Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 20 of 133
Found at i:4892934 original size:13 final size:13
Alignment explanation
Indices: 4892904--4892937 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4892894 TTAATTCATT
*
4892904 TTTTACTTAATTA
1 TTTTATTTAATTA
4892917 TTTTATTTAATTA
1 TTTTATTTAATTA
4892930 TTTTATTT
1 TTTTATTT
4892938 GTTGATTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTATTTAATTA
Found at i:4893875 original size:51 final size:50
Alignment explanation
Indices: 4893820--4893940 Score: 138
Period size: 51 Copynumber: 2.4 Consensus size: 50
4893810 TAGAAGGAAT
4893820 AGTTGAAATATCAATCTTTCCTTTAAAATAATTTCAAAGGA-TTTAAAGAAA-
1 AGTTGAAATATCAAT-TTTCCTTTAAAATAATTT-AAA-GATTTTAAAGAAAG
* * * *
4893871 AGTTGAAATATCAAATTTTCTTTTAAAATGATTTTAAGATTTTTAAGGAAAG
1 AGTTGAAATATC-AATTTTCCTTTAAAATAATTTAAAGA-TTTTAAAGAAAG
*
4893923 AATTGAAATATCAATTTT
1 AGTTGAAATATCAATTTT
4893941 TTCTTAAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
49 2 0.03
50 2 0.03
51 43 0.70
52 14 0.23
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.40
Consensus pattern (50 bp):
AGTTGAAATATCAATTTTCCTTTAAAATAATTTAAAGATTTTAAAGAAAG
Found at i:4893957 original size:52 final size:49
Alignment explanation
Indices: 4893822--4893957 Score: 132
Period size: 51 Copynumber: 2.7 Consensus size: 49
4893812 GAAGGAATAG
* * * *
4893822 TTGAAATATCAATCTTTCCTTTAAAATAATTTCAAAGGATTTAAAGAAAAG
1 TTGAAATATCAATTTTTTC-TTAAAATAATTT-TAAGGATTTAAAGAAAAA
* *
4893873 TTGAAATATCAAATTTTCTT-TTAAAATGATTTTAA-GATTTTTAAGGAAAGAA
1 TTGAAATATC-AATTTT-TTCTTAAAATAATTTTAAGGA--TTTAAAGAAA-AA
4893925 TTGAAATATCAATTTTTTCTTAAAATTAATTTT
1 TTGAAATATCAATTTTTTCTTAAAA-TAATTTT
4893958 CTTCTGAAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
49 2 0.03
50 4 0.06
51 42 0.59
52 22 0.31
53 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.43
Consensus pattern (49 bp):
TTGAAATATCAATTTTTTCTTAAAATAATTTTAAGGATTTAAAGAAAAA
Found at i:4900287 original size:33 final size:33
Alignment explanation
Indices: 4900242--4900319 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
4900232 CATTTTTTTA
* **
4900242 AACTTCGTCTAAGT-TCAAGTCATTTCATTTTCT
1 AACTTCGACTAAGTCT-AAGTCATACCATTTTCT
*
4900275 AACTTCGACTAAGTCTAAGTCATACCATTTTTT
1 AACTTCGACTAAGTCTAAGTCATACCATTTTCT
*
4900308 GACTTCGACTAA
1 AACTTCGACTAA
4900320 AATTATGACA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 38 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (33 bp):
AACTTCGACTAAGTCTAAGTCATACCATTTTCT
Found at i:4900843 original size:17 final size:16
Alignment explanation
Indices: 4900813--4900850 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
4900803 CAATTGTCGA
*
4900813 ATTT-TTTTATTTTTT
1 ATTTATTTTATTTTTG
4900828 ATTTATTTTATATTTTG
1 ATTTATTTTAT-TTTTG
4900845 ATTTAT
1 ATTTAT
4900851 ATTGTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 10 0.50
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
ATTTATTTTATTTTTG
Found at i:4902037 original size:13 final size:13
Alignment explanation
Indices: 4902019--4902044 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4902009 TAAAATATTA
4902019 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
4902032 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
4902045 TTAGAGGGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTTTAAAAAT
Found at i:4902248 original size:101 final size:106
Alignment explanation
Indices: 4902094--4902326 Score: 273
Period size: 103 Copynumber: 2.3 Consensus size: 106
4902084 AGATAAAATA
* * * *
4902094 TAAGAAAAAAGTTGAATTATCAATTTTTTCTTGAATAAAAAATAATTTCAAAAACT-GAGAAAAA
1 TAAGGAAAAAGTTGAAATATTAATTTTTTCTTAAATAAAAAATAATTTCAAAAA-TAGAGAAAAA
* * *
4902158 AGTTGAATTATTAAGTTTTCCTT-AAATAATTTC-AA-TTTT
65 AGTTGAAATATCAAGTTTTCCTTAAAATAATTTCAAAGTATT
* * * ** *
4902197 TTAGGAAAAATTTGAAATATTAATTTTTT-TTAAAT-AAAATTAATTTCAAAAATAGAGGGAAGA
1 TAAGGAAAAAGTTGAAATATTAATTTTTTCTTAAATAAAAAATAATTTCAAAAATAGAGAAAAAA
* *
4902260 GTTGAAATATCAATTTTTCTTTAAAATAATTTCAAAGTATT
66 GTTGAAATATCAAGTTTTCCTTAAAATAATTTCAAAGTATT
4902301 TAAGG-AAAAGTTGAAATATTAATTTT
1 TAAGGAAAAAGTTGAAATATTAATTTT
4902327 CCCTTTAAAA
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
100 1 0.01
101 40 0.37
102 15 0.14
103 46 0.42
104 7 0.06
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.39
Consensus pattern (106 bp):
TAAGGAAAAAGTTGAAATATTAATTTTTTCTTAAATAAAAAATAATTTCAAAAATAGAGAAAAAA
GTTGAAATATCAAGTTTTCCTTAAAATAATTTCAAAGTATT
Found at i:4902354 original size:51 final size:51
Alignment explanation
Indices: 4902155--4902378 Score: 162
Period size: 53 Copynumber: 4.4 Consensus size: 51
4902145 AAACTGAGAA
* * * * *
4902155 AAAAGTTGAATTATTAAGTTTTCC-TT-AAATAATTTC-AA-TTTTTTAGGA
1 AAAAGTTGAAATATCAA-TTTTCCTTTAAAATAATTTCAAAGTATTTAAGGG
* * ** *
4902203 AAAATTTGAAATATTAATTTTTTTTAAATAAAATTAATTTCAAA--A-ATAGAGGG
1 AAAAGTTGAAATATCAATTTTCCTT---TAAAA-TAATTTCAAAGTATTTA-AGGG
* *
4902256 AAGAGTTGAAATATCAATTTTTCTTTAAAATAATTTCAAAGTATTTAA-GG
1 AAAAGTTGAAATATCAATTTTCCTTTAAAATAATTTCAAAGTATTTAAGGG
* * *
4902306 AAAAGTTGAAATATTAATTTTCCCTTTAAAATGATTTC-AAGATTTTTAAGGG
1 AAAAGTTGAAATATCAATTTT-CCTTTAAAATAATTTCAAAG-TATTTAAGGG
4902358 AAGAA-TTGAAATATCAATTTT
1 AA-AAGTTGAAATATCAATTTT
4902379 TTCTTAAAAT
Statistics
Matches: 142, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
47 4 0.03
48 16 0.11
49 10 0.07
50 29 0.20
51 23 0.16
52 25 0.18
53 33 0.23
54 2 0.01
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.41
Consensus pattern (51 bp):
AAAAGTTGAAATATCAATTTTCCTTTAAAATAATTTCAAAGTATTTAAGGG
Found at i:4902386 original size:51 final size:52
Alignment explanation
Indices: 4902252--4902394 Score: 170
Period size: 51 Copynumber: 2.8 Consensus size: 52
4902242 TCAAAAATAG
*
4902252 AGGGAAGAGTTGAAATATCAA-TTTTTCTTTAAAATAATTTCAAAGTATTTA
1 AGGGAAGAATTGAAATATCAATTTTTTCTTTAAAATAATTTCAAAGTATTTA
* ** * *
4902303 A-GGAA-AAGTTGAAATATTAATTTTCCCTTTAAAATGATTTC-AAGATTTTTA
1 AGGGAAGAA-TTGAAATATCAATTTTTTCTTTAAAATAATTTCAAAG-TATTTA
4902354 AGGGAAGAATTGAAATATCAATTTTTTC-TTAAAATTAATTT
1 AGGGAAGAATTGAAATATCAATTTTTTCTTTAAAA-TAATTT
4902395 TCTTCTAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
49 1 0.01
50 18 0.24
51 30 0.39
52 25 0.33
53 2 0.03
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.41
Consensus pattern (52 bp):
AGGGAAGAATTGAAATATCAATTTTTTCTTTAAAATAATTTCAAAGTATTTA
Found at i:4902395 original size:17 final size:17
Alignment explanation
Indices: 4902373--4902405 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4902363 TTGAAATATC
4902373 AATTTT-TTCTTAAAATT
1 AATTTTCTTC-TAAAATT
4902390 AATTTTCTTCTAAAAT
1 AATTTTCTTCTAAAAT
4902406 GCTAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTTCTTCTAAAATT
Found at i:4903848 original size:31 final size:31
Alignment explanation
Indices: 4903782--4903871 Score: 145
Period size: 31 Copynumber: 3.1 Consensus size: 31
4903772 CATTAATAAT
4903782 AAATTTCATGAATTAATGTAAC-TTG--AT-
1 AAATTTCATGAATTAATGTAACTTTGATATA
4903809 AAA-TTCATGAATTAATGTAACTTTGATATA
1 AAATTTCATGAATTAATGTAACTTTGATATA
4903839 AAATTTCATGAATTAATGTAACTTTGATATA
1 AAATTTCATGAATTAATGTAACTTTGATATA
4903870 AA
1 AA
4903872 CACATTCAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
26 18 0.31
27 6 0.10
29 2 0.03
30 3 0.05
31 29 0.50
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (31 bp):
AAATTTCATGAATTAATGTAACTTTGATATA
Found at i:4908919 original size:16 final size:16
Alignment explanation
Indices: 4908900--4908930 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4908890 ACTTTTTTAA
*
4908900 TCTAATTATAAAAAAG
1 TCTAATAATAAAAAAG
4908916 TCTAATAATAAAAAA
1 TCTAATAATAAAAAA
4908931 TTTATTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.29
Consensus pattern (16 bp):
TCTAATAATAAAAAAG
Found at i:4915881 original size:31 final size:31
Alignment explanation
Indices: 4915846--4915912 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
4915836 CATTAATAAC
*
4915846 ATAAATTTTCATGAATTAATGTAACTTTGAT
1 ATAAAATTTCATGAATTAATGTAACTTTGAT
4915877 ATAAAATTTCATGAATTAATGTAACTTTGAT
1 ATAAAATTTCATGAATTAATGTAACTTTGAT
4915908 ATAAA
1 ATAAA
4915913 CACATTCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (31 bp):
ATAAAATTTCATGAATTAATGTAACTTTGAT
Found at i:4920945 original size:16 final size:16
Alignment explanation
Indices: 4920926--4920956 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4920916 ACTTTTGTAA
*
4920926 TCTAATTATAAAAAAG
1 TCTAATAATAAAAAAG
4920942 TCTAATAATAAAAAA
1 TCTAATAATAAAAAA
4920957 TTTATTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.29
Consensus pattern (16 bp):
TCTAATAATAAAAAAG
