Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 56 of 91
Found at i:9313616 original size:16 final size:16
Alignment explanation
Indices: 9313585--9313617 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9313575 TAATATCTTT
9313585 ATTAATATAAATATAA
1 ATTAATATAAATATAA
9313601 ATTAA-ATAAATAATAA
1 ATTAATATAAAT-ATAA
9313617 A
1 A
9313618 AATATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTAATATAAATATAA
Found at i:9314250 original size:33 final size:34
Alignment explanation
Indices: 9314178--9314251 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
9314168 ATAAAAAGTA
*
9314178 AAAATAAAACAATATTTTAAAAAAGAAAATAAAG
1 AAAATAAAACAATATTTTAAAAAAGAAAACAAAG
9314212 AAAATAAAAGCAA-ATGTTT-AAAAA-AAAACAAAG
1 AAAATAAAA-CAATAT-TTTAAAAAAGAAAACAAAG
9314245 AAAATAA
1 AAAATAA
9314252 GAAAAATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
33 15 0.41
34 16 0.43
35 6 0.16
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.18
Consensus pattern (34 bp):
AAAATAAAACAATATTTTAAAAAAGAAAACAAAG
Found at i:9315104 original size:15 final size:15
Alignment explanation
Indices: 9315077--9315114 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
9315067 TTAAAATAAA
*
9315077 CAAA-AATTCTCATG
1 CAAATAATTATCATG
9315091 CAAATAATTATCATG
1 CAAATAATTATCATG
9315106 CAAGATAAT
1 CAA-ATAAT
9315115 ATAATATGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 12 0.57
16 5 0.24
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (15 bp):
CAAATAATTATCATG
Found at i:9315962 original size:17 final size:18
Alignment explanation
Indices: 9315940--9315973 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9315930 CTTATAATCC
9315940 TTAAAAAAA-AAACCTAA
1 TTAAAAAAATAAACCTAA
9315957 TTAAAAAAATAAACCTA
1 TTAAAAAAATAAACCTA
9315974 GAAAACCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.21
Consensus pattern (18 bp):
TTAAAAAAATAAACCTAA
Found at i:9316247 original size:15 final size:15
Alignment explanation
Indices: 9316201--9316247 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
9316191 TCTCCAATCC
9316201 TTTTTTTTTA-TTTT
1 TTTTTTTTTACTTTT
* **
9316215 CTTCTTTTTTACCCTT
1 -TTTTTTTTTACTTTT
9316231 TTTTTTTTTACTTTT
1 TTTTTTTTTACTTTT
9316246 TT
1 TT
9316248 GGGGACTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 23 0.92
16 2 0.08
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTTTTACTTTT
Found at i:9316314 original size:10 final size:11
Alignment explanation
Indices: 9316282--9316338 Score: 53
Period size: 12 Copynumber: 5.1 Consensus size: 11
9316272 TTTTTTAGAA
*
9316282 TAAAGTAAAAT
1 TAAATTAAAAT
*
9316293 TAAATAAAAAAT
1 TAAAT-TAAAAT
*
9316305 TAAA-TCAAAT
1 TAAATTAAAAT
*
9316315 CAAATTAAAAT
1 TAAATTAAAAT
9316326 TAAAATTAAAAT
1 T-AAATTAAAAT
9316338 T
1 T
9316339 TTTCCTATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
10 7 0.19
11 9 0.25
12 20 0.56
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (11 bp):
TAAATTAAAAT
Found at i:9316651 original size:16 final size:16
Alignment explanation
Indices: 9316614--9316658 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
9316604 AACAAATTTT
9316614 ATTTAATAAAAAAGTAA
1 ATTTAATAAAAAA-TAA
9316631 A---AATAAAAAATAA
1 ATTTAATAAAAAATAA
9316644 ATTTAATAAAAAATA
1 ATTTAATAAAAAATA
9316659 GATTATAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.16
14 9 0.36
16 11 0.44
17 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
ATTTAATAAAAAATAA
Found at i:9320099 original size:31 final size:33
Alignment explanation
Indices: 9320064--9320130 Score: 95
Period size: 31 Copynumber: 2.1 Consensus size: 33
9320054 TCTTTAGTAC
*
9320064 AAAATTTATCT-AATAAAA-AACAAAAA-TAAAA
1 AAAATTT-TCTAAAAAAAACAACAAAAAGTAAAA
9320095 AAAATTTTCTAAAAAAAACAACAAAAAGTAAAA
1 AAAATTTTCTAAAAAAAACAACAAAAAGTAAAA
9320128 AAA
1 AAA
9320131 GCAAAAGCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 3 0.09
31 13 0.41
32 8 0.25
33 8 0.25
ACGTcount: A:0.72, C:0.07, G:0.01, T:0.19
Consensus pattern (33 bp):
AAAATTTTCTAAAAAAAACAACAAAAAGTAAAA
Found at i:9320135 original size:16 final size:15
Alignment explanation
Indices: 9320118--9320161 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
9320108 AAAAACAACA
9320118 AAAAGTAAAAAAAGC
1 AAAAGTAAAAAAAGC
9320133 AAAAGCTTAAAAAAAG-
1 AAAAG--TAAAAAAAGC
*
9320149 AAAATTAAAAAAA
1 AAAAGTAAAAAAA
9320162 AGGAGATGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 4 0.15
17 9 0.35
ACGTcount: A:0.75, C:0.05, G:0.09, T:0.11
Consensus pattern (15 bp):
AAAAGTAAAAAAAGC
Found at i:9320143 original size:17 final size:14
Alignment explanation
Indices: 9320118--9320161 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
9320108 AAAAACAACA
*
9320118 AAAAGTAAAAAAAG
1 AAAATTAAAAAAAG
9320132 CAAAAGCTTAAAAAAAG
1 -AAAA--TTAAAAAAAG
9320149 AAAATTAAAAAAA
1 AAAATTAAAAAAA
9320162 AGGAGATGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 9 0.35
15 4 0.15
16 4 0.15
17 9 0.35
ACGTcount: A:0.75, C:0.05, G:0.09, T:0.11
Consensus pattern (14 bp):
AAAATTAAAAAAAG
Found at i:9323722 original size:19 final size:20
Alignment explanation
Indices: 9323686--9323725 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9323676 TTTTTTTCAA
9323686 AAAAAATTTCAAGTTCAAAT
1 AAAAAATTTCAAGTTCAAAT
9323706 AAAAAATTATC-AG-TCAAAT
1 AAAAAATT-TCAAGTTCAAAT
9323725 A
1 A
9323726 TTCATCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 10 0.53
21 2 0.11
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAAAATTTCAAGTTCAAAT
Found at i:9324792 original size:73 final size:71
Alignment explanation
Indices: 9324708--9324853 Score: 238
Period size: 73 Copynumber: 2.0 Consensus size: 71
9324698 AACATAAAAA
* * *
9324708 CCATTCCTTTGTTTGGATAAATTTTTAATTTAAAGGAAAGAAAAAAGATGAAAACTTAATAACCT
1 CCATTCCTTTGTTTGGACAAATTTTTAATTTAAA-GAAA-AAAAAAGATGAAAACTCAATAACAT
9324773 TTGGTTTC
64 TTGGTTTC
*
9324781 CCATTCCTTTGTTTGGACAAATTTTTAATTTAAAGAAAAAAAAAGGTGAAAACTCAATAACATTT
1 CCATTCCTTTGTTTGGACAAATTTTTAATTTAAAGAAAAAAAAAGATGAAAACTCAATAACATTT
9324846 GGTTTC
66 GGTTTC
9324852 CC
1 CC
9324854 TTATAATCAT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 32 0.46
72 4 0.06
73 33 0.48
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (71 bp):
CCATTCCTTTGTTTGGACAAATTTTTAATTTAAAGAAAAAAAAAGATGAAAACTCAATAACATTT
GGTTTC
Found at i:9329819 original size:12 final size:12
Alignment explanation
Indices: 9329802--9329826 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9329792 AATTGATAGT
9329802 TTCATGGGGCAA
1 TTCATGGGGCAA
9329814 TTCATGGGGCAA
1 TTCATGGGGCAA
9329826 T
1 T
9329827 ACTAGTCTAT
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:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (12 bp):
TTCATGGGGCAA
Found at i:9331041 original size:15 final size:15
Alignment explanation
Indices: 9331018--9331047 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9331008 TTTATCAGAT
9331018 AAATATAAAAGTAAA
1 AAATATAAAAGTAAA
*
9331033 AAATTTAAAAGTAAA
1 AAATATAAAAGTAAA
9331048 TTAAATTTTT
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:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
AAATATAAAAGTAAA
Found at i:9333279 original size:2 final size:2
Alignment explanation
Indices: 9333274--9333310 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
9333264 AACGAAATCA
* *
9333274 AT AT AT AT AT AT AT AT AC AT AT AT AC AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9333311 ACAAATTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:9336766 original size:2 final size:2
Alignment explanation
Indices: 9336759--9336797 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9336749 ATGAGGGGAA
9336759 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9336798 AGCAGGGAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9337824 original size:19 final size:19
Alignment explanation
Indices: 9337800--9337839 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9337790 TTTCATTCGT
*
9337800 AAAATTTTAAATTTAAAAA
1 AAAATTATAAATTTAAAAA
* *
9337819 AAAATTATGATTTTAAAAA
1 AAAATTATAAATTTAAAAA
9337838 AA
1 AA
9337840 GTATACTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
AAAATTATAAATTTAAAAA
Found at i:9338255 original size:27 final size:27
Alignment explanation
Indices: 9338225--9338305 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
9338215 TTTTCTGTAC
* * *
9338225 AAAAATATTTTAAATAATTTTTTTATA
1 AAAAAAATCTTAAATAATTTATTTATA
*
9338252 AAAAAAATCTAAAATAATTTATTTATA
1 AAAAAAATCTTAAATAATTTATTTATA
9338279 AAAAAAATCTTAAATAATTTATTTATA
1 AAAAAAATCTTAAATAATTTATTTATA
9338306 TTTATAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (27 bp):
