Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 115 of 120
Found at i:17368140 original size:29 final size:29
Alignment explanation
Indices: 17368108--17368170 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
17368098 ATTTAATTAA
*
17368108 TATTTATAT-TTTTATTTATATTTTTTATT
1 TATTTATATGTTTGATTTATA-TTTTTATT
* *
17368137 TATTTTTATGTTTGATTTTTATTTTTATT
1 TATTTATATGTTTGATTTATATTTTTATT
*
17368166 CATTT
1 TATTT
17368171 CTTAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 20 0.69
30 9 0.31
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.75
Consensus pattern (29 bp):
TATTTATATGTTTGATTTATATTTTTATT
Found at i:17368165 original size:6 final size:6
Alignment explanation
Indices: 17368108--17368165 Score: 64
Period size: 6 Copynumber: 9.7 Consensus size: 6
17368098 ATTTAATTAA
* * * *
17368108 TATTTA TATTTT TATTTA TATTTT T-TATT TATTTT TATGTTT GATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TAT-TTT TATTTT
17368156 TATTTT TATT
1 TATTTT TATT
17368166 CATTTCTTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
5 4 0.09
6 34 0.79
7 5 0.12
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:17368765 original size:16 final size:15
Alignment explanation
Indices: 17368742--17368782 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
17368732 TGACTACTAA
17368742 AATATTAAAATTATTT
1 AATATTAAAATTA-TT
*
17368758 ATTATTAAAATTATT
1 AATATTAAAATTATT
17368773 AATATTAAAA
1 AATATTAAAA
17368783 GATAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTAAAATTATT
Found at i:17368812 original size:13 final size:14
Alignment explanation
Indices: 17368784--17368813 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17368774 ATATTAAAAG
17368784 ATAATTATATTTTA
1 ATAATTATATTTTA
17368798 ATAATTATA-TTTA
1 ATAATTATATTTTA
17368811 ATA
1 ATA
17368814 TTAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATAATTATATTTTA
Found at i:17368912 original size:18 final size:18
Alignment explanation
Indices: 17368889--17369145 Score: 103
Period size: 16 Copynumber: 14.7 Consensus size: 18
17368879 ATTAATATAT
17368889 TAATATATTATTTATTAA
1 TAATATATTATTTATTAA
*
17368907 T-A-ATATTACTTATTAA
1 TAATATATTATTTATTAA
17368923 T-ATATTATTATAATATATTAA
1 TAATA-TATTAT--T-TATTAA
* *
17368944 TTAAATTAACAATATTTATT-A
1 -T-AA-T-ATATTATTTATTAA
17368965 T--TATATTATTTATTAA
1 TAATATATTATTTATTAA
*
17368981 T-ATA-ATTATATTATATAT
1 TAATATATTAT-TTAT-TAA
*
17368999 TAATATATAATTTATTAATA
1 TAATATATTATTTATT-A-A
17369019 TAATATACTTTATTTATTAA
1 TAATATA--TTATTTATTAA
17369039 T-ATAATATTATTTATTAA
1 TAAT-ATATTATTTATTAA
*
17369057 -AAT-TA--ATATATT-A
1 TAATATATTATTTATTAA
* * *
17369070 GAATA-A-TATTTCTTTA
1 TAATATATTATTTATTAA
17369086 TAATA-A-TATTTA-T--
1 TAATATATTATTTATTAA
17369099 TAATATATTA--TATTAA
1 TAATATATTATTTATTAA
* *
17369115 TAGTATATTATTTATTTA
1 TAATATATTATTTATTAA
17369133 T-ATAATATTATTT
1 TAAT-ATATTATTT
17369146 TAAATAAAAT
Statistics
Matches: 187, Mismatches: 18, Indels: 68
0.68 0.07 0.25
Matches are distributed among these distances:
13 8 0.04
14 12 0.06
15 18 0.10
16 45 0.24
17 9 0.05
18 38 0.20
19 10 0.05
20 18 0.10
21 8 0.04
22 13 0.07
23 1 0.01
24 1 0.01
25 5 0.03
26 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.54
Consensus pattern (18 bp):
TAATATATTATTTATTAA
Found at i:17368920 original size:58 final size:58
Alignment explanation
Indices: 17368858--17369069 Score: 178
Period size: 58 Copynumber: 3.7 Consensus size: 58
17368848 ATAAAACTAT
*
17368858 TTATTATTCT-TTATATTATTTATTAATATATTAATATATTATTTATTAATAATATTAC
1 TTATTATTATATTATATTATTTATTAATATATTAATATATTATTTATTAAT-ATATTAC
* * * * * * *
17368916 TTATTAATATATTATTATAATATATTAATTAAATTAACA-A-TATTTATTATTATATTAT
1 TTATTATTATATTA-TATTATTTATTAA-TATATTAATATATTATTTATTAATATATTAC
*
17368974 TTATTA--ATA-TA-ATTA--TATT-ATATATTAATATATAATTTATTAATATAATATAC
1 TTATTATTATATTATATTATTTATTAATATATTAATATATTATTTATTAATAT-AT-TAC
*
17369027 TTTATTTATTAATATAATATTATTTATTAA-A-ATTAATATATTA
1 -TTA-TTATT-ATATTATATTATTTATTAATATATTAATATATTA
17369070 GAATAATATT
Statistics
Matches: 121, Mismatches: 16, Indels: 31
0.72 0.10 0.18
Matches are distributed among these distances:
49 8 0.07
50 2 0.02
51 15 0.12
52 2 0.02
53 5 0.04
54 3 0.02
55 5 0.04
56 3 0.02
58 23 0.19
59 14 0.12
60 16 0.13
61 19 0.16
62 5 0.04
63 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (58 bp):
TTATTATTATATTATATTATTTATTAATATATTAATATATTATTTATTAATATATTAC
Found at i:17369033 original size:22 final size:22
Alignment explanation
Indices: 17368868--17369145 Score: 101
Period size: 23 Copynumber: 12.3 Consensus size: 22
17368858 TTATTATTCT
*
17368868 TTATATTATTTATTAATATATTA
1 TTAT-TTATTTATTAATATAATA
* *
17368891 ATATATTATTTATTAATAATATTA
1 TTAT-TTATTTATTAAT-ATAATA
* * *
17368915 CTTATTAATATATTATTATAATA
1 -TTATTTATTTATTAATATAATA
* *
17368938 -TA-TTAATTA--AAT-TAACA
1 TTATTTATTTATTAATATAATA
* *
17368955 ATATTTA-TTATT-ATATTATTTA
1 TTATTTATTTATTAATA-TA-ATA
*
17368977 TTAATATAATTATATTATATATTAATA
1 TT-AT-TTATT-TATTA-ATA-TAATA
*
17369004 -TA-TAATTTATTAATATAATA
1 TTATTTATTTATTAATATAATA
17369024 -TACTTTATTTATTAATATAATA
1 TTA-TTTATTTATTAATATAATA
* *
17369046 TTATTTATTAAAATTAATATATTA
1 TTATTTATT--TATTAATATAATA
** * * *
17369070 GAATAATATTTCTTTATAATAATA
1 TTAT-TTATTTATTAAT-ATAATA
* *
17369094 TTTATTAATATATT-ATATTAATA
1 -TTATTTATTTATTAATA-TAATA
* *
17369117 GTATATTATTTATTTATATAATA
1 TTAT-TTATTTATTAATATAATA
17369140 TTATTT
1 TTATTT
17369146 TAAATAAAAT
Statistics
Matches: 193, Mismatches: 36, Indels: 53
0.68 0.13 0.19
Matches are distributed among these distances:
17 4 0.02
18 7 0.04
19 5 0.03
20 11 0.06
21 7 0.04
22 36 0.19
23 56 0.29
24 43 0.22
25 11 0.06
26 5 0.03
27 2 0.01
28 6 0.03
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (22 bp):
TTATTTATTTATTAATATAATA
Found at i:17379333 original size:257 final size:256
Alignment explanation
Indices: 17378861--17379354 Score: 970
Period size: 257 Copynumber: 1.9 Consensus size: 256
17378851 GGGAATCACT
17378861 GAAAATAAGGAATCTATTAAGAAATAAAATAATCAGATGTTGGGATATCATAGGTAAACTAATAG
1 GAAAATAAGGAATCTATTAAGAAATAAAATAATCAGATGTTGGGATATCATAGGTAAACTAATAG
17378926 TTAACGTTGATCTGTTCCAAACACAGAAAACAACATCATAGAATAAGGAAATTAAGCTTAGATAC
66 TTAACGTTGATCTGTTCCAAACACAGAAAACAACATCATAGAATAAGGAAATTAAGCTTAGATAC
17378991 CGTCTAGCAAAGGCTAATATTTCAAGATCCAAAGTGTGGATCAGTCTAATCACTGAATAATGAAA
131 CGTCTAGCAAAGGCTAATATTTCAAGATCCAAAGTGTGGATCAGTCTAATCACTGAATAATGAAA
17379056 CAACTAATCTGTACATTGTGTATTAACTTAAGCAGGGAAACTAATAGTTAACTTAAGCAGG
196 CAACTAATCTGTACATTGTGTATTAACTTAAGCAGGGAAACTAATAGTTAACTTAAGCAGG
*
17379117 GAAAATAAGGAAATCTGTTAAGAAATAAAATAATCAGATGTTGGGATATCATAGGTAAACTAATA
1 GAAAATAAGG-AATCTATTAAGAAATAAAATAATCAGATGTTGGGATATCATAGGTAAACTAATA
17379182 GTTAACGTTGATCTGTTCCAAACACAGAAAACAACATCATAGAATAAGGAAATTAAGCTTAGATA
65 GTTAACGTTGATCTGTTCCAAACACAGAAAACAACATCATAGAATAAGGAAATTAAGCTTAGATA
17379247 CCGTCTAGCAAAGGCTAATATTTCAAGATCCAAAGTGTGGATCAGTCTAATCACTGAATAATGAA
130 CCGTCTAGCAAAGGCTAATATTTCAAGATCCAAAGTGTGGATCAGTCTAATCACTGAATAATGAA
17379312 ACAACTAATCTGTACATTGTGTATTAACTTAAGCAGGGAAACT
195 ACAACTAATCTGTACATTGTGTATTAACTTAAGCAGGGAAACT
17379355 CATGAAAAGA
Statistics
Matches: 236, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
256 10 0.04
257 226 0.96
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (256 bp):
GAAAATAAGGAATCTATTAAGAAATAAAATAATCAGATGTTGGGATATCATAGGTAAACTAATAG
TTAACGTTGATCTGTTCCAAACACAGAAAACAACATCATAGAATAAGGAAATTAAGCTTAGATAC
CGTCTAGCAAAGGCTAATATTTCAAGATCCAAAGTGTGGATCAGTCTAATCACTGAATAATGAAA
CAACTAATCTGTACATTGTGTATTAACTTAAGCAGGGAAACTAATAGTTAACTTAAGCAGG
Found at i:17383928 original size:1 final size:1
Alignment explanation
Indices: 17383922--17383946 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
17383912 TTTGAATTGC
17383922 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
17383947 ACGTATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:17384678 original size:2 final size:2
Alignment explanation
Indices: 17384671--17384702 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17384661 AGATATGAAG
17384671 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
17384703 TATTGTCAAG
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:17385877 original size:93 final size:93
Alignment explanation
Indices: 17385735--17385922 Score: 281
