Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 34 of 125
Found at i:6638805 original size:21 final size:19
Alignment explanation
Indices: 6638738--6638818 Score: 65
Period size: 22 Copynumber: 3.9 Consensus size: 19
6638728 TTATTTAAAG
*
6638738 AAAATAAAATAATAAAAC-
1 AAAATAAAAAAATAAAACA
*
6638756 AAAATAAAAGTGAAAATAAAAAAA
1 AAAAT-AAA---AAAAT-AAAACA
6638780 TAAAATAAAGAAAAGTAAAACA
1 -AAAATAAA-AAAA-TAAAACA
6638802 AAAATAAAAAAATAAAA
1 AAAATAAAAAAATAAAA
6638819 TAAAGGTAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
18 5 0.10
19 8 0.15
20 4 0.08
21 8 0.15
22 14 0.27
23 5 0.10
24 3 0.06
25 5 0.10
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAATAAAAAAATAAAACA
Found at i:6638860 original size:4 final size:4
Alignment explanation
Indices: 6638853--6638898 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
6638843 AACCTAATCT
* *
6638853 AATA AATA AAAA AATA AAT- AATA AAT- AATA AATAA AATA AAAA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AAT-A AATA AATA AAT
6638899 TCAAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 6 0.17
4 25 0.71
5 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:6638877 original size:7 final size:7
Alignment explanation
Indices: 6638852--6638887 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
6638842 AAACCTAATC
6638852 TAATAAA
1 TAATAAA
6638859 TAA-AAA
1 TAATAAA
6638865 -AATAAA
1 TAATAAA
6638871 TAATAAA
1 TAATAAA
6638878 TAATAAA
1 TAATAAA
6638885 TAA
1 TAA
6638888 AATAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 2 0.07
6 6 0.22
7 19 0.70
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
TAATAAA
Found at i:6639975 original size:13 final size:11
Alignment explanation
Indices: 6639943--6640011 Score: 66
Period size: 13 Copynumber: 5.7 Consensus size: 11
6639933 TATATAAAAT
6639943 AATAATAATAAA
1 AATAA-AATAAA
6639955 AATAAAATAAA
1 AATAAAATAAA
6639966 AATGTAAAATACAA
1 AA--TAAAATA-AA
*
6639980 AAAAAAATAAA
1 AATAAAATAAA
*
6639991 TTAAAAAAATAAA
1 --AATAAAATAAA
6640004 AATAAAAT
1 AATAAAAT
6640012 GAAGAGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
11 17 0.34
12 11 0.22
13 18 0.36
14 4 0.08
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.20
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:6639978 original size:46 final size:46
Alignment explanation
Indices: 6639890--6640010 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 46
6639880 AAACTAAGAT
* * * *
6639890 AAAAAATAATAATAAT-AAAAGAAAAGAAAAATATATATATACATAT
1 AAAAAATAATAATAATAAAAATAAAATAAAAATATATAAATACA-AA
* *
6639936 ATAAAATAATAATAATAAAAATAAAATAAAAATGTA-AAATACAAA
1 AAAAAATAATAATAATAAAAATAAAATAAAAATATATAAATACAAA
*
6639981 AAAAAATAA-ATTAA-AAAAATAAAAATAAAA
1 AAAAAATAATAATAATAAAAAT-AAAATAAAA
6640011 TGAAGAGAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 6 0.09
44 13 0.20
45 9 0.14
46 21 0.32
47 16 0.25
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (46 bp):
AAAAAATAATAATAATAAAAATAAAATAAAAATATATAAATACAAA
Found at i:6639981 original size:7 final size:6
Alignment explanation
Indices: 6639943--6640010 Score: 61
Period size: 6 Copynumber: 11.2 Consensus size: 6
6639933 TATATAAAAT
* *
6639943 AATAAT AATAAA AAT-AA AATAAA AATGTAA AATACAA AA-AAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AAT-AAA AATA-AA AATAAA AATAAA
6639991 TTAA-AAA AATAAA AATAAA A
1 --AATAAA AATAAA AATAAA A
6640011 TGAAGAGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
5 11 0.21
6 27 0.52
7 12 0.23
8 2 0.04
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:6640273 original size:43 final size:43
Alignment explanation
Indices: 6640212--6640356 Score: 224
Period size: 42 Copynumber: 3.4 Consensus size: 43
6640202 TTTGATCAAA
*
6640212 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACAA-AAATG
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAA-AATAAATT
* *
6640255 GCTCCTTTAATCAGAGGCTCAACGACTTTG-GAAAAATAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAAAATAAATT
*
6640297 GCTCCTCTAAACAGAGGCTCAATGACTTTGA-AAAAATAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAAAATAAATT
6640339 GCTCCTCTAAACAGAGGC
1 GCTCCTCTAAACAGAGGC
6640357 ACAAATTGCT
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
41 2 0.02
42 64 0.68
43 28 0.30
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (43 bp):
GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAAAATAAATT
Found at i:6640362 original size:25 final size:25
Alignment explanation
Indices: 6640334--6640383 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
6640324 TTGAAAAAAT
6640334 AAATTGCTCCTCTAAACAGAGGCAC
1 AAATTGCTCCTCTAAACAGAGGCAC
* *
6640359 AAATTGCTCCTCTACATAGAGGCAC
1 AAATTGCTCCTCTAAACAGAGGCAC
6640384 CACGACTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (25 bp):
AAATTGCTCCTCTAAACAGAGGCAC
Found at i:6640419 original size:41 final size:41
Alignment explanation
Indices: 6640359--6640532 Score: 285
Period size: 41 Copynumber: 4.2 Consensus size: 41
6640349 ACAGAGGCAC
* *
6640359 AAATTGCTCCTCTACATAGAGGCACCACGACTTTGAAAAGT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGT
* *
6640400 AAATTGCTCCTCTAAATAGAGGCACCACGACTTTGAAAATT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGT
*
6640441 AAATTGCTCTTCTAAACAGAGGCACCACGACTTTGAAAAGT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGT
*
6640482 AAATTGCTCCTCTAAACAGAGGCACCGCGACTTTGAAAAAGT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGT
6640524 AAATTGCTC
1 AAATTGCTC
6640533 TTTGACAATC
Statistics
Matches: 125, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
41 110 0.88
42 15 0.12
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (41 bp):
AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGT
Found at i:6641557 original size:16 final size:16
Alignment explanation
Indices: 6641530--6641618 Score: 75
Period size: 15 Copynumber: 5.8 Consensus size: 16
6641520 TGAGTCTTCC
*
6641530 TTTTTCACTTTTTC-T
1 TTTTTCATTTTTTCAT
6641545 TTTTTCATTTTTTCAT
1 TTTTTCATTTTTTCAT
6641561 TTTTTCATTTCTTTCAT
1 TTTTTCATTT-TTTCAT
*
6641578 CATTTTT--TTTATT--T
1 --TTTTTCATTTTTTCAT
*
6641592 TTTTT-AATTTTT-AT
1 TTTTTCATTTTTTCAT
6641606 TTTTTCATTTTTT
1 TTTTTCATTTTTT
6641619 TAAGCATAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
12 5 0.08
13 4 0.06
14 7 0.11
15 19 0.31
16 13 0.21
17 9 0.15
19 5 0.08
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCATTTTTTCAT
Found at i:6641619 original size:9 final size:8
Alignment explanation
Indices: 6641530--6641618 Score: 75
Period size: 8 Copynumber: 11.6 Consensus size: 8
6641520 TGAGTCTTCC
*
6641530 TTTTTCAC
1 TTTTTCAT
6641538 TTTTTC-T
1 TTTTTCAT
6641545 TTTTTCAT
1 TTTTTCAT
6641553 TTTTTCAT
1 TTTTTCAT
6641561 TTTTTCAT
1 TTTTTCAT
6641569 TTCTTTCAT
1 TT-TTTCAT
6641578 CATTTTT--T
1 --TTTTTCAT
*
6641586 TTATT--T
1 TTTTTCAT
*
6641592 TTTTT-AA
1 TTTTTCAT
6641599 TTTTT-AT
1 TTTTTCAT
6641606 TTTTTCAT
1 TTTTTCAT
6641614 TTTTT
1 TTTTT
6641619 TAAGCATAGT
Statistics
Matches: 70, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
6 9 0.13
7 17 0.24
8 33 0.47
9 6 0.09
10 3 0.04
11 2 0.03
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTCAT
Found at i:6643069 original size:20 final size:20
Alignment explanation
Indices: 6643044--6643082 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6643034 CTCAATTGGC
*
6643044 TTATTTTCTTGTTCCATCAG
1 TTATTTTCTTGTTCAATCAG
6643064 TTATTTTCTTGTTCAATCA
1 TTATTTTCTTGTTCAATCA
6643083 TCCTCATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.56
Consensus pattern (20 bp):
TTATTTTCTTGTTCAATCAG
Found at i:6646983 original size:15 final size:16
Alignment explanation
Indices: 6646963--6646994 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
6646953 TGTTAAGTGT
6646963 AATGAATG-AAAATGC
1 AATGAATGAAAAATGC
6646978 AATGAATGAAAAATGC
1 AATGAATGAAAAATGC
6646994 A
1 A
6646995 TATATGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (16 bp):
AATGAATGAAAAATGC
Found at i:6650097 original size:6 final size:6
Alignment explanation
Indices: 6650086--6650119 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
6650076 TATTTAAAGA
6650086 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
6650120 AGAAGAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:6650257 original size:18 final size:16
Alignment explanation
Indices: 6650221--6650263 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
6650211 CTTTTTCTCA
*
6650221 AAAATTGATTTTTTTG
1 AAAATTGATTTTTTGG
6650237 AAAATTGATTTTTTAAGG
1 AAAATTGATTTTTT--GG
6650255 AAAATTGAT
1 AAAATTGAT
6650264 ACTTTCAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 14 0.58
18 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (16 bp):
AAAATTGATTTTTTGG
Found at i:6650443 original size:58 final size:58
Alignment explanation
Indices: 6650202--6650819 Score: 726
Period size: 58 Copynumber: 10.5 Consensus size: 58
6650192 AAACTTTAAT
* * *
6650202 TACTTTCAACTTTTTCTCAAAAATTGATTTTTTTGAAA-ATTGATTTTTTAAGGAAAATTGA
1 TACTTTCAACTTTTCCTCAAAAA-T-A-TTTTTTGAAACTTTGA-TTTTCAAGGAAAATTGA
* *
6650263 TACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAAATTT-ATTTTTTAAGGAAAATTGA
1 TACTTTCAACTTTTCCTCAAAAA-T-A-TTTTTTGAAACTTTGA-TTTTCAAGGAAAATTGA
* * *
6650324 TACTTTCAACTTTTCCCCAAAAATATTTTTTTTTCAAAATTTTGATTTTCAAGGAAAATTGA
1 TACTTTCAACTTTTCCTCAAAAATA---TTTTTT-GAAACTTTGATTTTCAAGGAAAATTGA
*
6650386 TACTTTCAACTTTTCCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAATTGA
1 TACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTGATTTTCAAGGAAAATTGA
* * *
6650444 TACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAA-TTTTATTTTTAAGG---A---A
1 TACTTTCAACTTTTCCTCAAAAATA---TTTTTTGAAACTTTGATTTTCAAGGAAAATTGA
* * *
6650498 -ACTTTCAACTTTTCCCCAAAAATATATTTTTTGGAAATTTTGATTTTCAAGGAAAATTCA
1 TACTTTCAACTTTTCCTC-AAAA-ATATTTTTT-GAAACTTTGATTTTCAAGGAAAATTGA
* * *
6650558 TACTTTCAACTTTTCTTCAAAAATATTTTTGGAAACTTTGATTTTCAAAGAAAATTGA
1 TACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTGATTTTCAAGGAAAATTGA
* *
6650616 TACTTTCAACTTTTCCTCAAAAACCT-TTTTTTGAAA-TTTTATTTTTAAGGAAAATTGA
1 TACTTTCAACTTTTCCTCAAAAA--TATTTTTTGAAACTTTGATTTTCAAGGAAAATTGA
* * *
6650674 TACTTTCAATTTTTCC-CTAAAAATATTTTTGGAAACTTTGATTTTCAAAGAAAATTGA
1 TACTTTCAACTTTTCCTC-AAAAATATTTTTTGAAACTTTGATTTTCAAGGAAAATTGA
6650732 TACTTTCAACTTTTTCCT-AAAAATATTTTTTGAAACTTTGATTTTCAAGGAAAATTGA
1 TACTTTCAAC-TTTTCCTCAAAAATATTTTTTGAAACTTTGATTTTCAAGGAAAATTGA
6650790 TACTTTCAACTTTTCC-CAAAAATATTTTTT