AAAAAAATCTTAAATAATTTATTTATA
Found at i:9338564 original size:63 final size:63
Alignment explanation
Indices: 9338485--9338639 Score: 202
Period size: 63 Copynumber: 2.5 Consensus size: 63
9338475 CCTAAATCTT
* * * * *
9338485 AAAATATAAAAAGATTATTTAAGATATTTTTTGTACATAAATACATTAAATAATCATTTTATA
1 AAAATATAAAAAGATTATTTAATATATTTTCTATACAGAAATACATTAAATAATCAATTTATA
* ** * * * *
9338548 CAAATATAAATTGATTATTTAATATGTTTTCTATATAGAAATGCCTTAAATAATCAATTTATA
1 AAAATATAAAAAGATTATTTAATATATTTTCTATACAGAAATACATTAAATAATCAATTTATA
9338611 AAAATATAAAAAGATTATTTAATATATTT
1 AAAATATAAAAAGATTATTTAATATATTT
9338640 CTTTATACCA
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 76 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (63 bp):
AAAATATAAAAAGATTATTTAATATATTTTCTATACAGAAATACATTAAATAATCAATTTATA
Found at i:9339194 original size:6 final size:6
Alignment explanation
Indices: 9339183--9339208 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9339173 TAATAAATAA
9339183 ATAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT AT
9339209 TTTTTAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:9339295 original size:17 final size:16
Alignment explanation
Indices: 9339267--9339307 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
9339257 TAAAGTAAAG
9339267 TATTAAATAATATCTT
1 TATTAAATAATATCTT
9339283 TATTAATATAATATC--
1 TATTAA-ATAATATCTT
9339298 TATTAAATAA
1 TATTAAATAA
9339308 ATAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.17
15 6 0.25
16 6 0.25
17 8 0.33
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTAAATAATATCTT
Found at i:9339706 original size:12 final size:11
Alignment explanation
Indices: 9339666--9339743 Score: 50
Period size: 12 Copynumber: 6.6 Consensus size: 11
9339656 CAACATTTTC
9339666 AATTTTGAGTTGT
1 AATTTTGA-TT-T
9339679 AA-TTTGATGTT
1 AATTTTGAT-TT
*
9339690 GATTTTGATTCT
1 AATTTTGATT-T
*
9339702 AATTTTAATTT
1 AATTTTGATTT
*
9339713 AGATTTAGATTT
1 A-ATTTTGATTT
* *
9339725 AGTTTTCATTCT
1 AATTTTGATT-T
9339737 AATTTTG
1 AATTTTG
9339744 TGATCTATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
11 12 0.24
12 36 0.72
13 2 0.04
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (11 bp):
AATTTTGATTT
Found at i:9340924 original size:13 final size:13
Alignment explanation
Indices: 9340906--9340952 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
9340896 TTGGTAATTT
9340906 TTTAATTTTTTAA
1 TTTAATTTTTTAA
9340919 TTTAATTATTTT-A
1 TTTAATT-TTTTAA
* *
9340932 TTTAAAATTTTTAT
1 TTT-AATTTTTTAA
9340946 TTTAATT
1 TTTAATT
9340953 GATTTTTCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTAATTTTTTAA
Found at i:9342920 original size:22 final size:24
Alignment explanation
Indices: 9342890--9342954 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
9342880 AAGTTTTTCG
*
9342890 AATAAGAATCTTTGAAATTT-T-A
1 AATATGAATCTTTGAAATTTATCA
* * * *
9342912 ATTGTGAATCTCTAAAATTTATCA
1 AATATGAATCTTTGAAATTTATCA
9342936 AATATGAATCTTTGAAATT
1 AATATGAATCTTTGAAATT
9342955 ATAGATGTGA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 15 0.47
23 1 0.03
24 16 0.50
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (24 bp):
AATATGAATCTTTGAAATTTATCA
Found at i:9342948 original size:46 final size:46
Alignment explanation
Indices: 9342890--9342998 Score: 123
Period size: 46 Copynumber: 2.4 Consensus size: 46
9342880 AAGTTTTTCG
* *
9342890 AATAAGAATCTTTGAAATTTTA-ATTGTG-AATCTCTAAAATTTATCA
1 AATATGAATCTTTGAAATTATAGA-TGTGAAATC-CTAAAATTTATCA
* *
9342936 AATATGAATCTTTGAAATTATAGATGTGAAATCCTAAGATTTTTCA
1 AATATGAATCTTTGAAATTATAGATGTGAAATCCTAAAATTTATCA
* * *
9342982 AATGTAAACCTTTGAAA
1 AATATGAATCTTTGAAA
9342999 ATTGTGGCTG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 49 0.91
47 5 0.09
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (46 bp):
AATATGAATCTTTGAAATTATAGATGTGAAATCCTAAAATTTATCA
Found at i:9343718 original size:19 final size:19
Alignment explanation
Indices: 9343691--9343730 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9343681 TTTTGGAATA
*
9343691 TTTGTGAAACCTGAAAATT
1 TTTGCGAAACCTGAAAATT
* *
9343710 TTTGCGAAACTTGAAACTT
1 TTTGCGAAACCTGAAAATT
9343729 TT
1 TT
9343731 GTGAATCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGCGAAACCTGAAAATT
Found at i:9345353 original size:30 final size:28
Alignment explanation
Indices: 9345297--9345353 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 28
9345287 CCTTTTGTTA
9345297 TTTTTTATTTAATTATTTGGTTTAAAATT
1 TTTTTTATTTAATTATTT-GTTTAAAATT
9345326 TTTTTTATTTTAATTGATTT-TTCTAAAA
1 TTTTTTA-TTTAATT-ATTTGTT-TAAAA
9345354 AAAGGGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
29 9 0.36
30 12 0.48
31 4 0.16
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (28 bp):
TTTTTTATTTAATTATTTGTTTAAAATT
Found at i:9345655 original size:145 final size:147
Alignment explanation
Indices: 9345411--9345698 Score: 481
Period size: 146 Copynumber: 2.0 Consensus size: 147
9345401 ATTTTCATAG
*
9345411 GTTTAATTTTTTTTTAATTATACCAAATTATTGGAGAATTTTATATAAAATTTTTTTTGATAAAA
1 GTTTAATTTTTTTTTAATTATACCAAATTATTGGAGAATTTCATATAAAATTTTTTTTGATAAAA
* * *
9345476 TAAAATTTTTCAATCCTATCAAATTATGGGAGGATTTAAA-TTTAAATTAAATCTTACTAAACTA
66 TAAAAATTTTCAATCCTATCAAATTATGGGAGGATTAAAATTTTAAATTAAATCTTACCAAACTA
9345540 TTAGAGGACTTAATGAA
131 TTAGAGGACTTAATGAA
* * * *
9345557 GTTTAATTTTTTTTTAATTCTATCAAATTGTTGGAGAATTTCATAT-AATTTTTTTTTGATAAAA
1 GTTTAATTTTTTTTTAATTATACCAAATTATTGGAGAATTTCATATAAAATTTTTTTTGATAAAA
9345621 TAAAAATTTTCAATCCTATCAAATTATGGGAGGATTAAAATTTTAAATTAAATCTTACCAAACTA
66 TAAAAATTTTCAATCCTATCAAATTATGGGAGGATTAAAATTTTAAATTAAATCTTACCAAACTA
*
9345686 TTAGAGGGCTTAA
131 TTAGAGGACTTAA
9345699 AAAATGTTTT
Statistics
Matches: 132, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
145 55 0.42
146 77 0.58
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.44
Consensus pattern (147 bp):
GTTTAATTTTTTTTTAATTATACCAAATTATTGGAGAATTTCATATAAAATTTTTTTTGATAAAA
TAAAAATTTTCAATCCTATCAAATTATGGGAGGATTAAAATTTTAAATTAAATCTTACCAAACTA
TTAGAGGACTTAATGAA
Found at i:9346491 original size:18 final size:18
Alignment explanation
Indices: 9346470--9346513 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
9346460 TAAAGAATAA
9346470 AAAATAAATAAAT-TCAAT
1 AAAATAAATAAATCT-AAT
*
9346488 AAAATAAATTAATCTAAT
1 AAAATAAATAAATCTAAT
9346506 AAAATAAA
1 AAAATAAA
9346514 AAAAATCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATAAATAAATCTAAT
Found at i:9346538 original size:36 final size:33
Alignment explanation
Indices: 9346485--9346594 Score: 93
Period size: 37 Copynumber: 3.2 Consensus size: 33
9346475 AAATAAATTC
**
9346485 AATAAAA-TAAATTAATCTAATAAAATAAAAAA
1 AATAAAATTAAAAAAATCTAATAAAATAAAAAA
9346517 AATCAAAGACTTAAAAAAATCTAATAAAAATAAAGTAAAA
1 AAT-AAA-A-TTAAAAAAATCTAAT-AAAAT-AA--AAAA
9346557 AATAAAATTAAAAAAA--TAA-AAAATAAAAATA
1 AATAAAATTAAAAAAATCTAATAAAATAAAAA-A
*
9346588 AAGAAAA
1 AATAAAA
9346595 AGAAAAGGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 19
0.75 0.03 0.22
Matches are distributed among these distances:
30 3 0.05
31 7 0.11
32 5 0.08
33 8 0.12
34 1 0.02
35 3 0.05
36 12 0.18
37 14 0.21
38 3 0.05
39 3 0.05
40 7 0.11
ACGTcount: A:0.74, C:0.04, G:0.03, T:0.20
Consensus pattern (33 bp):
AATAAAATTAAAAAAATCTAATAAAATAAAAAA
Found at i:9346557 original size:23 final size:21
Alignment explanation
Indices: 9346530--9346600 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 21
9346520 CAAAGACTTA
**
9346530 AAAAAATCTAATAAAAATAAAGT
1 AAAAAATAAAATAAAAA-AAA-T
*
9346553 AAAAAATAAAATTAAAAAAAT
1 AAAAAATAAAATAAAAAAAAT
*
9346574 AAAAAATAAAAATAAAGAAAAAG
1 AAAAAAT-AAAATAAA-AAAAAT
9346597 AAAA
1 AAAA
9346601 GGAAAATGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 8 0.20
22 10 0.24
23 23 0.56
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (21 bp):
AAAAAATAAAATAAAAAAAAT
Found at i:9346558 original size:13 final size:13
Alignment explanation
Indices: 9346542--9346595 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
9346532 AAAATCTAAT
9346542 AAAAATAAAGT-A
1 AAAAATAAAGTAA
*
9346554 AAAAATAAAATTAA
1 AAAAAT-AAAGTAA
*
9346568 AAAAATAAA-AAA
1 AAAAATAAAGTAA
9346580 TAAAAATAAAG-AA
1 -AAAAATAAAGTAA
9346593 AAA
1 AAA
9346596 GAAAAGGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
12 11 0.31
13 18 0.50
14 7 0.19
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (13 bp):
AAAAATAAAGTAA
Found at i:9346576 original size:21 final size:22
Alignment explanation
Indices: 9346543--9346594 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 22
9346533 AAATCTAATA
*
9346543 AAAATAAAGTAAAAAATAAAATT
1 AAAA-AAAGTAAAAAATAAAAAT
9346566 AAAAAAA-TAAAAAATAAAAAT
