Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 17 of 126
Found at i:4044522 original size:33 final size:33
Alignment explanation
Indices: 4044460--4044522 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
4044450 ATTTATTATT
**
4044460 TAAAATTTAAATAAATTTAAATTTGATTCAAAA
1 TAAAATTTAAATAAATTTAAATTAAATTCAAAA
* * *
4044493 TAAAATTTAAATTATTTTTAATTAAATTCA
1 TAAAATTTAAATAAATTTAAATTAAATTCA
4044523 TTTATTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (33 bp):
TAAAATTTAAATAAATTTAAATTAAATTCAAAA
Found at i:4044654 original size:25 final size:24
Alignment explanation
Indices: 4044603--4044658 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
4044593 ATTTGAATTG
*
4044603 ATATATATTTATAAAAATAAAATA
1 ATATATTTTTATAAAAATAAAATA
*
4044627 ATATATTTTTAATTAAAATAATAA-A
1 ATATATTTTT-ATAAAAATAA-AATA
4044652 ATATATT
1 ATATATT
4044659 AAAATATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 9 0.32
25 17 0.61
26 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATATTTTTATAAAAATAAAATA
Found at i:4044681 original size:18 final size:20
Alignment explanation
Indices: 4044620--4044680 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
4044610 TTTATAAAAA
* *
4044620 TAAAATAATATATTTTTAAT
1 TAAAATAATAAAATTTTAAT
*
4044640 TAAAATAATAAAA-TAT-AT
1 TAAAATAATAAAATTTTAAT
4044658 TAAAAT-ATAAAATTTTAAT
1 TAAAATAATAAAATTTTAAT
4044677 TAAA
1 TAAA
4044681 TTTATAAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 6 0.17
18 10 0.29
19 8 0.23
20 11 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAATAATAAAATTTTAAT
Found at i:4052083 original size:3 final size:3
Alignment explanation
Indices: 4052075--4052100 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4052065 TTAAATTCTC
4052075 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4052101 TGGTTATAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4052777 original size:13 final size:14
Alignment explanation
Indices: 4052754--4052782 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4052744 CTATTCGATG
4052754 TAATATTAATTTAA
1 TAATATTAATTTAA
4052768 TAAT-TTAATTTAA
1 TAATATTAATTTAA
4052781 TA
1 TA
4052783 TAATATCTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATTAATTTAA
Found at i:4052881 original size:13 final size:13
Alignment explanation
Indices: 4052865--4052889 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4052855 GTATTTCAAA
4052865 AAAATATTAAATT
1 AAAATATTAAATT
4052878 AAAATATTAAAT
1 AAAATATTAAAT
4052890 AATAATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATATTAAATT
Found at i:4052916 original size:35 final size:33
Alignment explanation
Indices: 4052867--4052947 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 33
4052857 ATTTCAAAAA
4052867 AATATTAAATTAAAATATTAAAT-AATA-ATTTTATT
1 AATA-TAAATT-AAA-ATTAAATAAATATATTTT-TT
4052902 AATATAAATATAAAATTAAATAAATATTATTTTTT
1 AATATAAAT-TAAAATTAAATAAATA-TATTTTTT
4052937 AATATAAATTA
1 AATATAAATTA
4052948 TATTTGAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
33 7 0.17
34 14 0.33
35 16 0.38
36 5 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (33 bp):
AATATAAATTAAAATTAAATAAATATATTTTTT
Found at i:4053008 original size:13 final size:13
Alignment explanation
Indices: 4052992--4053016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4052982 GTATTTCAAA
4052992 AAAATATTAAATT
1 AAAATATTAAATT
4053005 AAAATATTAAAT
1 AAAATATTAAAT
4053017 AATAATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATATTAAATT
Found at i:4053030 original size:127 final size:128
Alignment explanation
Indices: 4052795--4053054 Score: 513
Period size: 127 Copynumber: 2.0 Consensus size: 128
4052785 ATATCTATAA
4052795 AAATATTATTTTTTAATATAAATTATATTTGAATTATACAAATATAATATTTTAAATTAAGTATT
1 AAATATTATTTTTTAATATAAATTATATTTGAATTATACAAATATAATATTTTAAATTAAGTATT
4052860 TCAAAAAAATATTAAATTAAAATATTAAATAATAATTTTATTAATATAAATATAAAATTAAAT
66 TCAAAAAAATATTAAATTAAAATATTAAATAATAATTTTATTAATATAAATATAAAATTAAAT
4052923 AAATATTATTTTTTAATATAAATTATATTTGAATTATACAAATATAATATTTTAAA-TAAGTATT
1 AAATATTATTTTTTAATATAAATTATATTTGAATTATACAAATATAATATTTTAAATTAAGTATT
4052987 TCAAAAAAATATTAAATTAAAATATTAAATAATAATTTTATTAATATAAATATAAAATTAAAT
66 TCAAAAAAATATTAAATTAAAATATTAAATAATAATTTTATTAATATAAATATAAAATTAAAT
4053050 AAATA
1 AAATA
4053055 ATAAAATAAA
Statistics
Matches: 132, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
127 76 0.58
128 56 0.42
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (128 bp):
AAATATTATTTTTTAATATAAATTATATTTGAATTATACAAATATAATATTTTAAATTAAGTATT
TCAAAAAAATATTAAATTAAAATATTAAATAATAATTTTATTAATATAAATATAAAATTAAAT
Found at i:4053053 original size:16 final size:17
Alignment explanation
Indices: 4053026--4053066 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
4053016 TAATAATTTT
4053026 ATTAATATAAAT-ATAAA
1 ATTAA-ATAAATAATAAA
4053043 ATTAAATAAATAATAAA
1 ATTAAATAAATAATAAA
4053060 A-TAAATA
1 ATTAAATA
4053067 TACATGGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTAAATAAATAATAAA
Found at i:4055482 original size:19 final size:18
Alignment explanation
Indices: 4055458--4055504 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
4055448 TTTTTCTTCA
* *
4055458 TATTTTAGATTTCTTTAG
1 TATTTTAGATCTATTTAG
4055476 TTATTTTAGATCTATTTAG
1 -TATTTTAGATCTATTTAG
4055495 TATGTTTAGA
1 TAT-TTTAGA
4055505 GTTCAGACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.26, C:0.04, G:0.13, T:0.57
Consensus pattern (18 bp):
TATTTTAGATCTATTTAG
Found at i:4062640 original size:12 final size:14
Alignment explanation
Indices: 4062608--4062639 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4062598 GTTATTTCTC
4062608 TATA-ATTTACAAA
1 TATATATTTACAAA
4062621 TATATATTTACAAA
1 TATATATTTACAAA
4062635 TATAT
1 TATAT
4062640 TCTTTAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATATTTACAAA
Found at i:4066132 original size:19 final size:19
Alignment explanation
Indices: 4066087--4066133 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
4066077 TTATTGCTAG
*
4066087 TTTTGATTAGCTTTCTAAC
1 TTTTGATTAGCTTTATAAC
4066106 TTTATGATT-GCTTTAATAAC
1 TTT-TGATTAGCTTT-ATAAC
4066126 TTTTGATT
1 TTTTGATT
4066134 TAGAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.55
Consensus pattern (19 bp):
TTTTGATTAGCTTTATAAC
Found at i:4067001 original size:29 final size:29
Alignment explanation
Indices: 4066959--4067035 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
4066949 TCCTTTTTTT
*
4066959 AAATAAATTTTTATACTTTTA-TTATATCC
1 AAATAAA-TCTTATACTTTTATTTATATCC
* *
4066988 AAATAAACTCTTATACTTTGATTTATATCT
1 AAATAAA-TCTTATACTTTTATTTATATCC
4067018 AAATAAATCTT-TA-TTTTA
1 AAATAAATCTTATACTTTTA
4067036 AATGAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 4 0.10
28 2 0.05
29 22 0.52
30 14 0.33
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.49
Consensus pattern (29 bp):
AAATAAATCTTATACTTTTATTTATATCC
Found at i:4067097 original size:30 final size:29
Alignment explanation
Indices: 4067061--4067120 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
4067051 TATGTTATAT
*
4067061 ACTTA-TTTAGATACGAATTAAAAGTTTAAG
1 ACTTATTTTA-ATACAAATTAAAAG-TTAAG
*
4067091 ACTTATTTTAATATAAATTAAAAGTTAAG
1 ACTTATTTTAATACAAATTAAAAGTTAAG
4067120 A
1 A
4067121 GTTTATTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 6 0.22
30 17 0.63
31 4 0.15
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (29 bp):
ACTTATTTTAATACAAATTAAAAGTTAAG
Found at i:4067354 original size:2 final size:2
Alignment explanation
Indices: 4067347--4067398 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
4067337 ATAGAGTTCA
* *
4067347 AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4067389 AT AT AT AT AT
1 AT AT AT AT AT
4067399 TATCAAAGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4069606 original size:55 final size:57
Alignment explanation
Indices: 4069546--4069775 Score: 224
Period size: 55 Copynumber: 4.2 Consensus size: 57
4069536 ATAAATTAAT
* * * * * * *
4069546 AATCATACAAATAGATATGCAATTAAATATATATAATTATGC-AATTAACA-ATGTA
1 AATCATGCAAATAAATATGCAATTAAATATATATAATCATACAAATAAAAATATATA
* * *
4069601 AATCATGCAAATAAACAAGCAGTT-AA-ATATATAATCATACAAATAAAAATATATA
1 AATCATGCAAATAAATATGCAATTAAATATATATAATCATACAAATAAAAATATATA
* * * * *