1 TACTTTCAACTTTTCCTCAAAAATATTTTTT
6650820 TTTATTTTTA
Statistics
Matches: 493, Mismatches: 37, Indels: 58
0.84 0.06 0.10
Matches are distributed among these distances:
52 6 0.01
53 20 0.04
54 17 0.03
55 2 0.00
56 1 0.00
57 31 0.06
58 210 0.43
59 29 0.06
60 19 0.04
61 109 0.22
62 48 0.10
63 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
TACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTGATTTTCAAGGAAAATTGA
Found at i:6650563 original size:54 final size:53
Alignment explanation
Indices: 6650448--6650563 Score: 144
Period size: 53 Copynumber: 2.2 Consensus size: 53
6650438 AATTGATACT
* * * * *
6650448 TTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAATTTTATTTTTAAGGAAACT
1 TTCAACTTTTCCCCAAAAAAACATTTTTTGGAAATTTTATTTTCAAGGAAACA
* *
6650501 TTCAACTTTTCCCCAAAAATATATTTTTTGGAAATTTTGATTTTCAAGGAAA-A
1 TTCAACTTTTCCCCAAAAAAACATTTTTTGGAAATTTT-ATTTTCAAGGAAACA
6650554 TTCATACTTT
1 TTCA-ACTTT
6650564 CAACTTTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 37 0.69
54 17 0.31
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.45
Consensus pattern (53 bp):
TTCAACTTTTCCCCAAAAAAACATTTTTTGGAAATTTTATTTTCAAGGAAACA
Found at i:6652007 original size:6 final size:6
Alignment explanation
Indices: 6651996--6652071 Score: 68
Period size: 6 Copynumber: 12.2 Consensus size: 6
6651986 TGTATAAAAT
*
6651996 AATAAA AATAAA AAT-AA AAT-AT AATAAA AATATAA AATACAAA AATAAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATA-AA AAT--AAA AAT-AAA
6652046 AATAAA TTAA-AAA AATAAA AATAAA A
1 AATAAA --AATAAA AATAAA AATAAA A
6652072 TGAAGAGAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
5 11 0.18
6 27 0.45
7 14 0.23
8 7 0.12
9 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.00, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:6652030 original size:38 final size:37
Alignment explanation
Indices: 6651943--6652069 Score: 122
Period size: 38 Copynumber: 3.5 Consensus size: 37
6651933 TAAATCTAAG
*
6651943 ATAAAAA-ATAATAATAATAAAAGA-AAAGAAAAATATA
1 ATAAAAATATAA-AATAATAAAA-ATAAAAAAAAATATA
* **
6651980 TATACATGTATAAAATAATAAAAATAAAAATAAAATATA
1 -ATAAAAATATAAAATAATAAAAATAAAAA-AAAATATA
*
6652019 ATAAAAATATAAAAT-ACAAAAATAAAAAATAAAT-TA
1 ATAAAAATATAAAATAATAAAAATAAAAAA-AAATATA
6652055 A-AAAAATA-AAAATAA
1 ATAAAAATATAAAATAA
6652070 AATGAAGAGA
Statistics
Matches: 76, Mismatches: 8, Indels: 13
0.78 0.08 0.13
Matches are distributed among these distances:
34 5 0.07
35 8 0.11
36 4 0.05
37 17 0.22
38 30 0.39
39 12 0.16
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (37 bp):
ATAAAAATATAAAATAATAAAAATAAAAAAAAATATA
Found at i:6652034 original size:13 final size:13
Alignment explanation
Indices: 6651996--6652072 Score: 60
Period size: 13 Copynumber: 6.2 Consensus size: 13
6651986 TGTATAAAAT
6651996 AATAAAAATA-AA
1 AATAAAAATATAA
6652008 AAT-AAAATAT--
1 AATAAAAATATAA
6652018 AATAAAAATATAA
1 AATAAAAATATAA
6652031 AATACAAAA-ATAA
1 AATA-AAAATATAA
6652044 AA-AATAAAT-TAA
1 AATAA-AAATATAA
* *
6652056 AAAAATAAAAATAA
1 AATAA-AAATATAA
6652070 AAT
1 AAT
6652073 GAAGAGAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
10 3 0.06
11 14 0.26
12 12 0.22
13 16 0.30
14 9 0.17
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAAAAATATAA
Found at i:6665565 original size:45 final size:45
Alignment explanation
Indices: 6665478--6665585 Score: 108
Period size: 45 Copynumber: 2.4 Consensus size: 45
6665468 CAAGGTCGTG
* * ** * *
6665478 ACCACCATTGGCACAAGCTAACCCTTGGTGTGGGCACTTGCCTCA
1 ACCACCATTGGCACAAGCCAACCCTTAGTGCAGACACATGCCTCA
* * *
6665523 ACCATCATTGGCACAAGCCAACCTTTAGTGCAGACACATGCCTCG
1 ACCACCATTGGCACAAGCCAACCCTTAGTGCAGACACATGCCTCA
* **
6665568 ACCTCCATCAGCACAAGC
1 ACCACCATTGGCACAAGC
6665586 TAGTGCTTGG
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.27, C:0.35, G:0.19, T:0.19
Consensus pattern (45 bp):
ACCACCATTGGCACAAGCCAACCCTTAGTGCAGACACATGCCTCA
Found at i:6680622 original size:45 final size:45
Alignment explanation
Indices: 6680557--6681050 Score: 285
Period size: 45 Copynumber: 11.0 Consensus size: 45
6680547 CCCGTGACAC
* * * *
6680557 GGGCACTTGCCTCGAACACCATCGGCACATGTTGGCCCTTAGTGT
1 GGGCACATGCCTCGACCACCATCGGCACATGCTGGCCCTTGGTGT
* * ** **
6680602 GGGCACATACCTCGACCACCATCAGCACAAACTGGCCCTTGGCAT
1 GGGCACATGCCTCGACCACCATCGGCACATGCTGGCCCTTGGTGT
* * * * * *
6680647 AGACACTTGCCTTGACCACCATCGACACATGCTGGCCCCTT-GTGC
1 GGGCACATGCCTCGACCACCATCGGCACATGCTGG-CCCTTGGTGT
* * * ** * * *
6680692 GGGTACTTGCCTCGAACACCATCAACACGA-GTTGACCCTTGGAGT
1 GGGCACATGCCTCGACCACCATCGGCAC-ATGCTGGCCCTTGGTGT
* * ** **
6680737 GGGCACATACCTCGACCACCATTGGCATGTGCTGGCCCTTGGCAT
1 GGGCACATGCCTCGACCACCATCGGCACATGCTGGCCCTTGGTGT
* * * * * * * * * **
6680782 GCGAAC-TTCTCTAGACCATCATCAGAACGTGCTGGCCCTTGTTAC
1 GGGCACATGC-CTCGACCACCATCGGCACATGCTGGCCCTTGGTGT
* * * *
6680827 GGGCACTTGCCTTGACCACCATCGGCACGTGTTGGCCCTTGGTGT
1 GGGCACATGCCTCGACCACCATCGGCACATGCTGGCCCTTGGTGT
* * * ** * * **
6680872 GGGCATAGGCCTCGACCACCATCGACACATGCAAGCCCCTAGTAC
1 GGGCACATGCCTCGACCACCATCGGCACATGCTGGCCCTTGGTGT
** * * *
6680917 GGGCACATGCCTCGACCACCATCAACACCTACTGGCCTTTGGTGT
1 GGGCACATGCCTCGACCACCATCGGCACATGCTGGCCCTTGGTGT
* * * * * * *
6680962 GAGCACTTACCTCGAACACCATCGACACATGCTAGCCCTTGGTGC
1 GGGCACATGCCTCGACCACCATCGGCACATGCTGGCCCTTGGTGT
* * * * *
6681007 AGGCACATACCGT-GACCACCATTGGCACATGTTGGCCCCTGGTG
1 GGGCACATGCC-TCGACCACCATCGGCACATGCTGGCCCTTGGTG
6681051 CAGGCATTTG
Statistics
Matches: 330, Mismatches: 112, Indels: 14
0.72 0.25 0.03
Matches are distributed among these distances:
44 7 0.02
45 314 0.95
46 9 0.03
ACGTcount: A:0.21, C:0.34, G:0.24, T:0.21
Consensus pattern (45 bp):
GGGCACATGCCTCGACCACCATCGGCACATGCTGGCCCTTGGTGT
Found at i:6680815 original size:135 final size:135
Alignment explanation
Indices: 6680555--6680894 Score: 393
Period size: 135 Copynumber: 2.5 Consensus size: 135
6680545 AGCCCGTGAC
*
6680555 ACGGGCACTTGCCTCGAACACCATCGGCAC-ATGTTGGCCCTTAGTGTGGGCACATACCTCGACC
1 ACGGGCACTTGCCTCGAACACCATCGGCACGA-GTTGGCCCTTGGTGTGGGCACATACCTCGACC
*
6680619 ACCATCAGCACAAACTGGCCCTTGGCATAGACACTTGCCTTGACCACCATCGACACATGCTGGCC
65 ACCATCAGCACAAACTGGCCCTTGGCATAGACACTTGCCTAGACCACCATCGACACATGCTGG-C
6680684 CCTTG-T
129 CCTTGTT
* * ** * *
6680690 GCGGGTACTTGCCTCGAACACCATCAACACGAGTTGACCCTTGGAGTGGGCACATACCTCGACCA
1 ACGGGCACTTGCCTCGAACACCATCGGCACGAGTTGGCCCTTGGTGTGGGCACATACCTCGACCA
** **** * * *
6680755 CCATTGGCATGTGCTGGCCCTTGGCATGCGA-ACTT-CTCTAGACCATCATCAGA-ACGTGCTGG
66 CCATCAGCACAAACTGGCCCTTGGCAT-AGACACTTGC-CTAGACCACCATC-GACACATGCTGG
6680817 CCCTTGTT
128 CCCTTGTT
* * * * **
6680825 ACGGGCACTTGCCTTGACCACCATCGGCACGTGTTGGCCCTTGGTGTGGGCATAGGCCTCGACCA
1 ACGGGCACTTGCCTCGAACACCATCGGCACGAGTTGGCCCTTGGTGTGGGCACATACCTCGACCA
6680890 CCATC
66 CCATC
6680895 GACACATGCA
Statistics
Matches: 170, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
134 7 0.04
135 158 0.93
136 5 0.03
ACGTcount: A:0.20, C:0.34, G:0.24, T:0.22
Consensus pattern (135 bp):
ACGGGCACTTGCCTCGAACACCATCGGCACGAGTTGGCCCTTGGTGTGGGCACATACCTCGACCA
CCATCAGCACAAACTGGCCCTTGGCATAGACACTTGCCTAGACCACCATCGACACATGCTGGCCC
TTGTT
Found at i:6682451 original size:14 final size:14
Alignment explanation
Indices: 6682432--6682469 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
6682422 TGGAGTTAAC
6682432 AGGCAAGGCCTTGG
1 AGGCAAGGCCTTGG
*
6682446 AGGCAAGGCTTTGG
1 AGGCAAGGCCTTGG
6682460 AGGCAAGGCC
1 AGGCAAGGCC
6682470 AGATCACCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.24, C:0.21, G:0.42, T:0.13
Consensus pattern (14 bp):
AGGCAAGGCCTTGG
Found at i:6692097 original size:16 final size:16
Alignment explanation
Indices: 6692055--6692097 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
6692045 ATATTTATAT
*
6692055 AATAATATTTTAAAAT
1 AATAATATTTTAAAAA
* *
6692071 ATTTATA-TTTAAAAA
1 AATAATATTTTAAAAA
6692086 AATAATATTTTA
1 AATAATATTTTA
6692098 TTATTTTCGG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATAATATTTTAAAAA
Found at i:6693658 original size:24 final size:24
Alignment explanation
Indices: 6693612--6693657 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
6693602 GTTTATTCAT
*
6693612 TTTTTATTTTATTCTCTAATTTTA
1 TTTTTATTTTATCCTCTAATTTTA
*
6693636 TTTTTATTTTA-CCTTTAATTTT
1 TTTTTATTTTATCCTCTAATTTT
6693658 TGTGTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTTATTTTATCCTCTAATTTTA
Found at i:6696093 original size:181 final size:180
Alignment explanation
Indices: 6695494--6697359 Score: 1192
Period size: 181 Copynumber: 10.5 Consensus size: 180
6695484 CAAGTAATTT
* * ** * * *
6695494 AAATAGTTAAGACTATATGAACAATTATCTATTTCAAATCATTATGACATTTTACTTTGTCAAAA
1 AAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTATTTTGTCATAA
* * * * ** *
6695559 AATAATTGTTT-TAGTTCATACAAGA-TTATTCGGAATAAAATAAAACTACCTTACTAATATTTC
66 AACAATTATTTCTA-TTCATACAA-ACTTATTCGAAATAAAATAATACTAATTTAATAATATTTC
* * *
6695622 AAAAATT-ATAAATAAAATATTTATAAAAT-AATTT-TTTAACTAAACTAGTTC
129 AAAAATTAAT-AATAAGAGATTTAAAAAATAAATTTGTTT-ACTAAACTAGTTC
* * * * * * * *
6695673 AAATAATTATA-ACTATTTGAAAAATTATTTATTTCAAATTGTTCTTACTTTTTGTTTTGTTATA
1 AAATAGTTA-AGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTATTTTGTCATA
* * * * * * * * *
6695737 AAACAATTATTTTTGTTCATA-TAAGTTTTTTGAAATAAAATAATAGTAAATT-ATTATATGTT-
65 AAACAATTATTTCTATTCATACAAACTTATTCGAAATAAAATAATACTAATTTAATAATAT-TTC
** * * * **
6695799 AAAAATTAATAAATAAGAGATTTATCAAGTAAAGTTGTTTACTAAACCAAATC
129 AAAAATTAAT-AATAAGAGATTTAAAAAATAAATTTGTTTACTAAACTAGTTC
* * * * * *
6695852 AAATAGTTTTA-ACTATTTGAATAATTATTTATTTCAAATCAG-TATAACATTTTGTTTTGTCAT
1 AAATAG-TTAAGACTATTTGAATAATTATCTATTTCAAAT-TGTTATGACCTTTTATTTTGTCAT
* * * *
6695915 AAAATAATTATTCCTATTCATACAAACTTATTCGTAATAAAATAATATTAATTTAATAATATTTC
64 AAAACAATTATTTCTATTCATACAAACTTATTCGAAATAAAATAATACTAATTTAATAATATTTC
* * * * * *
6695980 AAAACTTAATAACTAAGAGAATTAAAAAATAATTTTATTTGCTAAACTAGTTT
129 AAAAATTAATAA-TAAGAGATTTAAAAAATAAATTTGTTTACTAAACTAGTTC
* * *
6696033 AAATAGTTAAGACT-TTATGAATGATTATCCATTTAAAATTGTTATGACCTTTTATTTTGTCATA
1 AAATAGTTAAGACTATT-TGAATAATTATCTATTTCAAATTGTTATGACCTTTTATTTTGTCATA
* * * *
6696097 AAACAATTATTTCTATTCATACAAGCTTATTTGGATTAAAATAATACTAATTTAATAATATTTC-
65 AAACAATTATTTCTATTCATACAAACTTATTCGAAATAAAATAATACTAATTTAATAATATTTCA
* *
6696161 -AAA--AATAATAAGAGATTTAAAATATAAATTTGTTTACCAAACTAGTTC
130 AAAATTAATAATAAGAGATTTAAAAAATAAATTTGTTTACTAAACTAGTTC
* * * ** * * *
6696209 AAATATTTAAGATTATTAGAATAATTATCTATTTCAAATCATTCTGACCTTTTATTTAG-CTGTA