1 AAAAAAAGTAAAAAATAAAAAT
9346587 AAAGAAAA
1 AAA-AAAA
9346595 AGAAAAGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 16 0.59
22 7 0.26
23 4 0.15
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (22 bp):
AAAAAAAGTAAAAAATAAAAAT
Found at i:9346584 original size:27 final size:28
Alignment explanation
Indices: 9346532--9346589 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
9346522 AAGACTTAAA
**
9346532 AAAATCTAATAAAAATAAAGTAAAAAAT
1 AAAATCTAATAAAAATAAAAAAAAAAAT
9346560 AAAAT-TAA-AAAAATAAAAAATAAAAAT
1 AAAATCTAATAAAAATAAAAAA-AAAAAT
9346587 AAA
1 AAA
9346590 GAAAAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 10 0.37
27 12 0.44
28 5 0.19
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (28 bp):
AAAATCTAATAAAAATAAAAAAAAAAAT
Found at i:9346600 original size:21 final size:20
Alignment explanation
Indices: 9346539--9346600 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
9346529 AAAAAAATCT
*
9346539 AATAAAAATAAAG--TAAAA
1 AATAAAAATAAAGAAAAAAA
* *
9346557 AATAAAATTAAAAAAATAAAA
1 AATAAAAATAAAGAAA-AAAA
9346578 AATAAAAATAAAGAAAAAGAA
1 AATAAAAATAAAGAAAAA-AA
9346599 AA
1 AA
9346601 GGAAAATGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 11 0.31
20 2 0.06
21 22 0.63
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.15
Consensus pattern (20 bp):
AATAAAAATAAAGAAAAAAA
Found at i:9346699 original size:15 final size:14
Alignment explanation
Indices: 9346677--9346727 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
9346667 TTAAACATAG
*
9346677 ATAAAAATATTAAA
1 ATAAAAAAATTAAA
9346691 AT-AAAAAATTAAAA
1 ATAAAAAAATT-AAA
*
9346705 TATAAAAAAAGTAAAA
1 -ATAAAAAAA-TTAAA
9346721 ATAAAAA
1 ATAAAAA
9346728 TAAAAGGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 7 0.23
14 5 0.16
15 9 0.29
16 9 0.29
17 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (14 bp):
ATAAAAAAATTAAA
Found at i:9346730 original size:21 final size:21
Alignment explanation
Indices: 9346677--9346732 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
9346667 TTAAACATAG
**
9346677 ATAAAAATATTAAAATAAAAA
1 ATAAAAATAAAAAAATAAAAA
9346698 ATTAAAATATAAAAAAAGT-AAAA
1 A-TAAAA-ATAAAAAAA-TAAAAA
9346721 ATAAAAATAAAA
1 ATAAAAATAAAA
9346733 GGTAATGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 7 0.23
22 10 0.33
23 12 0.40
24 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (21 bp):
ATAAAAATAAAAAAATAAAAA
Found at i:9347489 original size:19 final size:19
Alignment explanation
Indices: 9347451--9347489 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9347441 CCCATTTAAA
*
9347451 TTGTTTTCTTTTTCTATTC
1 TTGTTTTCTTTTTATATTC
9347470 TTGTTTTACTTTTTAT-TTC
1 TTGTTTT-CTTTTTATATTC
9347489 T
1 T
9347490 ATTTTATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.08, C:0.13, G:0.05, T:0.74
Consensus pattern (19 bp):
TTGTTTTCTTTTTATATTC
Found at i:9348106 original size:17 final size:17
Alignment explanation
Indices: 9348086--9348119 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9348076 TTAAAATATT
9348086 TAAATTAACAAAAATAA
1 TAAATTAACAAAAATAA
*
9348103 TAAATTAATAAAAATAA
1 TAAATTAACAAAAATAA
9348120 ATTAGGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATTAACAAAAATAA
Found at i:9348561 original size:22 final size:19
Alignment explanation
Indices: 9348520--9348576 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 19
9348510 GCATAATCTC
9348520 ATAAA-AATATTTTTTAAT
1 ATAAATAATATTTTTTAAT
9348538 ATAAATAATATTTTAATTATAT
1 ATAAATAATATTTT--TTA-AT
9348560 ATAAAT-ATAATTTTTTA
1 ATAAATAAT-ATTTTTTA
9348577 TTAAATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.15
19 8 0.24
20 3 0.09
21 5 0.15
22 13 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAAATAATATTTTTTAAT
Found at i:9348586 original size:22 final size:24
Alignment explanation
Indices: 9348535--9348586 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
9348525 AATATTTTTT
9348535 AATAT-AA-ATAATATTTTAATTA
1 AATATAAATATAATATTTTAATTA
* *
9348557 TATATAAATATAAT-TTTTTATTA
1 AATATAAATATAATATTTTAATTA
9348580 AAT-TAAA
1 AATATAAA
9348587 ATATTACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 8 0.32
23 12 0.48
24 5 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AATATAAATATAATATTTTAATTA
Found at i:9349504 original size:50 final size:50
Alignment explanation
Indices: 9349400--9349493 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
9349390 TCATAAGAAT
* *
9349400 AAAATTATAATAGTGATAGAATATATCTTGGAAGAAAAGTTGTTAAAAAA
1 AAAATTATAATAGTAATAGAATATATCTTGGAAGAAAAGTTGTCAAAAAA
*
9349450 AAAATTGTAATAGTAATAGAATATATCTT-GAA-AAAAGTTG-CAAA
1 AAAATTATAATAGTAATAGAATATATCTTGGAAGAAAAGTTGTCAAA
9349494 TTGAAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
47 3 0.07
48 8 0.20
49 3 0.07
50 27 0.66
ACGTcount: A:0.52, C:0.03, G:0.15, T:0.30
Consensus pattern (50 bp):
AAAATTATAATAGTAATAGAATATATCTTGGAAGAAAAGTTGTCAAAAAA
Found at i:9350180 original size:2 final size:2
Alignment explanation
Indices: 9350162--9350198 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
9350152 ATCAAGTGTC
*
9350162 TA TA TA TG T- TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9350199 GATTTATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9350758 original size:21 final size:22
Alignment explanation
Indices: 9350734--9350784 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
9350724 TGTTCAAATC
9350734 TAAAGAAAAAATAA-TCAAAAG-
1 TAAAGAAAAAA-AATTCAAAAGA
*
9350755 TAAA-AAAAAAAATTGAAAAGA
1 TAAAGAAAAAAAATTCAAAAGA
9350776 TAAAGAAAA
1 TAAAGAAAA
9350785 GTATAAAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 12 0.46
21 8 0.31
22 4 0.15
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.14
Consensus pattern (22 bp):
TAAAGAAAAAAAATTCAAAAGA
Found at i:9351872 original size:17 final size:17
Alignment explanation
Indices: 9351852--9351884 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9351842 AAACAAACTT
9351852 TAAAAAAGAAAA-AAAAC
1 TAAAAAA-AAAATAAAAC
9351869 TAAAAAAAAAATAAAA
1 TAAAAAAAAAATAAAA
9351885 AAAAGAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.09
Consensus pattern (17 bp):
TAAAAAAAAAATAAAAC
Found at i:9351875 original size:12 final size:11
Alignment explanation
Indices: 9351860--9351893 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
9351850 TTTAAAAAAG
*
9351860 AAAAAAAACTA
1 AAAAAAAAATA
9351871 AAAAAAAAATA
1 AAAAAAAAATA
9351882 AAAAAAAGAATA
1 AAAAAAA-AATA
9351894 TAATGTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.09
Consensus pattern (11 bp):
AAAAAAAAATA
Found at i:9352367 original size:18 final size:18
Alignment explanation
Indices: 9352346--9352384 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9352336 GTCAAAAAAC
9352346 AAAAAAAA-ATAAAAATGA
1 AAAAAAAAGAT-AAAATGA
*
9352364 AAAAAAAAGCTAAAATGA
1 AAAAAAAAGATAAAATGA
9352382 AAA
1 AAA
9352385 TCCAGATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.10
Consensus pattern (18 bp):
AAAAAAAAGATAAAATGA
Found at i:9359652 original size:2 final size:2
Alignment explanation
Indices: 9359645--9359675 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9359635 CAAATTCTCT
9359645 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9359676 GCTTTTCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9365357 original size:14 final size:14
Alignment explanation
Indices: 9365321--9365360 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
9365311 GTCTTCAACA
*
9365321 TCATTTTGTTTCCTC
1 TCATTTT-TTTCCAC
9365336 TCCATTTTTTTCCAC
1 T-CATTTTTTTCCAC
9365351 TCATTTTTTT
1 TCATTTTTTT
9365361 GAGTATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 9 0.39
15 8 0.35
16 6 0.26
ACGTcount: A:0.10, C:0.25, G:0.03, T:0.62
Consensus pattern (14 bp):
TCATTTTTTTCCAC
Found at i:9371368 original size:2 final size:2
Alignment explanation
Indices: 9371363--9371425 Score: 65
Period size: 2 Copynumber: 32.0 Consensus size: 2
9371353 TCTCTCTCTC
* * * *
9371363 TA TA TA TA TA TA TA TA TA TC TA TC TA TC TA T- TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
9371404 TG TA TC TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
9371426 CACACACACA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9382925 original size:23 final size:24
Alignment explanation
Indices: 9382887--9382938 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
9382877 GTTATATGAG
9382887 AAAAA-GAAAATGAAAAAAGGAAA
1 AAAAATGAAAATGAAAAAAGGAAA
* *
9382910 AAAAATGAAAAT-AAAAAAGTACA
1 AAAAATGAAAATGAAAAAAGGAAA
9382933 AAAAAT
1 AAAAAT
9382939 TGGACAACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.10
Consensus pattern (24 bp):