4069656 AATCATGCAAATAAATATACAATT-AA-ATATATAATCATATAACTAATAATACATA
1 AATCATGCAAATAAATATGCAATTAAATATATATAATCATACAAATAAAAATATATA
* * * *
4069711 AATCATGCAAATAAACATGTAATT--ATATATATAATCATGCAAATAATAATATATA
1 AATCATGCAAATAAATATGCAATTAAATATATATAATCATACAAATAAAAATATATA
*
4069766 ATTCATGCAA
1 AATCATGCAA
4069776 TCATGTAAAT
Statistics
Matches: 146, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
53 12 0.08
54 9 0.06
55 125 0.86
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.30
Consensus pattern (57 bp):
AATCATGCAAATAAATATGCAATTAAATATATATAATCATACAAATAAAAATATATA
Found at i:4069653 original size:22 final size:23
Alignment explanation
Indices: 4069625--4069670 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
4069615 ACAAGCAGTT
4069625 AAATATAT-AATCATACAAATAA
1 AAATATATAAATCATACAAATAA
*
4069647 AAATATATAAATCATGCAAATAA
1 AAATATATAAATCATACAAATAA
4069670 A
1 A
4069671 TATACAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (23 bp):
AAATATATAAATCATACAAATAA
Found at i:4069687 original size:110 final size:109
Alignment explanation
Indices: 4069546--4069775 Score: 284
Period size: 110 Copynumber: 2.1 Consensus size: 109
4069536 ATAAATTAAT
* * * * *
4069546 AATCATACAAATAGATATGCAATTAAATATAT-ATAATTATGCAATTAACAAT-GTAAATCATGC
1 AATCATGCAAATAAATATACAATTAAATATATAATAA-TAT--AACTAACAATAATAAATCATGC
*
4069609 AAATAAACAAGCAGTTAAATATATAATCATACAAATAAAAATATATA
63 AAATAAACAAGCAATTAAATATATAATCATACAAATAAAAATATATA
* *
4069656 AATCATGCAAATAAATATACAATTAAATATATAATCATATAACTAATAATACATAAATCATGCAA
1 AATCATGCAAATAAATATACAATTAAATATATAATAATATAACTAACAATA-ATAAATCATGCAA
* * * * *
4069721 ATAAACATGTAATTATATATATAATCATGCAAATAATAATATATA
65 ATAAACAAGCAATTAAATATATAATCATACAAATAAAAATATATA
*
4069766 ATTCATGCAA
1 AATCATGCAA
4069776 TCATGTAAAT
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
108 8 0.08
110 92 0.89
111 3 0.03
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.30
Consensus pattern (109 bp):
AATCATGCAAATAAATATACAATTAAATATATAATAATATAACTAACAATAATAAATCATGCAAA
TAAACAAGCAATTAAATATATAATCATACAAATAAAAATATATA
Found at i:4069762 original size:24 final size:23
Alignment explanation
Indices: 4069730--4069775 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
4069720 AATAAACATG
*
4069730 TAATTATATATATAATCATGCAAA
1 TAATAATATATA-AATCATGCAAA
*
4069754 TAATAATATATAATTCATGCAA
1 TAATAATATATAAATCATGCAA
4069776 TCATGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATAATATATAAATCATGCAAA
Found at i:4069786 original size:31 final size:31
Alignment explanation
Indices: 4069743--4069806 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
4069733 TTATATATAT
**
4069743 AATCATGCAAATAATAATATATAATTCATGC
1 AATCATGCAAATAATAATATATAAACCATGC
* *
4069774 AATCATGTAAATAATAATGTATAAACCATGC
1 AATCATGCAAATAATAATATATAAACCATGC
4069805 AA
1 AA
4069807 AATATGCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30
Consensus pattern (31 bp):
AATCATGCAAATAATAATATATAAACCATGC
Found at i:4071092 original size:22 final size:21
Alignment explanation
Indices: 4071041--4071093 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 21
4071031 AAATTAAAAC
4071041 ATACAAACTAAATCATGCAAAT
1 ATACAAA-TAAATCATGCAAAT
4071063 ATGA-AAATAAATTCATGCCAAA-
1 AT-ACAAATAAA-TCATG-CAAAT
4071085 ATACAAATA
1 ATACAAATA
4071094 TCATACAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
21 5 0.19
22 17 0.63
23 5 0.19
ACGTcount: A:0.57, C:0.15, G:0.06, T:0.23
Consensus pattern (21 bp):
ATACAAATAAATCATGCAAAT
Found at i:4071268 original size:23 final size:22
Alignment explanation
Indices: 4071237--4071297 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 22
4071227 AATTCATGCA
*
4071237 AAATATCATGCAAATATATTAT
1 AAATATCATGCAAATATATCAT
*
4071259 -AATCATTCATGCAAAAATATCAT
1 AAAT-A-TCATGCAAATATATCAT
4071282 AAATATCATGCAAATA
1 AAATATCATGCAAATA
4071298 AAACTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 3 0.09
22 11 0.33
23 16 0.48
24 3 0.09
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (22 bp):
AAATATCATGCAAATATATCAT
Found at i:4071410 original size:5 final size:5
Alignment explanation
Indices: 4071400--4071466 Score: 52
Period size: 5 Copynumber: 13.8 Consensus size: 5
4071390 ATAAATAAGA
* * *
4071400 AAAAT AAAAT AAAAT AATAT GAAAA- ATAA- AAAAT AAAAC ATAAA- AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT
*
4071449 AAAAC AAAAT AAAA- AAAA
1 AAAAT AAAAT AAAAT AAAA
4071467 AACTACGATT
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
4 13 0.25
5 32 0.63
6 6 0.12
ACGTcount: A:0.81, C:0.03, G:0.01, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:4071423 original size:22 final size:21
Alignment explanation
Indices: 4071393--4071460 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
4071383 AAAGATAATA
*
4071393 AATAAGAAAAATAAAATAAAAT
1 AATATGAAAAATAAAA-AAAAT
4071415 AATATGAAAAATAAAAAATAA-
1 AATATGAAAAATAAAAAA-AAT
* *
4071436 AACATAAAAAAATAAAACAAAAT
1 AATAT-GAAAAATAAAA-AAAAT
4071459 AA
1 AA
4071461 AAAAAAAACT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 6 0.15
22 29 0.74
23 4 0.10
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (21 bp):
AATATGAAAAATAAAAAAAAT
Found at i:4071464 original size:7 final size:7
Alignment explanation
Indices: 4071387--4071452 Score: 53
Period size: 7 Copynumber: 8.9 Consensus size: 7
4071377 ACTTAGAAAG
*
4071387 ATAATAA
1 ATAAAAA
4071394 ATAAGAAA
1 ATAA-AAA
*
4071402 A-ATAAA
1 ATAAAAA
4071408 ATAAAATA
1 ATAAAA-A
4071416 ATATGAAAA
1 ATA--AAAA
4071425 ATAAAAA
1 ATAAAAA
*
4071432 ATAAAAC
1 ATAAAAA
4071439 ATAAAAAA
1 AT-AAAAA
4071447 ATAAAA
1 ATAAAA
4071453 CAAAATAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
6 4 0.08
7 24 0.50
8 13 0.27
9 4 0.08
10 3 0.06
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (7 bp):
ATAAAAA
Found at i:4071466 original size:19 final size:19
Alignment explanation
Indices: 4071392--4071466 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 19
4071382 GAAAGATAAT
*
4071392 AAATAAGAAAAATAAAATA
1 AAATAAAAAAAATAAAATA
4071411 AAATAATATGAAAAATAAAAAATA
1 AAATAA-A--AAAAAT--AAAATA
* *
4071435 AAACATAAAAAAATAAAACA
1 AAATA-AAAAAAATAAAATA
4071455 AAATAAAAAAAA
1 AAATAAAAAAAA
4071467 AACTACGATT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
19 13 0.28
20 9 0.20
22 12 0.26
24 11 0.24
25 1 0.02
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (19 bp):
AAATAAAAAAAATAAAATA
Found at i:4072488 original size:14 final size:13
Alignment explanation
Indices: 4072469--4072520 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
4072459 TAAAAAAAAG
4072469 AAATAATAAATAAA
1 AAATAAT-AATAAA
4072483 AAATAATAATAAA
1 AAATAATAATAAA
4072496 AGTAA-AACTAAT-AA
1 A--AATAA-TAATAAA
4072510 AAATAATAATA
1 AAATAATAATA
4072521 TACGTTTGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
12 6 0.18
13 9 0.27
14 12 0.36
15 6 0.18
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (13 bp):
AAATAATAATAAA
Found at i:4072984 original size:44 final size:44
Alignment explanation
Indices: 4072900--4073010 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
4072890 ATCATAAGAG
* ** *
4072900 GTTTTGAAAC--TTAAAAAATTTAAAATATTTCATTCTCTATAA
1 GTTTTGAAACTTTTAAAAAAATTAAAATAACTCATTCACTATAA
4072942 GTTTTGAAACTTTTAAAAAAATTAAAA-AACTCATTTCACTATAA
1 GTTTTGAAACTTTTAAAAAAATTAAAATAACTCA-TTCACTATAA
4072986 GTTTTGAAA-TTTT--AAAAATTAAAAT
1 GTTTTGAAACTTTTAAAAAAATTAAAAT
4073011 GCTTATCTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
41 11 0.18
42 10 0.16
43 8 0.13
44 32 0.52
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (44 bp):
GTTTTGAAACTTTTAAAAAAATTAAAATAACTCATTCACTATAA
Found at i:4073029 original size:41 final size:41
Alignment explanation
Indices: 4072940--4073043 Score: 111
Period size: 41 Copynumber: 2.5 Consensus size: 41
4072930 CATTCTCTAT
* *
4072940 AAGTTTTGAAACTTTTAAAAAAATTAAAAAACTCATTTCACTAT
1 AAGTTTTGAAA-TTTT--AAAAATTAAAAAACTCATTTCACCAA
** *
4072984 AAGTTTTGAAATTTTAAAAATTAAAATGCTTATCTT-ACCAA
1 AAGTTTTGAAATTTTAAAAATTAAAAAACTCAT-TTCACCAA
*
4073025 AAGTTTTGAAAATTTAAAA
1 AAGTTTTGAAATTTTAAAA
4073044 TATTTCCAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
41 36 0.68
42 2 0.04
43 4 0.08
44 11 0.21
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (41 bp):