1 AAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTATTTTGTC-ATA
* * * * * *
6696273 AAACAATTGTTT-TAATTCATACATACTTAGTCGAAATATAATAATACTAATTTATTAACA-TTC
65 AAACAATTATTTCT-ATTCATACAAACTTATTCGAAATAAAATAATACTAATTTAATAATATTTC
* * * * * *
6696336 AAAAAATTAATAAGAAAATGA-TT--AAAA-AAATCTGTTTACTGAACAAATTC
129 -AAAAATTAATAATAAGA-GATTTAAAAAATAAATTTGTTTACTAAACTAGTTC
* * * ** *
6696386 AAATAATTACAG-CTATTTGAATAATTGTCCACATAAAATTGTTATGACCTTTTATTTTGTCATA
1 AAATAGTTA-AGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTATTTTGTCATA
* * * * * * * * * *
6696450 AAATAATTGTTTCAATTTATACAAGCTTATCCAAAATACAATAATACTAATTTATTAGTATTTCA
65 AAACAATTATTTCTATTCATACAAACTTATTCGAAATAAAATAATACTAATTTAATAATATTTCA
* * ** * * *
6696515 AAAATTGATAAGTAAGAGATTTGAAATTTGAATCTGTTTACCT-AATTAGTTC
130 AAAATTAATAA-TAAGAGATTTAAAAAATAAATTTGTTTA-CTAAACTAGTTC
* * * * * ** * *** * ** * * * *
6696567 AAACAATTATGGCCATTCAAACAATTATCTATTTCAAACCATTATTATATTTTGTTTTATGATAG
1 AAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTATTTTGTCATAA
** * *
6696632 AAC-A--AGCT-TATTC--A-GAA--TA--C--AAT-----AATACTAATTTATTAATATTTCAA
66 AACAATTATTTCTATTCATACAAACTTATTCGAAATAAAATAATACTAATTTAATAATATTTCAA
* * * * * * *
6696679 ATATTAATGAGTAAGAGATTTAAAAAATAAATCTATTTAGTGAACCAGTTC
131 AAATTAAT-AATAAGAGATTTAAAAAATAAATTTGTTTACTAAACTAGTTC
* * * * **
6696730 AAATAGTTATGACTATTTGAATAATTATATATTTCAAATTGTTA-CAACTTTTCCTTTGTCATAA
1 AAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTATTTTGTCATAA
* * *
6696794 AATAATTATTTCTATTCATACAAGCTTATTTCG-AATAAAATAATACTAATCTAATAATATTT-A
66 AACAATTATTTCTATTCATACAAACTTA-TTCGAAATAAAATAATACTAATTTAATAATATTTCA
* * *
6696857 AAAATTAATAATTA-ATATTTAAAAAATAAATTTGTTT-GTCAAACTAGTTC
130 AAAATTAATAATAAGAGATTTAAAAAATAAATTTGTTTACT-AAACTAGTTC
* * * * * * * * * *
6696907 AAATAGTTAAGGCTATATAAACAATTATCTATTTTAAATCGTTATAACCGTTTGTTTTGTCTTAA
1 AAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTATTTTGTCATAA
* * * * * * * * *
6696972 AACAAATT-TTCCAATTCTTACTAACTTATTCAAAATAAAATAAAACAAATTTATTAATATGTCA
66 AAC-AATTATTTCTATTCATACAAACTTATTCGAAATAAAATAATACTAATTTAATAATATTTC-
* * *
6697036 AAAAATTAATAAGTAAAAGATTTTTAAAAAA-ATAATTCTATTTACTAATC-AGTTC
129 AAAAATTAATAA-TAAGAGA--TTTAAAAAATA-AATT-TGTTTACTAAACTAGTTC
* * * * * * *
6697091 AAATAATTATGACTATTTGAACAATTATTTATTTCAAATCGTTATGACATTTTGTTTTGTCATAA
1 AAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTATTTTGTCATAA
* * * * * * * ** * * ** * *
6697156 AATAAATGTTTTTGTTTATATAATTTTGTTTGAAATAAAATAATTTTAATTTATTAATATTTAAA
66 AACAATTATTTCTATTCATACAAACTTATTCGAAATAAAATAATACTAATTTAATAATATTTCAA
* * *
6697221 AAATTAATAATTAAGAGATTTAAAAAATAAATTTGTTTACCAAACCAATT-
131 AAATTAATAA-TAAGAGATTTAAAAAATAAATTTGTTTACTAAACTAGTTC
* * * * * * * ** * *
6697271 TAATAAGTCATA-ACTATTTAAACAAGTATTTATTTTAAATCATTATGACCATTTGTTTTGTCAT
1 AAAT-AGTTA-AGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTATTTTGTCAT
* *
6697335 AAAATAATTGTTTCTATTCATACAA
64 AAAACAATTATTTCTATTCATACAA
6697360 TCTAATTTAA
Statistics
Matches: 1301, Mismatches: 312, Indels: 146
0.74 0.18 0.08
Matches are distributed among these distances:
162 15 0.01
163 93 0.07
164 1 0.00
165 2 0.00
166 5 0.00
168 4 0.00
169 1 0.00
170 1 0.00
171 2 0.00
172 2 0.00
174 2 0.00
175 9 0.01
176 131 0.10
177 215 0.17
178 117 0.09
179 162 0.12
180 99 0.08
181 295 0.23
182 5 0.00
183 22 0.02
184 110 0.08
185 7 0.01
186 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (180 bp):
AAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTATTTTGTCATAA
AACAATTATTTCTATTCATACAAACTTATTCGAAATAAAATAATACTAATTTAATAATATTTCAA
AAATTAATAATAAGAGATTTAAAAAATAAATTTGTTTACTAAACTAGTTC
Found at i:6696514 original size:534 final size:537
Alignment explanation
Indices: 6695414--6696533 Score: 1129
Period size: 534 Copynumber: 2.1 Consensus size: 537
6695404 GTTTATTCGG
* * ** * * * *
6695414 AATAAAATTATAAC-AAGTTAATAATATTTTGAAAATTAATATCT-A-AGATTTAAAAGATAAAT
1 AATAAAATAAT-ACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGAATTAAAAAATAATT
* * * * * * *
6695476 CTACTTGC-CAAGTAATTTAAATAGTTAAGACTATATGAACAATTATCTATTTCAAATCATTATG
65 TTATTTGCTAAACTAGTTTAAATAGTTAAGACTATATGAACAATTATCCATTTAAAATCATTATG
* *
6695540 ACATTTTACTTTGTCAAAAAATAATTGTTTTAGTTCATACAAGATTATTCGGAATAAAATAAAAC
130 ACATTTTACTTTGTCAAAAAACAATTATTTTAGTTCATACAAGATTATTCGGAATAAAATAAAAC
* * * *
6695605 TACCTTACTAATATTTCAAAAATTATAAATAAAATATTTATAAAATAATTTTTTAACTAAACTAG
195 TAACTTAATAATATTTCAAAAA-TATAAATAAAAGATTTATAAAATAATTTTTTAACCAAACTAG
* * ** * * * * *
6695670 TTCAAATAATTATAACTATTTGAAAAATTATTTATTTCAAATTGTTCTTACTTTTTGTTTTGTTA
259 TTCAAATAATTATAACTATTAGAAAAATTATCTATTTCAAATCATTCTGACCTTTTATTTAGCTA
** * * ** * * **
6695735 TAAAACAATTATTTTTGTTCATATAAGTTTTTTGAAATAAAATAATAGTAAATTATTATATGTTA
324 TAAAACAATTATTTTAATTCATACAACTTAGTCGAAATAAAATAATACTAAATTATTATACATTA
* * * * * * **
6695800 AAAATTAATAAATAAGAGATTTATCAAGTAAAGTTGTTTACTAAACCAAATCAAATAGTTTTAAC
389 AAAA-TAATAAATAAGAAAATGATCAAGAAAAATTGTTTACTAAACCAAATCAAATAATTACAAC
** ** * * *
6695865 TATTTGAATAATTATTTATTTCAAATCAGTATAACATTTTGTTTTGTCATAAAATAATTATTCCT
453 TATTTGAATAATTATCCACATAAAATCAGTATAACATTTTATTTTGTCATAAAATAATTATTCCA
* **
6695930 ATTCATACAAACTTATTCGT
518 ATTCATACAAACTTATCCAA
* *
6695950 AATAAAATAATATTAATTTAATAATATTTCAAAACTTAATAACTAAGAGAATTAAAAAATAATTT
1 AATAAAATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGAATTAAAAAATAATTT
* ** **
6696015 TATTTGCTAAACTAGTTTAAATAGTTAAGACTTTATGAATGATTATCCATTTAAAATTGTTATGA
66 TATTTGCTAAACTAGTTTAAATAGTTAAGACTATATGAACAATTATCCATTTAAAATCATTATGA
* * * * * * *
6696080 CCTTTTATTTTGTCATAAAACAATTATTTCTA-TTCATACAAGCTTATTTGGATTAAAATAATAC
131 CATTTTACTTTGTCAAAAAACAATTATTT-TAGTTCATACAAGATTATTCGGAATAAAATAAAAC
* *
6696144 TAATTTAATAATATTTC-AAAA-AT-AATAAGAGATTTA-AAATATAAATTTGTTT-ACCAAACT
195 TAACTTAATAATATTTCAAAAATATAAATAAAAGATTTATAAA-AT-AATTT-TTTAACCAAACT
* * *
6696204 AGTTCAAATATTTA-AGATTATTAGAATAATTATCTATTTCAAATCATTCTGACCTTTTATTTAG
257 AGTTCAAATAATTATA-ACTATTAGAAAAATTATCTATTTCAAATCATTCTGACCTTTTATTTAG
* * * *
6696268 CTGTAAAACAATTGTTTTAATTCATACATACTTAGTCGAAATATAATAATACTAATTTATTA-AC
321 CTATAAAACAATTATTTTAATTCATACA-ACTTAGTCGAAATAAAATAATACTAAATTATTATAC
* * * *
6696332 ATTCAAAA-AATTAATAAGAAAATGATTAA-AAAAATCTGTTTACTGAA-CAAATTCAAATAATT
385 ATTAAAAATAATAAATAAGAAAATGATCAAGAAAAAT-TGTTTACTAAACCAAA-TCAAATAATT
* * * * *
6696394 ACAGCTATTTGAATAATTGTCCACATAAAAT-TGTTATGACCTTTTATTTTGTCATAAAATAATT
448 ACAACTATTTGAATAATTATCCACATAAAATCAG-TATAACATTTTATTTTGTCATAAAATAATT
* * * *
6696458 GTTTCAATTTATACAAGCTTATCCAA
512 ATTCCAATTCATACAAACTTATCCAA
* * * * *
6696484 AATACAATAATACTAATTTATTAGTATTTCAAAAATTGATAAGTAAGAGA
1 AATAAAATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGA
6696534 TTTGAAATTT
Statistics
Matches: 470, Mismatches: 101, Indels: 28
0.78 0.17 0.05
Matches are distributed among these distances:
533 9 0.02
534 148 0.31
535 15 0.03
536 129 0.27
537 30 0.06
538 24 0.05
539 113 0.24
540 2 0.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.40
Consensus pattern (537 bp):
AATAAAATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGAATTAAAAAATAATTT
TATTTGCTAAACTAGTTTAAATAGTTAAGACTATATGAACAATTATCCATTTAAAATCATTATGA
CATTTTACTTTGTCAAAAAACAATTATTTTAGTTCATACAAGATTATTCGGAATAAAATAAAACT
AACTTAATAATATTTCAAAAATATAAATAAAAGATTTATAAAATAATTTTTTAACCAAACTAGTT
CAAATAATTATAACTATTAGAAAAATTATCTATTTCAAATCATTCTGACCTTTTATTTAGCTATA
AAACAATTATTTTAATTCATACAACTTAGTCGAAATAAAATAATACTAAATTATTATACATTAAA
AATAATAAATAAGAAAATGATCAAGAAAAATTGTTTACTAAACCAAATCAAATAATTACAACTAT
TTGAATAATTATCCACATAAAATCAGTATAACATTTTATTTTGTCATAAAATAATTATTCCAATT
CATACAAACTTATCCAA
Found at i:6696520 original size:177 final size:176
Alignment explanation
Indices: 6695535--6697270 Score: 548
Period size: 177 Copynumber: 9.8 Consensus size: 176
6695525 TTTCAAATCA
* * * * * * * *
6695535 TTATGACATTTTACTTTGTCAAAAAATAATTGTTTTAGTTCATACAAGATTATTCGGAATAAAAT
1 TTATGACCTTTTATTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTA-TCGAAATAAAAT
* ** * *
6695600 AAAACTACCTTACTAATATTTCAAAAATTATAAATAA-AATATTTATAAA-AT-AAT-TTTTTAA
65 AATACTAATTTATTAATATTTCAAAAA-T-T-AATAAGAA-ATTTA-AAATATAAATCTGTTT-A
* * * * * ** ** *
6695661 CTAAACTAGTTCAAATAATTATA-ACTATTTGAAAAATTATTTATTTCAAATTG
124 CCAAACAAATTCAAATAATTA-AGACTATTAGAATAATTATCCACATAAAATTG
* * * * * * *** * * * *
6695714 TTCTTACTTTTTGTTTTGTTATAAAACAATTATTTTTGTTCATATAAGTTTTTTGAAATAAAATA
1 TTATGACCTTTTATTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATCGAAATAAAATA
* * * * *
6695779 ATAGTAAATTATT-ATATGTT-AAAAATTAATAAATAAGAGATTTATCAAGTA-AAGT-TGTTTA
66 ATACTAATTTATTAATAT-TTCAAAAA-T--T-AATAAGAAATTTA--AAATATAAATCTGTTTA
* * * * ** ** * *
6695840 CTAAACCAAA-TCAAATAGTTTTA-ACTATTTGAATAATTATTTATTTCAAATCAG
124 CCAAA-CAAATTCAAATA-ATTAAGACTATTAGAATAATTATCCACATAAAAT-TG
* * * * * * * * *
6695894 -TATAACATTTTGTTTTGTCATAAAATAATTATTCCTATTCATACAAACTTATTCGTAATAAAAT
1 TTATGACCTTTTATTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTA-TCGAAATAAAAT
* * * * * * * *
6695958 AATATTAATTTAATAATATTTCAAAACTTAATAACTAAGAGAA-TTAAAAAATAATTTTATTTGC
65 AATACTAATTTATTAATATTTCAAAA---ATTAA-TAAGA-AATTTAAAATATAAATCTGTTTAC
* * * * * * **
6696022 TAAACTAGTTTAAATAGTTAAGACT-TTATGAATGATTATCCATTTAAAATTG
125 CAAACAAATTCAAATAATTAAGACTATTA-GAATAATTATCCACATAAAATTG
* * * * *
6696074 TTATGACCTTTTATTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATTTGGATTAAAAT
1 TTATGACCTTTTATTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTA-TCGAAATAAAAT
* * *
6696139 AATACTAATTTAATAATATTTCAAAAA-TAATAAGAGATTTAAAATATAAATTTGTTTACCAAAC
65 AATACTAATTTATTAATATTTCAAAAATTAATAAGAAATTTAAAATATAAATCTGTTTACCAAAC
* * * * * ** * **
6696203 TAGTTCAAATATTTAAGATTATTAGAATAATTATCTATTTCAAATCA
130 AAATTCAAATAATTAAGACTATTAGAATAATTATCCACATAAAATTG
* * * * *
6696250 TTCTGACCTTTTATTTAG-CTGTAAAACAATTGTTTTAATTCATACATA-CTTAGTCGAAATATA
1 TTATGACCTTTTATTTTGTC-ATAAAACAATTGTTTCAATTCATACA-AGCTTA-TCGAAATAAA
*
6696313 ATAATACTAATTTATTAACA-TTCAAAAAATTAATAAGAAAATGATT-AAA-A-AAATCTGTTTA
63 ATAATACTAATTTATTAATATTTC-AAAAATTAATAAG-AAAT--TTAAAATATAAATCTGTTTA
** * *
6696374 CTGAACAAATTCAAATAATTACAG-CTATTTGAATAATTGTCCACATAAAATTG
124 CCAAACAAATTCAAATAATTA-AGACTATTAGAATAATTATCCACATAAAATTG
* * * *
6696427 TTATGACCTTTTATTTTGTCATAAAATAATTGTTTCAATTTATACAAGCTTATCCAAAATACAAT
1 TTATGACCTTTTATTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTAT-CGAAATAAAAT
* * * * *
6696492 AATACTAATTTATTAGTATTTCAAAAATTGATAAGTAAGAGATTTGAAATTTGAATCTGTTTACC
