Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold515
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: 104977
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.28
Warning! 17400 characters in sequence are not A, C, G, or T
Found at i:709 original size:17 final size:18
Alignment explanation
Indices: 684--717 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
674 ATTAATTCTA
*
684 AAATTAAAAA-ATAAAAG
1 AAATGAAAAAGATAAAAG
701 AAATGAAAAAGATAAAA
1 AAATGAAAAAGATAAAA
718 TGATTTTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (18 bp):
AAATGAAAAAGATAAAAG
Found at i:15703 original size:124 final size:125
Alignment explanation
Indices: 15548--15797 Score: 475
Period size: 124 Copynumber: 2.0 Consensus size: 125
15538 GTATATGAAA
15548 GCTAAAACAAAAAAAAACTATATATAAAAAGAAAATTTTAACACGTATGAATGCATGTATTTATA
1 GCTAAAAC-AAAAAAAACTATATATAAAAAGAAAATTTTAACACGTATGAATGCATGTATTTATA
*
15613 AAAGCTTAAAAAATATTAAATAAAGAAATATGTATATATATATATACTATATAAAAAATGC
65 AAAGCTTAAAAAATATTAAATAAAGAAAAATGTATATATATATATACTATATAAAAAATGC
15674 GCTAAAAC-AAAAAAACTATATATAAAAAGAAAATTTTAACACGTATGAATGCATGTATTTATAA
1 GCTAAAACAAAAAAAACTATATATAAAAAGAAAATTTTAACACGTATGAATGCATGTATTTATAA
15738 AAGCTTAAAAAATATTAAATAAAGAAAAATGTATATATATATATACTATATAAAAAATGC
66 AAGCTTAAAAAATATTAAATAAAGAAAAATGTATATATATATATACTATATAAAAAATGC
15798 ATGTATGAAT
Statistics
Matches: 123, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
124 115 0.93
126 8 0.07
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (125 bp):
GCTAAAACAAAAAAAACTATATATAAAAAGAAAATTTTAACACGTATGAATGCATGTATTTATAA
AAGCTTAAAAAATATTAAATAAAGAAAAATGTATATATATATATACTATATAAAAAATGC
Found at i:26191 original size:18 final size:18
Alignment explanation
Indices: 26131--26191 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
26121 CTCTTTCGAC
26131 TTTCAGTATTCTCCTCTA
1 TTTCAGTATTCTCCTCTA
* * *
26149 TTTCACTGT-TTTTCTTTCAA
1 TTTCA--GTATTCTC-CTCTA
26169 TTTTCAGTATTCTCCTCTA
1 -TTTCAGTATTCTCCTCTA
26188 TTTC
1 TTTC
26192 TTTTTTTTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
18 9 0.28
19 9 0.28
20 9 0.28
21 5 0.16
ACGTcount: A:0.15, C:0.25, G:0.05, T:0.56
Consensus pattern (18 bp):
TTTCAGTATTCTCCTCTA
Found at i:26902 original size:21 final size:21
Alignment explanation
Indices: 26861--26903 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
26851 AGTAAAGTAG
*
26861 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
26882 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
26903 A
1 A
26904 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:26945 original size:17 final size:18
Alignment explanation
Indices: 26920--26964 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
26910 TATAAGAATA
*
26920 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
26937 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
26955 ATTAAATTAT
1 ATTAAATTAT
26965 GTTTAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:27066 original size:59 final size:59
Alignment explanation
Indices: 26886--27067 Score: 139
Period size: 59 Copynumber: 3.1 Consensus size: 59
26876 TATAGTATTA
*
26886 TATATTATGA--TT-TTAGTAAATTCATATAAGAATAATTATATTAAGAATTTTATTAAAT
1 TATATTATGATTTTATTAGTAAATTCATATAAGAAT-ATT-TATTAACAATTTTATTAAAT
* ** * * * * * *
26944 TATA-TAT--TTTTATTAAATTATGTTTA-ATAATAATTATTT-TAAATTATATTTTAGT-ATT
1 TATATTATGATTTTATT--AGTAAATTCATATAAGAA-TATTTATTAA-CA-ATTTTATTAAAT
27002 ATATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAAT
1 -TATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAAT
27062 TATATT
1 TATATT
27068 TTATAACAGT
Statistics
Matches: 91, Mismatches: 18, Indels: 29
0.66 0.13 0.21
Matches are distributed among these distances:
57 8 0.09
58 10 0.11
59 33 0.36
60 24 0.26
61 9 0.10
62 7 0.08
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (59 bp):
TATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAAT
Found at i:27319 original size:16 final size:16
Alignment explanation
Indices: 27300--27353 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
27290 TTGAATTACT
*
27300 ATTACGCCTTTATTCT
1 ATTACGCCTTTATTCC
27316 ATTACAG-CTTTATTCC
1 ATTAC-GCCTTTATTCC
* *
27332 ATTACACCTCTATTCC
1 ATTACGCCTTTATTCC
27348 ATTACG
1 ATTACG
27354 GCGAATTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 31 0.97
17 1 0.03
ACGTcount: A:0.24, C:0.28, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTACGCCTTTATTCC
Found at i:41408 original size:38 final size:38
Alignment explanation
Indices: 41327--41408 Score: 92
Period size: 38 Copynumber: 2.2 Consensus size: 38
41317 ATTAACCCTA
* *
41327 ATTTTTGTTTCAATTCATTGCCACTAGAGTTAATTGTG
1 ATTTTTATTTCAATTCATTGCCACTACAGTTAATTGTG
* * ** * *
41365 GTTTTTATTTCAATTTATTTTCACTCCAGTTAATTGTT
1 ATTTTTATTTCAATTCATTGCCACTACAGTTAATTGTG
41403 ATTTTT
1 ATTTTT
41409 GACCTTTGTC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.22, C:0.12, G:0.11, T:0.55
Consensus pattern (38 bp):
ATTTTTATTTCAATTCATTGCCACTACAGTTAATTGTG
Found at i:43671 original size:25 final size:26
Alignment explanation
Indices: 43643--43695 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
43633 TTAAAAACTC
43643 TTCTAAAAAG-AAAC-TCAAAAGGAAT
1 TTCTAAAAAGAAAACAT-AAAAGGAAT
*
43668 TTCTGAAAAGAAAACATAAAAGGAAT
1 TTCTAAAAAGAAAACATAAAAGGAAT
43694 TT
1 TT
43696 ATTAACTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 15 0.60
27 1 0.04
ACGTcount: A:0.55, C:0.09, G:0.13, T:0.23
Consensus pattern (26 bp):
TTCTAAAAAGAAAACATAAAAGGAAT
Found at i:44721 original size:25 final size:28
Alignment explanation
Indices: 44660--44724 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 28
44650 GTTTTTGAAT
*
44660 TATGCTTTTGGTATATTTATGCTATTCAAA
1 TATG-TTTTGGTATATTTATGATATT-AAA
44690 TAATGTTTTGGTATATTTAT-ATA-T-AA
1 T-ATGTTTTGGTATATTTATGATATTAAA
44716 TATGTTTTG
1 TATGTTTTG
44725 AGGGAATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 8 0.24
26 3 0.09
28 1 0.03
29 2 0.06
30 16 0.48
31 3 0.09
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.54
Consensus pattern (28 bp):
TATGTTTTGGTATATTTATGATATTAAA
Found at i:57054 original size:129 final size:130
Alignment explanation
Indices: 56813--57071 Score: 511
Period size: 129 Copynumber: 2.0 Consensus size: 130
56803 ATTAATTAAA
56813 ATATTTATACTAATACATAAAGTGATACATCATATTTAAATAAATCATACAGAATACTTCATTAA
1 ATATTTATACTAATACATAAAGTGATACATCATATTTAAATAAATCATACAGAATACTTCATTAA
56878 TGAAAACAAAAATATGGTACATAGTATTATTCTATTAATGAAATTATAAACCCAATTGAAATTTT
66 TGAAAACAAAAATATGGTACATAGTATTATTCTATTAATGAAATTATAAACCCAATTGAAATTTT
56943 ATATTTATAC-AATACATAAAGTGATACATCATATTTAAATAAATCATACAGAATACTTCATTAA
1 ATATTTATACTAATACATAAAGTGATACATCATATTTAAATAAATCATACAGAATACTTCATTAA
57007 TGAAAACAAAAATATGGTACATAGTATTATTCTATTAATGAAATTATAAACCCAATTGAAATTTT
66 TGAAAACAAAAATATGGTACATAGTATTATTCTATTAATGAAATTATAAACCCAATTGAAATTTT
57072 CAAAAATATT
Statistics
Matches: 129, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
129 119 0.92
130 10 0.08
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (130 bp):
ATATTTATACTAATACATAAAGTGATACATCATATTTAAATAAATCATACAGAATACTTCATTAA
TGAAAACAAAAATATGGTACATAGTATTATTCTATTAATGAAATTATAAACCCAATTGAAATTTT
Found at i:57242 original size:21 final size:21
Alignment explanation
Indices: 57199--57242 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
57189 ACACATATTT
* *
57199 TATTATTAATTTTAATTTTAC
1 TATTATTAATTTTAATCTCAC
57220 TATTA-TAATATTTAATCTCAC
1 TATTATTAAT-TTTAATCTCAC
57241 TA
1 TA
57243 CTAAAATGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATTAATTTTAATCTCAC
Found at i:60634 original size:35 final size:35
Alignment explanation
Indices: 60588--60658 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
60578 AGATTAAGAT
*
60588 CAGTGGCGGAGCCAAGGAATAGGCAGGGGCCTCGA
1 CAGTGGCGGAGCCAAGGAATAGGCAAGGGCCTCGA
60623 CAGTGGCGGAGCCAAGGAATAGGCAAGGGCCTCGA
1 CAGTGGCGGAGCCAAGGAATAGGCAAGGGCCTCGA
60658 C
1 C
60659 CCCCCTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.27, C:0.24, G:0.41, T:0.08
Consensus pattern (35 bp):
CAGTGGCGGAGCCAAGGAATAGGCAAGGGCCTCGA
Found at i:63354 original size:131 final size:131
Alignment explanation
Indices: 63120--64300 Score: 2344
Period size: 131 Copynumber: 9.0 Consensus size: 131
63110 TTATATAAAT
*
63120 TTTATAGTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
1 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
63185 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
66 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
63250 A
131 A
63251 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
1 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
63316 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