Period size: 93 Copynumber: 2.0 Consensus size: 93
17385725 TAGATTTTCC
17385735 TAAGATTAAAATTTGATTCTCGACAAAACTGAACTTTATTAAATAAAAATCATACCATCC-ATGA
1 TAAGATTAAAATTTGATTCTCGACAAAACTGAACTTTATTAAATAAAAATCATACCATCCAATGA
17385799 TCTTTATATATCCAAAAACTTTTTTTACA
66 TCTTTATATATCC-AAAACTTTTTTTACA
* * * * * * *
17385828 TAAGTTTAAGATTTGATTCTCCG-TAAGACTGAACTTTATTACATTAAAATTATACCATCCAATG
1 TAAGATTAAAATTTGATTCT-CGACAAAACTGAACTTTATTAAATAAAAATCATACCATCCAATG
17385892 ATCTTTATATATCCAAAACTTTTTTTACA
65 ATCTTTATATATCCAAAACTTTTTTTACA
17385921 TA
1 TA
17385923 TATATATATA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
93 67 0.78
94 19 0.22
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (93 bp):
TAAGATTAAAATTTGATTCTCGACAAAACTGAACTTTATTAAATAAAAATCATACCATCCAATGA
TCTTTATATATCCAAAACTTTTTTTACA
Found at i:17389546 original size:2 final size:2
Alignment explanation
Indices: 17389533--17389570 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
17389523 ATATCATAAA
* *
17389533 AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC GC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
17389571 TTTCATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.47, G:0.03, T:0.03
Consensus pattern (2 bp):
AC
Found at i:17389805 original size:164 final size:164
Alignment explanation
Indices: 17389534--17389864 Score: 563
Period size: 164 Copynumber: 2.0 Consensus size: 164
17389524 TATCATAAAA
* *
17389534 CACACATACACACACACACACACACACACGCACACACTTTCATTAATTGAGAACAAACAAATCAT
1 CACACACACACACACACACACACACACACACACACACTTTCATTAATTGAGAACAAACAAATCAT
*
17389599 CAACTTAATTGTAAGATACCAATGATGCAAGTCAAGATATCCATCAATGTCATTTACTATGAAAG
66 CAACTTAATTGTAAGAAACCAATGATGCAAGTCAAGATATCCATCAATGTCATTTACTATGAAAG
* *
17389664 AGTCAAAATATAGATATTACTACGTGAGCTGCAT
131 AGTCAAAAGATAGATATTACTACATGAGCTGCAT
* * * * *
17389698 CACACACACACACACACGCACGCACGCACACACACACTTTCATTAATTGAGAATAAACCAATCAT
1 CACACACACACACACACACACACACACACACACACACTTTCATTAATTGAGAACAAACAAATCAT
17389763 CAACTTAATTGTAAGAAACCAATGATGCAAGTCAAGATATCCATCAATGTCATTTACTATGAAAG
66 CAACTTAATTGTAAGAAACCAATGATGCAAGTCAAGATATCCATCAATGTCATTTACTATGAAAG
*
17389828 AGTTAAAAGATAGATATTACTACATGAGCTGCAT
131 AGTCAAAAGATAGATATTACTACATGAGCTGCAT
17389862 CAC
1 CAC
17389865 TCATCTGCTG
Statistics
Matches: 156, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
164 156 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.23
Consensus pattern (164 bp):
CACACACACACACACACACACACACACACACACACACTTTCATTAATTGAGAACAAACAAATCAT
CAACTTAATTGTAAGAAACCAATGATGCAAGTCAAGATATCCATCAATGTCATTTACTATGAAAG
AGTCAAAAGATAGATATTACTACATGAGCTGCAT
Found at i:17395646 original size:2 final size:2
Alignment explanation
Indices: 17395639--17395673 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
17395629 CAGTGACATC
*
17395639 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17395674 TTTCATTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:17395901 original size:255 final size:255
Alignment explanation
Indices: 17395419--17395920 Score: 708
Period size: 255 Copynumber: 2.0 Consensus size: 255
17395409 TATTAATTAG
** * * *
17395419 TTCATTGATACTTGACTCAGAATCGATTTCAAAAATTAAAGTTTTCAATTCGAATTCCAATCATA
1 TTCATTGATACTAAACTCAGAATCGATTTCAAAAATTAAAATTTTCAATTCCAATTCCAATAATA
17395484 ATTTTAAAGAAAAAAAATTAGCTTAATTACATTTGAACCAACCAGAATCAACTTTGCAGATCAAA
66 ATTTTAAAGAAAAAAAATTAGCTTAATTACATTTGAACCAACCAGAATCAACTTTGCAGATCAAA
* * * * *
17395549 AAACAACCTAGCCAATTATATTGATATATGCCCTTAGATTAGGTTTGTTAAAGTTTCTTAATGGT
131 AAACAACCTAACCAATTATATTGA-ATATGCCCTCAGATTAGGTTTGTTAAAGTTCCTCAATGAT
*
17395614 CTCTCATACATGCAGCAGTGACATCTATATATATATATATATATATATATATATAGATATT
195 CTCTCATACATGCAGCAGTGACATCGATATATATATATATATATATATATATATAGATATT
* * ** *
17395675 TTCATTGATGCTAAACTCAGAATCGATTTTAAAAATTAAAATTTTTTATTCCAATTCCAATAATT
1 TTCATTGATACTAAACTCAGAATCGATTTCAAAAATTAAAATTTTCAATTCCAATTCCAATAATA
* * * *
17395740 ATTTTAGAG-AAAAAAATTAGCTTAATTACGTTTGATCCAACCTGAATCAACTTTGCAGATCAAA
66 ATTTTAAAGAAAAAAAATTAGCTTAATTACATTTGAACCAACCAGAATCAACTTTGCAGATCAAA
17395804 AAACAACCTAACCAATTATATTG-ATATGCCCTCAGATTAGGTTTGTTAAAGTTCCTCAATGATC
131 AAACAACCTAACCAATTATATTGAATATGCCCTCAGATTAGGTTTGTTAAAGTTCCTCAATGATC
* * *
17395868 TCTCCTGC-TGTCCTGCA-TGCAGCAGT-GATATATATATATATATATATATATAT
196 TCTCATACATG--CAGCAGTG-A-CA-TCGATATATATATATATATATATATATAT
17395921 GTATGTAACA
Statistics
Matches: 218, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
252 2 0.01
253 45 0.21
254 5 0.02
255 102 0.47
256 64 0.29
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (255 bp):
TTCATTGATACTAAACTCAGAATCGATTTCAAAAATTAAAATTTTCAATTCCAATTCCAATAATA
ATTTTAAAGAAAAAAAATTAGCTTAATTACATTTGAACCAACCAGAATCAACTTTGCAGATCAAA
AAACAACCTAACCAATTATATTGAATATGCCCTCAGATTAGGTTTGTTAAAGTTCCTCAATGATC
TCTCATACATGCAGCAGTGACATCGATATATATATATATATATATATATATATAGATATT
Found at i:17395902 original size:2 final size:2
Alignment explanation
Indices: 17395895--17395920 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17395885 TGCAGCAGTG
17395895 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
17395921 GTATGTAACA
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:17401352 original size:2 final size:2
Alignment explanation
Indices: 17401345--17401372 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17401335 CTGATTATGA
17401345 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
17401373 CTTAAAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:17406191 original size:18 final size:18
Alignment explanation
Indices: 17406168--17406202 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17406158 TTCGTATAAA
17406168 ATATTA-ATAAATATATTT
1 ATATTATATAAA-ATATTT
17406186 ATATTATATAAAATATT
1 ATATTATATAAAATATT
17406203 AATAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTATATAAAATATTT
Found at i:17419984 original size:27 final size:28
Alignment explanation
Indices: 17419936--17420002 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 28
17419926 ATAACAAATA
* * * *
17419936 AATAATTTTTTAAATAACATATTA-ATT
1 AATAAATTTATAAATAAAATATCATATT
*
17419963 AATAAATTTATAATTAAAATATCATATT
1 AATAAATTTATAAATAAAATATCATATT
17419991 AA-AAATTT-TAAA
1 AATAAATTTATAAA
17420003 ATTCAAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.09
27 25 0.76
28 5 0.15
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (28 bp):
AATAAATTTATAAATAAAATATCATATT
Found at i:17420000 original size:28 final size:27
Alignment explanation
Indices: 17419910--17420011 Score: 73
Period size: 28 Copynumber: 3.7 Consensus size: 27
17419900 TATCATGATT
* *
17419910 AATTTTA-AATTAACATATAACAAATAAA
1 AATTTTATAATTAA-A-ATATCAATTAAA
* * * *
17419938 TAATTTTTTAAATAACATATTAATTAATA
1 -AATTTTATAATTAAAATATCAATTAA-A
17419967 AA-TTTATAATTAAAATATCATATTAAA
1 AATTTTATAATTAAAATATCA-ATTAAA
* *
17419994 AATTTTAAAATTCAAATA
1 AATTTTATAATTAAAATA
17420012 ATACATTCAT
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
27 17 0.30
28 28 0.49
29 7 0.12
30 5 0.09
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (27 bp):
AATTTTATAATTAAAATATCAATTAAA
Found at i:17429665 original size:25 final size:25
Alignment explanation
Indices: 17429636--17429700 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
17429626 ATGAATTATT
17429636 AATTTATTAATAAAAAATTTATTT-A
1 AATTTATTAATAAAAAATTT-TTTAA
** *
17429661 AATTTATTTTTAAAATATTTTTTAA
1 AATTTATTAATAAAAAATTTTTTAA
*
17429686 AATATTATAAATAAA
1 AAT-TTATTAATAAA
17429701 TACTCATACA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 3 0.09
25 21 0.66
26 8 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AATTTATTAATAAAAAATTTTTTAA
Found at i:17429682 original size:12 final size:12
Alignment explanation
Indices: 17429667--17429691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17429657 TTTAAATTTA
17429667 TTTTTAAAATAT
1 TTTTTAAAATAT
17429679 TTTTTAAAATAT
1 TTTTTAAAATAT
17429691 T
1 T
17429692 ATAAATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTTAAAATAT
Found at i:17429896 original size:15 final size:15
Alignment explanation
Indices: 17429863--17429895 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17429853 TTTTTTTTAA
17429863 TTTTAAATTACAAAT
1 TTTTAAATTACAAAT
*
17429878 TTTTAGATT-CAAAT
1 TTTTAAATTACAAAT
17429892 TTTT
1 TTTT
17429896 TGCCAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (15 bp):