65 AATACTAATTTATTAATATTTCAAAAA-T--TAA-TAAGAAATTTAAAATATAAATCTGTTTACC
* ** * * * * * * * ** *
6696557 TAATTAGTTCAAACAATTATGGCCATTCA-AACAATTATCTATTTCAAACCATTA
126 AAACAAATTCAAATAATTAAGACTATT-AGAATAATTATCCACAT-AAA--ATTG
* * * * * *
6696611 TTAT-A--TTTTGTTTTATGATAGAACAA--G---C--TT-AT------TCA--G-AATACAATA
1 TTATGACCTTTTATTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATCGAAATAAAATA
* * * * ***
6696656 ATACTAATTTATTAATATTTCAAATATTAATGAGTAAGAGATTTAAAAAATAAATCTATTTAGTG
66 ATACTAATTTATTAATATTTCAAAAATT-A--A-TAAGAAATTTAAAATATAAATCTGTTTACCA
* * * * * ** ** *
6696721 AACCAGTTCAAATAGTTATGACTATTTGAATAATTATATATTTCAAATTG
127 AACAAATTCAAATAATTAAGACTATTAGAATAATTATCCACATAAAATTG
* * ** * * *
6696771 TTA-CAACTTTTCCTTTGTCATAAAATAATTATTTCTATTCATACAAGCTTATTTCG-AATAAAA
1 TTATGACCTTTTATTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTA--TCGAAATAAAA
* * * * * **
6696834 TAATACTAATCTAATAATATTT-AAAAATTAATAATTAATATTTAAAAAATAAATTTGTTTGTCA
64 TAATACTAATTTATTAATATTTCAAAAATTAATAA-GAA-ATTTAAAATATAAATCTGTTTACCA
* * * * * * ** * *
6696898 AACTAGTTCAAATAGTTAAGGCTATATA-AACAATTATCTATTTTAAATCG
127 AACAAATTCAAATAATTAAGACTAT-TAGAATAATTATCCACATAAAATTG
* * * * * * *
6696948 TTATAACCGTTTGTTTTGTCTTAAAACAAATT-TTCCAATTCTTACTAA-CTTATTCAAAATAAA
1 TTATGACCTTTTATTTTGTCATAAAAC-AATTGTTTCAATTCATAC-AAGCTTA-TCGAAATAAA
* * * * * *
6697011 ATAAAACAAATTTATTAATATGTCAAAAAATTAATAAGTAAAAGATTTTTAAAAAAATAATTCTA
63 ATAATACTAATTTATTAATATTTC-AAAAATTAATAAG---AA-A--TTT-AAAATATAAATCTG
* * * * * * ** ** * *
6697076 TTTACTAATC-AGTTCAAATAATTATGACTATTTGAACAATTATTTATTTCAAATCG
120 TTTACCAAACAAATTCAAATAATTAAGACTATTAGAATAATTATCCACATAAAATTG
* * * * *** * * ** * *
6697132 TTATGACATTTTGTTTTGTCATAAAATAAATGTTTTTGTTTATATAATTTTGTTTGAAATAAAAT
1 TTATGACCTTTTATTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTT-ATCGAAATAAAAT
** * * * *
6697197 AATTTTAATTTATTAATATTTAAAAAATTAATAATTAAGAGATTTAAAAAATAAATTTGTTTACC
65 AATACTAATTTATTAATATTTCAAAAA-T--TAA-TAAGAAATTTAAAATATAAATCTGTTTACC
*
6697262 AAACCAATT
126 AAACAAATT
6697271 TAATAAGTCA
Statistics
Matches: 1195, Mismatches: 264, Indels: 194
0.72 0.16 0.12
Matches are distributed among these distances:
160 8 0.01
161 1 0.00
162 18 0.02
163 91 0.08
167 3 0.00
169 2 0.00
170 2 0.00
173 2 0.00
174 2 0.00
175 8 0.01
176 139 0.12
177 208 0.17
178 104 0.09
179 144 0.12
180 115 0.10
181 197 0.16
182 7 0.01
183 13 0.01
184 107 0.09
185 17 0.01
186 3 0.00
187 4 0.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (176 bp):
TTATGACCTTTTATTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATCGAAATAAAATA
ATACTAATTTATTAATATTTCAAAAATTAATAAGAAATTTAAAATATAAATCTGTTTACCAAACA
AATTCAAATAATTAAGACTATTAGAATAATTATCCACATAAAATTG
Found at i:6696765 original size:163 final size:163
Alignment explanation
Indices: 6696470--6696767 Score: 382
Period size: 163 Copynumber: 1.8 Consensus size: 163
6696460 TTCAATTTAT
* *
6696470 ACAAGCTTATCCAAAATACAATAATACTAATTTATTAGTATTTCAAAAATTGATAAGTAAGAGAT
1 ACAAGCTTATCCAAAATACAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAGAGAT
* ** * * ** * *
6696535 TTGAAATTTGAATCTGTTTACCTAATTAGTTCAAACAATTATGGCCATTCAAACAATTATCTATT
66 TTAAAAAATAAATCTATTTACCTAACCAGTTCAAACAATTATGACCATTCAAACAATTATATATT
6696600 TCAAACCATTATTATATTTTGTTTTATGATAGA
131 TCAAACCATTATTATATTTTGTTTTATGATAGA
* * * *
6696633 ACAAGCTTATTCAGAATACAATAATACTAATTTATTAATATTTCAAATATTAATGAGTAAGAGAT
1 ACAAGCTTATCCAAAATACAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAGAGAT
* * * * ** *
6696698 TTAAAAAATAAATCTATTTA-GTGAACCAGTTCAAATAGTTATGACTATTTGAATAATTATATAT
66 TTAAAAAATAAATCTATTTACCT-AACCAGTTCAAACAATTATGACCATTCAAACAATTATATAT
6696762 TTCAAA
130 TTCAAA
6696768 TTGTTACAAC
Statistics
Matches: 112, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
162 1 0.01
163 111 0.99
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (163 bp):
ACAAGCTTATCCAAAATACAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAGAGAT
TTAAAAAATAAATCTATTTACCTAACCAGTTCAAACAATTATGACCATTCAAACAATTATATATT
TCAAACCATTATTATATTTTGTTTTATGATAGA
Found at i:6697194 original size:184 final size:180
Alignment explanation
Indices: 6696647--6697396 Score: 614
Period size: 184 Copynumber: 4.2 Consensus size: 180
6696637 GCTTATTCAG
* * *
6696647 AATACAATAATACTAATTTATTAATATTTC-AAATATTAATGAGTAAGAGATTTAAAAAATAAAT
1 AATAAAATAATACTAATTTATTAATA-TTCAAAAAATTAATAAGTAAGAGATTTAAAAAATAAAT
* * * * * * * * *
6696711 CTATTTAGTGAACCAGTTCAAATAGTTATGACTATTTGAATAATTATATATTTCAAATTGTTACA
65 TTATTTACTCAACCAGTTCAAATAATTATGACTATTTAAACAATTATTTATTTCAAATCGTTATA
** * * * *
6696776 AC-TTTTCCTTTGTCATAAAATAATTATTTCTATTCATACAAGCTTATTTCG-
130 ACATTTTGTTTTGTCATAAAATAAATGTTTCTATTTATATAA-CTTATTT-GA
* * * * *
6696827 AATAAAATAATACTAATCTAATAATATT-TAAAAATTAATAA-TTA-ATATTTAAAAAATAAATT
1 AATAAAATAATACTAATTTATTAATATTCAAAAAATTAATAAGTAAGAGATTTAAAAAATAAATT
* * * * * * * * *
6696889 TGTTT-GTCAAACTAGTTCAAATAGTTAAGGCTATATAAACAATTATCTATTTTAAATCGTTATA
66 TATTTACTC-AACCAGTTCAAATAATTATGACTATTTAAACAATTATTTATTTCAAATCGTTATA
** * * * **
6696953 ACCGTTTGTTTTGTCTTAAAACAAAT-TTTCCAATTCT-TACTAACTTATTCAA
130 ACATTTTGTTTTGTCATAAAATAAATGTTT-CTATT-TATA-TAACTTATTTGA
* * *
6697005 AATAAAATAAAACAAATTTATTAATATGTCAAAAAATTAATAAGTAAAAGATTTTTAAAAAA-AT
1 AATAAAATAATACTAATTTATTAATAT-TCAAAAAATTAATAAGTAAGAGA--TTTAAAAAATA-
* *
6697069 AATTCTATTTACT-AATCAGTTCAAATAATTATGACTATTTGAACAATTATTTATTTCAAATCGT
62 AATT-TATTTACTCAACCAGTTCAAATAATTATGACTATTTAAACAATTATTTATTTCAAATCGT
* * * * *
6697133 TATGACATTTTGTTTTGTCATAAAATAAATGTTTTTGTTTATATAATTTTGTTTGA
126 TATAACATTTTGTTTTGTCATAAAATAAATGTTTCTATTTATATAA-CTTATTTGA
** * *
6697189 AATAAAATAATTTTAATTTATTAATATTTAAAAAATTAATAATTAAGAGATTTAAAAAATAAATT
1 AATAAAATAATACTAATTTATTAATATTCAAAAAATTAATAAGTAAGAGATTTAAAAAATAAATT
* * * * * * * *
6697254 TGTTTAC-CAAACCAATT-TAATAAGTCATAACTATTTAAACAAGTATTTATTTTAAATCATTAT
66 TATTTACTC-AACCAGTTCAAATAA-TTATGACTATTTAAACAATTATTTATTTCAAATCGTTAT
* * * * *
6697317 GACCA-TTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAATCTAATTT-A
129 -AACATTTTGTTTTGTCATAAAATAAATGTTTCTATTTATATAA-CTTATTTGA
**
6697369 AA-AAAAGTAATGTTAATTTATTAATATT
1 AATAAAA-TAATACTAATTTATTAATATT
6697397 ATGAAAATTA
Statistics
Matches: 456, Mismatches: 89, Indels: 50
0.77 0.15 0.08
Matches are distributed among these distances:
176 2 0.00
177 70 0.15
178 54 0.12
179 19 0.04
180 69 0.15
181 92 0.20
182 5 0.01
183 25 0.05
184 112 0.25
185 7 0.02
186 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.42
Consensus pattern (180 bp):
AATAAAATAATACTAATTTATTAATATTCAAAAAATTAATAAGTAAGAGATTTAAAAAATAAATT
TATTTACTCAACCAGTTCAAATAATTATGACTATTTAAACAATTATTTATTTCAAATCGTTATAA
CATTTTGTTTTGTCATAAAATAAATGTTTCTATTTATATAACTTATTTGA
Found at i:6698001 original size:357 final size:358
Alignment explanation
Indices: 6697553--6698495 Score: 799
Period size: 359 Copynumber: 2.6 Consensus size: 358
6697543 AACATAATTC
* * *
6697553 TAATTTATTAATATTCCAAAAATTAGTAAGTAAGAGATTTAAAAAAAGAATCTGTTTACCGAACA
1 TAATTTATTAATATTCCAAAAATTAGTAAGTAAAAGATTTAAAAAAAGAATATGTTTACCAAACA
* * * * ** *
6697618 AGTTCAAATAGTTTTAACTTTTTGAATTATTATTTATTTCAAATAGCTATAATCTTTTGTTT-GT
66 AGTACAAATAGTCTTAACTATTTGAATAATTATCAATTTCAAATAGCTATAACCTTTTGTTTCGT
* * * * *
6697682 CGTAAAATAATTTTTTCAATTCATACAAGCTTATTCCAAAT-AAA-AAA-AATTAATTGATATTT
131 CATAAAACAATTGTATCAATTCATACAAGCTTATTCCAAATAAAATAAACAATTAATTAATATTT
* * *
6697744 -AGATAATTAATAAGTAAAAAATTTTAAAAAATAAATTTGTGTACGAAATAAATTCAAATAGTTA
196 CA-AAAATTAATAAGTAAAAAA-TTTAAAAAATAAACTTGTGTACGAAATAAATTCAAATAATTA
* * * * * *
6697808 TAATTATTTGAACAATTATTTATTTCAAATCGTTATGACTTTTTGTTTTATCATAAACTAGCTGT
259 TAATTATCTAAACAATTATCTATTT-AAATCATTATAACCTTTTGTTTTATCATAAACTAGCTGT
6697873 ATTTGTTCATTACAAACTTTGTTAGATTAAAAATAT
323 ATTTGTTCATTACAAACTTTGTTAGATTAAAAATAT
* * *
6697909 TAATTTATTAATATTTCGATAATTCA-TAAGTAAAAGATTTTAAAAAATA-AATATGTTTACCAA
1 TAATTTATTAATATTCCAAAAATT-AGTAAGTAAAAGA-TTTAAAAAA-AGAATATGTTTACCAA
* * * *
6697972 ATAAGTACAAATAGTCTTAACTATTTGAATAATTATCAATTTCAAATCGTTATTACCTTTTGTTT
63 ACAAGTACAAATAGTCTTAACTATTTGAATAATTATCAATTTCAAATAGCTATAACCTTTTGTTT
* * * * ** *
6698037 CTTCATAAAACAATTGTATCAGTTCATATAGGCTTATTTGAAATAAAATAAACCTAATTTATTAA
128 CGTCATAAAACAATTGTATCAATTCATACAAGCTTATTCCAAATAAAATAAA-C-AATTAATTAA
* * * * ** * *
6698102 TATTTCAAAAATTAATGAGTAAAAGATTTAAAAAATGAACTTGTTTACTTAATAAGTTCACATAA
191 TATTTCAAAAATTAATAAGTAAAAAATTTAAAAAATAAACTTGTGTACGAAATAAATTCAAATAA
* * * * *
6698167 TTATGATTATCTAAATAATTATCTATTTAAATTATTATAACCTTTTGTTTTATCATAAAATA-AT
256 TTATAATTATCTAAACAATTATCTATTTAAATCATTATAACCTTTTGTTTTATCATAAACTAGCT
* *
6698231 -TATTTATGTTCA-TACAAGCTTAT-TCT-GAATAAACTAATAT
321 GTA-TT-TGTTCATTACAAACTT-TGT-TAGATTAAA--AATAT
* * * ** * * * ****
6698271 AAATTTATTAATAGTCTAAAAATTCTTAAGTAAAA-A-TTAAGAAATA-AATTTATTTTTTGAAC
1 TAATTTATTAATATTCCAAAAATTAGTAAGTAAAAGATTTAA-AAAAAGAATATGTTTACCAAAC
* * * * * * * **
6698333 ACA-TTCAAATAGTCATGACTATTTGAACAATTGAT-TATTTCAAATAACTATGACCTTTAATTT
65 A-AGTACAAATAGTCTTAACTATTTGAATAATT-ATCAATTTCAAATAGCTATAACCTTTTGTTT
* * * *** * **
6698396 TGTGATAAATCAATTGCT-TTTGTTCATACAAACTTATTTTAAATAAAATAATACTAATTTAA-T
128 CGTCATAAAACAATTG-TATCAATTCATACAAGCTTATTCCAAATAAAATAA-AC-AA-TTAATT
* *
6698459 AATATTTTAAAAATTAATAAGTAAAAAATTAAAAAAA
189 AATATTTCAAAAATTAATAAGTAAAAAATTTAAAAAA
6698496 AATAAATCTA
Statistics
Matches: 470, Mismatches: 94, Indels: 43
0.77 0.15 0.07
Matches are distributed among these distances:
356 31 0.07
357 76 0.16
358 34 0.07
359 143 0.30
360 32 0.07
361 38 0.08
362 86 0.18
363 29 0.06
364 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (358 bp):
TAATTTATTAATATTCCAAAAATTAGTAAGTAAAAGATTTAAAAAAAGAATATGTTTACCAAACA
AGTACAAATAGTCTTAACTATTTGAATAATTATCAATTTCAAATAGCTATAACCTTTTGTTTCGT
CATAAAACAATTGTATCAATTCATACAAGCTTATTCCAAATAAAATAAACAATTAATTAATATTT
CAAAAATTAATAAGTAAAAAATTTAAAAAATAAACTTGTGTACGAAATAAATTCAAATAATTATA
ATTATCTAAACAATTATCTATTTAAATCATTATAACCTTTTGTTTTATCATAAACTAGCTGTATT
TGTTCATTACAAACTTTGTTAGATTAAAAATAT
Found at i:6698278 original size:180 final size:181
Alignment explanation
Indices: 6697524--6698305 Score: 496
Period size: 181 Copynumber: 4.3 Consensus size: 181
6697514 TTTTCTATTT
* * * * *
6697524 ATACAAGCTTATTTGAAATAACATAATTCTAATTTATTAATATTCCAAAAATTAGTAAGTAAGAG
1 ATACAAGCTTATTTGAAATAAAATAA-TATAATTTATTAATATTTCAAAAATTAATAAGTAAAAG
* * * * * * * * * * *
6697589 A-TTTAAAAAA-AGAATCTGTTTACCGAACAAGTTCAAATAGTTTTAACTTTTTGAATTATTATT
65 ATTTTAAAAAATA-AATATGTTTACCAAATAAGTACAAATAATCTTAACTATCTAAATAATTATC