66 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
63381 A
131 A
63382 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
1 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
63447 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
66 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
63512 A
131 A
63513 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
1 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
63578 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
66 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
63643 A
131 A
63644 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
1 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
63709 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
66 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
63774 A
131 A
63775 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
1 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
63840 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
66 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
63905 A
131 A
63906 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
1 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
63971 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
66 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
64036 A
131 A
64037 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
1 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
64102 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
66 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
64167 A
131 A
64168 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
1 TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
64233 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTTAAT
66 ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTA-TTTTTAAT
64298 TA
130 TA
64300 T
1 T
64301 AATTTATGTT
Statistics
Matches: 1048, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
131 1037 0.99
132 11 0.01
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (131 bp):
TTTATATTTCATATATCATAATATTAATAATGAGTTATTATAACTTATTTTATTTTATTTATATT
ATAATTTAAGTTAAATGTTTTTAATACCAAAATGATATTAAATACTTAATAAATTATTTTTAATT
A
Found at i:66762 original size:21 final size:19
Alignment explanation
Indices: 66725--66764 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
66715 TATATAAATT
*
66725 GAAAAAAAAAATTAAGAAA
1 GAAAAAAAAAATCAAGAAA
66744 GAAAAAATAACAATCAAGAAA
1 GAAAAAA-AA-AATCAAGAAA
66765 AAAGAGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.75, C:0.05, G:0.10, T:0.10
Consensus pattern (19 bp):
GAAAAAAAAAATCAAGAAA
Found at i:69656 original size:21 final size:19
Alignment explanation
Indices: 69619--69658 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
69609 TATATAAATT
*
69619 GAAAAAAAAAATTAAGAAA
1 GAAAAAAAAAATCAAGAAA
69638 GAAAAAATAACAATCAAGAAA
1 GAAAAAA-AA-AATCAAGAAA
69659 AAAGAGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.75, C:0.05, G:0.10, T:0.10
Consensus pattern (19 bp):
GAAAAAAAAAATCAAGAAA
Found at i:73286 original size:28 final size:28
Alignment explanation
Indices: 73221--73286 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
73211 ACTATAACAA
*
73221 ATATCTATTTTTATAATTATTCTATTTTC
1 ATAT-TATTTTTATAATTATTATATTTTC
** *
73250 ATACCATTTTTATAATTAATTAT-TTTTT
1 ATATTATTTTTATAATT-ATTATATTTTC
73278 ATATTATTT
1 ATATTATTT
73287 GGATAAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 23 0.77
29 7 0.23
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (28 bp):
ATATTATTTTTATAATTATTATATTTTC
Found at i:74767 original size:14 final size:14
Alignment explanation
Indices: 74748--74787 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
74738 TTGATTGGCA
74748 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
74762 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
74776 GGAAAATGTTTT
1 GTAAAATGTTTT
74788 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:74796 original size:20 final size:20
Alignment explanation
Indices: 74771--74810 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
74761 CGTAAAATGA
*
74771 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
74791 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
74811 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:74800 original size:34 final size:35
Alignment explanation
Indices: 74756--74822 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
74746 CAGTAAAATG
*
74756 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
74790 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
74823 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:74826 original size:14 final size:15
Alignment explanation
Indices: 74750--74826 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
74740 GATTGGCAGT
* *
74750 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
74764 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
74778 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
74798 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
74813 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
74827 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:77352 original size:39 final size:40
Alignment explanation
Indices: 77291--77370 Score: 144
Period size: 39 Copynumber: 2.0 Consensus size: 40
77281 TAGAAGACTC
*
77291 TAAGGAAGTGCAGCTACTAGCTAATAGTAACATCTGCACA
1 TAAGGAAGTGCAACTACTAGCTAATAGTAACATCTGCACA
77331 TAAGGAAGTG-AACTACTAGCTAATAGTAACATCTGCACA
1 TAAGGAAGTGCAACTACTAGCTAATAGTAACATCTGCACA
77370 T
1 T
77371 TTCTAGGGGC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 29 0.74
40 10 0.26
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (40 bp):
TAAGGAAGTGCAACTACTAGCTAATAGTAACATCTGCACA
Found at i:78348 original size:14 final size:14
Alignment explanation
Indices: 78326--78382 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
78316 GAATATGCTG
* *
78326 AGAAGAGAAGATGA
1 AGAACAGAAGAAGA
78340 AGAACAGAAGAAGA
1 AGAACAGAAGAAGA
78354 A-AA-AG--GAATGA
1 AGAACAGAAGAA-GA
*
78365 AGAACGGAAGAAGA
1 AGAACAGAAGAAGA
78379 AGAA
1 AGAA
78383 GGAGTCTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
10 3 0.09
11 3 0.09
12 4 0.11
13 3 0.09
14 19 0.54
15 3 0.09
ACGTcount: A:0.61, C:0.04, G:0.32, T:0.04
Consensus pattern (14 bp):
AGAACAGAAGAAGA
Found at i:78384 original size:25 final size:25
Alignment explanation
Indices: 78336--78385 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
78326 AGAAGAGAAG
78336 ATGAAGAACAGAAGAAGAAAAAGGA
1 ATGAAGAACAGAAGAAGAAAAAGGA
* *
78361 ATGAAGAACGGAAGAAGAAGAAGGA
1 ATGAAGAACAGAAGAAGAAAAAGGA
78386 GTCTTACCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.32, T:0.04
Consensus pattern (25 bp):
ATGAAGAACAGAAGAAGAAAAAGGA
Found at i:78468 original size:18 final size:19
Alignment explanation
Indices: 78445--78488 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
78435 TTTGCAATCC
78445 AAGGGGAAGGGAAAAGGG-
1 AAGGGGAAGGGAAAAGGGA
*
78463 AAGGGGAAGGGAAAGGGGA
1 AAGGGGAAGGGAAAAGGGA
78482 AAGGGGA
1 AAGGGGA
78489 GAAGAAGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (19 bp):
AAGGGGAAGGGAAAAGGGA
Found at i:78469 original size:6 final size:6
Alignment explanation
Indices: 78445--78488 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
78435 TTTGCAATCC
* * *
78445 AAGGGG AAGGGA AAAGGG AAGGGG AAGGGA AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
78489 GAAGAAGGCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:78495 original size:24 final size:24
Alignment explanation
Indices: 78445--78496 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
78435 TTTGCAATCC
* **
78445 AAGGGGAAGGGAAAAGGGAAGGGG
1 AAGGGAAAGGGAAAAGGGAAGAAG
* *
78469 AAGGGAAAGGGGAAAGGGGAGAAG
1 AAGGGAAAGGGAAAAGGGAAGAAG
78493 AAGG
1 AAGG
78497 CATCATTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (24 bp):
AAGGGAAAGGGAAAAGGGAAGAAG
Found at i:79595 original size:30 final size:31
Alignment explanation
Indices: 79561--79628 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
79551 TTGTCCTAGA
** **
79561 GTAAATACTCAAAAGTTGAAGGGTTAA-AGT
1 GTAAATACGAAAAAGTTGAAGGACTAATAGT
79591 GTAAATACGAAAAAGTTGAAGGACTAATAGT
1 GTAAATACGAAAAAGTTGAAGGACTAATAGT
79622 GTAAATA
1 GTAAATA
79629 TTTTAAGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 23 0.70
31 10 0.30
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (31 bp):
GTAAATACGAAAAAGTTGAAGGACTAATAGT
Found at i:80782 original size:56 final size:50
Alignment explanation
Indices: 80668--80844 Score: 171
Period size: 50 Copynumber: 3.5 Consensus size: 50
80658 TGATCTCGTA
* * * * *
80668 TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGA-G-C-CAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCACA-TG
