Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 30 of 91
Found at i:5230948 original size:43 final size:42
Alignment explanation
Indices: 5230853--5230953 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
5230843 TCAACCAATA
* * *
5230853 TTTTCTAAATTTAAAAAGTTTCATTACTTCTAGTTAAAGGGG
1 TTTTCTAAATTTTAAAAGTTACATTACTTCTAGTTAAAGAGG
* * * * *
5230895 CTTTCCAAATTTTAAAAGTTACATTGCTTTTAGTTAAAGAAGT
1 TTTTCTAAATTTTAAAAGTTACATTACTTCTAGTTAAAG-AGG
5230938 TTTTCTAAATTTTAAA
1 TTTTCTAAATTTTAAA
5230954 GGTTTTCGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 33 0.69
43 15 0.31
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.45
Consensus pattern (42 bp):
TTTTCTAAATTTTAAAAGTTACATTACTTCTAGTTAAAGAGG
Found at i:5231096 original size:85 final size:82
Alignment explanation
Indices: 5230969--5231126 Score: 201
Period size: 83 Copynumber: 1.9 Consensus size: 82
5230959 TCGTTAGAAT
* ** * *
5230969 AGCTTTTTAAAATTTTAAAGTTTCATTACCTTTGGTTGGAGGAGTTTTTTTCAAATTTTAAAATT
1 AGCTTTTCAAAATTTTAAAGTTTCATTACCTTTGGTCAGAGGA--CTTTTCCAAATTTTAAAATT
5231034 -TCATTACCTTAGTTAGAGG
64 AT-ATTACCTTAGTTAGAGG
* * *
5231053 AGCTTTTCCAAATTTTAAAAGTTTCATTGCCTTTGGTCAGAGGACTTTTCCAAATTTTAAAGTTA
1 AGCTTTTCAAAATTTT-AAAGTTTCATTACCTTTGGTCAGAGGACTTTTCCAAATTTTAAAATTA
5231118 TATTACCTT
65 TATTACCTT
5231127 TGCATAGATG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
83 25 0.39
84 15 0.23
85 24 0.38
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (82 bp):
AGCTTTTCAAAATTTTAAAGTTTCATTACCTTTGGTCAGAGGACTTTTCCAAATTTTAAAATTAT
ATTACCTTAGTTAGAGG
Found at i:5231127 original size:41 final size:42
Alignment explanation
Indices: 5230969--5231128 Score: 191
Period size: 42 Copynumber: 3.8 Consensus size: 42
5230959 TCGTTAGAAT
** *
5230969 AGCTTTTTAAAATTTTAAAGTTTCATTACCTTTGGTTGGAGG
1 AGCTTTTCCAAATTTTAAAGTTTCATTACCTTTGGTTAGAGG
* * * *
5231011 AGTTTTTTTCAAATTTTAAAATTTCATTACC-TTAGTTAGAGG
1 AG-CTTTTCCAAATTTTAAAGTTTCATTACCTTTGGTTAGAGG
* *
5231053 AGCTTTTCCAAATTTTAAAAGTTTCATTGCCTTTGGTCAGAGG
1 AGCTTTTCCAAATTTT-AAAGTTTCATTACCTTTGGTTAGAGG
5231096 A-CTTTTCCAAATTTTAAAGTTAT-ATTACCTTTG
1 AGCTTTTCCAAATTTTAAAGTT-TCATTACCTTTG
5231129 CATAGATGGG
Statistics
Matches: 102, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
41 27 0.26
42 40 0.39
43 35 0.34
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.45
Consensus pattern (42 bp):
AGCTTTTCCAAATTTTAAAGTTTCATTACCTTTGGTTAGAGG
Found at i:5231144 original size:85 final size:83
Alignment explanation
Indices: 5230973--5231162 Score: 199
Period size: 85 Copynumber: 2.2 Consensus size: 83
5230963 TAGAATAGCT
** * *
5230973 TTTTAAAATTTT-AAAGTTTCATTACCTTTGGTTGGAGGAGTTTTTTTCAAATTTTAAAATTTCA
1 TTTTAAAATTTTAAAAGTTTCATTACCTTTGGTCAGAGGAG-CTTTTCCAAATTTTAAAATTTCA
*
5231037 TTACCTTAGTTAGAGGAGC
65 TTACCTTAGATAGAGGAGC
* * *
5231056 TTTTCCAAATTTTAAAAGTTTCATTGCCTTTGGTCAGAGGA-CTTTTCCAAATTTTAAAGTTAT-
1 TTTT-AAAATTTTAAAAGTTTCATTACCTTTGGTCAGAGGAGCTTTTCCAAATTTTAAAATT-TC
*
5231119 ATTACCTTTGCATAGATGG-GCC
64 ATTACCTTAG-ATAGA-GGAG-C
5231141 TTTTAAAATTTTTCAAAAGTTT
1 TTTTAAAA-TTTT-AAAAGTTT
5231163 TTGAGCTTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
83 30 0.34
84 16 0.18
85 35 0.39
86 8 0.09
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (83 bp):
TTTTAAAATTTTAAAAGTTTCATTACCTTTGGTCAGAGGAGCTTTTCCAAATTTTAAAATTTCAT
TACCTTAGATAGAGGAGC
Found at i:5231644 original size:13 final size:14
Alignment explanation
Indices: 5231615--5231647 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5231605 TTATTTTGAT
5231615 TTTTCTATTCTATC
1 TTTTCTATTCTATC
*
5231629 TTTTGTATTC-ATC
1 TTTTCTATTCTATC
5231642 TTTTCT
1 TTTTCT
5231648 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.12, C:0.18, G:0.03, T:0.67
Consensus pattern (14 bp):
TTTTCTATTCTATC
Found at i:5236341 original size:16 final size:16
Alignment explanation
Indices: 5236322--5236377 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 16
5236312 TCATATAAAT
*
5236322 ATATAATGTCATGCAA
1 ATATAATATCATGCAA
*
5236338 ATATATTATCATGCAATA
1 ATATAATATCATGC-A-A
5236356 ATATAAAATATCATGCAA
1 ATAT--AATATCATGCAA
5236374 ATAT
1 ATAT
5236378 GTTTATAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 12 0.36
17 1 0.03
18 10 0.30
19 1 0.03
20 9 0.27
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (16 bp):
ATATAATATCATGCAA
Found at i:5236358 original size:18 final size:18
Alignment explanation
Indices: 5236273--5236360 Score: 51
Period size: 17 Copynumber: 4.9 Consensus size: 18
5236263 CATGCAAGAG
5236273 TATCATGCAAATACAT-TAAT
1 TATCATGC-AATA-ATAT-AT
*
5236293 TATCTTGCAATAATA-AT
1 TATCATGCAATAATATAT
* ** *
5236310 AATCATATAA-ATATATAA
1 TATCATGCAATA-ATATAT
*
5236328 TGTCATGC-A-AATATAT
1 TATCATGCAATAATATAT
5236344 TATCATGCAATAATATA
1 TATCATGCAATAATATA
5236361 AAATATCATG
Statistics
Matches: 51, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
16 13 0.25
17 14 0.27
18 13 0.25
19 4 0.08
20 7 0.14
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (18 bp):
TATCATGCAATAATATAT
Found at i:5236376 original size:18 final size:17
Alignment explanation
Indices: 5236318--5236377 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
5236308 ATAATCATAT
*
5236318 AAATATATAATGTCATGC
1 AAATATA-AATATCATGC
*
5236336 AAATAT-ATTATCATGC
1 AAATATAAATATCATGC
5236352 AATAATATAAAATATCATGC
1 -A-AATAT-AAATATCATGC
5236372 AAATAT
1 AAATAT
5236378 GTTTATAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 8 0.23
17 1 0.03
18 16 0.46
19 1 0.03
20 9 0.26
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (17 bp):
AAATATAAATATCATGC
Found at i:5236534 original size:19 final size:20
Alignment explanation
Indices: 5236519--5236556 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5236509 TATAATATTA
5236519 ATCATGCAATAAAATAATAC
1 ATCATGCAATAAAATAATAC
*
5236539 ATTATGCAAT-AAATAATA
1 ATCATGCAATAAAATAATA
5236557 ATAATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (20 bp):
ATCATGCAATAAAATAATAC
Found at i:5236570 original size:28 final size:30
Alignment explanation
Indices: 5236526--5236614 Score: 98
Period size: 29 Copynumber: 3.0 Consensus size: 30
5236516 TTAATCATGC
5236526 AATAA-AAT-AATACATTATGC-AATAAAT
1 AATAATAATAAATACATTATGCAAATAAAT
5236553 AATAATAATAAATA-ATTATGCAAATAAAT
1 AATAATAATAAATACATTATGCAAATAAAT
* *
5236582 ATATTAATAAT-AATACAATATTACAAATAAAT
1 A-A-TAATAATAAATACATTA-TGCAAATAAAT
5236614 A
1 A
5236615 TTTTATAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.09
28 10 0.19
29 12 0.23
30 5 0.09
31 10 0.19
32 11 0.21
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (30 bp):
AATAATAATAAATACATTATGCAAATAAAT
Found at i:5236593 original size:31 final size:32
Alignment explanation
Indices: 5236534--5236625 Score: 106
Period size: 31 Copynumber: 3.0 Consensus size: 32
5236524 GCAATAAAAT
5236534 AATACATTATGC-AATAAATA-A-TAATAATA
1 AATACATTATGCAAATAAATATATTAATAATA
5236563 AATA-ATTATGCAAATAAATATATTAATAAT-
1 AATACATTATGCAAATAAATATATTAATAATA
* * *
5236593 AATACAATATTACAAATAAATAT-TTTATAATA
1 AATACATTA-TGCAAATAAATATATTAATAATA
5236625 A
1 A
5236626 TCATGCAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
28 7 0.13
29 12 0.22
30 5 0.09
31 17 0.31
32 13 0.24
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (32 bp):
AATACATTATGCAAATAAATATATTAATAATA
Found at i:5236626 original size:31 final size:33
Alignment explanation
Indices: 5236552--5236626 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 33
5236542 ATGCAATAAA
5236552 TAATAATAATAAATAATTATGCAAATAAATATAT
1 TAATAATAATAAATAATTA-GCAAATAAATATAT
5236586 TAATAATAATACAAT-ATTA-CAAATAAATAT-T
1 TAATAATAATA-AATAATTAGCAAATAAATATAT
*
5236617 TTATAATAAT
1 TAATAATAAT
5236627 CATGCAATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
31 10 0.26
32 11 0.28
34 15 0.38
35 3 0.08
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (33 bp):
TAATAATAATAAATAATTAGCAAATAAATATAT
Found at i:5236683 original size:20 final size:20
Alignment explanation
Indices: 5236655--5236697 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5236645 AATCATGCAA
* *
5236655 ATAAACATACAATTAAATAT
1 ATAAACATACAAATAAAAAT
*
5236675 ATAATCATACAAATAAAAAT
1 ATAAACATACAAATAAAAAT
5236695 ATA
1 ATA
5236698 TAAACCATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAAACATACAAATAAAAAT
Found at i:5236688 original size:32 final size:31
Alignment explanation
Indices: 5236645--5236779 Score: 126
Period size: 32 Copynumber: 4.5 Consensus size: 31
5236635 TAACAATGGA
5236645 AATCATGCAAATAAACATACAATTAAATATAT
1 AATCATGCAAATAAACATA-AATTAAATATAT
*
5236677 AATCATACAAAT--A-A-AAA-T--ATATA-
1 AATCATGCAAATAAACATAAATTAAATATAT
* * *
5236700 AACCATGCAAATAAATATGCAAA-GATAATATAT
1 AATCATGCAAATAAACAT--AAATTA-AATATAT
5236733 AATCATGCAAATAAACATGAAATTAAATATAT
1 AATCATGCAAATAAACAT-AAATTAAATATAT
5236765 AATCATGCAAATAAA
1 AATCATGCAAATAAA
5236780 TATATTAATA
Statistics
Matches: 84, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
23 10 0.12
24 5 0.06
25 1 0.01
26 2 0.02
27 2 0.02
28 1 0.01
29 4 0.05
30 1 0.01
32 41 0.49
33 17 0.20
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (31 bp):
AATCATGCAAATAAACATAAATTAAATATAT
Found at i:5236697 original size:22 final size:23
Alignment explanation
Indices: 5236669--5236714 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
5236659 ACATACAATT
*
5236669 AAATATAT-AATCATACAAATAA
1 AAATATATAAACCATACAAATAA
*
5236691 AAATATATAAACCATGCAAATAA
1 AAATATATAAACCATACAAATAA
5236714 A
1 A
5236715 TATGCAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.63, C:0.11, G:0.02, T:0.24
Consensus pattern (23 bp):
AAATATATAAACCATACAAATAA
Found at i:5236771 original size:20 final size:20
Alignment explanation
Indices: 5236743--5236808 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
5236733 AATCATGCAA
*
5236743 ATAAACATGAAATTAAATAT
1 ATAATCATGAAATTAAATAT
*
5236763 ATAATCATGCAAATAAATATATT
1 ATAATCATG-AAATTAA-ATA-T
* *
5236786 AATAATCAAGCAATTAAATAT
1 -ATAATCATGAAATTAAATAT
5236807 AT
1 AT
5236809 TAATAATCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 10 0.27
21 7 0.19
22 6 0.16
23 6 0.16
24 8 0.22
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.32
Consensus pattern (20 bp):
ATAATCATGAAATTAAATAT
Found at i:5236798 original size:24 final size:24
Alignment explanation
Indices: 5236763--5236923 Score: 135
Period size: 24 Copynumber: 7.0 Consensus size: 24
5236753 AATTAAATAT
5236763 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* *
5236787 ATAATCAAGCAATTAAATATATTA
1 ATAATCATGCAAATAAATATATTA
*
5236811 ATAATCATGC-AATCAAACTA-AAT-
1 ATAATCATGCAAAT-AAA-TATATTA
*
5236834 ATAATCATACAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* *
5236858 ATAGTCATGC----AAACATATTA
1 ATAATCATGCAAATAAATATATTA
** *
5236878 ATAAATCACACAAATAAATACA-T-