* * * * * * * * *
6697652 TATTTCAAAT-AGCTATAATCTTTTGTTT-GTCGTAAAATAATTTTTTCAATTC
129 AATTTCAAATCA-TTATAACCTTTTGTTTCTTCATAAAACAATTATATCAGTTC
** * * * *
6697704 ATACAAGCTTATTCCAAAT-AAA-AA-A-AATTAATTGATATTT-AGATAATTAATAAGTAAAAA
1 ATACAAGCTTATTTGAAATAAAATAATATAATTTATTAATATTTCA-AAAATTAATAAGTAAAAG
* * * * * * * * * * *
6697764 ATTTTAAAAAATAAATTTGTGTACGAAATAAATTCAAATAGT-TATAATTATTTGAACAATTATT
65 ATTTTAAAAAATAAATATGTTTACCAAATAAGTACAAATAATCT-TAACTATCTAAATAATTATC
* * * * ** * **
6697828 TATTTCAAATCGTTATGACTTTTTGTTT-TATCAT-AAACTAGCTGTATTTGTTC
129 AATTTCAAATCATTATAACCTTTTGTTTCT-TCATAAAAC-AATTATATCAGTTC
* * * * * *
6697881 ATTACAAACTT-TGTT-AGATTAAA-AATATTAATTTATTAATATTTCGATAATTCATAAGTAAA
1 A-TACAAGCTTAT-TTGAAATAAAATAATA-TAATTTATTAATATTTCAAAAATTAATAAGTAAA
* * *
6697943 AGATTTTAAAAAATAAATATGTTTACCAAATAAGTACAAATAGTCTTAACTATTTGAATAATTAT
63 AGATTTTAAAAAATAAATATGTTTACCAAATAAGTACAAATAATCTTAACTATCTAAATAATTAT
* * *
6698008 CAATTTCAAATCGTTATTACCTTTTGTTTCTTCATAAAACAATTGTATCAGTTC
128 CAATTTCAAATCATTATAACCTTTTGTTTCTTCATAAAACAATTATATCAGTTC
* * *
6698062 ATATAGGCTTATTTGAAATAAAATAA-ACCTAATTTATTAATATTTCAAAAATTAATGAGTAAAA
1 ATACAAGCTTATTTGAAATAAAATAATA--TAATTTATTAATATTTCAAAAATTAATAAGTAAAA
* ** * * * *
6698126 GA-TTTAAAAAATGAACT-TGTTTACTTAATAAGTTCACATAAT-TATGATTATCTAAATAATTA
64 GATTTTAAAAAAT-AAATATGTTTACCAAATAAGTACAAATAATCT-TAACTATCTAAATAATTA
* * * *
6698188 TCTATTT-AAATTATTATAACCTTTTGTTT-TATCATAAAATAATTAT-TTATGTTC
127 TCAATTTCAAATCATTATAACCTTTTGTTTCT-TCATAAAACAATTATATCA-GTTC
* * **
6698242 ATACAAGCTTATTCTG-AATAAACTAATATAAATTTATTAATA-GTCTAAAAATTCTTAAGTAAA
1 ATACAAGCTTATT-TGAAATAAAATAATAT-AATTTATTAATATTTC-AAAAATTAATAAGTAAA
6698305 A
63 A
6698306 ATTAAGAAAT
Statistics
Matches: 480, Mismatches: 93, Indels: 58
0.76 0.15 0.09
Matches are distributed among these distances:
174 1 0.00
175 28 0.06
176 73 0.15
177 16 0.03
178 16 0.03
179 9 0.02
180 109 0.23
181 184 0.38
182 44 0.09
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (181 bp):
ATACAAGCTTATTTGAAATAAAATAATATAATTTATTAATATTTCAAAAATTAATAAGTAAAAGA
TTTTAAAAAATAAATATGTTTACCAAATAAGTACAAATAATCTTAACTATCTAAATAATTATCAA
TTTCAAATCATTATAACCTTTTGTTTCTTCATAAAACAATTATATCAGTTC
Found at i:6698972 original size:6 final size:6
Alignment explanation
Indices: 6698961--6699042 Score: 87
Period size: 6 Copynumber: 13.2 Consensus size: 6
6698951 TTTCTCTTCA
*
6698961 TTTTAT TTTTAT TTTT-T TAATTTAT TTTTAT TTTTATT TTTGTAT TTTACAT
1 TTTTAT TTTTAT TTTTAT T--TTTAT TTTTAT TTTTA-T TTT-TAT TTT-TAT
*
6699013 TTTTA- TTTTAT TTTTAT TTTTAT TATTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T
6699043 ATTTTATATA
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
5 7 0.11
6 39 0.59
7 16 0.24
8 4 0.06
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:6698989 original size:25 final size:26
Alignment explanation
Indices: 6698961--6699027 Score: 93
Period size: 25 Copynumber: 2.6 Consensus size: 26
6698951 TTTCTCTTCA
*
6698961 TTTTATTTTTATTTTTTTAATTT-AT
1 TTTTATTTTTATTTTTGTAATTTAAT
*
6698986 TTTTATTTTTATTTTTGTATTTTACAT
1 TTTTATTTTTATTTTTGTAATTTA-AT
6699013 TTTTA-TTTTATTTTT
1 TTTTATTTTTATTTTT
6699028 ATTTTTATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 21 0.55
26 10 0.26
27 7 0.18
ACGTcount: A:0.18, C:0.01, G:0.01, T:0.79
Consensus pattern (26 bp):
TTTTATTTTTATTTTTGTAATTTAAT
Found at i:6699009 original size:38 final size:39
Alignment explanation
Indices: 6698967--6699087 Score: 122
Period size: 38 Copynumber: 3.1 Consensus size: 39
6698957 TTCATTTTAT
*
6698967 TTTTATTTTTTTAATTTATTTTTATTTTTATT-TT-TGTA
1 TTTTATATTTTTAATTTATTTTTATTTTTATTATTAT-TA
* *
6699005 TTTTACATTTTTATTTTATTTTTATTTTTATTATTATTA
1 TTTTATATTTTTAATTTATTTTTATTTTTATTATTATTA
* * *
6699044 TTTTATATATGTATATATTT-TTTTTCTTTTCTTTTATTATTA
1 TTTTATAT-T-TTTA-ATTTATTTTTATTTT-TATTATTATTA
6699086 TT
1 TT
6699088 ATTTTTATCT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
38 29 0.42
39 11 0.16
40 2 0.03
41 12 0.17
42 15 0.22
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (39 bp):
TTTTATATTTTTAATTTATTTTTATTTTTATTATTATTA
Found at i:6699204 original size:22 final size:20
Alignment explanation
Indices: 6699179--6699271 Score: 73
Period size: 23 Copynumber: 4.3 Consensus size: 20
6699169 ATTTATGTAA
6699179 TTATCTGTT-ATTTAATTTTAAT
1 TTATCTGTTAATTT--TTTT-AT
6699201 TTATCTGTTAATTTTTTTAT
1 TTATCTGTTAATTTTTTTAT
*
6699221 TTATCTGATTTATTTTCGTTTGATT
1 TTATCTG-TTAATTTT--TTT-A-T
* *
6699246 TTTTCT-TTTATTTTTTTAT
1 TTATCTGTTAATTTTTTTAT
6699265 TTATCTG
1 TTATCTG
6699272 GCTGAAAATT
Statistics
Matches: 61, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
19 6 0.10
20 10 0.16
21 14 0.23
22 9 0.15
23 15 0.25
24 1 0.02
25 6 0.10
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.69
Consensus pattern (20 bp):
TTATCTGTTAATTTTTTTAT
Found at i:6699234 original size:44 final size:43
Alignment explanation
Indices: 6699161--6699271 Score: 100
Period size: 44 Copynumber: 2.5 Consensus size: 43
6699151 TCTTTTTTTC
* * *
6699161 CTGTTAATATTTATGTAATTATCTGTTA-TTTAATTTTAATTTAT
1 CTGTTAAT-TTT-TTTATTTATCTGTTATTTTAATTTGAATTTAT
** * *
6699205 CTGTTAATTTTTTTATTTATCTGATTTATTTTCGTTTGATTTTTT
1 CTGTTAATTTTTTTATTTATCTG--TTATTTTAATTTGAATTTAT
*
6699250 CT-TTTATTTTTTTATTTATCTG
1 CTGTTAATTTTTTTATTTATCTG
6699272 GCTGAAAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
42 10 0.18
43 3 0.05
44 30 0.54
45 13 0.23
ACGTcount: A:0.21, C:0.06, G:0.07, T:0.66
Consensus pattern (43 bp):
CTGTTAATTTTTTTATTTATCTGTTATTTTAATTTGAATTTAT
Found at i:6700154 original size:4 final size:4
Alignment explanation
Indices: 6700092--6700138 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
6700082 TTTTTTTTTA
* * *
6700092 ATTT ATTT ATTT GTTT ATTT GTTT ATTT ATTT ATTT TTTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
6700139 AGATTAGGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:6700178 original size:11 final size:11
Alignment explanation
Indices: 6700162--6700220 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
6700152 TTAATATTCT
6700162 TTTTATCTTTA
1 TTTTATCTTTA
*
6700173 TTTTATTTTTA
1 TTTTATCTTTA
*
6700184 TTTT-TGTTTTA
1 TTTTAT-CTTTA
*
6700195 CTTT-TCTTTA
1 TTTTATCTTTA
6700205 TTTTAT-TTTA
1 TTTTATCTTTA
6700215 TTTTAT
1 TTTTAT
6700221 TTTTTTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
10 18 0.43
11 24 0.57
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (11 bp):
TTTTATCTTTA
Found at i:6700179 original size:5 final size:5
Alignment explanation
Indices: 6700162--6700255 Score: 70
Period size: 5 Copynumber: 18.4 Consensus size: 5
6700152 TTAATATTCT
* *
6700162 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTT- CTTTA TTTTA
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTTA
* *
6700210 TTTTA TTTTA -TTT- TTTTA -TTTA TTTTCA CTTGTA TTTTG TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A -TTTTA TTTTA TTTTA TT
6700256 ATTCTATTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
4 13 0.18
5 35 0.49
6 21 0.29
7 3 0.04
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:6700231 original size:12 final size:12
Alignment explanation
Indices: 6700093--6700235 Score: 73
Period size: 12 Copynumber: 12.0 Consensus size: 12
6700083 TTTTTTTTAA
*
6700093 TTTATTTATTTG
1 TTTATTTATTTT
* *
6700105 TTTATTTGTTTA
1 TTTATTTATTTT
6700117 TTTATTTATTTT
1 TTTATTTATTTT
**
6700129 TTTATTTATTAG
1 TTTATTTATTTT
*
6700141 ATTAGGTTTA-TTT
1 TTTA--TTTATTTT
** *
6700154 AATA-TTCTTTT
1 TTTATTTATTTT
* *
6700165 TATCTTTATTTT
1 TTTATTTATTTT
*
6700177 ATT-TTTATTTT
1 TTTATTTATTTT
*
6700188 TGT-TTTACTTTT
1 TTTATTTA-TTTT
*
6700200 CTTTA-TT-TTAT
1 -TTTATTTATTTT
6700211 TTTATTTTATTTT
1 TTTA-TTTATTTT
6700224 TTTATTTATTTT
1 TTTATTTATTTT
6700236 CACTTGTATT
Statistics
Matches: 100, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
10 6 0.06
11 21 0.21
12 54 0.54
13 15 0.15
14 4 0.04
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (12 bp):
TTTATTTATTTT
Found at i:6700258 original size:42 final size:41
Alignment explanation
Indices: 6700169--6700270 Score: 102
Period size: 42 Copynumber: 2.4 Consensus size: 41
6700159 TCTTTTTATC
*
6700169 TTTATTTTATTTTTATT-TTTGTTTTACTTTTCTTTATTTTA
1 TTTATTTTATTTTT-TTATTTATTTTACTTTTCTTTATTTTA
*
6700210 TTTTATTTTATTTTTTTATTTATTTTCACTTGTAT-TTTGTTTTA
1 -TTTATTTTATTTTTTTATTTATTTT-ACTT-T-TCTTTATTTTA
*
6700254 -TTATTCTATTTTCTTTA
1 TTTATTTTATTTT-TTTA
6700271 AATAAATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
41 2 0.04
42 32 0.62
43 8 0.15
44 9 0.17
45 1 0.02
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (41 bp):
TTTATTTTATTTTTTTATTTATTTTACTTTTCTTTATTTTA
Found at i:6700406 original size:16 final size:17
Alignment explanation
Indices: 6700375--6700407 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6700365 TGAAAATATC
*
6700375 AATTTTCCTTAAAAATA
1 AATTTTCCTAAAAAATA
6700392 AATTTT-CTAAAAAATA
1 AATTTTCCTAAAAAATA
6700408 TTTTTGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTTTCCTAAAAAATA
Found at i:6700412 original size:58 final size:57
Alignment explanation
Indices: 6700270--6700437 Score: 230
Period size: 59 Copynumber: 2.9 Consensus size: 57
6700260 TATTTTCTTT
* * * *
6700270 AAATAAATTTTCAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTGTCAATTTTTCTTGA
1 AAATAAATTTTCAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
6700328 AAATCAAGGTTTCCAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAA
1 AAAT-AA-ATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
6700387 AAATAAATTTTCTAAAAAATATTTTTGA-GAAAAGTTGAAAGTATCAATTTT
1 AAATAAATTTTC-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
6700438 TTTAAATATT
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
57 26 0.27
58 21 0.22
59 40 0.41
60 10 0.10
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (57 bp):
AAATAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:6703105 original size:14 final size:16
Alignment explanation
Indices: 6703065--6703099 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
6703055 GGGGTCAAAA
6703065 TTATAATATTATTTTTAT
1 TTATAATA-T-TTTTTAT
6703083 TTATAATATTTTTTAT
1 TTATAATATTTTTTAT
6703099 T
1 T
6703100 AAATATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 1 0.06
18 8 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATAATATTTTTTAT
Found at i:6703497 original size:15 final size:16
Alignment explanation
Indices: 6703465--6703497 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6703455 AAAAAATTTC
