCGATGCCAATGCCATATCCCAGACATGATCTTACATGGGATCAA
* *
22537575 ATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
1 ATATCGATGCCAATGCCATATCCCAGACATGATCTTACATGGGATCA
22537622 CACATAACCC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (48 bp):
ATATCGATGCCAATGCCATATCCCAGACATGATCTTACATGGGATCAA
Found at i:22543339 original size:12 final size:12
Alignment explanation
Indices: 22543324--22543348 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22543314 GAAAACACCA
22543324 TTGAAGCAGATT
1 TTGAAGCAGATT
22543336 TTGAAGCAGATT
1 TTGAAGCAGATT
22543348 T
1 T
22543349 CCATCAAGAT
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:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TTGAAGCAGATT
Found at i:22546802 original size:24 final size:24
Alignment explanation
Indices: 22546772--22546820 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
22546762 TTCAATTTAA
22546772 AAACATTTATTTGCATATGAACTT
1 AAACATTTATTTGCATATGAACTT
22546796 AAACATTTATTTGCATATGAACTT
1 AAACATTTATTTGCATATGAACTT
22546820 A
1 A
22546821 CCTCGTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (24 bp):
AAACATTTATTTGCATATGAACTT
Found at i:22547476 original size:32 final size:32
Alignment explanation
Indices: 22547440--22547502 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
22547430 AAGTGGTTTA
22547440 AAAACAATAAAGAAGATGATACTTTAATTTCC
1 AAAACAATAAAGAAGATGATACTTTAATTTCC
* *
22547472 AAAACATTAGAGAAGATGATACTTTAATTTC
1 AAAACAATAAAGAAGATGATACTTTAATTTC
22547503 TTTTTGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (32 bp):
AAAACAATAAAGAAGATGATACTTTAATTTCC
Found at i:22547896 original size:41 final size:41
Alignment explanation
Indices: 22547850--22547927 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
22547840 ATTTGCAATA
* *
22547850 AAACGCCGCAAAAAACTGAGCAACAGCGGCGTTTTTGGTCC
1 AAACGCCGCAAAAAACTGAACAACAGCGGCGCTTTTGGTCC
* *
22547891 AAACGCCGCTAAAAACTGAACAATAGCGGCGCTTTTG
1 AAACGCCGCAAAAAACTGAACAACAGCGGCGCTTTTG
22547928 AAAAAACGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.18
Consensus pattern (41 bp):
AAACGCCGCAAAAAACTGAACAACAGCGGCGCTTTTGGTCC
Found at i:22548688 original size:131 final size:131
Alignment explanation
Indices: 22548538--22548799 Score: 452
Period size: 131 Copynumber: 2.0 Consensus size: 131
22548528 ATGGTTTATG
* ** *
22548538 TTTTATGGTTTAGAGTTTAGGGGATAGGGGTTATGATATAATGTTTATTATTTTGGGGTTTAGGA
1 TTTTATGGTTTAGAGTTTAGGAGATAGGGGTTATGATATAATGTCCATTATTTTGGGGTTTAGAA
*
22548603 TTTATAATCTAGGATTTAAGGTTTGGCGTTTGGGGATCAGGGTTTAATTTTTAGCGTTTAGGGAT
66 TTTATAATCTAGGATTTAAGGTATGGCGTTTGGGGATCAGGGTTTAATTTTTAGCGTTTAGGGAT
22548668 A
131 A
22548669 TTTTATGGTTTAGAGTTTAGGAGATAGGGGTTATGATATAATGTCCATTATTTTGGGGTTTAGAA
1 TTTTATGGTTTAGAGTTTAGGAGATAGGGGTTATGATATAATGTCCATTATTTTGGGGTTTAGAA
* * *
22548734 TTTATGATCTAGGATTTAAGGTATGGTGTTTGGGGATCAGGGTTTAATTTTTAGCTTTTAGGGAT
66 TTTATAATCTAGGATTTAAGGTATGGCGTTTGGGGATCAGGGTTTAATTTTTAGCGTTTAGGGAT
22548799 A
131 A
22548800 AATATGGGGA
Statistics
Matches: 123, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
131 123 1.00
ACGTcount: A:0.24, C:0.03, G:0.29, T:0.44
Consensus pattern (131 bp):
TTTTATGGTTTAGAGTTTAGGAGATAGGGGTTATGATATAATGTCCATTATTTTGGGGTTTAGAA
TTTATAATCTAGGATTTAAGGTATGGCGTTTGGGGATCAGGGTTTAATTTTTAGCGTTTAGGGAT
A
Found at i:22553698 original size:31 final size:30
Alignment explanation
Indices: 22553658--22553716 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 30
22553648 TATTTTTATA
22553658 TTTAATCT-AATTTTTATTATTTATTTTAGT
1 TTTAATCTAAATTTTTATT-TTTATTTTAGT
22553688 TTTAATTCTAAATTTTTATTTTTATTTTA
1 TTTAA-TCTAAATTTTTATTTTTATTTTA
22553717 ATATTTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 5 0.19
31 12 0.44
32 10 0.37
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (30 bp):