TTTTAAATTACAAAT
Found at i:17438862 original size:16 final size:16
Alignment explanation
Indices: 17438843--17438885 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
17438833 AGAATGTCCA
17438843 ACAAGCCTAATGCTGC
1 ACAAGCCTAATGCTGC
17438859 ACAAGCCTAATGCTGC
1 ACAAGCCTAATGCTGC
17438875 ACAAGCCTAAT
1 ACAAGCCTAAT
17438886 ATGAGGGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.35, C:0.30, G:0.16, T:0.19
Consensus pattern (16 bp):
ACAAGCCTAATGCTGC
Found at i:17452154 original size:7 final size:7
Alignment explanation
Indices: 17452142--17452166 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17452132 TTTCATTGAC
17452142 AAGACAG
1 AAGACAG
17452149 AAGACAG
1 AAGACAG
17452156 AAGACAG
1 AAGACAG
17452163 AAGA
1 AAGA
17452167 AGCTGACCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.28, T:0.00
Consensus pattern (7 bp):
AAGACAG
Found at i:17460608 original size:17 final size:18
Alignment explanation
Indices: 17460586--17460619 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17460576 ACATTTAATA
*
17460586 TTTTTCA-AAATATTTTT
1 TTTTTCACAAACATTTTT
17460603 TTTTTCACAAACATTTT
1 TTTTTCACAAACATTTT
17460620 AATAAATTGT
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:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTCACAAACATTTTT
Found at i:17460874 original size:40 final size:38
Alignment explanation
Indices: 17460819--17460894 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 38
17460809 ATACCTTTAT
*
17460819 ATTTAGTGATTTATATATTTATATTATATAAAATATTAAA
1 ATTTAGTGATTTATAT-TGTATATTATATAAAA-ATTAAA
*
17460859 ATTTA-TGTATTTATATTGTATGTTATATAAAAATTA
1 ATTTAGTG-ATTTATATTGTATATTATATAAAAATTA
17460895 TTTTTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 4 0.12
39 16 0.48
40 13 0.39
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (38 bp):
ATTTAGTGATTTATATTGTATATTATATAAAAATTAAA
Found at i:17460892 original size:32 final size:32
Alignment explanation
Indices: 17460827--17460893 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
17460817 ATATTTAGTG
*
17460827 ATTTATATATTTATATTATATAAAATATTAAA
1 ATTTATATATTTATATTATATAAAATATAAAA
* * ***
17460859 ATTTATGTATTTATATTGTATGTTATATAAAA
1 ATTTATATATTTATATTATATAAAATATAAAA
17460891 ATT
1 ATT
17460894 ATTTTTTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (32 bp):
ATTTATATATTTATATTATATAAAATATAAAA
Found at i:17460925 original size:15 final size:14
Alignment explanation
Indices: 17460892--17460925 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17460882 TATATAAAAA
17460892 TTATTTTTTTATTT
1 TTATTTTTTTATTT
*
17460906 TTATTTTTTTGTTT
1 TTATTTTTTTATTT
17460920 TATATT
1 T-TATT
17460926 GAGTTTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (14 bp):
TTATTTTTTTATTT
Found at i:17462456 original size:29 final size:28
Alignment explanation
Indices: 17462421--17462496 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 28
17462411 AAAATATAAA
17462421 ATATAATTTTTTAATTTTATTAAATTTAT
1 ATATAATTTTTTAATTTTATTAAA-TTAT
* ***
17462450 TTATAATTTTTTAA-AAAATTAAATTAT
1 ATATAATTTTTTAATTTTATTAAATTAT
17462477 ATAT-ATTTTTT-ATTTTATTA
1 ATATAATTTTTTAATTTTATTA
17462497 TGTTTTAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
25 1 0.03
26 11 0.29
27 7 0.18
28 6 0.16
29 13 0.34
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
ATATAATTTTTTAATTTTATTAAATTAT
Found at i:17462461 original size:23 final size:26
Alignment explanation
Indices: 17462435--17462490 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 26
17462425 AATTTTTTAA
*
17462435 TTTTATTAAATT-TATT-TATA-ATT
1 TTTTATTAAATTAAATTATATATATT
**
17462458 TTTTAAAAAATTAAATTATATATATT
1 TTTTATTAAATTAAATTATATATATT
17462484 TTTTATT
1 TTTTATT
17462491 TTATTATGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 10 0.40
24 3 0.12
25 4 0.16
26 8 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTATTAAATTAAATTATATATATT
Found at i:17482473 original size:2 final size:2
Alignment explanation
Indices: 17482466--17482508 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
17482456 AGCCTCATCT
*
17482466 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17482508 T
1 T
17482509 TTGGTTGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:17485401 original size:20 final size:22
Alignment explanation
Indices: 17485364--17485403 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
17485354 TTTATTTTCG
17485364 TATTATATTTATATTTAAAAAA
1 TATTATATTTATATTTAAAAAA
17485386 TATTAT-TTTATA-TTAAAA
1 TATTATATTTATATTTAAAA
17485404 TTTTATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 6 0.33
22 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTATATTTATATTTAAAAAA
Found at i:17487229 original size:20 final size:19
Alignment explanation
Indices: 17487206--17487244 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
17487196 ATTTTATTTT
*
17487206 TTATAATTTATTTTTAAAAA
1 TTATAATAT-TTTTTAAAAA
17487226 TTATAATATTTTTTAAAAA
1 TTATAATATTTTTTAAAAA
17487245 ATAGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTATAATATTTTTTAAAAA
Found at i:17487245 original size:20 final size:20
Alignment explanation
Indices: 17487206--17487246 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
17487196 ATTTTATTTT
*
17487206 TTATAATTTATTTTTAAAAA
1 TTATAATTTATTTTAAAAAA
17487226 TTATAATATT-TTTTAAAAAA
1 TTATAAT-TTATTTTAAAAAA
17487246 T
1 T
17487247 AGATTTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATAATTTATTTTAAAAAA
Found at i:17488624 original size:18 final size:18
Alignment explanation
Indices: 17488597--17488634 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
17488587 AAAACAATCA
*
17488597 AATTTATATATATTTTTT
1 AATTTATATATATGTTTT
*
17488615 AATTTTTATATATGTTTT
1 AATTTATATATATGTTTT
17488633 AA
1 AA
17488635 ACTTATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
AATTTATATATATGTTTT
Found at i:17488732 original size:16 final size:18
Alignment explanation
Indices: 17488697--17488739 Score: 63
Period size: 16 Copynumber: 2.4 Consensus size: 18
17488687 AAAATTTTAT
17488697 ATTAAAATAATATGTAAAA
1 ATTAAAA-AATATGTAAAA
17488716 ATTAAAAAA-AT-TAAAA
1 ATTAAAAAATATGTAAAA
17488732 ATTAAAAA
1 ATTAAAAA
17488740 CTCATATACC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.54
17 2 0.08
18 2 0.08
19 7 0.29
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
ATTAAAAAATATGTAAAA
Found at i:17494302 original size:22 final size:23
Alignment explanation
Indices: 17494275--17494320 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
17494265 TTGTGTAATT
* *
17494275 TTATTTGTTAATA-ATTTATTTA
1 TTATTTATAAATATATTTATTTA
*
17494297 TTATTTATAAATATGTTTATTTA
1 TTATTTATAAATATATTTATTTA
17494320 T
1 T
17494321 ATAAAATCGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (23 bp):
TTATTTATAAATATATTTATTTA
Found at i:17495153 original size:21 final size:20
Alignment explanation
Indices: 17495129--17495166 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
17495119 ATTATTAATA
17495129 TTTTTGTTGATTTTATTTTAG
1 TTTTTGTT-ATTTTATTTTAG
17495150 TTTTTGTTATTTT-TTTT
1 TTTTTGTTATTTTATTTT
17495167 TTCAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (20 bp):
TTTTTGTTATTTTATTTTAG
Found at i:17495168 original size:21 final size:21
Alignment explanation
Indices: 17495129--17495167 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
17495119 ATTATTAATA
17495129 TTTTTGTTGATTTTATTTTAG
1 TTTTTGTTGATTTTATTTTAG
*
17495150 TTTTTGTT-ATTTTTTTTT
1 TTTTTGTTGATTTTATTTT
17495168 TCAATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (21 bp):
TTTTTGTTGATTTTATTTTAG
Found at i:17508880 original size:157 final size:157
Alignment explanation
Indices: 17508594--17508902 Score: 618
Period size: 157 Copynumber: 2.0 Consensus size: 157
17508584 AAAAGAAATA
17508594 TATTCACTATACCAACTGCATAAGCAATGTTAAGCTATGTATAAATTATAAGATATATCAAAGAA
1 TATTCACTATACCAACTGCATAAGCAATGTTAAGCTATGTATAAATTATAAGATATATCAAAGAA
17508659 TCGATTGCAAAAAAATAAGAAATACTAGACATAGTTAGTTGCTCTTCTTTAGTCATCGGACAAGT
66 TCGATTGCAAAAAAATAAGAAATACTAGACATAGTTAGTTGCTCTTCTTTAGTCATCGGACAAGT
17508724 TTTTTACTCAGATAAAAATAGTAAGTG
131 TTTTTACTCAGATAAAAATAGTAAGTG
17508751 TATTCACTATACCAACTGCATAAGCAATGTTAAGCTATGTATAAATTATAAGATATATCAAAGAA
1 TATTCACTATACCAACTGCATAAGCAATGTTAAGCTATGTATAAATTATAAGATATATCAAAGAA