* ** *
80716 TAAGATCATGTCTGGGACATGGCATTGGCATTATTGAAATTATGAGAGGTCACATG
1 TAAGACCATGTCTGGGACATGGCATTGGC---ACCG--A-GATGAGAGGTCACATG
* *
80772 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCACATG
80822 TAAGACCATGTCTGGGACATGGC
1 TAAGACCATGTCTGGGACATGGC
80845 TGTAACGACC
Statistics
Matches: 109, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
48 26 0.24
50 37 0.34
51 4 0.04
53 3 0.03
54 6 0.06
55 1 0.01
56 30 0.28
57 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCACATG
Found at i:81275 original size:22 final size:22
Alignment explanation
Indices: 81247--81291 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
81237 AAACACAATA
81247 TTTTTTGAAAACACGAAAATTT
1 TTTTTTGAAAACACGAAAATTT
*
81269 TTTTTTGAAAACACGAGAATTT
1 TTTTTTGAAAACACGAAAATTT
81291 T
1 T
81292 AGAAACACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (22 bp):
TTTTTTGAAAACACGAAAATTT
Found at i:81278 original size:56 final size:59
Alignment explanation
Indices: 81197--81309 Score: 171
Period size: 56 Copynumber: 2.0 Consensus size: 59
81187 GATCCGATTG
*
81197 AAACACGAGAATCTCTTATTTTGAAAACACGAGAATTTT-GAAACAC-AATATTTTTTGA
1 AAACACGAAAATCTCTTATTTTGAAAACACGAGAATTTTAGAAACACGAA-ATTTTTTGA
*
81255 AAACACGAAAAT-T-TTTTTTTGAAAACACGAGAATTTTAGAAACACGAAATTTTTT
1 AAACACGAAAATCTCTTATTTTGAAAACACGAGAATTTTAGAAACACGAAATTTTTT
81310 TTAAAAAACC
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
56 23 0.45
57 15 0.29
58 13 0.25
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (59 bp):
AAACACGAAAATCTCTTATTTTGAAAACACGAGAATTTTAGAAACACGAAATTTTTTGA
Found at i:81298 original size:39 final size:39
Alignment explanation
Indices: 81249--81345 Score: 110
Period size: 38 Copynumber: 2.5 Consensus size: 39
81239 ACACAATATT
* ** *
81249 TTTTGAAAACACGAAAATTTTTTTTTGAAAACAC-GAGAA
1 TTTTCAAAACACGAAAATTTTTTTTAAAAAAC-CTGAAAA
81288 TTTT-AGAAACACG-AAATTTTTTTTAAAAAACCTGAAAA
1 TTTTCA-AAACACGAAAATTTTTTTTAAAAAACCTGAAAA
*
81326 TTTTCACAACACGAAAATTT
1 TTTTCAAAACACGAAAATTT
81346 GCGAAACATG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
37 1 0.02
38 31 0.62
39 18 0.36
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (39 bp):
TTTTCAAAACACGAAAATTTTTTTTAAAAAACCTGAAAA
Found at i:81480 original size:71 final size:71
Alignment explanation
Indices: 81396--81668 Score: 282
Period size: 71 Copynumber: 3.8 Consensus size: 71
81386 AACACAAAAT
* **
81396 AAAACACGGAAATTTGTGAAACACGAGAAATTTTTTTAAAACACGGAAAATTTTGAAATACGAGA
1 AAAACACGAAAATTTGCAAAACACGAGAAATTTTTTTAAAACACGGAAAATTTTGAAATACGAGA
81461 ATTTTA
66 ATTTTA
* * * * **
81467 AAAACACGAAAATTTGCGAAACACGA-CAATTTTTTTGAAACACGAGAAATTTTTGAGAACGCGA
1 AAAACACGAAAATTTGCAAAACACGAGAAATTTTTTTAAAACACG-GAAAATTTTGA-AATACGA
*
81531 AAATTTT-
64 GAATTTTA
* ** * * * *
81538 AAAACACGGAAATTTTTAAAACACGAGGATTTTTTTTAAAGCACGGAAATTTTTGAAATACGAGA
1 AAAACACGAAAATTTGCAAAACACGAGAAATTTTTTTAAAACACGGAAAATTTTGAAATACGAGA
*
81603 ATTTAA
66 ATTTTA
* * * *
81609 AAGAACATGAAAGTTTACAAAACACGAGAATATTTTTTTAAAATAC-GAAAATTTTTGAAA
1 AA-AACACGAAAATTTGCAAAACACGAGAA-ATTTTTTTAAAACACGGAAAA-TTTTGAAA
81669 CAATAGATTT
Statistics
Matches: 165, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
70 26 0.16
71 69 0.42
72 50 0.30
73 20 0.12
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.29
Consensus pattern (71 bp):
AAAACACGAAAATTTGCAAAACACGAGAAATTTTTTTAAAACACGGAAAATTTTGAAATACGAGA
ATTTTA
Found at i:81509 original size:119 final size:120
Alignment explanation
Indices: 81276--81501 Score: 280
Period size: 119 Copynumber: 1.9 Consensus size: 120
81266 TTTTTTTTTG
* *
81276 AAAACACGAGAATTTTAGAAACACGAAATTTTTTTTAAAAAACCTGAAAATTTTCACAACACGAA
1 AAAACACGAGAATTTTAGAAACACGAAAATTTTTTTAAAAAACCGGAAAATTTTCACAACACGAA
** * * * *
81341 AATTTGCGAAACATGACAATTTTCGAAACACGAGAATTTTTTCAGAACACAAAAT
66 AATTTGAAAAACACGAAAATTTGCGAAACACGACAATTTTTTCAGAACACAAAAT
* * *
81396 AAAACACG-GAAATTTGT-GAAACACGAGAAATTTTTTTAAAACA-CGGAAAATTTTGA-AATAC
1 AAAACACGAG-AATTT-TAGAAACACGA-AAATTTTTTTAAAAAACCGGAAAATTTTCACAACAC
* *
81457 GAGAATTTTAAAAACACGAAAATTTGCGAAACACGACAATTTTTT
63 GAAAATTTGAAAAACACGAAAATTTGCGAAACACGACAATTTTTT
81502 TGAAACACGA
Statistics
Matches: 90, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
119 42 0.47
120 33 0.37
121 15 0.17
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.27
Consensus pattern (120 bp):
AAAACACGAGAATTTTAGAAACACGAAAATTTTTTTAAAAAACCGGAAAATTTTCACAACACGAA
AATTTGAAAAACACGAAAATTTGCGAAACACGACAATTTTTTCAGAACACAAAAT
Found at i:81679 original size:142 final size:141
Alignment explanation
Indices: 81366--81666 Score: 378
Period size: 142 Copynumber: 2.1 Consensus size: 141
81356 ACAATTTTCG
* * *
81366 AAACACGAGAATTTTTTCAGAACAC-AAAA---TAAAACACGGAAATTTGTGAAACACGAGAAAT
1 AAACACGAGAAATTTTTGAGAAC-CGAAAATTTTAAAACACGGAAATTTGTAAAACACGAGAAAT
* * *
81427 TTTTTTAAAACACGGAAAATTTTGAAATACGAGAATTTTAAAAACACGAAAATTTGCGAAACACG
65 TTTTTTAAAACACGGAAAATTTTGAAATACGAGAATTTAAAAAACACGAAAATTTACAAAACACG
* *
81492 ACAATTTTTTTG
130 AAAATTTTTTTA
* * *
81504 AAACACGAGAAATTTTTGAGAACGCGAAAATTTTAAAACACGGAAATTTTTAAAACACGAGGATT
1 AAACACGAGAAATTTTTGAGAAC-CGAAAATTTTAAAACACGGAAATTTGTAAAACACGAGAAAT
* * * *
81569 TTTTTTAAAGCACGGAAATTTTTGAAATACGAGAATTTAAAAGAACATGAAAGTTTACAAAACAC
65 TTTTTTAAAACACGGAAAATTTTGAAATACGAGAATTTAAAA-AACACGAAAATTTACAAAACAC
81634 GAGAATATTTTTTTA
129 GA-AA-ATTTTTTTA
*
81649 AAATACGA-AAATTTTTGA
1 AAACACGAGAAATTTTTGA
81667 AACAATAGAT
Statistics
Matches: 139, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
138 22 0.16
139 4 0.03
142 67 0.48
143 20 0.14
144 11 0.08
145 15 0.11
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (141 bp):
AAACACGAGAAATTTTTGAGAACCGAAAATTTTAAAACACGGAAATTTGTAAAACACGAGAAATT
TTTTTAAAACACGGAAAATTTTGAAATACGAGAATTTAAAAAACACGAAAATTTACAAAACACGA
AAATTTTTTTA
Found at i:81682 original size:19 final size:19
Alignment explanation
Indices: 81660--81702 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
81650 AATACGAAAA
81660 TTTTTGA-AACAATAGATT
1 TTTTTGATAACAATAGATT
*
81678 TTTTTGATAACACTAGAATT
1 TTTTTGATAACAATAG-ATT
81698 TTTTT
1 TTTTT
81703 AAAAAAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (19 bp):
TTTTTGATAACAATAGATT
Found at i:81892 original size:34 final size:34
Alignment explanation
Indices: 81747--81902 Score: 102
Period size: 35 Copynumber: 4.5 Consensus size: 34
81737 ACGAGAATTC
* * *
81747 AAAAAACGAAAATTTACAAAACACGAAAATTTTTG
1 AAAACACGAAAATTT-TAAAACACCAAAATTTTTG
* * * * *
81782 AAAACGCGATAATTTTTGAAAAC-CTAGAACTTTT-
1 AAAACACGA-AAATTTT-AAAACACCAAAATTTTTG
* ** *
81816 AAAATACGGGAATTTTTTGAAACACCAAAATTTTTTG
1 AAAACAC--GAAAATTTTAAAACACCAAAA-TTTTTG
*
81853 AAAACACGAAGATTTTAAAACACGCAAAA-TTTTG
1 AAAACACGAAAATTTTAAAACAC-CAAAATTTTTG
*
81887 GAAACACGAAAATTTT
1 AAAACACGAAAATTTT
81903 TGAAATACGA
Statistics
Matches: 93, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
34 28 0.30
35 38 0.41
36 21 0.23
37 6 0.06
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (34 bp):
AAAACACGAAAATTTTAAAACACCAAAATTTTTG
Found at i:81913 original size:17 final size:17
Alignment explanation
Indices: 81215--81913 Score: 194
Period size: 17 Copynumber: 39.8 Consensus size: 17
81205 GAATCTCTTA
*
81215 TTTTGAAAACACGAGAA-
1 TTTTG-AAACACGAAAAT
*
81232 TTTTGAAACAC-AATATT
1 TTTTGAAACACGAA-AAT
81249 TTTTGAAAACACGAAAATTTTT
1 TTTTG-AAACACGAAAA----T
*
81271 TTTTGAAAACACGAGAAT
1 TTTTG-AAACACGAAAAT
* *
81289 TTTAGAAACACGAAATTTT
1 TTTTGAAACACGAAA--AT
* *
81308 TTTTAAAAAACCTGAAAA-
1 TTTTGAAACA-C-GAAAAT
*
81326 TTTTCACAACACGAAAAT
1 TTTTGA-AACACGAAAAT
** * *
81344 TTGCGAAACATGACAAT
1 TTTTGAAACACGAAAAT
* *
81361 TTTCGAAACACGAGAATT
1 TTTTGAAACACGA-AAAT
*
81379 TTTTCAGAACAC-AAAA-
1 TTTTGA-AACACGAAAAT
* *
81395 ---TAAAACACGGAAAT
1 TTTTGAAACACGAAAAT
*
81409 TTGTGAAACACGAGAAATTT
1 TTTTGAAACACGA-AAA--T
*
81429 TTTTAAAACACGGAAAA-
1 TTTTGAAACAC-GAAAAT
* *
81446 TTTTGAAATACGAGAAT
1 TTTTGAAACACGAAAAT
**
81463 TTTAAAAACACGAAAAT
1 TTTTGAAACACGAAAAT
** *
81480 TTGCGAAACACGACAATTT
1 TTTTGAAACACGA-AA-AT
81499 TTTTGAAACACGAGAAAT
1 TTTTGAAACACGA-AAAT
*
81517 TTTTGAGAACGCGAAAA-
1 TTTTGA-AACACGAAAAT
* *
81534 TTTTAAAACACGGAAAT
1 TTTTGAAACACGAAAAT
* **
81551 TTTTAAAACACGAGGATTT
1 TTTTGAAACACGA--AAAT
* *
81570 TTTTTAAAGCACGGAAAT
1 TTTTGAAA-CACGAAAAT
* *
81588 TTTTGAAATACGAGAAT
1 TTTTGAAACACGAAAAT
*** * *
81605 TTAAAAGAACATGAAAGT
1 TTTTGA-AACACGAAAAT
***
81623 TTACAAAACACGAGAATATTT
1 TTTTGAAACACGA-AA-A--T
* *
81644 TTTTAAAATACGAAAAT
1 TTTTGAAACACGAAAAT
** **
81661 TTTTGAAACAATAGATTT
1 TTTTGAAACACGA-AAAT
* *
81679 TTTTGATAACACTAGAATT
1 TTTTGA-AACACGA-AAAT
*
81698 TTTTTAAA-A--AAAAGT
1 TTTTGAAACACGAAAA-T
* * *
81713 TTGTGAAATACGAGAAT
1 TTTTGAAACACGAAAAT