Found at i:4921143 original size:19 final size:19
Alignment explanation
Indices: 4921100--4921146 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
4921090 ATTTAAATTA
*
4921100 AATTTAAATAAAAGTTAAT
1 AATTTAAAAAAAAGTTAAT
* *
4921119 -ATTTAAAAAAAATTTATT
1 AATTTAAAAAAAAGTTAAT
4921137 AATTTAAAAA
1 AATTTAAAAA
4921147 TTGATAAGCG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATTTAAAAAAAAGTTAAT
Found at i:4922703 original size:15 final size:15
Alignment explanation
Indices: 4922680--4922710 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4922670 TCCATAGAAA
4922680 TTAGGGAAAAAAAAT
1 TTAGGGAAAAAAAAT
*
4922695 TTAGTGAAAAAAAAT
1 TTAGGGAAAAAAAAT
4922710 T
1 T
4922711 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (15 bp):
TTAGGGAAAAAAAAT
Found at i:4927498 original size:121 final size:120
Alignment explanation
Indices: 4927284--4927523 Score: 392
Period size: 121 Copynumber: 2.0 Consensus size: 120
4927274 ATGGAATGTC
* * *
4927284 TACCCATAAAATCCTATAACTCTCTTATATCTTTTTTCTCATACCTAACCTGTAGAGACTTCACC
1 TACCCATAAAATCCTACAACTCTCTTACATCTTTTTTCTCATACCTAACCTGTAGAAACTTCACC
4927349 TATTTATAACCATACAAACTTGCCTATTAAGAATCCCTCTCCTCTAAGAATTTTTT
66 TATTTATAACCATACAAACTTGCCTATTAA-AATCCCTCTCCTCTAAGAATTTTTT
*
4927405 TACCCATAAAATCTTACAACTCTCTTACATC-TTTTTCTCATACCTAATCCTGTAGAAACTTCAC
1 TACCCATAAAATCCTACAACTCTCTTACATCTTTTTTCTCATACCTAA-CCTGTAGAAACTTCAC
* * *
4927469 CTATTTATAACCATATAAACTTGCCTATTAAAATCCCTTTCCTCTTAGAATTTTT
65 CTATTTATAACCATACAAACTTGCCTATTAAAATCCCTCTCCTCTAAGAATTTTT
4927524 CTTTTACAAG
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
120 38 0.34
121 73 0.66
ACGTcount: A:0.31, C:0.26, G:0.04, T:0.39
Consensus pattern (120 bp):
TACCCATAAAATCCTACAACTCTCTTACATCTTTTTTCTCATACCTAACCTGTAGAAACTTCACC
TATTTATAACCATACAAACTTGCCTATTAAAATCCCTCTCCTCTAAGAATTTTTT
Found at i:4927562 original size:52 final size:51
Alignment explanation
Indices: 4927489--4927586 Score: 135
Period size: 52 Copynumber: 1.9 Consensus size: 51
4927479 CCATATAAAC
*
4927489 TTGCCTATTAAAATCCCTTTCCTCTTAGAATTTTTCT-TTTACAAGTCAAAT
1 TTGCCTATTAAAATCCCTTTCCTCTTAAAATTTTT-TGTTTACAAGTCAAAT
* * *
4927540 TTGCTTATTAGAAATCTCTTTCCTTTTAAAATTTTTTGTTTACAAGT
1 TTGCCTATTA-AAATCCCTTTCCTCTTAAAATTTTTTGTTTACAAGT
4927587 TTTTTTGTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
51 10 0.24
52 31 0.76
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.49
Consensus pattern (51 bp):
TTGCCTATTAAAATCCCTTTCCTCTTAAAATTTTTTGTTTACAAGTCAAAT
Found at i:4928479 original size:52 final size:52
Alignment explanation
Indices: 4928396--4928499 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
4928386 ATAATCATAC
* * * * *
4928396 AAACTTTCCTATTAAAAATTTCTCTCTTTTTAGAATTCTTTTTTTGTAAGTT
1 AAACTTACCTATTAAAAATATCTCTCCTTTTAAAATTCTTCTTTTGTAAGTT
* *
4928448 AAACTTACCTATTAAGAATATCTTTCCTTTTAAAATTCTTCTTTTGTAAGTT
1 AAACTTACCTATTAAAAATATCTCTCCTTTTAAAATTCTTCTTTTGTAAGTT
4928500 TTCTTGTCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.29, C:0.14, G:0.06, T:0.51
Consensus pattern (52 bp):
AAACTTACCTATTAAAAATATCTCTCCTTTTAAAATTCTTCTTTTGTAAGTT
Found at i:4930214 original size:2 final size:2
Alignment explanation
Indices: 4930207--4930248 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
4930197 CACCAATCTA
4930207 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4930248 A
1 A
4930249 ACATACAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4931208 original size:15 final size:15
Alignment explanation
Indices: 4931171--4931201 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4931161 CTACATTCAG
4931171 TTACTTTTATATCAA
1 TTACTTTTATATCAA
*
4931186 TTATTTTTATATCAA
1 TTACTTTTATATCAA
4931201 T
1 T
4931202 GTCTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TTACTTTTATATCAA
Found at i:4936625 original size:16 final size:15
Alignment explanation
Indices: 4936606--4936635 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4936596 TTATTAATTC
4936606 AAAATAAAAGTATAAG
1 AAAATAAAA-TATAAG
4936622 AAAATAAAATATAA
1 AAAATAAAATATAA
4936636 CAAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (15 bp):
AAAATAAAATATAAG
Found at i:4937573 original size:26 final size:24
Alignment explanation
Indices: 4937539--4937590 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
4937529 TTTAAATTAT
*
4937539 AAATATATTAATTAATATAATATTTA
1 AAATATATTAATCAAT-T-ATATTTA
* *
4937565 AAATTTATTTATCAATTATATTTA
1 AAATATATTAATCAATTATATTTA
4937589 AA
1 AA
4937591 GTTAATGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 9 0.39
25 1 0.04
26 13 0.57
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAATATATTAATCAATTATATTTA
Found at i:4937668 original size:29 final size:29
Alignment explanation
Indices: 4937608--4937692 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
4937598 ATGTTAAGAG
*
4937608 TAAATAATATATTAATTAATAATTTTATAATT
1 TAAATAATATATTAA--AA-AATTTTAAAATT
*
4937640 TAAGTAATATATTAAAAAATTTTAAAATT
1 TAAATAATATATTAAAAAATTTTAAAATT
* *
4937669 TAAATATTATATT-AAATATTTTAA
1 TAAATAATATATTAAAAAATTTTAA
4937693 TATAATTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
28 10 0.21
29 22 0.46
30 2 0.04
32 14 0.29
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (29 bp):
TAAATAATATATTAAAAAATTTTAAAATT
Found at i:4938635 original size:18 final size:20
Alignment explanation
Indices: 4938596--4938635 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
4938586 AGTAACAAAT
*
4938596 CAAATAGAAAAGAAACATTA
1 CAAATAGAAAAGAAACAATA
4938616 CAAA-AGAAAA-AAACAATA
1 CAAATAGAAAAGAAACAATA
4938634 CA
1 CA
4938636 GTGTCCACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 6 0.32
20 4 0.21
ACGTcount: A:0.70, C:0.12, G:0.07, T:0.10
Consensus pattern (20 bp):
CAAATAGAAAAGAAACAATA
Found at i:4940992 original size:2 final size:2
Alignment explanation
Indices: 4940985--4941039 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
4940975 TTGGGCACAA
4940985 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4941027 TC TC TC TC TC TC T
1 TC TC TC TC TC TC T
4941040 GTGACACATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:4941359 original size:22 final size:22
Alignment explanation
Indices: 4941334--4941418 Score: 59
Period size: 22 Copynumber: 4.0 Consensus size: 22
4941324 TGTATATTTA
*
4941334 TATTTATGTCTCTAGAATTAAG
1 TATTTATATCTCTAGAATTAAG
* *
4941356 TATTTGTATCTTTAGAATTAAAG
1 TATTTATATCTCTAGAATT-AAG
* * **
4941379 -A-TAAAAAAT-TAGAATTAAG
1 TATTTATATCTCTAGAATTAAG
* *
4941398 TATTTGTATCCCTAGAATTAA
1 TATTTATATCTCTAGAATTAA
4941419 AGACAAAAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
19 3 0.07
20 8 0.18
21 5 0.11
22 26 0.58
23 3 0.07
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (22 bp):
TATTTATATCTCTAGAATTAAG
Found at i:4941405 original size:42 final size:42
Alignment explanation
Indices: 4941346--4941432 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
4941336 TTTATGTCTC
** *
4941346 TAGAATTAAGTATTTGTATCTTTAGAATTAAAGATAAAAAAT
1 TAGAATTAAGTATTTGTATCCCTAGAATTAAAGACAAAAAAT
4941388 TAGAATTAAGTATTTGTATCCCTAGAATTAAAGACAAAAAAT
1 TAGAATTAAGTATTTGTATCCCTAGAATTAAAGACAAAAAAT
4941430 TAG
1 TAG
4941433 GATAGACAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (42 bp):
TAGAATTAAGTATTTGTATCCCTAGAATTAAAGACAAAAAAT
Found at i:4947596 original size:19 final size:19
Alignment explanation
Indices: 4947574--4947614 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4947564 TTTTGCCTCA
*
4947574 TTTCTCTTCTTTTCTCTTT
1 TTTCTCTTCTTTTCTATTT
* *
4947593 TTTCTTTTTTTTTCTATTT
1 TTTCTCTTCTTTTCTATTT
4947612 TTT
1 TTT
4947615 TATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTCTCTTCTTTTCTATTT
Found at i:4947650 original size:3 final size:3
Alignment explanation
Indices: 4947637--4947674 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
4947627 TAATTAATTA
*
4947637 ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4947675 AAAATGGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:4947960 original size:22 final size:22
Alignment explanation
Indices: 4947934--4947977 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4947924 TGTATATTTA
*
4947934 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
*
4947956 TATTTGTATCCCTATAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4947978 GATAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:4950493 original size:23 final size:22
Alignment explanation
Indices: 4950456--4950507 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
4950446 ATATAAACTT
4950456 ATTTAAAAATATA-TTAAATAAA
1 ATTTAAAAATATATTTAAA-AAA
*
4950478 ATTTAAAAATTTTATTTAAAAAA
1 ATTTAAAAA-TATATTTAAAAAA