AAGTTTTGAAATTTTAAAAATTAAAAAACTCATTTCACCAA
Found at i:4080467 original size:34 final size:34
Alignment explanation
Indices: 4080425--4080503 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 34
4080415 TCTTTTCACT
4080425 TTTTAAAAGTGTC-CAAATTTGCAAATCCAGAAGC
1 TTTTAAAAGT-TCTCAAATTTGCAAATCCAGAAGC
* * *
4080459 TTTTAAAAGTTCTCATATTTGCATATCCGGAAGC
1 TTTTAAAAGTTCTCAAATTTGCAAATCCAGAAGC
*
4080493 TTTTGAAAGTT
1 TTTTAAAAGTT
4080504 TCTGAACTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 2 0.05
34 38 0.95
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (34 bp):
TTTTAAAAGTTCTCAAATTTGCAAATCCAGAAGC
Found at i:4080770 original size:1 final size:1
Alignment explanation
Indices: 4080764--4080803 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
4080754 CTAGTTATGG
4080764 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4080804 AGGATTGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4081859 original size:25 final size:25
Alignment explanation
Indices: 4081812--4081863 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
4081802 ACAAATTTAA
*
4081812 AAAAACTTATCATTTAGAGATTTCTT
1 AAAAACTTATCATTTAGAAATTT-TT
*
4081838 AAAAATTTATCATTT-GAAATTTTT
1 AAAAACTTATCATTTAGAAATTTTT
4081862 AA
1 AA
4081864 GAATCTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.17
25 6 0.25
26 14 0.58
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (25 bp):
AAAAACTTATCATTTAGAAATTTTT
Found at i:4082044 original size:26 final size:24
Alignment explanation
Indices: 4082015--4082077 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
4082005 CAAATTTAGA
4082015 AAAAATATT-TCACCTAAGAATTTTAT
1 AAAAAT-TTATCACCTAA-AATTTT-T
**
4082041 AAAAATTTATCATTTAAAATTTTT
1 AAAAATTTATCACCTAAAATTTTT
4082065 AAAAATTTCATCA
1 AAAAATTT-ATCA
4082078 TTAGATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 9 0.27
25 12 0.36
26 12 0.36
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.41
Consensus pattern (24 bp):
AAAAATTTATCACCTAAAATTTTT
Found at i:4083212 original size:43 final size:43
Alignment explanation
Indices: 4083165--4083507 Score: 357
Period size: 43 Copynumber: 8.0 Consensus size: 43
4083155 TAAAAACTAA
* * *
4083165 TCTAAATAGAGGCTCAACGACTTTGAAAAATAAATAAAACTTG
1 TCTAAATAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTTC
* * * *
4083208 TCTAAACAGATGCTCAACGACTTTGAAAAATAAATAAAGCTCC
1 TCTAAATAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTTC
* * *
4083251 TTTAAATAGAGGTTCAACAACTTTGAAAAATAAATAAGGCTTC
1 TCTAAATAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTTC
* * * *
4083294 TTTAAATAAAGGCTCAACAACTTTGAAAAATAAATAAGGCTCC
1 TCTAAATAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTTC
* * ** **
4083337 TCTAAACATAGGCTCAATGACTTTGAAAAATAAATAAAGCCCC
1 TCTAAATAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTTC
** ** * *
4083380 T-TCATGTAGAGGCTCAACAACTTTGCGAAATAAATAAGGCTTA
1 TCT-AAATAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTTC
* *
4083423 TCTAAATA-AGGGCTCAACAACTTTGCAAAATAAATAAGGCTTC
1 TCTAAATAGA-GGCTCAACAACTTTGAAAAATAAATAAAGCTTC
* * * * *
4083466 TCTAAATAAAAGCTTAACGATTTTGAAAAATAAATAAAGCTT
1 TCTAAATAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTT
4083508 ATTGACAATC
Statistics
Matches: 252, Mismatches: 44, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
42 2 0.01
43 248 0.98
44 2 0.01
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (43 bp):
TCTAAATAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTTC
Found at i:4083397 original size:129 final size:129
Alignment explanation
Indices: 4083164--4083505 Score: 459
Period size: 129 Copynumber: 2.7 Consensus size: 129
4083154 ATAAAAACTA
* * ** * * *
4083164 ATCTAAATAGAGGCTCAACGACTTTGAAAAATAAATAAAACTTGTCTAAACAGATGCTCAACGAC
1 ATCTAAATAAAGGCTCAACAACTTTGAAAAATAAATAAGGCTTCTCTAAACAAAAGCTCAACGAC
* * *
4083229 TTTGAAAAATAAATAAAGCTCCTTTAAATAGAGGTTCAACAACTTTGAAAAATAAATAAGGCTT
66 TTTGAAAAATAAATAAAGCCCCTTCAAATAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTT
* * * * * *
4083293 CTTTAAATAAAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTCTAAACATAGGCTCAATGAC
1 ATCTAAATAAAGGCTCAACAACTTTGAAAAATAAATAAGGCTTCTCTAAACAAAAGCTCAACGAC
** **
4083358 TTTGAAAAATAAATAAAGCCCCTTCATGTAGAGGCTCAACAACTTTGCGAAATAAATAAGGCTT
66 TTTGAAAAATAAATAAAGCCCCTTCAAATAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTT
* * * * *
4083422 ATCTAAATAAGGGCTCAACAACTTTGCAAAATAAATAAGGCTTCTCTAAATAAAAGCTTAACGAT
1 ATCTAAATAAAGGCTCAACAACTTTGAAAAATAAATAAGGCTTCTCTAAACAAAAGCTCAACGAC
4083487 TTTGAAAAATAAATAAAGC
66 TTTGAAAAATAAATAAAGC
4083506 TTATTGACAA
Statistics
Matches: 184, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
129 184 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (129 bp):
ATCTAAATAAAGGCTCAACAACTTTGAAAAATAAATAAGGCTTCTCTAAACAAAAGCTCAACGAC
TTTGAAAAATAAATAAAGCCCCTTCAAATAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTT
Found at i:4093284 original size:21 final size:19
Alignment explanation
Indices: 4093254--4093308 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
4093244 AAACAAACAC
*
4093254 ATAAATAAATAACTAAATAAA
1 ATAAAAAAATAA-TAAA-AAA
4093275 ATAAAAAAATAATAAAAAA
1 ATAAAAAAATAATAAAAAA
*
4093294 ATAGAAAAAAAAATA
1 ATA-AAAAAATAATA
4093309 GAAACGGCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 6 0.19
20 14 0.45
21 11 0.35
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (19 bp):
ATAAAAAAATAATAAAAAA
Found at i:4093290 original size:11 final size:11
Alignment explanation
Indices: 4093274--4093308 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
4093264 AACTAAATAA
4093274 AATAAAAAAAT
1 AATAAAAAAAT
4093285 AATAAAAAAAT
1 AATAAAAAAAT
*
4093296 AGAAAAAAAAAT
1 A-ATAAAAAAAT
4093308 A
1 A
4093309 GAAACGGCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (11 bp):
AATAAAAAAAT
Found at i:4093922 original size:21 final size:21
Alignment explanation
Indices: 4093870--4093924 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
4093860 TCAAAATATT
*
4093870 TTTTTTGA-CTG-CTTTTTGC
1 TTTTTTGATCTGTCTTTTTGA
4093889 TTTTCTGTGATCTGTCTTTTTGA
1 TTTT-T-TGATCTGTCTTTTTGA
4093912 TTTTTTGATCTGT
1 TTTTTTGATCTGT
4093925 GTGATTTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 4 0.13
20 1 0.03
21 11 0.35
22 4 0.13
23 11 0.35
ACGTcount: A:0.07, C:0.13, G:0.16, T:0.64
Consensus pattern (21 bp):
TTTTTTGATCTGTCTTTTTGA
Found at i:4094039 original size:12 final size:12
Alignment explanation
Indices: 4094008--4094042 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
4093998 ATTCTTTTTT
4094008 AATTTTAACTTC
1 AATTTTAACTTC
*
4094020 AGATTTTAAGTTC
1 A-ATTTTAACTTC
4094033 AATTTTAACT
1 AATTTTAACT
4094043 CCTCACACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (12 bp):
AATTTTAACTTC
Found at i:4096927 original size:3 final size:3
Alignment explanation
Indices: 4096919--4096962 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
4096909 GTGAATGACA
4096919 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4096963 CATTTGTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4107319 original size:5 final size:6
Alignment explanation
Indices: 4107305--4107329 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4107295 AACCAAATGG
4107305 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
4107330 CTATAATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:4108167 original size:20 final size:21
Alignment explanation
Indices: 4108117--4108168 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
4108107 TGTTTAATAT
* *
4108117 ATTTTATTTATAGTATTTGTC
1 ATTTTATTTTTAGTATTTGTA
*
4108138 ATTTTA-TTTTAGT-TTTTTA
1 ATTTTATTTTTAGTATTTGTA
4108157 ATTTTATTTTTA
1 ATTTTATTTTTA
4108169 AAGTAATTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 10 0.37
20 11 0.41
21 6 0.22
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
ATTTTATTTTTAGTATTTGTA
Found at i:4108725 original size:6 final size:6
Alignment explanation
Indices: 4108716--4108806 Score: 58
Period size: 6 Copynumber: 15.2 Consensus size: 6
4108706 AAAGTAAAAA
** * * *
4108716 AATTTT AATTTT GGTTTT AATTTT AATTTT GATTTT AA-TTC GATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
* * * * ** *
4108763 AGTTTT AGTTTT AGTTTT GATTTT GGCTTTT AATTTT AGTTTT A