TTTAATCTAAATTTTTATTTTTATTTTAGT
Found at i:22553832 original size:35 final size:35
Alignment explanation
Indices: 22553764--22553832 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
22553754 TAATTGTGTT
*
22553764 ATTAATTTATTATTTTAGATTTTAAATTTAAATTC
1 ATTAATTTATTATTTTAGATTTTAAATTAAAATTC
*
22553799 ATTAATTT-TTATATTTAGTTTTTAAGA-TAAAATT
1 ATTAATTTATTAT-TTTAGATTTTAA-ATTAAAATT
22553833 TTAAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.13
35 25 0.83
36 1 0.03
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (35 bp):
ATTAATTTATTATTTTAGATTTTAAATTAAAATTC
Found at i:22554032 original size:42 final size:43
Alignment explanation
Indices: 22553955--22554051 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 43
22553945 ATTATATTCA
* *
22553955 TTAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGCCTTGACCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGACCT
* *
22553998 TTAGCGGCGTTTGTGGG-AAAGCGCTGCTAAAGGCCATGATCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGACCT
22554040 TTAGCGGCGTTT
1 TTAGCGGCGTTT
22554052 TTTTACATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 33 0.66
43 17 0.34
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.28
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGACCT
Found at i:22560566 original size:43 final size:44
Alignment explanation
Indices: 22560494--22560592 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 44
22560484 ATATCTCGGA
* ** * * * *
22560494 TATGGTCTTACATGTTATCACATATCGATGACGATGGCTTAG-C
1 TATGGTCTTACACGAAATCAAATAACGATGACAATGGCCTAGAC
* *
22560537 TATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCTAGAC
1 TATGGTCTTACACGAAATCAAATAACGATGACAATGGCCTAGAC
22560581 -ATGGTCTTACAC
1 TATGGTCTTACAC
22560593 ATAATCTCAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (44 bp):
TATGGTCTTACACGAAATCAAATAACGATGACAATGGCCTAGAC
Found at i:22576706 original size:22 final size:22
Alignment explanation
Indices: 22576653--22576707 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
22576643 ATAATGAAAT
*
22576653 GATAACAAAATAGTGAGAAAAC
1 GATAAAAAAATAGTGAGAAAAC
* * *
22576675 AACAAGAAAATAGT-AGTAAAAC
1 GATAAAAAAATAGTGAG-AAAAC
22576697 GATAAAAAAAT
1 GATAAAAAAAT
22576708 CAAAATAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.64, C:0.07, G:0.15, T:0.15
Consensus pattern (22 bp):
GATAAAAAAATAGTGAGAAAAC
Found at i:22587669 original size:20 final size:21
Alignment explanation
Indices: 22587631--22587669 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
22587621 GAATCATCAA
22587631 ATATTAAATCTGATATTTCAT
1 ATATTAAATCTGATATTTCAT
22587652 ATATATAAAT-TG-TATTTC
1 ATAT-TAAATCTGATATTTC
22587670 GAGTATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (21 bp):
ATATTAAATCTGATATTTCAT
Found at i:22591958 original size:13 final size:14
Alignment explanation
Indices: 22591935--22591963 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22591925 TTGAAAATAT
22591935 GTTGAATTGGATTG
1 GTTGAATTGGATTG
22591949 GTTG-ATTGGATTG
1 GTTGAATTGGATTG
22591962 GT
1 GT
22591964 CTCGATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:22598202 original size:21 final size:20
Alignment explanation
Indices: 22598178--22598235 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
22598168 ATATATTTTA
22598178 TAAATAATAAACTTTAAACCT
1 TAAATAATAAA-TTTAAACCT
** *
22598199 TAAATTTTAAATGTTAAACTT
1 TAAATAATAAAT-TTAAACCT
*
22598220 TAAATACTAAAATTTA
1 TAAATAAT-AAATTTA
22598236 CATTTTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.03
21 25 0.83
22 4 0.13
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAATAATAAATTTAAACCT
Found at i:22598224 original size:14 final size:14
Alignment explanation
Indices: 22598185--22598224 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