4950501 ATATTAA
1 AT-TTAA
4950508 TGTTTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 9 0.35
23 8 0.31
24 9 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTTAAAAATATATTTAAAAAA
Found at i:4961509 original size:27 final size:28
Alignment explanation
Indices: 4961479--4961540 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
4961469 TTTAATTGGT
*
4961479 AATAAATAAACG-AAAAAGTT-AAATTTG
1 AATAAATAAACGCAAAAA-TTCAAATTTA
*
4961506 AATATAA-AATCGCAAAAATTCAAATTTA
1 AATA-AATAAACGCAAAAATTCAAATTTA
4961534 AATAAAT
1 AATAAAT
4961541 TAATTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
27 12 0.41
28 17 0.59
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.27
Consensus pattern (28 bp):
AATAAATAAACGCAAAAATTCAAATTTA
Found at i:4962267 original size:33 final size:33
Alignment explanation
Indices: 4962225--4962290 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
4962215 TGGGAGTTGG
4962225 GCCCATCTCTTGCATGATTTAAACTGAAGACTT
1 GCCCATCTCTTGCATGATTTAAACTGAAGACTT
4962258 GCCCATCTCTTGCATGATTTAAACTGAAGACTT
1 GCCCATCTCTTGCATGATTTAAACTGAAGACTT
4962291 ACCTTTAGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.33
Consensus pattern (33 bp):
GCCCATCTCTTGCATGATTTAAACTGAAGACTT
Found at i:4964296 original size:15 final size:17
Alignment explanation
Indices: 4964274--4964314 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
4964264 TTAATTCAAT
4964274 TAATTTAAAT-AA-TTA
1 TAATTTAAATAAATTTA
*
4964289 TCATTT-AATAAATTTA
1 TAATTTAAATAAATTTA
4964305 TAATTTAAAT
1 TAATTTAAAT
4964315 TTTAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 3 0.14
15 7 0.33
16 8 0.38
17 3 0.14
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATTTAAATAAATTTA
Found at i:4977934 original size:2 final size:2
Alignment explanation
Indices: 4977927--4977958 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4977917 TAGTTTACAT
4977927 TA 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 TA
4977959 CACACACACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4986078 original size:10 final size:9
Alignment explanation
Indices: 4986059--4986102 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
4986049 ACAGGTGATC
4986059 TTTTTAATA
1 TTTTTAATA
4986068 TTTTTACATA
1 TTTTTA-ATA
4986078 TTTTTAATA
1 TTTTTAATA
*
4986087 TTTTTATTAA
1 TTTTTAAT-A
4986097 TTTTTA
1 TTTTTA
4986103 TCAATCAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 16 0.50
10 16 0.50
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTAATA
Found at i:4986213 original size:2 final size:2
Alignment explanation
Indices: 4986206--4986241 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4986196 TTTCTCATGA
4986206 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4986242 CGTCGCTTTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4988230 original size:14 final size:14
Alignment explanation
Indices: 4988207--4988236 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4988197 CTTTAAGAAG
4988207 TTTCTCTTTCTCTT
1 TTTCTCTTTCTCTT
*
4988221 TTTCTTTTTCTCTT
1 TTTCTCTTTCTCTT
4988235 TT
1 TT
4988237 ATCCATTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTCTCTTTCTCTT
Found at i:4989938 original size:4 final size:4
Alignment explanation
Indices: 4989929--4989958 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
4989919 AATATTTTAA
*
4989929 AAAT AAAT AAAT AAAT AAAT AAAT ATAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
4989959 CATAGCAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:4993041 original size:108 final size:108
Alignment explanation
Indices: 4992848--4993077 Score: 325
Period size: 108 Copynumber: 2.1 Consensus size: 108
4992838 TTAGGACAGG
** ** ** * *
4992848 ACCAGCATATGAATGTTGACTGGCACCTATGTCTTCAGTGAGATGAACAGGTTTTTTATGACTAT
1 ACCAGCATATGAATGACGACTGAAACCTATAACTTCAGTGAGATGAACAGGCTTTTGATGACTAT
* * *
4992913 AACAAGTATTAGAGATTCTTAACCTTGAGTTTTGCTTCTTCAT
66 AACAAGTATTAGAGACTCTTAACCTTGAGTTCTGATTCTTCAT
*
4992956 ACCAGCATATGAATGACGAGTGAAACCTATAACTTCAGTGAGATGAACAGGCTTTTGATGACTAT
1 ACCAGCATATGAATGACGACTGAAACCTATAACTTCAGTGAGATGAACAGGCTTTTGATGACTAT
*
4993021 AAGAAGTATTAGAGACTCTTAACCTTGAGTTCTGATTCTTCAT
66 AACAAGTATTAGAGACTCTTAACCTTGAGTTCTGATTCTTCAT
* *
4993064 ACCGGCAAATGAAT
1 ACCAGCATATGAAT
4993078 TCGCTTGGTA
Statistics
Matches: 107, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (108 bp):
ACCAGCATATGAATGACGACTGAAACCTATAACTTCAGTGAGATGAACAGGCTTTTGATGACTAT
AACAAGTATTAGAGACTCTTAACCTTGAGTTCTGATTCTTCAT
Found at i:5004042 original size:22 final size:22
Alignment explanation
Indices: 5004017--5004074 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
5004007 TTCTTATATA
*
5004017 TTATTAATATTCTCATTAAA-TT
1 TTATTAATATT-TAATTAAATTT
*
5004039 TTATTAATGTATTAATTAAATTT
1 TTATTAATAT-TTAATTAAATTT
5004062 TTATTAAATATTT
1 TTATT-AATATTT
5004075 TTAATAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 16 0.53
23 10 0.33
24 4 0.13
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATTAATATTTAATTAAATTT
Found at i:5004052 original size:33 final size:33
Alignment explanation
Indices: 5004015--5004079 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
5004005 ATTTCTTATA
5004015 TATT-ATTAATATTCTCATTAAAT-TTTATTAATG
1 TATTAATTAA-ATTCTCATTAAATATTT-TTAATG
* *
5004048 TATTAATTAAATTTTTATTAAATATTTTTAAT
1 TATTAATTAAATTCTCATTAAATATTTTTAAT
5004080 AAACATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 20 0.71
34 8 0.29
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (33 bp):
TATTAATTAAATTCTCATTAAATATTTTTAATG
Found at i:5013980 original size:16 final size:16
Alignment explanation
Indices: 5013955--5013990 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
5013945 TCAATTGTCC
5013955 TAATTTA-T-TTTTAT
1 TAATTTATTATTTTAT
5013969 T-ATTTATTATTTTAT
1 TAATTTATTATTTTAT
5013984 TAATTTA
1 TAATTTA
5013991 GATTTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.26
14 2 0.11
15 7 0.37
16 5 0.26
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TAATTTATTATTTTAT
Found at i:5014640 original size:18 final size:18
Alignment explanation
Indices: 5014617--5014653 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
5014607 AATCTAACCT
*
5014617 AATCTAATCTTTCTCCAA
1 AATCTAATATTTCTCCAA
5014635 AATCTAATATTTCTCCAA
1 AATCTAATATTTCTCCAA
5014653 A
1 A
5014654 TGAAAACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (18 bp):
AATCTAATATTTCTCCAA
Found at i:5016009 original size:27 final size:24
Alignment explanation
Indices: 5015950--5016010 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 24
5015940 CTGGCAAGTT
*
5015950 TGAAGAAGCTGAAGGAGAGCGCAA
1 TGAAGAAGCTGAAGGAGAGCCCAA
*
5015974 TGAAAAAGCTGAAGGAGAGCCTACCAA
1 TGAAGAAGCTGAAGGAGAG-C--CCAA
5016001 TGAAGAAGCT
1 TGAAGAAGCT
5016011 CTTACCAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.58
25 1 0.03
27 12 0.39
ACGTcount: A:0.43, C:0.15, G:0.31, T:0.11
Consensus pattern (24 bp):
TGAAGAAGCTGAAGGAGAGCCCAA
Found at i:5024844 original size:20 final size:21
Alignment explanation
Indices: 5024819--5024865 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
5024809 ATATTTTATA
*
5024819 TTTATA-TTAAAAATTAATAT
1 TTTATATTTAAAAAATAATAT
5024839 TTTATATTTTAAAAAATAATAT
1 TTTATA-TTTAAAAAATAATAT
5024861 TTTAT
1 TTTAT
5024866 TAATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.25
22 18 0.75
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTATATTTAAAAAATAATAT
Found at i:5024853 original size:22 final size:24
Alignment explanation
Indices: 5024825--5024875 Score: 79
Period size: 22 Copynumber: 2.2 Consensus size: 24
5024815 TATATTTATA
*
5024825 TTAAAAATTAATATTTTA-T-ATT
1 TTAAAAAATAATATTTTATTAATT
5024847 TTAAAAAATAATATTTTATTAATT
1 TTAAAAAATAATATTTTATTAATT
5024871 TTAAA
1 TTAAA
5024876 TCGAGTCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 17 0.65
23 1 0.04
24 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTAAAAAATAATATTTTATTAATT
Found at i:5024871 original size:24 final size:22
Alignment explanation
Indices: 5024809--5024875 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 22
5024799 ATATTTATAT
5024809 ATATTTTATATTTATATTAAAAATTA
1 ATATTTTATATTT-TA--AAAAA-TA
5024835 ATATTTTATATTTTAAAAAATA
1 ATATTTTATATTTTAAAAAATA
5024857 ATATTTTATTAATTTTAAA
1 ATATTTTA-T-ATTTTAAA
5024876 TCGAGTCAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
22 10 0.26
23 6 0.15
24 8 0.21
25 2 0.05
26 13 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:5029033 original size:14 final size:14
Alignment explanation
Indices: 5029014--5029040 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5029004 GCCAATCCAT
5029014 CAGCACTAGTTTCG