17508816 TCGATTGCAAAAAAATAAGAAATACTAGACATAGTTAGTTGCTCTTCTTTAGTCATCGGACAAGT
66 TCGATTGCAAAAAAATAAGAAATACTAGACATAGTTAGTTGCTCTTCTTTAGTCATCGGACAAGT
17508881 TTTTTACTCAGATAAAAATAGT
131 TTTTTACTCAGATAAAAATAGT
17508903 TAGTAAGTGT
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (157 bp):
TATTCACTATACCAACTGCATAAGCAATGTTAAGCTATGTATAAATTATAAGATATATCAAAGAA
TCGATTGCAAAAAAATAAGAAATACTAGACATAGTTAGTTGCTCTTCTTTAGTCATCGGACAAGT
TTTTTACTCAGATAAAAATAGTAAGTG
Found at i:17516928 original size:17 final size:17
Alignment explanation
Indices: 17516906--17516938 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17516896 AATTTACCTG
17516906 TTAAAAATTTTTTCTTT
1 TTAAAAATTTTTTCTTT
*
17516923 TTAAAATTTTTTTCTT
1 TTAAAAATTTTTTCTT
17516939 ATAAGTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (17 bp):
TTAAAAATTTTTTCTTT
Found at i:17523001 original size:2 final size:2
Alignment explanation
Indices: 17522994--17523027 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
17522984 TACGTCCTCC
17522994 TA 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 TA
17523028 ACTAATCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17523891 original size:2 final size:2
Alignment explanation
Indices: 17523884--17523913 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
17523874 AGAAAAAGCA
*
17523884 AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17523914 GTATGTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:17524823 original size:2 final size:2
Alignment explanation
Indices: 17524816--17524843 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17524806 ACATACATAC
17524816 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
17524844 TGAATCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17525982 original size:42 final size:42
Alignment explanation
Indices: 17525935--17526016 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
17525925 TCTCGTGATC
17525935 ACTGCAGTATATATATGAAACAAGCCTGTAATTTCATTAATT
1 ACTGCAGTATATATATGAAACAAGCCTGTAATTTCATTAATT
17525977 ACTGCAGTATATATATGAAACAAGCCTGTAATTTCATTAA
1 ACTGCAGTATATATATGAAACAAGCCTGTAATTTCATTAA
17526017 GCACAGCTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (42 bp):
ACTGCAGTATATATATGAAACAAGCCTGTAATTTCATTAATT
Found at i:17535567 original size:30 final size:30
Alignment explanation
Indices: 17535506--17535580 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
17535496 TATTAAACAT
*
17535506 TTATTTAGATACAAATTAAAAGATAAAAAC
1 TTATTTGGATACAAATTAAAAGATAAAAAC
** **
17535536 TTATTTGGATACAAATTAAAATTTACGAAC
1 TTATTTGGATACAAATTAAAAGATAAAAAC
*
17535566 TTATTTGGATGCAAA
1 TTATTTGGATACAAA
17535581 GTAAGGTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.35
Consensus pattern (30 bp):
TTATTTGGATACAAATTAAAAGATAAAAAC
Found at i:17536473 original size:18 final size:17
Alignment explanation
Indices: 17536426--17536494 Score: 63
Period size: 18 Copynumber: 4.1 Consensus size: 17
17536416 ATTTATAAAA
*
17536426 ATTAATTTT-TAATTA-
1 ATTAATTTTATATTTAT
*
17536441 ATTAATTAATTATATATAT
1 ATTAATT--TTATATTTAT
*
17536460 ATTATTTTTTATATTTAT
1 ATTA-ATTTTATATTTAT
17536478 -TTAATTTTATATTTAT
1 ATTAATTTTATATTTAT
17536494 A
1 A
17536495 AAAAATAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
15 7 0.16
16 12 0.28
17 5 0.12
18 13 0.30
19 4 0.09
20 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTAATTTTATATTTAT
Found at i:17536533 original size:17 final size:19
Alignment explanation
Indices: 17536489--17536533 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
17536479 TAATTTTATA
*
17536489 TTTATAAAAAATAAATATT
1 TTTATTAAAAATAAATATT
17536508 TTATATTAAAAAT-AATA-T
1 TT-TATTAAAAATAAATATT
17536526 TTTATTAA
1 TTTATTAA
17536534 TTTTAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 6 0.25
18 3 0.12
19 6 0.25
20 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTATTAAAAATAAATATT
Found at i:17540490 original size:23 final size:25
Alignment explanation
Indices: 17540464--17540523 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
17540454 TTAATAATAA
*
17540464 AATAAAAT-T-TGATTTATTTTATT
1 AATAAAATATATGATTTAATTTATT
*
17540487 AATAAAATGATATTATTTAATTTATT
1 AATAAAAT-ATATGATTTAATTTATT
*
17540513 AATAATATATA
1 AATAAAATATA
17540524 AAATTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 8 0.26
25 4 0.13
26 19 0.61
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (25 bp):
AATAAAATATATGATTTAATTTATT
Found at i:17540510 original size:31 final size:28
Alignment explanation
Indices: 17540447--17540530 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 28
17540437 TTTTTTAAAA
17540447 AATTTA-TTTAATAATAAAATAAAATTT
1 AATTTATTTTAATAATAAAATAAAATTT
* * *
17540474 GATTTATTTTATTAATAAAATGATATTATTT
1 AATTTATTTTAATAATAAAAT-A-A-AATTT
*
17540505 AATTTA--TTAATAAT-ATATAAAATTT
1 AATTTATTTTAATAATAAAATAAAATTT
17540530 A
1 A
17540531 TATATCCACA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 6 0.13
28 16 0.35
29 8 0.17
30 1 0.02
31 9 0.20
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
AATTTATTTTAATAATAAAATAAAATTT
Found at i:17543341 original size:3 final size:3
Alignment explanation
Indices: 17543329--17543368 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
17543319 GAAGTTGTCT
* **
17543329 TGA TGG TGA TGA TGA TGA TGA TGA TGA CAA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
17543369 AATGGTGACT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:17543372 original size:12 final size:12
Alignment explanation
Indices: 17543335--17543372 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
17543325 GTCTTGATGG
*
17543335 TGATGATGATGA
1 TGATGATGATAA
*
17543347 TGATGATGACAA
1 TGATGATGATAA
17543359 TGATGATGATAA
1 TGATGATGATAA
17543371 TG
1 TG
17543373 GTGACTCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.32
Consensus pattern (12 bp):
TGATGATGATAA
Found at i:17550624 original size:42 final size:41
Alignment explanation
Indices: 17550577--17550671 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 41
17550567 TTTCTTGTCC
* * *
17550577 TTTGAT-TTGATTTTATATTTATAATATTTGAATTTAATTTGA
1 TTTGATATT-ATTTTATATTT-TAATACTCGAATCTAATTTGA
* *
17550619 TTTGATAATTTTTTTATATTTTAATACTCGAATCTAATTTAA
1 TTTGAT-ATTATTTTATATTTTAATACTCGAATCTAATTTGA
*
17550661 CTTGATATTAT
1 TTTGATATTAT
17550672 ATAAAATCAT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
41 4 0.09
42 28 0.64
43 10 0.23
44 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.57
Consensus pattern (41 bp):
TTTGATATTATTTTATATTTTAATACTCGAATCTAATTTGA
Found at i:17550767 original size:25 final size:24
Alignment explanation
Indices: 17550707--17550777 Score: 63
Period size: 25 Copynumber: 2.9 Consensus size: 24
17550697 AATTTAATAA
**
17550707 AATATTATTTTTTAAAATATAAAAT
1 AATATTATTAATT-AAATATAAAAT
* *
17550732 ATTATTTTTAATGTAAATATAAAATT
1 AATATTATTAAT-TAAATATAAAA-T
*
17550758 AATA-TATTAATTAAAAATAA
1 AATATTATTAATTAAATATAA
17550778 TTATATATCA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
24 8 0.22
25 24 0.65
26 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (24 bp):
AATATTATTAATTAAATATAAAAT
Found at i:17552582 original size:25 final size:25
Alignment explanation
Indices: 17552554--17552612 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
17552544 CTTTAATATT
17552554 AAAAAATAAAAAATTTAAAAATTTA
1 AAAAAATAAAAAATTTAAAAATTTA
* **
17552579 AAAAAATAAAAATTTTAAATGTTTA
1 AAAAAATAAAAAATTTAAAAATTTA
17552604 AAAAAATAA
1 AAAAAATAA
17552613 TTTTAAGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAAAATAAAAAATTTAAAAATTTA
Found at i:17557946 original size:26 final size:26
Alignment explanation
Indices: 17557910--17557967 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
17557900 ATGAATGCCC
17557910 ATTT-AAAGCAAACAGCATTTTATGA
1 ATTTAAAAGCAAACAGCATTTTATGA
*
17557935 ATTTAAAAGCAAACAGCATTTTATTA
1 ATTTAAAAGCAAACAGCATTTTATGA
17557961 ATTTAAA
1 ATTTAAA
17557968 TGCTCTTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (26 bp):
ATTTAAAAGCAAACAGCATTTTATGA
Found at i:17559476 original size:2 final size:2
Alignment explanation
Indices: 17559471--17559499 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17559461 CGCGCGAGTA
17559471 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
17559500 AGGGGAATAG