1 AATTTT AATTTT AATTTT AATTTT -AATTTT AATTTT AATTTT A
4108807 TTATTTTTAA
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
5 3 0.05
6 58 0.88
7 5 0.08
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:4108735 original size:12 final size:12
Alignment explanation
Indices: 4108718--4108806 Score: 81
Period size: 12 Copynumber: 7.4 Consensus size: 12
4108708 AGTAAAAAAA
*
4108718 TTTTAATTTTGG
1 TTTTAATTTTAG
*
4108730 TTTTAATTTTAA
1 TTTTAATTTTAG
*
4108742 TTTTGATTTTA-
1 TTTTAATTTTAG
* **
4108753 ATTCGATTTTAG
1 TTTTAATTTTAG
*
4108765 TTTTAGTTTTAG
1 TTTTAATTTTAG
* *
4108777 TTTTGATTTTGG
1 TTTTAATTTTAG
4108789 CTTTTAATTTTAG
1 -TTTTAATTTTAG
4108802 TTTTA
1 TTTTA
4108807 TTATTTTTAA
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
11 9 0.15
12 42 0.69
13 10 0.16
ACGTcount: A:0.20, C:0.02, G:0.12, T:0.65
Consensus pattern (12 bp):
TTTTAATTTTAG
Found at i:4108739 original size:18 final size:18
Alignment explanation
Indices: 4108716--4108806 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
4108706 AAAGTAAAAA
4108716 AATTTTAATTTTGGTTTT
1 AATTTTAATTTTGGTTTT
*
4108734 AATTTTAATTTTGATTTT
1 AATTTTAATTTTGGTTTT
** *
4108752 AA-TTCGATTTTAGTTTT
1 AATTTTAATTTTGGTTTT
* * *
4108769 AGTTTTAGTTTTGATTTT
1 AATTTTAATTTTGGTTTT
** *
4108787 GGCTTTTAATTTTAGTTTT
1 -AATTTTAATTTTGGTTTT
4108806 A
1 A
4108807 TTATTTTTAA
Statistics
Matches: 54, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
17 12 0.22
18 29 0.54
19 13 0.24
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.64
Consensus pattern (18 bp):
AATTTTAATTTTGGTTTT
Found at i:4109834 original size:6 final size:6
Alignment explanation
Indices: 4109825--4109886 Score: 61
Period size: 6 Copynumber: 9.7 Consensus size: 6
4109815 TTGGTTTCTC
* * *
4109825 TTTTTC TTTTTA TTTTTG TTTTTGT TTTTTA TTTTTA TTTTTA TTTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTT-A TTTTTA TTTTTA TTTTTA -TTTTTA
4109875 TATATTTA TTTT
1 T-T-TTTA TTTT
4109887 AAATGTAGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
6 30 0.62
7 13 0.27
8 5 0.10
ACGTcount: A:0.13, C:0.02, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:4109853 original size:19 final size:19
Alignment explanation
Indices: 4109831--4109886 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
4109821 TCTCTTTTTC
* *
4109831 TTTTTATTTTTGTTTTTGT
1 TTTTTATTTTTATTTTTAT
4109850 TTTTTATTTTTATTTTTAT
1 TTTTTATTTTTATTTTTAT
4109869 TTTTTATATATTTATTTT
1 TTTTTAT-T-TTTATTTT
4109887 AAATGTAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 24 0.73
20 1 0.03
21 8 0.24
ACGTcount: A:0.14, C:0.00, G:0.04, T:0.82
Consensus pattern (19 bp):
TTTTTATTTTTATTTTTAT
Found at i:4109884 original size:15 final size:13
Alignment explanation
Indices: 4109831--4109886 Score: 62
Period size: 13 Copynumber: 4.2 Consensus size: 13
4109821 TCTCTTTTTC
*
4109831 TTTTTATTTTTGT
1 TTTTTATTTTTAT
4109844 TTTTGT-TTTTTA-
1 TTTT-TATTTTTAT
4109856 TTTTTATTTTTAT
1 TTTTTATTTTTAT
4109869 TTTTTATATATTTAT
1 TTTTTAT-T-TTTAT
4109884 TTT
1 TTT
4109887 AAATGTAGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 1 0.03
12 10 0.27
13 16 0.43
14 2 0.05
15 8 0.22
ACGTcount: A:0.14, C:0.00, G:0.04, T:0.82
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:4110041 original size:28 final size:24
Alignment explanation
Indices: 4109966--4110026 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 24
4109956 TATATATTGC
4109966 ATGATTTTATA-TTAGTTGCATGAT
1 ATGATTTTATATTTA-TTGCATGAT
4109990 ATGATTTTATATTTATTGCATGAT
1 ATGATTTTATATTTATTGCATGAT
4110014 ATGA--TTATATTTA
1 ATGATTTTATATTTA
4110027 ATTTGATTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
22 9 0.25
24 24 0.67
25 3 0.08
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.52
Consensus pattern (24 bp):
ATGATTTTATATTTATTGCATGAT
Found at i:4110101 original size:26 final size:25
Alignment explanation
Indices: 4110061--4110109 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
4110051 ATTGCATGCT
*
4110061 TATTATATTTATTTGTGTGATTATA
1 TATTATATTTATTTGTATGATTATA
*
4110086 TATTATTTTATATTTGTATGATTA
1 TATTATATT-TATTTGTATGATTA
4110110 ATTAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (25 bp):
TATTATATTTATTTGTATGATTATA
Found at i:4110118 original size:26 final size:26
Alignment explanation
Indices: 4110070--4110119 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
4110060 TTATTATATT
* *
4110070 TATTTGTGTGATTATATATTATTTTA
1 TATTTGTATGATTATATAATATTTTA
4110096 TATTTGTATGATTA-ATTAATATTT
1 TATTTGTATGATTATA-TAATATTT
4110120 GCATGATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (26 bp):
TATTTGTATGATTATATAATATTTTA
Found at i:4110160 original size:15 final size:18
Alignment explanation
Indices: 4110089--4110152 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 18
4110079 GATTATATAT
*
4110089 TATTTTATATTTGTATGA
1 TATTTTATATTTGCATGA
* *
4110107 TTAATTAATATTTGCATGA
1 -TATTTTATATTTGCATGA
4110126 TATTTTATATTTTGCATGA
1 TATTTTATA-TTTGCATGA
4110145 TATTTTAT
1 TATTTTAT
4110153 TGCATGATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
18 7 0.18
19 32 0.82
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (18 bp):
TATTTTATATTTGCATGA
Found at i:4110167 original size:15 final size:15
Alignment explanation
Indices: 4110118--4110160 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 15
4110108 TAATTAATAT
4110118 TTGCATGATATTTTATA
1 TTGCATGATA-TTT-TA
4110135 TTTTGCATGATATTTTA
1 --TTGCATGATATTTTA
4110152 TTGCATGAT
1 TTGCATGAT
4110161 TTGTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.38
17 2 0.08
18 3 0.12
19 10 0.42
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.53
Consensus pattern (15 bp):
TTGCATGATATTTTA
Found at i:4110208 original size:31 final size:32
Alignment explanation
Indices: 4110149--4110222 Score: 114
Period size: 31 Copynumber: 2.3 Consensus size: 32
4110139 GCATGATATT
* *
4110149 TTATTGCATGATTTGTTATATGATATATTATA
1 TTATTGCATGATTTATTATATGAGATATTATA
*
4110181 TTATTGCATGA-TTATTGTATGAGATATTATA
1 TTATTGCATGATTTATTATATGAGATATTATA
4110212 TTATTGCATGA
1 TTATTGCATGA
4110223 CATTATTTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 28 0.72
32 11 0.28
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (32 bp):
TTATTGCATGATTTATTATATGAGATATTATA
Found at i:4110476 original size:19 final size:20
Alignment explanation
Indices: 4110440--4110485 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
4110430 TTTTGAAAAT
4110440 AAATTATTTTCACAAATAAA
1 AAATTATTTTCACAAATAAA
* *
4110460 AAATTTTTTTTAC-AATAAA
1 AAATTATTTTCACAAATAAA
4110479 ATAATTA
1 A-AATTA
4110486 AATGAATCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATTATTTTCACAAATAAA
Found at i:4115062 original size:17 final size:16
Alignment explanation
Indices: 4115038--4115076 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
4115028 AAAGATGTGC
* *
4115038 AAAAAAATGAAAATAA
1 AAAAAAATAAAAAGAA
4115054 AATAAAAATAAAAAGAA
1 AA-AAAAATAAAAAGAA
4115071 AAAAAA
1 AAAAAA
4115077 GAATTAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (16 bp):
AAAAAAATAAAAAGAA
Found at i:4116204 original size:22 final size:22
Alignment explanation
Indices: 4116179--4116260 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
4116169 TTTTTATTGC
*
4116179 GAATCTTTAAAATTTTGGATGT
1 GAATCTTTAAAATTTTGGATAT
* * * *
4116201 GAATCCTTAAATTTTTTGAATAA
1 GAATCTTTAAA-ATTTTGGATAT
*
4116224 AAATCTTT-AAATTTTGGATAT
1 GAATCTTTAAAATTTTGGATAT
* *
4116245 TAATCTCTAAAATTTT
1 GAATCTTTAAAATTTT
4116261 TCAATGAAAA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
21 14 0.30
22 19 0.41
23 13 0.28
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (22 bp):
GAATCTTTAAAATTTTGGATAT
Found at i:4116452 original size:18 final size:18
Alignment explanation
Indices: 4116429--4116481 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
4116419 TTGGAAGTTG
4116429 AAATTCTTGTGAATCTTT
1 AAATTCTTGTGAATCTTT
*
4116447 AAATTCTAGTGAAAATC-TT
1 AAATTCTTGTG--AATCTTT
* *
4116466 CAATTTTTGTGAATCT
1 AAATTCTTGTGAATCT
4116482 GAGTTTTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 10 0.36
20 4 0.14
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (18 bp):
AAATTCTTGTGAATCTTT
Found at i:4116682 original size:18 final size:18