22598175 TTATAAATAA
*
22598185 TAAACTTTAAACCT
1 TAAACTTTAAATCT
* *
22598199 TAAATTTTAAATGT
1 TAAACTTTAAATCT
22598213 TAAACTTTAAAT
1 TAAACTTTAAAT
22598225 ACTAAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (14 bp):
TAAACTTTAAATCT
Found at i:22598257 original size:20 final size:21
Alignment explanation
Indices: 22598218--22598258 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
22598208 AATGTTAAAC
22598218 TTTAAATACTAAAATTTACAT
1 TTTAAATACTAAAATTTACAT
* *
22598239 TTTAAATCCT-AACTTTACAT
1 TTTAAATACTAAAATTTACAT
22598259 CTAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAAATACTAAAATTTACAT
Found at i:22598294 original size:7 final size:7
Alignment explanation
Indices: 22598280--22598356 Score: 56
Period size: 7 Copynumber: 11.4 Consensus size: 7
22598270 CTAATAGCTA
22598280 AAAT-TT
1 AAATATT
22598286 AAATATT
1 AAATATT
*
22598293 AAATACT
1 AAATATT
22598300 AAAT-TCT
1 AAATAT-T
*
22598307 AAATCTT
1 AAATATT
22598314 AAATATT
1 AAATATT
22598321 -AAT-TT
1 AAATATT
*
22598326 AAATACT
1 AAATATT
*
22598333 AAATAAT
1 AAATATT
*
22598340 AAACCA-T
1 AAA-TATT
22598347 AAATATT
1 AAATATT
22598354 AAA
1 AAA
22598357 AAATACTAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
5 2 0.04
6 11 0.19
7 42 0.74
8 2 0.04
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (7 bp):
AAATATT
Found at i:22598328 original size:33 final size:32
Alignment explanation
Indices: 22598290--22598374 Score: 100
Period size: 33 Copynumber: 2.7 Consensus size: 32
22598280 AAATTTAAAT
*
22598290 ATTAAATACTAAATTCTAAATCTTAAATATTA
1 ATTAAATACTAAATTCTAAATCATAAATATTA
** *
22598322 ATTTAAATACTAAATAATAAACCATAAATATTA
1 A-TTAAATACTAAATTCTAAATCATAAATATTA
* *
22598355 A-AAAATACTAAACTCTAAAT
1 ATTAAATACTAAATTCTAAAT
22598375 TGTAAAGAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
31 14 0.33
32 1 0.02
33 28 0.65
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (32 bp):
ATTAAATACTAAATTCTAAATCATAAATATTA
Found at i:22598350 original size:40 final size:40
Alignment explanation
Indices: 22598281--22598356 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
22598271 TAATAGCTAA
* * * *
22598281 AATTTAAATATTAAATACTAAATTCTAAATCTTAAATATT
1 AATTTAAATACTAAATAATAAATCCTAAATATTAAATATT
22598321 AATTTAAATACTAAATAATAAA-CCATAAATATTAAA
1 AATTTAAATACTAAATAATAAATCC-TAAATATTAAA
22598357 AAATACTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.03
40 30 0.97
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (40 bp):
AATTTAAATACTAAATAATAAATCCTAAATATTAAATATT
Found at i:22601270 original size:36 final size:36
Alignment explanation
Indices: 22601198--22601270 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 36
22601188 TAGTAGCAAA
* * *
22601198 ATTAAAAACAAAATAAGTGTTATACAATATTCAAAT
1 ATTAAAAACAAAATAAGTGTAATACAATAGTAAAAT
* *
22601234 ATTAACAACAAAAT-AGTAGTAATATAATAGTAAAAT
1 ATTAAAAACAAAATAAGT-GTAATACAATAGTAAAAT
22601270 A
1 A
22601271 GTAGCAAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 3 0.10
36 28 0.90
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (36 bp):
ATTAAAAACAAAATAAGTGTAATACAATAGTAAAAT
Found at i:22603714 original size:45 final size:45
Alignment explanation
Indices: 22603663--22603750 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
22603653 TGTATTTGCA
* *
22603663 GAGTAAATGTCACGTATGTGTGCACATTTTGCTGTTGCTTTTGTT
1 GAGTAAATGTCACATATGTGTGCACATTTTGCTGCTGCTTTTGTT
*
22603708 GAGTAAATGTCATATATGTGTGCACATTTTGCTGCTGCTTTTG
1 GAGTAAATGTCACATATGTGTGCACATTTTGCTGCTGCTTTTG
22603751 GATGAGTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.19, C:0.14, G:0.24, T:0.43
Consensus pattern (45 bp):
GAGTAAATGTCACATATGTGTGCACATTTTGCTGCTGCTTTTGTT
Found at i:22605356 original size:14 final size:14