1 CAGCACTAGTTTCG
5029028 CAGCACTAGTTTC
1 CAGCACTAGTTTC
5029041 TCCACTCAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.30
Consensus pattern (14 bp):
CAGCACTAGTTTCG
Found at i:5034671 original size:13 final size:13
Alignment explanation
Indices: 5034653--5034680 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5034643 AGCAAGGGGC
5034653 AGCAAAGATACAT
1 AGCAAAGATACAT
5034666 AGCAAAGATACAT
1 AGCAAAGATACAT
5034679 AG
1 AG
5034681 AATTCATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.18, T:0.14
Consensus pattern (13 bp):
AGCAAAGATACAT
Found at i:5036934 original size:1 final size:1
Alignment explanation
Indices: 5036930--5036955 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
5036920 TTCCTAACTG
5036930 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
5036956 GAAGAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5045464 original size:2 final size:2
Alignment explanation
Indices: 5045457--5045482 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5045447 ACTTCTTCAA
5045457 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
5045483 GCATATAAAG
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):
AT
Found at i:5048563 original size:12 final size:12
Alignment explanation
Indices: 5048546--5048587 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
5048536 AAGGGCAACC
5048546 ACAGCAAAATCA
1 ACAGCAAAATCA
5048558 ACAGCAACAATC-
1 ACAGCAA-AATCA
*
5048570 GCAGCAAAATCA
1 ACAGCAAAATCA
*
5048582 GCAGCA
1 ACAGCA
5048588 GCAACAGCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 4 0.15
12 19 0.70
13 4 0.15
ACGTcount: A:0.50, C:0.29, G:0.14, T:0.07
Consensus pattern (12 bp):
ACAGCAAAATCA
Found at i:5050849 original size:2 final size:2
Alignment explanation
Indices: 5050842--5050873 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5050832 CATGCCTTGA
5050842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5050874 GAGTAGGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5051355 original size:2 final size:2
Alignment explanation
Indices: 5051348--5051380 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
5051338 AATTCTTGTA
5051348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5051381 TTTCATCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5052483 original size:25 final size:25
Alignment explanation
Indices: 5052422--5052494 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 25
5052412 ATAACGAAAC
**
5052422 GTCAATATATAAAAAAAATTTTATAAT
1 GTCAAT-TATAAAATGAA-TTTATAAT
5052449 GTCAATTATAAAATGAACTTTATAAT
1 GTCAATTATAAAATGAA-TTTATAAT
5052475 GTCAA-TATAAAATGAATTTA
1 GTCAATTATAAAATGAATTTA
5052495 GTACATTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 4 0.09
25 11 0.26
26 22 0.51
27 6 0.14
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (25 bp):
GTCAATTATAAAATGAATTTATAAT
Found at i:5053380 original size:18 final size:18
Alignment explanation
Indices: 5053346--5053383 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
5053336 AAGTCATTTG
*
5053346 CTTTTTTTTTCTCTTTTT
1 CTTTTTTTTTATCTTTTT
5053364 CTTTTTTTTTAAT-TTTTT
1 CTTTTTTTTT-ATCTTTTT
5053382 CT
1 CT
5053384 ATTCAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (18 bp):
CTTTTTTTTTATCTTTTT
Found at i:5054337 original size:22 final size:23
Alignment explanation
Indices: 5054285--5054352 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 23
5054275 TCATCTAAAC
*
5054285 ATATATAAATATATATTATTATTT
1 ATAT-TAATTATATATTATTATTT
*
5054309 ATTTTAATTATATA-TATGTA-TT
1 ATATTAATTATATATTAT-TATTT
*
5054331 ATATTAA-TA-AAATTATTATTT
1 ATATTAATTATATATTATTATTT
5054352 A
1 A
5054353 ATATCTTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
20 4 0.11
21 8 0.22
22 11 0.30
23 11 0.30
24 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (23 bp):
ATATTAATTATATATTATTATTT
Found at i:5054344 original size:27 final size:25
Alignment explanation
Indices: 5054293--5054362 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 25
5054283 ACATATATAA
* **
5054293 ATATATATTATTATTTATTTTAATT
1 ATATATATTATTATTTAATAAAATT
5054318 ATATATATGTATTATATTAATAAAATT
1 ATATATAT-TATTAT-TTAATAAAATT
*
5054345 AT-TAT-TTAATATCTTAAT
1 ATATATATTATTAT-TTAAT
5054363 TTAACAAATC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
24 10 0.26
25 9 0.24
26 9 0.24
27 10 0.26
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (25 bp):
ATATATATTATTATTTAATAAAATT
Found at i:5055271 original size:22 final size:22
Alignment explanation
Indices: 5055246--5055300 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
5055236 TATTATAACA
5055246 ATTTTCTTAT-TATAACTAAAAT
1 ATTTT-TTATATATAACTAAAAT
* * *
5055268 ATTTTTTATATATTATTAATAT
1 ATTTTTTATATATAACTAAAAT
*
5055290 ATTTTATATAT
1 ATTTTTTATAT
5055301 TTTAAGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTTTTATATATAACTAAAAT
Found at i:5055288 original size:20 final size:19
Alignment explanation
Indices: 5055265--5055305 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
5055255 TTATAACTAA
*
5055265 AATATTTTTTATATATTATT
1 AATATATTTTATATATT-TT
5055285 AATATATTTTATATATTTT
1 AATATATTTTATATATTTT
5055304 AA
1 AA
5055306 GAAAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AATATATTTTATATATTTT
Found at i:5055298 original size:9 final size:9
Alignment explanation
Indices: 5055266--5055304 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
5055256 TATAACTAAA
*
5055266 ATATTTTTT
1 ATATATTTT
5055275 ATATATTATT
1 ATATATT-TT
5055285 AATATATTTT
1 -ATATATTTT
5055295 ATATATTTT
1 ATATATTTT
5055304 A
1 A
5055305 AGAAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 16 0.59
10 4 0.15
11 7 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATATATTTT
Found at i:5055536 original size:244 final size:248
Alignment explanation
Indices: 5055263--5055887 Score: 922
Period size: 244 Copynumber: 2.5 Consensus size: 248
5055253 TATTATAACT
5055263 AAAATAT-T-TTTTATATATTATTAATATATTTTATATATTTTAAGAAAAATTATTATAAATAAT
1 AAAATATCTCTTTTATATATTATTAATATATTTTATATATTTTAAGAAAAATTATTATAAATAAT
* * *
5055326 TATTTTATGTGAATATTTGCTTATCATATGTTACATGTTCTTATTATAACATTTTTTCTTCTTAT
66 TATTTTATGTGAGTATTTGCTTATTATATGTTACATGTTCTTATTATAACATTTTTTCTTATTAT
5055391 AATTCACAATCT-TAAATAACATTTTTTTCAACCAAATATTTTTCCTTATTATATGTT-ATATTC
131 AATTCACAAT-TATAAATAACA-TTTTTTCAACCAAATATTTTT--TTATTATATGTTAATATTC
*
5055454 TTATTATAACATTTTTTCTTATTATAATTTTG-ATTT-TTGTT-T-TATTGCATCT-
192 TTATTATAACATTTTTTCTTATTATAATTTTGAATTTGTTGTTATATATTGCACCTA
* *
5055506 AAAA-ATCTCTTTTATATATTATTAATATATTTTATATATTTAAAAAATAAATTTATTATTAAAA
1 AAAATATCTCTTTTATATATTATTAATATATTTTATATATTTTAAGAA-AAA-TTATTA-T--AA
5055570 ATAATTATTTTATGTGAGTATTTGCTTATTATATGTTACATGTTCTTATTATAACATTTTTTCTT
61 ATAATTATTTTATGTGAGTATTTGCTTATTATATGTTACATGTTCTTATTATAACATTTTTTCTT
*
5055635 ATTATAATTCACAATTATAAATAACATTTTTTCAACCAAATATTTTTTTATTATATGTTACATGT
126 ATTATAATTCACAATTATAAATAACATTTTTTCAACCAAATATTTTTTTATTATATGTTA-ATAT
*
5055700 TCTTATTATAACATTTTTTCTTATTATAATTTTGAAATTTGTTTTTATATATTGCACCTA
190 TCTTATTATAACATTTTTTCTTATTATAATTTTG-AATTTGTTGTTATATATTGCACCTA
* * * *
5055760 AAAATATTTTTTTTATACATTATTAATATATTTGATATATTTTAAG--AAA--A--ATAAATAAT
1 AAAATATCTCTTTTATATATTATTAATATATTTTATATATTTTAAGAAAAATTATTATAAATAAT
*
5055819 TATTTTATGTGAGTATTTGCTTATTATATGTTACATGTTCTTATTATAACATTTTTTCTTATTTT
66 TATTTTATGTGAGTATTTGCTTATTATATGTTACATGTTCTTATTATAACATTTTTTCTTATTAT
5055884 AATT
131 AATT
5055888 GTGAATTTTG
Statistics
Matches: 350, Mismatches: 15, Indels: 33
0.88 0.04 0.08
Matches are distributed among these distances:
242 2 0.01
243 5 0.01
244 111 0.32
245 3 0.01
246 19 0.05
247 2 0.01
248 59 0.17
249 89 0.25
250 4 0.01
251 4 0.01
252 4 0.01
253 9 0.03
254 4 0.01
255 35 0.10
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (248 bp):
AAAATATCTCTTTTATATATTATTAATATATTTTATATATTTTAAGAAAAATTATTATAAATAAT
TATTTTATGTGAGTATTTGCTTATTATATGTTACATGTTCTTATTATAACATTTTTTCTTATTAT
AATTCACAATTATAAATAACATTTTTTCAACCAAATATTTTTTTATTATATGTTAATATTCTTAT
TATAACATTTTTTCTTATTATAATTTTGAATTTGTTGTTATATATTGCACCTA
Found at i:5055581 original size:21 final size:22
Alignment explanation
Indices: 5055515--5055582 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 22
5055505 TAAAAATCTC
**
5055515 TTTTATATATTATTAAT-A-TA
1 TTTTATATATTAAAAATAATTA
* *
5055535 TTTTATATATTTAAAA-AATAA
1 TTTTATATATTAAAAATAATTA
*
5055556 ATTTAT-TATTAAAAATAATTA
1 TTTTATATATTAAAAATAATTA
5055577 TTTTAT
1 TTTTAT
5055583 GTGAGTATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
20 22 0.59
21 15 0.41
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTTATATATTAAAAATAATTA
Found at i:5056004 original size:168 final size:157
Alignment explanation
Indices: 5055682--5055967 Score: 500
Period size: 157 Copynumber: 1.8 Consensus size: 157
5055672 AAATATTTTT
*
5055682 TTATTATATGTTACATGTTCTTATTATAACATTTTTTCTTATTATAATTTTGAAATTTGTTTTTA
1 TTATTATATGTTACATGTTCTTATTATAACATTTTTTCTTATTATAATTGTGAAATTTGTTTTTA
* * *
5055747 TATATTGCACCTAAAAATATTTTTTTTATACATTATTAATATATTTGATATATTTTAAGAAAAAT
66 TATATTACACCTAAAAATATTTTATTTATACATTATTAATATATTTCATATATTTTAAGAAAAAT
5055812 AAATAATTATTTTATGTGAGTATTTGC
131 AAATAATTATTTTATGTGAGTATTTGC
* *
5055839 TTATTATATGTTACATGTTCTTATTATAACATTTTTTCTTATTTTAATTGTGAATTTTGTTTTTA
1 TTATTATATGTTACATGTTCTTATTATAACATTTTTTCTTATTATAATTGTGAAATTTGTTTTTA
* *
5055904 TATATTACACCTAAAAATCTTTTATTTATATATTATTAATATATTTCATATATTTTAAGAAAAA
66 TATATTACACCTAAAAATATTTTATTTATACATTATTAATATATTTCATATATTTTAAGAAAAA
5055968 AATTATTATT
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 121 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (157 bp):
TTATTATATGTTACATGTTCTTATTATAACATTTTTTCTTATTATAATTGTGAAATTTGTTTTTA
TATATTACACCTAAAAATATTTTATTTATACATTATTAATATATTTCATATATTTTAAGAAAAAT
AAATAATTATTTTATGTGAGTATTTGC
Found at i:5057258 original size:14 final size:14
Alignment explanation
Indices: 5057221--5057259 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
5057211 CCATTTTCTC
5057221 TTTTTTC-TTTTGT
1 TTTTTTCTTTTTGT
5057234 TTTTATT-TTTTTGT
1 TTTT-TTCTTTTTGT
5057248 TTTTTTCTTTTT
1 TTTTTTCTTTTT
5057260 TAGTTAAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.03, C:0.05, G:0.05, T:0.87
Consensus pattern (14 bp):
TTTTTTCTTTTTGT
Found at i:5058078 original size:194 final size:195
Alignment explanation
Indices: 5057707--5058107 Score: 472
Period size: 194 Copynumber: 2.1 Consensus size: 195
5057697 AAAAAGAAAG
*
5057707 AAAAGAAAAAAGTTTGAATTTTCTTGTTAATTTATGAGCCTTTCTGATCTAGGTAAATGGCAGAA
1 AAAAGAAAAAAGTTTGAATTTTCTTATTAATTTATGAGCCTTTCTGATCTAGGTAAATGGCAGAA
* * * *
5057772 TCAAGGAATAATAAGACAAAATCATCATCGGGTCGATGTTCTTCAATAAATAATAATCATCATCA
66 TCAAGAAATAATAAGACAAAATCATCACCAGGTCGATGTTATTCAATAAATAATAATCATCATCA
* * * *
5057837 TTAACACAACAAGAACTCTAACAAAAATACATACCAATTTGTCAAAATCTTGAA-TTTTCTTTGT
131 TCAACACAACAAGAACCCTAACAAAAATACATACAAATTTATCAAAATCTTGAATTTTTCTTTGT
* * * * * ** *
5057901 AAAAGAAAAAAGTTTGAATTTTCTTATTGATTTGTGAGCTTTTTTGAT-TGGGTCGATGG-TGAG
1 AAAAGAAAAAAGTTTGAATTTTCTTATTAATTTATGAGCCTTTCTGATCTAGGTAAATGGCAGA-
** * * * * *
5057964 ATTGAGAAATAATAAGGA-AAAATCATCACCTAGGTTGATGTTATTCGATCAATAATTATTATCA
65 ATCAAGAAATAATAA-GACAAAATCATCACC-AGGTCGATGTTATTCAATAAATAATAATCATCA
* *
5058028 TTATCAACAACAACAAGAACCCTAAC-AAAA-ACATATAATATTTATCAAAATCTTGAATTTTTC
128 TCATCAAC-ACAACAAGAACCCTAACAAAAATACATACAA-ATTTATCAAAATCTTGAATTTTTC
5058091 TTTGT
191 TTTGT
5058096 AAAAGAAGAAAA
1 AAAAGAA-AAAA
5058108 AAAGAAAAAG
Statistics
Matches: 174, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
192 2 0.01
193 37 0.21
194 98 0.56
195 33 0.19
196 4 0.02
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (195 bp):
AAAAGAAAAAAGTTTGAATTTTCTTATTAATTTATGAGCCTTTCTGATCTAGGTAAATGGCAGAA
TCAAGAAATAATAAGACAAAATCATCACCAGGTCGATGTTATTCAATAAATAATAATCATCATCA
TCAACACAACAAGAACCCTAACAAAAATACATACAAATTTATCAAAATCTTGAATTTTTCTTTGT
Found at i:5071341 original size:20 final size:20
Alignment explanation
Indices: 5071303--5071341 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5071293 TATTAAAAAT
*
5071303 TTTATATTTATTATATCATA
1 TTTATATTTAGTATATCATA
*
5071323 TTTATATTTAGTATTTCAT
1 TTTATATTTAGTATATCAT
5071342 TTGAAAGTCG
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:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTATATTTAGTATATCATA
Found at i:5071560 original size:14 final size:14
Alignment explanation
Indices: 5071543--5071572 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5071533 TTCATTCATA
*
5071543 TTATTTCTTTCTTT
1 TTATTTCTTTATTT
5071557 TTATTTCTTTATTT
1 TTATTTCTTTATTT
5071571 TT
1 TT
5071573 TAAAATCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (14 bp):
TTATTTCTTTATTT
Found at i:5071650 original size:35 final size:35
Alignment explanation
Indices: 5071584--5071650 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
5071574 AAAATCAAGC
* *
5071584 TTATCGTATATTCATTTCTGGAAAAGTTTAAAAAA
1 TTATCGGATATTCATTTCTGGAAAAGCTTAAAAAA
* *
5071619 TTATCGGATATTGATTTTTGAGAAAA-CTTAAA
1 TTATCGGATATTCATTTCTG-GAAAAGCTTAAA
5071651 TCTTCTCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 22 0.81
36 5 0.19
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.40
Consensus pattern (35 bp):
TTATCGGATATTCATTTCTGGAAAAGCTTAAAAAA
Found at i:5072325 original size:24 final size:24
Alignment explanation
Indices: 5072277--5072325 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
5072267 TTGAGTATTA
***
5072277 TTTATTTAAAATTAAATTTTTTAT
1 TTTATTTAAAATTAAATTAAATAT
*
5072301 TTTATTTAAATTTAAATTAAATAT
1 TTTATTTAAAATTAAATTAAATAT
5072325 T
1 T
5072326 ATCAAGAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTATTTAAAATTAAATTAAATAT
Found at i:5078231 original size:31 final size:31
Alignment explanation
Indices: 5078190--5078264 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
5078180 ATTAACATGA
* * *
5078190 ATATAAATGAATGGACACAACTAATACAGAT
1 ATATATATGAATAGACACAACTAATACAAAT
*
5078221 ATATATATGAATAGACACAACTAATATAAAT
1 ATATATATGAATAGACACAACTAATACAAAT
*
5078252 ATATATAAGAATA
1 ATATATATGAATA
5078265 AAATTAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (31 bp):
ATATATATGAATAGACACAACTAATACAAAT
Found at i:5086216 original size:2 final size:2
Alignment explanation
Indices: 5086211--5086239 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5086201 TTATTAGCCA
5086211 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5086240 GTGAGGACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5094311 original size:55 final size:54
Alignment explanation
Indices: 5094245--5094359 Score: 142
Period size: 55 Copynumber: 2.1 Consensus size: 54
5094235 TATGCAAAAA
* * * *
5094245 ATATTTTATTTTCTCACCTATGCCAACGGTTAGCGCTTGTCAGTATAGACTTAT
1 ATATTTTATTTTCTCACCTATACCAACAGTTAACGCCTGTCAGTATAGACTTAT
* * * *
5094299 ATATTTTAATTTTGTGACCTATACCGACAGTTAACGCCTGTCAGTATAGACTTTT
1 ATATTTT-ATTTTCTCACCTATACCAACAGTTAACGCCTGTCAGTATAGACTTAT
5094354 A-ATTTT
1 ATATTTT
5094360 TCTTATCTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 12 0.23
55 40 0.77
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (54 bp):
ATATTTTATTTTCTCACCTATACCAACAGTTAACGCCTGTCAGTATAGACTTAT
Found at i:5094645 original size:24 final size:24
Alignment explanation
Indices: 5094607--5094653 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5094597 ATTTTTAAAA
* *
5094607 AATTATATTTTTAATTATTAATATT
1 AATTATATTTATAATCA-TAATATT
5094632 AATT-TATTTATAATCATAATAT
1 AATTATATTTATAATCATAATAT
5094654 GATATGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTATATTTATAATCATAATATT
Found at i:5094818 original size:15 final size:16
Alignment explanation
Indices: 5094784--5094819 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
5094774 TACCAAGTCT
5094784 GATAAAACAAACATCA
1 GATAAAACAAACATCA
5094800 -ATAAAACAAACAT-A
1 GATAAAACAAACATCA
5094814 GATAAA
1 GATAAA
5094820 GAGTTACACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 18 0.95
ACGTcount: A:0.67, C:0.14, G:0.06, T:0.14
Consensus pattern (16 bp):
GATAAAACAAACATCA
Found at i:5099948 original size:295 final size:293
Alignment explanation
Indices: 5099502--5100035 Score: 720
Period size: 295 Copynumber: 1.8 Consensus size: 293
5099492 ATTCAAAGCG
* * *
5099502 TTTTGGCCCAGAAAATGCTATGAATAATCCTTTTCAATTTTTATGATAGGATTATTGAAGGTGTT
1 TTTTGGCCCAGAAAATGCTACGAATAATCCCTTTCAATTTTTATGATAGGATTATTGAAGGTATT
* *
5099567 TTTAGCCAAAAAATACCTTGAATAATCTCGTACAAAATATTGAATAGAGTTATTGAAAGCGTTTT
66 TTTAGCCAAAAAATACCTTGAATAATCACGTACAAAATATTGAATAGAGTTATTGAAAGCGTTTC
** * * * * * *
5099632 TGGCTAAAAACACCTTGAATAATTCATGGATTATTCAAGATATTTTTTTTTGTCAAAAATGCCTT
131 TAACTAAAAACACATTGAATAATTCATAGATTATTCAAGACA---TTTATCGCCAAAAATGCCTT
** * *
5099697 TTATAACCCATGAATTATTCATTTAGAGGAGATTATTGAAGGTGTTTTCTGTCAAAATCGTCTTC
193 CAATAACCCATGAATTATTCATTTAGAGGAGATTATTCAAGGCGTTTTCTGTCAAAATCGTCTTC
5099762 AATAATCTCAAGAGTTTTGAAAGAAAATTCAAGGTA
258 AATAATCTCAAGAGTTTTGAAAGAAAATTCAAGGTA
*
5099798 TTTTTGCCCAGAAAATGCCT-CGAATAATCCCCTTT-AATTTTTATGAT-GAGATTATTGAA-GT
1 TTTTGGCCCAGAAAATG-CTACGAATAAT-CCCTTTCAATTTTTATGATAG-GATTATTGAAGGT
* * * *
5099859 CATTTTTAGCC-AAAAATACCTTGAATAATCACTTACAAAATATTGAAT-GGGATTATTGAAGGT
63 -ATTTTTAGCCAAAAAATACCTTGAATAATCACGTACAAAATATTGAATAGAG-TTATTGAAAGC
* *
5099922 GTTTCTAACTAAAAACACATTGAATAATTCGTAGATTATTCAAGGCATTTATCGCCAAAAATGCC