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17563018 original size:2 final size:2
Alignment explanation
Indices: 17563011--17563040 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
17563001 CAATTTCTTT
*
17563011 TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17563041 AAGAAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:17563900 original size:18 final size:20
Alignment explanation
Indices: 17563877--17563913 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17563867 GAAAAAAAAC
17563877 TATCAAA-T-AAAATCAGAT
1 TATCAAATTCAAAATCAGAT
17563895 TATCAAATTCAAAATCAGA
1 TATCAAATTCAAAATCAGA
17563914 AATTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (20 bp):
TATCAAATTCAAAATCAGAT
Found at i:17566578 original size:2 final size:2
Alignment explanation
Indices: 17566571--17566604 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
17566561 TTTTCAAGTA
*
17566571 AT AT AT AT GT 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
17566605 GAGTGGACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17592637 original size:42 final size:42
Alignment explanation
Indices: 17592520--17592639 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
17592510 CTAGAAAGTG
* *
17592520 CAGCATCAAAACCTGATCTCCCTG--ATGTAAAACCTGAAAGTA
1 CAGCACCAAAACCTGATCTCCCTGCCAT-T-AAACCTGAAAGCA
* ** * *
17592562 CAGCGCCAAAACCTGATCTCCCCACCATAAAACCTGTAAGCA
1 CAGCACCAAAACCTGATCTCCCTGCCATTAAACCTGAAAGCA
17592604 CAGCACCAAAACCTGATCAT-CCTGCCATTAAACCTG
1 CAGCACCAAAACCTGATC-TCCCTGCCATTAAACCTG
17592640 GAGCTGCAGC
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 61 0.95
43 1 0.02
44 2 0.03
ACGTcount: A:0.36, C:0.33, G:0.12, T:0.18
Consensus pattern (42 bp):
CAGCACCAAAACCTGATCTCCCTGCCATTAAACCTGAAAGCA
Found at i:17599114 original size:15 final size:15
Alignment explanation
Indices: 17599094--17599128 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17599084 CGAATTTGTC
17599094 AAAAAAAAAAAATTA
1 AAAAAAAAAAAATTA
* *
17599109 AAAAAAAAACATTTA
1 AAAAAAAAAAAATTA
17599124 AAAAA
1 AAAAA
17599129 TTAAAAAAAC
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:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAAAAAAAAATTA
Found at i:17599142 original size:14 final size:15
Alignment explanation
Indices: 17599094--17599128 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
17599084 CGAATTTGTC
*
17599094 AAAAAAAAAA-AATT
1 AAAAAAAAAACATTT
17599108 AAAAAAAAAACATTT
1 AAAAAAAAAACATTT
17599123 AAAAAA
1 AAAAAA
17599129 TTAAAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAAAAAAACATTT
Found at i:17601553 original size:14 final size:15
Alignment explanation
Indices: 17601534--17601564 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17601524 AAATATTAAT
17601534 TTTAATA-AAATTTA
1 TTTAATATAAATTTA
17601548 TTTAATATAAATTTA
1 TTTAATATAAATTTA
17601563 TT
1 TT
17601565 ATTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAATATAAATTTA
Found at i:17607116 original size:21 final size:22
Alignment explanation
Indices: 17607074--17607126 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
17607064 AAAAAAACCC
17607074 CTAAAAAACATATAAATAAAATA
1 CTAAAAAA-ATATAAATAAAATA
17607097 CTAAATAAAATA-AAAT-AAATA
1 CTAAA-AAAATATAAATAAAATA
*
17607118 CCAAAAAAA
1 CTAAAAAAA
17607127 AAAGAAACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 4 0.14
21 9 0.32
22 4 0.14
23 8 0.29
24 3 0.11
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (22 bp):
CTAAAAAAATATAAATAAAATA
Found at i:17611280 original size:8 final size:7
Alignment explanation
Indices: 17611252--17611278 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17611242 TTATTATTAC
17611252 AAAAAAT
1 AAAAAAT
17611259 AAAAAAT
1 AAAAAAT
17611266 AAAAAAT
1 AAAAAAT
17611273 AAAAAA
1 AAAAAA
17611279 ATGTTCCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:17614516 original size:19 final size:16
Alignment explanation
Indices: 17614483--17614921 Score: 196
Period size: 15 Copynumber: 27.9 Consensus size: 16
17614473 AAGAACAGAT
17614483 TAATATAATATATTAA
1 TAATATAATATATTAA
*
17614499 TAATATAATA-ACTAA
1 TAATATAATATATTAA
* *
17614514 TTAATATAATATGTTAT
1 -TAATATAATATATTAA
17614531 TAATA-AA-ATA-T-A
1 TAATATAATATATTAA
* *
17614543 TAATATATTATA-CAA
1 TAATATAATATATTAA
17614558 TAA-ATAATATATTAA
1 TAATATAATATATTAA
* * *
17614573 CAA-ATATTATATAAA
1 TAATATAATATATTAA
17614588 TAATATATTAATATATTAA
1 T-A-ATA-TAATATATTAA
*
17614607 TAATAAAATTATATTAA
1 TAATATAA-TATATTAA
* *
17614624 TATAAATAATGTATTAA
1 TA-ATATAATATATTAA
*
17614641 TAA-ATAATATATTAT
1 TAATATAATATATTAA
* *
17614656 TAA-ATAAAAAATATAA
1 TAATATAATATAT-TAA
17614672 T-ATATAATATATTAA
1 TAATATAATATATTAA
* **
17614687 CAA-ATTTTATATTAA
1 TAATATAATATATTAA
*
17614702 TAATATATTAATATATTAT
1 T-A-ATA-TAATATATTAA
17614721 TAATACATTAATATATTAA
1 TAAT--A-TAATATATTAA
*
17614740 TAA-ATATTATATTATA
1 TAATATAATATATTA-A
* * *
17614756 TCAAAATATTAAATTAA
1 T-AATATAATATATTAA
17614773 TAATA-AATA-ATGTAA
1 TAATATAATATAT-TAA
*
17614788 TAA-AT-GT-TATGT--
1 TAATATAATATAT-TAA
17614800 TAATAT-AT-TATTAA
1 TAATATAATATATTAA
** *
17614814 TAATGCATTATATTAA
1 TAATATAATATATTAA
* *
17614830 T-TTCAATAATATGTTAA
1 TAAT--ATAATATATTAA
*
17614847 TAA-ATATTATATTAA
1 TAATATAATATATTAA
*
17614862 TAATATATTAATATT-A
1 TAATATAAT-ATATTAA
**
17614878 TAA-ATAATATATTGT
1 TAATATAATATATTAA
* *
17614893 TAATA-ATTAGATTAA
1 TAATATAATATATTAA
17614908 TAA-ATAATATATTA
1 TAATATAATATATTA
17614922 TATTAATAAT
Statistics
Matches: 323, Mismatches: 60, Indels: 81
0.70 0.13 0.17
Matches are distributed among these distances:
12 9 0.03
13 8 0.02
14 30 0.09
15 114 0.35
16 64 0.20
17 46 0.14
18 18 0.06
19 34 0.11
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
TAATATAATATATTAA
Found at i:17614600 original size:34 final size:34
Alignment explanation
Indices: 17614562--17614719 Score: 111
Period size: 34 Copynumber: 4.3 Consensus size: 34
17614552 ATACAATAAA
17614562 TAATATATTAACAAATATTATATAAATAATATAT
1 TAATATATTAACAAATATTATATAAATAATATAT
* *
17614596 TAATATATTAATAATAAAATTATATTAATATAAATAATGTAT
1 TAATATA-T--T-A-ACAA--ATATT-ATATAAATAATATAT
* * * * *
17614638 TAATA-AATAATATATTATTAAATAAAAAATATAATAT
1 TAATATATTAACA-AATATTATAT-AAATA-AT-ATAT
* *
17614675 ATAATATATTAACAAATTTTATATTAATAATATAT
1 -TAATATATTAACAAATATTATATAAATAATATAT
17614710 TAATATATTA
1 TAATATATTA
17614720 TTAATACATT
Statistics
Matches: 95, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
34 20 0.21
35 13 0.14
36 6 0.06
37 9 0.09
38 14 0.15
39 8 0.08
41 6 0.06
42 19 0.20
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (34 bp):
TAATATATTAACAAATATTATATAAATAATATAT
Found at i:17614704 original size:57 final size:57
Alignment explanation
Indices: 17614556--17614714 Score: 173
Period size: 57 Copynumber: 2.8 Consensus size: 57
17614546 TATATTATAC
* * * * *
17614556 AATAAATAATATATTAACAAATATTATATAAATAATATATTAATATATTAATAATAA
1 AATATATAATATATTAACAAATTTTATATAAATAATATATTAATAAATAAAAAATAA
* * *
17614613 AATTATATTAATATA--AA-TAATGTATTA-ATAAATAATATATTATTAAATAAAAAATAT
1 AA-TATA-TAATATATTAACAAAT-T-TTATATAAATAATATATTAATAAATAAAAAATAA
*
17614670 AATATATAATATATTAACAAATTTTATATTAATAATATATTAATA
1 AATATATAATATATTAACAAATTTTATATAAATAATATATTAATA
17614715 TATTATTAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
55 7 0.08
56 10 0.12
57 50 0.60
58 9 0.11
59 7 0.08
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (57 bp):
AATATATAATATATTAACAAATTTTATATAAATAATATATTAATAAATAAAAAATAA
Found at i:17614772 original size:114 final size:113
Alignment explanation
Indices: 17614488--17614781 Score: 286
Period size: 114 Copynumber: 2.6 Consensus size: 113
17614478 CAGATTAATA
* * * * *
17614488 TAATATATTAATAATATAA-TA-ACTAAT-TAATATAATATGTT-ATTAATAAAATAT-A-TAAT
1 TAATATATTAATAATAAAATTATATTAATATAA-ATAATATATTAATAAATAATATATAATTAAT
* ** *
17614547 ATATTATACAATAAATAATATATTAACAAATATTATATAAATAATATAT
65 AAAAAATATAATAAATAATATATTAACAAATATTATATAAATAATATAT
* *
17614596 TAATATATTAATAATAAAATTATATTAATATAAATAATGTATTAATAAATAATATATTATTAAAT
1 TAATATATTAATAATAAAATTATATTAATATAAATAATATATTAATAAATAATATATAATT-AAT
* * *
17614661 AAAAAATATAATATATAATATATTAACAAATTTTATATTAATAATATAT
65 AAAAAATATAATAAATAATATATTAACAAATATTATATAAATAATATAT
* * *
17614710 TAATATATTATTAATACATTAA-TATATT-A-ATAAATATTATATTATATCAA-AATAT-TAAAT