6703465 AATAAAAAATAAATAA
1 AATAAAAAATAAATAA
*
6703481 AATAAAAATTAAA-AA
1 AATAAAAAATAAATAA
6703496 AA
1 AA
6703498 GATTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AATAAAAAATAAATAA
Found at i:6704524 original size:22 final size:22
Alignment explanation
Indices: 6704479--6704529 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
6704469 AGAGGAAGAG
* *
6704479 ATGAAATTTTTAAGTGAAATTT
1 ATGAAATTTTTAAGTAAAAATT
* *
6704501 ATGAAATTTTTTATTAAAAATT
1 ATGAAATTTTTAAGTAAAAATT
*
6704523 ATTAAAT
1 ATGAAAT
6704530 CAAAATTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (22 bp):
ATGAAATTTTTAAGTAAAAATT
Found at i:6704553 original size:13 final size:13
Alignment explanation
Indices: 6704513--6704567 Score: 58
Period size: 14 Copynumber: 4.1 Consensus size: 13
6704503 GAAATTTTTT
6704513 ATTAAAAATTATTAA
1 ATTAAAAATTA--AA
*
6704528 A-TCAAAATTAAA
1 ATTAAAAATTAAA
*
6704540 ATTAAAAATCAAA
1 ATTAAAAATTAAA
6704553 ATTAATAAATTAAA
1 ATTAA-AAATTAAA
6704567 A
1 A
6704568 ATTTTCATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
12 3 0.09
13 14 0.41
14 16 0.47
15 1 0.03
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (13 bp):
ATTAAAAATTAAA
Found at i:6704564 original size:8 final size:7
Alignment explanation
Indices: 6704513--6704570 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
6704503 GAAATTTTTT
6704513 ATTAAAA
1 ATTAAAA
*
6704520 ATTATTAA
1 ATTA-AAA
*
6704528 A-TCAAA
1 ATTAAAA
6704534 ATT-AAA
1 ATTAAAA
6704540 ATTAAAA
1 ATTAAAA
*
6704547 A-TCAAA
1 ATTAAAA
6704553 ATTAATAA
1 ATTAA-AA
6704561 ATTAAAA
1 ATTAAAA
6704568 ATT
1 ATT
6704571 TTCATTATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
6 14 0.34
7 17 0.41
8 10 0.24
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (7 bp):
ATTAAAA
Found at i:6704565 original size:21 final size:20
Alignment explanation
Indices: 6704513--6704569 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 20
6704503 GAAATTTTTT
*
6704513 ATTAAAAATTATTAAATCAAA
1 ATTAAAAATTA-AAAATCAAA
6704534 ATT-AAAATTAAAAATCAAA
1 ATTAAAAATTAAAAATCAAA
6704553 ATTAATAAATTAAAAAT
1 ATTAA-AAATTAAAAAT
6704570 TTTCATTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 11 0.33
20 8 0.24
21 14 0.42
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
ATTAAAAATTAAAAATCAAA
Found at i:6704952 original size:22 final size:21
Alignment explanation
Indices: 6704906--6704955 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
6704896 AATAACATTT
* *
6704906 TTTTATATTTTTTTCACAAAT
1 TTTTATCTTTTTTTCACAAAG
*
6704927 TTTTATCTTTTTTTCACCTAAG
1 TTTTATCTTTTTTTCA-CAAAG
6704949 TTTTATC
1 TTTTATC
6704956 CAAGAGGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.22, C:0.14, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTATCTTTTTTTCACAAAG
Found at i:6708847 original size:3 final size:3
Alignment explanation
Indices: 6708839--6708868 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6708829 ATAAAAATTG
6708839 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6708869 TAAATTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6709045 original size:30 final size:30
Alignment explanation
Indices: 6709011--6709067 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
6709001 AATTGACACT
*
6709011 TTAAATATTTATTTTTATCCAATTAAATTC
1 TTAAATATTTATTTTCATCCAATTAAATTC
*
6709041 TTAAATATTTATTTTCATTCAATTAAA
1 TTAAATATTTATTTTCATCCAATTAAA
6709068 CTATTGATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.53
Consensus pattern (30 bp):
TTAAATATTTATTTTCATCCAATTAAATTC
Found at i:6710560 original size:26 final size:26
Alignment explanation
Indices: 6710531--6710584 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
6710521 CATTTTTCTT
* *
6710531 AAACATCCAATTAAATAAGTAGATAA
1 AAACACCCAATTAAATAAATAGATAA
* * *
6710557 AAACACCCATTTAATTAAATGGATAA
1 AAACACCCAATTAAATAAATAGATAA
6710583 AA
1 AA
6710585 TCATGTTCAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.56, C:0.13, G:0.07, T:0.24
Consensus pattern (26 bp):
AAACACCCAATTAAATAAATAGATAA
Found at i:6714039 original size:16 final size:16
Alignment explanation
Indices: 6714018--6714049 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6714008 ACGATTTGAT
6714018 TGATAATGATGATTTA
1 TGATAATGATGATTTA
6714034 TGATAATGATGATTTA
1 TGATAATGATGATTTA
6714050 CGATGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
TGATAATGATGATTTA
Found at i:6714114 original size:29 final size:27
Alignment explanation
Indices: 6714103--6714156 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
6714093 ATTTGAACGA
6714103 TAACATATTTTGTAATGATTTATGAAG
1 TAACATATTTTGTAATGATTTATGAAG
*
6714130 TGACATATTTTG-ACATTGATTTATGAA
1 TAACATATTTTGTA-A-TGATTTATGAA
6714157 TTTATGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 1 0.04
27 12 0.50
28 11 0.46
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (27 bp):
TAACATATTTTGTAATGATTTATGAAG
Found at i:6716520 original size:20 final size:21
Alignment explanation
Indices: 6716495--6716533 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6716485 ATAAATGAAT
*
6716495 TGAAAAA-AAATAATTTTTTA
1 TGAAAAAGAAAAAATTTTTTA
6716515 TGAAAAAGAAAAAATTTTT
1 TGAAAAAGAAAAAATTTTT
6716534 ATAACCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (21 bp):
TGAAAAAGAAAAAATTTTTTA
Found at i:6716534 original size:20 final size:20
Alignment explanation
Indices: 6716495--6716535 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
6716485 ATAAATGAAT
*
6716495 TGAAAAAAAATAATTTTTTA
1 TGAAAAAAAATAAATTTTTA
6716515 TGAAAAAGAAA-AAATTTTTA
1 TGAAAAA-AAATAAATTTTTA
6716535 T
1 T
6716536 AACCTGTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (20 bp):
TGAAAAAAAATAAATTTTTA
Found at i:6719977 original size:22 final size:21
Alignment explanation
Indices: 6719928--6719991 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 21
6719918 CAACCAAGTA
* *
6719928 TATATATAATT-ATTTTTAAT
1 TATATATATTTAATTTTTATT
6719948 TA-AT-TATTTAATTTTGTATT
1 TATATATATTTAATTTT-TATT
6719968 TATATATATTTAATTTTATATT
1 TATATATATTTAATTTT-TATT
6719990 TA
1 TA
6719992 CATTAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 4 0.11
19 7 0.19
20 7 0.19
21 2 0.05
22 17 0.46
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TATATATATTTAATTTTTATT
Found at i:6721010 original size:41 final size:41
Alignment explanation
Indices: 6720927--6721010 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 41
6720917 TCAATTAAAA
* ** *
6720927 AAAAGTTTTGAATAATTAAAATTTTTAAAATAAATATCTTT
1 AAAAGATTTGAATAACCAAAATTTTTAAAATAAATATATTT
* * * *
6720968 AAAAGATTTGAATAACCAATATTTTTTAAATACATTTATTT
1 AAAAGATTTGAATAACCAAAATTTTTAAAATAAATATATTT
6721009 AA
1 AA
6721011 TCCTTAAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (41 bp):
AAAAGATTTGAATAACCAAAATTTTTAAAATAAATATATTT
Found at i:6721011 original size:433 final size:433
Alignment explanation
Indices: 6720180--6721056 Score: 1485
Period size: 433 Copynumber: 2.0 Consensus size: 433
6720170 AGCTTCCATA
*
6720180 TAAAT-AAAT-TTTATCAGGTTTCTATATATATTGTAATATAATATTATATATGATTAGATATAT
1 TAAATAAAATCTTTATCAGATTTCTATATATATTGTAATATAATATTATATATGATTAGATATAT
* *
6720243 TAGATTCACTTTGATTTAGATTAATAAAAATATTATCTCTGATTAGGTCTCATATTGTGCAATTG
66 TAGATTCACTTTGATTTAGATTAATAAAAAAATTATCTCTGATTAGGTCTCATATTGTGCAACTG
* * * *
6720308 TAATCCAATTTACTTTATATTGGTTTTATTTGATTGGTTTATCTATTAGTAATTTTTAGTGTGAA
131 TAATCCAATTCAATTTATATTGGTTTTATTTGATTGATTTATCTATTAGTAATTTTTAATGTGAA
6720373 TATATACTATTTATGTTGAAAATATTTACTATATTTATAATTTTTACTTGCAATACAACTTTTAA
196 TATATACTATTTATGTTGAAAATATTTACTATATTTATAATTTTTACTTGCAATACAACTTTTAA
*
6720438 GATATATCCAAAAAAGGTATATTTGATAGATAAAAATGGTTTTTTTCAGTTAAAAAAAGTTTTGA
261 GATATATCCAAAAAAGGTATATTTGATAGATAAAAATGGTTTTTTTCAATTAAAAAAAGTTTTGA
*
6720503 ATAATTAAAATTTTTTAAATAAATATATCTTAAAAAGATTTGAATAAACAATATTTTTTAAATAC
326 ATAATTAAAATTTTTAAAATAAATATATCTTAAAAAGATTTGAATAAACAATATTTTTTAAATAC
6720568 ATTTATTTAATCCTTAAATAAAAAAGAATTAATTTTACTTATT
391 ATTTATTTAATCCTTAAATAAAAAAGAATTAATTTTACTTATT
* * * *
6720611 TAAATAAAATCTTTATCATATTTTTATGTATGTTGTAATATAATATTATATATGATTAGATATAT
1 TAAATAAAATCTTTATCAGATTTCTATATATATTGTAATATAATATTATATATGATTAGATATAT
* *
6720676 TAGATTCACTTTGATTTAGATTAATAAAAAAAATTATCTTTGATTAGGTCTCATATTGTGCGACT
66 TAGATTCACTTTGATTTAGATTAAT-AAAAAAATTATCTCTGATTAGGTCTCATATTGTGCAACT
6720741 GTAATCCAATTCAATTTATATTGGTTTTATTTGATTGATTTATCTATTAGTAATTTTTAATGTGA
130 GTAATCCAATTCAATTTATATTGGTTTTATTTGATTGATTTATCTATTAGTAATTTTTAATGTGA
* * * * *
6720806 ATATATACTATTTATGTTTAAAATATTTACTGTATTTATAATTTTTTCTTGTAATACAACTTTTG
195 ATATATACTATTTATGTTGAAAATATTTACTATATTTATAATTTTTACTTGCAATACAACTTTTA
6720871 AGATATATCCAAAAAA-GTATATTTGATAGATAAAAATGGTTTTTTTTCAATTAAAAAAAAGTTT
260 AGATATATCCAAAAAAGGTATATTTGATAGATAAAAATGG-TTTTTTTCAATT-AAAAAAAGTTT
* *
6720935 TGAATAATTAAAATTTTTAAAAT-AA-ATATCTTTAAAAGATTTGAATAACCAATATTTTTTAAA
323 TGAATAATTAAAATTTTTAAAATAAATATATCTTAAAAAGATTTGAATAAACAATATTTTTTAAA
*
6720998 TACATTTATTTAATCCTTAAATAAAAAAGAATTAGTTTTACTTATT
388 TACATTTATTTAATCCTTAAATAAAAAAGAATTAATTTTACTTATT
6721044 TAAATAAAATCTT
1 TAAATAAAATCTT
6721057 ACCCAAAAAA
Statistics
Matches: 418, Mismatches: 23, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
431 5 0.01
432 4 0.01
433 191 0.46
434 185 0.44
435 33 0.08
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (433 bp):
TAAATAAAATCTTTATCAGATTTCTATATATATTGTAATATAATATTATATATGATTAGATATAT
TAGATTCACTTTGATTTAGATTAATAAAAAAATTATCTCTGATTAGGTCTCATATTGTGCAACTG
TAATCCAATTCAATTTATATTGGTTTTATTTGATTGATTTATCTATTAGTAATTTTTAATGTGAA
TATATACTATTTATGTTGAAAATATTTACTATATTTATAATTTTTACTTGCAATACAACTTTTAA
GATATATCCAAAAAAGGTATATTTGATAGATAAAAATGGTTTTTTTCAATTAAAAAAAGTTTTGA
ATAATTAAAATTTTTAAAATAAATATATCTTAAAAAGATTTGAATAAACAATATTTTTTAAATAC
ATTTATTTAATCCTTAAATAAAAAAGAATTAATTTTACTTATT
Found at i:6721451 original size:16 final size:17
Alignment explanation
Indices: 6721421--6721453 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
6721411 GAATGCCACG
6721421 TTAATTCATATGTCATA
1 TTAATTCATATGTCATA
6721438 TTAATTCA-ATGTCATA
1 TTAATTCATATGTCATA
6721454 AGGATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (17 bp):
TTAATTCATATGTCATA
Found at i:6726461 original size:167 final size:168
Alignment explanation
Indices: 6726175--6726510 Score: 559
Period size: 167 Copynumber: 2.0 Consensus size: 168
6726165 CCATACAAGG
6726175 AGGGGATCGATTGATTTTCATGAAATTTGCACGAAAAAGCTTTTTGGCAAAAAAATCAATGAATC