1 AT-AATCATGCAAATAAATATATTA
*
5236901 -TAATCATGCAAACAAATATATTA
1 ATAATCATGCAAATAAATATATTA
5236924 GGCAAATAAA
Statistics
Matches: 106, Mismatches: 19, Indels: 25
0.71 0.13 0.17
Matches are distributed among these distances:
20 11 0.10
21 20 0.19
22 4 0.04
23 16 0.15
24 48 0.45
25 7 0.07
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:5236825 original size:88 final size:87
Alignment explanation
Indices: 5236645--5236806 Score: 220
Period size: 88 Copynumber: 1.8 Consensus size: 87
5236635 TAACAATGGA
*
5236645 AATCATGCAAATAAACATACAATTAAATATATAATCATACAAATAAAAATATATAAACCATGCAA
1 AATCATGCAAATAAACATACAATTAAATATATAATCATACAAATAAAAATATATAAACCAAGCAA
*
5236710 ATAAATATGCAAAGATAATATAT
66 ATAAATAT-CAAAGATAATATAC
* * *
5236733 AATCATGCAAATAAACATGA-AATTAAATATATAATCATGCAAATAAATATAT-TAATAATCAAG
1 AATCATGCAAATAAACAT-ACAATTAAATATATAATCATACAAATAAAAATATAT-A-AACCAAG
*
5236796 CAATTAAATAT
63 CAAATAAATAT
5236807 ATTAATAATC
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
87 1 0.02
88 49 0.74
89 16 0.24
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (87 bp):
AATCATGCAAATAAACATACAATTAAATATATAATCATACAAATAAAAATATATAAACCAAGCAA
ATAAATATCAAAGATAATATAC
Found at i:5236851 original size:47 final size:45
Alignment explanation
Indices: 5236763--5236918 Score: 158
Period size: 47 Copynumber: 3.4 Consensus size: 45
5236753 AATTAAATAT
* * *
5236763 ATAATCATGCAAATAAATATATTAATAATCAAGCAATTAAATATATTA
1 ATAATCATGCAAACAAATA-AAT-ATAATCAA-CAAATAAATATATTA
*
5236811 ATAATCATGCAATCAAACTAAATATAATCATACAAATAAATATATTA
1 ATAATCATGCAAACAAA-TAAATATAATCA-ACAAATAAATATATTA
* * * *
5236858 ATAGTCATGCAAACATATTAATA-AATCACACAAATAAATACA-T-
1 ATAATCATGCAAACAAATAAATATAATCA-ACAAATAAATATATTA
5236901 -TAATCATGCAAACAAATA
1 ATAATCATGCAAACAAATA
5236919 TATTAGGCAA
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
42 15 0.16
44 1 0.01
45 17 0.18
46 5 0.05
47 35 0.38
48 18 0.19
49 2 0.02
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.29
Consensus pattern (45 bp):
ATAATCATGCAAACAAATAAATATAATCAACAAATAAATATATTA
Found at i:5236946 original size:16 final size:16
Alignment explanation
Indices: 5236893--5236953 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
5236883 TCACACAAAT
*
5236893 AAATACATTAATCATGC
1 AAATAAATT-ATCATGC
* * *
5236910 AAACAAATATATTAGGC
1 AAATAAAT-TATCATGC
5236927 AAATAAATTATCATGC
1 AAATAAATTATCATGC
*
5236943 AAATATATTAT
1 AAATAAATTAT
5236954 TAGTCATACA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 16 0.46
17 18 0.51
18 1 0.03
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (16 bp):
AAATAAATTATCATGC
Found at i:5237607 original size:13 final size:14
Alignment explanation
Indices: 5237589--5237626 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
5237579 CTAAAAAATA
5237589 CAAAAATTAAAAC-
1 CAAAAATTAAAACT
5237602 CAAAAATT-AAACT
1 CAAAAATTAAAACT
*
5237615 AAAAAATTAAAA
1 CAAAAATTAAAA
5237627 TACAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 4 0.18
13 15 0.68
14 3 0.14
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (14 bp):
CAAAAATTAAAACT
Found at i:5239787 original size:21 final size:21
Alignment explanation
Indices: 5239761--5239801 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
5239751 CTTTAAGAAT
5239761 TTTCAAATGAAAATCTTTAAC
1 TTTCAAATGAAAATCTTTAAC
5239782 TTTCAAATGAAAATCTTTAA
1 TTTCAAATGAAAATCTTTAA
5239802 ATTTTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (21 bp):
TTTCAAATGAAAATCTTTAAC
Found at i:5240013 original size:24 final size:23
Alignment explanation
Indices: 5239981--5240080 Score: 87
Period size: 24 Copynumber: 4.3 Consensus size: 23
5239971 AATTTGGATA
*
5239981 TGAAACTTTAAAATTTATCAAATG
1 TGAATCTTTAAAATTTAT-AAATG
* ** *
5240005 TGAATCTTTGAATATTTATGGATA
1 TGAATCTTT-AAAATTTATAAATG
*
5240029 TGAATCTTTAAAATTTTTTAAATG
1 TGAATCTTTAAAA-TTTATAAATG
* *
5240053 TG-ATCTTTGAAATTT-TAGATG
1 TGAATCTTTAAAATTTATAAATG
5240074 TGAATCT
1 TGAATCT
5240081 CAAAAACTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
21 7 0.11
22 7 0.11
23 12 0.20
24 27 0.44
25 8 0.13
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (23 bp):
TGAATCTTTAAAATTTATAAATG
Found at i:5240031 original size:48 final size:45
Alignment explanation
Indices: 5239963--5240135 Score: 161
Period size: 46 Copynumber: 3.8 Consensus size: 45
5239953 TTCGAATATG
*
5239963 ATCTTTGAAATTTGGATATGAAACTTTAAAATTTATCAAATGTGA
1 ATCTTTGAAATTTGGATATGAAACTTTAAAATTTTTCAAATGTGA
* *
5240008 ATCTTTGAATATTTATGGATATGAATCTTTAAAATTTTTTAAATGTG-
1 ATCTTTGAA-A-TT-TGGATATGAAACTTTAAAATTTTTCAAATGTGA
* * * ** * *
5240055 ATCTTTGAAATTTTAGATGTGAATCTCAAAAACTTTTTCGAGTGTGA
1 ATCTTTGAAA-TTTGGATATGAAACTTTAAAA-TTTTTCAAATGTGA
* * *
5240102 ATGTTTG-AATATTAGATGTGAAACTTTAAAATTT
1 ATCTTTGAAAT-TTGGATATGAAACTTTAAAATTT
5240136 CATTTGTGAA
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
45 28 0.26
46 34 0.31
47 17 0.16
48 29 0.27
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.43
Consensus pattern (45 bp):
ATCTTTGAAATTTGGATATGAAACTTTAAAATTTTTCAAATGTGA
Found at i:5240162 original size:20 final size:22
Alignment explanation
Indices: 5240118--5240165 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
5240108 GAATATTAGA
*
5240118 TGTGAAACTTTAAAATTTCATT
1 TGTGAAACTTCAAAATTTCATT
*
5240140 TGTGAATCTTCAAAA-TT-ATT
1 TGTGAAACTTCAAAATTTCATT
5240160 TGTGAA
1 TGTGAA
5240166 CCTTTACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
21 2 0.08
22 13 0.54
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (22 bp):
TGTGAAACTTCAAAATTTCATT
Found at i:5240176 original size:20 final size:21
Alignment explanation
Indices: 5240118--5240176 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
5240108 GAATATTAGA
5240118 TGTGAAACTTTAAAATTTCATT
1 TGTGAAACTTTAAAA-TTCATT
* *
5240140 TGTGAATCTTCAAAATT-ATT
1 TGTGAAACTTTAAAATTCATT
* *
5240160 TGTGAACCTTTACAATT
1 TGTGAAACTTTAAAATT
5240177 GAGAAATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 17 0.53
21 2 0.06
22 13 0.41
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (21 bp):
TGTGAAACTTTAAAATTCATT
Found at i:5240266 original size:19 final size:19
Alignment explanation
Indices: 5240244--5240319 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 19
5240234 TAAATTACTA
*
5240244 TGAAATCTTTGAATTCTTG
1 TGAAATCTTTGAAATCTTG
*
5240263 TGAAAAT-TTTGAAATATTG
1 TG-AAATCTTTGAAATCTTG
* **
5240282 CG-AAT-TTTTTAATCTTG
1 TGAAATCTTTGAAATCTTG
5240299 TG-AATCTTT-AAATCTTG
1 TGAAATCTTTGAAATCTTG
5240316 TGAA
1 TGAA
5240320 TTTTTTAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
17 25 0.54
18 4 0.09
19 13 0.28
20 4 0.09
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (19 bp):
TGAAATCTTTGAAATCTTG
Found at i:5240289 original size:17 final size:17
Alignment explanation
Indices: 5240267--5240344 Score: 50
Period size: 17 Copynumber: 4.5 Consensus size: 17
5240257 TTCTTGTGAA
5240267 AATTTTGAAATATTGCG
1 AATTTTGAAATATTGCG
** * *
5240284 AATTTTTTAATCTTGTG
1 AATTTTGAAATATTGCG
* *
5240301 AATCTTT-AAATCTTGTG
1 AAT-TTTGAAATATTGCG
** *
5240318 AATTTTTTAATATTGCAA
1 AATTTTGAAATATTGC-G
5240336 AATTTTGAA
1 AATTTTGAA
5240345 TTCTTACAGT
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
16 3 0.06
17 34 0.72
18 10 0.21
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (17 bp):
AATTTTGAAATATTGCG
Found at i:5240488 original size:17 final size:17
Alignment explanation
Indices: 5240468--5240605 Score: 87
Period size: 17 Copynumber: 8.1 Consensus size: 17
5240458 ATATGAAAAC
*
5240468 CTTGCGAATATTCAATT
1 CTTGCGAATCTTCAATT
*
5240485 CTTGCAAATCTTCAATT
1 CTTGCGAATCTTCAATT
* **
5240502 CTTGTGAATCTAAAATT
1 CTTGCGAATCTTCAATT
*
5240519 TTTGCGAATCTTCAATT
1 CTTGCGAATCTTCAATT
* ** ** *
5240536 TTTATGAATCTAAAAAT
1 CTTGCGAATCTTCAATT
* * *
5240553 CTTGTGAAACTTCATTT
1 CTTGCGAATCTTCAATT
* **
5240570 CTTGTGAATCTAAAATT
1 CTTGCGAATCTTCAATT
* * *
5240587 CTTACTAATCCTCAATT
1 CTTGCGAATCTTCAATT
5240604 CT
1 CT
5240606 CGTTAATCTA
Statistics
Matches: 89, Mismatches: 32, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 89 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (17 bp):
CTTGCGAATCTTCAATT
Found at i:5240534 original size:34 final size:34
Alignment explanation
Indices: 5240481--5240632 Score: 171
Period size: 34 Copynumber: 4.5 Consensus size: 34
5240471 GCGAATATTC
5240481 AATTCTTGCAAATCTTCAATTCTTGTGAATCTAA
1 AATTCTTGCAAATCTTCAATTCTTGTGAATCTAA
* * * *
5240515 AATTTTTGCGAATCTTCAATTTTTATGAATCTAA
1 AATTCTTGCAAATCTTCAATTCTTGTGAATCTAA
* * *
5240549 AAATCTTGTGAAA-CTTCATTTCTTGTGAATCTAA
1 AATTCTTG-CAAATCTTCAATTCTTGTGAATCTAA
* * * * *
5240583 AATTCTTACTAATCCTCAATTCTCGTTAATCTAA
1 AATTCTTGCAAATCTTCAATTCTTGTGAATCTAA
*
5240617 AAGTCTTGCAAATCTT
1 AATTCTTGCAAATCTT
5240633 TAAGTCCTTA
Statistics
Matches: 93, Mismatches: 23, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
33 2 0.02
34 89 0.96
35 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (34 bp):
AATTCTTGCAAATCTTCAATTCTTGTGAATCTAA
Found at i:5240692 original size:18 final size:17
Alignment explanation
Indices: 5240645--5240695 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
5240635 AGTCCTTATA
5240645 AATCTTTAAATTCTTGCG
1 AATCTTTAAA-TCTTGCG
* *
5240663 AACTTTTTAAATCTTGTG
1 AA-TCTTTAAATCTTGCG
5240681 AATCTTTGAAATCTT
1 AATCTTT-AAATCTT
5240696 ACAAACCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.14
18 17 0.61
19 7 0.25
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (17 bp):
AATCTTTAAATCTTGCG
Found at i:5241190 original size:29 final size:29
Alignment explanation
Indices: 5241132--5241187 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
5241122 TATATCTTTA
* *
5241132 TTATTTATCTCTTTTTTATCTTTATTTGT
1 TTATTTATCTATTTATTATCTTTATTTGT
*
5241161 TTATTTATTTATTTATTAT-TTT-TTTGT
1 TTATTTATCTATTTATTATCTTTATTTGT
5241188 GTTCTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.21
28 3 0.12
29 16 0.67
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (29 bp):
TTATTTATCTATTTATTATCTTTATTTGT
Found at i:5258085 original size:34 final size:34
Alignment explanation
Indices: 5258042--5258111 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
5258032 TTTTTAATTA
* *
5258042 TTAACATATTTTTTTATTTATCTATTAATATGTT
1 TTAACATATTTTATTATTTATCTATTAATATATT
*
5258076 TTAATATATTTTATTATTTATCTATTAATATATT
1 TTAACATATTTTATTATTTATCTATTAATATATT
5258110 TT
1 TT
5258112 TTTTTACTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (34 bp):
TTAACATATTTTATTATTTATCTATTAATATATT
Found at i:5258976 original size:14 final size:15
Alignment explanation
Indices: 5258952--5258983 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
5258942 TATCATTTTT
5258952 TTTCTTAAAATAAAA
1 TTTCTTAAAATAAAA
5258967 TTTC-TAAAATAAAA
1 TTTCTTAAAATAAAA
5258981 TTT
1 TTT