AAAAATGAAAATGAAAAAAGGAAA
Found at i:9383871 original size:64 final size:64
Alignment explanation
Indices: 9383756--9383875 Score: 177
Period size: 64 Copynumber: 1.9 Consensus size: 64
9383746 CACATAAAAA
* ** *
9383756 TTCACATGATATAAGATTTAATTTAAAAATCAAACGTATTTTATAATTTTTTTTTTGTGAATGT
1 TTCACATGATATAAGATTTAATTAAAAAATCAAACGTATGCTATAACTTTTTTTTTGTGAATGT
* * *
9383820 TTCATATGATATAAGATTTAATTAAAAAATCAAACGTATGCTCTTACTTTTTTTTT
1 TTCACATGATATAAGATTTAATTAAAAAATCAAACGTATGCTATAACTTTTTTTTT
9383876 TTTTTATGTG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (64 bp):
TTCACATGATATAAGATTTAATTAAAAAATCAAACGTATGCTATAACTTTTTTTTTGTGAATGT
Found at i:9385553 original size:3 final size:3
Alignment explanation
Indices: 9385545--9385599 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
9385535 TATAACTACA
9385545 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9385593 AAT AAT A
1 AAT AAT A
9385600 TTACAACTCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9401028 original size:87 final size:89
Alignment explanation
Indices: 9400868--9401028 Score: 231
Period size: 87 Copynumber: 1.8 Consensus size: 89
9400858 TTATCCAAAA
*
9400868 TATTATTATTAATAAATAATATTTTTATTTAATTTTACTAAAAAATTAAAATTTTAAACTTGAAA
1 TATTATTATTAATAAATAATATTTTTATTTAATTTTACTAAAAAATTAAAATTTTAAACTTAAAA
* *
9400933 TTGATTTAATTCAACATAAAATGT
66 GTCATTTAATTCAACATAAAATGT
*
9400957 TATTA-TATTAATAAA-AATA-TTTTATTTAATTTTAATTAAAAAATTAAAATTTT-AACATTAA
1 TATTATTATTAATAAATAATATTTTTATTTAATTTT-ACTAAAAAATTAAAATTTTAAAC-TTAA
*
9401018 AAGTCTTTTAA
64 AAGTCATTTAA
9401029 CATTTCAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
86 17 0.26
87 33 0.51
88 10 0.15
89 5 0.08
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (89 bp):
TATTATTATTAATAAATAATATTTTTATTTAATTTTACTAAAAAATTAAAATTTTAAACTTAAAA
GTCATTTAATTCAACATAAAATGT
Found at i:9401122 original size:29 final size:30
Alignment explanation
Indices: 9401085--9401154 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 30
9401075 TATTTTTAGC
* * * *
9401085 ATTTCAATAATAAATAGTATTA-TATTATT
1 ATTTTAATAATAAATAATAATATTATTAAT
*
9401114 ATTTTAATAATAAATAATAATATTTTTAAT
1 ATTTTAATAATAAATAATAATATTATTAAT
9401144 ATTTTAATAAT
1 ATTTTAATAAT
9401155 TAATGTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 19 0.54
30 16 0.46
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
ATTTTAATAATAAATAATAATATTATTAAT
Found at i:9401414 original size:20 final size:20
Alignment explanation
Indices: 9401385--9401423 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9401375 TTTTAATATT
9401385 AATAAAAATAATATTTTAAG
1 AATAAAAATAATATTTTAAG
* *
9401405 AATAATAATATTATTTTAA
1 AATAAAAATAATATTTTAA
9401424 ATATTTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
AATAAAAATAATATTTTAAG
Found at i:9401499 original size:46 final size:46
Alignment explanation
Indices: 9401332--9401517 Score: 142
Period size: 46 Copynumber: 4.1 Consensus size: 46
9401322 ATATAAAATA
* *
9401332 TAAATATTTTAATAGT-AT-GAATA-TTTAATAATAAATATTATTATT
1 TAAATATTTTAATATTAATATAATATTTTAATAATAAATATTA-T-TT
* * *
9401377 TTAATA--TTAATA--AAAATAATATTTTAAGAATAATAATATTATTT
1 TAAATATTTTAATATTAATATAATATTTTAATAAT-A-AATATTATTT
**
9401421 TAAATATTTTCAAATATTAATATAA-A-AATAATAAATAAAT-TTATTT
1 TAAATATTTT--AATATTAATATAATATTTTAAT-AATAAATATTATTT
*
9401467 TAAATATTGTT-ATATTAATATAATATTTTAATATTAAATATTATTAT
1 TAAATATT-TTAATATTAATATAATATTTTAATAATAAATATTATT-T
9401514 TAAA
1 TAAA
9401518 ATATGATTAT
Statistics
Matches: 112, Mismatches: 12, Indels: 32
0.72 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 10 0.09
44 27 0.24
45 14 0.12
46 32 0.29
47 10 0.09
48 8 0.07
49 4 0.04
50 6 0.05
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (46 bp):
TAAATATTTTAATATTAATATAATATTTTAATAATAAATATTATTT
Found at i:9401516 original size:19 final size:19
Alignment explanation
Indices: 9401469--9401542 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
9401459 ATTTATTTTA
9401469 AATATTGTT-ATATTAATAT
1 AATATT-TTAATATTAATAT
9401488 AATATTTTAATATTAA-AT
1 AATATTTTAATATTAATAT
* *
9401506 ATTATTATTAA-AAT-ATGAT
1 AATATT-TTAATATTAAT-AT
* *
9401525 TATTTTTTAATATTAATA
1 AATATTTTAATATTAATA
9401543 ATTTTAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
17 1 0.02
18 15 0.35
19 25 0.58
20 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
AATATTTTAATATTAATAT
Found at i:9401521 original size:34 final size:36
Alignment explanation
Indices: 9401466--9401540 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 36
9401456 TAAATTTATT
* *
9401466 TTAAATATTGTTATATTAATAT-A-ATATTTTAATA
1 TTAAATATTATTATATAAATATGATATATTTTAATA
*
9401500 TTAAATATTATTAT-TAAAATATGATTATTTTTTAATA
1 TTAAATATTATTATAT-AAATATGA-TATATTTTAATA
9401537 TTAA
1 TTAA
9401541 TAATTTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
33 1 0.03
34 18 0.53
35 1 0.03
37 14 0.41
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (36 bp):
TTAAATATTATTATATAAATATGATATATTTTAATA
Found at i:9401560 original size:25 final size:27
Alignment explanation
Indices: 9401530--9401579 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
9401520 ATGATTATTT
*
9401530 TTTAAT-ATTAATAA-TTTTAATATAC
1 TTTAATAATAAATAATTTTTAATATAC
9401555 TTTAATAATAAATAATTTTTAATAT
1 TTTAATAATAAATAATTTTTAATAT
9401580 TTAATAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 7 0.32
27 9 0.41
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTAATAATAAATAATTTTTAATATAC
Found at i:9404042 original size:136 final size:136
Alignment explanation
Indices: 9403900--9404156 Score: 435
Period size: 136 Copynumber: 1.9 Consensus size: 136
9403890 TTTGTTTTTG
* *
9403900 TTTTTTTT-ACTTTTTAATTACATTTGACTTCAACTCTATCTTTGGATTTAATTAACTCATAGTA
1 TTTTTTTTCACTTTATAATTACATTTGACTTCAACTCTATCTTTGGATTTAATTAACTCACAGTA
*
9403964 ACTTTCAGATGATTCATACGAGATAAGTAGTATTTTTTTGTACGTTTATCATTCATATATTTTTC
66 ACTTTCAGATGATTCATACGAGATAAGTAGTATTGTTTTGTACGTTTATCATTCATATATTTTTC
9404029 TATTAA
131 TATTAA
* *
9404035 TTTTTTTTCACTTTATAATTACTTTTGACTTCAACTCTATCTTTGGATTTAATTAATTCACAGTA
1 TTTTTTTTCACTTTATAATTACATTTGACTTCAACTCTATCTTTGGATTTAATTAACTCACAGTA
* * *
9404100 ACTTTCAGATGATTCATACTAGATAAGTAGTCTTGTTTTGTATGTTTATCATTCATA
66 ACTTTCAGATGATTCATACGAGATAAGTAGTATTGTTTTGTACGTTTATCATTCATA
9404157 CTAGATAAGT
Statistics
Matches: 113, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
135 8 0.07
136 105 0.93
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (136 bp):
TTTTTTTTCACTTTATAATTACATTTGACTTCAACTCTATCTTTGGATTTAATTAACTCACAGTA
ACTTTCAGATGATTCATACGAGATAAGTAGTATTGTTTTGTACGTTTATCATTCATATATTTTTC
TATTAA
Found at i:9404926 original size:16 final size:17
Alignment explanation
Indices: 9404901--9404933 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9404891 CTAAAACAAA
9404901 AAAAAAAAAAAG-AAAT
1 AAAAAAAAAAAGTAAAT
*
9404917 AAAAATAAAAAGTAAAT
1 AAAAAAAAAAAGTAAAT
9404934 TGGACCAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAAAAAAAAAGTAAAT
Found at i:9416228 original size:2 final size:2
Alignment explanation
Indices: 9416223--9416252 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9416213 TCTCTCTCTC
9416223 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9416253 AGGCATCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9424678 original size:17 final size:17
Alignment explanation
Indices: 9424645--9424701 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
9424635 TTTATTTTCA
*
9424645 TTATTTAATATATATTTT
1 TTATTTATTA-ATATTTT
9424663 TTATTTATTAATA-TTT
1 TTATTTATTAATATTTT
* *
9424679 TTA-TTATTTATCTGTTT
1 TTATTTATTAATAT-TTT
9424696 TTATTT
1 TTATTT
9424702 TTTATTACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 7 0.21
16 6 0.18
17 9 0.27
18 11 0.33
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TTATTTATTAATATTTT
Found at i:9424685 original size:19 final size:18
Alignment explanation
Indices: 9424637--9424714 Score: 70
Period size: 19 Copynumber: 4.3 Consensus size: 18
9424627 CTTTTATTTT
* *
9424637 TATTTTCATTATTTAATA
1 TATTTTTATTATTTATTA
9424655 TATATTTT-TTATTTATTAA
1 TAT-TTTTATTATTTATT-A
*
9424674 TATTTTTATTATTTA-TC
1 TATTTTTATTATTTATTA
* *
9424691 TGTTTTTATTTTTTATTA
1 TATTTTTATTATTTATTA
9424709 CTATTT
1 -TATTT
9424715 ATCTATTTCT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
17 13 0.27
18 17 0.35
19 18 0.38
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (18 bp):
TATTTTTATTATTTATTA
Found at i:9425322 original size:5 final size:5
Alignment explanation
Indices: 9425308--9425368 Score: 61
Period size: 5 Copynumber: 11.4 Consensus size: 5
9425298 TTTAATATTC
*