Alignment explanation
Indices: 4116640--4116771 Score: 60
Period size: 17 Copynumber: 7.7 Consensus size: 18
4116630 TGAATTTCAG
* *
4116640 ATTCTTGCGAAT-TTGAA
1 ATTCTTGCAAATCTTAAA
* *
4116657 AGTCTTGCAAATCTTTAA
1 ATTCTTGCAAATCTTAAA
*
4116675 ATTCTTGCAAAAC-TAAA
1 ATTCTTGCAAATCTTAAA
** *
4116692 ATTCTTGTGAAT-TT-GA
1 ATTCTTGCAAATCTTAAA
* * **
4116708 ATTCTTACGAATCTT-CC
1 ATTCTTGCAAATCTTAAA
* *
4116725 ATTCATGCAAATCTAAAA
1 ATTCTTGCAAATCTTAAA
* * **
4116743 ATTCTTACGAA-CTTGGA
1 ATTCTTGCAAATCTTAAA
4116760 ATTCTTGCAAAT
1 ATTCTTGCAAAT
4116772 TTGAATTTTT
Statistics
Matches: 82, Mismatches: 28, Indels: 9
0.69 0.24 0.08
Matches are distributed among these distances:
16 11 0.13
17 48 0.59
18 23 0.28
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (18 bp):
ATTCTTGCAAATCTTAAA
Found at i:4116842 original size:35 final size:33
Alignment explanation
Indices: 4116730--4116842 Score: 100
Period size: 35 Copynumber: 3.3 Consensus size: 33
4116720 CTTCCATTCA
*
4116730 TGCAAATCTAAAAATTCTTACGAACTTGGAATTCT
1 TGCAAATCTAAAAATT-TTATGAACTTGGAATT-T
* * ** * *
4116765 TGCAAATTTGAATTTTTTATGAATCTTTGAAATT
1 TGCAAATCTAAAAATTTTATGAA-CTTGGAATTT
**
4116799 TGTGAATCTAAAAATCTTTATGAACTTGGAACTTT
1 TGCAAATCTAAAAAT-TTTATGAACTTGGAA-TTT
4116834 TGCAAATCT
1 TGCAAATCT
4116843 GTAACCTCTG
Statistics
Matches: 58, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
34 22 0.38
35 36 0.62
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (33 bp):
TGCAAATCTAAAAATTTTATGAACTTGGAATTT
Found at i:4117460 original size:18 final size:18
Alignment explanation
Indices: 4117425--4117483 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
4117415 AAAGCACAAA
4117425 AATTCTAATTTTGGTTTT
1 AATTCTAATTTTGGTTTT
*
4117443 AATTC-AATTTTAGTTTT
1 AATTCTAATTTTGGTTTT
* * *
4117460 TATTTTGATTTTTGGTTTTT
1 AATTCT-AATTTTGG-TTTT
4117480 AATT
1 AATT
4117484 TTAGTTTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
17 14 0.44
18 5 0.16
19 6 0.19
20 7 0.22
ACGTcount: A:0.22, C:0.03, G:0.10, T:0.64
Consensus pattern (18 bp):
AATTCTAATTTTGGTTTT
Found at i:4117491 original size:19 final size:19
Alignment explanation
Indices: 4117425--4117491 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
4117415 AAAGCACAAA
*
4117425 AATTCTAATTTTGG-TTTT
1 AATTTTAATTTTGGTTTTT
* *
4117443 AA-TTCAATTTTAGTTTTT
1 AATTTTAATTTTGGTTTTT
*
4117461 -ATTTTGATTTTTGGTTTTT
1 AATTTT-AATTTTGGTTTTT
*
4117480 AATTTTAGTTTT
1 AATTTTAATTTT
4117492 ATTATTTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
17 9 0.24
18 8 0.21
19 16 0.42
20 5 0.13
ACGTcount: A:0.21, C:0.03, G:0.10, T:0.66
Consensus pattern (19 bp):
AATTTTAATTTTGGTTTTT
Found at i:4118679 original size:24 final size:24
Alignment explanation
Indices: 4118651--4118696 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4118641 TATTGCATGA
*
4118651 TTTTATA-TTATTTGCGTGATATAG
1 TTTTATATTTA-TTGCATGATATAG
4118675 TTTTATATTTATTGCATGATAT
1 TTTTATATTTATTGCATGATAT
4118697 GATTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.26, C:0.04, G:0.13, T:0.57
Consensus pattern (24 bp):
TTTTATATTTATTGCATGATATAG
Found at i:4118725 original size:23 final size:21
Alignment explanation
Indices: 4118695--4118744 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
4118685 ATTGCATGAT
*
4118695 ATGATTATATTTAATTTGATTGC
1 ATGATTATA-TTAATAT-ATTGC
4118718 ATGA-T-TATTAATATATTGC
1 ATGATTATATTAATATATTGC
4118737 ATGATTAT
1 ATGATTAT
4118745 TATATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 9 0.38
20 7 0.29
21 3 0.12
22 1 0.04
23 4 0.17
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.50
Consensus pattern (21 bp):
ATGATTATATTAATATATTGC
Found at i:4118750 original size:16 final size:18
Alignment explanation
Indices: 4118713--4118749 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
4118703 ATTTAATTTG
4118713 ATTGCATGATTATTAATAT
1 ATTGCATGATTATT-ATAT
4118732 ATTGCATGATTATTATAT
1 ATTGCATGATTATTATAT
4118750 TTATTTGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (18 bp):
ATTGCATGATTATTATAT
Found at i:4118876 original size:26 final size:27
Alignment explanation
Indices: 4118841--4118904 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
4118831 ATATTTTGCT
* *
4118841 TGATATTTTATTGCATGATTTGTTGCA
1 TGATATTTTATTACATGATTTGCTGCA
4118868 T-ATATTTTATTACATGATTTGCTGCA
1 TGATATTTTATTACATGATTTGCTGCA
*
4118894 TGATATATTAT
1 TGATATTTTAT
4118905 ATTATTGCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 24 0.73
27 9 0.27
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.52
Consensus pattern (27 bp):
TGATATTTTATTACATGATTTGCTGCA
Found at i:4118926 original size:19 final size:20
Alignment explanation
Indices: 4118890--4118938 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
4118880 CATGATTTGC
* *
4118890 TGCATGATATATTATATTAT
1 TGCATGATATAGTATATTAA
4118910 TGCATGATAT-GTATATTAA
1 TGCATGATATAGTATATTAA
4118929 TGCATGATAT
1 TGCATGATAT
4118939 TATTTGCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (20 bp):
TGCATGATATAGTATATTAA
Found at i:4119178 original size:19 final size:19
Alignment explanation
Indices: 4119145--4119193 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
4119135 GATATTTCTA
4119145 AAAATAAATTATTTTCACAA-
1 AAAA-AAATTATTTTC-CAAC
* *
4119165 ATAAAAATTTTTTTCCAAC
1 AAAAAAATTATTTTCCAAC
4119184 AAAAAAATTA
1 AAAAAAATTA
4119194 AATGAATTCG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.12
19 18 0.75
20 3 0.12
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAAAATTATTTTCCAAC
Found at i:4119937 original size:35 final size:36
Alignment explanation
Indices: 4119891--4119969 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 36
4119881 AATTATTTCA
4119891 TTACTTGGAATGCTT-ATCTATCACCCTAAAATAAG
1 TTACTTGGAATGCTTAATCTATCACCCTAAAATAAG
* * *
4119926 TTACTTGGAATGTTTAACATCTATCGCCCTAAAGTAAG
1 TTACTTGGAATGCTT-A-ATCTATCACCCTAAAATAAG
*
4119964 TCACTT
1 TTACTT
4119970 TCTTGCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 14 0.38
38 23 0.62
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (36 bp):
TTACTTGGAATGCTTAATCTATCACCCTAAAATAAG
Found at i:4124160 original size:3 final size:3
Alignment explanation
Indices: 4124152--4124213 Score: 117
Period size: 3 Copynumber: 21.0 Consensus size: 3
4124142 ATCTTTTTGT
4124152 TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4124199 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
4124214 ACTTTATTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 56 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4125176 original size:113 final size:113
Alignment explanation
Indices: 4124969--4125196 Score: 339
Period size: 113 Copynumber: 2.0 Consensus size: 113
4124959 ACTGTATGGC
** *
4124969 AATCCCTAAAACTACAAGCTCTGTATCATAGTTGTAAAGATTATTGAGGATTATATTCTTGAAAC
1 AATCCCTAAAACTACAAGCTCTGTATCATAACTGTAAAGATTATTGAGGATCATATTCTTGAAAC
* * *
4125034 CCTTTCGCCATTATACAAGTAAACCTTAATAATGAATGAAACTCTGAA
66 CCTTTCACCATTATACAAGCAAACCTTAATAAAGAATGAAACTCTGAA
* * * *
4125082 AATCCCTAAAACTACAAGCTTTGTATTATAACTGTAAATATTCTTGAGGATCATATTCTTGAAAC
1 AATCCCTAAAACTACAAGCTCTGTATCATAACTGTAAAGATTATTGAGGATCATATTCTTGAAAC
* * *
4125147 TCTTTCACCATTATACAAGCAAACTTTAATAAAGAATGAAACTTTGAA
66 CCTTTCACCATTATACAAGCAAACCTTAATAAAGAATGAAACTCTGAA
4125195 AA
1 AA
4125197 CTCATGATCG
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
113 102 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.32
Consensus pattern (113 bp):
AATCCCTAAAACTACAAGCTCTGTATCATAACTGTAAAGATTATTGAGGATCATATTCTTGAAAC
CCTTTCACCATTATACAAGCAAACCTTAATAAAGAATGAAACTCTGAA
Found at i:4126719 original size:16 final size:15
Alignment explanation
Indices: 4126685--4126723 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4126675 TAAGCTCATC
**
4126685 TTTTTTTTTCTTTGG
1 TTTTTTTTTCTTTCA
4126700 TTTTTTTTTCTTCTCA
1 TTTTTTTTTCTT-TCA
4126716 TTTTTTTT
1 TTTTTTTT
4126724 AATAGCTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.03, C:0.10, G:0.05, T:0.82
Consensus pattern (15 bp):
TTTTTTTTTCTTTCA
Found at i:4127553 original size:4 final size:4
Alignment explanation
Indices: 4127544--4127590 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
4127534 TTCAAAAAAT
*
4127544 TTTG TTTG TTTG TTTG -TTG TTTTA TTTG TTTTG TTTG TTTG -TTG TTT