5258984 TCAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTCTTAAAATAAAA
Found at i:5258985 original size:15 final size:15
Alignment explanation
Indices: 5258951--5258996 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
5258941 ATATCATTTT
5258951 TTTTCTTAAAATAAAA
1 TTTTC-TAAAATAAAA
5258967 -TTTCTAAAATAAAA
1 TTTTCTAAAATAAAA
* *
5258981 TTTTCAAAAAAAAAA
1 TTTTCTAAAATAAAA
5258996 T
1 T
5258997 ATTTTTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTTCTAAAATAAAA
Found at i:5259036 original size:61 final size:61
Alignment explanation
Indices: 5258971--5259114 Score: 177
Period size: 60 Copynumber: 2.4 Consensus size: 61
5258961 ATAAAATTTC
* *
5258971 TAAAATAAAATTTTCAAAAAAAAAATATTTTT-AAGGGAAAGTTGAAAGTATTAATTTTT-TT
1 TAAAATAAAATTTT-AAAAAAAAAATATTTTTGAA-GAAAAGTTGAAAGTATCAATTTTTCTT
** **
5259032 TAAAATAAAATTTTTTAAAAAAGGTATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTT
1 TAAAATAAAATTTTAAAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTT
* *
5259093 TAAAA-AAAATTCTAAAATAAAA
1 TAAAATAAAATTTTAAAAAAAAA
5259115 TTTTCAAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
60 47 0.67
61 23 0.33
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.38
Consensus pattern (61 bp):
TAAAATAAAATTTTAAAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTT
Found at i:5259061 original size:77 final size:77
Alignment explanation
Indices: 5258893--5259044 Score: 206
Period size: 77 Copynumber: 2.0 Consensus size: 77
5258883 TTAAATGATT
* * *
5258893 TTTCTAAAATAAAA--TT-AAAAAATATATATTTTTAAGAAAAAGTTGAAAATATCATTTTTTTT
1 TTTCTAAAATAAAATTTTCAAAAAAAAAATATTTTTAAGAAAAAGTTGAAAATATCATATTTTTT
5258955 CTTAAAATAAAA
66 CTTAAAATAAAA
** * *
5258967 TTTCTAAAATAAAATTTTCAAAAAAAAAATATTTTTAAGGGAAAGTTGAAAGTATTA-ATTTTTT
1 TTTCTAAAATAAAATTTTCAAAAAAAAAATATTTTTAAGAAAAAGTTGAAAATATCATATTTTTT
5259031 -TTAAAATAAAA
66 CTTAAAATAAAA
5259042 TTT
1 TTT
5259045 TTTAAAAAAG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
74 14 0.21
75 14 0.21
76 8 0.12
77 32 0.47
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (77 bp):
TTTCTAAAATAAAATTTTCAAAAAAAAAATATTTTTAAGAAAAAGTTGAAAATATCATATTTTTT
CTTAAAATAAAA
Found at i:5259140 original size:71 final size:74
Alignment explanation
Indices: 5259032--5259173 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 74
5259022 TAATTTTTTT
* * * *
5259032 TAAAATAAAATTTTTTAAAAAAGGTATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTTAAA
1 TAAAATAAAATTTTTCAAAAAAGGTATTTTTAAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
5259097 -AAAAATTC
66 TAAAAATTC
*
5259105 TAAAATAAAA-TTTTCAAAAAA-GTATTTTTAAAGAAAAGTTGAAAGTGTCAATTTTCCTTAAAA
1 TAAAATAAAATTTTTCAAAAAAGGTATTTTTAAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
5259168 TAAAAA
66 TAAAAA
5259174 CTTTCAAATG
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 38 0.60
72 15 0.24
73 10 0.16
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (74 bp):
TAAAATAAAATTTTTCAAAAAAGGTATTTTTAAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
TAAAAATTC
Found at i:5259834 original size:25 final size:25
Alignment explanation
Indices: 5259806--5259863 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
5259796 TTTGGGAATA
5259806 TGCACAAAAGCCTTGCATCCAAAGG
1 TGCACAAAAGCCTTGCATCCAAAGG
5259831 TGCACAAAAGCCTTGCATCCAAAGG
1 TGCACAAAAGCCTTGCATCCAAAGG
5259856 TGCACAAA
1 TGCACAAA
5259864 TGATCATAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.16
Consensus pattern (25 bp):
TGCACAAAAGCCTTGCATCCAAAGG
Found at i:5263057 original size:75 final size:75
Alignment explanation
Indices: 5262941--5263079 Score: 226
Period size: 75 Copynumber: 1.9 Consensus size: 75
5262931 TGATTGAGGC
* * *
5262941 CAAGCTTGAGAGGCACTGAAACAACTTAGGTAGCAAGGTTGTGTGCTATGATTAAGTCCAAGCTG
1 CAAGCTTGAGAGGCACTGAAACAACCTAGGCAGCAAAGTTGTGTGCTATGATTAAGTCCAAGCTG
5263006 TAATTGATTG
66 TAATTGATTG
*
5263016 CAAGCTTGAGAGGCACT-AGAACAACCTAGGCAGCAAAGTTGTGTGCTATGATTGAGTCCAAGCT
1 CAAGCTTGAGAGGCACTGA-AACAACCTAGGCAGCAAAGTTGTGTGCTATGATTAAGTCCAAGCT
5263080 TAAAGGCATT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 1 0.02
75 58 0.98
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (75 bp):
CAAGCTTGAGAGGCACTGAAACAACCTAGGCAGCAAAGTTGTGTGCTATGATTAAGTCCAAGCTG
TAATTGATTG
Found at i:5263191 original size:280 final size:281
Alignment explanation
Indices: 5262676--5263208 Score: 732
Period size: 280 Copynumber: 1.9 Consensus size: 281
5262666 AAATGCAAGG
* * *
5262676 TGAAACAACTTAGACAGCAAGGTTATGTGCTATGATTGAGTCTAAGCTGTGATTGATTGCAAGCT
1 TGAAACAACTTAGACAGCAAGGTTATGTGCTATGATTAAGTCCAAGCTGTAATTGATTGCAAGCT
* * * * * *
5262741 TAAGAAAGCACTAAGATAACTTTGGCAACAAGGTTGTATGCTATGATTGAGTCCAAGCTTGAGGG
66 TAAGAAAGCACTAAGACAACCTAGGCAACAAAGTTGTATGCTATGATTGAGTCCAAGCTTAAAGG
* * * *
5262806 CATTAAAATAACCTAGACCTACAGAGAGGCAAGGTTGAATGCTGGGCATAAAATGCACTAAGACC
131 CATTAAAATAACCTAGACCCACAAAGAAGCAAAGTTGAATGCTGGGCATAAAATGCACTAAGACC
* * * * * ** *
5262871 ATCCAATATGTGAGGTTGCTTGGCCTGAAATGAAGTGTTGATAGGACTTACTAGCACGAGTGATT
196 ATCCAAGACGTAAAGTTGCTTGGCCTCAAAAAAAGTGTTGATAAGACTTACTAGCACGAGTGATT
5262936 GAGGCCAAGCTTGAGAGGCAC
261 GAGGCCAAGCTTGAGAGGCAC
** *
5262957 TGAAACAACTTAGGTAGCAAGGTTGTGTGCTATGATTAAGTCCAAGCTGTAATTGATTGCAAGCT
1 TGAAACAACTTAGACAGCAAGGTTATGTGCTATGATTAAGTCCAAGCTGTAATTGATTGCAAGCT
* * * *
5263022 TGAG-AGGCACT-AGAACAACCTAGGCAGCAAAGTTGTGTGCTATGATTGAGTCCAAGCTTAAAG
66 TAAGAAAGCACTAAG-ACAACCTAGGCAACAAAGTTGTATGCTATGATTGAGTCCAAGCTTAAAG
* * *
5263085 GCATTAAGATAACCTAGACCCACAAAGAAGCAAAGTTGAATGCTGGGCCTAAGATGCACTGAA-A
130 GCATTAAAATAACCTAGACCCACAAAGAAGCAAAGTTGAATGCTGGGCATAAAATGCACT-AAGA
5263149 CCATCCAAGACGTAAAGTTGCTTGGCC-CAAAAAAAGGTGTTGATAAGACTTACTAGCACG
194 CCATCCAAGACGTAAAGTTGCTTGGCCTCAAAAAAA-GTGTTGATAAGACTTACTAGCACG
5263209 GGGAGCTGAT
Statistics
Matches: 218, Mismatches: 31, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
279 7 0.03
280 147 0.67
281 64 0.29
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (281 bp):
TGAAACAACTTAGACAGCAAGGTTATGTGCTATGATTAAGTCCAAGCTGTAATTGATTGCAAGCT
TAAGAAAGCACTAAGACAACCTAGGCAACAAAGTTGTATGCTATGATTGAGTCCAAGCTTAAAGG
CATTAAAATAACCTAGACCCACAAAGAAGCAAAGTTGAATGCTGGGCATAAAATGCACTAAGACC
ATCCAAGACGTAAAGTTGCTTGGCCTCAAAAAAAGTGTTGATAAGACTTACTAGCACGAGTGATT
GAGGCCAAGCTTGAGAGGCAC
Found at i:5263506 original size:18 final size:20
Alignment explanation
Indices: 5263473--5263510 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
5263463 CAAGATAAGG
5263473 TTCACATATGACTAAAAAAT
1 TTCACATATGACTAAAAAAT
5263493 TTCACAT-T-ACTAAAAAAT
1 TTCACATATGACTAAAAAAT
5263511 CTTAATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 1 0.06
20 7 0.39
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.32
Consensus pattern (20 bp):
TTCACATATGACTAAAAAAT
Found at i:5263778 original size:75 final size:75
Alignment explanation
Indices: 5263666--5263804 Score: 235
Period size: 75 Copynumber: 1.9 Consensus size: 75
5263656 TGATTAAGGC
* *
5263666 CAAGCTTGAGAGGCACTGAAACAACTTATGCAGCAAGGTTGTGTGCTATGATTAAGTCCAAGCTG
1 CAAGCTTGAGAGGCACTGAAACAACCTAGGCAGCAAGGTTGTGTGCTATGATTAAGTCCAAGCTG
5263731 TGATTGATTG
66 TGATTGATTG
*
5263741 CAAGCTTGAGAGGCACT-AAGACAACCTAGGCAGCAAGGTTGTGTGCTATGATTGAGTCCAAGCT
1 CAAGCTTGAGAGGCACTGAA-ACAACCTAGGCAGCAAGGTTGTGTGCTATGATTAAGTCCAAGCT
5263805 TAAGGGCATT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
74 2 0.03
75 58 0.97
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (75 bp):
CAAGCTTGAGAGGCACTGAAACAACCTAGGCAGCAAGGTTGTGTGCTATGATTAAGTCCAAGCTG
TGATTGATTG
Found at i:5264318 original size:725 final size:723
Alignment explanation
Indices: 5262912--5264355 Score: 2408
Period size: 725 Copynumber: 2.0 Consensus size: 723
5262902 GAAGTGTTGA
* *
5262912 TAGGACTTACTAGCACGAGTGATTGAGGCCAAGCTTGAGAGGCACTGAAACAACTTAGGTAGCAA
1 TAGGACTTACTAGCACGAGTGATTAAGGCCAAGCTTGAGAGGCACTGAAACAACTTAGGCAGCAA
5262977 GGTTGTGTGCTATGATTAAGTCCAAGCTGTAATTGATTGCAAGCTTGAGAGGCACTAGAACAACC
66 GGTTGTGTGCTATGATTAAGTCCAAGCTGTAATTGATTGCAAGCTTGAGAGGCACTAGAACAACC
5263042 TAGGCAGCAAAGTTGTGTGCTATGATTGAGTCCAAGCTTAAAGGCATTAAGATAACCTAGACCCA
131 TAGGCAGCAAAGTTGTGTGCTATGATTGAGTCCAAGCTTAAAGGCATTAAGATAACCTAGACCCA
5263107 CAAAGAAGCAAAGTTGAATGCTGGGCCTAAGATGCACTGAAACCATCCAAGACGTAAAGTTGCTT
196 CAAAGAAGCAAAGTTGAATGCTGGGCCTAAGATGCACTGAAACCATCCAAGACGTAAAGTTGCTT
* * * * *
5263172 GGCCCAAAAAAAGGTGTTGATAAGACTTACTAGCACGGGGAGCTGATGTGAGACTTGATTAGAAC
261 GGCCCAAAAAAAGGTGTTGATAAAACTTACTAGCACGGAGAGCTGAAGTGAGACTTAATTAAAAC
* * * *
5263237 TCACAAATAAACGAGAGAAATTATTGGGATAAAGTTCACAAATGAGTAAAAACTCTCATATCATT
326 TCACAAATAAACGAGAGAAATTATTGAGATAAAATTCACAAATGAGTAAAAACTCTCACATCACT
5263302 AAGAAATCTGAATAACAGATCTTATATATACATGGAGGATCCAAGACTAAAGTGCACTGAGACCA
391 AAGAAATCTGAATAACAGATCTTATATATACATGGAGGATCCAAGACTAAAGTGCACTGAGACCA
* **
5263367 TCCAAGATGTAAGGTTGCATGGTCCAAAAAGAGGTGTTGATGGGACTTACTAGCAAGGGAAGCTG
456 TCCAAGATGTAAGGTTGCATGGCCCAAAAAGAGGTGTTGATAAGACTTACTAGCAAGGGAAGCTG
*
5263432 AGGTGAAACTTAATCACAACTCACAAGTGAACAAGATAAGGTTCACATATGACTAAAAAATTTCA
521 AGGTGAAACTTAATCACAACTCACAAGTGAACAAGATAAGGTTCACATATGACTAAAAAATTCCA
* *
5263497 CATTACTAAAAAATCTTAATAAGATATCTCATATATACATAGATGACCCAAGAACCCAATAGCTT
586 CATTACTAAAAAATCTTAATAAGATATCTCATATATACATAGAGGACCCAAAAACCCAATAGCTT
* *
5263562 AAGTTTTTGTGCCCAAATAGTGTCTAACATGTATATATGGACTCTTTGATGTGTTCCCATAGACT
651 AAGCTTTTGAGCCCAAATAGTGTCTAACATGTATATATGGACTCTTTGATGTGTTCCCATAGACT
5263627 CCAAATGT
716 CCAAATGT
*
5263635 TAGGACTTACTAGCACGAAAGTGATTAAGGCCAAGCTTGAGAGGCACTGAAACAACTTATGCAGC
1 TAGGACTTACTAGCACG--AGTGATTAAGGCCAAGCTTGAGAGGCACTGAAACAACTTAGGCAGC
*
5263700 AAGGTTGTGTGCTATGATTAAGTCCAAGCTGTGATTGATTGCAAGCTTGAGAGGCACTA-AGACA
64 AAGGTTGTGTGCTATGATTAAGTCCAAGCTGTAATTGATTGCAAGCTTGAGAGGCACTAGA-ACA
* *
5263764 ACCTAGGCAGCAAGGTTGTGTGCTATGATTGAGTCCAAGCTTAAGGGCATTAAGATAACCTAGAC
128 ACCTAGGCAGCAAAGTTGTGTGCTATGATTGAGTCCAAGCTTAAAGGCATTAAGATAACCTAGAC
5263829 CCACAAAGAAGCAAAGTTGAATGCTGGGCCTAAGATGCACTGAAACCATCCAAGACGTAAAGTTG
193 CCACAAAGAAGCAAAGTTGAATGCTGGGCCTAAGATGCACTGAAACCATCCAAGACGTAAAGTTG
* * *
5263894 CTTGGCCTAAAAGAAGGTGTTGATAAAACTTACTAGCATGGAGAGCTGAAGTGAGACTTAATTAA
258 CTTGGCCCAAAAAAAGGTGTTGATAAAACTTACTAGCACGGAGAGCTGAAGTGAGACTTAATTAA
* *
5263959 AACTCACAAATAAACGAGAGAAATTATTGAGATAAAATTCACATATGAGTAAAAATTCTCACATC
323 AACTCACAAATAAACGAGAGAAATTATTGAGATAAAATTCACAAATGAGTAAAAACTCTCACATC
* * * * *
5264024 ACTAAGAAATCTGAATGATATATCTTATATATACATTGAGGATCCAAGACTAAGGTGCACTGAGA
388 ACTAAGAAATCTGAATAACAGATCTTATATATACATGGAGGATCCAAGACTAAAGTGCACTGAGA
* * * *
5264089 CCATCCAAGATGTGAGGTTGCATGGCCCAAAAGGAGGTGTTGATAAGACTTACTAG-TACGGAGA
453 CCATCCAAGATGTAAGGTTGCATGGCCCAAAAAGAGGTGTTGATAAGACTTACTAGCAAGGGA-A
* *
5264153 GCTGAGGTGAGATTTAATCACAACTCACAAGTGAACAAGATAAGGTTCACATATGACTAAAAAAT
517 GCTGAGGTGAAACTTAATCACAACTCACAAGTGAACAAGATAAGGTTCACATATGACTAAAAAAT
* **