9425308 TTTTA TTTTTA TTTTA TTTT- TCCTTA TTTTTA TTTTCA TTCTTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA T-TTTA -TTTTA TTTT-A TT-TTA TTTTA
9425357 TTTTA TTTTA TT
1 TTTTA TTTTA TT
9425369 ATTCTACTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
4 1 0.02
5 30 0.62
6 14 0.29
7 3 0.06
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:9425334 original size:21 final size:22
Alignment explanation
Indices: 9425310--9425368 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
9425300 TAATATTCTT
9425310 TTATTTTTATTTTATT-TT-TCC
1 TTATTTTTATTTTATTCTTAT-C
*
9425331 TTATTTTTATTTTCATTCTTATT
1 TTATTTTTATTTT-ATTCTTATC
9425354 TTA-TTTTATTTTATT
1 TTATTTTTATTTTATT
9425369 ATTCTACTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 16 0.47
22 12 0.35
23 5 0.15
24 1 0.03
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (22 bp):
TTATTTTTATTTTATTCTTATC
Found at i:9425353 original size:18 final size:17
Alignment explanation
Indices: 9425308--9425368 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 17
9425298 TTTAATATTC
*
9425308 TTTTATTTTTA-TTTTA
1 TTTTATTCTTATTTTTA
*
9425324 TTTT-TCCTTATTTTTA
1 TTTTATTCTTATTTTTA
9425340 TTTTCATTCTTA-TTTTA
1 TTTT-ATTCTTATTTTTA
9425357 TTTTATT-TTATT
1 TTTTATTCTTATT
9425369 ATTCTACTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 7 0.18
16 17 0.45
17 9 0.24
18 5 0.13
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTCTTATTTTTA
Found at i:9425489 original size:59 final size:58
Alignment explanation
Indices: 9425395--9425846 Score: 525
Period size: 59 Copynumber: 7.7 Consensus size: 58
9425385 ATAAAATTAA
* *
9425395 AAAAAAATTTTTTTGAGGAAAAGTTGAAA-TATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAATTTTC
* * * *
9425452 AAAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTC
1 AAAAAA-ATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAATTTTC
* * ** * *
9425511 TAAAAAATATTTTTGGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAT-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAATTTTC
* * * *
9425570 AAAAAAAAATTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
1 -AAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAA-TTTTC
* * * *
9425630 AAAAAAAAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTTCTTGAAATTAAAATTTTC
1 --AAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATT-AAATTTTC
* *
9425691 AAAAAAATTTTTTTTTG-GGAAAAGTTGAAAGTATCAATCTTCCTCGAAATTAAAGTTTTC
1 AAAAAAA--TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAA-TTTTC
* * * *
9425751 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAGTTTC
1 AAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAATTTTC
* * *
9425808 TAAAAAA-TATTTTGAGGAGAAGTTGAAAGTATCAATTTT
1 AAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
9425847 TTCTGTACAA
Statistics
Matches: 337, Mismatches: 46, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
57 45 0.13
58 63 0.19
59 124 0.37
60 45 0.13
61 57 0.17
62 3 0.01
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (58 bp):
AAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAATTTTC
Found at i:9427353 original size:12 final size:12
Alignment explanation
Indices: 9427334--9427376 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
9427324 TATATATAAA
9427334 TATATATTTTAT
1 TATATATTTTAT
*
9427346 TAGT-TATTTGAT
1 TA-TATATTTTAT
9427358 TATATATTTTAT
1 TATATATTTTAT
9427370 TATATAT
1 TATATAT
9427377 ATTCTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 25 0.93
13 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (12 bp):
TATATATTTTAT
Found at i:9427658 original size:21 final size:20
Alignment explanation
Indices: 9427632--9427673 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
9427622 TGCTTTTTGC
*
9427632 TTTTTTTAGTTTTATTTATTT
1 TTTTTTTACTTTTATTT-TTT
*
9427653 TTTTTTTACTTTTGTTTTTT
1 TTTTTTTACTTTTATTTTTT
9427673 T
1 T
9427674 AGAATCCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.10, C:0.02, G:0.05, T:0.83
Consensus pattern (20 bp):
TTTTTTTACTTTTATTTTTT
Found at i:9429273 original size:24 final size:24
Alignment explanation
Indices: 9429221--9429299 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 24
9429211 TTTGAGCTCA
**
9429221 TTTTTCCTTTTTCTTAAATTTTCTA
1 TTTTTCCTTTTTCTT-AATTTTCCC
*
9429246 TTTTTCCCTTTTCTTAATTTTCCC
1 TTTTTCCTTTTTCTTAATTTTCCC
* **
9429270 TTTTTCTTTTTTCTTTTTTTTTCCC
1 TTTTTCCTTTTTC-TTAATTTTCCC
9429295 TTTTT
1 TTTTT
9429300 TTTTTTTTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
24 18 0.39
25 28 0.61
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTTCCTTTTTCTTAATTTTCCC
Found at i:9430838 original size:18 final size:17
Alignment explanation
Indices: 9430807--9430858 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
9430797 AAAAATTTCG
* *
9430807 GATTTTAAATTTTTTTT
1 GATTTTTAATTTTTTTA
9430824 G-TTTTTAGGATTTTTTTA
1 GATTTTTA--ATTTTTTTA
9430842 GATTTTTAATTTTTTTA
1 GATTTTTAATTTTTTTA
9430859 CAATTTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 5 0.17
17 10 0.33
18 9 0.30
19 6 0.20
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (17 bp):
GATTTTTAATTTTTTTA
Found at i:9431036 original size:18 final size:18
Alignment explanation
Indices: 9431000--9431038 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9430990 TTTTAATTCG
* *
9431000 TTAGAATTTTTTTATTTT
1 TTAGAATTTTTTGAATTT
*
9431018 TTAGACTTTTTTGAATTT
1 TTAGAATTTTTTGAATTT
9431036 TTA
1 TTA
9431039 AGATTAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.08, T:0.67
Consensus pattern (18 bp):
TTAGAATTTTTTGAATTT
Found at i:9431617 original size:21 final size:21
Alignment explanation
Indices: 9431587--9431627 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9431577 ATTAAGAAAT
*
9431587 TTTTAAAATTTTTTTCTTTTC
1 TTTTAAAATTTTTCTCTTTTC
*
9431608 TTTTACAATTTTTCTCTTTT
1 TTTTAAAATTTTTCTCTTTT
9431628 TGCTTAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTAAAATTTTTCTCTTTTC
Found at i:9432142 original size:17 final size:16
Alignment explanation
Indices: 9432094--9432145 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
9432084 GAACTAAAGC
*
9432094 TTACTAAATATAAAAA
1 TTACTAAAAATAAAAA
*
9432110 TTACTAAAAATGAAAAG
1 TTACTAAAAAT-AAAAA
*
9432127 TTGCTAAAAATAAAAA
1 TTACTAAAAATAAAAA
9432143 TTA
1 TTA
9432146 AACAATTAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
TTACTAAAAATAAAAA
Found at i:9434537 original size:22 final size:19
Alignment explanation
Indices: 9434493--9434549 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
9434483 ATGATCTCTC
* *
9434493 TTTTCACTTTTTTTTTCAA
1 TTTTCTCTTATTTTTTCAA
**
9434512 TTTTCGTTTCTTATTTTTTCGT
1 TTTTC---TCTTATTTTTTCAA
9434534 TTTTCTCTTATTTTTT
1 TTTTCTCTTATTTTTT
9434550 TATTTTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 16 0.52
22 15 0.48
ACGTcount: A:0.09, C:0.14, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTTCTCTTATTTTTTCAA
Found at i:9434555 original size:19 final size:19
Alignment explanation
Indices: 9434520--9434556 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9434510 AATTTTCGTT
*
9434520 TCTTATTTTTTCGTTTTTC
1 TCTTATTTTTTCATTTTTC
*
9434539 TCTTATTTTTTTATTTTT
1 TCTTATTTTTTCATTTTT
9434557 AATTAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.78
Consensus pattern (19 bp):
TCTTATTTTTTCATTTTTC
Found at i:9435150 original size:20 final size:22
Alignment explanation
Indices: 9435113--9435167 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
9435103 TCTCTAAATT
**
9435113 TTTTTTATTTTTTGTTTT-TCC
1 TTTTTTATTTTTCATTTTATCC
9435134 TTTTTT-TTTTTCATTTTAATCC
1 TTTTTTATTTTTCATTTT-ATCC
9435156 TTTTTATATTTT
1 TTTTT-TATTTT
9435168 CTAATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 9 0.32
21 6 0.21
22 8 0.29
23 1 0.04
24 4 0.14
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTTTATTTTTCATTTTATCC
Found at i:9436025 original size:18 final size:19
Alignment explanation
Indices: 9436004--9436044 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
9435994 AAATTAAAAT
*
9436004 AATATTAA-TAATTTATCA
1 AATATTAATTAATTTATAA
9436022 AATATTAATTTAATTTATAA
1 AATATTAA-TTAATTTATAA
9436042 AAT
1 AAT
9436045 TATTTCATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
20 12 0.60
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AATATTAATTAATTTATAA
Found at i:9441522 original size:21 final size:22
Alignment explanation
Indices: 9441488--9441531 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
9441478 TAAAACAAAG
9441488 TAAAGATAATTAA-GAAATAAA
1 TAAAGATAATTAAGGAAATAAA
*
9441509 TAAAGAT-ATATAAGGAGATAAA
1 TAAAGATAAT-TAAGGAAATAAA
9441531 T
1 T
9441532 CACTAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 10 0.50