1 TAATATATTAATAATA-A--AATTATATTAATATAAATAATATATTA-ATAAATAATATAT-AAT
*
17614770 TAATAATAAATA
61 TAATAAAAAATA
17614782 ATGTAATAAA
Statistics
Matches: 155, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
108 18 0.12
109 2 0.01
110 13 0.08
111 14 0.09
112 1 0.01
113 12 0.08
114 81 0.52
115 6 0.04
116 6 0.04
117 2 0.01
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (113 bp):
TAATATATTAATAATAAAATTATATTAATATAAATAATATATTAATAAATAATATATAATTAATA
AAAAATATAATAAATAATATATTAACAAATATTATATAAATAATATAT
Found at i:17614813 original size:41 final size:41
Alignment explanation
Indices: 17614528--17614929 Score: 158
Period size: 42 Copynumber: 9.6 Consensus size: 41
17614518 TATAATATGT
*
17614528 TATTAATAAA-A-TATA-TAATATATTATACAATAA-ATAATA
1 TATTAATAAATATTATATTAATATATTAT-TAATAATA-AATA
* * *
17614567 TATTAACAAATATTATATAAATA-ATATATTAATATATTAATA
1 TATTAATAAATATTATATTAATATAT-TATTAATA-ATAAATA
*
17614609 -A-TAA-AATTATATTAATATAAATA-ATGTATTAATAA-ATAATA
1 TATTAATAA--ATATT-ATATTAATATAT-TATTAATAATA-AATA
* ** * * * *
17614650 TATTATTAAATAAAAAATATAATATATAATATATTAACAAAT-
1 TATTAATAAATATTATAT-TAATATATTAT-TAATAATAAATA
* * *
17614692 T-TTATATTAATAATATATTAATATATTATTAATACATTAATA
1 TATTA-ATAAATATTATATTAATATATTATTAATA-ATAAATA
17614734 TATTAATAAATATTATATTATATCAAAATATTAAATTAATAATAAATA
1 TATTAATAAATATTATATTA-AT----ATATT--ATTAATAATAAATA
* * * *
17614782 -ATGTAATAAATGTTATGTTAATATATTATTAATAATGCATTA
1 TAT-TAATAAATATTATATTAATATATTATTAATAAT-AAATA
* * * *
17614824 TATTAATTTCAATAATATGTTAATAAATATTA-TATTAAT-AATA
1 TATTAA--TAAATATTATATTAAT--ATATTATTAATAATAAATA
* * * *
17614867 TATTAAT-ATTA-TA-AATAATATATTGTTAATAATTAGAT-
1 TATTAATAAATATTATATTAATATATTATTAATAA-TAAATA
*
17614905 TAATAAATAATATATTATATTAATA
1 T-ATTAATAA-ATATTATATTAATA
17614930 ATTTGTTATT
Statistics
Matches: 278, Mismatches: 42, Indels: 82
0.69 0.10 0.20
Matches are distributed among these distances:
36 5 0.02
37 5 0.02
38 6 0.02
39 20 0.07
40 12 0.04
41 53 0.19
42 73 0.26
43 39 0.14
44 16 0.06
45 6 0.02
46 6 0.02
47 9 0.03
48 21 0.08
49 7 0.03
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (41 bp):
TATTAATAAATATTATATTAATATATTATTAATAATAAATA
Found at i:17614885 original size:20 final size:21
Alignment explanation
Indices: 17614849--17614890 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
17614839 TATGTTAATA
17614849 AATATTATATTAATAATATATT
1 AATATTATA-TAATAATATATT
17614871 AATATTATA-AATAATATATT
1 AATATTATATAATAATATATT
17614891 GTTAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.55
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATATTATATAATAATATATT
Found at i:17614926 original size:20 final size:19
Alignment explanation
Indices: 17614893--17614930 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
17614883 AATATATTGT
17614893 TAATAATTAGATTAATAAA
1 TAATAATTAGATTAATAAA
*
17614912 TAATATATTATATTAATAA
1 TAATA-ATTAGATTAATAA
17614931 TTTGTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TAATAATTAGATTAATAAA
Found at i:17614942 original size:46 final size:47
Alignment explanation
Indices: 17614707--17614944 Score: 137
Period size: 46 Copynumber: 5.2 Consensus size: 47
17614697 ATTAATAATA
* *
17614707 TATTAATATATT--ATTAATACAT-TAAT-ATATTAATAAATATTATAT
1 TATTAATATATTAGATTAATA-ATATAATAATATT-ATAAATAATATGT
* * * * **
17614752 TATATCAAAATATTAAATTAATAATA-AATAATGTAATAAATGTTATG-
1 TAT-T-AATATATTAGATTAATAATATAATAATATTATAAATAATATGT
* * *
17614799 --TTAATATATT--ATTAATAATGCATTATATTAATT-TCAATAATATGT
1 TATTAATATATTAGATTAATAAT--ATAATAAT-ATTATAAATAATATGT
* * * *
17614844 TAATAA-ATATTATATTAATAATATATTAATATTATAAATAATATAT
1 TATTAATATATTAGATTAATAATATAATAATATTATAAATAATATGT
* *
17614890 TGTTAATA-ATTAGATTAATAA-ATAAT-ATATTATATTAATAATTTGT
1 TATTAATATATTAGATTAATAATATAATAATATTATA--AATAATATGT
17614936 TATTAATAT
1 TATTAATAT
17614945 CATCTATTAT
Statistics
Matches: 147, Mismatches: 26, Indels: 38
0.70 0.12 0.18
Matches are distributed among these distances:
41 9 0.06
43 8 0.05
44 21 0.14
45 12 0.08
46 52 0.35
47 11 0.07
48 24 0.16
49 10 0.07
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (47 bp):
TATTAATATATTAGATTAATAATATAATAATATTATAAATAATATGT
Found at i:17614972 original size:18 final size:18
Alignment explanation
Indices: 17614935--17614987 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
17614925 TAATAATTTG
*
17614935 TTATTAATATCATCTATTAT
1 TTATTAATAT-A-ATATTAT
17614955 TTATTAATATAATATTAT
1 TTATTAATATAATATTAT
17614973 TTATATAATA-AATAT
1 TTAT-TAATATAATAT
17614988 AATAATACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 15 0.48
19 6 0.19
20 10 0.32
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATTAATATAATATTAT
Found at i:17619766 original size:25 final size:26
Alignment explanation
Indices: 17619733--17619796 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
17619723 GAACAATTAG
*
17619733 ATTTA-ATAATATATT-TATATTATT
1 ATTTATATAATATATTATATATTATA
* *
17619757 TTTTATATAA-AAATTATATATTATA
1 ATTTATATAATATATTATATATTATA
17619782 ATTTATATTAATATA
1 ATTTATA-TAATATA
17619797 AAAATATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 8 0.26
25 18 0.58
26 3 0.10
27 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
ATTTATATAATATATTATATATTATA
Found at i:17625147 original size:18 final size:19
Alignment explanation
Indices: 17625119--17625159 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
17625109 ACGCATGGCT
17625119 GCAGTTTGGAAGAAGCTGA
1 GCAGTTTGGAAGAAGCTGA
17625138 GCAG-TTGGAAGAAGCTGA
1 GCAGTTTGGAAGAAGCTGA
17625156 GCAG
1 GCAG
17625160 CTAAAACGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.32, C:0.12, G:0.39, T:0.17
Consensus pattern (19 bp):
GCAGTTTGGAAGAAGCTGA
Found at i:17625803 original size:25 final size:25
Alignment explanation
Indices: 17625769--17625835 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
17625759 GACCATATAG
17625769 CAAATGAAATGTATCAAATATACAGC
1 CAAAT-AAATGTATCAAATATACAGC
* *
17625795 CAAGA-AAATATATAAAATATACAGC
1 CAA-ATAAATGTATCAAATATACAGC
*
17625820 TAAATAAATGTATCAA
1 CAAATAAATGTATCAA
17625836 CTAGTTTCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 29 0.85
26 3 0.09
27 1 0.03
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (25 bp):
CAAATAAATGTATCAAATATACAGC
Found at i:17627207 original size:36 final size:36
Alignment explanation
Indices: 17627162--17627240 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
17627152 GCTGGGAGGG
* * *
17627162 AAAAGAAATTACAGAAAGGTGTAATTGCTTAACATT
1 AAAAAAAATTACAGAAAGGTGTAACTGCCTAACATT
17627198 AAAAAAAATTACAGAAAGGTGTAACTGCCTAACATT
1 AAAAAAAATTACAGAAAGGTGTAACTGCCTAACATT
17627234 AAAAAAA
1 AAAAAAA
17627241 TACTAAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.23
Consensus pattern (36 bp):
AAAAAAAATTACAGAAAGGTGTAACTGCCTAACATT
Found at i:17628752 original size:4 final size:4
Alignment explanation
Indices: 17628736--17628766 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
17628726 AGCCTCTTCT
*
17628736 TATC TACC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TAT
17628767 ACATACAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (4 bp):
TATC
Found at i:17631219 original size:14 final size:14
Alignment explanation
Indices: 17631200--17631229 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17631190 ATTTCGTAAA
*
17631200 TTTTTTTTAGTTTT
1 TTTTTTTTAATTTT
17631214 TTTTTTTTAATTTT
1 TTTTTTTTAATTTT
17631228 TT
1 TT
17631230 AAAAAATTTA
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:0.00, G:0.03, T:0.87
Consensus pattern (14 bp):
TTTTTTTTAATTTT
Found at i:17634396 original size:19 final size:21
Alignment explanation
Indices: 17634372--17634419 Score: 55
Period size: 23 Copynumber: 2.3 Consensus size: 21
17634362 GATAGCAAAT
*
17634372 GAAATCT-TATTGC-CTAAAA
1 GAAATCTATATTACTCTAAAA
17634391 GAAATCCTAATATTACTCTAAAA
1 GAAAT-CT-ATATTACTCTAAAA
17634414 GAAATC
1 GAAATC
17634420 CTAAAATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 5 0.21
20 2 0.08
22 6 0.25
23 11 0.46
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (21 bp):
GAAATCTATATTACTCTAAAA
Found at i:17635565 original size:17 final size:15
Alignment explanation
Indices: 17635545--17635591 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
17635535 TTTTAGCATA
17635545 TTGTTAGTTATTATATT
1 TTGTT-GTTA-TATATT
17635562 TTGTTGTTATATATT