5264218 TCCACATTACTAAAAAATCTTAATAAGATATC-CAGTATATACATGGAGGGTCCAAAAACCCAAT
582 TCCACATTACTAAAAAATCTTAATAAGATATCTCA-TATATACATAGAGGACCCAAAAACCCAAT
* * *
5264282 AGCTTAGGCTTTTGAGCCTAAATAGTGTCTAACATGTATATATGGACTCTTTGATGTGTTCCTAT
646 AGCTTAAGCTTTTGAGCCCAAATAGTGTCTAACATGTATATATGGACTCTTTGATGTGTTCCCAT
*
5264347 GGACTCCAA
711 AGACTCCAA
5264356 GTGTGACTTA
Statistics
Matches: 670, Mismatches: 46, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
723 17 0.03
724 7 0.01
725 646 0.96
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (723 bp):
TAGGACTTACTAGCACGAGTGATTAAGGCCAAGCTTGAGAGGCACTGAAACAACTTAGGCAGCAA
GGTTGTGTGCTATGATTAAGTCCAAGCTGTAATTGATTGCAAGCTTGAGAGGCACTAGAACAACC
TAGGCAGCAAAGTTGTGTGCTATGATTGAGTCCAAGCTTAAAGGCATTAAGATAACCTAGACCCA
CAAAGAAGCAAAGTTGAATGCTGGGCCTAAGATGCACTGAAACCATCCAAGACGTAAAGTTGCTT
GGCCCAAAAAAAGGTGTTGATAAAACTTACTAGCACGGAGAGCTGAAGTGAGACTTAATTAAAAC
TCACAAATAAACGAGAGAAATTATTGAGATAAAATTCACAAATGAGTAAAAACTCTCACATCACT
AAGAAATCTGAATAACAGATCTTATATATACATGGAGGATCCAAGACTAAAGTGCACTGAGACCA
TCCAAGATGTAAGGTTGCATGGCCCAAAAAGAGGTGTTGATAAGACTTACTAGCAAGGGAAGCTG
AGGTGAAACTTAATCACAACTCACAAGTGAACAAGATAAGGTTCACATATGACTAAAAAATTCCA
CATTACTAAAAAATCTTAATAAGATATCTCATATATACATAGAGGACCCAAAAACCCAATAGCTT
AAGCTTTTGAGCCCAAATAGTGTCTAACATGTATATATGGACTCTTTGATGTGTTCCCATAGACT
CCAAATGT
Found at i:5271305 original size:14 final size:15
Alignment explanation
Indices: 5271280--5271308 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5271270 TTTTTTTATT
5271280 TTTTTTACTATTTTC
1 TTTTTTACTATTTTC
5271295 TTTTTTA-TATTTTC
1 TTTTTTACTATTTTC
5271309 AAAAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTACTATTTTC
Found at i:5273606 original size:86 final size:85
Alignment explanation
Indices: 5273501--5273689 Score: 195
Period size: 86 Copynumber: 2.2 Consensus size: 85
5273491 CAAAAAAGTA
** *
5273501 ATTTTTGTAATTACAGTTAGAAAATATCATAGTAATTTTA-ACTAATTATAACAT-AATGGGTAT
1 ATTTTTGTAATTATGGTTAGAAAATATCATAGTAA-TTTAGACCAATTATAACATGAA-GGGTAT
5273564 TTT-CATAATCATGGTAAGAGAAC
64 TTTAC-TAATCAT-GTAAGAGAAC
* *** * * * *
5273587 ATTTTTGCAATTATGGTTAGAGGGTATTATAGTGATTTAGACCAATTGTAATATGAAGGGTATTT
1 ATTTTTGTAATTATGGTTAGAAAATATCATAGTAATTTAGACCAATTATAACATGAAGGGTATTT
* **
5273652 TACTAATTATGTAAGAGGGC
66 TACTAATCATGTAAGAGAAC
5273672 ATTTTTGTAATTATGGTT
1 ATTTTTGTAATTATGGTT
5273690 GTATGGGCAT
Statistics
Matches: 85, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
85 29 0.34
86 53 0.62
87 3 0.04
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (85 bp):
ATTTTTGTAATTATGGTTAGAAAATATCATAGTAATTTAGACCAATTATAACATGAAGGGTATTT
TACTAATCATGTAAGAGAAC
Found at i:5278986 original size:56 final size:57
Alignment explanation
Indices: 5278924--5279040 Score: 146
Period size: 56 Copynumber: 2.1 Consensus size: 57
5278914 TTTACCAATA
* * *
5278924 GTTAACGCTCATCAGTATAAAATTGCATGTTTTAA-TTTTTCTTACCTATATCGATG
1 GTTAACGCTCATCAATATAAAATTGCATGTTTTAATTTTTTCTTACCAATACCGATG
** * * * *
5278980 GTTAACGCTTGTCAATATAGACTTGTATGTTTTAATTTTTTCTTATCAATACCGATG
1 GTTAACGCTCATCAATATAAAATTGCATGTTTTAATTTTTTCTTACCAATACCGATG
5279037 GTTA
1 GTTA
5279041 GTGTCTGTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
56 29 0.57
57 22 0.43
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (57 bp):
GTTAACGCTCATCAATATAAAATTGCATGTTTTAATTTTTTCTTACCAATACCGATG
Found at i:5279056 original size:57 final size:57
Alignment explanation
Indices: 5278950--5279082 Score: 153
Period size: 57 Copynumber: 2.4 Consensus size: 57
5278940 ATAAAATTGC
* * * *
5278950 ATGTTTTAA-TTTTTCTTACCTATATCGATGGTTAACGCTTGTCAATATAGACTTGT
1 ATGTTTTAATTTTTTCTTATCAATACCGATGGTTAACGCTTGTCAATATAGACTTAT
** * * *
5279006 ATGTTTTAATTTTTTCTTATCAATACCGATGGTTAGTG-TCTGTTAGTATAGATTTAT
1 ATGTTTTAATTTTTTCTTATCAATACCGATGGTTAACGCT-TGTCAATATAGACTTAT
*
5279063 ATGTTTTAATTTTTTATTAT
1 ATGTTTTAATTTTTTCTTAT
5279083 ATTTTACTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
56 10 0.15
57 55 0.85
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.52
Consensus pattern (57 bp):
ATGTTTTAATTTTTTCTTATCAATACCGATGGTTAACGCTTGTCAATATAGACTTAT
Found at i:5279680 original size:13 final size:13
Alignment explanation
Indices: 5279662--5279686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5279652 AACAAACATC
5279662 ATTGAATGTCTAT
1 ATTGAATGTCTAT
5279675 ATTGAATGTCTA
1 ATTGAATGTCTA
5279687 CAAACATGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGAATGTCTAT
Found at i:5283246 original size:145 final size:144
Alignment explanation
Indices: 5282978--5283265 Score: 486
Period size: 145 Copynumber: 2.0 Consensus size: 144
5282968 CTAAAAACCA
5282978 AACCCTTTTCTTAAGAATCAAAAGCAACCAACAACTGAATGCAATCAAACACTTCTTCTCAAGAG
1 AACCCTTTTCTTAAGAATCAAAAGCAACCAACAACTGAATGCAATCAAACACTTCTTCTCAAGAG
** * * *
5283043 TTATGTGCTCCAAACTCTAAAATCTAATTAGTTCCACTTGGCTTGGCAAGTAGAAAACCAAAATG
66 TTACATGCTACAAACTCTAAAATCTAATTAGTTCCACTTGACTTGGCAAGCAGAAAACCAAAATG
*
5283108 CATATATAGCTAAC
131 CATATATAACTAAC
* *
5283122 AACCCATTTTCTTAAGAATCAAAAGCAACCAACAACTGAATGTAATCAAACACTTCTTCTCAGGA
1 AACCC-TTTTCTTAAGAATCAAAAGCAACCAACAACTGAATGCAATCAAACACTTCTTCTCAAGA
*
5283187 GTTACATGCTACAAACTCTAAAATCTAATTAGTTCCATTTGACTTGGCAAGCAGAAAACCAAAAT
65 GTTACATGCTACAAACTCTAAAATCTAATTAGTTCCACTTGACTTGGCAAGCAGAAAACCAAAAT
5283252 GCATATATAACTAA
130 GCATATATAACTAA
5283266 TCATCAAAGT
Statistics
Matches: 134, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
144 5 0.04
145 129 0.96
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.26
Consensus pattern (144 bp):
AACCCTTTTCTTAAGAATCAAAAGCAACCAACAACTGAATGCAATCAAACACTTCTTCTCAAGAG
TTACATGCTACAAACTCTAAAATCTAATTAGTTCCACTTGACTTGGCAAGCAGAAAACCAAAATG
CATATATAACTAAC
Found at i:5286783 original size:16 final size:15
Alignment explanation
Indices: 5286764--5286803 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
5286754 TTTCAGTAGG
5286764 TTATTTTTTTAATTGA
1 TTATTTTTTTAATT-A
*
5286780 TTATTGTTTTAATTA
1 TTATTTTTTTAATTA
5286795 -TATTTTTTT
1 TTATTTTTTT
5286804 GTCTTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 8 0.36
15 1 0.05
16 13 0.59
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (15 bp):
TTATTTTTTTAATTA
Found at i:5288353 original size:17 final size:16
Alignment explanation
Indices: 5288320--5288369 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
5288310 AAGAGCCTAA
*
5288320 AATTTTATTTTTATTTT
1 AATTTTATTATT-TTTT
*
5288337 TATTTTAATTGATTTTTT
1 AATTTT-ATT-ATTTTTT
5288355 AATTTTATTATTTTT
1 AATTTTATTATTTTT
5288370 GTTTTTGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 6 0.21
17 8 0.29
18 12 0.43
19 2 0.07
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (16 bp):
AATTTTATTATTTTTT
Found at i:5288908 original size:20 final size:19
Alignment explanation
Indices: 5288879--5288932 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
5288869 ATTAGGACTG
5288879 TTTGGATTTTGGTTTGAATT
1 TTTGGATTTTGGTTTG-ATT
* *
5288899 TTTGGGTTTTGGCTTGATT
1 TTTGGATTTTGGTTTGATT
*
5288918 TTTGGATTTTAGTTT
1 TTTGGATTTTGGTTT
5288933 TTATTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.11, C:0.02, G:0.26, T:0.61
Consensus pattern (19 bp):
TTTGGATTTTGGTTTGATT
Found at i:5288920 original size:19 final size:20
Alignment explanation
Indices: 5288879--5288927 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
5288869 ATTAGGACTG
*
5288879 TTTGGATTTTGGTTTGAATT
1 TTTGGATTTTGGCTTGAATT
*
5288899 TTTGGGTTTTGGCTTG-ATT
1 TTTGGATTTTGGCTTGAATT
5288918 TTTGGATTTT
1 TTTGGATTTT
5288928 AGTTTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.10, C:0.02, G:0.27, T:0.61
Consensus pattern (20 bp):
TTTGGATTTTGGCTTGAATT
Found at i:5288938 original size:20 final size:19
Alignment explanation
Indices: 5288879--5288940 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 19
5288869 ATTAGGACTG
*
5288879 TTTGGATTTTGGTTTGAATT
1 TTTGGATTTT-GTTTTAATT
* ** *
5288899 TTTGGGTTTTGGCTTGATT
1 TTTGGATTTTGTTTTAATT
*
5288918 TTTGGATTTTAGTTTTTATT
1 TTTGGATTTT-GTTTTAATT
5288938 TTT
1 TTT
5288941 TTGGAATTCT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.11, C:0.02, G:0.23, T:0.65
Consensus pattern (19 bp):
TTTGGATTTTGTTTTAATT
Found at i:5288985 original size:20 final size:19
Alignment explanation
Indices: 5288962--5289013 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
5288952 TTAAAGTCTT
5288962 GTTTGAATTTTTGGAATTAG
1 GTTTGAATTTTTGG-ATTAG
* *
5288982 GTTTGAACTTCTTGGTTTAG
1 GTTTGAA-TTTTTGGATTAG
*
5289002 GCTTGAATTTTT
1 GTTTGAATTTTT
5289014 CTCTAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 17 0.63
21 6 0.22
ACGTcount: A:0.19, C:0.06, G:0.23, T:0.52
Consensus pattern (19 bp):
GTTTGAATTTTTGGATTAG
Found at i:5289692 original size:23 final size:23
Alignment explanation
Indices: 5289636--5289692 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
5289626 TATTTGCATG
* *
5289636 ATTACTTGCATAATTTTTATTAT
1 ATTATTTGCATAATTTTTATGAT
*
5289659 ATTATTAGCATAATTTATTATGAT
1 ATTATTTGCATAATTT-TTATGAT
5289683 ATT-TTTGCAT
1 ATTATTTGCAT
5289693 TGTGTTTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (23 bp):
ATTATTTGCATAATTTTTATGAT
Found at i:5294368 original size:23 final size:23
Alignment explanation
Indices: 5294354--5294401 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
5294344 AAAGATGTAT
5294354 AAAA-AAAAAGAAAAAAGAATAA
1 AAAATAAAAAGAAAAAAGAATAA
*
5294376 AAAATAAAAAGAGAAAAG--TAA
1 AAAATAAAAAGAAAAAAGAATAA
5294397 AAAAT
1 AAAAT
5294402 TAGAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 4 0.17
23 12 0.50
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.08
Consensus pattern (23 bp):
AAAATAAAAAGAAAAAAGAATAA
Found at i:5295567 original size:23 final size:21
Alignment explanation
Indices: 5295498--5295699 Score: 109
Period size: 23 Copynumber: 9.1 Consensus size: 21
5295488 TTCGAATGCA
* **
5295498 AATCTTTGAATTTTGGATGAG
1 AATCTTTAAATTTTAAATGAG
* *
5295519 AACCTTTAAAATTTTCAAGTGAG
1 AATCTTT-AAATTTT-AAATGAG
*
5295542 AATCTTTAAACTTTTCAAATGTG
1 AATCTTTAAA-TTTT-AAATGAG
* * **
5295565 AATATTTAAGTTTTGGATGAG
1 AATCTTTAAATTTTAAATGAG
* *
5295586 AATCTCTAAAATTTTCAAATAAG
1 AATCT-TTAAATTTT-AAATGAG
*
5295609 AATCTTTGAACTTTTAGAATGCA-
1 AATCTTT-AAATTTTA-AATG-AG
* * ** *
5295632 TATCTTTGAATTTTGGATGTG
1 AATCTTTAAATTTTAAATGAG
* *
5295653 AATCTTTAAATTTTAGATGTG
1 AATCTTTAAATTTTAAATGAG
*
5295674 AATCTCTAAAAATTTTAAATGAG
1 AATCT-T-TAAATTTTAAATGAG
5295697 AAT
1 AAT
5295700 TTCAAATATG
Statistics
Matches: 136, Mismatches: 34, Indels: 20
0.72 0.18 0.11
Matches are distributed among these distances:
21 40 0.29
22 28 0.21
23 67 0.49
24 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.41
Consensus pattern (21 bp):
AATCTTTAAATTTTAAATGAG
Found at i:5295646 original size:67 final size:65
Alignment explanation
Indices: 5295481--5295666 Score: 214