1 TTTG TTTG TTTG TTTG TTTG -TTTG TTTG -TTTG TTTG TTTG TTTG TTT
4127591 TTTATTTTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 6 0.16
4 25 0.68
5 6 0.16
ACGTcount: A:0.02, C:0.00, G:0.21, T:0.77
Consensus pattern (4 bp):
TTTG
Found at i:4127570 original size:25 final size:25
Alignment explanation
Indices: 4127544--4127591 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
4127534 TTCAAAAAAT
4127544 TTTG-TTTGTTTGTTTGTTGTTTTA
1 TTTGTTTTGTTTGTTTGTTGTTTTA
4127568 TTTGTTTTGTTTGTTTGTTGTTTT
1 TTTGTTTTGTTTGTTTGTTGTTTT
4127592 TTATTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.02, C:0.00, G:0.21, T:0.77
Consensus pattern (25 bp):
TTTGTTTTGTTTGTTTGTTGTTTTA
Found at i:4127855 original size:46 final size:46
Alignment explanation
Indices: 4127640--4127855 Score: 247
Period size: 46 Copynumber: 4.7 Consensus size: 46
4127630 AATTAAAAAA
** ** * *
4127640 AAAACTCCTTTT-AGCAAAGGCTTTACAACTTTTGAAAGTAAATTTA
1 AAAACT-CTTTTAAGCAAAGGCTCAATGACTTTTGAAAATAAATTTG
* *
4127686 AAAACTCATTTT-AGCAAAGGCTCAATGAATTCTGAAAATAAATTTG
1 AAAACTC-TTTTAAGCAAAGGCTCAATGACTTTTGAAAATAAATTTG
* *
4127732 AAAGCTCTTTTAAGTAAAGGCTCAATGACTTTTGAAAATAAATTTG
1 AAAACTCTTTTAAGCAAAGGCTCAATGACTTTTGAAAATAAATTTG
** * * **
4127778 AAAGTTTTTTTAAGCAAAAGCTCAACAACTTTTGAAAATAAATTTG
1 AAAACTCTTTTAAGCAAAGGCTCAATGACTTTTGAAAATAAATTTG
*
4127824 AAAACTCTTTTAAGTAAAGGCTCAATGACTTT
1 AAAACTCTTTTAAGCAAAGGCTCAATGACTTT
4127856 AAAAATCTCA
Statistics
Matches: 143, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
45 5 0.03
46 138 0.97
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (46 bp):
AAAACTCTTTTAAGCAAAGGCTCAATGACTTTTGAAAATAAATTTG
Found at i:4128408 original size:11 final size:10
Alignment explanation
Indices: 4128390--4128423 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
4128380 TATTAGATTT
4128390 TTTATTTTTC
1 TTTATTTTTC
4128400 TTTATTTTTC
1 TTTATTTTTC
4128410 ATTTATTTTTC
1 -TTTATTTTTC
4128421 TTT
1 TTT
4128424 TCATTTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTATTTTTC
Found at i:4129010 original size:91 final size:93
Alignment explanation
Indices: 4128914--4129105 Score: 203
Period size: 91 Copynumber: 2.1 Consensus size: 93
4128904 CATTTTTCAC
* ** *
4128914 TTTTTTTAACATATGAGCTACCTTTTTGAGTTTTCAACTCGAATAACTTTCTTATGA-TTGAAAT
1 TTTTTTTAACATATGAGCTACCCTTTCAAGTTTTCAACTCGAATAACCTTCTTATGACTT-AAAT
**
4128978 CATCTTTTTCGAGTTTTCAATTT-AGGT-T
65 CATCTTTTTAAAGTTTTCAATTTGA-GTCT
** * * * * * * *
4129006 TTTTTTT-TTATTTGAGTTGCCCTTTCAAGTTTTTAACTTGAATGACCTTCTTATGACTTAGATC
1 TTTTTTTAACATATGAGCTACCCTTTCAAGTTTTCAACTCGAATAACCTTCTTATGACTTAAATC
4129070 ATCTTTTTAAAGTTTTCAATTTGAGTCT
66 ATCTTTTTAAAGTTTTCAATTTGAGTCT
4129098 TTTTTTTA
1 TTTTTTTA
4129106 TTTGAGATGT
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
91 63 0.78
92 18 0.22
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (93 bp):
TTTTTTTAACATATGAGCTACCCTTTCAAGTTTTCAACTCGAATAACCTTCTTATGACTTAAATC
ATCTTTTTAAAGTTTTCAATTTGAGTCT
Found at i:4129153 original size:90 final size:91
Alignment explanation
Indices: 4128934--4129156 Score: 263
Period size: 90 Copynumber: 2.5 Consensus size: 91
4128924 ATATGAGCTA
* * * * **
4128934 CCTTTTTGAGTTTTCAACTCGAATAACTTTCTTATGA-TTGAAATCATCTTTTTCGAGTTTTCAA
1 CCTTTTAG-GTTTTCAACTTGAATAACCTTCTTATGACTT-AGATCATCTTTTTAAAGTTTTCAA
* *
4128998 TTTAGGTTTTTTTTTTTATTTGAGTTGC
64 TTTAGGTTCTTTTTTTTATTTGAGATGC
* * * *
4129026 CCTTTCAAGTTTTTAACTTGAATGACCTTCTTATGACTTAGATCATCTTTTTAAAGTTTTCAATT
1 CCTTTTAGGTTTTCAACTTGAATAACCTTCTTATGACTTAGATCATCTTTTTAAAGTTTTCAATT
*
4129091 T-GAG-TCTTTTTTTTATTTGAGATGT
66 TAG-GTTCTTTTTTTTATTTGAGATGC
* *
4129116 CCTTTTAGGTTTTCAACTTGGATAACCTTCTTGTGACTTAG
1 CCTTTTAGGTTTTCAACTTGAATAACCTTCTTATGACTTAG
4129157 GTTGCCATTT
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
90 54 0.49
91 49 0.45
92 7 0.06
ACGTcount: A:0.22, C:0.14, G:0.13, T:0.51
Consensus pattern (91 bp):
CCTTTTAGGTTTTCAACTTGAATAACCTTCTTATGACTTAGATCATCTTTTTAAAGTTTTCAATT
TAGGTTCTTTTTTTTATTTGAGATGC
Found at i:4131469 original size:177 final size:177
Alignment explanation
Indices: 4131167--4131521 Score: 464
Period size: 177 Copynumber: 2.0 Consensus size: 177
4131157 TTGAAAAGAT
* * * * *
4131167 CCAATGTTGACACTAGCCAAATCGTATAATAAAGCATGTATTGTTTGAGCCTTTGTGCAACCCAT
1 CCAATCTTGACACTAGCCAAATCGTATAATAAAGCAAGTATTGTTTGAACCTATGTGCAACCCAC
* * *
4131232 ACCAATGCATAACATATTTTTTTCTAGCTGAGAGTACTTAGTTTGTACTCAATAAATTTCTTGCT
66 ACCAATGCATAACATATTTTTTTCCAACTGAGAGTACTTAGTTTGTACTCAATAAATTTCTTGAT
* **
4131297 CAAATAATA-AATGACATGCTTTTTTTTACAAATTTCATCCTTTTGTC
131 CAAATAA-AGAAAGACATGCTCCTTTTTACAAATTTCATCCTTTTGTC
* * * * * * *
4131344 CCAATCTTGACACTAGCCAAGTTGTGTGATAGAGTAAGTATTGTTTGAACCTATGTGCAGCCCAC
1 CCAATCTTGACACTAGCCAAATCGTATAATAAAGCAAGTATTGTTTGAACCTATGTGCAACCCAC
* *
4131409 ACCAATGCATAA-TTCA-TTTTTTCCAACTGAGAGTACTTAGTTTTGTACTCAGTAAATTTCTTG
66 ACCAATGCATAACAT-ATTTTTTTCCAACTGAGAGTACTTAG-TTTGTACTCAATAAATTTCTTG
* *
4131472 ATCAAATAAAGAAAGGCATGCTCCTTTTTACCAATTTCATCCTTTTGTC
129 ATCAAATAAAGAAAGACATGCTCCTTTTTACAAATTTCATCCTTTTGTC
4131521 C
1 C
4131522 AAACACACAT
Statistics
Matches: 153, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
176 24 0.16
177 129 0.84
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (177 bp):
CCAATCTTGACACTAGCCAAATCGTATAATAAAGCAAGTATTGTTTGAACCTATGTGCAACCCAC
ACCAATGCATAACATATTTTTTTCCAACTGAGAGTACTTAGTTTGTACTCAATAAATTTCTTGAT
CAAATAAAGAAAGACATGCTCCTTTTTACAAATTTCATCCTTTTGTC
Found at i:4136088 original size:8 final size:8
Alignment explanation
Indices: 4136077--4136113 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
4136067 TTTTAATAAA
4136077 TATATATT
1 TATATATT
*
4136085 TATATAAT
1 TATATATT
4136093 TATATATT
1 TATATATT
*
4136101 TAAATATT
1 TATATATT
4136109 TATAT
1 TATAT
4136114 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATATATT
Found at i:4136091 original size:16 final size:15
Alignment explanation
Indices: 4136068--4136129 Score: 65
Period size: 14 Copynumber: 4.2 Consensus size: 15
4136058 AAATTAATTT
4136068 TTTAATAAATATATA
1 TTTAATAAATATATA
*
4136083 TTTATATAATTATATA
1 TTTA-ATAAATATATA
* *
4136099 TTTAA-ATATTTATA
1 TTTAATAAATATATA
*
4136113 TTTAAAAAATA-ATA
1 TTTAATAAATATATA
4136127 TTT
1 TTT
4136130 TATTAATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
14 17 0.44
15 8 0.21
16 14 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTAATAAATATATA
Found at i:4136112 original size:14 final size:16
Alignment explanation
Indices: 4136071--4136131 Score: 65
Period size: 16 Copynumber: 4.0 Consensus size: 16
4136061 TTAATTTTTT
*
4136071 AATAAATATATATTTA
1 AATAATTATATATTTA
*
4136087 TATAATTATATATTTA
1 AATAATTATATATTTA
4136103 AAT-ATT-TATATTTA
1 AATAATTATATATTTA
* *
4136117 AAAAATAATAT-TTTA
1 AATAATTATATATTTA
4136132 TTAATTTTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
14 10 0.26
15 9 0.24
16 19 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATAATTATATATTTA
Found at i:4141633 original size:15 final size:15
Alignment explanation
Indices: 4141613--4141643 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4141603 TTCAAGTTTC
4141613 ACTTGACAATGATTA
1 ACTTGACAATGATTA
4141628 ACTTGACAATGATTA
1 ACTTGACAATGATTA
4141643 A
1 A
4141644 ACTGAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (15 bp):
ACTTGACAATGATTA
Found at i:4143038 original size:28 final size:28
Alignment explanation
Indices: 4142983--4143038 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
4142973 AAAAAGTATC
*
4142983 ATCTAACAATTTTGAGATTTAAACCTTA
1 ATCTAACAATTTTGAGATTCAAACCTTA
* *
4143011 ATCTAACAATTTTGATATTCAAATCTTA
1 ATCTAACAATTTTGAGATTCAAACCTTA
4143039 TTAATTGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.41
Consensus pattern (28 bp):
ATCTAACAATTTTGAGATTCAAACCTTA
Found at i:4143191 original size:2 final size:2
Alignment explanation
Indices: 4143184--4143219 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4143174 CCCCACCTCC
4143184 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4143220 GGTCCTCCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4144802 original size:2 final size:2
Alignment explanation
Indices: 4144795--4144828 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4144785 AATTATTTGA
*