Alignment explanation
Indices: 22605337--22605370 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
22605327 AAACACCGAG
*
22605337 ATTGTAAGTTTAGA
1 ATTGTAAGATTAGA
22605351 ATTGTAAGATTAGA
1 ATTGTAAGATTAGA
22605365 ATTGTA
1 ATTGTA
22605371 TGGTTTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (14 bp):
ATTGTAAGATTAGA
Found at i:22606476 original size:11 final size:11
Alignment explanation
Indices: 22606458--22606491 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
22606448 TAGTTGGTTA
22606458 ACTTTTTAATT
1 ACTTTTTAATT
*
22606469 AGTTTTTAATT
1 ACTTTTTAATT
*
22606480 TCTTTTTAATT
1 ACTTTTTAATT
22606491 A
1 A
22606492 AGACGTCGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (11 bp):
ACTTTTTAATT
Found at i:22607852 original size:3 final size:3
Alignment explanation
Indices: 22607846--22607877 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
22607836 ATTATGTGAT
22607846 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
22607878 TAGTCACTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:22616114 original size:46 final size:46
Alignment explanation
Indices: 22616054--22616281 Score: 377
Period size: 46 Copynumber: 5.0 Consensus size: 46
22616044 TTTGACATGA
* * * * * *
22616054 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
22616100 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
22616146 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
22616192 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
22616238 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
22616282 AGAGCACACT
Statistics
Matches: 174, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 4 0.02
46 170 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:22619150 original size:5 final size:5
Alignment explanation
Indices: 22619140--22619172 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
22619130 CTATGTGTTC
22619140 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
22619173 CACAAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:22626263 original size:64 final size:64
Alignment explanation
Indices: 22626144--22626266 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
22626134 ATCATTATTT
22626144 TTTAAATATTTTTTACATATATATTTATAGTCTTATTTTTAATTTCTTAATAAATTATACAAACA
1 TTTAAATATTTTTTA-ATATATATTTATAGTCTTATTTTTAATTTCTTAATAAATTATACAAACA
* * *
22626209 TTTAAATATTTTTT-ATATATGTTTATAG-CTTGATTGTTTAGTTTGTTAATAAATTATA
1 TTTAAATATTTTTTAATATATATTTATAGTCTT-ATT-TTTAATTTCTTAATAAATTATA
22626267 TATTATATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
62 3 0.06
63 16 0.30
64 20 0.38
65 14 0.26
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (64 bp):
TTTAAATATTTTTTAATATATATTTATAGTCTTATTTTTAATTTCTTAATAAATTATACAAACA
Found at i:22627078 original size:17 final size:16
Alignment explanation
Indices: 22627046--22627076 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22627036 TCTTATGTGT
22627046 TTTTTTTAAATATTTA
1 TTTTTTTAAATATTTA
22627062 TTTTTTTAAATATTT
1 TTTTTTTAAATATTT
22627077 TACGATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTTAAATATTTA
Found at i:22628193 original size:17 final size:18
Alignment explanation
Indices: 22628157--22628193 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
22628147 ATATATTCAT
* *
22628157 AAAAATTTGAGTTTGAAA
1 AAAAATTTGAGCTCGAAA
22628175 AAAAATTTGAGCTCGAAA
1 AAAAATTTGAGCTCGAAA
22628193 A
1 A
22628194 TGTTTGAGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.27
Consensus pattern (18 bp):
AAAAATTTGAGCTCGAAA
Found at i:22628411 original size:6 final size:6
Alignment explanation
Indices: 22628396--22628435 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
22628386 CATTAATAAT
22628396 TAAT-A TAATGA TAATGA TAATGA TAATGA TAATGA TAATG