126 GTTTCTAACTAAAAACACATTGAATAATTCATAGATTATTCAAGACATTTATCGCCAAAAATGCC
* *
5099987 TTCAATAACCCATGAATTATTTATTTAGAGGGGATTATTCAAGGCGTTT
191 TTCAATAACCCATGAATTATTCATTTAGAGGAGATTATTCAAGGCGTTT
5100036 ATGGTAAAAA
Statistics
Matches: 207, Mismatches: 26, Indels: 14
0.84 0.11 0.06
Matches are distributed among these distances:
292 58 0.28
294 2 0.01
295 86 0.42
296 54 0.26
297 7 0.03
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (293 bp):
TTTTGGCCCAGAAAATGCTACGAATAATCCCTTTCAATTTTTATGATAGGATTATTGAAGGTATT
TTTAGCCAAAAAATACCTTGAATAATCACGTACAAAATATTGAATAGAGTTATTGAAAGCGTTTC
TAACTAAAAACACATTGAATAATTCATAGATTATTCAAGACATTTATCGCCAAAAATGCCTTCAA
TAACCCATGAATTATTCATTTAGAGGAGATTATTCAAGGCGTTTTCTGTCAAAATCGTCTTCAAT
AATCTCAAGAGTTTTGAAAGAAAATTCAAGGTA
Found at i:5100086 original size:234 final size:232
Alignment explanation
Indices: 5099819--5100418 Score: 674
Period size: 234 Copynumber: 2.6 Consensus size: 232
5099809 AAAATGCCTC
* * * *
5099819 GAATAATCCCCTTTAATTTTTATGATG-AGATTATTGAAGTCATTTTTAGCC-AAAAATACCTTG
1 GAATAATCCCCTTCAATTTTTATTA-GAAGATTATTGAAGGCATTTTT-GCCTAAAAATGCCTTG
* *
5099882 AATAATCACTTACAAAATATTGAATGGGATTATTGAAGGTGTTTCTAACT-AAAAACACATTGAA
64 AATAATC-CTTACAAAATATTGAATGGGATTATTGAAGGTATTTCTAA-TAAAAAACAC-TTCAA
** * * * * * * *
5099946 TAATTCGTAGATTATTCAAGGCATTTATCGCCAAAAATGCCTTCAATAACCCATGAATTATTTAT
126 TAATTCAAAAATTATTCAAGGCATTTATCACAAAAAATACATTCAATAACCCATAAATTATTCAT
* **
5100011 TTAGAGGGGATTATTCAAGGCGTTTATGGTAAAAAATACCCT
191 TTAGAGGGGATTATTCAAGACGTTTATGACAAAAAATACCCT
* *
5100053 GAATAATCCCCTTCAATTTTTATTAGAAGATTATTGAAGGCATTTTTGCCTAGAAATGTCTTGAA
1 GAATAATCCCCTTCAATTTTTATTAGAAGATTATTGAAGGCATTTTTGCCTAAAAATGCCTTGAA
* * * * * *
5100118 TAATCCGTAACAAAGTATTGAATGGGGTTATTGAAGGTATTTTTGATAAAAAATATCTTCAATAA
66 TAATCC-TTACAAAATATTGAATGGGATTATTGAAGGTATTTCTAATAAAAAACA-CTTCAATAA
* * *
5100183 TTTAAAAATTATTTAAGGCGTTTATCACAAAAAATACATTCAATAACCCATAAATTATTCATTTA
129 TTCAAAAATTATTCAAGGCATTTATCACAAAAAATACATTCAATAACCCATAAATTATTCATTTA
* * *
5100248 GAGGGGATTATTTAAGATGTTTATGACAAAAAATACCTT
194 GAGGGGATTATTCAAGACGTTTATGACAAAAAATACCCT
* **
5100287 AAATAATCCATTTCAATTTTTATTA-AGAGATTATTGAAGGCATTTTTGCCTAGAAAATGCCTTG
1 GAATAATCCCCTTCAATTTTTATTAGA-AGATTATTGAAGGCATTTTTGCCTA-AAAATGCCTTG
* * * *
5100351 AATAAT-CTATACCAAAATATTGAATTGGG-TTGA-TGAATGCATTTTTAACAAAAAACACCTTC
64 AATAATCCT-TA-CAAAATATTGAA-TGGGATT-ATTGAAGGTATTTCTAATAAAAAACA-CTTC
5100413 AATAAT
124 AATAAT
5100419 CTTCTTCAAT
Statistics
Matches: 310, Mismatches: 45, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
233 8 0.03
234 239 0.77
235 58 0.19
236 5 0.02
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (232 bp):
GAATAATCCCCTTCAATTTTTATTAGAAGATTATTGAAGGCATTTTTGCCTAAAAATGCCTTGAA
TAATCCTTACAAAATATTGAATGGGATTATTGAAGGTATTTCTAATAAAAAACACTTCAATAATT
CAAAAATTATTCAAGGCATTTATCACAAAAAATACATTCAATAACCCATAAATTATTCATTTAGA
GGGGATTATTCAAGACGTTTATGACAAAAAATACCCT
Found at i:5104384 original size:14 final size:14
Alignment explanation
Indices: 5104365--5104391 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5104355 AAAAAATTAA
5104365 ATATTTATATGAAT
1 ATATTTATATGAAT
5104379 ATATTTATATGAA
1 ATATTTATATGAA
5104392 CATAGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATATTTATATGAAT
Found at i:5104774 original size:63 final size:62
Alignment explanation
Indices: 5104633--5105054 Score: 330
Period size: 64 Copynumber: 6.6 Consensus size: 62
5104623 TTAAATGGGG
* * *
5104633 TTATTGAAGACATTTTTGGCCAAAAATACCTTCAATAATCCCATCAGCAAAATTTTTTGTATGGA
1 TTATTGAAGGCATTTTTGGACAAAAACACCTTCAATAATCCC-TC--CAAAATTTTTTGTATGGA
* * * *
5104698 TTATTGAAGGCATTTATGGACAAAAACACCTCCAATAATCCTCTCCAAAATATTTTGTATGAA
1 TTATTGAAGGCATTTTTGGACAAAAACACCTTCAATAATCC-CTCCAAAATTTTTTGTATGGA
* * ** * ** * * **
5104761 TTATTGAATGCATTTTTAGATGAAAACGCCTTCAATAATCCCTTTAATAAATTTTTATAAAAGA
1 TTATTGAAGGCATTTTTGGACAAAAACACCTTCAATAATCCCTCCAA-AATTTTTTGT-ATGGA
* *** * *
5104825 TTATTGAAGGTATTTTT-GATCAAAAATGTCTTTAATAATCCCCTCAAAAAAATTTTTTGTATGG
1 TTATTGAAGGCATTTTTGGA-CAAAAACACCTTCAATAAT-CCCTC--CAAAATTTTTTGTATGG
5104889 A
62 A
* *
5104890 TTATTGAAGTG--TTTTTGGACAAAAACGCCTTCAATAATCCCCTTCAAAATTTTTTGTATGGA
1 TTATTGAAG-GCATTTTTGGACAAAAACACCTTCAATAAT-CCCTCCAAAATTTTTTGTATGGA
* * * * * * * *
5104952 CTATTGAAGGCCTTGTTGGTCAAAAACATCTTCAATAATCTCTTTTCAAAATTTTTTGAATGGA
1 TTATTGAAGGCATTTTTGGACAAAAACACCTTCAATAATC-C-CTCCAAAATTTTTTGTATGGA
* ** * *
5105016 TTATTGAAAGTGTTTTTGG-CGAAAAACGCCTTTAATAAT
1 TTATTGAAGGCATTTTTGGAC-AAAAACACCTTCAATAAT
5105055 GTCATGCTAT
Statistics
Matches: 288, Mismatches: 55, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
61 1 0.00
62 30 0.10
63 84 0.29
64 105 0.36
65 56 0.19
66 10 0.03
67 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (62 bp):
TTATTGAAGGCATTTTTGGACAAAAACACCTTCAATAATCCCTCCAAAATTTTTTGTATGGA
Found at i:5104849 original size:127 final size:125
Alignment explanation
Indices: 5104661--5105054 Score: 355
Period size: 127 Copynumber: 3.1 Consensus size: 125
5104651 GCCAAAAATA
* * * ** *
5104661 CCTTCAATAATCCCATCAGCAAAATTTTTTGTATGGATTATTGAAGGCATTTATGGA-CAAAAAC
1 CCTTCAATAATCCCCTTA--AAAATTTTTTGAAAAGATTATTGAAGGCATTT-TTGATCAAAAAC
* * * * **
5104725 ACCTCCAATAATCCTCTCCAAAATATTTTGTATGAATTATTGAA-TGCATTTTTAGATGAAAACG
63 ATCTTCAATAATCCTCTCCAAAATTTTTTGTATGGATTATTGAAGTG--TTTTTAGACAAAAACG
* * **
5104789 CCTTCAATAATCCCTTTAATAAATTTTTAT-AAAAGATTATTGAAGGTATTTTTGATCAAAAATG
1 CCTTCAATAATCCCCTTAA-AAATTTTT-TGAAAAGATTATTGAAGGCATTTTTGATCAAAAACA
* * * *
5104853 TCTTTAATAATCCCCTCAAAAAAATTTTTTGTATGGATTATTGAAGTGTTTTTGGACAAAAACG
64 TCTTCAATAATCCTCTC--CAAAATTTTTTGTATGGATTATTGAAGTGTTTTTAGACAAAAACG
* * ** * * * *
5104917 CCTTCAATAATCCCCTTCAAAATTTTTTGTATGGACTATTGAAGGCCTTGTTGGTCAAAAACATC
1 CCTTCAATAATCCCCTTAAAAATTTTTTGAAAAGATTATTGAAGGCATTTTTGATCAAAAACATC
* * * *
5104982 TTCAATAATCTCTTTTCAAAATTTTTTGAATGGATTATTGAAAGTGTTTTT-GGCGAAAAACG
66 TTCAATAATC-CTCTCCAAAATTTTTTGTATGGATTATTG-AAGTGTTTTTAGAC-AAAAACG
*
5105044 CCTTTAATAAT
1 CCTTCAATAAT
5105055 GTCATGCTAT
Statistics
Matches: 217, Mismatches: 39, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
126 29 0.13
127 114 0.53
128 49 0.23
129 23 0.11
130 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (125 bp):
CCTTCAATAATCCCCTTAAAAATTTTTTGAAAAGATTATTGAAGGCATTTTTGATCAAAAACATC
TTCAATAATCCTCTCCAAAATTTTTTGTATGGATTATTGAAGTGTTTTTAGACAAAAACG
Found at i:5105051 original size:191 final size:190
Alignment explanation
Indices: 5104644--5105054 Score: 461
Period size: 191 Copynumber: 2.1 Consensus size: 190
5104634 TATTGAAGAC
* * **
5104644 ATTTTTGGCCAAAAATACCTTCAATAATCCCATCAGCAAAATTTTTTGTATGGATTATTGAAGGC
1 ATTTTTGG-CAAAAATGCCTTTAATAATCCCATCAAAAAAATTTTTTGTATGGATTATTGAAGG-
* * *
5104709 ATTTATGGACAAAAACACCTCCAATAATCCTCTCCAAAATATTTTGTATGAATTATTGAATGCAT
64 ATTTATGGACAAAAACACCTCCAATAATCCCCTCCAAAATATTTTGTATGAACTATTGAAGGCAT
* * * *
5104774 TTTTAGATGAAAACGCCTTCAATAATCCCTTTAATAAATTTTTATAAAAGATTATTGAAGGT
129 TGTTAGATAAAAACACCTTCAATAATCCCTTTAATAAATTTTTATAAAAGATTATTGAAAGT
* * *
5104836 ATTTTTGATCAAAAATGTCTTTAATAATCCCCTCAAAAAAATTTTTTGTATGGATTATTGAAGTG
1 ATTTTTG-GCAAAAATGCCTTTAATAATCCCATCAAAAAAATTTTTTGTATGGATTATTGAAG-G
* * * * * * *
5104901 -TTTTTGGACAAAAACGCCTTCAATAATCCCCTTCAAAATTTTTTGTATGGACTATTGAAGGCCT
64 ATTTATGGACAAAAACACCTCCAATAATCCCCTCCAAAATATTTTGTATGAACTATTGAAGGCAT
* * * * **
5104965 TGTT-GGTCAAAAACATCTTCAATAATCTCTTTTCA-AAATTTTT-TGAATGGATTATTGAAAGT
129 TGTTAGAT-AAAAACACCTTCAATAATC-CCTTTAATAAATTTTTAT-AAAAGATTATTGAAAGT
* *
5105027 GTTTTTGGCGAAAAACGCCTTTAATAAT
1 ATTTTTGGC-AAAAATGCCTTTAATAAT
5105055 GTCATGCTAT
Statistics
Matches: 182, Mismatches: 31, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
190 4 0.02
191 117 0.64
192 60 0.33
193 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (190 bp):
ATTTTTGGCAAAAATGCCTTTAATAATCCCATCAAAAAAATTTTTTGTATGGATTATTGAAGGAT
TTATGGACAAAAACACCTCCAATAATCCCCTCCAAAATATTTTGTATGAACTATTGAAGGCATTG
TTAGATAAAAACACCTTCAATAATCCCTTTAATAAATTTTTATAAAAGATTATTGAAAGT
Found at i:5106100 original size:34 final size:34
Alignment explanation
Indices: 5106038--5106111 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
5106028 TCAGAAATGG
* * *
5106038 ATTTCTAAAAATTTTTAAAACTTCTCGAATATCC
1 ATTTTTAAAAAGTTTCAAAACTTCTCGAATATCC
* * *
5106072 ATTTTTAAAAAGTTTCAAAGCTTTTCGAATATTC
1 ATTTTTAAAAAGTTTCAAAACTTCTCGAATATCC
5106106 ATTTTT
1 ATTTTT
5106112 TAGAAACTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (34 bp):
ATTTTTAAAAAGTTTCAAAACTTCTCGAATATCC
Found at i:5112097 original size:16 final size:16
Alignment explanation
Indices: 5112050--5112100 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