22 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (22 bp):
TAAAGATAATTAAGGAAATAAA
Found at i:9441564 original size:17 final size:16
Alignment explanation
Indices: 9441542--9441596 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
9441532 CACTAAATAA
*
9441542 AAATAACTAATGAAGAT
1 AAATAACT-ATAAAGAT
9441559 AAATAATCTATAAAGAT
1 AAATAA-CTATAAAGAT
*
9441576 AAATACCTTATAAAGAT
1 AAATAAC-TATAAAGAT
9441593 AAAT
1 AAAT
9441597 GAGAATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 1 0.03
17 31 0.91
18 2 0.06
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.27
Consensus pattern (16 bp):
AAATAACTATAAAGAT
Found at i:9441973 original size:33 final size:32
Alignment explanation
Indices: 9441894--9442026 Score: 131
Period size: 33 Copynumber: 4.1 Consensus size: 32
9441884 TTTTGACCTA
** * *
9441894 GATTGAGCTAAAGTCTAAAACAAAAAGACTTA
1 GATTGAGCTAAAGTCTAAAATTAAATGACTTG
* * *
9441926 AATTGAGCTGAAGTCTAAAAGTTAAATTACTTG
1 GATTGAGCTAAAGTCTAAAA-TTAAATGACTTG
* * *
9441959 GATTGAGCTAAAGTCTAAATTTGAGATGAGTTG
1 GATTGAGCTAAAGTCTAAAATT-AAATGACTTG
* *
9441992 GATTGAGCCAAAGTCTAAAAATATAATGACTTG
1 GATTGAGCTAAAGTCTAAAATTA-AATGACTTG
9442025 GA
1 GA
9442027 CTGATCCAAA
Statistics
Matches: 80, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
32 21 0.26
33 59 0.74
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (32 bp):
GATTGAGCTAAAGTCTAAAATTAAATGACTTG
Found at i:9442238 original size:33 final size:33
Alignment explanation
Indices: 9441954--9442252 Score: 165
Period size: 33 Copynumber: 9.0 Consensus size: 33
9441944 AAGTTAAATT
* * ** *
9441954 ACTTGGATTGAGCTAAAGTCTAAATTTGAGATG
1 ACTTGGATTGAGCCAAAGTCAAAAAATGATATG
* *
9441987 AGTTGGATTGAGCCAAAGTCTAAAAAT-ATAATG
1 ACTTGGATTGAGCCAAAGTCAAAAAATGAT-ATG
* * * * *
9442020 ACTTGGACTGATCCAAAATCAAAAAATTAT-TAA
1 ACTTGGATTGAGCCAAAGTCAAAAAATGATAT-G
* * **
9442053 ACTTGGACTGAGGCAAAGTTGAAAAATGATATG
1 ACTTGGATTGAGCCAAAGTCAAAAAATGATATG
* ** * *
9442086 GCTTGGATTGAGCTTAAGTTAAAAAAATGATACG
1 ACTTGGATTGAGCCAAAG-TCAAAAAATGATATG
* * *** * * *
9442120 AGTTGCACAAAGCCAAAGTCAAAAAATTAATTTA
1 ACTTGGATTGAGCCAAAGTCAAAAAA-TGATATG
* * ** *
9442154 ACTTGGACTAAGCCAAAGT-TGAAAATGAAATG
1 ACTTGGATTGAGCCAAAGTCAAAAAATGATATG
* ** *
9442186 ACTTGAATTGTA-CTTAAGTCGAAAAATGATATG
1 ACTTGGATTG-AGCCAAAGTCAAAAAATGATATG
* *
9442219 AGTTGGATTGAGCCAAAGTCAAATAATGATATG
1 ACTTGGATTGAGCCAAAGTCAAAAAATGATATG
9442252 A
1 A
9442253 AGCCAAAGCT
Statistics
Matches: 195, Mismatches: 62, Indels: 18
0.71 0.23 0.07
Matches are distributed among these distances:
32 18 0.09
33 133 0.68
34 44 0.23
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (33 bp):
ACTTGGATTGAGCCAAAGTCAAAAAATGATATG
Found at i:9442824 original size:59 final size:56
Alignment explanation
Indices: 9442635--9442953 Score: 181
Period size: 55 Copynumber: 5.6 Consensus size: 56
9442625 CAACACCCTC
** **
9442635 CAATATGTTGGTAAGGTTTA--TTTATTTAAAATTCATTTTTAAACTTTC-AACCTT
1 CAATATGTTGGTAAGGTTTATTTTTATTTTCAATTTTTTTTTAAA-TTTCAAACCTT
* * ** * * *
9442689 CTAATATGTTGGTAAAGCTTA--TTTATTTAAAATTCATTATTAAAATTTC-AACCTT
1 C-AATATGTTGGTAAGGTTTATTTTTATTTTCAATT-TTTTTTTAAATTTCAAACCTT
* * **
9442744 CCAATATGTAGATAAATTTTTATTTTTATTTTCAATTTTTTTTTAAATTTCAAAACCCTT
1 -CAATATGTTGGT-AAGGTTTATTTTTATTTTCAATTTTTTTTTAAATTTC-AAA-CCTT
* **
9442804 CAATATGTTGGTAAGGTTTTATTTTTATATTTTAA-TTTTTTTT-AATTTCAAAACCCC
1 CAATATGTTGGTAAGG-TTTATTTTTAT-TTTCAATTTTTTTTTAAATTTC-AAACCTT
* * * * * *
9442861 CCATATGTTGGTAAGGTTT-TTTAT-TTTTCAAAATCTGTTTTAAAATTACCAAACCTT
1 CAATATGTTGGTAAGGTTTATTTTTATTTTC--AATTTTTTTTTAAATT-TCAAACCTT
* * *
9442918 CAAATACGTTGGCAAGGTTTTATTTTCAATTTTCAA
1 C-AATATGTTGGTAAGG-TTTATTTT-TATTTTCAA
9442954 AAATTATTTT
Statistics
Matches: 207, Mismatches: 37, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
53 3 0.01
54 2 0.01
55 55 0.27
56 20 0.10
57 38 0.18
58 36 0.17
59 34 0.16
60 14 0.07
62 5 0.02
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.48
Consensus pattern (56 bp):
CAATATGTTGGTAAGGTTTATTTTTATTTTCAATTTTTTTTTAAATTTCAAACCTT
Found at i:9442874 original size:57 final size:59
Alignment explanation
Indices: 9442629--9442880 Score: 197
Period size: 55 Copynumber: 4.4 Consensus size: 59
9442619 AAATCACAAC
** **
9442629 ACCCTCCAATATGTTGGTAAGG-TTTA--TTTATTTAAAATTCATTTTTAAACTTTC--A
1 ACCCTCCAATATGTTGGTAAGGTTTTATTTTTATTTTCAATTTTTTTTTAAA-TTTCAAA
* * * * ** * * *
9442684 ACCTTCTAATATGTTGGTAAAG-CTTA--TTTATTTAAAATTCATTATTAAAATTTC--A
1 ACCCTCCAATATGTTGGTAAGGTTTTATTTTTATTTTCAATT-TTTTTTTAAATTTCAAA
* * * **
9442739 ACCTTCCAATATGTAGATAAATTTTTATTTTTATTTTCAATTTTTTTTTAAATTTCAAA
1 ACCCTCCAATATGTTGGTAAGGTTTTATTTTTATTTTCAATTTTTTTTTAAATTTCAAA
* *
9442798 ACCCTTCAATATGTTGGTAAGGTTTTATTTTTATATTTTAA-TTTTTTTT-AATTTCAAA
1 ACCCTCCAATATGTTGGTAAGGTTTTATTTTTAT-TTTCAATTTTTTTTTAAATTTCAAA
*
9442856 ACCC-CCCATATGTTGGTAAGGTTTT
1 ACCCTCCAATATGTTGGTAAGGTTTT
9442881 TTATTTTTCA
Statistics
Matches: 163, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
55 58 0.36
56 9 0.06
57 30 0.18
58 24 0.15
59 37 0.23
60 5 0.03
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (59 bp):
ACCCTCCAATATGTTGGTAAGGTTTTATTTTTATTTTCAATTTTTTTTTAAATTTCAAA
Found at i:9443633 original size:15 final size:15
Alignment explanation
Indices: 9443572--9443636 Score: 58
Period size: 15 Copynumber: 4.0 Consensus size: 15
9443562 GTTTTTTGAT
9443572 AAAGATAAACAATAAA
1 AAAGATAAA-AATAAA
*
9443588 AATGAGATAAAAACAAGA
1 AA--AGATAAAAATAA-A
* *
9443606 TAAATAGAAAAATAAA
1 -AAAGATAAAAATAAA
9443622 AAAGATAAAAATAAA
1 AAAGATAAAAATAAA
9443637 TATAAAATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
15 13 0.33
16 3 0.08
17 13 0.33
18 8 0.21
19 2 0.05
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.14
Consensus pattern (15 bp):
AAAGATAAAAATAAA
Found at i:9443641 original size:21 final size:22
Alignment explanation
Indices: 9443583--9443643 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
9443573 AAGATAAACA
*
9443583 ATAAAAATGAGATA-AAAACAAG
1 ATAAAAAT-AAATATAAAACAAG
* * *
9443605 ATAAATAGAAAAATAAAA-AAG
1 ATAAAAATAAATATAAAACAAG
9443626 ATAAAAATAAATATAAAA
1 ATAAAAATAAATATAAAA
9443644 TAAAACTAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (22 bp):
ATAAAAATAAATATAAAACAAG
Found at i:9444528 original size:17 final size:18
Alignment explanation
Indices: 9444500--9444536 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
9444490 TAGGTTGGGT
9444500 ATAAAAACTAATATTTTG
1 ATAAAAACTAATATTTTG
9444518 ATAAAAA-TAATATTTTG
1 ATAAAAACTAATATTTTG
9444535 AT
1 AT
9444537 GTCGGATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (18 bp):
ATAAAAACTAATATTTTG
Found at i:9444712 original size:2 final size:2
Alignment explanation
Indices: 9444705--9444730 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9444695 AACTATAAAC
9444705 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9444731 GGCACAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9448082 original size:15 final size:17
Alignment explanation
Indices: 9448048--9448084 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
9448038 ATATATTTAT
9448048 ATATATTTAGTAAATAA
1 ATATATTTAGTAAATAA
*
9448065 ATAT-TTTATTAAAT-A
1 ATATATTTAGTAAATAA
9448080 ATATA
1 ATATA
9448085 AATTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.28
16 9 0.50
17 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
ATATATTTAGTAAATAA
Found at i:9448146 original size:21 final size:19
Alignment explanation
Indices: 9448122--9448163 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
9448112 AATACATTTT
9448122 TATTTAAAATAAATATTAATA
1 TATTTAAAATAAA-ATT-ATA
*
9448143 TATTTATAATAAAATTATA
1 TATTTAAAATAAAATTATA
9448162 TA
1 TA
9448164 AATATACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 12 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TATTTAAAATAAAATTATA
Found at i:9451899 original size:58 final size:57
Alignment explanation
Indices: 9451837--9452085 Score: 308
Period size: 58 Copynumber: 4.3 Consensus size: 57
9451827 TTCGTATAAG
* * *
9451837 GAAAATTGATATTTTCAACTTTTTCC-C-AAAATATTTTTTCTG-AAACTTTAATTTCGAA
1 GAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTT-AGAAAAC-TTATTTTC-AA
* ***
9451895 GAAAATTGATACTTTTAACTTTTCCTCAAAAACCCTTTTTAGAAAA-TTATTTTCAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTC-AA
* * *
9451952 GAAAATTGATACTTTAAACTTTTCCTCGAAAATATTTTTTTGAAAACTTATTTTCAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
*
9452009 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTACTTTCAA
1 G-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
9452067 GAAAAATTGATACTTTCAA
1 G-AAAATTGATACTTTCAA