* *
81730 TTTT--AATACGAGAA-
1 TTTTGAAACACGAAAAT
** *
81744 -TTCAAAAAACGAAAAT
1 TTTTGAAACACGAAAAT
***
81760 TTACAAAACACGAAAAT
1 TTTTGAAACACGAAAAT
* *
81777 TTTTGAAAACGCGATAAT
1 TTTTG-AAACACGAAAAT
* * *
81795 TTTTGAAA-ACCTAGAAC
1 TTTTGAAACA-CGAAAAT
* * * *
81812 TTTTAAAATACGGGAATT
1 TTTTGAAACAC-GAAAAT
*
81830 TTTTGAAACACCAAAATT
1 TTTTGAAACACGAAAA-T
*
81848 TTTTGAAAACACGAAGA-
1 TTTTG-AAACACGAAAAT
*
81865 TTTTAAAACACGCAAAAT
1 TTTTGAAACACG-AAAAT
*
81883 TTTGGAAACACGAAAAT
1 TTTTGAAACACGAAAAT
*
81900 TTTTGAAATACGAA
1 TTTTGAAACACGAA
81914 TTTTTTTAAA
Statistics
Matches: 505, Mismatches: 121, Indels: 112
0.68 0.16 0.15
Matches are distributed among these distances:
12 5 0.01
13 7 0.01
14 2 0.00
15 27 0.05
16 27 0.05
17 190 0.38
18 121 0.24
19 72 0.14
20 20 0.04
21 17 0.03
22 17 0.03
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (17 bp):
TTTTGAAACACGAAAAT
Found at i:82527 original size:10 final size:10
Alignment explanation
Indices: 82512--82568 Score: 51
Period size: 10 Copynumber: 5.2 Consensus size: 10
82502 AAATTAAAAC
82512 CTTTTTTTTT
1 CTTTTTTTTT
*
82522 CTTTTTTCTT
1 CTTTTTTTTT
82532 CTTTTTTCCTCTCT
1 CTTTTTT--T-T-T
*
82546 TTTTCTTTTTT
1 CTTT-TTTTTT
82557 CTTTTTTTTT
1 CTTTTTTTTT
82567 CT
1 CT
82569 AGACTGGGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
10 24 0.63
11 4 0.11
12 1 0.03
13 2 0.05
14 4 0.11
15 3 0.08
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:82528 original size:7 final size:7
Alignment explanation
Indices: 82516--82563 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
82506 TAAAACCTTT
82516 TTTTTTC
1 TTTTTTC
82523 TTTTTTC
1 TTTTTTC
*
82530 TTCTTT-
1 TTTTTTC
**
82536 TTTCCTC
1 TTTTTTC
82543 TCTTTTTC
1 T-TTTTTC
82551 TTTTTTC
1 TTTTTTC
82558 TTTTTT
1 TTTTTT
82564 TTTCTAGACT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 3 0.09
7 25 0.76
8 5 0.15
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:82666 original size:34 final size:32
Alignment explanation
Indices: 82589--82670 Score: 110
Period size: 34 Copynumber: 2.5 Consensus size: 32
82579 GGCCTGTTGG
*
82589 GCTGCTGCTAGGCCTGGGGGCTGCTGGGCTGCC
1 GCTGC-GCTGGGCCTGGGGGCTGCTGGGCTGCC
* *
82622 GCTGCACTGGGCCTGGGGGCCTGCTGGGCCTGCT
1 GCTGCGCTGGGCCTGGGGG-CTGCTGGG-CTGCC
82656 GCTGCGCTGGGCCTG
1 GCTGCGCTGGGCCTG
82671 TATGTGGGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
32 12 0.28
33 13 0.30
34 18 0.42
ACGTcount: A:0.02, C:0.32, G:0.45, T:0.21
Consensus pattern (32 bp):
GCTGCGCTGGGCCTGGGGGCTGCTGGGCTGCC
Found at i:82704 original size:16 final size:16
Alignment explanation
Indices: 82683--82736 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
82673 TGTGGGCTGC
82683 TTCTTTCTTCTTCTTT
1 TTCTTTCTTCTTCTTT
82699 TTCTTTCTTTCTTTCTTT
1 TTCTTTC-TTC-TTCTTT
* *
82717 TT-TCTGCTGCTTCTTT
1 TTCT-TTCTTCTTCTTT
82733 TTCT
1 TTCT
82737 GTTTTGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
16 15 0.47
17 7 0.22
18 10 0.31
ACGTcount: A:0.00, C:0.24, G:0.04, T:0.72
Consensus pattern (16 bp):
TTCTTTCTTCTTCTTT
Found at i:82877 original size:11 final size:11
Alignment explanation
Indices: 82858--82915 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
82848 CTTTTCCTTT
*
82858 TTTCTTTTTTC
1 TTTCCTTTTTC
82869 TTTCCTTTTT-
1 TTTCCTTTTTC
*
82879 TCTCTCTTTTTC
1 TTTC-CTTTTTC
*
82891 TTCTTCTTTTTC
1 TT-TCCTTTTTC
*
82903 TTTCTTTTTTC
1 TTTCCTTTTTC
82914 TT
1 TT
82916 CTTCTTCTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 3 0.08
11 24 0.63
12 10 0.26
13 1 0.03
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCCTTTTTC
Found at i:82878 original size:12 final size:11
Alignment explanation
Indices: 82858--82915 Score: 66
Period size: 12 Copynumber: 5.2 Consensus size: 11
82848 CTTTTCCTTT
82858 TTTCTTTTTTC
1 TTTCTTTTTTC
82869 TTTCCTTTTTTC
1 TTT-CTTTTTTC
*
82881 TCTC-TTTTTC
1 TTTCTTTTTTC
82891 -TTCTTCTTTTTC
1 TTTC-T-TTTTTC
82903 TTTCTTTTTTC
1 TTTCTTTTTTC
82914 TT
1 TT
82916 CTTCTTCTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 2 0.05
10 6 0.15
11 12 0.30
12 17 0.43
13 3 0.08
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:82899 original size:23 final size:23
Alignment explanation
Indices: 82855--82921 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
82845 TGACTTTTCC
*
82855 TTTTT-TCT-TTTTTCTT-TCCT
1 TTTTTCTCTCTTTTTCTTCTTCT
82875 TTTTTCTCTCTTTTTCTTCTTC-
1 TTTTTCTCTCTTTTTCTTCTTCT
*
82897 TTTTTCTTTCTTTTTTCTTCTTCT
1 TTTTTCTCTC-TTTTTCTTCTTCT
82921 T
1 T
82922 CTTCGGGTCG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.12
21 3 0.08
22 17 0.43
23 14 0.35
24 1 0.03
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTCTCTCTTTTTCTTCTTCT
Found at i:83530 original size:30 final size:30
Alignment explanation
Indices: 83452--83653 Score: 164
Period size: 30 Copynumber: 6.8 Consensus size: 30
83442 ACACAAAATA
* ** *
83452 TTTAG-GGTAAAAATGTAATTTTGGGAAAA
1 TTTAGTGGTCAAAATGTAATTTTTAGAAAG
* * *
83481 TATAG-GGCCAAGATGTAATTTTTAGAAAG
1 TTTAGTGGTCAAAATGTAATTTTTAGAAAG
* *
83510 TTTAGTGGTCAAAGTGTAATTTTGAGAAAG
1 TTTAGTGGTCAAAATGTAATTTTTAGAAAG
* ** *
83540 TTTAATGGTTGAAATGTAA-TTTTAGAAAA
1 TTTAGTGGTCAAAATGTAATTTTTAGAAAG
* * *
83569 TTTTGGGGTCAAAATGTAAATTTTAGAAAAG
1 TTTAGTGGTCAAAATGTAATTTTTAG-AAAG
83600 TTTAG-GGTCAAAATGTAATTTTT-GAAAAG
1 TTTAGTGGTCAAAATGTAATTTTTAG-AAAG
* * *
83629 ATCAG-GGGCTAAAATGTAATTTTTA
1 TTTAGTGGTC-AAAATGTAATTTTTA
83654 TTTTTTTGCT
Statistics
Matches: 139, Mismatches: 29, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
29 60 0.43
30 72 0.52
31 7 0.05
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.36
Consensus pattern (30 bp):
TTTAGTGGTCAAAATGTAATTTTTAGAAAG
Found at i:83563 original size:59 final size:59
Alignment explanation
Indices: 83451--83653 Score: 166
Period size: 59 Copynumber: 3.4 Consensus size: 59
83441 GACACAAAAT
* * * * *
83451 ATTTA-GGGTAAAAATGT-AATTTTGGGAAAA-TATAGGGCCAAGATGTAATTTTTAGAAA
1 ATTTAGGGGTCAAAATGTAAATTTT-AGAAAAGTTTAGGGTCAAAATGTAA-TTTTAGAAA
* * * * **
83509 GTTTAGTGGTCAAAGTGT-AATTTT-GAGAAAGTTTAATGGTTGAAATGTAATTTTAGAAA
1 ATTTAGGGGTCAAAATGTAAATTTTAGA-AAAGTTT-AGGGTCAAAATGTAATTTTAGAAA
* *
83568 ATTTTGGGGTCAAAATGTAAATTTTAGAAAAGTTTAGGGTCAAAATGTAATTTTTGAAA
1 ATTTAGGGGTCAAAATGTAAATTTTAGAAAAGTTTAGGGTCAAAATGTAATTTTAGAAA
* * *
83627 AGATCAGGGG-CTAAAATGTAATTTTTA
1 A-TTTAGGGGTC-AAAATGTAAATTTTA
83654 TTTTTTTGCT
Statistics
Matches: 115, Mismatches: 22, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
57 2 0.02
58 7 0.06
59 62 0.54
60 42 0.37
61 2 0.02
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.36
Consensus pattern (59 bp):
ATTTAGGGGTCAAAATGTAAATTTTAGAAAAGTTTAGGGTCAAAATGTAATTTTAGAAA
Found at i:83644 original size:89 final size:89
Alignment explanation
Indices: 83461--83651 Score: 217
Period size: 89 Copynumber: 2.1 Consensus size: 89
83451 ATTTAGGGTA
* * * *
83461 AAAATGTAATTTTGGGAAAATATAGGGCCAAGATGTAATTTTTAGAAAGTTTAGTGGTCAAAGTG
1 AAAATGTAATTTTGAGAAAATATAGGGCCAAAATGTAAATTTTAGAAAGTTTAGTGGTCAAAATG
* * * *
83526 TAATTTTGAGAAAGTTTAATGGTT
66 TAATTTTGAGAAAGATCAAGGGCT
* * * *
83550 GAAATGTAATTTT-AGAAAATTTTGGGGTCAAAATGTAAATTTTAGAAAAGTTTAG-GGTCAAAA
1 AAAATGTAATTTTGAGAAAA-TATAGGGCCAAAATGTAAATTTTAG-AAAGTTTAGTGGTCAAAA
*
83613 TGTAATTTTTGA-AAAGATCAGGGGCT
64 TGTAA-TTTTGAGAAAGATCAAGGGCT
83639 AAAATGTAATTTT
1 AAAATGTAATTTT
83652 TATTTTTTTG
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
88 5 0.06
89 65 0.76
90 15 0.18
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.36
Consensus pattern (89 bp):
AAAATGTAATTTTGAGAAAATATAGGGCCAAAATGTAAATTTTAGAAAGTTTAGTGGTCAAAATG
TAATTTTGAGAAAGATCAAGGGCT
Found at i:84062 original size:76 final size:76
Alignment explanation
Indices: 83962--84639 Score: 729
Period size: 76 Copynumber: 8.8 Consensus size: 76
83952 CTCGGCGTGC
* *
83962 GACCCGATGCTCAACTCACCTCTCGAATTATGAGTTGATTTTTTTGAAAAACAGAAA-TT-GAA-
1 GACCCGAGGCTCAACTCACCTCT-GAATTATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAG
84024 AAATACCTCAGG-AT
63 AAATACCTC-GGCAT
* * * **
84038 AACCCAAGGCTCAACTCACTTCTCGCAA-TATGAGTTGATTTTTG-AAAATGGAAATTTAAAAGA
1 GACCCGAGGCTCAACTCACCTCT-G-AATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGA
*
84101 AATACCTCAGCAT
64 AATACCTCGGCAT
* * * *
84114 GA-CCGAGGCTCAACTCACCTCTGTATTATGGGTTGATTTTTGAAAAACGGAAGTTTAAAAGAAA
1 GACCCGAGGCTCAACTCACCTCTGAATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAA
84178 TACCTCGGCAT
66 TACCTCGGCAT
* *
84189 TACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAAC-GAAAATTTAAAAGAA
1 GACCCGAGGCTCAACTCACCTCTGAATTATGAGTTGATTTTTGAAAAACAG-AAATTTAAAAGAA
84253 ATACCTCGGCAT
65 ATACCTCGGCAT
*
84265 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAAC-GAAAATTTAAAAGAA
1 GACCCGAGGCTCAACTCACCTCTGAATTATGAGTTGATTTTTGAAAAACAG-AAATTTAAAAGAA