Period size: 67 Copynumber: 2.8 Consensus size: 65
5295471 ATTTTAGATA
* * * *
5295481 TGAACTTTTCGAATGCAAATCTTTGAATTTTGGATGAGAACCTTTAAAATTTTCAAGTGAGAATC
1 TGAACTTTTAGAATGC-AATCTTTGAATTTTGGATGAGAATC-TTAAAATTTTCAAATAAGAATC
5295546 TT
64 TT
* * *
5295548 TAAACTTTTCA-AATGTGAATATTT-AAGTTTTGGATGAGAATCTCTAAAATTTTCAAATAAGAA
1 TGAACTTTT-AGAATG-CAATCTTTGAA-TTTTGGATGAGAATCT-TAAAATTTTCAAATAAGAA
5295611 TCTT
62 TCTT
* *
5295615 TGAACTTTTAGAATGCATATCTTTGAATTTTGGATGTGAATCTTTAAATTTT
1 TGAACTTTTAGAATGCA-ATCTTTGAATTTTGGATGAGAATCTTAAAATTTT
5295667 AGATGTGAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
66 13 0.13
67 85 0.85
68 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.42
Consensus pattern (65 bp):
TGAACTTTTAGAATGCAATCTTTGAATTTTGGATGAGAATCTTAAAATTTTCAAATAAGAATCTT
Found at i:5295659 original size:21 final size:21
Alignment explanation
Indices: 5295498--5295906 Score: 99
Period size: 23 Copynumber: 18.8 Consensus size: 21
5295488 TTCGAATGCA
* * *
5295498 AATCTTTGAATTTTGGATGAG
1 AATCTTTAAATTTTAGATGTG
* *
5295519 AACCTTTAAAATTTTCA-AGTGAG
1 AATCTTT-AAATTTT-AGA-TGTG
*
5295542 AATCTTTAAACTTTTCAAATGTG
1 AATCTTTAAA-TTTT-AGATGTG
* * * *
5295565 AATATTTAAGTTTTGGATGAG
1 AATCTTTAAATTTTAGATGTG
* * **
5295586 AATCTCTAAAATTTTCAAATAAG
1 AATCT-TTAAATTTT-AGATGTG
* *
5295609 AATCTTTGAACTTTTAGAATG-C
1 AATCTTT-AAATTTTAG-ATGTG
* *
5295631 ATATCTTTGAATTTTGGATGTG
1 A-ATCTTTAAATTTTAGATGTG
5295653 AATCTTTAAATTTTAGATGTG
1 AATCTTTAAATTTTAGATGTG
* * *
5295674 AATCTCTAAAAATTTTAAATGAG
1 AATCT-T-TAAATTTTAGATGTG
*
5295697 AAT-TTCAAA---T--A--TG
1 AATCTTTAAATTTTAGATGTG
* *
5295710 AATCTTTAAATGTTAGATGTA
1 AATCTTTAAATTTTAGATGTG
* *
5295731 AATCTCTAAAATTTTTTA-ATGAG
1 AATCT-TTAAA--TTTTAGATGTG
* * *
5295754 AACCTTTGAATCTTTGGATGTG
1 AATCTTTAAAT-TTTAGATGTG
*
5295776 AATCTTTAAAATTTTACATATGTG
1 AATCTTT-AAATTTT--AGATGTG
** * *
5295800 AGCCTTTGAATCTT-GTATGTG
1 AATCTTTAAATTTTAG-ATGTG
* *
5295821 AAT-TTCTAAAATTTTTGAATTTG
1 AATCTT-T-AAATTTTAG-ATGTG
*
5295844 AATCTTTGAACTTTT-GATGTG
1 AATCTTT-AAATTTTAGATGTG
** *
5295865 AATCTCAAAATTTTTTTTGAATGTG
1 AATCTTTAAA---TTTTAG-ATGTG
*
5295890 AATCTTTGAATTTTAGA
1 AATCTTTAAATTTTAGA
5295907 AGCTTCATTT
Statistics
Matches: 281, Mismatches: 68, Indels: 78
0.66 0.16 0.18
Matches are distributed among these distances:
13 4 0.01
14 5 0.02
15 1 0.00
17 2 0.01
19 1 0.00
20 8 0.03
21 67 0.24
22 64 0.23
23 99 0.35
24 18 0.06
25 12 0.04
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (21 bp):
AATCTTTAAATTTTAGATGTG
Found at i:5295780 original size:45 final size:45
Alignment explanation
Indices: 5295725--5295900 Score: 178
Period size: 45 Copynumber: 3.9 Consensus size: 45
5295715 TTAAATGTTA
* *
5295725 GATGTAAATCTCTAAAATTTTTTAATGAGAACCTTTGAATCTTTG
1 GATGTGAATCTCTAAAATTTTTTAATGTGAACCTTTGAATCTTTG
* ** *
5295770 GATGTGAATCTTTAAAATTTTACATATGTGAGCCTTTGAATC-TTG
1 GATGTGAATCTCTAAAATTTTTTA-ATGTGAACCTTTGAATCTTTG
* * * * * *
5295815 TATGTGAATTTCTAAAATTTTTGAATTTGAATCTTTGAA-CTTTT
1 GATGTGAATCTCTAAAATTTTTTAATGTGAACCTTTGAATCTTTG
*
5295859 GATGTGAATCTC-AAAATTTTTTTTGAATGTGAATCTTTGAAT
1 GATGTGAATCTCTAAAA--TTTTTT-AATGTGAACCTTTGAAT
5295901 TTTAGAAGCT
Statistics
Matches: 106, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
43 5 0.05
44 24 0.23
45 47 0.44
46 30 0.28
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (45 bp):
GATGTGAATCTCTAAAATTTTTTAATGTGAACCTTTGAATCTTTG
Found at i:5295897 original size:90 final size:90
Alignment explanation
Indices: 5295708--5295906 Score: 206
Period size: 90 Copynumber: 2.2 Consensus size: 90
5295698 ATTTCAAATA
* * *
5295708 TGAATCTTTAAATGTTAGATGTAAATCTCTAAAATTTTTTAATGAGAACCTTTGAATCTTTGGAT
1 TGAATCTTTGAATCTTAGATGTAAATCTCTAAAATTTTTGAATGAGAACCTTTGAATCTTTGGAT
*
5295773 GTGAATCTTTAAAATTTTACATATG
66 GTGAATCTTCAAAATTTTACATATG
** * * ** * *
5295798 TGAGCCTTTGAATCTT-GTATGTGAATTTCTAAAATTTTTGAATTTGAATCTTTGAA-CTTTTGA
1 TGAATCTTTGAATCTTAG-ATGTAAATCTCTAAAATTTTTGAATGAGAACCTTTGAATCTTTGGA
***
5295861 TGTGAATC-TCAAAATTTTTTTTGAATG
65 TGTGAATCTTCAAAATTTTACAT--ATG
*
5295888 TGAATCTTTGAATTTTAGA
1 TGAATCTTTGAATCTTAGA
5295907 AGCTTCATTT
Statistics
Matches: 87, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
88 10 0.11
89 15 0.17
90 61 0.70
91 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.46
Consensus pattern (90 bp):
TGAATCTTTGAATCTTAGATGTAAATCTCTAAAATTTTTGAATGAGAACCTTTGAATCTTTGGAT
GTGAATCTTCAAAATTTTACATATG
Found at i:5295901 original size:25 final size:25
Alignment explanation
Indices: 5295832--5295903 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
5295822 ATTTCTAAAA
*
5295832 TTTTTGAATTTGAATCTTTGAA---
1 TTTTTGAATGTGAATCTTTGAATTT
* ***
5295854 CTTTTG-ATGTGAATCTCAAAATTT
1 TTTTTGAATGTGAATCTTTGAATTT
5295878 TTTTTGAATGTGAATCTTTGAATTT
1 TTTTTGAATGTGAATCTTTGAATTT
5295903 T
1 T
5295904 AGAAGCTTCA
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
21 11 0.30
22 5 0.14
24 5 0.14
25 16 0.43
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.53
Consensus pattern (25 bp):
TTTTTGAATGTGAATCTTTGAATTT
Found at i:5296131 original size:19 final size:18
Alignment explanation
Indices: 5296064--5296157 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 18
5296054 GAATACTTAC
5296064 AAATCTTGAATCTTTTGTG
1 AAAT-TTGAATCTTTTGTG
* * *
5296083 AATTTTTAAATTTCTTTGT-
1 AA-ATTTGAATCT-TTTGTG
5296102 AAATCTTGAATCTTTTGTG
1 AAAT-TTGAATCTTTTGTG
**
5296121 AACATTTGAATC-TTTACG
1 AA-ATTTGAATCTTTTGTG
5296139 -AATTTGAATCTTTTGTG
1 AAATTTGAATCTTTTGTG
5296156 AA
1 AA
5296158 CCATTAAATT
Statistics
Matches: 58, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
16 9 0.16
17 5 0.09
18 11 0.19
19 25 0.43
20 8 0.14
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.49
Consensus pattern (18 bp):
AAATTTGAATCTTTTGTG
Found at i:5296236 original size:36 final size:36
Alignment explanation
Indices: 5295989--5296260 Score: 172
Period size: 36 Copynumber: 7.4 Consensus size: 36
5295979 TAAATATTTG
* * ** *
5295989 CAAATCTTAAATCTTTTATAAGTCTTTGGATTTCTTA
1 CAAATCTTGAATCTTTTGTAAACCTTTGAATTT-TTA
* * * ** **
5296026 CCAAAGCTTAAAGCTTTTGCGAACCTTTGAATACTTA
1 -CAAATCTTGAATCTTTTGTAAACCTTTGAATTTTTA
* ** * *
5296063 CAAATCTTGAATCTTTTGTGAATTTTTAAATTTCTTTG
1 CAAATCTTGAATCTTTTGTAAACCTTTGAA-TT-TTTA
* * * *
5296101 TAAATCTTGAATCTTTTGTGAACATTTGAATCTTTA
1 CAAATCTTGAATCTTTTGTAAACCTTTGAATTTTTA
* * * *
5296137 CGAAT-TTGAATCTTTTGTGAACCATTAAATTTTTA
1 CAAATCTTGAATCTTTTGTAAACCTTTGAATTTTTA
* *
5296172 CAAATTTTGAATCTTTTG-AGAACTTTTGAATTTTTA
1 CAAATCTTGAATCTTTTGTA-AACCTTTGAATTTTTA
** * *
5296208 CAAATCTTGAATCCCTTGCAAACCTTTG-ATTTCTTC
1 CAAATCTTGAATCTTTTGTAAACCTTTGAATTT-TTA
5296244 CAAATCTTTGAAATCTT
1 CAAATC-TTG-AATCTT
5296261 ACGAACTTTT
Statistics
Matches: 182, Mismatches: 44, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
35 34 0.19
36 84 0.46
37 9 0.05
38 55 0.30
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (36 bp):
CAAATCTTGAATCTTTTGTAAACCTTTGAATTTTTA
Found at i:5296432 original size:75 final size:75
Alignment explanation
Indices: 5296338--5296487 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
5296328 AACTTTTGAA
* *
5296338 AAGCATGCAAATTGTGAATCTTTATTTCATATCAGAATTTCTAAATTTTTATTTTAACTCAGATC
1 AAGCATGCAAATTGCGAATCTTTATTTCATATCAGAATTTCTAAATTTTTATTTTAACTCAAATC
5296403 TAGATATAAT
66 TAGATATAAT
5296413 AAGCATGCAAATTGCGAATCTTTATTTCATATCAGAATTTCTAAATTTTTATTTTAACTCAAATC
1 AAGCATGCAAATTGCGAATCTTTATTTCATATCAGAATTTCTAAATTTTTATTTTAACTCAAATC
5296478 TAGATATAAT
66 TAGATATAAT
5296488 GGGTGTCTAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.42
Consensus pattern (75 bp):
AAGCATGCAAATTGCGAATCTTTATTTCATATCAGAATTTCTAAATTTTTATTTTAACTCAAATC
TAGATATAAT
Found at i:5296688 original size:21 final size:20
Alignment explanation
Indices: 5296662--5296705 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
5296652 GCCTAAAATT
5296662 TTATTTTTATTTTTTGTTTTA
1 TTATTTTTATTTTTTG-TTTA
*
5296683 TTATTTTTGTTTTTTGTTTA
1 TTATTTTTATTTTTTGTTTA
5296703 TTA
1 TTA
5296706 AGTCAACTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (20 bp):
TTATTTTTATTTTTTGTTTA
Found at i:5297382 original size:12 final size:12
Alignment explanation
Indices: 5297365--5297390 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5297355 AGGAAAATGT
5297365 TGAATTTTTCAA
1 TGAATTTTTCAA
5297377 TGAATTTTTCAA
1 TGAATTTTTCAA
5297389 TG
1 TG
5297391 CCAGTTAAAT
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:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (12 bp):
TGAATTTTTCAA
Found at i:5297687 original size:10 final size:9
Alignment explanation
Indices: 5297662--5297755 Score: 54
Period size: 8 Copynumber: 10.3 Consensus size: 9
5297652 TTCTCTTTTC
*
5297662 TTTTCTTTA
1 TTTTATTTA
5297671 -TTTATTTA
1 TTTTATTTA
5297679 TTTTGATTTTA
1 TTTT-A-TTTA
5297690 TTTTATTT-
1 TTTTATTTA
**
5297698 TGGT-TTTA
1 TTTTATTTA
5297706 TTTTGATTTA
1 TTTT-ATTTA
5297716 TTTTATTTTTA
1 TTTTA--TTTA
*
5297727 TTTTATGTTC
1 TTTTAT-TTA
*
5297737 TATT-TTTA
1 TTTTATTTA
5297745 TTTTA-TTA
1 TTTTATTTA
5297753 TTT
1 TTT
5297756 ATTATTGTTG
Statistics
Matches: 66, Mismatches: 9, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
7 3 0.05
8 22 0.33
9 9 0.14
10 15 0.23
11 17 0.26
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (9 bp):
TTTTATTTA
Found at i:5297691 original size:11 final size:10
Alignment explanation
Indices: 5297667--5297751 Score: 77
Period size: 11 Copynumber: 8.1 Consensus size: 10
5297657 TTTTCTTTTC
5297667 TTTA-TTTA-
1 TTTATTTTAT
5297675 TTTATTTTGAT
1 TTTATTTT-AT
5297686 TTTATTTTAT
1 TTTATTTTAT
*
5297696 TTTGGTTTTAT
1 TTT-ATTTTAT
5297707 TTTGA-TTTAT
1 TTT-ATTTTAT
5297717 TTTATTTTTAT
1 TTTA-TTTTAT
5297728 TTTATGTTCTATT
1 TTTAT-TT-TA-T
5297741 TTTATTTTAT
1 TTTATTTTAT
5297751 T
1 T
5297752 ATTTATTATT
Statistics
Matches: 66, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
8 4 0.06
9 4 0.06
10 17 0.26
11 31 0.47
12 4 0.06
13 6 0.09
ACGTcount: A:0.18, C:0.01, G:0.06, T:0.75
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:5297694 original size:5 final size:5
Alignment explanation
Indices: 5297667--5297751 Score: 77
Period size: 5 Copynumber: 16.2 Consensus size: 5
5297657 TTTTCTTTTC
*
5297667 TTTA- TTTA- TTTAT TTTGAT TTTAT TTTAT TTTGGT TTTAT TTTGA-
1 TTTAT TTTAT TTTAT TTT-AT TTTAT TTTAT TTT-AT TTTAT TTT-AT
5297712 TTTAT TTTATT TTTAT TTTAT GTTCTATT TTTAT TTTAT T
1 TTTAT TTTA-T TTTAT TTTAT -TT-TA-T TTTAT TTTAT T
5297752 ATTTATTATT
Statistics
Matches: 70, Mismatches: 2, Indels: 17
0.79 0.02 0.19
Matches are distributed among these distances:
4 9 0.13
5 37 0.53
6 19 0.27
7 4 0.06
8 1 0.01
ACGTcount: A:0.18, C:0.01, G:0.06, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:5297696 original size:16 final size:15
Alignment explanation
Indices: 5297667--5297751 Score: 77