4144795 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4144829 TTTGGGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4145152 original size:17 final size:18
Alignment explanation
Indices: 4145114--4145153 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
4145104 GCATTTAATT
4145114 GTATATAAACAATATTAA
1 GTATATAAACAATATTAA
4145132 -TATATATAA-AATA-TAA
1 GTATATA-AACAATATTAA
4145148 GTATAT
1 GTATAT
4145154 GCTTAACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.15
17 15 0.75
18 2 0.10
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (18 bp):
GTATATAAACAATATTAA
Found at i:4146599 original size:69 final size:70
Alignment explanation
Indices: 4146516--4146651 Score: 188
Period size: 69 Copynumber: 2.0 Consensus size: 70
4146506 TTGAAATGAC
* *
4146516 TTAAAGATAATGTTGTTTGAGATTTGTTTG-ATAAATAATGGTTGGAA-TGAGATTTTTTTCCCA
1 TTAAAGATAATGTTGTTTGAGATTGGTTTGTATAAATAACGGTTGGAATTG-GA-TTTTTTCCCA
4146579 AATTACT
64 AATTACT
* * *
4146586 TTAAAG-TAGTGTTGTTTTAGATTGGTTTGTATAGATAACGGTTGGAATTGGATTTTTTCCCAAA
1 TTAAAGATAATGTTGTTTGAGATTGGTTTGTATAAATAACGGTTGGAATTGGATTTTTTCCCAAA
4146650 TT
66 TT
4146652 GCTTGCTAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
69 34 0.58
70 23 0.39
71 2 0.03
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.45
Consensus pattern (70 bp):
TTAAAGATAATGTTGTTTGAGATTGGTTTGTATAAATAACGGTTGGAATTGGATTTTTTCCCAAA
TTACT
Found at i:4147232 original size:13 final size:12
Alignment explanation
Indices: 4147194--4147238 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
4147184 GTTGAATTTA
4147194 TTTTTATTTAAT
1 TTTTTATTTAAT
**
4147206 CATTTATTTAAT
1 TTTTTATTTAAT
4147218 TTTTTATTCTAA-
1 TTTTTATT-TAAT
4147230 TTTTTATTT
1 TTTTTATTT
4147239 TGGCTGCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 1 0.04
12 24 0.86
13 3 0.11
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTTATTTAAT
Found at i:4147850 original size:20 final size:20
Alignment explanation
Indices: 4147821--4147860 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4147811 TTATATCCTT
* *
4147821 AATCTGACAATATAAGTATA
1 AATCTAACAATATAAATATA
4147841 AATCTAACAATATAAATATA
1 AATCTAACAATATAAATATA
4147861 CATAAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (20 bp):
AATCTAACAATATAAATATA
Found at i:4147869 original size:20 final size:20
Alignment explanation
Indices: 4147827--4147870 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
4147817 CCTTAATCTG
* **
4147827 ACAATATAAGTATAAATCTA
1 ACAATATAAATATAAATAAA
*
4147847 ACAATATAAATATACATAAA
1 ACAATATAAATATAAATAAA
4147867 ACAA
1 ACAA
4147871 GTAAATATGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.25
Consensus pattern (20 bp):
ACAATATAAATATAAATAAA
Found at i:4148199 original size:21 final size:21
Alignment explanation
Indices: 4148173--4148224 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
4148163 TAATTATTTA
4148173 ATATTTATTACATTTA-TCTAT
1 ATATTTATT-CATTTACTCTAT
4148194 ATATTTATCTCATTTACTCTAT
1 ATATTTAT-TCATTTACTCTAT
* *
4148216 TTATCTATT
1 ATATTTATT
4148225 TATTCTTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (21 bp):
ATATTTATTCATTTACTCTAT
Found at i:4148284 original size:15 final size:14
Alignment explanation
Indices: 4148244--4148287 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
4148234 CCTTATCTAC
*
4148244 TTTTTATTTAGTT-
1 TTTTTATTTATTTG
*
4148257 ATTTTATTTATTTG
1 TTTTTATTTATTTG
4148271 TTTTTATCTTATTTG
1 TTTTTAT-TTATTTG
4148286 TT
1 TT
4148288 GATTATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 11 0.42
14 6 0.23
15 9 0.35
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (14 bp):
TTTTTATTTATTTG
Found at i:4149276 original size:4 final size:4
Alignment explanation
Indices: 4149269--4149302 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
4149259 TTTTTTAGTA
4149269 TTAT TTAT TTAT TTAT TT-T ATTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT -TTAT TTAT TTAT TT
4149303 TTCAAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 1 0.04
4 26 0.93
5 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:4149294 original size:16 final size:16
Alignment explanation
Indices: 4149273--4149303 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4149263 TTAGTATTAT
4149273 TTATTTATTTATTTTA
1 TTATTTATTTATTTTA
4149289 TTATTTATTTATTTT
1 TTATTTATTTATTTT
4149304 TCAAATATTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTATTTATTTATTTTA
Found at i:4154771 original size:13 final size:15
Alignment explanation
Indices: 4154749--4154786 Score: 62
Period size: 13 Copynumber: 2.7 Consensus size: 15
4154739 TCATAAAAAT
4154749 AAAGAAAAAAGA-GA
1 AAAGAAAAAAGAGGA
4154763 AAA-AAAAAAGAGGA
1 AAAGAAAAAAGAGGA
4154777 AAAGAAAAAA
1 AAAGAAAAAA
4154787 AAATTAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.36
14 8 0.36
15 6 0.27
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAGAGGA
Found at i:4154772 original size:20 final size:20
Alignment explanation
Indices: 4154743--4154789 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4154733 GAATAATCAT
*
4154743 AAAAATAAAGA-AAAAAGAGA
1 AAAAAAAAAGAGAAAAAGA-A
*
4154763 AAAAAAAAAGAGGAAAAGAA
1 AAAAAAAAAGAGAAAAAGAA
4154783 AAAAAAA
1 AAAAAAA
4154790 TTAAGGCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAGAGAAAAAGAA
Found at i:4155551 original size:14 final size:14
Alignment explanation
Indices: 4155528--4155559 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4155518 TACTTATTTT
4155528 TAAT-TAAAAATAA
1 TAATATAAAAATAA
4155541 TAATATAAAAATAA
1 TAATATAAAAATAA
4155555 TAATA
1 TAATA
4155560 AAAGAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAATATAAAAATAA
Found at i:4156552 original size:3 final size:3
Alignment explanation
Indices: 4156544--4156576 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4156534 TTTGTTTCCT
4156544 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4156577 GAAAAAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4163547 original size:83 final size:83
Alignment explanation
Indices: 4163405--4163563 Score: 203
Period size: 83 Copynumber: 1.9 Consensus size: 83
4163395 TTAAATATCG
* ** * * **
4163405 AGATTTGTAAGACCTCCAGGCATAGTCGTTAAGTCCTCTAAGTAAGATTTGGAAGTCTTTCAAGC
1 AGATTTATAAGACCTCCAAACATAATCGTTAAGCCCTCTAAGTAAGATTCAGAAGTCTTTCAAGC
*
4163470 AGAATCTGTTTAGTGTTA
66 AGAATATGTTTAGTGTTA
* *
4163488 AGATTTATAAGACCTCCAAACATAATC-TCTAAGCCCTCTAAGTAAGATTCATAATTCTTTCAAG
1 AGATTTATAAGACCTCCAAACATAATCGT-TAAGCCCTCTAAGTAAGATTCAGAAGTCTTTCAAG
*
4163552 TAGAATATGTTT
65 CAGAATATGTTT
4163564 TAATTTCGAG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
82 1 0.02
83 63 0.98
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (83 bp):
AGATTTATAAGACCTCCAAACATAATCGTTAAGCCCTCTAAGTAAGATTCAGAAGTCTTTCAAGC
AGAATATGTTTAGTGTTA
Found at i:4163826 original size:49 final size:48
Alignment explanation
Indices: 4163742--4163845 Score: 129
Period size: 49 Copynumber: 2.1 Consensus size: 48
4163732 ATATAAGAAT
** *
4163742 ATTTTAATTTATTTTAAAAGTTATGGGGCCATTGATGAGAGGACTTTTC
1 ATTTTAATTTATTTTAAAAGTTATGGACCCATTGATGA-AAGACTTTTC
* *
4163791 ATTTTAA-TTATTTTCAAAAGTTATGGACCCTTTGATGAAAGAGTTTTC
1 ATTTTAATTTATTTT-AAAAGTTATGGACCCATTGATGAAAGACTTTTC
*
4163839 AATTTAA
1 ATTTTAA
4163846 ATTTTTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 21 0.44
49 27 0.56
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (48 bp):
ATTTTAATTTATTTTAAAAGTTATGGACCCATTGATGAAAGACTTTTC
Found at i:4164889 original size:9 final size:10
Alignment explanation
Indices: 4164848--4164889 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
4164838 AAGCAACACT
4164848 AAAAAGCCATA
1 AAAAAG-CATA
4164859 AAAAA--ATA
1 AAAAAGCATA
4164867 AAAAAGCATA
1 AAAAAGCATA
*
4164877 AAAAAGCAGA
1 AAAAAGCATA
4164887 AAA
1 AAA
4164890 GGAAAAAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
8 8 0.29
10 15 0.54
11 5 0.18
ACGTcount: A:0.74, C:0.10, G:0.10, T:0.07
Consensus pattern (10 bp):
AAAAAGCATA
Found at i:4165885 original size:17 final size:17
Alignment explanation
Indices: 4165856--4165892 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4165846 TACATATTTT
4165856 TAATTAAATAATAATAA
1 TAATTAAATAATAATAA
4165873 TAATATAAA-AATAATAA
1 TAAT-TAAATAATAATAA
4165890 TAA