84329 ATACCTCGGCAT
65 ATACCTCGGCAT
* * * *
84341 GACCCGAGGCTCAACTTACCTCTGTATTATAAGTTGATTTTTGAAAAACGGAAATTTAAAAGAAA
1 GACCCGAGGCTCAACTCACCTCTGAATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAA
84406 TACCTCGGCAT
66 TACCTCGGCAT
* ** * *
84417 GACCCGAGGCTCAACTCACCTCTTGCATTATGAGTTGATTTGATTTTTTTTAAAGCAAAAATTT-
1 GACCCGAGGCTCAACTCACCTC-TGAATTATGA---G--TTGA-TTTTTGAAAAACAGAAATTTA
* *
84481 -AA-AAATACCTCGACGT
59 AAAGAAATACCTCGGCAT
* * * * *
84497 GACTCGAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTTTG-AAAATAGAAATTTAAAAG
1 GACCCGAGGCTCAACTCACCTCTGA-ATTATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAAG
**
84561 -AATACCTCAGCGTGT
63 AAATACCTC-G-GCAT
*
84576 GACCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTGAAAGAATCAGAAATTGAAAA
1 GACCCGAGGCTCAACTCACCTCT-G-AATTATGAGTTGATTTTTGAAA-AA-CAGAAATTTAAAA
84640 ATATTTCTTG
Statistics
Matches: 525, Mismatches: 48, Indels: 54
0.84 0.08 0.09
Matches are distributed among these distances:
73 9 0.02
74 24 0.05
75 66 0.13
76 286 0.54
77 28 0.05
78 3 0.01
79 36 0.07
80 51 0.10
81 3 0.01
82 4 0.01
83 15 0.03
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (76 bp):
GACCCGAGGCTCAACTCACCTCTGAATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAA
TACCTCGGCAT
Found at i:84412 original size:228 final size:224
Alignment explanation
Indices: 83962--84622 Score: 828
Period size: 228 Copynumber: 2.9 Consensus size: 224
83952 CTCGGCGTGC
* *
83962 GACCCGATGCTCAACTCACCTCTCGAATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAA
1 GACCCGAGGCTCAACTCACCTCT-GAATTATGAGTTGA-TTTTTTGAAAAACA-AAATTTAAAAA
* * *
84027 TACCTCAGG-ATAACCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAATGGAA
63 TACCTC-GGCATGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAA-AGAA
* *
84091 ATTTAAAAGAAATACCTCAGCATGA-CCGAGGCTCAACTCACCTCTGTATTATGGGTTGATTTTT
126 ATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
*
84155 GAAAAACGGAAGTTTAAAAGAAATACCTCGGCAT
191 GAAAAACGGAAATTTAAAAGAAATACCTCGGCAT
* *
84189 TACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTGAAAAACGAAAATTTAAAAGAA
1 GACCCGAGGCTCAACTCACCTCTGAATTATGAGTTGATTTTTTGAAAAAC-AAAATTT--AA-AA
* * *
84253 ATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACGAA
62 ATACCTCGGCATGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAA-G-A
* *
84317 AATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTTACCTCTGTATTATAAGTTGATTTT
125 AATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTT
84382 TGAAAAACGGAAATTTAAAAGAAATACCTCGGCAT
190 TGAAAAACGGAAATTTAAAAGAAATACCTCGGCAT
* ** *
84417 GACCCGAGGCTCAACTCACCTCTTGCATTATGAGTTGATTTGATTTTTTTTAAAGCAAAAATTTA
1 GACCCGAGGCTCAACTCACCTC-TGAATTATGA---G--TTGATTTTTTGAAAAAC-AAAATTTA
* * * *
84482 AAAATACCTCGACGTGACTCGAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTTTGAAAA
59 AAAATACCTCGGCATGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTGAAAA
** * *
84547 TAGAAATTTAAAAG-AATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
122 -AGAAATTTAAAAGAAATACCTC-G-GCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGT
84611 TGATTTTTGAAA
183 TGATTTTTGAAA
84623 GAATCAGAAA
Statistics
Matches: 378, Mismatches: 34, Indels: 35
0.85 0.08 0.08
Matches are distributed among these distances:
224 17 0.04
225 1 0.00
226 40 0.11
227 78 0.21
228 90 0.24
229 9 0.02
232 34 0.09
233 21 0.06
234 16 0.04
235 51 0.13
236 21 0.06
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (224 bp):
GACCCGAGGCTCAACTCACCTCTGAATTATGAGTTGATTTTTTGAAAAACAAAATTTAAAAATAC
CTCGGCATGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAGAAATTTA
AAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAA
ACGGAAATTTAAAAGAAATACCTCGGCAT
Found at i:84508 original size:80 final size:81
Alignment explanation
Indices: 84378--84616 Score: 240
Period size: 80 Copynumber: 3.0 Consensus size: 81
84368 TATAAGTTGA
** * *
84378 TTTTTGAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTTGC
1 TTTTTG-AAAACAAAAATTT-AAA-AAATACCTCGACGTGACCCGAGGCTCAACTCACCTCTTGC
*
84443 ATTATGAGTTGATTTGATT
63 AATATGAGTTGATTTGATT
* * * * **
84462 TTTTTTAAAGCAAAAATTT-AAAAATACCTCGACGTGACTCGAGGCTCAACTCACTTCTCACAAT
1 TTTTTGAAAACAAAAATTTAAAAAATACCTCGACGTGACCCGAGGCTCAACTCACCTCTTGCAAT
84526 ATGA---G--TTGATT
66 ATGAGTTGATTTGATT
* * *
84537 TTTTTGAAAATAGAAATTTAAAAGAATACCTC-AGCGTGTGACCCGAGGCTCAACTCACCTCTCG
1 TTTTTGAAAACAAAAATTTAAAA-AATACCTCGA-C--GTGACCCGAGGCTCAACTCACCTCTTG
84601 CAATATGAGTTGATTT
62 CAATATGAGTTGATTT
84617 TTGAAAGAAT
Statistics
Matches: 127, Mismatches: 18, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
75 21 0.17
76 4 0.03
77 10 0.08
79 32 0.25
80 40 0.31
81 2 0.02
82 1 0.01
83 10 0.08
84 7 0.06
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (81 bp):
TTTTTGAAAACAAAAATTTAAAAAATACCTCGACGTGACCCGAGGCTCAACTCACCTCTTGCAAT
ATGAGTTGATTTGATT
Found at i:85526 original size:13 final size:12
Alignment explanation
Indices: 85505--85565 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 12
85495 TCATCTTGAT
*
85505 TTTTCTTTTTTTC
1 TTTT-TTTTTTTG
85518 TTTGTTTTTTGTTG
1 TTT-TTTTTT-TTG
85532 TTGTTTTTTTTTG
1 TT-TTTTTTTTTG
85545 TTTTTGTTTTTTG
1 TTTTT-TTTTTTG
85558 TTTTTTTT
1 TTTTTTTT
85566 GTCTCTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
12 6 0.14
13 25 0.58
14 11 0.26
15 1 0.02
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:85539 original size:23 final size:23
Alignment explanation
Indices: 85512--85567 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
85502 GATTTTTCTT
85512 TTTTTCTTTGTTTTTTG-TTGTTG
1 TTTTT-TTTGTTTTTTGTTTGTTG
*
85535 TTTTTTTT-TGTTTTTGTTTTTTG
1 TTTTTTTTGT-TTTTTGTTTGTTG
85558 TTTTTTTTGT
1 TTTTTTTTGT
85568 CTCTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 1 0.03
22 9 0.31
23 18 0.62
24 1 0.03
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (23 bp):
TTTTTTTTGTTTTTTGTTTGTTG
Found at i:85548 original size:6 final size:6
Alignment explanation
Indices: 85504--85562 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
85494 TTCATCTTGA
* *
85504 TTTTTC TTTTT- TTCTTTG TTTTTTG TTGTTG -TTTT- TTTTTG TTTTTG
1 TTTTTG TTTTTG TT-TTTG -TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
85551 TTTTTTG TTTTT
1 -TTTTTG TTTTT
85563 TTTGTCTCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
5 9 0.20
6 24 0.53
7 10 0.22
8 2 0.04
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:85564 original size:16 final size:16
Alignment explanation
Indices: 85512--85577 Score: 71
Period size: 16 Copynumber: 3.9 Consensus size: 16
85502 GATTTTTCTT
*
85512 TTTTTCTTTGTTTTTTG
1 TTTTTGTTT-TTTTTTG
*
85529 TTGTTGTTTTTTTTTG
1 TTTTTGTTTTTTTTTG
85545 TTTTTGTTTTTTGTTT-
1 TTTTTGTTTTTT-TTTG
85561 TTTTTGTCTCTTTTTTT
1 TTTTTGT-T-TTTTTTT
85578 TAGGCATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
16 25 0.58
17 14 0.33
18 4 0.09
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.83
Consensus pattern (16 bp):
TTTTTGTTTTTTTTTG
Found at i:85576 original size:22 final size:22
Alignment explanation
Indices: 85536--85578 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
85526 TTGTTGTTGT
*
85536 TTTTTTTTGTTTTTGTTTTTTG
1 TTTTTTTTGTTCTTGTTTTTTG
85558 TTTTTTTTGTCTCTT-TTTTTT
1 TTTTTTTTGT-TCTTGTTTTTT
85579 AGGCATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (22 bp):
TTTTTTTTGTTCTTGTTTTTTG
Found at i:91801 original size:18 final size:18
Alignment explanation
Indices: 91773--92147 Score: 144
Period size: 17 Copynumber: 21.1 Consensus size: 18
91763 AACATGAGAA
*
91773 TTTTGAAACAC-AATATT
1 TTTTGAAACACGAAAATT
91790 TTTTGAAAACACGAAAATTTTT
1 TTTTG-AAACACGAAAA---TT
*
91812 TTTTGAAAACACGAGAA-T
1 TTTTG-AAACACGAAAATT
* *
91830 TTTAGAAACACGAAATTTT
1 TTTTGAAACACGAAA-ATT
* *
91849 TTTTAAAAAACCTGAAAA-T
1 TTTTGAAACA-C-GAAAATT
91868 TTTT-ACAACACGAAAA-T
1 TTTTGA-AACACGAAAATT
** * *
91885 TTACGAAACATGACAA-T
1 TTTTGAAACACGAAAATT
* *
91902 TTTCGAAACACGAGAATT
1 TTTTGAAACACGAAAATT
91920 TTTTGAGAACAC-AAAA--
1 TTTTGA-AACACGAAAATT
*
91936 ---TAAAACACGAAAA-T
1 TTTTGAAACACGAAAATT
*
91950 TTCTGAAACACGAGAAATTTT
1 TTTTGAAACACGA-AAA--TT
* * *
91971 TTTTAAAACACGGAAA-C
1 TTTTGAAACACGAAAATT
* *
91988 TTTTGAAATACGAGAA-T
1 TTTTGAAACACGAAAATT
**
92005 TTTAAAAACACGAAAA-T
1 TTTTGAAACACGAAAATT
** *
92022 TTGCGAAACACGACAATT
1 TTTTGAAACACGAAAATT
92040 TTTTGAAACACGAGAAA-T
1 TTTTGAAACACGA-AAATT
*
92058 TTTTGAGAACGCGAAAA--
1 TTTTGA-AACACGAAAATT
* *
92075 TTTTAAAACACGGAAA-T
1 TTTTGAAACACGAAAATT
* * *
92092 TTTTAAAACACGAGGATTT
1 TTTTGAAACACGA-AAATT
* *
92111 TTTTCAAAGCACGGAAA-T
1 TTTTGAAA-CACGAAAATT
* *
92129 TTTTGAAATACGAGAATT
1 TTTTGAAACACGAAAATT
92147 T
1 T
92148 AAAAGAACAT
Statistics
Matches: 272, Mismatches: 56, Indels: 59