1 TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAATG
22628436 TTTAAATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.12
6 30 0.88
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
TAATGA
Found at i:22628484 original size:21 final size:24
Alignment explanation
Indices: 22628448--22628494 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 24
22628438 TAAATTATAA
*
22628448 ATGAAAATTGATATTTTTAAT-TT
1 ATGAAAATTGATATTTTAAATATT
22628471 ATGAAAA-T-ATATTTTAAATATT
1 ATGAAAATTGATATTTTAAATATT
22628493 AT
1 AT
22628495 ATAATTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 5 0.23
23 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (24 bp):
ATGAAAATTGATATTTTAAATATT
Found at i:22628503 original size:22 final size:21
Alignment explanation
Indices: 22628452--22628505 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
22628442 TTATAAATGA
*
22628452 AAATTGATATTTTTAATTTATG
1 AAATT-ATATTTTAAATTTATG
*
22628474 AAAATATATTTTAAATATTAT-
1 AAATTATATTTTAAAT-TTATG
22628495 ATAATTATATT
1 A-AATTATATT
22628506 AAAATTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
AAATTATATTTTAAATTTATG
Found at i:22628518 original size:19 final size:21
Alignment explanation
Indices: 22628484--22628533 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
22628474 AAAATATATT
*
22628484 TTAAATATTATATAATT-ATA
1 TTAAATATTTTATAATTCATA
22628504 TTAAA-ATTTTATAATTCATA
1 TTAAATATTTTATAATTCATA
*
22628524 ATAAATATTT
1 TTAAATATTT
22628534 ATGTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 10 0.38
20 12 0.46
21 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAATATTTTATAATTCATA
Found at i:22628541 original size:33 final size:29
Alignment explanation
Indices: 22628499--22628563 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
22628489 TATTATATAA
*
22628499 TTATATTAAAATTTTATAATTCATAATAAATAT
1 TTATATT-AAATTTTA-AATT-AGAATAAAT-T
*
22628532 TTATGTTAAATTTTAAATTAGAATAAATT
1 TTATATTAAATTTTAAATTAGAATAAATT
22628561 TTA
1 TTA
22628564 AAAGTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 4 0.13
30 8 0.27
31 4 0.13
32 8 0.27
33 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (29 bp):
TTATATTAAATTTTAAATTAGAATAAATT
Found at i:22636272 original size:22 final size:23
Alignment explanation
Indices: 22636231--22636273 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
22636221 TATAATTTCT
* *
22636231 TTTTCGGTTTTGGGGGTTTTTTG
1 TTTTCGGTTTTAGGGATTTTTTG
22636254 TTTTC-GTTTTAGGGATTTTT
1 TTTTCGGTTTTAGGGATTTTT
22636274 AATTTGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.05, C:0.05, G:0.28, T:0.63
Consensus pattern (23 bp):
TTTTCGGTTTTAGGGATTTTTTG
Found at i:22637495 original size:23 final size:26
Alignment explanation
Indices: 22637441--22637496 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
22637431 ATGAAAATAA
22637441 TTTAATAAAAAATTAAAATTAACAAAT
1 TTTAATAAAAAA-TAAAATTAACAAAT
*
22637468 TTTAATAAAAAA-ATAATT-AC-AAT
1 TTTAATAAAAAATAAAATTAACAAAT
22637491 TTTAAT
1 TTTAAT
22637497 TACTCAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 9 0.32
24 2 0.07
25 5 0.18
27 12 0.43
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (26 bp):
TTTAATAAAAAATAAAATTAACAAAT
Found at i:22638508 original size:11 final size:11
Alignment explanation
Indices: 22638473--22638559 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 11
22638463 TTTCGCTGTC
*
22638473 ATTTTGTTATT
1 ATTTTATTATT
*
22638484 ATATTATTATT
1 ATTTTATTATT
*
22638495 ATTTTATTGTT
1 ATTTTATTATT
*
22638506 ATTGTTTGAATATT
1 A-T-TTT-ATTATT
* * * *
22638520 ATATAACTCTT
1 ATTTTATTATT
22638531 ATTTTATTATT
1 ATTTTATTATT
*
22638542 AATTTTATTACT
1 -ATTTTATTATT
22638554 ATTTTA
1 ATTTTA
22638560 AAGGCATCTG
Statistics
Matches: 57, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