5112040 CTTGATGACA
*
5112050 TATCTTTAACAATTGA
1 TATCTTTAACAATTGG
5112066 TATCTTTAACAATTGG
1 TATCTTTAACAATTGG
5112082 TATCTTTAACAATTGG
1 TATCTTTAACAATTGG
5112098 TAT
1 TAT
5112101 GAGCTTGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (16 bp):
TATCTTTAACAATTGG
Found at i:5112506 original size:22 final size:22
Alignment explanation
Indices: 5112481--5112535 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
5112471 ATTGAGATAG
5112481 GAGCTTAAACATTTGGTATAAA
1 GAGCTTAAACATTTGGTATAAA
5112503 GAGCTTAAACATTTGGTATAAA
1 GAGCTTAAACATTTGGTATAAA
* *
5112525 TAGCATAAACA
1 GAGCTTAAACA
5112536 AAAGGGAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (22 bp):
GAGCTTAAACATTTGGTATAAA
Found at i:5114387 original size:18 final size:17
Alignment explanation
Indices: 5114364--5114399 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5114354 CTTATCTTTT
5114364 TATTTTGATTATAGTTCA
1 TATTTT-ATTATAGTTCA
*
5114382 TATTTTCTTATAGTTCA
1 TATTTTATTATAGTTCA
5114399 T
1 T
5114400 CAATTCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.58
Consensus pattern (17 bp):
TATTTTATTATAGTTCA
Found at i:5118405 original size:30 final size:29
Alignment explanation
Indices: 5118371--5118436 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
5118361 TATTTGTTTA
*
5118371 AATTTAT-CAAATTAATTATTAGAAAATTAT
1 AATTTATACAAAAT-ATTATTA-AAAATTAT
* *
5118401 AATTTAATATAAAATATTATTATAAATTAT
1 AATTT-ATACAAAATATTATTAAAAATTAT
5118431 AATTTA
1 AATTTA
5118437 GTTAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 1 0.03
30 17 0.55
31 9 0.29
32 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
AATTTATACAAAATATTATTAAAAATTAT
Found at i:5122282 original size:17 final size:18
Alignment explanation
Indices: 5122250--5122283 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5122240 ATATTTTATT
5122250 AATTAAAATAATAAAAAA
1 AATTAAAATAATAAAAAA
*
5122268 AATTTAAAT-ATAAAAA
1 AATTAAAATAATAAAAA
5122284 TTTGATTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AATTAAAATAATAAAAAA
Found at i:5123425 original size:19 final size:19
Alignment explanation
Indices: 5123389--5123434 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
5123379 AAAATTAAAC
5123389 ATACACACTTTCAAAAAATAT
1 ATACACACTTT-AAAAAAT-T
*
5123410 ATACACACTTT-TAAAATT
1 ATACACACTTTAAAAAATT
5123428 A-ACACAC
1 ATACACAC
5123435 AACTCATGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 6 0.25
18 2 0.08
19 5 0.21
21 11 0.46
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (19 bp):
ATACACACTTTAAAAAATT
Found at i:5123435 original size:19 final size:19
Alignment explanation
Indices: 5123375--5123435 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 19
5123365 TTATAAAAAA
5123375 TTTTAAAATTAAACATACACAC
1 TTTTAAAATT-AAC--ACACAC
* * *
5123397 TTTCAAAAAATATATACACAC
1 TTT-TAAAATTA-ACACACAC
5123418 TTTTAAAATTAACACACA
1 TTTTAAAATTAACACACA
5123436 ACTCATGAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 6 0.19
20 6 0.19
21 9 0.29
22 4 0.13
23 6 0.19
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (19 bp):
TTTTAAAATTAACACACAC
Found at i:5123650 original size:13 final size:14
Alignment explanation
Indices: 5123632--5123662 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
5123622 TCAGTCAAAA
5123632 TAAAATA-TATAAT
1 TAAAATATTATAAT
5123645 TAAAATATTATAAT
1 TAAAATATTATAAT
5123659 TAAA
1 TAAA
5123663 TAAATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAAAATATTATAAT
Found at i:5123754 original size:42 final size:38
Alignment explanation
Indices: 5123696--5123775 Score: 106
Period size: 42 Copynumber: 2.0 Consensus size: 38
5123686 ATTTTAATAT
5123696 TTTATTTTTATATAAATTAAATTTAATTAATAAATTTAAAA
1 TTTATTTTTATATAAATTAAATTTAA--AA-AAATTTAAAA
* *
5123737 TTTATTTTTAATTTAAATTGAATTTAAAAAAATTTAAAA
1 TTTATTTTT-ATATAAATTAAATTTAAAAAAATTTAAAA
5123776 CCTAAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
39 10 0.28
40 2 0.06
41 9 0.25
42 15 0.42
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (38 bp):
TTTATTTTTATATAAATTAAATTTAAAAAAATTTAAAA
Found at i:5129653 original size:26 final size:27
Alignment explanation
Indices: 5129600--5129653 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
5129590 GAATTTTGAC
* * * *
5129600 AAAAAAAAAAAATAACTTATTGAGGTG
1 AAAAAAAAAAAAGAACTGATTAACGTG
5129627 AAAAAAAAAAAAGAA-TGATTAACGTG
1 AAAAAAAAAAAAGAACTGATTAACGTG
5129653 A
1 A
5129654 GCTATATAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.63, C:0.04, G:0.15, T:0.19
Consensus pattern (27 bp):
AAAAAAAAAAAAGAACTGATTAACGTG
Found at i:5137727 original size:2 final size:2
Alignment explanation
Indices: 5137720--5137746 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5137710 CTGACCATGT
5137720 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
5137747 GATGGAGCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5139066 original size:24 final size:24
Alignment explanation
Indices: 5139029--5139080 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
5139019 TTTATTTATA
*
5139029 TAAT-TATTTTAAAAAAT-AATATT
1 TAATATATTTAAAAAAATAAAT-TT
*
5139052 TAATATATTTAAAAAATTAAATTT
1 TAATATATTTAAAAAAATAAATTT
5139076 TAATA
1 TAATA
5139081 CTTACAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.16
24 18 0.72
25 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TAATATATTTAAAAAAATAAATTT
Found at i:5139075 original size:23 final size:24
Alignment explanation
Indices: 5139036--5139080 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
5139026 ATATAATTAT
5139036 TTTAAAAAATAATA-TTTAATATA
1 TTTAAAAAATAATATTTTAATATA
5139059 TTTAAAAAATTAA-ATTTTAATA
1 TTTAAAAAA-TAATATTTTAATA
5139081 CTTACAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TTTAAAAAATAATATTTTAATATA
Found at i:5143309 original size:23 final size:24
Alignment explanation
Indices: 5143283--5143388 Score: 69
Period size: 25 Copynumber: 4.5 Consensus size: 24
5143273 TTTATTATTA
5143283 ATATT-TTATTATTATTATAATAT
1 ATATTATTATTATTATTATAATAT
* * *
5143306 ATATTATAATATAATATTATGATAT
1 ATATTATTAT-TATTATTATAATAT
* * *
5143331 ACTATT-GTA-AATTATTATAGTAT
1 A-TATTATTATTATTATTATAATAT
* *
5143354 -TATTAATATTATTATTGTACCATAT
1 ATATTATTATTATTATTATA--ATAT
5143379 -TATTATTATT
1 ATATTATTATT
5143389 TTTGTTTTTT
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
21 4 0.06
22 2 0.03
23 23 0.37
24 3 0.05
25 26 0.42
26 4 0.06
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.54
Consensus pattern (24 bp):
ATATTATTATTATTATTATAATAT
Found at i:5143324 original size:13 final size:13
Alignment explanation
Indices: 5143295--5143336 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
5143285 ATTTTATTAT
5143295 TATTATAATAT-A
1 TATTATAATATAA
5143307 TATTATAATATAA
1 TATTATAATATAA
* *
5143320 TATTATGATATAC
1 TATTATAATATAA
5143333 TATT
1 TATT
5143337 GTAAATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (13 bp):
TATTATAATATAA
Found at i:5143413 original size:17 final size:18
Alignment explanation
Indices: 5143387--5143426 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
5143377 ATTATTATTA
* *
5143387 TTTTTGTTTTTTTCTTT-
1 TTTTTCTTTTCTTCTTTC
5143404 TTTTTCTTTTCTTCTTTC
1 TTTTTCTTTTCTTCTTTC
5143422 TTTTT
1 TTTTT
5143427 TGATCCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (18 bp):
TTTTTCTTTTCTTCTTTC
Found at i:5143754 original size:20 final size:20
Alignment explanation
Indices: 5143729--5143778 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
5143719 GTTCTAAAAT
* *
5143729 TTTGATTTTGAGATTTTGGG
1 TTTGATTTTAAGATTTTAGG
* *
5143749 TTTGATTTAAAGTTTTTAGG
1 TTTGATTTTAAGATTTTAGG
5143769 TTTGATTTTA
1 TTTGATTTTA
5143779 GGTTTCTGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.22, T:0.58
Consensus pattern (20 bp):
TTTGATTTTAAGATTTTAGG
Found at i:5146425 original size:2 final size:2
Alignment explanation
Indices: 5146418--5146450 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5146408 CCTCAGTTGA
5146418 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
5146451 TTCTTCAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:5147457 original size:16 final size:16
Alignment explanation
Indices: 5147436--5147469 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
5147426 ATAAGTTTAG
5147436 TGTAAATATCTACAAA
1 TGTAAATATCTACAAA
*
5147452 TGTAAATGTCTACAAA
1 TGTAAATATCTACAAA
5147468 TG
1 TG
5147470 ATAGTAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (16 bp):
TGTAAATATCTACAAA
Found at i:5150159 original size:6 final size:6
Alignment explanation
Indices: 5150150--5150180 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
5150140 TTAAAAAAGG