0.70 0.14 0.15
Matches are distributed among these distances:
12 5 0.02
13 6 0.02
16 8 0.03
17 112 0.41
18 59 0.22
19 41 0.15
20 8 0.03
21 15 0.06
22 18 0.07
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (18 bp):
TTTTGAAACACGAAAATT
Found at i:91816 original size:22 final size:22
Alignment explanation
Indices: 91788--91832 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
91778 AAACACAATA
91788 TTTTTTGAAAACACGAAAATTT
1 TTTTTTGAAAACACGAAAATTT
*
91810 TTTTTTGAAAACACGAGAATTT
1 TTTTTTGAAAACACGAAAATTT
91832 T
1 T
91833 AGAAACACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (22 bp):
TTTTTTGAAAACACGAAAATTT
Found at i:91819 original size:56 final size:59
Alignment explanation
Indices: 91738--91850 Score: 162
Period size: 56 Copynumber: 2.0 Consensus size: 59
91728 GATCCGATTG
* *
91738 AAACACGAGAATCTCTTGTTTTGAAAACATGAGAATTTT-GAAACAC-AATATTTTTTGA
1 AAACACGAAAATCTCTTGTTTTGAAAACACGAGAATTTTAGAAACACGAA-ATTTTTTGA
*
91796 AAACACGAAAAT-T-TTTTTTTGAAAACACGAGAATTTTAGAAACACGAAATTTTTT
1 AAACACGAAAATCTCTTGTTTTGAAAACACGAGAATTTTAGAAACACGAAATTTTTT
91851 TTAAAAAACC
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
56 22 0.44
57 15 0.30
58 13 0.26
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (59 bp):
AAACACGAAAATCTCTTGTTTTGAAAACACGAGAATTTTAGAAACACGAAATTTTTTGA
Found at i:91839 original size:39 final size:39
Alignment explanation
Indices: 91789--91886 Score: 112
Period size: 38 Copynumber: 2.5 Consensus size: 39
91779 AACACAATAT
** *
91789 TTTTTGAAAACACGAAAATTTTTTTTTGAAAACAC-GAGAA
1 TTTTT-AAAACACGAAAATTTTTTTTAAAAAAC-CTGAAAA
91829 -TTTTAGAAACACG-AAATTTTTTTTAAAAAACCTGAAAA
1 TTTTTA-AAACACGAAAATTTTTTTTAAAAAACCTGAAAA
*
91867 TTTTTACAACACGAAAATTT
1 TTTTTAAAACACGAAAATTT
91887 ACGAAACATG
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
37 1 0.02
38 27 0.54
39 22 0.44
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (39 bp):
TTTTTAAAACACGAAAATTTTTTTTAAAAAACCTGAAAA
Found at i:91972 original size:120 final size:119
Alignment explanation
Indices: 91817--92050 Score: 269
Period size: 120 Copynumber: 2.0 Consensus size: 119
91807 TTTTTTTTTG
* * * *
91817 AAAACACGAGAATTTTAGAAACACGAAATTTTTTTTAAAAAAC-CTGAAAATTTTTACAACACGA
1 AAAACACGAAAATTTTAGAAACACGAAATATTTTTTAAAAAACACGGAAAATTTTGA-AACACGA
* * * * *
91881 -AAATTTACGAAACATGACAATTTTCGAAACACGAGAATTTTTTGAGAACACAAAAT
65 GAAATTTA-AAAACACGAAAATTTGCGAAACACGACAATTTTTTGA-AACACAAAAT
** * *
91937 AAAACACGAAAATTTCT-GAAACACGAGAA-ATTTTTTTTAAAACACGGAAACTTTTGAAATACG
1 AAAACACGAAAATTT-TAGAAACACGA-AATATTTTTTAAAAAACACGGAAAATTTTGAAACACG
*
92000 AGAATTTTAAAAACACGAAAATTTGCGAAACACGACAATTTTTTGAAACAC
64 AGAAATTTAAAAACACGAAAATTTGCGAAACACGACAATTTTTTGAAACAC
92051 GAGAAATTTT
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
119 5 0.05
120 72 0.75
121 19 0.20
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.27
Consensus pattern (119 bp):
AAAACACGAAAATTTTAGAAACACGAAATATTTTTTAAAAAACACGGAAAATTTTGAAACACGAG
AAATTTAAAAACACGAAAATTTGCGAAACACGACAATTTTTTGAAACACAAAAT
Found at i:92015 original size:72 final size:71
Alignment explanation
Indices: 91937--92208 Score: 291
Period size: 72 Copynumber: 3.8 Consensus size: 71
91927 AACACAAAAT
* *
91937 AAAACACGAAAATTT-CTGAAACACGAGAAATTTTTTTTAAAACACGGAAACTTTTGAAATACGA
1 AAAACACGAAAATTTAC-AAAACACGAG-AATTTTTTTTAAAACACGGAAATTTTTGAAATACGA
92001 GAATTTTA
64 GAATTTTA
* * * * **
92009 AAAACACGAAAATTTGCGAAACACGACAA--TTTTTTGAAACACGAGAAATTTTTGAGAACGCGA
1 AAAACACGAAAATTTACAAAACACGAGAATTTTTTTTAAAACACG-GAAATTTTTGA-AATACGA
*
92072 AAATTTT-
64 GAATTTTA
* ** * * *
92079 AAAACACGGAAATTTTTAAAACACGAGGATTTTTTTCAAAGCACGGAAATTTTTGAAATACGAGA
1 AAAACACGAAAATTTACAAAACACGAGAATTTTTTTTAAAACACGGAAATTTTTGAAATACGAGA
*
92144 ATTTAA
66 ATTTTA
* * * *
92150 AAGAACATGAAAGTTTACAAAACACGAGAATTTTTTTTAAAATACGAAAATTTTTGAAA
1 AA-AACACGAAAATTTACAAAACACGAGAATTTTTTTTAAAACACGGAAATTTTTGAAA
92209 CAATAGATTT
Statistics
Matches: 164, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
69 13 0.08
70 43 0.26
71 26 0.16
72 81 0.49
73 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.29
Consensus pattern (71 bp):
AAAACACGAAAATTTACAAAACACGAGAATTTTTTTTAAAACACGGAAATTTTTGAAATACGAGA
ATTTTA
Found at i:92053 original size:52 final size:50
Alignment explanation
Indices: 91975--92111 Score: 141
Period size: 52 Copynumber: 2.7 Consensus size: 50
91965 AATTTTTTTT
* *
91975 AAAACACGGAAACTTTTGAAATACGAGAATTTTAAAAACACGAAAATTTGC
1 AAAACACGGAAATTTTTGAAACACGAGAATTTTAAAAACACGAAAATTT-C
* * * * *
92026 GAAACAC-GACAATTTTTTGAAACACGAGAAATTTTTGAGAACGCGAAAATTTT
1 AAAACACGGA-AA-TTTTTGAAACACGAG-AA-TTTTAAAAACACGAAAATTTC
* *
92079 AAAACACGGAAATTTTTAAAACACGAGGATTTT
1 AAAACACGGAAATTTTTGAAACACGAGAATTTT
92112 TTTCAAAGCA
Statistics
Matches: 71, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
50 6 0.08
51 9 0.13
52 27 0.38
53 10 0.14
54 19 0.27
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.26
Consensus pattern (50 bp):
AAAACACGGAAATTTTTGAAACACGAGAATTTTAAAAACACGAAAATTTC
Found at i:92092 original size:70 final size:69
Alignment explanation
Indices: 91862--92185 Score: 254
Period size: 71 Copynumber: 4.6 Consensus size: 69
91852 TAAAAAACCT
* * * *
91862 GAAAATTTTTACAACACGAAAATTTACGAAACATGA-CAA-TTTTCGAAACACGAGAATTTTTTG
1 GAAAA-TTTTAAAACACGAAAATTT-CGAAACACGAGCAATTTTTTGAAACACG-GAAATTTTTG
91925 AGAACAC
63 AGAACAC
* * *
91932 -AAAA---TAAAACACGAAAATTTCTGAAACACGAGAAATTTTTTTTAAAACACGGAAACTTTTG
1 GAAAATTTTAAAACACGAAAATTTC-GAAACACGAGCAA--TTTTTTGAAACACGGAAATTTTTG
*
91993 A-AATAC
63 AGAACAC
*
91999 GAGAATTTTAAAAACACGAAAATTTGCGAAACACGA-CAATTTTTTGAAACACGAGAAATTTTTG
1 GAAAATTTT-AAAACACGAAAATTT-CGAAACACGAGCAATTTTTTGAAACACG-GAAATTTTTG
*
92063 AGAACGC
63 AGAACAC
* ** * * *
92070 GAAAATTTTAAAACACGGAAATTTTTAAAACACGAGGATTTTTTTCAAAGCACGGAAATTTTTGA
1 GAAAATTTTAAAACAC-GAAAATTTCGAAACACGAGCAATTTTTTGAAA-CACGGAAATTTTTGA
*
92135 -AATAC
64 GAACAC
* * * * *
92140 GAGAATTTAAAAGAACATGAAAGTTTACAAAACACGAG-AATTTTTT
1 GAAAATTT-TAA-AACACGAAAATTT-CGAAACACGAGCAATTTTTT
92186 TTAAAATACG
Statistics
Matches: 206, Mismatches: 29, Indels: 37
0.76 0.11 0.14
Matches are distributed among these distances:
64 1 0.00
65 23 0.11
66 2 0.01
67 4 0.02
68 12 0.06
69 28 0.14
70 35 0.17
71 58 0.28
72 42 0.20
73 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (69 bp):
GAAAATTTTAAAACACGAAAATTTCGAAACACGAGCAATTTTTTGAAACACGGAAATTTTTGAGA
ACAC
Found at i:92128 original size:37 final size:36
Alignment explanation
Indices: 91936--92210 Score: 163
Period size: 37 Copynumber: 7.7 Consensus size: 36
91926 GAACACAAAA
* * *
91936 TAAAACACGAAAATTTCTGAAACACGAGAAATTTTTTT
1 TAAAACACGGAAATTTTTAAAACACGAG-AA-TTTTTT
* * *
91974 TAAAACACGGAAACTTTTGAAATACGAGAA--TTTT
1 TAAAACACGGAAATTTTTAAAACACGAGAATTTTTT
* * *** *
92008 AAAAACACGAAAATTTGCGAAACACGACAA-TTTTT
1 TAAAACACGGAAATTTTTAAAACACGAGAATTTTTT
* * * *
92043 TGAAACACGAGAAATTTTTGAGAACGCGA-AA--ATTT
1 TAAAACACG-GAAATTTTT-AAAACACGAGAATTTTTT
*
92078 TAAAACACGGAAATTTTTAAAACACGAGGATTTTTT
1 TAAAACACGGAAATTTTTAAAACACGAGAATTTTTT
* * * *
92114 TCAAAGCACGGAAATTTTTGAAATACGAGAA--TTTA
1 T-AAAACACGGAAATTTTTAAAACACGAGAATTTTTT
* * **
92149 AAAGAACA-TGAAAGTTTACAAAACACGAGAATTTTTTT
1 TAA-AACACGGAAA-TTTTTAAAACACGAGAA-TTTTTT
* * *
92187 TAAAATACGAAAATTTTTGAAACA
1 TAAAACACGGAAATTTTTAAAACA
92211 ATAGATTTTT
Statistics
Matches: 179, Mismatches: 45, Indels: 27
0.71 0.18 0.11
Matches are distributed among these distances:
33 7 0.04
34 43 0.24
35 41 0.23
36 12 0.07
37 44 0.25
38 32 0.18
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (36 bp):
TAAAACACGGAAATTTTTAAAACACGAGAATTTTTT
Found at i:92131 original size:71 final size:69
Alignment explanation
Indices: 91862--92210 Score: 261
Period size: 72 Copynumber: 5.0 Consensus size: 69
91852 TAAAAAACCT
* * * *
91862 GAAAATTTTTACAACACGAAAATTTAC-GAAACATGACAA---TTTTCGAAACACGAGAATTTTT
1 GAAAA-TTTTAAAACACGAAAATTT-CTGAAACACGAGAATTTTTTTC-AAACACG-GAAATTTT
91923 TGAGAACAC
62 TGA-AACAC
* *
91932 -AAAA---TAAAACACGAAAATTTCTGAAACACGAGAAATTTTTTTTAAAACACGGAAACTTTTG
1 GAAAATTTTAAAACACGAAAATTTCTGAAACACGAG-AA-TTTTTTTCAAACACGGAAATTTTTG
*
91993 AAATAC
64 AAACAC
* * *
91999 GAGAATTTTAAAAACACGAAAATTTGC-GAAACACGACAA-TTTTTTGAAACACGAGAAATTTTT
1 GAAAATTTT-AAAACACGAAAATTT-CTGAAACACGAGAATTTTTTTCAAACACG-GAAATTTTT
*
92062 GAGAACGC
63 GA-AACAC
* * * *
92070 GAAAATTTTAAAACACGGAAATTTTTAAAACACGAGGATTTTTTTCAAAGCACGGAAATTTTTGA
1 GAAAATTTTAAAACACGAAAATTTCTGAAACACGAGAATTTTTTTCAAA-CACGGAAATTTTTGA
*
92135 AATAC
65 AACAC
* * * * * * * *
92140 GAGAATTTAAAAGAACATGAAAGTTTAC-AAAACACGAGAATTTTTTTTAAAATACGAAAATTTT
1 GAAAATTT-TAA-AACACGAAAATTT-CTGAAACACGAGAA-TTTTTTTCAAACACGGAAATTTT
92204 TGAAACA
62 TGAAACA
92211 ATAGATTTTT