9452086 GGAAAATTGA
Statistics
Matches: 168, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
57 58 0.35
58 98 0.58
59 12 0.07
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.41
Consensus pattern (57 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
Found at i:9452015 original size:115 final size:115
Alignment explanation
Indices: 9451837--9452082 Score: 331
Period size: 115 Copynumber: 2.1 Consensus size: 115
9451827 TTCGTATAAG
* *
9451837 GAAAATTGATATTTTCAACTTTTTCCCAAAATATTTTTTCTGAAACTTTAATTTCGAAGAAAATT
1 GAAAATTGATACTTTAAACTTTTTCCCAAAATATTTTTTCTGAAACTTTAATTTCGAAGAAAATT
* * *
9451902 GATACTTTTAACTTTTCCTCAAAAACCCTTTTTAGAAAA-TTATTTTCAAA
66 GATACTTTCAACTTTTCCTCAAAAACACTTTTTAGAAAACTTACTTTC-AA
*
9451952 GAAAATTGATACTTTAAAC-TTTTCCTCGAAAATATTTTTT-TGAAAAC-TTATTTTC-AAGAAA
1 GAAAATTGATACTTTAAACTTTTTCC-C-AAAATATTTTTTCTG-AAACTTTAATTTCGAAG-AA
* *
9452013 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTACTTTCAA
62 AATTGATACTTTCAACTTTTCCTCAAAAACACTTTTTAGAAAACTTACTTTCAA
9452067 GAAAAATTGATACTTT
1 G-AAAATTGATACTTT
9452083 CAAGGAAAAT
Statistics
Matches: 117, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
114 9 0.08
115 71 0.61
116 37 0.32
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.42
Consensus pattern (115 bp):
GAAAATTGATACTTTAAACTTTTTCCCAAAATATTTTTTCTGAAACTTTAATTTCGAAGAAAATT
GATACTTTCAACTTTTCCTCAAAAACACTTTTTAGAAAACTTACTTTCAA
Found at i:9452082 original size:19 final size:19
Alignment explanation
Indices: 9452058--9452104 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
9452048 TTAGAAAACT
9452058 TACTTTCAAGAAAAATTGA
1 TACTTTCAAGAAAAATTGA
*
9452077 TACTTTCAAGGAAAATTGA
1 TACTTTCAAGAAAAATTGA
9452096 TACTTTCAA
1 TACTTTCAA
9452105 CTTTTCCTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.34
Consensus pattern (19 bp):
TACTTTCAAGAAAAATTGA
Found at i:9452184 original size:23 final size:24
Alignment explanation
Indices: 9452156--9452212 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
9452146 AAATCAAAAG
* * *
9452156 AAATAAAATAAA-GATAAAGATAA
1 AAATAAAATAAATAAAAAAAATAA
9452179 AAATAAAA-AAATAAAAAAAATAA
1 AAATAAAATAAATAAAAAAAATAA
9452202 AAATAAAATAA
1 AAATAAAATAA
9452213 GAAATACTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.10
23 24 0.83
24 2 0.07
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.16
Consensus pattern (24 bp):
AAATAAAATAAATAAAAAAAATAA
Found at i:9452186 original size:6 final size:6
Alignment explanation
Indices: 9452156--9452218 Score: 62
Period size: 6 Copynumber: 10.8 Consensus size: 6
9452146 AAATCAAAAG
* *
9452156 AAAT-A AAATAA AGATAA AGATAA AAATAA AAA-AA TAAA-AA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AAATAA
9452202 AAAT-A AAATAA GAAATA
1 AAATAA AAATAA -AAATA
9452219 CTAAATAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
5 14 0.27
6 32 0.63
7 5 0.10
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:9452190 original size:8 final size:8
Alignment explanation
Indices: 9452177--9452209 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
9452167 AGATAAAGAT
9452177 AAAAATAA
1 AAAAATAA
9452185 AAAAATAA
1 AAAAATAA
*
9452193 AAAAA-AT
1 AAAAATAA
9452200 AAAAATAA
1 AAAAATAA
9452208 AA
1 AA
9452210 TAAGAAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:9452202 original size:35 final size:35
Alignment explanation
Indices: 9452151--9452218 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
9452141 AAAGAAAATC
* *
9452151 AAAAGAAATAAAATAAAGATAAAGATAA-AAATAAA
1 AAAAGAAAAAAAATAAAAATAAA-ATAAGAAATAAA
*
9452186 AAAATAAAAAAAATAAAAATAAAATAAGAAATA
1 AAAAGAAAAAAAATAAAAATAAAATAAGAAATA
9452219 CTAAATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (35 bp):
AAAAGAAAAAAAATAAAAATAAAATAAGAAATAAA
Found at i:9452226 original size:14 final size:11
Alignment explanation
Indices: 9452156--9452218 Score: 72
Period size: 12 Copynumber: 5.5 Consensus size: 11
9452146 AAATCAAAAG
9452156 AAATAAAATAA
1 AAATAAAATAA
*
9452167 AGATAAAGATAA
1 AAATAAA-ATAA
*
9452179 AAATAAAAAAA
1 AAATAAAATAA
*
9452190 TAAAAAAAATAA
1 -AAATAAAATAA
9452202 AAATAAAATAA
1 AAATAAAATAA
9452213 GAAATA
1 -AAATA
9452219 CTAAATAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
11 19 0.44
12 24 0.56
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:9452252 original size:3 final size:3
Alignment explanation
Indices: 9452244--9452284 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
9452234 CTAATCAATA
*
9452244 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9452285 ATATATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9453146 original size:22 final size:23
Alignment explanation
Indices: 9453114--9453190 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 23
9453104 TAAAAAAAAT
* * *
9453114 AATAAT-AATATGTTAATTGCTA
1 AATAATAAATATATTAATAGATA
*
9453136 AA-AATAAATATATTAGTAGATA
1 AATAATAAATATATTAATAGATA
* *
9453158 AATAATAAATATATTCAAAAAATA
1 AATAATAAATATATT-AATAGATA
*
9453182 AAAAATAAA
1 AATAATAAA
9453191 AAAATAATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.07
22 16 0.36
23 12 0.27
24 13 0.30
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (23 bp):
AATAATAAATATATTAATAGATA
Found at i:9453502 original size:41 final size:41
Alignment explanation
Indices: 9453418--9453662 Score: 248
Period size: 41 Copynumber: 6.0 Consensus size: 41
9453408 TGATCAAAGT
* **
9453418 TCCTCTAAGT-AGAGGCTTAACGACTTT-GAAAATAAATAAC
1 TCCTCTAA-TCAGAGGCTCAACGACTTTGGAAAATAAATGGC
*
9453458 TCCTCTAATCAGAGGCTCAATGACTTTGGAAAATAAATGGC
1 TCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATGGC
* * * *
9453499 TCCTCTAATCAGAGGCTCAACAATTTTGAAAAATAAAAGGC
1 TCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATGGC
* * *
9453540 TCCTCTAATCAGAGGGTCAACGACTTTTGAAAAGTAAATTGC
1 TCCTCTAATCAGAGGCTCAACGACTTTGGAAAA-TAAATGGC
* * * **
9453582 TCCTCTCATCAGAGGCATC-ACAACTTTGAAAAATAAATTAC
1 TCCTCTAATCAGAGGC-TCAACGACTTTGGAAAATAAATGGC
*
9453623 TCCTCTAAAT-AGAGGCATC-ACAACTTTGGAAAAGTAAATG
1 TCCTCT-AATCAGAGGC-TCAACGACTTTGGAAAA-TAAATG
9453663 CTCATTGATG
Statistics
Matches: 174, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 23 0.13
41 110 0.63
42 38 0.22
43 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (41 bp):
TCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATGGC
Found at i:9453617 original size:83 final size:82
Alignment explanation
Indices: 9453418--9453665 Score: 276
Period size: 83 Copynumber: 3.0 Consensus size: 82
9453408 TGATCAAAGT
* * * *
9453418 TCCTCTAAGT-AGAGGCTTAACGACTTTG-AAAATAAATAACTCCTCTAATCAGAGGCTCAATGA
1 TCCTCTAA-TCAGAGGCTCAACAACTTTGAAAAATAAA-AACTCCTCTAATCAGAGGATCAACGA
*
9453481 CTTTGGAAAA-TAAATGGC
64 CTTTGGAAAAGTAAATTGC
* * *
9453499 TCCTCTAATCAGAGGCTCAACAATTTTGAAAAATAAAAGGCTCCTCTAATCAGAGGGTCAACGAC
1 TCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAAA-ACTCCTCTAATCAGAGGATCAACGAC
*
9453564 TTTTGAAAAGTAAATTGC
65 TTTGGAAAAGTAAATTGC
* *
9453582 TCCTCTCATCAGAGGCATC-ACAACTTTGAAAAATAAATTACTCCTCTAAAT-AGAGGCATC-AC
1 TCCTCTAATCAGAGGC-TCAACAACTTTGAAAAATAAA-AACTCCTCT-AATCAGAGG-ATCAAC
*
9453644 AACTTTGGAAAAGTAAA-TGC
62 GACTTTGGAAAAGTAAATTGC
9453664 TC
1 TC
9453666 ATTGATGATC
Statistics
Matches: 144, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
80 1 0.01
81 24 0.17
82 44 0.31
83 68 0.47
84 7 0.05
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (82 bp):
TCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAAAACTCCTCTAATCAGAGGATCAACGACT
TTGGAAAAGTAAATTGC
Found at i:9453637 original size:124 final size:122
Alignment explanation
Indices: 9453418--9453660 Score: 289
Period size: 124 Copynumber: 2.0 Consensus size: 122
9453408 TGATCAAAGT
*
9453418 TCCTCTAAGTAGAGGCTTAACGACTTTGAAAATAAATAACTCCTCTAATCAGAGGCTCAATGACT
1 TCCTCTAAGTAGAGGCTCAACGACTTTGAAAATAAATAACTCCTCTAATCAGAGGCTCAA-GACT
* * *
9453483 TTGGAAAATAAATGGCTCCTCTAATCAGAGGC-TCAACAA-TTTTGAAAAATAAAAGGC
65 TTGAAAAATAAATGACTCCTCTAATCAGAGGCATC-ACAACTTTGGAAAAATAAAAGGC
* ** *
9453540 TCCTCTAA-TCAGAGGGTCAACGACTTTTGAAAAGTAAATTGCTCCTCTCATCAGAGGCATCACA
1 TCCTCTAAGT-AGAGGCTCAACGAC-TTTGAAAA-TAAATAACTCCTCTAATCAGAGGC-TCA-A
* *
9453604 -ACTTTGAAAAATAAATTACTCCTCTAAAT-AGAGGCATCACAACTTTGGAAAAGTAAA
61 GACTTTGAAAAATAAATGACTCCTCT-AATCAGAGGCATCACAACTTTGGAAAAATAAA
9453661 TGCTCATTGA
Statistics
Matches: 103, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
121 1 0.01
122 20 0.19
123 8 0.08
124 53 0.51
125 20 0.19
126 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (122 bp):
TCCTCTAAGTAGAGGCTCAACGACTTTGAAAATAAATAACTCCTCTAATCAGAGGCTCAAGACTT
TGAAAAATAAATGACTCCTCTAATCAGAGGCATCACAACTTTGGAAAAATAAAAGGC
Found at i:9454702 original size:23 final size:24