Period size: 16 Copynumber: 5.4 Consensus size: 15
5297657 TTTTCTTTTC
5297667 TTTA-TTTA-TTTAT
1 TTTATTTTATTTTAT
5297680 TTTGATTTTATTTTAT
1 TTT-ATTTTATTTTAT
*
5297696 TTTGGTTTTATTTTGA-
1 TTT-ATTTTATTTT-AT
5297712 TTTATTTTATTTTTAT
1 TTTATTTTA-TTTTAT
5297728 TTTATGTTCTATTTTTAT
1 TTTAT-TT-TA-TTTTAT
5297746 TTTATT
1 TTTATT
5297752 ATTTATTATT
Statistics
Matches: 62, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
13 3 0.05
14 1 0.02
15 10 0.16
16 30 0.48
17 4 0.06
18 14 0.23
ACGTcount: A:0.18, C:0.01, G:0.06, T:0.75
Consensus pattern (15 bp):
TTTATTTTATTTTAT
Found at i:5297715 original size:21 final size:21
Alignment explanation
Indices: 5297670--5297730 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
5297660 TCTTTTCTTT
5297670 ATTTA-TTTA-TTTTGATTTT-
1 ATTTATTTTAGTTTT-ATTTTG
*
5297689 ATTTTATTTTGGTTTTATTTTG
1 A-TTTATTTTAGTTTTATTTTG
*
5297711 ATTTATTTTATTTTTATTTT
1 ATTTATTTTAGTTTTATTTT
5297731 ATGTTCTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 25 0.71
22 5 0.14
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (21 bp):
ATTTATTTTAGTTTTATTTTG
Found at i:5297754 original size:37 final size:36
Alignment explanation
Indices: 5297667--5297755 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 36
5297657 TTTTCTTTTC
*
5297667 TTTA-TTTATTTATTTTGATTTTATTTTATTTTGGT
1 TTTATTTTATTTATTTTGATTTTATTTTATTTTAGT
*
5297702 TTTATTTTGATTTATTTT-ATTTTTATTTTATGTTCTATT
1 TTTATTTT-ATTTATTTTGA-TTTTATTTTAT-TT-TAGT
5297741 TTTATTTTA-TTATTT
1 TTTATTTTATTTATTT
5297756 ATTATTGTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
35 4 0.09
36 4 0.09
37 26 0.55
38 3 0.06
39 10 0.21
ACGTcount: A:0.18, C:0.01, G:0.06, T:0.75
Consensus pattern (36 bp):
TTTATTTTATTTATTTTGATTTTATTTTATTTTAGT
Found at i:5297961 original size:22 final size:22
Alignment explanation
Indices: 5297912--5297991 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 22
5297902 ACTTTTTATT
* *
5297912 TTATTTGCACGATTTT-TAACA
1 TTATTTGCATGATTTTATTACA
5297933 -TATTTTGCATGATTTTATTACA
1 TTA-TTTGCATGATTTTATTACA
*
5297955 TTATTTGCATGA-TTTATTATAA
1 TTATTTGCATGATTTTATTA-CA
*
5297977 TATTTTTGCATGATT
1 T-TATTTGCATGATT
5297992 AGTTTCGCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
20 2 0.04
21 19 0.39
22 15 0.31
23 12 0.24
24 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.54
Consensus pattern (22 bp):
TTATTTGCATGATTTTATTACA
Found at i:5297988 original size:23 final size:22
Alignment explanation
Indices: 5297915--5297991 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
5297905 TTTTATTTTA
*
5297915 TTTGCACGATTT-TTAACATA-T
1 TTTGCATGATTTATTAA-ATATT
* *
5297936 TTTGCATGATTTTATTACAT-TA
1 TTTGCATGA-TTTATTAAATATT
5297958 TTTGCATGATTTATTATAATATT
1 TTTGCATGATTTATTA-AATATT
5297981 TTTGCATGATT
1 TTTGCATGATT
5297992 AGTTTCGCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
21 15 0.33
22 16 0.35
23 15 0.33
ACGTcount: A:0.27, C:0.09, G:0.10, T:0.53
Consensus pattern (22 bp):
TTTGCATGATTTATTAAATATT
Found at i:5302553 original size:14 final size:14
Alignment explanation
Indices: 5302534--5302627 Score: 55
Period size: 14 Copynumber: 7.2 Consensus size: 14
5302524 TTTTATTTTA
5302534 ATTAATTAAATAAT
1 ATTAATTAAATAAT
* *
5302548 ATTAATT-ATTCA-
1 ATTAATTAAATAAT
*
5302560 A-TAATTAATTAAT
1 ATTAATTAAATAAT
*
5302573 ATTACTT---TAAT
1 ATTAATTAAATAAT
5302584 A-TAATTAAATAAT
1 ATTAATTAAATAAT
5302597 ATTAA-TAGTAA-AAT
1 ATTAATTA--AATAAT
5302611 ATT-ATTAAATTAAT
1 ATTAATTAAA-TAAT
5302625 ATT
1 ATT
5302628 CAAATAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 24
0.68 0.05 0.26
Matches are distributed among these distances:
10 4 0.06
11 10 0.16
12 7 0.11
13 12 0.19
14 28 0.44
15 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (14 bp):
ATTAATTAAATAAT
Found at i:5302572 original size:25 final size:25
Alignment explanation
Indices: 5302528--5302602 Score: 93
Period size: 24 Copynumber: 3.1 Consensus size: 25
5302518 ATTATTTTTT
5302528 ATTTTAAT-TAATTAAATAATATTA
1 ATTTTAATATAATTAAATAATATTA
* *
5302552 ATTATTCA-ATAATTAATTAATATT-
1 ATT-TTAATATAATTAAATAATATTA
*
5302576 ACTTTAATATAATTAAATAATATTA
1 ATTTTAATATAATTAAATAATATTA
5302601 AT
1 AT
5302603 AGTAAAATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
23 3 0.07
24 20 0.49
25 18 0.44
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTTTAATATAATTAAATAATATTA
Found at i:5302614 original size:24 final size:24
Alignment explanation
Indices: 5302536--5302627 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 24
5302526 TTATTTTAAT
**
5302536 TAATTAAATAATATTAATTATTCAA
1 TAATTAAATAATATTAA-TATAAAA
* * * *
5302561 TAATTAATTAATATTACTTTAATA
1 TAATTAAATAATATTAATATAAAA
5302585 TAATTAAATAATATTAATAGTAAAA
1 TAATTAAATAATATTAATA-TAAAA
5302610 TATTATTAAATTAATATT
1 TA--ATTAAA-TAATATT
5302628 CAAATAATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
24 19 0.36
25 21 0.40
27 6 0.11
28 7 0.13
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (24 bp):
TAATTAAATAATATTAATATAAAA
Found at i:5302627 original size:11 final size:11
Alignment explanation
Indices: 5302538--5302643 Score: 55
Period size: 11 Copynumber: 9.6 Consensus size: 11
5302528 ATTTTAATTA
5302538 ATTAAA-TAAT
1 ATTAAATTAAT
5302548 ATTAATTATTCAAT
1 ATTAA--ATT-AAT
5302562 AATT-AATTAAT
1 -ATTAAATTAAT
**
5302573 ATTACTTTAAT
1 ATTAAATTAAT
5302584 A-T-AATTAA-
1 ATTAAATTAAT
5302592 A-TAATATTAAT
1 ATTAA-ATTAAT
* * *
5302603 AGTAAAATATT
1 ATTAAATTAAT
5302614 ATTAAATTAAT
1 ATTAAATTAAT
5302625 ATTCAAA-TAAT
1 ATT-AAATTAAT
5302636 ATTCAAAT
1 ATT-AAAT
5302644 ATTACTCTAT
Statistics
Matches: 75, Mismatches: 9, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
8 2 0.03
9 5 0.07
10 14 0.19
11 36 0.48
12 10 0.13
13 1 0.01
14 4 0.05
15 3 0.04
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (11 bp):
ATTAAATTAAT
Found at i:5302800 original size:16 final size:16
Alignment explanation
Indices: 5302779--5302841 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
5302769 CATTAAGTTC
5302779 ATATTAATATTTAATA
1 ATATTAATATTTAATA
* *
5302795 ATATTAA-AATAATATA
1 ATATTAATATTTA-ATA
*
5302811 ATATATAAT-TATTATTA
1 ATAT-TAATAT-TTAATA
5302828 A-ATTAATATTTAAT
1 ATATTAATATTTAAT
5302842 CTAAAAAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 11
0.68 0.11 0.21
Matches are distributed among these distances:
15 11 0.31
16 17 0.47
17 6 0.17
18 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATATTTAATA
Found at i:5302809 original size:27 final size:28
Alignment explanation
Indices: 5302779--5302837 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
5302769 CATTAAGTTC
*
5302779 ATATTAATATTTAA-TAATATTAAAATA
1 ATATTAATATATAATTAATATTAAAATA
* *
5302806 ATA-TAATATATAATTATTATTAAATTA
1 ATATTAATATATAATTAATATTAAAATA
5302833 ATATT
1 ATATT
5302838 TAATCTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 9 0.33
27 17 0.63
28 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
ATATTAATATATAATTAATATTAAAATA
Found at i:5302933 original size:27 final size:27
Alignment explanation
Indices: 5302901--5302952 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
5302891 TCACTAAATT
5302901 AAATATTTATGATGAA-AA-ATAATATTA
1 AAATA-TTATGAT-AATAATATAATATTA
5302928 AAATATTATGATAATAATATAATAT
1 AAATATTATGATAATAATATAATAT
5302953 ATTAAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 2 0.09
26 9 0.39
27 12 0.52
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (27 bp):
AAATATTATGATAATAATATAATATTA
Found at i:5303060 original size:22 final size:20
Alignment explanation
Indices: 5303028--5303067 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
5303018 TATTTAAATA
*
5303028 TTATTAAATTAATATATTTG
1 TTATTAAATTAAAATATTTG
5303048 TTATTAAATATTAAAATATT
1 TTATT-AA-ATTAAAATATT
5303068 ATTAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TTATTAAATTAAAATATTTG
Found at i:5303071 original size:18 final size:18
Alignment explanation
Indices: 5303005--5303074 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
5302995 TATTATTTGT
* *
5303005 AAATAATATTAAATATTT
1 AAATATTATTAAATATTA
*
5303023 AAATATTATTAAATTAATA
1 AAATATTATTAAA-TATTA
** *
5303042 TATTTGTTATTAAATATTA
1 -AAATATTATTAAATATTA
5303061 AAATATTATTAAAT
1 AAATATTATTAAAT
5303075 TAATATTTAA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
18 23 0.57
19 7 0.17
20 10 0.25
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (18 bp):
AAATATTATTAAATATTA
Found at i:5303081 original size:11 final size:11
Alignment explanation
Indices: 5303054--5303254 Score: 62
Period size: 11 Copynumber: 18.4 Consensus size: 11
5303044 TTTGTTATTA
5303054 AATATTAAAAT
1 AATATTAAAAT
* *
5303065 ATTATTAAATT
1 AATATTAAAAT
5303076 AATATT----T
1 AATATTAAAAT
* *
5303083 AAGATTGAAAT
1 AATATTAAAAT
*
5303094 AATATTTAAAT
1 AATATTAAAAT
5303105 AATAGTT-AAAT
1 AATA-TTAAAAT
*
5303116 AACATTTAAATAATT
1 AATA-TT-AA-AA-T
*
5303131 AATTTTTAAAAT
1 AA-TATTAAAAT
* *
5303143 ACTATTAAATT
1 AATATTAAAAT
* * *
5303154 AGTGTATAATAAA
1 AATAT-TAA-AAT
*
5303167 AAAATTAATAA-
1 AATATTAA-AAT
*
5303178 AATACTAAAAT
1 AATATTAAAAT
* *
5303189 ATTATTAAATT
1 AATATTAAAAT
5303200 AATATT----T
1 AATATTAAAAT
*
5303207 AATATTAATAT
1 AATATTAAAAT
* *
5303218 TATATGAAAAT
1 AATATTAAAAT
*
5303229 AGTATTAAAAT
1 AATATTAAAAT
*
5303240 AATAGTAAAAT
1 AATATTAAAAT
5303251 AATA
1 AATA
5303255 GCAAATCTTA
Statistics
Matches: 139, Mismatches: 34, Indels: 34
0.67 0.16 0.16
Matches are distributed among these distances:
7 13 0.09
10 2 0.01
11 96 0.69
12 13 0.09
13 6 0.04
14 4 0.03
15 5 0.04
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:5303286 original size:21 final size:20
Alignment explanation
Indices: 5303262--5303405 Score: 112
Period size: 21 Copynumber: 7.1 Consensus size: 20
5303252 ATAGCAAATC
*
5303262 TTATTAAAGTAATATTTAATG
1 TTATTAAA-TAATATTTAATA
** *
5303283 TTATTAGTTTAATATTAAATA
1 TTATTA-AATAATATTTAATA
*
5303304 TTGTT-AATAATA-TTAATA
1 TTATTAAATAATATTTAATA
* * *
5303322 TTATTCAATAATTTTTAAAA
1 TTATTAAATAATATTTAATA
* *
5303342 TTTTTAAATAATATCTAATA
1 TTATTAAATAATATTTAATA
* *
5303362 ATATCAAATTAATATTTAATA
1 TTATTAAA-TAATATTTAATA
* *
5303383 TTATTAAGTTAACATTTAATA
1 TTATTAA-ATAATATTTAATA
5303404 TT
1 TT
5303406 GTGGAATTAA
Statistics
Matches: 94, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
18 9 0.10
19 11 0.12
20 25 0.27
21 49 0.52
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
TTATTAAATAATATTTAATA
Found at i:5303316 original size:19 final size:20
Alignment explanation
Indices: 5303206--5303389 Score: 90
Period size: 21 Copynumber: 8.9 Consensus size: 20
5303196 AATTAATATT
5303206 TAATATT-AATATTATATGAAAA
1 TAATATTAAATATTAT-T--AAA
* * *
5303228 TAGTATTAAAATAATAGTAAAA
1 TAATATT-AAATATTA-TTAAA
** *
5303250 TAATAGCAAATCTTATTAAA
1 TAATATTAAATATTATTAAA