11 36 0.63
12 12 0.21
13 4 0.07
14 5 0.09
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:22639394 original size:27 final size:23
Alignment explanation
Indices: 22639348--22639395 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
22639338 ATTTATTTGC
22639348 ACATCATTTAATTTATTAATAAT
1 ACATCATTTAATTTATTAATAAT
*
22639371 ACATACATTTAATTTATTGATAAT
1 ACAT-CATTTAATTTATTAATAAT
22639395 A
1 A
22639396 TATATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (23 bp):
ACATCATTTAATTTATTAATAAT
Found at i:22643200 original size:16 final size:16
Alignment explanation
Indices: 22643179--22643209 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22643169 AGCAGGGAAA
*
22643179 GAAAGAAAGAAAAAGG
1 GAAAGAAAAAAAAAGG
22643195 GAAAGAAAAAAAAAG
1 GAAAGAAAAAAAAAG
22643210 AAAAATTTAG
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:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAAAAAAGG
Found at i:22644988 original size:20 final size:20
Alignment explanation
Indices: 22644963--22645000 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22644953 GCCCCACAGC
22644963 CATGTTCCAAGCCACACGGG
1 CATGTTCCAAGCCACACGGG
*
22644983 CATGTTCCAGGCCACACG
1 CATGTTCCAAGCCACACG
22645001 AGCGTGTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.37, G:0.24, T:0.16
Consensus pattern (20 bp):
CATGTTCCAAGCCACACGGG
Found at i:22646001 original size:14 final size:14
Alignment explanation
Indices: 22645982--22646043 Score: 52
Period size: 17 Copynumber: 4.0 Consensus size: 14
22645972 GCGAATAGTG
22645982 AAAATATATATATA
1 AAAATATATATATA
22645996 AAAATAATATAGTATTA
1 AAAAT-ATATA-TA-TA
* *
22646013 AAGATATATACATA
1 AAAATATATATATA
22646027 AAATAGTATAATATATA
1 AAA-A-TAT-ATATATA
22646044 TACGTAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
14 9 0.24
15 7 0.18
16 10 0.26
17 12 0.32
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.34
Consensus pattern (14 bp):
AAAATATATATATA
Found at i:22646027 original size:25 final size:24
Alignment explanation
Indices: 22645999--22646077 Score: 81
Period size: 23 Copynumber: 3.3 Consensus size: 24
22645989 ATATATAAAA
22645999 ATAATATAGTATTAAAGATATATAC
1 ATAATATAGTATT-AAGATATATAC
* *
22646024 ATAAAATAGTA-TAATATATATAC
1 ATAATATAGTATTAAGATATATAC
* * *
22646047 GTAATATAGAATTTAGA-ATATAC
1 ATAATATAGTATTAAGATATATAC
*
22646070 CTAATATA
1 ATAATATA
22646078 TTAAAAGAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
23 31 0.69
24 4 0.09
25 10 0.22
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (24 bp):
ATAATATAGTATTAAGATATATAC
Found at i:22646621 original size:30 final size:30
Alignment explanation
Indices: 22646587--22646669 Score: 148
Period size: 30 Copynumber: 2.8 Consensus size: 30
22646577 GTGGTGGAGC
* *
22646587 GTGGCTAGTGGAGTAGGTAGTGGAGCAAGT
1 GTGGCTAGTGGAGTTGGTGGTGGAGCAAGT
22646617 GTGGCTAGTGGAGTTGGTGGTGGAGCAAGT
1 GTGGCTAGTGGAGTTGGTGGTGGAGCAAGT
22646647 GTGGCTAGTGGAGTTGGTGGTGG
1 GTGGCTAGTGGAGTTGGTGGTGG
22646670 CAAAGGCTAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.17, C:0.06, G:0.51, T:0.27
Consensus pattern (30 bp):
GTGGCTAGTGGAGTTGGTGGTGGAGCAAGT
Found at i:22646627 original size:18 final size:18
Alignment explanation
Indices: 22646604--22646659 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
22646594 GTGGAGTAGG
22646604 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
22646622 TAGT-G-G--AGT-TGG-
1 TAGTGGAGCAAGTGTGGC
*
22646634 TGGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
22646652 TAGTGGAG
1 TAGTGGAG
22646660 TTGGTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 3 0.10
13 4 0.13
14 4 0.13
16 4 0.13
17 4 0.13
18 11 0.37
ACGTcount: A:0.20, C:0.07, G:0.48, T:0.25
Consensus pattern (18 bp):
TAGTGGAGCAAGTGTGGC
Done.