Statistics
Matches: 225, Mismatches: 33, Indels: 40
0.76 0.11 0.13
Matches are distributed among these distances:
64 1 0.00
65 23 0.10
66 2 0.01
67 4 0.02
68 12 0.05
69 24 0.11
70 47 0.21
71 36 0.16
72 65 0.29
73 11 0.05
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (69 bp):
GAAAATTTTAAAACACGAAAATTTCTGAAACACGAGAATTTTTTTCAAACACGGAAATTTTTGAA
ACAC
Found at i:92222 original size:19 final size:20
Alignment explanation
Indices: 92200--92242 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
92190 AATACGAAAA
92200 TTTTTGA-AACAATAG-ATT
1 TTTTTGATAACAATAGAATT
*
92218 TTTTTGATAACACTAGAATT
1 TTTTTGATAACAATAGAATT
92238 TTTTT
1 TTTTT
92243 TAAAAATAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (20 bp):
TTTTTGATAACAATAGAATT
Found at i:92338 original size:17 final size:16
Alignment explanation
Indices: 92288--92425 Score: 64
Period size: 18 Copynumber: 8.0 Consensus size: 16
92278 ACGAGAATTC
*
92288 AAAAA-ACGAAAATTT
1 AAAAACACGAAATTTT
92303 ACAAAACACGAAAATTTTT
1 A-AAAACACG-AAA-TTTT
92322 AAAAACACGATAATTTTT
1 AAAAACACGA-AA-TTTT
* * *
92340 GAAAACCCAGAACTTTT
1 AAAAACAC-GAAATTTT
** *
92357 AAAATACTGGAATTTTT
1 AAAA-ACACGAAATTTT
**
92374 TGAAACACCGAAATTTTTT
1 AAAAACA-CGAAA--TTTT
*
92393 GAAAACACGAAGATTTT
1 AAAAACACGAA-ATTTT
92410 -AAAACACGAAAATTTT
1 AAAAACACG-AAATTTT
92426 TGAAATACGA
Statistics
Matches: 96, Mismatches: 15, Indels: 23
0.72 0.11 0.17
Matches are distributed among these distances:
15 1 0.01
16 19 0.20
17 29 0.30
18 31 0.32
19 16 0.17
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (16 bp):
AAAAACACGAAATTTT
Found at i:92426 original size:17 final size:17
Alignment explanation
Indices: 91811--92447 Score: 172
Period size: 17 Copynumber: 36.5 Consensus size: 17
91801 CGAAAATTTT
*
91811 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAAAA
*
91829 -TTTTAGAAACACGAAATTT
1 TTTTTA-AAACACGAAA--A
*
91848 TTTTTAAAAAACCTGAAAA
1 TTTTTAAAACA-C-GAAAA
*
91867 TTTTTACAACACGAAAA
1 TTTTTAAAACACGAAAA
*** * *
91884 TTTACGAAACATGACAA
1 TTTTTAAAACACGAAAA
** *
91901 TTTTCGAAACACGAGAAT
1 TTTTTAAAACACGA-AAA
*
91919 TTTTTGAGAACAC-AAAA
1 TTTTT-AAAACACGAAAA
91936 ----TAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
91949 TTTCTGAAACACGAGAAA
1 TTTTTAAAACACGA-AAA
*
91967 TTTTTTTTAAAACACGGAAA
1 ---TTTTTAAAACACGAAAA
* * * *
91987 CTTTTGAAATACGAGAA
1 TTTTTAAAACACGAAAA
*
92004 TTTTAAAAACACGAAAA
1 TTTTTAAAACACGAAAA
*** *
92021 TTTGCGAAACACGACAAT
1 TTTTTAAAACACGA-AAA
*
92039 TTTTTGAAACACGAGAAA
1 TTTTTAAAACACGA-AAA
* *
92057 TTTTTGAGAACGCGAAAA
1 TTTTT-AAAACACGAAAA
*
92075 -TTTTAAAACACGGAAA
1 TTTTTAAAACACGAAAA
**
92091 TTTTTAAAACACGAGGATT
1 TTTTTAAAACACGA--AAA
* *
92110 TTTTTCAAAGCACGGAAA
1 TTTTT-AAAACACGAAAA
* * *
92128 TTTTTGAAATACGAGAA
1 TTTTTAAAACACGAAAA
** * *
92145 TTTAAAAGAACATGAAAG
1 TTTTTAA-AACACGAAAA
** *
92163 TTTACAAAACACGAGAATTT
1 TTTTTAAAACACGA-AA--A
*
92183 TTTTTAAAATACGAAAA
1 TTTTTAAAACACGAAAA
* ** **
92200 TTTTTGAAACAATAGATT
1 TTTTTAAAACACGA-AAA
* **
92218 TTTTTGATAACACTAGAATTT
1 TTTTT-AAAACAC--GAA-AA
* *
92239 TTTTTAAAA-A--TAAG
1 TTTTTAAAACACGAAAA
* * * *
92253 TTTGTGAAATACGAGAA
1 TTTTTAAAACACGAAAA
* *
92270 TTTTT--AATACGAGAA
1 TTTTTAAAACACGAAAA
* *
92285 --TTCAAAAAACGAAAA
1 TTTTTAAAACACGAAAA
**
92300 TTTACAAAACACGAAAA
1 TTTTTAAAACACGAAAA
*
92317 TTTTTAAAAACACGATAA
1 TTTTT-AAAACACGAAAA
* *
92335 TTTTTGAAAAC-CCAGAA
1 TTTTT-AAAACACGAAAA
* * * *
92352 CTTTTAAAATACTGGAAT
1 TTTTTAAAACAC-GAAAA
* *
92370 TTTTTGAAACACCGAAAT
1 TTTTTAAAACA-CGAAAA
*
92388 TTTTTGAAAACACGAAGA
1 TTTTT-AAAACACGAAAA
92406 -TTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* * **
92422 TTTTTGAAATACGAATT
1 TTTTTAAAACACGAAAA
92439 TTTTTAAAA
1 TTTTTAAAA
92448 TCGCAGAAAT
Statistics
Matches: 449, Mismatches: 125, Indels: 91
0.68 0.19 0.14
Matches are distributed among these distances:
12 6 0.01
13 7 0.02
14 7 0.02
15 20 0.04
16 25 0.06
17 184 0.41
18 103 0.23
19 43 0.10
20 31 0.07
21 23 0.05
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:93052 original size:7 final size:7
Alignment explanation
Indices: 93040--93087 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
93030 TAAAACCCCT
93040 TTTTTTC
1 TTTTTTC
93047 TTTTTTC
1 TTTTTTC
*
93054 TTCTTT-
1 TTTTTTC
**
93060 TTTCCTC
1 TTTTTTC
93067 TCTTTTTC
1 T-TTTTTC
93075 TTTTTTC
1 TTTTTTC
93082 TTTTTT
1 TTTTTT
93088 TTTCTGGACT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 3 0.09
7 25 0.76
8 5 0.15
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:93070 original size:12 final size:10
Alignment explanation
Indices: 93039--93092 Score: 60
Period size: 10 Copynumber: 5.7 Consensus size: 10
93029 TTAAAACCCC
93039 TTTTT-TTCT
1 TTTTTCTTCT
93048 TTTTTCTTCT
1 TTTTTCTTCT
*
93058 TTTTTCCTC-
1 TTTTTCTTCT
*
93067 TCTTT-TTCT
1 TTTTTCTTCT
*
93076 TTTTTCTTTT
1 TTTTTCTTCT
93086 TTTTTCT
1 TTTTTCT
93093 GGACTGGGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
8 2 0.05
9 13 0.35
10 22 0.59
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:93170 original size:26 final size:25
Alignment explanation
Indices: 93133--93186 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
93123 GGCCTAGGGG
93133 CTGCTGGGCTGCCGCTGCACTAGGC
1 CTGCTGGGCTGCCGCTGCACTAGGC
* * *
93158 CTGCTGGGCCTGCTGCTGCGCTGGGC
1 CTGCTGGG-CTGCCGCTGCACTAGGC
93184 CTG
1 CTG
93187 TATGTGGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.04, C:0.35, G:0.39, T:0.22
Consensus pattern (25 bp):
CTGCTGGGCTGCCGCTGCACTAGGC
Found at i:93218 original size:4 final size:4
Alignment explanation
Indices: 93199--93238 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
93189 TGTGGGTTGC
*
93199 TTCT TTCT TCTTT TTCT TTCT TTCT TTCT TTCT TT-T TTCT
1 TTCT TTCT T-TCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
93239 GCTGCTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 3 0.09
4 26 0.81
5 3 0.09
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (4 bp):
TTCT
Found at i:93387 original size:15 final size:14
Alignment explanation
Indices: 93367--93432 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 14
93357 GACTGTTGAC
93367 TTTTCTTTTTTTCTT
1 TTTTCTTTTTTT-TT
93382 TTTTCTTTCTTTTTT
1 TTTTCTTT-TTTTTT
*
93397 TTCTCTCTCTTTTTTT
1 TT-T-TCTTTTTTTTT
*
93413 TCTTCTTTTTCTTTCT
1 TTTTCTTTTT-TTT-T
93429 TTTT
1 TTTT
93433 TCTTCTTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 6 0.14
15 16 0.38
16 16 0.38
17 4 0.10
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:93441 original size:13 final size:13
Alignment explanation
Indices: 93377--93442 Score: 72
Period size: 13 Copynumber: 5.4 Consensus size: 13
93367 TTTTCTTTTT
93377 TTCTTTTTTCTTTC
1 TTCTTTTTTC-TTC
93391 TT-TTTTTTC-TC
1 TTCTTTTTTCTTC
93402 TCTCTTTTTT-TTC
1 T-TCTTTTTTCTTC
93415 TTC-TTTTTC-T-
1 TTCTTTTTTCTTC
93425 TTCTTTTTTCTTC
1 TTCTTTTTTCTTC
93438 TTCTT
1 TTCTT
93443 CTTCGGGTCG
Statistics
Matches: 45, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
10 3 0.07
11 15 0.33
12 4 0.09
13 21 0.47
14 2 0.04
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTCTTTTTTCTTC
Found at i:93444 original size:20 final size:20
Alignment explanation
Indices: 93368--93445 Score: 87
Period size: 20 Copynumber: 4.1 Consensus size: 20
93358 ACTGTTGACT
93368 TTTCTTTTTTTCTT-TT-TTC
1 TTTC-TTTTTTCTTCTTCTTC
93387 TTTCTTTTTT-TTC-TC-TC
1 TTTCTTTTTTCTTCTTCTTC
*
93404 TCTT-TTTTTTCTTCTTTTTC
1 T-TTCTTTTTTCTTCTTCTTC
93424 TTTCTTTTTTCTTCTTCTTC
1 TTTCTTTTTTCTTCTTCTTC
93444 TT
1 TT
93446 CGGGTCGCAC
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
17 12 0.24
18 11 0.22
19 7 0.14
20 20 0.40
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCTTTTTTCTTCTTCTTC
Found at i:94050 original size:30 final size:30
Alignment explanation
Indices: 94013--94086 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
94003 TAGGGCCAAG
*
94013 ATGTAATTTTTAGAAAGTTTAGTGG-TCAA
1 ATGTAATTTTTAGAAAGTTTAATGGTTCAA
* *
94042 AGTGTAATTTTGAGAAAGTTTAATGGTTGAA
1 A-TGTAATTTTTAGAAAGTTTAATGGTTCAA
94073 ATGTAA-TTTTAGAA
1 ATGTAATTTTTAGAA
94087 TTTTAGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 8 0.21
30 27 0.69
31 4 0.10
ACGTcount: A:0.36, C:0.01, G:0.22, T:0.41
Consensus pattern (30 bp):
ATGTAATTTTTAGAAAGTTTAATGGTTCAA
Found at i:94118 original size:29 final size:29
Alignment explanation
Indices: 94085--94155 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
94075 GTAATTTTAG
* *
94085 AATTTTAGAAAA-TTTGGGGTTAAAATGT
1 AATTTTAGAAAAGTTTGGGGTCAAAATAT
94113 AAATTTTAGAAAAGTTTGGGGTCAAAATAT
1 -AATTTTAGAAAAGTTTGGGGTCAAAATAT
*
94143 AATTTTTGAAAAG
1 AATTTTAGAAAAG
94156 ATCAGGGGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 24 0.63
30 14 0.37
ACGTcount: A:0.42, C:0.01, G:0.20, T:0.37