1 TTGTTGTTATATATT
*
17635577 AT-TTGTTA-ATATT
1 TTGTTGTTATATATT
17635590 TT
1 TT
17635592 ATTATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 7 0.25
16 4 0.14
17 5 0.18
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
TTGTTGTTATATATT
Found at i:17635721 original size:16 final size:15
Alignment explanation
Indices: 17635700--17635749 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
17635690 TAATATTATC
17635700 TTTTTTA-ATTAATTCA
1 TTTTTTATATT-ATT-A
17635716 TTTTTTATATTATTA
1 TTTTTTATATTATTA
*
17635731 -TTTTTAAATATATTA
1 TTTTTTATAT-TATTA
17635746 TTTT
1 TTTT
17635750 ATGAGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 8 0.27
15 6 0.20
16 13 0.43
17 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTTATATTATTA
Found at i:17635727 original size:17 final size:14
Alignment explanation
Indices: 17635700--17635749 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 14
17635690 TAATATTATC
17635700 TTTTTTAATTAATTCA
1 TTTTTTAATT-ATT-A
17635716 TTTTTTATATTATTA
1 TTTTTTA-ATTATTA
*
17635731 TTTTTAAATATATTA
1 TTTTTTAAT-TATTA
17635746 TTTT
1 TTTT
17635750 ATGAGATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
14 2 0.06
15 16 0.52
16 10 0.32
17 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTTAATTATTA
Found at i:17635749 original size:30 final size:30
Alignment explanation
Indices: 17635692--17635749 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
17635682 TTGGTAAATA
*
17635692 ATATTATCTTTTTTAATTAATTCATTTTTT
1 ATATTATCTTTTTTAAATAATTCATTTTTT
17635722 ATATTAT-TATTTTTAAATATATT-ATTTT
1 ATATTATCT-TTTTTAAATA-ATTCATTTT
17635750 ATGAGATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 1 0.04
30 21 0.84
31 3 0.12
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (30 bp):
ATATTATCTTTTTTAAATAATTCATTTTTT
Found at i:17636071 original size:61 final size:61
Alignment explanation
Indices: 17636004--17636119 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
17635994 TGAATTTTAG
*
17636004 TTTACTA-AGTTTTATATATTTCATAATTCCATTATCTATGGTAAAAATTTGTGAGTTTGAA
1 TTTACTATA-TTTTATATATTTCATAATTCCATTATCTATGGTAAAAATTTATGAGTTTGAA
* * * * * *
17636065 TTTACTATATTTTATGTCTTTTATAATTCTATTATTTATGGTAAGAATTTATGAG
1 TTTACTATATTTTATATATTTCATAATTCCATTATCTATGGTAAAAATTTATGAG
17636120 ATTTTTACTA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
61 46 0.98
62 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (61 bp):
TTTACTATATTTTATATATTTCATAATTCCATTATCTATGGTAAAAATTTATGAGTTTGAA
Found at i:17637147 original size:12 final size:12
Alignment explanation
Indices: 17637130--17637155 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17637120 AAAGATGAAA
17637130 ATACATCTTTTT
1 ATACATCTTTTT
17637142 ATACATCTTTTT
1 ATACATCTTTTT
17637154 AT
1 AT
17637156 CTTTCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (12 bp):
ATACATCTTTTT
Found at i:17644532 original size:31 final size:31
Alignment explanation
Indices: 17644489--17644547 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
17644479 CTCATTACCA
*
17644489 TTAATTGGCATACATGTCATCTGAAATTCTT
1 TTAATTGACATACATGTCATCTGAAATTCTT
17644520 TTAATTGACATACATGTCATCTGAAATT
1 TTAATTGACATACATGTCATCTGAAATT
17644548 TTCACCACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (31 bp):
TTAATTGACATACATGTCATCTGAAATTCTT
Found at i:17645600 original size:2 final size:2
Alignment explanation
Indices: 17645593--17645642 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
17645583 AGATTATGCA
* *
17645593 TC TC TC TC TT TC TC TC TC TC TC TC TC TC AC 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
17645635 TC TC TC TC
1 TC TC TC TC
17645643 ACACACACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:17652004 original size:25 final size:25
Alignment explanation
Indices: 17651970--17652019 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
17651960 CTGTCCGTTG
17651970 ATGAGTTATGGCATGAATTTCATTC
1 ATGAGTTATGGCATGAATTTCATTC
17651995 ATGAGTTATGGCATGAATTTCATTC
1 ATGAGTTATGGCATGAATTTCATTC
17652020 CCCAGTATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (25 bp):
ATGAGTTATGGCATGAATTTCATTC
Found at i:17655428 original size:20 final size:21
Alignment explanation
Indices: 17655399--17655444 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
17655389 TTAAAAGTCG
*
17655399 TTTATATTCATTT-GGATTTA
1 TTTATATTCATTTAAGATTTA
*
17655419 TTTATGTTCATTTAAGATTTA
1 TTTATATTCATTTAAGATTTA
17655440 TTTAT
1 TTTAT
17655445 TTAATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (21 bp):
TTTATATTCATTTAAGATTTA
Found at i:17655465 original size:14 final size:14
Alignment explanation
Indices: 17655435--17655474 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
17655425 TTCATTTAAG
17655435 ATTTATTTATT-TA
1 ATTTATTTATTATA
*
17655448 ATTTTTTTATTATA
1 ATTTATTTATTATA
17655462 ATTTATTTATTAT
1 ATTTATTTATTAT
17655475 TTAGGAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTATTTATTATA
Found at i:17655498 original size:14 final size:14
Alignment explanation
Indices: 17655479--17655505 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17655469 TATTATTTAG
17655479 GAATATGTTTGTTT
1 GAATATGTTTGTTT
17655493 GAATATGTTTGTT
1 GAATATGTTTGTT
17655506 AACATATTCA
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:0.00, G:0.22, T:0.56
Consensus pattern (14 bp):
GAATATGTTTGTTT
Found at i:17675086 original size:23 final size:23
Alignment explanation
Indices: 17675050--17675094 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17675040 TTTCAACAAA
17675050 TTATTTGTGAATATGTT-TTATTT
1 TTATTTGTGAATAT-TTATTATTT
**
17675073 TTATTTGTTTATATTTATTATT
1 TTATTTGTGAATATTTATTATT
17675095 AAATTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (23 bp):
TTATTTGTGAATATTTATTATTT
Found at i:17675228 original size:11 final size:11
Alignment explanation
Indices: 17675214--17675251 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
17675204 AATTTGTTCA
*
17675214 TTTATTCTTTG
1 TTTATTGTTTG
17675225 TTTATTGTTTG
1 TTTATTGTTTG
*
17675236 TTTGTTGTTTG
1 TTTATTGTTTG
17675247 TTTAT
1 TTTAT
17675252 AATAATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.08, C:0.03, G:0.16, T:0.74
Consensus pattern (11 bp):
TTTATTGTTTG
Found at i:17675334 original size:15 final size:15
Alignment explanation
Indices: 17675314--17675365 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
17675304 GGTTCGTTTA
17675314 TATTTATTTAAGATT
1 TATTTATTTAAGATT
*
17675329 TATTTAATTAA-ATT
1 TATTTATTTAAGATT
* ** *
17675343 TGTTTGGTTATGATT
1 TATTTATTTAAGATT
17675358 TATTTATT
1 TATTTATT
17675366 GTTCATAAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (15 bp):
TATTTATTTAAGATT
Found at i:17681048 original size:14 final size:14
Alignment explanation
Indices: 17681029--17681056 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17681019 GTGACCTTAC
17681029 TCCAAATGGATGTT
1 TCCAAATGGATGTT
17681043 TCCAAATGGATGTT
1 TCCAAATGGATGTT
17681057 ACAACTTCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (14 bp):
TCCAAATGGATGTT
Found at i:17683678 original size:13 final size:13
Alignment explanation
Indices: 17683662--17683703 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
17683652 TGTGGCGCTA
17683662 AATTTTGATATTG
1 AATTTTGATATTG
*
17683675 AATTTT-ATTATTC
1 AATTTTGA-TATTG
*
17683688 AATTTTGATTTTG
1 AATTTTGATATTG
17683701 AAT
1 AAT
17683704 GATTTTAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (13 bp):
AATTTTGATATTG
Found at i:17684095 original size:27 final size:27
Alignment explanation
Indices: 17684021--17684096 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
17684011 AAATATGTAT
* * *
17684021 TAATATATATTTTTTAATAAAAATATAT
1 TAATTTATATTATTTAATAAAAA-ATAA
**
17684049 TAATTT-TA--A-TTAATCTAAAATAA
1 TAATTTATATTATTTAATAAAAAATAA
17684072 TAATTTATATTATTTAATAAAAAAT
1 TAATTTATATTATTTAATAAAAAAT
17684097 TTATTCTCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
23 9 0.24
24 10 0.27
26 1 0.03
27 12 0.32
28 5 0.14
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (27 bp):
TAATTTATATTATTTAATAAAAAATAA
Found at i:17684237 original size:26 final size:27
Alignment explanation
Indices: 17684195--17684246 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
17684185 ATTTAAAATT
*
17684195 ATATATATTTTTATCTTTATATTTATA