1 TAA
4165893 AAGAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAATTAAATAATAATAA
Found at i:4165899 original size:17 final size:17
Alignment explanation
Indices: 4165865--4165899 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4165855 TTAATTAAAT
* *
4165865 AATAATAATAATATAAA
1 AATAATAATAAAAGAAA
4165882 AATAATAATAAAAGAAA
1 AATAATAATAAAAGAAA
4165899 A
1 A
4165900 TTTTTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
AATAATAATAAAAGAAA
Found at i:4165918 original size:11 final size:11
Alignment explanation
Indices: 4165861--4165925 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 11
4165851 ATTTTTAATT
4165861 AAATAATAATAA
1 AAATAATAA-AA
*
4165873 TAAT-ATAAAA
1 AAATAATAAAA
4165883 ATAATAATAAAAGA
1 A-AATAAT-AAA-A
**
4165897 AAATTTTTAAAA
1 AAA-TAATAAAA
4165909 AAATAATAAAA
1 AAATAATAAAA
4165920 AAATAA
1 AAATAA
4165926 ATAGTAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
10 2 0.05
11 19 0.45
12 9 0.21
13 8 0.19
14 4 0.10
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (11 bp):
AAATAATAAAA
Found at i:4165944 original size:12 final size:12
Alignment explanation
Indices: 4165919--4165950 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4165909 AAATAATAAA
4165919 AAAATAAATAGT
1 AAAATAAATAGT
*
4165931 AAAATAAATGGT
1 AAAATAAATAGT
4165943 AAAATAAA
1 AAAATAAA
4165951 AAAATTAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (12 bp):
AAAATAAATAGT
Found at i:4166326 original size:21 final size:21
Alignment explanation
Indices: 4166287--4166326 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4166277 ATAAAGTGGA
*
4166287 AAAATAAAAAAATGAAAAATG
1 AAAATAAAAAAAGGAAAAATG
*
4166308 AAAATAAAAAAAGGCAAAA
1 AAAATAAAAAAAGGAAAAA
4166327 CTGTGATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.10
Consensus pattern (21 bp):
AAAATAAAAAAAGGAAAAATG
Found at i:4167406 original size:131 final size:132
Alignment explanation
Indices: 4167216--4167468 Score: 384
Period size: 131 Copynumber: 1.9 Consensus size: 132
4167206 ATCATGTTTG
* * *
4167216 AGGATCTTTGAGATTACGTCTTGAGGTCTTACTAATCATTCATAACTTTGACAATTGCTCATTTA
1 AGGATCTTTGAGATTACGTCTGGAGGTCTTACTAATCATTCATAACTTTGAAAAATGCTCATTTA
* * *
4167281 AAACAAAGGCCCCACAACTTTAAATTTTGAAAAGGGTACCCAAAGGTTTTAAAAGATTATTGCCC
66 AAACAAAGGCCCCACAACTTTAAAATTTAAAAAAGGTACCCAAAGGTTTTAAAAGATTATTGCCC
4167346 AT
131 AT
*
4167348 AGGA-CTTTGAGATTATG-CTCGGAGGTCTTACTAATCATTCATAACTTTGAAAAATGCTCATTT
1 AGGATCTTTGAGATTACGTCT-GGAGGTCTTACTAATCATTCATAACTTTGAAAAATGCTCATTT
* * * *
4167411 AAAACAAAGGCTCCATAACTTTAAAATTTAAAAAAGGTTCCCATAGGTTTTAAAAGAT
65 AAAACAAAGGCCCCACAACTTTAAAATTTAAAAAAGGTACCCAAAGGTTTTAAAAGAT
4167469 CATATTCGAA
Statistics
Matches: 109, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
130 2 0.02
131 103 0.94
132 4 0.04
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (132 bp):
AGGATCTTTGAGATTACGTCTGGAGGTCTTACTAATCATTCATAACTTTGAAAAATGCTCATTTA
AAACAAAGGCCCCACAACTTTAAAATTTAAAAAAGGTACCCAAAGGTTTTAAAAGATTATTGCCC
AT
Found at i:4167559 original size:77 final size:76
Alignment explanation
Indices: 4167466--4167618 Score: 243
Period size: 77 Copynumber: 2.0 Consensus size: 76
4167456 GGTTTTAAAA
* * *
4167466 GATCATATTCGAAAGTCTTATAGATCATACATAAAAGACTTTTGAGATTATGCCCAGAGGTCTTA
1 GATCATATTCGAAAGTCTTATAAATCATACATAAAAAAC-TTTGAGATTATACCCAGAGGTCTTA
4167531 CAAATTATTTTT
65 CAAATTATTTTT
* *
4167543 GATCATATTCGAAAGTCTTATAAATCATGCATAAAAAACTTTGAGATTATACCTAGAGGTCTTAC
1 GATCATATTCGAAAGTCTTATAAATCATACATAAAAAACTTTGAGATTATACCCAGAGGTCTTAC
*
4167608 AAATTGTTTTT
66 AAATTATTTTT
4167619 ATCTTGTGCC
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
76 34 0.49
77 36 0.51
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (76 bp):
GATCATATTCGAAAGTCTTATAAATCATACATAAAAAACTTTGAGATTATACCCAGAGGTCTTAC
AAATTATTTTT
Found at i:4167815 original size:21 final size:20
Alignment explanation
Indices: 4167765--4167815 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
4167755 TTTGGAGGAC
4167765 TTTGAAAAGAGTATTTGAAAG
1 TTTG-AAAGAGTATTTGAAAG
*
4167786 TCTTG-AAGATGTATTTGAAGG
1 T-TTGAAAGA-GTATTTGAAAG
4167807 TTTGAAAGA
1 TTTGAAAGA
4167816 AATATGTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 7 0.27
21 16 0.62
22 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.35
Consensus pattern (20 bp):
TTTGAAAGAGTATTTGAAAG
Found at i:4168050 original size:11 final size:12
Alignment explanation
Indices: 4168022--4168052 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
4168012 TCTTAAAATG
4168022 TTTTTTTCTCTT
1 TTTTTTTCTCTT
4168034 TTTTTTTCT-TT
1 TTTTTTTCTCTT
4168045 TTTTTTTC
1 TTTTTTTC
4168053 AACAAAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTTCTCTT
Found at i:4171974 original size:1 final size:1
Alignment explanation
Indices: 4171968--4171992 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4171958 ATTCAAAGTT
4171968 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
4171993 CCAACTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4172328 original size:14 final size:16
Alignment explanation
Indices: 4172304--4172335 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
4172294 GCCTTCCTTT
4172304 AAAATCAAATTAT-CC
1 AAAATCAAATTATACC
4172319 AAAA-CAAATTATACC
1 AAAATCAAATTATACC
4172334 AA
1 AA
4172336 TTCGATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAATCAAATTATACC
Found at i:4172668 original size:16 final size:16
Alignment explanation
Indices: 4172647--4172692 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
4172637 AAATTAATAC
*
4172647 AATATTATTATTTTTA
1 AATATTATTATTTTAA
4172663 AATATTA--ATTTTAA
1 AATATTATTATTTTAA
4172677 AATATTATTATTTTAA
1 AATATTATTATTTTAA
4172693 TATTTTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 13 0.48
16 14 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATATTATTATTTTAA
Found at i:4172673 original size:14 final size:13
Alignment explanation
Indices: 4172652--4172696 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
4172642 AATACAATAT
4172652 TATTATTTTTAAA
1 TATTATTTTTAAA
*
4172665 TATTAATTTTAAAA
1 TATT-ATTTTTAAA
*
4172679 TATTATTATTTTAA
1 TATTATT-TTTAAA
4172693 TATT
1 TATT
4172697 TTAATAGTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 7 0.26
14 20 0.74
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATTTTTAAA
Found at i:4173112 original size:31 final size:31
Alignment explanation
Indices: 4173077--4173137 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
4173067 ATCGTTGGAG
4173077 TAGGAAGAAAACATGTGTTCCTCCTGAGATA
1 TAGGAAGAAAACATGTGTTCCTCCTGAGATA
4173108 TAGGAAGAAAACATGTGTTCCTCCTGAGAT
1 TAGGAAGAAAACATGTGTTCCTCCTGAGAT
4173138 CATAAGCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (31 bp):
TAGGAAGAAAACATGTGTTCCTCCTGAGATA
Found at i:4173438 original size:29 final size:29
Alignment explanation
Indices: 4173377--4173440 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
4173367 ATTTAAGCGC
* *
4173377 TTAATATTTTATTACAATCAATCAAACTC
1 TTAATTTTTTATTACAATCAATCAAACTA
* *
4173406 TTAATTTTTTATTTCAACTCAATTAAA-TA
1 TTAATTTTTTATTACAA-TCAATCAAACTA
4173435 TTAATT
1 TTAATT
4173441 AGATAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (29 bp):
TTAATTTTTTATTACAATCAATCAAACTA
Found at i:4174244 original size:39 final size:39
Alignment explanation
Indices: 4174200--4174280 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
4174190 ACCATGGGCT
* *
4174200 ACTTCATCATATCACCATCACACATCACACAAGTCCCGG
1 ACTTCATCATATCACCATCAAACAGCACACAAGTCCCGG
*
4174239 ACTTCATCATATCACCATCAAACAGCACACAAGTCCTGG
1 ACTTCATCATATCACCATCAAACAGCACACAAGTCCCGG
4174278 ACT
1 ACT
4174281 CTTAACCATG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.35, C:0.36, G:0.09, T:0.21
Consensus pattern (39 bp):
ACTTCATCATATCACCATCAAACAGCACACAAGTCCCGG
Found at i:4177558 original size:24 final size:24
Alignment explanation
Indices: 4177526--4177595 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
4177516 TTGGTTTCCT
4177526 GGTGAGGTCTATAGTCTGCAAAGA
1 GGTGAGGTCTATAGTCTGCAAAGA
4177550 GGTGAGGTCTATAGTCTGCAAAGA
1 GGTGAGGTCTATAGTCTGCAAAGA
* * *
4177574 GGTGATGTCTATCGTTTGCAAA
1 GGTGAGGTCTATAGTCTGCAAA
4177596 CCTCAAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (24 bp):
GGTGAGGTCTATAGTCTGCAAAGA
Done.