Consensus pattern (29 bp):
AATTTTAGAAAAGTTTGGGGTCAAAATAT
Found at i:94133 original size:30 final size:30
Alignment explanation
Indices: 94085--94180 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
94075 GTAATTTTAG
94085 AATTTTAGAAAA-TTTGGGGTTAAAATGTA
1 AATTTTAGAAAAGTTTGGGGTTAAAATGTA
* *
94114 AATTTTAGAAAAGTTTGGGGTCAAAATAT-
1 AATTTTAGAAAAGTTTGGGGTTAAAATGTA
* ** *
94143 AATTTTTGAAAAGATCAGGGGCTAAAATGTA
1 AATTTTAGAAAAG-TTTGGGGTTAAAATGTA
*
94174 ATTTTTA
1 AATTTTA
94181 TTTTTTTGCT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
29 24 0.44
30 25 0.46
31 5 0.09
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (30 bp):
AATTTTAGAAAAGTTTGGGGTTAAAATGTA
Found at i:94438 original size:50 final size:50
Alignment explanation
Indices: 94362--94523 Score: 216
Period size: 50 Copynumber: 3.2 Consensus size: 50
94352 AGTGATTACA
*
94362 ATGGCGTTGGCACAGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
* **
94412 GTGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGAC
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
* * * ** * *
94462 ATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTGGGAT
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
*
94512 ATGGCATTGGCA
1 ATGGCGTTGGCA
94524 GTGCAAAAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 97 1.00
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.20
Consensus pattern (50 bp):
ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
Found at i:94557 original size:49 final size:49
Alignment explanation
Indices: 94387--94565 Score: 164
Period size: 50 Copynumber: 3.6 Consensus size: 49
94377 AGATGAGAGG
* * * * * **
94387 TCCCATGTAAGACCATGTCTGGGACGTGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATA-GAAAAC
** *
94437 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATA-GAAAAC
* * * **
94487 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTGCA-A-AAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCG-ATAGAAAAC
*
94535 ATCCCATGTAAGACCATGTCTGGAACATGGC
1 -TCCCATGTAAGACCATGTCTGGGACATGGC
94566 TTTGGAATGT
Statistics
Matches: 108, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
48 4 0.04
49 27 0.25
50 76 0.70
51 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAGAAAAC
Found at i:95276 original size:21 final size:22
Alignment explanation
Indices: 95246--95286 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
95236 TTCGTGTAAC
* *
95246 TTGAATTATAT-TCTTAGATGA
1 TTGAAATATATATATTAGATGA
95267 TTGAAATATATATATTAGAT
1 TTGAAATATATATATTAGAT
95287 TGAGAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.46
Consensus pattern (22 bp):
TTGAAATATATATATTAGATGA
Found at i:100294 original size:43 final size:43
Alignment explanation
Indices: 100235--100484 Score: 126
Period size: 43 Copynumber: 5.4 Consensus size: 43
100225 ATTTATAATT
* *
100235 TTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGC
1 TTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTATCGAC
* * * * *
100278 TTCAATGTACTCCACTG-TAGTCACAGGGAGGTAAGATCTGCCATTTTCGATC
1 TTCAATCTACTCCACTGCCA-AC-CAGGGAGAT-AGA------ATTATCGA-C
* *
100330 ATCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGAC
1 TTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTATCGAC
* * * * * *
100373 TTCAATGTACTCCACTG-TAGTCACAGGGAGGTAAAATCTGCCATATTTGATC
1 TTCAATCTACTCCACTGCCA-AC-CAGGGAGATAGAA--T----TA-TCGA-C
* * * *
100425 TTCAATATATTCCACTGCTAACCAGGGAGGTAGAATTATCGAC
1 TTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTATCGAC
*
100468 TTCAATGTACTCCACTG
1 TTCAATCTACTCCACTG
100485 TAGTCAGGGA
Statistics
Matches: 156, Mismatches: 29, Indels: 44
0.68 0.13 0.19
Matches are distributed among these distances:
42 2 0.01
43 48 0.31
44 29 0.19
45 5 0.03
46 1 0.01
49 1 0.01
50 5 0.03
51 29 0.19
52 33 0.21
53 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (43 bp):
TTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTATCGAC
Found at i:100370 original size:95 final size:95
Alignment explanation
Indices: 100236--100517 Score: 471
Period size: 95 Copynumber: 3.0 Consensus size: 95
100226 TTTATAATTT
*
100236 TCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCA
1 TCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTAGTCA
*
100301 CAGGGAGGTAAGATCTGCCATTTTCGATCA
66 CAGGGAGGTAAAATCTGCCATTTTCGATCA
100331 TCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTAGTCA
1 TCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTAGTCA
*
100396 CAGGGAGGTAAAATCTGCCATATTT-GATCT
66 CAGGGAGGTAAAATCTGCCAT-TTTCGATCA
* * *
100426 TCAATATATTCCACTGCTAACCAGGGAGGTAGAATTATCGACTTCAATGTACTCCACTGTAGT--
1 TCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTAGTCA
*
100489 CAGGGAGGTAAAATCTGCCATCTTCGATC
66 CAGGGAGGTAAAATCTGCCATTTTCGATC
100518 TGCTTCGCTG
Statistics
Matches: 178, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
92 2 0.01
93 25 0.14
95 148 0.83
96 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (95 bp):
TCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTAGTCA
CAGGGAGGTAAAATCTGCCATTTTCGATCA
Found at i:100718 original size:93 final size:95
Alignment explanation
Indices: 100557--100745 Score: 310
Period size: 93 Copynumber: 2.0 Consensus size: 95
100547 ATCTGCAATT
* *
100557 TTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAG
1 TTCAACCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAG
* *
100622 TCAGGGAGGTAAAATCTGCCATCTTTGATC
66 TCAGGGAGGTAAAATCCGCCATCTTCGATC
* *
100652 TTCAACCTATTCCACTG-CTAA-CCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAG
1 TTCAACCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAG
100715 TCAGGGAGGTAAAATCCGCCATCTTCGATC
66 TCAGGGAGGTAAAATCCGCCATCTTCGATC
100745 T
1 T
100746 GCTCCACTAT
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
93 69 0.78
94 3 0.03
95 16 0.18
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (95 bp):
TTCAACCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAG
TCAGGGAGGTAAAATCCGCCATCTTCGATC
Found at i:100726 original size:227 final size:226
Alignment explanation
Indices: 100331--100748 Score: 721
Period size: 227 Copynumber: 1.8 Consensus size: 226
100321 TTTTCGATCA
*
100331 TCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTAGTCA
1 TCAATCTATTCCACTGCCAAACAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTAGT-A
* *
100396 CAGGGAGGTAAAATCTGCCATATTTGATCTTCAATATATTCCACTGCTAACCAGGGAGGTAGAAT
65 CAGGGAGGTAAAATCTGCCATATTTGATCTTCAACATATTCCACTGCTAACCAGGGAGATAGAAT
*
100461 TATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGC
130 TATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGC
100526 TGCCAAATACAGGAAGGCAAGATCTGCAATTT
195 TGCCAAATACAGGAAGGCAAGATCTGCAATTT
* *
100558 TCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT
1 TCAATCTATTCCACTGCC-AA-ACAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTAGT
* *
100623 -CAGGGAGGTAAAATCTGCCATCTTTGATCTTCAACCTATTCCACTGCTAACCAGGGAGATAGAA
64 ACAGGGAGGTAAAATCTGCCATATTTGATCTTCAACATATTCCACTGCTAACCAGGGAGATAGAA
*
100687 TTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
129 TTATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
100749 CCACTATTGC
Statistics
Matches: 180, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
227 138 0.77
228 2 0.01
229 40 0.22
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (226 bp):
TCAATCTATTCCACTGCCAAACAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTAGTAC
AGGGAGGTAAAATCTGCCATATTTGATCTTCAACATATTCCACTGCTAACCAGGGAGATAGAATT
ATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCT
GCCAAATACAGGAAGGCAAGATCTGCAATTT
Found at i:102284 original size:17 final size:17
Alignment explanation
Indices: 102264--102328 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 17
102254 TTTTCACTCA
102264 TTTTTCTTTTCTTTT-T
1 TTTTTCTTTTCTTTTCT
* **
102280 TTTTTCATTAATTTTCT
1 TTTTTCTTTTCTTTTCT
*
102297 TTTTTCATCTT-TTTTCT
1 TTTTTC-TTTTCTTTTCT
102314 TTTTTCTTTTCTTTT
1 TTTTTCTTTTCTTTT
102329 TTATTTCATT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 15 0.38
17 23 0.59
18 1 0.03
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTTCTTTTCT
Found at i:102340 original size:17 final size:15
Alignment explanation
Indices: 102264--102341 Score: 68
Period size: 17 Copynumber: 4.8 Consensus size: 15
102254 TTTTCACTCA
*
102264 TTTTTCTTTTCTTTTT
1 TTTTTCATTT-TTTTT
*
102280 TTTTTCATTAATTTTCT
1 TTTTTCATT--TTTTTT
102297 TTTTTCATCTTTTTTCT
1 TTTTTCAT-TTTTTT-T
102314 TTTTTC-TTTTCTTTT
1 TTTTTCATTTT-TTTT
102329 TTATTTCATTTTT
1 TT-TTTCATTTTT
102342 GAATCTGAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
15 6 0.12
16 21 0.40
17 23 0.44
18 2 0.04
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTCATTTTTTTT
Done.