5150150 AAAGAA AAAG-A AAAGAA AAAGAA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AA
5150181 GGAGTTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:5150181 original size:11 final size:11
Alignment explanation
Indices: 5150143--5150180 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
5150133 TTTAATATTA
*
5150143 AAAAAGGAAAG
1 AAAAAGAAAAG
5150154 AAAAAGAAAAG
1 AAAAAGAAAAG
5150165 AAAAAGAAAAAG
1 AAAAAG-AAAAG
5150177 AAAA
1 AAAA
5150181 GGAGTTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:5168159 original size:10 final size:9
Alignment explanation
Indices: 5168142--5168175 Score: 52
Period size: 10 Copynumber: 3.8 Consensus size: 9
5168132 CACCTATGTC
5168142 TTTTTTGTT
1 TTTTTTGTT
5168151 TTGTTTTGTT
1 TT-TTTTGTT
5168161 TTTTTT-TT
1 TTTTTTGTT
5168169 TTTTTTG
1 TTTTTTG
5168176 GGTTCGGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.35
9 6 0.26
10 9 0.39
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:5168701 original size:36 final size:37
Alignment explanation
Indices: 5168624--5168710 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
5168614 CCAAATCTGG
*
5168624 GATTAAATCACCAAGAATCACACTCCAACGGATCCAT
1 GATTGAATCACCAAGAATCACACTCCAACGGATCCAT
* **
5168661 GATTGAGTCACCAAGAATCATGCTCCAAC-GATCCGA-
1 GATTGAATCACCAAGAATCACACTCCAACGGATCC-AT
5168697 GATTGAATCACCAA
1 GATTGAATCACCAA
5168711 TTTCTTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
36 18 0.41
37 26 0.59
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.20
Consensus pattern (37 bp):
GATTGAATCACCAAGAATCACACTCCAACGGATCCAT
Found at i:5170964 original size:53 final size:53
Alignment explanation
Indices: 5170907--5171046 Score: 138
Period size: 53 Copynumber: 2.6 Consensus size: 53
5170897 TGCCCTGTAC
* *
5170907 GCCATTCTTATTGCATTAAGGCTCCATGCAAACATGCTTAATGCATCTTGCAT
1 GCCATTCTTATTGCATTAAGGCTCCATGCAAACATGCTTAATGCACCTTACAT
*** * * * * **
5170960 GCCATT-TTCATTATGTTAAGGCTTCGTGCCAATATGCTTAATGTGCCTTACAT
1 GCCATTCTT-ATTGCATTAAGGCTCCATGCAAACATGCTTAATGCACCTTACAT
* * *
5171013 GCCATTCTTATTGCATTAAAGCTCTATGCTAACA
1 GCCATTCTTATTGCATTAAGGCTCCATGCAAACA
5171047 CACTCAATGT
Statistics
Matches: 65, Mismatches: 20, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
52 2 0.03
53 61 0.94
54 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (53 bp):
GCCATTCTTATTGCATTAAGGCTCCATGCAAACATGCTTAATGCACCTTACAT
Found at i:5181413 original size:20 final size:20
Alignment explanation
Indices: 5181374--5181413 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
5181364 AATAATTATT
* *
5181374 TCTTTACTATTGATATTTAC
1 TCTTTAATATTGATACTTAC
*
5181394 TCTTTAATATTTATACTTAC
1 TCTTTAATATTGATACTTAC
5181414 CGTTAATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.55
Consensus pattern (20 bp):
TCTTTAATATTGATACTTAC
Found at i:5183901 original size:22 final size:22
Alignment explanation
Indices: 5183835--5183904 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
5183825 TTCGGGAGTA
*
5183835 AAATAAAGTTGTGTATTAATCT
1 AAATAAAGTTGTGTATTAGTCT
* ***
5183857 AAATATTGAAATTACCTATTAGTCT
1 AAATA---AAGTTGTGTATTAGTCT
5183882 AAATAAAGTTGTGTATTAGTCT
1 AAATAAAGTTGTGTATTAGTCT
5183904 A
1 A
5183905 TGTTATTCTA
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
22 19 0.53
25 17 0.47
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (22 bp):
AAATAAAGTTGTGTATTAGTCT
Found at i:5192860 original size:10 final size:10
Alignment explanation
Indices: 5192841--5192874 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
5192831 ATTAATTAAG
*
5192841 GAAAGAAAAA
1 GAAAGGAAAA
5192851 GAAAGGAAAA
1 GAAAGGAAAA
*
5192861 GAATGGAAAA
1 GAAAGGAAAA
5192871 GAAA
1 GAAA
5192875 ATTTTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (10 bp):
GAAAGGAAAA
Found at i:5202872 original size:3 final size:3
Alignment explanation
Indices: 5202853--5202939 Score: 102
Period size: 3 Copynumber: 28.0 Consensus size: 3
5202843 AATTAATCAC
* * *
5202853 ATA ATTA ATA ATT ATA ATA ATTT ATAA ATA ACA ATA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA A-TA AT-A ATA ATA ATA ATA ATA ATA ATA
* *
5202901 ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5202940 TTCATAAATA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
3 64 0.90
4 7 0.10
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:5203611 original size:17 final size:16
Alignment explanation
Indices: 5203576--5203625 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
5203566 GGTTAATCAC
*
5203576 ATAATTAATAATTATA
1 ATAATTAATAATAATA
*
5203592 ATAATTTATAAATAATA
1 ATAATTAAT-AATAATA
*
5203609 ATAA-TAACAATAATA
1 ATAATTAATAATAATA
5203624 AT
1 AT
5203626 TGTAACTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 9 0.31
16 10 0.34
17 10 0.34
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAATTAATAATAATA
Found at i:5204485 original size:30 final size:30
Alignment explanation
Indices: 5204451--5204535 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 30
5204441 AAATTCTTTA
*
5204451 AAAAATAATACTATGGGGACTAAATTTCTT
1 AAAAATAATACTATAGGGACTAAATTTCTT
* * * *
5204481 AAAAATAATATTACAAGAACTAAATTTCTT
1 AAAAATAATACTATAGGGACTAAATTTCTT
* *
5204511 -TAAATAATACTATAGTGACTAAATT
1 AAAAATAATACTATAGGGACTAAATT
5204536 CCTAAAAGTC
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
29 19 0.43
30 25 0.57
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.34
Consensus pattern (30 bp):
AAAAATAATACTATAGGGACTAAATTTCTT
Found at i:5206208 original size:116 final size:115
Alignment explanation
Indices: 5206018--5206232 Score: 290
Period size: 116 Copynumber: 1.9 Consensus size: 115
5206008 CGATCATTCC
* * * * * * * *
5206018 CTTAAAGGGATTGATTTATTTTTTATACTGAATGCAAACTCGGTTAAAAATCCACAAAAGGGATC
1 CTTAAAGAGATCGATCTATTTTTTATACAGAATGCAAAATAGGTTAAAAATCAACAAAAGAGATC
*
5206083 GATCCCCCCATATAG-GAGATCGATCACCTAAGCATGGGATCGATCCCTCT
66 GATCCCCCCATATAGAG-GATCGATCACCCAAGCATGGGATCGATCCCTCT
*
5206133 CTTAAAGAGATCGATCTATTTTTTTATACAGAATGCAAAATAGGTTTGAAAATCAACAAAA-AGA
1 CTTAAAGAGATCGATCTA-TTTTTTATACAGAATGCAAAATAGG-TTAAAAATCAACAAAAGAGA
*
5206197 TTGATCCCCCCATATAGAGGATCGATCACCCAAGCA
64 TCGATCCCCCCATATAGAGGATCGATCACCCAAGCA
5206233 CTAGATTGAT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
115 15 0.17
116 56 0.65
117 15 0.17
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (115 bp):
CTTAAAGAGATCGATCTATTTTTTATACAGAATGCAAAATAGGTTAAAAATCAACAAAAGAGATC
GATCCCCCCATATAGAGGATCGATCACCCAAGCATGGGATCGATCCCTCT
Found at i:5213456 original size:15 final size:15
Alignment explanation
Indices: 5213433--5213467 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5213423 TATCACTTTC
*
5213433 AATTTTGGCTTATGA
1 AATTGTGGCTTATGA
*
5213448 AATTGTGGCTTGTGA
1 AATTGTGGCTTATGA
5213463 AATTG
1 AATTG
5213468 ATATATTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.43
Consensus pattern (15 bp):
AATTGTGGCTTATGA
Found at i:5217760 original size:20 final size:20
Alignment explanation
Indices: 5217731--5217786 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
5217721 AACTTGTTTG
5217731 ATTTTT-TTTTATTTTTAAA
1 ATTTTTCTTTTATTTTTAAA
**
5217750 ATTTTTCTTTTAATTTTTTGA
1 ATTTTTCTTTT-ATTTTTAAA
5217771 A-TTTTCTTTTATTTTT
1 ATTTTTCTTTTATTTTT
5217787 CTTTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.36
20 13 0.39
21 8 0.24
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (20 bp):
ATTTTTCTTTTATTTTTAAA
Found at i:5218277 original size:13 final size:13
Alignment explanation
Indices: 5218259--5218289 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
5218249 AAAGTATTTA
5218259 TTTAAATAAATCT
1 TTTAAATAAATCT
*
5218272 TTTAAATAAATTT
1 TTTAAATAAATCT
5218285 TTTAA
1 TTTAA
5218290 GGAAAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTAAATAAATCT
Found at i:5218959 original size:2 final size:2
Alignment explanation
Indices: 5218952--5218983 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
5218942 TAATGATTGA
*
5218952 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5218984 GAATTATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5220087 original size:24 final size:23
Alignment explanation
Indices: 5220030--5220095 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
5220020 ATTTTTAAGC
5220030 TTTTTTGAA-TTTTTTAAAAACA
1 TTTTTTGAATTTTTTTAAAAACA
* *
5220052 TTAAATTT-AATTTTTTTGAAAATCA
1 TT--TTTTGAATTTTTTT-AAAAACA
5220077 TTTTTTGAATTTTTATTAA
1 TTTTTTGAATTTTT-TTAA
5220096 CAATTAGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
22 2 0.06
23 5 0.14
24 18 0.51
25 10 0.29
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.58
Consensus pattern (23 bp):
TTTTTTGAATTTTTTTAAAAACA
Done.