* * **
5303270 GTAATATTTAATGTTATTAGTT
1 -TAATATTAAATATTATTA-AA
*
5303292 TAATATTAAATATTGTT-AA
1 TAATATTAAATATTATTAAA
*
5303311 TAATATT-AATATTATTCAA
1 TAATATTAAATATTATTAAA
* *
5303330 TAATTTTTAAA-ATTTTTAAA
1 TAA-TATTAAATATTATTAAA
* *
5303350 TAATATCT-AATAATATCAAA
1 TAATAT-TAAATATTATTAAA
*
5303370 TTAATATTTAATATTATTAA
1 -TAATATTAAATATTATTAA
5303390 GTTAACATTT
Statistics
Matches: 120, Mismatches: 30, Indels: 25
0.69 0.17 0.14
Matches are distributed among these distances:
18 8 0.07
19 16 0.13
20 25 0.21
21 51 0.43
22 13 0.11
24 6 0.05
25 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (20 bp):
TAATATTAAATATTATTAAA
Found at i:5303415 original size:21 final size:20
Alignment explanation
Indices: 5303368--5303415 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
5303358 AATAATATCA
* *
5303368 AATTAATATTTAATATTATT
1 AATTAACATTTAATATTATG
*
5303388 AAGTTAACATTTAATATTGTGG
1 AA-TTAACATTTAATATTAT-G
5303410 AATTAA
1 AATTAA
5303416 TATTGTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.09
21 19 0.83
22 2 0.09
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (20 bp):
AATTAACATTTAATATTATG
Found at i:5305788 original size:85 final size:86
Alignment explanation
Indices: 5305687--5305844 Score: 232
Period size: 85 Copynumber: 1.8 Consensus size: 86
5305677 GATACAATTT
*
5305687 AAACATTTCAAAAATGAATTTTTAAAAATTATTGAAGG-TTTTCCA-AAATGAATGA-CCAGAAT
1 AAACATTTCAAAAATGAATTTTCAAAAATTATTGAAGGCTTTT-CAGAAATGAAT-ATCCAGAAT
5305749 CATTTAAGAATTTTCAAAACTTC
64 CATTTAAGAATTTTCAAAACTTC
** * *
5305772 AAACATTTTGAAAATGAATTTTCAAAAATTATTGAAGGCTTTTCAGAAATGGATATCCAGAATCG
1 AAACATTTCAAAAATGAATTTTCAAAAATTATTGAAGGCTTTTCAGAAATGAATATCCAGAATCA
5305837 TTTAAGAA
66 TTTAAGAA
5305845 CTTCTAGAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
85 38 0.58
86 27 0.42
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.34
Consensus pattern (86 bp):
AAACATTTCAAAAATGAATTTTCAAAAATTATTGAAGGCTTTTCAGAAATGAATATCCAGAATCA
TTTAAGAATTTTCAAAACTTC
Found at i:5306705 original size:33 final size:34
Alignment explanation
Indices: 5306663--5306727 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
5306653 TGCTTTCTAA
*
5306663 AAATGTATTTTTAGTACAATGAAGAAGTTTTTGG
1 AAATGTATTTTCAGTACAATGAAGAAGTTTTTGG
* *
5306697 AAAT-TATTTTCATTACAGTGAAGAAGTTTTT
1 AAATGTATTTTCAGTACAATGAAGAAGTTTTT
5306728 AAAAATGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (34 bp):
AAATGTATTTTCAGTACAATGAAGAAGTTTTTGG
Found at i:5307376 original size:410 final size:412
Alignment explanation
Indices: 5306729--5307652 Score: 1056
Period size: 411 Copynumber: 2.3 Consensus size: 412
5306719 GAAGTTTTTA
* **
5306729 AAAATGAATTTCCGGTAACTTTTGTTCAATTACGAAAATCAATTTCTAGTGAATAATT--TTTTT
1 AAAATGAATTTCCAGTAACTTTTGTTCAATTACGAAAATCAATTTCCGGTGAATAATTGCTTTTT
** *
5306792 TT-AAATGAATTTTCAAAACTTACTAGAGAAGAGGAAAGACATGTGAAGGGCAAAAAGGTAATTG
66 TTAAAATGAATTTTCAAAACTTACTAGAGAAGAAAAAAGACATATGAAGGGCAAAAAGGTAATTG
* *
5306856 ATTAATGAGTATTTAAGCAATTTCATTAAAAGTCAATTTTTTTGTGTATTGAAACTTTTTTGGGG
131 ACTAATGAGTATTTAAGCAATTTCATTAAAAGTCAATTTTTTGGTGTATTGAAAC-TTTTTGGGG
* * * * *
5306921 TTTAATTAGAAGCACTTATCTAACACTTTTATTTAAGAAATGATATGAAATCTACCTTTTCATAC
195 TTTAATTAAAAGCACTCATCTAACACTTTTATTTAACAAATGATATGAAATCCACCTTCTCATAC
* * *
5306986 CTAATGCAACAAAGAAACCAAAATAAAATATTACTTCTAG-AAATGCATTTC-GAATAATTATAA
260 CTAATACAACAAAGAAACCAAAATAAAAAATTACTTC-AGAAAATGCATTTCTAAATAATTATAA
* * * * * * * * *
5307049 TGC-TTTTCACATATGCAT-TTCAAGTATAGTGAAAAAGTTTTCGAAAATGAATTTCCT-ATACA
324 TACTTTTTCA-AAATACATCTTCAA-TACAATCAAAAAGTTTTCAAAAATAAATTT-ATGATACA
* **
5307111 TTGAAAAAGTTATTGATGAAGCCTCTG
386 TTGAAAAAGTTATTAAAAAAGCCTCTG
* * *
5307138 AAAATGAATTTCTAGTAACTTTTGTTTAATT-TGAAAATCAATTTCCGGTGAATAATTGCTTTTT
1 AAAATGAATTTCCAGTAACTTTTGTTCAATTACGAAAATCAATTTCCGGTGAATAATTGCTTTTT
* ** * *
5307202 TTAAAATGAATTTTCAAAATTTACTA-AGAA-AAAAAAGGGATATTAA-GG-ATAAAATGTAATT
66 TTAAAATGAATTTTCAAAACTTACTAGAGAAGAAAAAAGACATATGAAGGGCA-AAAAGGTAATT
* * *
5307263 GACTAATG-GATATTTAAGTAATTTCATTAAAGGTTAATTTTTTGGGGTGTATTGAGAA-TTTTT
130 GACTAATGAG-TATTTAAGCAATTTCATTAAAAGTCAATTTTTT--GGTGTATTGA-AACTTTTT
*
5307326 GGGGCTTTAATTAAAAGCACTCATTTAACACTTTTATTTAACAAATGATATGAAATCCACCTTCT
191 GGGG-TTTAATTAAAAGCACTCATCTAACACTTTTATTTAACAAATGATATGAAATCCACCTTCT
* * ** * *
5307391 CGTACCTAATATAACAAAGAAATTAAAGTAAAAAATTACTTCCGAAAATGCATTTCTAAATAATT
255 CATACCTAATACAACAAAGAAACCAAAATAAAAAATTACTTCAGAAAATGCATTTCTAAATAATT
* ** *
5307456 ATAATACTTTTTGAAAATACATCTTTGATACAATCAAAAAGTTTTCAAAAATAAATTTATGGTAC
320 ATAATACTTTTTCAAAATACATCTTCAATACAATCAAAAAGTTTTCAAAAATAAATTTATGATAC
**
5307521 ATTGAAAAAGTTATTAAAAAAGTTTCTG
385 ATTGAAAAAGTTATTAAAAAAGCCTCTG
* * * * *
5307549 GAAATAAATTTCCAATAACTTTTGTTCAATTCCAAAAATCAATTT-CGGATGAATAATTGCTTTT
1 AAAATGAATTTCCAGTAACTTTTGTTCAATTACGAAAATCAATTTCCGG-TGAATAATTGCTTTT
** *
5307613 TCCAAAAATGAATTTT-AGAAACTCACT-GAGAAGAAAAAAG
65 T-TTAAAATGAATTTTCA-AAACTTACTAGAGAAGAAAAAAG
5307653 TGGTGGATAT
Statistics
Matches: 432, Mismatches: 63, Indels: 35
0.82 0.12 0.07
Matches are distributed among these distances:
407 2 0.00
408 72 0.17
409 48 0.11
410 121 0.28
411 123 0.28
412 36 0.08
413 23 0.05
414 7 0.02
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (412 bp):
AAAATGAATTTCCAGTAACTTTTGTTCAATTACGAAAATCAATTTCCGGTGAATAATTGCTTTTT
TTAAAATGAATTTTCAAAACTTACTAGAGAAGAAAAAAGACATATGAAGGGCAAAAAGGTAATTG
ACTAATGAGTATTTAAGCAATTTCATTAAAAGTCAATTTTTTGGTGTATTGAAACTTTTTGGGGT
TTAATTAAAAGCACTCATCTAACACTTTTATTTAACAAATGATATGAAATCCACCTTCTCATACC
TAATACAACAAAGAAACCAAAATAAAAAATTACTTCAGAAAATGCATTTCTAAATAATTATAATA
CTTTTTCAAAATACATCTTCAATACAATCAAAAAGTTTTCAAAAATAAATTTATGATACATTGAA
AAAGTTATTAAAAAAGCCTCTG
Found at i:5315693 original size:26 final size:26
Alignment explanation
Indices: 5315640--5315694 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
5315630 TAAAGGTTGA
* *
5315640 TTTTAAAGTTTGGGGTTGGTTCGAGG
1 TTTTAAAGTTTGGGGTAGGTTAGAGG
*
5315666 TTTTAGAGTTTGGGGTAGGTTTAG-GG
1 TTTTAAAGTTTGGGGTAGG-TTAGAGG
5315692 TTT
1 TTT
5315695 AGGTTAGGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.15, C:0.02, G:0.38, T:0.45
Consensus pattern (26 bp):
TTTTAAAGTTTGGGGTAGGTTAGAGG
Found at i:5315703 original size:12 final size:13
Alignment explanation
Indices: 5315681--5315892 Score: 89
Period size: 12 Copynumber: 17.1 Consensus size: 13
5315671 GAGTTTGGGG
5315681 TAGGTTTAGGGTT
1 TAGGTTTAGGGTT
5315694 TAGG-TTAGGGTT
1 TAGGTTTAGGGTT
* * * *
5315706 TGGGGTCA-AGTT
1 TAGGTTTAGGGTT
* *
5315718 TAAAGTTT--GGAT
1 T-AGGTTTAGGGTT
* *
5315730 T-GGTTTGGGGTC
1 TAGGTTTAGGGTT
*
5315742 TAGG-TTAGAGTT
1 TAGGTTTAGGGTT
5315754 TAGGGTTT-GGGTT
1 TA-GGTTTAGGGTT
*
5315767 TGGGTTTAGGGTT
1 TAGGTTTAGGGTT
5315780 T-GGTTTAGGGTT
1 TAGGTTTAGGGTT
5315792 T--G----GGGTT
1 TAGGTTTAGGGTT
* *
5315799 TAAGG-TTAAGGTA
1 T-AGGTTTAGGGTT
*
5315812 TAGGTTTAGGATT
1 TAGGTTTAGGGTT
*
5315825 TAGGATTTAAGGTT
1 TAGG-TTTAGGGTT
*
5315839 AAGGTTTAGGGTT
1 TAGGTTTAGGGTT
5315852 TCATGTGTTTAGGGTT
1 T-A-G-GTTTAGGGTT
5315868 TA-GTTT-GGGTT
1 TAGGTTTAGGGTT
* *
5315879 TTGGTTTATGGTT
1 TAGGTTTAGGGTT
5315892 T
1 T
5315893 CATGGGTGGT
Statistics
Matches: 149, Mismatches: 29, Indels: 42
0.68 0.13 0.19
Matches are distributed among these distances:
7 6 0.04
10 5 0.03
11 7 0.05
12 56 0.38
13 49 0.33
14 13 0.09
15 2 0.01
16 11 0.07
ACGTcount: A:0.17, C:0.01, G:0.37, T:0.45
Consensus pattern (13 bp):
TAGGTTTAGGGTT
Found at i:5315761 original size:7 final size:7
Alignment explanation
Indices: 5315746--5315927 Score: 98
Period size: 7 Copynumber: 26.3 Consensus size: 7
5315736 GGGGTCTAGG
*
5315746 TTAGAGT
1 TTAGGGT
5315753 TTAGGGT
1 TTAGGGT
5315760 TT-GGGT
1 TTAGGGT
5315766 TT-GGGT
1 TTAGGGT
5315772 TTAGGGT
1 TTAGGGT
5315779 TT--GGT
1 TTAGGGT
5315784 TTAGGGT
1 TTAGGGT
*
5315791 TTGGGGT
1 TTAGGGT
*
5315798 TTAAGG-
1 TTAGGGT
*
5315804 TTAAGGT
1 TTAGGGT
*
5315811 ATA-GGT
1 TTAGGGT
*
5315817 TTAGGAT
1 TTAGGGT
*
5315824 TTAGGAT
1 TTAGGGT
*
5315831 TTAAGG-
1 TTAGGGT
*
5315837 TTAAGGT
1 TTAGGGT
5315844 TTAGGGT
1 TTAGGGT
*
5315851 TTCATGTGT
1 TT-A-GGGT
5315860 TTAGGGT
1 TTAGGGT
5315867 TTA--GT
1 TTAGGGT
5315872 TT-GGGT
1 TTAGGGT
*
5315878 TT-TGGT
1 TTAGGGT
*
5315884 TTATGGT
1 TTAGGGT
5315891 TTCATGGGTGGT
1 TT-A---G-GGT
5315903 TTAGGGT
1 TTAGGGT
5315910 TTGAAGGGT
1 TT--AGGGT
5315919 TTAGGGT
1 TTAGGGT
5315926 TT
1 TT
5315928 CATGGGTTAG
Statistics
Matches: 143, Mismatches: 14, Indels: 36
0.74 0.07 0.19
Matches are distributed among these distances:
5 9 0.06
6 38 0.27
7 74 0.52
8 4 0.03
9 12 0.08
11 1 0.01
12 5 0.03
ACGTcount: A:0.16, C:0.01, G:0.37, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:5315767 original size:6 final size:6
Alignment explanation
Indices: 5315751--5315795 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
5315741 CTAGGTTAGA
5315751 GTTTAGG GTTTGG GTTTGG GTTTAGG GTTT-G GTTTAGG GTTTGG G
1 GTTT-GG GTTTGG GTTTGG GTTT-GG GTTTGG GTTT-GG GTTTGG G
5315796 GTTTAAGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.14
6 15 0.43
7 15 0.43
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.47
Consensus pattern (6 bp):
GTTTGG
Found at i:5315779 original size:19 final size:19
Alignment explanation
Indices: 5315746--5315911 Score: 78
Period size: 19 Copynumber: 8.5 Consensus size: 19
5315736 GGGGTCTAGG
*
5315746 TTAGAGTTTAGGGTTTGGGT
1 TTAGGGTTTAGGGTTT-GGT
5315766 TT-GGGTTTAGGGTTTGGT
1 TTAGGGTTTAGGGTTTGGT
*
5315784 TTAGGGTTTGGGGTTTAAGG-
1 TTAGGGTTTAGGGTTT--GGT
* *
5315804 TTAAGGTATA-GGTTTAGGAT
1 TTAGGGTTTAGGGTTT-GG-T
* * *
5315824 TTAGGATTTAAGGTTAAGGT
1 TTAGGGTTTAGGGTT-TGGT
*
5315844 TTAGGGTTTCATGTGTTTAGGGT
1 TTAGGGTTT-A-GGGTTT--GGT
5315867 TTA--GTTT-GGGTTTTGGT
1 TTAGGGTTTAGGG-TTTGGT
*
5315884 TTATGGTTTCATGGG--TGGT
1 TTAGGGTTT-A-GGGTTTGGT
5315903 TTAGGGTTT
1 TTAGGGTTT
5315912 GAAGGGTTTA
Statistics
Matches: 114, Mismatches: 15, Indels: 35
0.70 0.09 0.21
Matches are distributed among these distances:
17 6 0.05
18 10 0.09
19 48 0.42
20 25 0.22
21 13 0.11
22 6 0.05
23 6 0.05
ACGTcount: A:0.16, C:0.01, G:0.37, T:0.46
Consensus pattern (19 bp):
TTAGGGTTTAGGGTTTGGT
Found at i:5315834 original size:33 final size:33
Alignment explanation
Indices: 5315781--5315848 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
5315771 TTTAGGGTTT
* * *
5315781 GGTTTAGGGTTTGGGGTTTAAGGTTAAGGTATA
1 GGTTTAGGATTTAGGATTTAAGGTTAAGGTATA
*
5315814 GGTTTAGGATTTAGGATTTAAGGTTAAGGTTTA
1 GGTTTAGGATTTAGGATTTAAGGTTAAGGTATA
5315847 GG
1 GG
5315849 GTTTCATGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.40
Consensus pattern (33 bp):
GGTTTAGGATTTAGGATTTAAGGTTAAGGTATA
Found at i:5315863 original size:16 final size:15
Alignment explanation
Indices: 5315841--5315938 Score: 64
Period size: 16 Copynumber: 6.5 Consensus size: 15
5315831 TTAAGGTTAA