1 AGGGGATCGATTGATTTTCATGAAATTTGCACGAAAAAGCTTTTTGGCAAAAAAATCAATGAATC
* *
6726240 CTCTTGAGGGGGGATCGATCCTTTCTACGCTACTTTGCCTAATTTTTCTTTAAATCATGCCAAAT
66 CCCTTGAAGGGGGATCGATCCTTTCTACGCTACTTTGCCTAATTTTTCTTTAAATCATGCCAAAT
* * * *
6726305 -GAATTTGAACATTTTCTTGATTGGATTAAAAGTTGAA
131 GGAAATTGAACATGTTCTTGACTGGATTAAAAGCTGAA
*
6726342 AGGGGATCGATTGATTTTCATGAAATTTGCACGAAAAAGCTTTTTGGCCAAAAAATCAATGAATC
1 AGGGGATCGATTGATTTTCATGAAATTTGCACGAAAAAGCTTTTTGGCAAAAAAATCAATGAATC
* * *
6726407 CCCTTGAAGGGGGATCGATCC-TTCTATGCTACTTTGCCTAATTTTATTTTTAAATCATGCCAGA
66 CCCTTGAAGGGGGATCGATCCTTTCTACGCTACTTTGCCTAATTTT-TCTTTAAATCATGCCAAA
6726471 TGGAAATTGAACATGTTCTTGACTGGATTAAAAGCTGAA
130 TGGAAATTGAACATGTTCTTGACTGGATTAAAAGCTGAA
6726510 A
1 A
6726511 AAGTATTTAA
Statistics
Matches: 157, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
166 23 0.15
167 100 0.64
168 34 0.22
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (168 bp):
AGGGGATCGATTGATTTTCATGAAATTTGCACGAAAAAGCTTTTTGGCAAAAAAATCAATGAATC
CCCTTGAAGGGGGATCGATCCTTTCTACGCTACTTTGCCTAATTTTTCTTTAAATCATGCCAAAT
GGAAATTGAACATGTTCTTGACTGGATTAAAAGCTGAA
Found at i:6727065 original size:15 final size:15
Alignment explanation
Indices: 6727047--6727077 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6727037 TATAATAAAC
*
6727047 TTAAAGTTCATGCCA
1 TTAAAGTTCATACCA
6727062 TTAAAGTTCATACCA
1 TTAAAGTTCATACCA
6727077 T
1 T
6727078 AATATGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (15 bp):
TTAAAGTTCATACCA
Found at i:6729061 original size:21 final size:21
Alignment explanation
Indices: 6729031--6729074 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6729021 ATTTAAAACC
*
6729031 ATGCAACATA-ACTATTCAAAT
1 ATGCAACATATAAT-TTCAAAT
*
6729052 ATGCATCATATAATTTCAAAT
1 ATGCAACATATAATTTCAAAT
6729073 AT
1 AT
6729075 AATCATAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (21 bp):
ATGCAACATATAATTTCAAAT
Found at i:6732160 original size:12 final size:12
Alignment explanation
Indices: 6732145--6732173 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6732135 TCCTTGAATT
6732145 GAGTCTTGTCTC
1 GAGTCTTGTCTC
6732157 GAGTCTTGTCTC
1 GAGTCTTGTCTC
6732169 GAGTC
1 GAGTC
6732174 ATGTGTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.24, G:0.28, T:0.38
Consensus pattern (12 bp):
GAGTCTTGTCTC
Found at i:6736279 original size:17 final size:18
Alignment explanation
Indices: 6736236--6736289 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 18
6736226 TAATAGAACT
6736236 AAAATTAAATACCAAAAATC
1 AAAATTAAA-ACC-AAAATC
* *
6736256 AAAATTAGAACTAAAATC
1 AAAATTAAAACCAAAATC
6736274 -AAATTAAAACCAAAAT
1 AAAATTAAAACCAAAAT
6736290 TAAAGCAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 14 0.47
18 6 0.20
19 2 0.07
20 8 0.27
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.20
Consensus pattern (18 bp):
AAAATTAAAACCAAAATC
Found at i:6736291 original size:29 final size:30
Alignment explanation
Indices: 6736250--6736312 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
6736240 TTAAATACCA
* *
6736250 AAAATCAAAATTAGAA-CTAAAATC-AAATT
1 AAAACCAAAATTA-AAGCAAAAATCAAAATT
6736279 AAAACCAAAATTAAAGCAAAAATCAAAATT
1 AAAACCAAAATTAAAGCAAAAATCAAAATT
6736309 AAAA
1 AAAA
6736313 TTTTTTGGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 19 0.63
30 9 0.30
ACGTcount: A:0.67, C:0.11, G:0.03, T:0.19
Consensus pattern (30 bp):
AAAACCAAAATTAAAGCAAAAATCAAAATT
Found at i:6736654 original size:43 final size:43
Alignment explanation
Indices: 6736606--6736795 Score: 170
Period size: 43 Copynumber: 4.4 Consensus size: 43
6736596 TCCTATATAG
* *
6736606 AGGCTAAAAAACTTTAAATTAAGAAATGGGCCCCCTTATACAA
1 AGGCTAAACAACTTTAAATTAAGAAATGGACCCCCTTATACAA
* * * *
6736649 AGGCTAAACAACATTAAATTAAAAAATGAGATCCCC-GATACAA
1 AGGCTAAACAACTTTAAATTAAGAAATG-GACCCCCTTATACAA
* * * **
6736692 AGGCTAAATAACTTTTAATTAAGAAATGGACTCTTTTATACAGA
1 AGGCTAAACAACTTTAAATTAAGAAATGGACCCCCTTATACA-A
* * * * * *
6736736 A-GCTAAACAACATTAAATTAATAAAT-GAGCTCCTCTATATAG
1 AGGCTAAACAACTTTAAATTAAGAAATGGACCCCCT-TATACAA
*
6736778 AGGCTAAATAACTTTAAA
1 AGGCTAAACAACTTTAAA
6736796 AGCTTTAAAT
Statistics
Matches: 114, Mismatches: 28, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
42 7 0.06
43 100 0.88
44 7 0.06
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (43 bp):
AGGCTAAACAACTTTAAATTAAGAAATGGACCCCCTTATACAA
Found at i:6736751 original size:86 final size:86
Alignment explanation
Indices: 6736606--6736795 Score: 256
Period size: 86 Copynumber: 2.2 Consensus size: 86
6736596 TCCTATATAG
* *
6736606 AGGCTAAAAAACTTTAAATTAAGAAATGGGCCCCCTTATACAAAGGCTAAACAACATTAAATTAA
1 AGGCTAAATAACTTTAAATTAAGAAATGGACCCCCTTATACAAAGGCTAAACAACATTAAATTAA
6736671 AAAATGAGATCCCCGATACAA
66 AAAATGAGATCCCCGATACAA
* * **
6736692 AGGCTAAATAACTTTTAATTAAGAAATGGACTCTTTTATACAGAA-GCTAAACAACATTAAATTA
1 AGGCTAAATAACTTTAAATTAAGAAATGGACCCCCTTATACA-AAGGCTAAACAACATTAAATTA
* * * * * *
6736756 ATAAATGAGCTCCTCTATATAG
65 AAAAATGAGATCCCCGATACAA
6736778 AGGCTAAATAACTTTAAA
1 AGGCTAAATAACTTTAAA
6736796 AGCTTTAAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 88 0.98
87 2 0.02
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (86 bp):
AGGCTAAATAACTTTAAATTAAGAAATGGACCCCCTTATACAAAGGCTAAACAACATTAAATTAA
AAAATGAGATCCCCGATACAA
Found at i:6737080 original size:17 final size:17
Alignment explanation
Indices: 6737013--6737104 Score: 58
Period size: 17 Copynumber: 5.2 Consensus size: 17
6737003 AATTTCAAAT
*
6737013 TTCACAAAGATTCCAAAA
1 TTCACAAAGATTCC-AGA
* *
6737031 GTTCATAAATGATTCAAGA
1 -TTCACAAA-GATTCCAGA
** * *
6737050 TTTTCAGAGGTTCCAGA
1 TTCACAAAGATTCCAGA
*
6737067 TTCACAAAGATTCCAAGT
1 TTCACAAAGATTCC-AGA
* *
6737085 TTCACAAAGGTTTCAGA
1 TTCACAAAGATTCCAGA
6737102 TTC
1 TTC
6737105 GTAAATATTT
Statistics
Matches: 54, Mismatches: 17, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
17 22 0.41
18 18 0.33
19 9 0.17
20 5 0.09
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.30
Consensus pattern (17 bp):
TTCACAAAGATTCCAGA
Found at i:6737096 original size:35 final size:35
Alignment explanation
Indices: 6737057--6737158 Score: 96
Period size: 35 Copynumber: 2.9 Consensus size: 35
6737047 AGATTTTCAG
*
6737057 AGGTTCCAGATTCACAAAGATTCCAAGTTTCACAA
1 AGGTTCCAGATTCGCAAAGATTCCAAGTTTCACAA
* * * * **
6737092 AGGTTTCAGATTCGTAAATATTTCAAGTTTCGTAA
1 AGGTTCCAGATTCGCAAAGATTCCAAGTTTCACAA
* * * * *
6737127 ATGCTCCAGATTCGCAAGGGTTCCAAGATTCA
1 AGGTTCCAGATTCGCAAAGATTCCAAGTTTCA
6737159 TAAAAATTTT
Statistics
Matches: 50, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (35 bp):
AGGTTCCAGATTCGCAAAGATTCCAAGTTTCACAA
Found at i:6737173 original size:18 final size:18
Alignment explanation
Indices: 6737152--6737186 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6737142 AAGGGTTCCA
*
6737152 AGATTCATAAAAATTTTT
1 AGATTCACAAAAATTTTT
*
6737170 AGATTCACAAGAATTTT
1 AGATTCACAAAAATTTT
6737187 CAAATTTGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (18 bp):
AGATTCACAAAAATTTTT
Found at i:6737229 original size:17 final size:17
Alignment explanation
Indices: 6737207--6737240 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6737197 ATAATGGAAG
*
6737207 ATTCACAAGTTTTTCAA
1 ATTCACAAGATTTTCAA
6737224 ATTCACAAGATTTTCAA
1 ATTCACAAGATTTTCAA
6737241 GTTGGCAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (17 bp):
ATTCACAAGATTTTCAA
Found at i:6737249 original size:17 final size:17
Alignment explanation
Indices: 6737212--6737284 Score: 67
Period size: 17 Copynumber: 4.3 Consensus size: 17
6737202 GGAAGATTCA
* * *
6737212 CAAGTTTTTCAAATTCA
1 CAAGATTTTCAAGTTCG
*
6737229 CAAGATTTTCAAGTTGG
1 CAAGATTTTCAAGTTCG
* *
6737246 CAAGAGTTTT-AGGTTCT
1 CAAGA-TTTTCAAGTTCG
*
6737263 CAAGAATTTCAAGTTCG
1 CAAGATTTTCAAGTTCG
6737280 CAAGA
1 CAAGA
6737285 ACTATAGGCT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
16 3 0.07
17 37 0.84
18 4 0.09
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (17 bp):
CAAGATTTTCAAGTTCG
Found at i:6737301 original size:34 final size:34
Alignment explanation
Indices: 6737226--6737317 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 34
6737216 TTTTTCAAAT
* * ** * *
6737226 TCACAAGATTTTCAAGTTGGCAAGAGTTTTAGGT
1 TCACAAGAATTTCAAGTTCGCAAGAACTATAGGC
*
6737260 TCTCAAGAATTTCAAGTTCGCAAGAACTATAGGC
1 TCACAAGAATTTCAAGTTCGCAAGAACTATAGGC
* *
6737294 TCACAAGAACTT-AAATTCGCAAGA
1 TCACAAGAATTTCAAGTTCGCAAGA
6737318 GTTTAGTTTC
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 11 0.23
34 37 0.77
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (34 bp):
TCACAAGAATTTCAAGTTCGCAAGAACTATAGGC
Found at i:6737397 original size:34 final size:34
Alignment explanation
Indices: 6737345--6737418 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
6737335 CAAAAATGGA
* *
6737345 ATATTCGTAAAAACTTTAGATTCGCAAGAATTTC
1 ATATTCGTAAAAAATTTAGATTCACAAGAATTTC
* *
6737379 ATATTCG-AAAGAAATTTAGTTTCATAAGAATTTC
1 ATATTCGTAAA-AAATTTAGATTCACAAGAATTTC
*
6737413 AAATTC
1 ATATTC
6737419 TTGAGGATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 3 0.09
34 31 0.91
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (34 bp):
ATATTCGTAAAAAATTTAGATTCACAAGAATTTC
Found at i:6737750 original size:23 final size:22
Alignment explanation
Indices: 6737723--6737765 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6737713 TCAAATATTT
6737723 ACATTCGAAAAAATTAAAGATTC
1 ACATTC-AAAAAATTAAAGATTC
**
6737746 ACATTCAAAATTTTAAAGAT
1 ACATTCAAAAAATTAAAGAT
6737766 CAAAATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (22 bp):
ACATTCAAAAAATTAAAGATTC
Found at i:6737761 original size:22 final size:22
Alignment explanation
Indices: 6737697--6737765 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 22
6737687 AAACTTTGAT
* *
6737697 GATTCACA-TCCAAATTTCAAA
1 GATTCACATTCAAAATTTTAAA
* * **
6737718 TATTTACATTCGAAAAAATTAAA
1 GATTCACATTC-AAAATTTTAAA
6737741 GATTCACATTCAAAATTTTAAA
1 GATTCACATTCAAAATTTTAAA
6737763 GAT
1 GAT
6737766 CAAAATTTCA
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
21 6 0.17
22 14 0.39
23 16 0.44
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (22 bp):
GATTCACATTCAAAATTTTAAA
Found at i:6737770 original size:15 final size:15
Alignment explanation
Indices: 6737750--6737780 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6737740 AGATTCACAT
*
6737750 TCAAAATTTTAAAGA
1 TCAAAATTTCAAAGA
6737765 TCAAAATTTCAAAGA
1 TCAAAATTTCAAAGA
6737780 T
1 T