1 ATATATATATTTATCTTTATATTTATA
*
17684222 ATATA-ATATTTATCTTTATTTTTAT
1 ATATATATATTTATCTTTATATTTAT
17684247 TGAAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (27 bp):
ATATATATATTTATCTTTATATTTATA
Found at i:17686996 original size:36 final size:36
Alignment explanation
Indices: 17686949--17687019 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
17686939 GAACATAAGG
17686949 TATTAAGAAATGATAATTTTATTTTTAAAAAATTGC
1 TATTAAGAAATGATAATTTTATTTTTAAAAAATTGC
17686985 TATTAAGAAATGATAATTTTATTTTTAAAAAATTG
1 TATTAAGAAATGATAATTTTATTTTTAAAAAATTG
17687020 AGTAATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.45
Consensus pattern (36 bp):
TATTAAGAAATGATAATTTTATTTTTAAAAAATTGC
Found at i:17696779 original size:2 final size:2
Alignment explanation
Indices: 17696772--17696810 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
17696762 ATAGCTAATG
17696772 AT AT AT AT AT 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 AT AT AT AT AT A
17696811 AAGAGAAAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17701523 original size:25 final size:26
Alignment explanation
Indices: 17701473--17701523 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
17701463 AGATATTTGA
**
17701473 ATTCTAAATTAAATTATTTAAGTTTT
1 ATTCTAAATTAAATTAAATAAGTTTT
17701499 ATTC-AAATTAAATTTAAATAA-TTTT
1 ATTCTAAATTAAA-TTAAATAAGTTTT
17701524 GATATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (26 bp):
ATTCTAAATTAAATTAAATAAGTTTT
Found at i:17724236 original size:19 final size:19
Alignment explanation
Indices: 17724184--17724239 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
17724174 GATTAAGACG
*
17724184 AATTATTTTTT-AATTTTAA
1 AATT-TTTTTTAAATATTAA
*
17724203 AATTTTTTATAAAATATTAA
1 AATTTTTT-TTAAATATTAA
*
17724223 GATTTTTTTTAAATATT
1 AATTTTTTTTAAATATT
17724240 TTTTTTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 4 0.13
19 13 0.42
20 14 0.45
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
AATTTTTTTTAAATATTAA
Found at i:17725102 original size:23 final size:24
Alignment explanation
Indices: 17725064--17725108 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
17725054 AATTATTAAA
*
17725064 AAAATATTAATTTTTATATATTTT
1 AAAATATTAATATTTATATATTTT
*
17725088 AAAA-ATTAATATTTATTTATT
1 AAAATATTAATATTTATATATT
17725109 AAATTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
AAAATATTAATATTTATATATTTT
Found at i:17725104 original size:19 final size:20
Alignment explanation
Indices: 17725082--17725119 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17725072 AATTTTTATA
17725082 TATTT-TAAAAATTAATATT
1 TATTTATAAAAATTAATATT
* *
17725101 TATTTATTAAATTTAATAT
1 TATTTATAAAAATTAATAT
17725120 AATTTATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTATAAAAATTAATATT
Found at i:17727714 original size:23 final size:25
Alignment explanation
Indices: 17727672--17727731 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
17727662 TTGATGAATT
*
17727672 TATTATATTATTAATTAAATTTAAA
1 TATTATATTATTAATGAAATTTAAA
17727697 TATTA-ATTA-TAATGAAATTTATTTAA
1 TATTATATTATTAATGAAATTTA---AA
17727723 TATTATATT
1 TATTATATT
17727732 TGATATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 11 0.37
24 4 0.13
25 5 0.17
26 7 0.23
27 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
TATTATATTATTAATGAAATTTAAA
Found at i:17728433 original size:5 final size:6
Alignment explanation
Indices: 17728417--17728443 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17728407 AATTTAAATT
17728417 TAAAAA TAAAAA TAAAAA TAAAAA TAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAA
17728444 TATTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:17748078 original size:11 final size:12
Alignment explanation
Indices: 17748053--17748078 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17748043 ACCCTACTCC
17748053 TTTTTATTAATT
1 TTTTTATTAATT
17748065 TTTTTATTAATT
1 TTTTTATTAATT
17748077 TT
1 TT
17748079 ATCACAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTATTAATT
Found at i:17749791 original size:42 final size:42
Alignment explanation
Indices: 17749711--17749789 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 42
17749701 GTAATATAAA
*
17749711 ATATATGACATTCGATAATTTAAAATAAATTATTAAAATATG
1 ATATATGACATTCGATAATTTAAAATAAATAATTAAAATATG
* * *
17749753 ATATATTATATTCGATAA-TTATAATAAATAATTAAAA
1 ATATATGACATTCGATAATTTAAAATAAATAATTAAAA
17749790 ATTATGCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 17 0.52
42 16 0.48
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (42 bp):
ATATATGACATTCGATAATTTAAAATAAATAATTAAAATATG
Found at i:17763779 original size:3 final size:3
Alignment explanation
Indices: 17763771--17763795 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17763761 GTTGCAGTGG
17763771 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
17763796 CACCACTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:17765083 original size:22 final size:23
Alignment explanation
Indices: 17765037--17765083 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
17765027 ATTTAATAAA
*
17765037 AAAATTTAAATCGATAAATTGAT
1 AAAATTTAAATCGATAAATTAAT
17765060 AAAATTT-AAT-GATAAAATTAAT
1 AAAATTTAAATCGAT-AAATTAAT
17765082 AA
1 AA
17765084 TATATGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 12 0.55
23 7 0.32
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.34
Consensus pattern (23 bp):
AAAATTTAAATCGATAAATTAAT
Found at i:17767585 original size:19 final size:19
Alignment explanation
Indices: 17767553--17767590 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
17767543 ATATTTTTAA
17767553 TTTTAAAAATTAAATTAAAT
1 TTTTAAAAATTAAA-TAAAT
*
17767573 TTTTAATAA-TAAATAAAT
1 TTTTAAAAATTAAATAAAT
17767591 ACATGTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTAAAAATTAAATAAAT
Found at i:17767682 original size:21 final size:21
Alignment explanation
Indices: 17767642--17767682 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17767632 TTTGTAGTTT
*
17767642 AATTTTTTTAAGTAAGATTTC
1 AATTTTTTTAAATAAGATTTC
17767663 AATTTTTTTAAAATAA-ATTT
1 AATTTTTTT-AAATAAGATTT
17767683 TTAATTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (21 bp):
AATTTTTTTAAATAAGATTTC
Found at i:17767688 original size:22 final size:21
Alignment explanation
Indices: 17767639--17767690 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
17767629 ATATTTGTAG
*
17767639 TTTAATTTTTTTAAGTAAGAT
1 TTTAATTTTTTTAAATAAGAT
*
17767660 TTCAATTTTTTTAAAATAA-ATT
1 TTTAATTTTTTT-AAATAAGA-T
17767682 TTTAATTTT
1 TTTAATTTT
17767691 GAGTTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTAATTTTTTTAAATAAGAT
Found at i:17786586 original size:13 final size:13
Alignment explanation
Indices: 17786561--17786608 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
17786551 TAATTTTGAT
17786561 ATATTTATTAATAA
1 ATATTT-TTAATAA
17786575 ATATTTTTAATAA
1 ATATTTTTAATAA
* *
17786588 A-AATATTAATAA
1 ATATTTTTAATAA
*
17786600 ATTTTTTTA
1 ATATTTTTA
17786609 CAATTAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 10 0.36
13 12 0.43
14 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATTTTTAATAA
Found at i:17786594 original size:25 final size:25
Alignment explanation
Indices: 17786570--17786661 Score: 79
Period size: 27 Copynumber: 3.8 Consensus size: 25
17786560 TATATTTATT
*
17786570 AATAAATATTTTTAATAAAAATATT
1 AATAAATATTTTTAATAAAAATATA
*
17786595 AATAAAT-TTTTT--T-ACAAT-TA
1 AATAAATATTTTTAATAAAAATATA
* *
17786615 AATAAATATTTATTAAATTTAAATTATA
1 AATAAATATTT-TT-AA-TAAAAATATA
17786643 AAT-AATATTTTTAATAAAA
1 AATAAATATTTTTAATAAAA
17786662 TTTTTATTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 17
0.71 0.07 0.22
Matches are distributed among these distances:
20 8 0.15
21 7 0.13
22 3 0.06
24 9 0.17
25 9 0.17
26 3 0.06
27 10 0.19
28 5 0.09
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (25 bp):
AATAAATATTTTTAATAAAAATATA
Found at i:17786633 original size:20 final size:21
Alignment explanation
Indices: 17786595--17786638 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
17786585 TAAAAATATT
*
17786595 AATAAATTTTTTTACAA-TTA
1 AATAAATTTTATTACAATTTA
17786615 AATAAATATTTATTA-AATTTA
1 AATAAAT-TTTATTACAATTTA
17786636 AAT
1 AAT
17786639 TATAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
AATAAATTTTATTACAATTTA
Done.