5315841 GGTTTAGGGTTTCAT
1 GGTTTAGGGTTTCAT
5315856 GTGTTTAGGGTTT-A-
1 G-GTTTAGGGTTTCAT
5315870 -GTTT-GGGTTT--T
1 GGTTTAGGGTTTCAT
*
5315881 GGTTTATGGTTTCATGGGT
1 GGTTTAGGGTTTCA----T
* *
5315900 GGTTTAGGGTTTGAAG
1 GGTTTAGGGTTT-CAT
5315916 GGTTTAGGGTTTCAT
1 GGTTTAGGGTTTCAT
*
5315931 GGGTTAGG
1 GGTTTAGG
5315939 AATTTAAGGT
Statistics
Matches: 65, Mismatches: 7, Indels: 22
0.69 0.07 0.23
Matches are distributed among these distances:
11 6 0.09
12 8 0.12
13 5 0.08
15 10 0.15
16 23 0.35
19 12 0.18
20 1 0.02
ACGTcount: A:0.12, C:0.03, G:0.39, T:0.46
Consensus pattern (15 bp):
GGTTTAGGGTTTCAT
Found at i:5316047 original size:49 final size:49
Alignment explanation
Indices: 5315987--5316132 Score: 220
Period size: 49 Copynumber: 3.0 Consensus size: 49
5315977 TGTGATAGAA
* * * *
5315987 ACAAATTACAAAGATGTCATTGGTAAAAATGTAAATGTTGATGCATGTG
1 ACAAATAACAAAAATGCCATTGGTAAAAATGTAAATATTGATGCATGTG
*
5316036 ACAAATAACAAAAATGCCATTGGCAAAAATGTAAATATTGATGCATGTG
1 ACAAATAACAAAAATGCCATTGGTAAAAATGTAAATATTGATGCATGTG
* *
5316085 ACAGATAACAAAAATGCCATTGGTAAAAATTGTAAATATTAATGCATG
1 ACAAATAACAAAAATGCCATTGGTAAAAA-TGTAAATATTGATGCATG
5316133 ACTAAGGAAC
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 71 0.81
50 17 0.19
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.27
Consensus pattern (49 bp):
ACAAATAACAAAAATGCCATTGGTAAAAATGTAAATATTGATGCATGTG
Found at i:5317591 original size:30 final size:29
Alignment explanation
Indices: 5317548--5317605 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
5317538 TTTGTCATTT
5317548 TTGACCAATTTGACCAAGTTTGACTTTGC
1 TTGACCAATTTGACCAAGTTTGACTTTGC
*
5317577 TTGACCAGATTTGACTAAGTTTGACTTTG
1 TTGACCA-ATTTGACCAAGTTTGACTTTG
5317606 GGGCATTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (29 bp):
TTGACCAATTTGACCAAGTTTGACTTTGC
Found at i:5317600 original size:20 final size:20
Alignment explanation
Indices: 5317547--5317601 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
5317537 TTTTGTCATT
*
5317547 TTTGACCAA-TTTGACCAAG
1 TTTGACTAAGTTTGACCAAG
** *
5317566 TTTGACTTTGCTTGACC-AG
1 TTTGACTAAGTTTGACCAAG
5317585 ATTTGACTAAGTTTGAC
1 -TTTGACTAAGTTTGAC
5317602 TTTGGGGCAT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (20 bp):
TTTGACTAAGTTTGACCAAG
Found at i:5334799 original size:26 final size:27
Alignment explanation
Indices: 5334770--5334826 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
5334760 TTTATTGATT
*
5334770 TTTTTTTTCAATTACAGTTATAAT-AC
1 TTTTTTTTCAATTACAATTATAATAAC
* *
5334796 TTTTTTTTCAGTTATAATTATAATAAC
1 TTTTTTTTCAATTACAATTATAATAAC
5334823 TTTT
1 TTTT
5334827 ATTACTGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTTTTTTCAATTACAATTATAATAAC
Found at i:5334836 original size:27 final size:26
Alignment explanation
Indices: 5334787--5334837 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
5334777 TCAATTACAG
* *
5334787 TTATAATACTTTTTTTTCAGTTATAA
1 TTATAATACTTTTATTACAGTTATAA
*
5334813 TTATAATAACTTTTATTACTGTTAT
1 TTATAAT-ACTTTTATTACAGTTAT
5334838 CATCTCACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (26 bp):
TTATAATACTTTTATTACAGTTATAA
Found at i:5335290 original size:21 final size:22
Alignment explanation
Indices: 5335264--5335307 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
5335254 AAGATTTTTT
5335264 TAAAAAATCAT-AATTTTAAAA
1 TAAAAAATCATAAATTTTAAAA
* *
5335285 TAAAAAATTATAAATTTTTAAA
1 TAAAAAATCATAAATTTTAAAA
5335307 T
1 T
5335308 TTTAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAAAAATCATAAATTTTAAAA
Found at i:5335307 original size:15 final size:16
Alignment explanation
Indices: 5335289--5335323 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
5335279 TTAAAATAAA
5335289 AAATTATAAATTT-TT
1 AAATTATAAATTTATT
*
5335304 AAATTTTAAATTTATT
1 AAATTATAAATTTATT
5335320 AAAT
1 AAAT
5335324 ACCACTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AAATTATAAATTTATT
Found at i:5344057 original size:23 final size:23
Alignment explanation
Indices: 5344029--5344078 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
5344019 AAAAAAATTC
* *
5344029 AAAAT-AAATTATATATTTTTAAT
1 AAAATAAAATAAT-TATTTTAAAT
5344052 AAAATAAAATAATTATTTTAAAT
1 AAAATAAAATAATTATTTTAAAT
5344075 AAAA
1 AAAA
5344079 ACTTATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATAAAATAATTATTTTAAAT
Found at i:5344089 original size:16 final size:18
Alignment explanation
Indices: 5344053--5344091 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
5344043 ATTTTTAATA
5344053 AAATAAAATAATTATTTT
1 AAATAAAATAATTATTTT
*
5344071 AAATAAAA-ACTTA-TTT
1 AAATAAAATAATTATTTT
5344087 AAATA
1 AAATA
5344092 TATTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 4 0.20
18 8 0.40
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATAAAATAATTATTTT
Found at i:5350721 original size:22 final size:23
Alignment explanation
Indices: 5350696--5350740 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5350686 AAAAATTTTT
5350696 TGTAT-AATTTTAAATTAAGATA
1 TGTATGAATTTTAAATTAAGATA
**
5350718 TGTATGTGTTTTAAATTAAGATA
1 TGTATGAATTTTAAATTAAGATA
5350741 AGATATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (23 bp):
TGTATGAATTTTAAATTAAGATA
Found at i:5360956 original size:18 final size:18
Alignment explanation
Indices: 5360935--5360972 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
5360925 ATGGGCCGGT
5360935 CTTGGGGGAAGGA-TTGGG
1 CTTGGGGG-AGGATTTGGG
*
5360953 CTTGGTGGAGGATTTGGG
1 CTTGGGGGAGGATTTGGG
5360971 CT
1 CT
5360973 CAGCGGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.13, C:0.08, G:0.50, T:0.29
Consensus pattern (18 bp):
CTTGGGGGAGGATTTGGG
Found at i:5361508 original size:29 final size:29
Alignment explanation
Indices: 5361475--5361539 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
5361465 TAAATAAATA
5361475 AATTTTGATTA-CAATATTTTAAAAA-TTAT
1 AATTTTGATTATC-A-ATTTTAAAAATTTAT
* *
5361504 TATTTAGATTATTCAATTTTAAAAATTTAT
1 AATTTTGATTA-TCAATTTTAAAAATTTAT
5361534 AATTTT
1 AATTTT
5361540 ATCATTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
29 19 0.66
30 9 0.31
31 1 0.03
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (29 bp):
AATTTTGATTATCAATTTTAAAAATTTAT
Found at i:5365563 original size:25 final size:26
Alignment explanation
Indices: 5365535--5365583 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
5365525 TTGTCGGTCA
5365535 TTTCTT-CATGTTTTGT-ATTTTTTGT
1 TTTCTTGCAT-TTTTGTCATTTTTTGT
*
5365560 TTTCTTGCATTTTTTTCATTTTTT
1 TTTCTTGCATTTTTGTCATTTTTT
5365584 AAATTAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.08, C:0.10, G:0.08, T:0.73
Consensus pattern (26 bp):
TTTCTTGCATTTTTGTCATTTTTTGT
Found at i:5365644 original size:14 final size:16
Alignment explanation
Indices: 5365598--5365639 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
5365588 TAATTCAATA
*
5365598 AATAAAAAGATAAGAAC
1 AATAAAAACATAA-AAC
5365615 AATAACAAACATAAAAC
1 AATAA-AAACATAAAAC
5365632 AATAAAAA
1 AATAAAAA
5365640 TAAAATTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 13 0.57
18 7 0.30
ACGTcount: A:0.74, C:0.10, G:0.05, T:0.12
Consensus pattern (16 bp):
AATAAAAACATAAAAC
Found at i:5366751 original size:17 final size:17
Alignment explanation
Indices: 5366717--5366753 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
5366707 TTCTTTTTTC
*
5366717 TTTTATTTTTTCTGTTT
1 TTTTATTTTTTCTATTT
*
5366734 TTTTATTTTTTGTATTT
1 TTTTATTTTTTCTATTT
5366751 TTT
1 TTT
5366754 CTTCCTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.08, C:0.03, G:0.05, T:0.84
Consensus pattern (17 bp):
TTTTATTTTTTCTATTT
Found at i:5373839 original size:2 final size:2
Alignment explanation
Indices: 5373832--5373891 Score: 57
Period size: 2 Copynumber: 30.0 Consensus size: 2
5373822 GGAACAGGAA
* * ** *
5373832 AT AT AT AT AT AT AT AT AT AT AC AT AA AT GC AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
5373874 AT AT AT AT TT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT
5373892 GTAGAGAGAC
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5377603 original size:22 final size:24
Alignment explanation
Indices: 5377572--5377628 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 24
5377562 TATTAATATT
* *
5377572 TTTATTATTTATCTGTTT-TTTTA
1 TTTATCATTTATCTATTTCTTTTA
5377595 -TTATCATTTATCTATTTCTTTTA
1 TTTATCATTTATCTATTTCTTTTA
5377618 TTTATCTATTT
1 TTTATC-ATTT
5377629 TTTTTTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 15 0.52
23 5 0.17
24 5 0.17
25 4 0.14
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTATCATTTATCTATTTCTTTTA
Found at i:5377633 original size:17 final size:17
Alignment explanation
Indices: 5377568--5377633 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
5377558 TATCTATTAA
*
5377568 TATTTTTATTATTTATC
1 TATTTTTTTTATTTATC
*
5377585 TGTTTTTTTATTATCATTTATC
1 --TATTTTT-TT-T-ATTTATC
*
5377607 TATTTCTTTTATTTATC
1 TATTTTTTTTATTTATC
5377624 TATTTTTTTT
1 TATTTTTTTT
5377634 TGTTTGTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
17 16 0.41
18 1 0.03
19 8 0.21
20 6 0.15
21 1 0.03
22 7 0.18
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.73
Consensus pattern (17 bp):
TATTTTTTTTATTTATC
Found at i:5378007 original size:8 final size:7
Alignment explanation
Indices: 5377979--5378084 Score: 62
Period size: 7 Copynumber: 15.1 Consensus size: 7
5377969 TTTCGTTTTT
5377979 TTTATTA
1 TTTATTA
5377986 TTTATTTA
1 TTTA-TTA
5377994 TTTATTA
1 TTTATTA
5378001 TTATATTA
1 TT-TATTA
* *
5378009 -TGATTG
1 TTTATTA
*
5378015 TTTAATA
1 TTTATTA
5378022 TTT-TTA
1 TTTATTA
**
5378028 TTT-TCG
1 TTTATTA
*
5378034 TTTTTCTA
1 TTTAT-TA
5378042 TTT-TTAA
1 TTTATT-A
5378049 TTTTATT-
1 -TTTATTA
5378056 TTTATTA
1 TTTATTA
5378063 TTTATTTA
1 TTTA-TTA
5378071 TTTATTA
1 TTTATTA
5378078 -TTATTA
1 TTTATTA
5378084 T
1 T
5378085 ATTAGGATTG
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
6 25 0.32
7 26 0.33
8 25 0.32
9 2 0.03
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.71
Consensus pattern (7 bp):
TTTATTA
Found at i:5378018 original size:21 final size:19
Alignment explanation
Indices: 5377977--5378087 Score: 65
Period size: 18 Copynumber: 5.8 Consensus size: 19
5377967 TTTTTCGTTT
5377977 TTTTTATTATT-TATTT-A
1 TTTTTATTATTATATTTGA
5377994 --TTTATTATTATATTATGA
1 TTTTTATTATTATATT-TGA
* * *
5378012 TTGTTTAATATTTTTATTTTCGT
1 TT-TTTATTA-TTATA-TTT-GA
* *
5378035 TTTTCTATTTTTA-ATTTTA
1 TTTT-TATTATTATATTTGA
5378054 TTTTTATTATT-TATTT-A
1 TTTTTATTATTATATTTGA
5378071 TTTATTATTATTATATT
1 TTT-TTATTATTATATT
5378088 AGGATTGTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 24
0.69 0.09 0.23
Matches are distributed among these distances:
15 9 0.12
16 4 0.06
17 5 0.07
18 19 0.26
19 8 0.11
20 3 0.04
21 7 0.10
22 9 0.12
23 8 0.11
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTATATTTGA
Done.