Alignment explanation
Indices: 9454676--9454728 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
9454666 TTCATTCACT
9454676 TTTTCTTTTC-TTTTTTC-TTTTCA
1 TTTT-TTTTCATTTTTTCATTTTCA
*
9454699 TTTTTTTTCATTTTTTCATTTTTA
1 TTTTTTTTCATTTTTTCATTTTCA
9454723 TTTTTT
1 TTTTTT
9454729 CATTTCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.19
23 11 0.41
24 11 0.41
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTTTTCATTTTTTCATTTTCA
Found at i:9454704 original size:37 final size:36
Alignment explanation
Indices: 9454670--9454740 Score: 99
Period size: 37 Copynumber: 2.0 Consensus size: 36
9454660 TCCTTTTTCA
* *
9454670 TTCACTTTTTC-TTTTCTTTTTTCTTTTCATTTTTT
1 TTCACTTTTTCATTTTATTTTTTCATTTCATTTTTT
*
9454705 TTCATTTTTTCATTTTTATTTTTTCATTTCATTTTT
1 TTCACTTTTTCA-TTTTATTTTTTCATTTCATTTTT
9454741 ATTTTTTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 10 0.32
37 21 0.68
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (36 bp):
TTCACTTTTTCATTTTATTTTTTCATTTCATTTTTT
Found at i:9454712 original size:8 final size:8
Alignment explanation
Indices: 9454701--9454733 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
9454691 TCTTTTCATT
9454701 TTTTTTCA
1 TTTTTTCA
9454709 TTTTTTCA
1 TTTTTTCA
9454717 -TTTTT-A
1 TTTTTTCA
9454723 TTTTTTCA
1 TTTTTTCA
9454731 TTT
1 TTT
9454734 CATTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 1 0.04
7 10 0.43
8 12 0.52
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCA
Found at i:9454714 original size:11 final size:12
Alignment explanation
Indices: 9454670--9454745 Score: 66
Period size: 12 Copynumber: 6.2 Consensus size: 12
9454660 TCCTTTTTCA
9454670 TTCACTTTTTCTT
1 TTCA-TTTTTCTT
*
9454683 TTCTTTTTTCTT
1 TTCATTTTTCTT
9454695 TTCA-TTTT-TT
1 TTCATTTTTCTT
9454705 TTCATTTTTTCATT
1 TTCA-TTTTTC-TT
* *
9454719 TTTATTTTTTCAT
1 TTCA-TTTTTCTT
*
9454732 TTCATTTTTATT
1 TTCATTTTTCTT
9454744 TT
1 TT
9454746 TTCAAGCATA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
10 6 0.12
11 4 0.08
12 23 0.44
13 7 0.13
14 12 0.23
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCATTTTTCTT
Found at i:9454734 original size:19 final size:19
Alignment explanation
Indices: 9454681--9454749 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
9454671 TCACTTTTTC
* *
9454681 TTTTCTTTTTTCTTTTCAT
1 TTTTATTTTTTCATTTCAT
9454700 TTTT-TTTCATTT--TTTCAT
1 TTTTATTT--TTTCATTTCAT
9454718 TTTTATTTTTTCATTTCAT
1 TTTTATTTTTTCATTTCAT
9454737 TTTTATTTTTTCA
1 TTTTATTTTTTCA
9454750 AGCATAGTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.07
18 13 0.29
19 26 0.58
20 3 0.07
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTATTTTTTCATTTCAT
Found at i:9454749 original size:14 final size:15
Alignment explanation
Indices: 9454702--9454733 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
9454692 CTTTTCATTT
9454702 TTTTTCATTTTTTCA
1 TTTTTCATTTTTTCA
9454717 TTTTT-ATTTTTTCA
1 TTTTTCATTTTTTCA
9454731 TTT
1 TTT
9454734 CATTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTCATTTTTTCA
Found at i:9465275 original size:58 final size:57
Alignment explanation
Indices: 9465213--9465390 Score: 184
Period size: 58 Copynumber: 3.1 Consensus size: 57
9465203 TCGTACAATA
* * *
9465213 AAAATTGATATTTTCAACTTTTTTCCAAAATGTTTTTTCTGAAATTTTAATTTCGAGG
1 AAAATTGATATTTTCAACTTTTTTCAAAAATATTTTTT-TGAAATTTTAATTTCAAGG
** * * *
9465271 AAAATTGATACTTTT-AACTTTTTCTTGAAAATATTTTTTTGAAGA-CTTATTTTTAAGG
1 AAAATTGATA-TTTTCAACTTTTT-TCAAAAATATTTTTTTGAA-ATTTTAATTTCAAGG
* *
9465329 AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTTGAAATTTT-ATTT-AAAG
1 AAAATTGATATTTTCAACTTTT-TTCAAAAATA-TTTTTTTGAAATTTTAATTTCAAGG
9465386 AAAAT
1 AAAAT
9465391 CAAAAAATTA
Statistics
Matches: 100, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
57 11 0.11
58 59 0.59
59 30 0.30
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (57 bp):
AAAATTGATATTTTCAACTTTTTTCAAAAATATTTTTTTGAAATTTTAATTTCAAGG
Found at i:9465403 original size:6 final size:6
Alignment explanation
Indices: 9465393--9465455 Score: 74
Period size: 6 Copynumber: 10.2 Consensus size: 6
9465383 AAGAAAATCA
* *
9465393 AAAAATT AAAAAT AAAAAT AAAAAT AAAGAT AAAATT AAAAAAT AAAAAT
1 AAAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT
9465443 -AAAAT AAGAAAT A
1 AAAAAT AA-AAAT A
9465456 CTAAATAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
5 5 0.10
6 29 0.59
7 15 0.31
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:9465447 original size:19 final size:19
Alignment explanation
Indices: 9465386--9465447 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
9465376 TTATTTAAAG
*
9465386 AAAATCAAAAAATTAAAAAT
1 AAAATTAAAAAA-TAAAAAT
* *
9465406 AAAAAT-AAAAATAAAGAT
1 AAAATTAAAAAATAAAAAT
9465424 AAAATTAAAAAATAAAAAT
1 AAAATTAAAAAATAAAAAT
9465443 AAAAT
1 AAAAT
9465448 AAGAAATACT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 11 0.31
19 21 0.58
20 4 0.11
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAATTAAAAAATAAAAAT
Found at i:9465463 original size:19 final size:16
Alignment explanation
Indices: 9465401--9465455 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 16
9465391 CAAAAAATTA
9465401 AAAATAAAAATAAAAAT
1 AAAAT-AAAATAAAAAT
9465418 AAAGATAAAATTAAAAAAT
1 AAA-ATAAAA-T-AAAAAT
9465437 AAAAATAAAATAAGAAAT
1 -AAAATAAAATAA-AAAT
9465455 A
1 A
9465456 CTAAATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
17 10 0.30
18 8 0.24
19 12 0.36
20 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:9465463 original size:25 final size:25
Alignment explanation
Indices: 9465399--9465455 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
9465389 ATCAAAAAAT
9465399 TAAAAAT-AAAAATAAAAATAAAGA
1 TAAAAATAAAAAATAAAAATAAAGA
*
9465423 TAAAATTAAAAAATAAAAATAAA-A
1 TAAAAATAAAAAATAAAAATAAAGA
9465447 TAAGAAATA
1 TAA-AAATA
9465456 CTAAATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (25 bp):
TAAAAATAAAAAATAAAAATAAAGA
Found at i:9466354 original size:37 final size:42
Alignment explanation
Indices: 9466271--9466360 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 42
9466261 AGAAAAAAAA
*
9466271 AGATAAATAATATAAAGAAAACATATATATATATATATTAAT
1 AGATAAATAATATAAAGAAAACATATATATATATATATTAAC
* * *
9466313 AGATAAATGATA-AAA-AAAATA-ATA-ATA-ATATGTTAAC
1 AGATAAATAATATAAAGAAAACATATATATATATATATTAAC
9466350 AGATAAA-AATA
1 AGATAAATAATA
9466361 AATATATTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
36 3 0.07
37 15 0.35
38 3 0.07
39 3 0.07
40 5 0.12
41 3 0.07
42 11 0.26
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (42 bp):
AGATAAATAATATAAAGAAAACATATATATATATATATTAAC
Found at i:9466387 original size:23 final size:23
Alignment explanation
Indices: 9466333--9466391 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
9466323 TAAAAAAAAT
*
9466333 AATAAT-AATATGTTAACAGATA
1 AATAATAAATATATTAACAGATA
**
9466355 AA-AATAAATATATTAGTAGATA
1 AATAATAAATATATTAACAGATA
9466377 AATAATAAATATATT
1 AATAATAAATATATT
9466392 CAAAAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 17 0.53
23 12 0.38
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.34
Consensus pattern (23 bp):
AATAATAAATATATTAACAGATA
Found at i:9466413 original size:9 final size:9
Alignment explanation
Indices: 9466376--9466435 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 9
9466366 ATTAGTAGAT
9466376 AAATAATAA
1 AAATAATAA
* * *
9466385 ATATATTCA
1 AAATAATAA
9466394 AAA-AATAAA
1 AAATAAT-AA
9466403 AAATAATAA
1 AAATAATAA
9466412 AAATAATAA
1 AAATAATAA
* *
9466421 TACTAATAA
1 AAATAATAA
9466430 AAATAA
1 AAATAA
9466436 AAGCAAAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
8 2 0.05
9 34 0.87
10 3 0.08
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (9 bp):
AAATAATAA
Found at i:9467763 original size:58 final size:56
Alignment explanation
Indices: 9467701--9467879 Score: 173
Period size: 59 Copynumber: 3.1 Consensus size: 56
9467691 TTCGTACAAT
* * *
9467701 AAAAATTGATATTTTCAACTTTTTTCCAAAATGTTTTTTCTGAAATTTTAATTTTGAG
1 AAAAATTGATATTTTCAACTTTTTT-CAAAATATTTTTT-TGAAATTTTATTTTTAAG
* * **
9467759 AAAAATTGATACTTTT-AACTTTTTCTTGAAAATATTTTTTTTAAAGACTTATTTTTAAG
1 AAAAATTGATA-TTTTCAAC-TTTT-TTCAAAATATTTTTTTGAAA-TTTTATTTTTAAG
* *
9467818 GAAAATTGATACTTTCAACTTTTCTTCAAAATATATTTTTTTG-AATTTTATTTTTAAAG
1 AAAAATTGATATTTTCAACTTTT-TTC-AAA-ATATTTTTTTGAAATTTTATTTTT-AAG
9467877 AAA
1 AAA
9467880 TCCAAAAAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
58 36 0.36
59 51 0.52
60 12 0.12
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.50
Consensus pattern (56 bp):
AAAAATTGATATTTTCAACTTTTTTCAAAATATTTTTTTGAAATTTTATTTTTAAG
Done.