6737781 TCTTATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (15 bp):
TCAAAATTTCAAAGA
Found at i:6745452 original size:2 final size:2
Alignment explanation
Indices: 6745445--6745471 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6745435 TGCTTAAGTG
6745445 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6745472 AATTGATTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6747517 original size:16 final size:16
Alignment explanation
Indices: 6747498--6747528 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6747488 TGTGATAACA
*
6747498 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
6747514 TATCCTTAACAATTG
1 TATCCTTAACAATTG
6747529 ATATGAGCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:6750128 original size:12 final size:11
Alignment explanation
Indices: 6750098--6750131 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
6750088 TCCATGATCA
*
6750098 AAATAAATAAT
1 AAATAAAAAAT
6750109 AAATAAAAAAT
1 AAATAAAAAAT
6750120 AAGATAAAAAAT
1 AA-ATAAAAAAT
6750132 TGTACTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:6751959 original size:17 final size:18
Alignment explanation
Indices: 6751949--6751983 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6751939 AAAATCAAAT
* *
6751949 TAAAAGCAAAATTAAAGC
1 TAAAATCAAAATTAAAAC
6751967 TAAAATCAAAATTAAAA
1 TAAAATCAAAATTAAAA
6751984 ATTTTCAAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.09, G:0.06, T:0.20
Consensus pattern (18 bp):
TAAAATCAAAATTAAAAC
Found at i:6751959 original size:29 final size:30
Alignment explanation
Indices: 6751921--6751983 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 30
6751911 TTAAAGACCA
*
6751921 AAAATCAAAATTAGAA-CTAAAATC-AAATT
1 AAAAGCAAAATTA-AAGCTAAAATCAAAATT
6751950 AAAAGCAAAATTAAAGCTAAAATCAAAATT
1 AAAAGCAAAATTAAAGCTAAAATCAAAATT
6751980 AAAA
1 AAAA
6751984 ATTTTCAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
28 2 0.06
29 20 0.65
30 9 0.29
ACGTcount: A:0.65, C:0.10, G:0.05, T:0.21
Consensus pattern (30 bp):
AAAAGCAAAATTAAAGCTAAAATCAAAATT
Found at i:6758307 original size:35 final size:35
Alignment explanation
Indices: 6758254--6758323 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
6758244 TGTATATGTC
* *
6758254 AAGTCAGTTGTACGTTTATGCCCAGAAAATATTTG
1 AAGTCAGTTGTACATTTATGCCCAAAAAATATTTG
* *
6758289 AAGTTAGTTGTATATTTATGCCCAAAAAATATTTG
1 AAGTCAGTTGTACATTTATGCCCAAAAAATATTTG
6758324 GTTTATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (35 bp):
AAGTCAGTTGTACATTTATGCCCAAAAAATATTTG
Found at i:6761559 original size:25 final size:25
Alignment explanation
Indices: 6761520--6761594 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 25
6761510 ATGTGTTTAG
6761520 AAACACC-TTTCAGCAAACCATTCAA
1 AAACACCATTT-AGCAAACCATTCAA
* * *
6761545 AAATACTATTTAGCAAACCATTCAG
1 AAACACCATTTAGCAAACCATTCAA
6761570 AAACACCATTTAGCAAACCATTCAA
1 AAACACCATTTAGCAAACCATTCAA
6761595 CATACGATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 40 0.93
26 3 0.07
ACGTcount: A:0.45, C:0.27, G:0.05, T:0.23
Consensus pattern (25 bp):
AAACACCATTTAGCAAACCATTCAA
Found at i:6761591 original size:12 final size:12
Alignment explanation
Indices: 6761552--6761591 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
6761542 CAAAAATACT
6761552 ATTTAGCAAACC
1 ATTTAGCAAACC
* *
6761564 ATTCAGAAACACC
1 ATTTAGCAA-ACC
6761577 ATTTAGCAAACC
1 ATTTAGCAAACC
6761589 ATT
1 ATT
6761592 CAACATACGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.25
Consensus pattern (12 bp):
ATTTAGCAAACC
Found at i:6762610 original size:187 final size:185
Alignment explanation
Indices: 6762294--6763573 Score: 1220
Period size: 187 Copynumber: 6.9 Consensus size: 185
6762284 ATGTATTATG
* * * **
6762294 CAAAAAACGCCTTCAATAATTATGAACAAAAATTATAAGGAATTAGTAAAGGCATTTTCCTATTA
1 CAAAAAACGCCTTCAATAATTATGTACATAAATTAAAAGGAATTAGTAAAGGCATTTTCCTAGAA
* * * * * *
6762359 TAAACGTCTTTACTAACTATCATAAAATTTGAGTAGTGAAATATTTAAGGCATTTTTCACTAGAA
66 TAAATGCCTTCACTAAC-ATCTTAAAATTTGAGTAGTGAAATATTGAAGGCGTTTTTCACTAGAA
** * * *
6762424 GATACATTTAATAATCCCAAAAATTTTTAAAAGAAAATTATTGAAGGCATTTATTTT
130 GACGCCTTTAATAATCCCAAAAATTTTTAAAA-AAAATTATTGAAGGCATTTGTTCT
* * * * *
6762481 CAAAAAACACCTTTAATAATTATGAACAAAAATTAAAAAGAATTAGTAAAGGCATTTTCCTAGAA
1 CAAAAAACGCCTTCAATAATTATGTACATAAATTAAAAGGAATTAGTAAAGGCATTTTCCTAGAA
** * * * *
6762546 TAAACACCTTCACTAATCATCTTAAAATTTGAATAGTAAAATATTGAAAGCGTTTTTTACTAGAA
66 TAAATGCCTTCACTAA-CATCTTAAAATTTGAGTAGTGAAATATTGAAGGCGTTTTTCACTAGAA
* * * * *
6762611 GACGCCTTTAATGATCCTAAATAACTTTTAAAAGGAAATTATTGAAGGCACTTGTTCT
130 GACGCCTTTAATAATCCCAAA-AATTTTTAAAA-AAAATTATTGAAGGCATTTGTTCT
* * * * * *
6762669 CAAAAAATGCCTTCACTAATTATGTACATAAGTTAAAAGCAATTAATAAAGGCATTTTCCTGGAA
1 CAAAAAACGCCTTCAATAATTATGTACATAAATTAAAAGGAATTAGTAAAGGCATTTTCCTAGAA
* ** * * * *
6762734 TAAATGCCTTCACTAACCATCTTAAATTTTGAAAAATGGAATATTGAAGGTGTTTTTCACTTGAA
66 TAAATGCCTTCACTAA-CATCTTAAAATTTGAGTAGTGAAATATTGAAGGCGTTTTTCACTAGAA
* * * * *
6762799 GATGCCTTTAATAGTGCCAAAAAATTTTTAAAAAAATTTATTAAAGGCATTT-TTCT
130 GACGCCTTTAATAAT-CCCAAAAATTTTTAAAAAAAATTATTGAAGGCATTTGTTCT
** * * * *
6762855 -AGAATAAATACATTCACTAATTATGTACATAAATTAAAAGGAATTAGTAAAGGCGTTTTCCT-T
1 CA-AA-AAACGCCTTCAATAATTATGTACATAAATTAAAAGGAATTAGTAAAGGCATTTTCCTAG
* * **
6762918 AATAAATGCC-TCTACTAACCATTTTAAAATTTGAGTAGT-AGAATATTTAAGGTATTTTTCACT
64 AATAAATGCCTTC-ACTAA-CATCTTAAAATTTGAGTAGTGA-AATATTGAAGGCGTTTTTCACT
* * ** * *
6762981 ACAAAATACCTTTAATAATCTCAAAAATTTTTAAAAGAAAATTATTGAAGTCATTTGTTCT
126 AGAAGACGCCTTTAATAATCCCAAAAATTTTTAAAA-AAAATTATTGAAGGCATTTGTTCT
* * * * *
6763042 TAAAAAACG-CTTGCAGTAATTAGGTACATAAATTAAAAGGAAATT-TTAAAGGCATTTTCCTGG
1 CAAAAAACGCCTT-CAATAATTATGTACATAAATTAAAAGG-AATTAGTAAAGGCATTTTCCTAG
* * * ** *
6763105 AATCAATGCCTTCACTAACTGTCTTAACATTTGAGTAGTGAAATATTGAAGGTATTTTTTACTAG
64 AATAAATGCCTTCACTAAC-ATCTTAAAATTTGAGTAGTGAAATATTGAAGGCGTTTTTCACTAG
**
6763170 AAGACGCCTTTAATAATCCCAAACAATTTTTTAAAAAAAATTATTGAAGGTGTTTGTTCT
128 AAGACGCCTTTAATAATCCCAAA-AA-TTTTTAAAAAAAATTATTGAAGGCATTTGTTCT
* * * * ** * *
6763230 AAAAAAATGCCTTCAATAATTAGGTACA-AAATTAAAAGAAATTTTTAAAAGCATTTTTCT-GAA
1 CAAAAAACGCCTTCAATAATTATGTACATAAATTAAAAGGAATTAGTAAAGGCATTTTCCTAG-A
* * * * ** * *
6763293 ATAAACGCATTCACTAACTGTTTTAAAATTTGAGT-GTTGGGATATTAAAGGCATTTTTCACTAG
65 ATAAATGCCTTCACTAAC-ATCTTAAAATTTGAGTAG-TGAAATATTGAAGGCGTTTTTCACTAG
* * * *
6763357 AAGACGCCTTTAATAATCTCAAATAA-TTTTAAAAAAAATTATTGAAGCCATTTATTTT
128 AAGACGCCTTTAATAATCCCAAA-AATTTTTAAAAAAAATTATTGAAGGCATTTGTTCT
** * * * *
6763415 C-AAAAACGCCTTCAATAA--ATACACCATAAATTCAAAGGAATTAGTGAAGGTATTTTTCTAGA
1 CAAAAAACGCCTTCAATAATTATGTA-CATAAATTAAAAGGAATTAGTAAAGGCATTTTCCTAGA
** * * *
6763477 ATAAATGCCTTCACTAATTGTTTTAAAATTTGAGTAGTGAAATATAGAAGGTGTTTTTCACTAGA
65 ATAAATGCCTTCACTAA-CATCTTAAAATTTGAGTAGTGAAATATTGAAGGCGTTTTTCACTAGA
* * **
6763542 AGACACCTTTAATAATCCTAAATTTTTTTAAA
129 AGACGCCTTTAATAATCCCAAAAATTTTTAAA
6763574 GGAAGTTAGT
Statistics
Matches: 911, Mismatches: 154, Indels: 59
0.81 0.14 0.05
Matches are distributed among these distances:
182 2 0.00
183 2 0.00
184 121 0.13
185 49 0.05
186 136 0.15
187 375 0.41
188 209 0.23
189 17 0.02
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (185 bp):
CAAAAAACGCCTTCAATAATTATGTACATAAATTAAAAGGAATTAGTAAAGGCATTTTCCTAGAA
TAAATGCCTTCACTAACATCTTAAAATTTGAGTAGTGAAATATTGAAGGCGTTTTTCACTAGAAG
ACGCCTTTAATAATCCCAAAAATTTTTAAAAAAAATTATTGAAGGCATTTGTTCT
Found at i:6763115 original size:373 final size:369
Alignment explanation
Indices: 6762295--6763573 Score: 1315
Period size: 373 Copynumber: 3.4 Consensus size: 369
6762285 TGTATTATGC
* * * * ***
6762295 AAAAAACGCCTTCAATAATTATGAACAAAAATTATAAGGAATTAGTAAAGGCATTTTCCTATTAT
1 AAAAAACGCCTTCAATAATTA-GTACATAAATTAAAAGGAATTAATAAAGGCATTTTCCTGGAAT
* * * * * * **
6762360 AAACGTCTTTACTAACTATCATAAAATTTGAGTAGTGAAATATTTAAGGCATTTTTCACTAGAAG
65 AAATGCCTTCACTAACTGTC-TTAAATTTGAGTAGTGAAATATTGAAGGTGTTTTTCACTAGAAG
* * * * *
6762425 ATACATTTAATAATCCCAAAAATTTTTAAAAGAAAATTATTGAAGGCATTTATTTTCAAAAAACA
129 ACACCTTTAATAATCCAAAAAATTTTTAAAA-AAAATTATTGAAGGCATTTATTCT-AAAAAATA
* * * * *
6762490 CCTTTAATAATTATGAACAAAAATTAAAAAGAATTAGTAAAGGCATTTTCCTAGAATAAACACCT
192 CCTTCAATAATTATGTAC-AAAATTAAAAGGAATTAGTAAAGGCATTTTCCTAAAATAAACGCCT
* * * *
6762555 TCACTAATCATCTTAAAATTTGAATAGTAAAATATTGAAAGCGT-TTTTT-ACTAGAAGACGCCT
256 TCACTAACCATTTTAAAATTTGAGTAGTAGAATATT-AAAG-GTATTTTTCACTAGAAGACGCCT
* * * * *
6762618 TTAATGATC-CTAAATAACTTTTAAAAGGAAATTATTGAAGGCACTTGTTCTC
319 TTAATAATCTC-AAATAA-TTTTAAAAGAAAATTATTGAAGCCATTTGTTCTT
* * * *
6762670 AAAAAATGCCTTCACTAATTATGTACATAAGTTAAAAGCAATTAATAAAGGCATTTTCCTGGAAT
1 AAAAAACGCCTTCAATAATTA-GTACATAAATTAAAAGGAATTAATAAAGGCATTTTCCTGGAAT
** ** * * *
6762735 AAATGCCTTCACTAACCATCTTAAATTTTGAAAAATGGAATATTGAAGGTGTTTTTCACTTGAAG
65 AAATGCCTTCACTAACTGTCTTAAA-TTTGAGTAGTGAAATATTGAAGGTGTTTTTCACTAGAAG
** * * *
6762800 ATGCCTTTAATAGTGCCAAAAAATTTTTAAAAAAATTTATTAAAGGCATTT-TTCTAGAATAAAT
129 ACACCTTTAATAAT-CCAAAAAATTTTTAAAAAAAATTATTGAAGGCATTTATTCTA-AA-AAAT
* * * * *
6762864 ACATTCACTAATTATGTACATAAATTAAAAGGAATTAGTAAAGGCGTTTTCCT-TAATAAATGCC
191 ACCTTCAATAATTATGTACA-AAATTAAAAGGAATTAGTAAAGGCATTTTCCTAAAATAAACGCC
* * * **
6762928 -TCTACTAACCATTTTAAAATTTGAGTAGTAGAATATTTAAGGTATTTTTCACTACAAAATACCT
255 TTC-ACTAACCATTTTAAAATTTGAGTAGTAGAATATTAAAGGTATTTTTCACTAGAAGACGCCT
*
6762992 TTAATAATCTCAAA-AATTTTTAAAAGAAAATTATTGAAGTCATTTGTTCTT
319 TTAATAATCTCAAATAA-TTTTAAAAGAAAATTATTGAAGCCATTTGTTCTT
* *
6763043 AAAAAACG-CTTGCAGTAATTAGGTACATAAATTAAAAGGAAATT-TTAAAGGCATTTTCCTGGA
1 AAAAAACGCCTT-CAATAATTA-GTACATAAATTAAAAGG-AATTAATAAAGGCATTTTCCTGGA
* * *
6763106 ATCAATGCCTTCACTAACTGTCTTAACATTTGAGTAGTGAAATATTGAAGGTATTTTTTACTAGA
63 ATAAATGCCTTCACTAACTGTCTTAA-ATTTGAGTAGTGAAATATTGAAGGTGTTTTTCACTAGA
* * ** *
6763171 AGACGCCTTTAATAATCCCAAACAATTTTTTAAAAAAAATTATTGAAGGTGTTTGTTCTAAAAAA
127 AGACACCTTTAATAAT-CCAAA-AAATTTTTAAAAAAAATTATTGAAGGCATTTATTCT-AAAAA
* * * ** * * *
6763236 ATGCCTTCAATAATTAGGTACAAAATTAAAAGAAATTTTTAAAAGCATTTTTCTGAAATAAACGC
189 ATACCTTCAATAATTATGTACAAAATTAAAAGGAATTAGTAAAGGCATTTTCCTAAAATAAACGC
* ** * * *
6763301 ATTCACTAACTGTTTTAAAATTTGAGT-GTTGGGATATTAAAGGCATTTTTCACTAGAAGACGCC
254 CTTCACTAACCATTTTAAAATTTGAGTAG-TAGAATATTAAAGGTATTTTTCACTAGAAGACGCC
*
6763365 TTTAATAATCTCAAATAATTTTAAAA-AAAATTATTGAAGCCATTTATT-TT
318 TTTAATAATCTCAAATAATTTTAAAAGAAAATTATTGAAGCCATTTGTTCTT
* * * * * * * * *
6763415 CAAAAACGCCTTCAATAAATA-CACCATAAATTCAAAGGAATTAGTGAAGGTATTTTTCTAGAAT
1 AAAAAACGCCTTCAATAATTAGTA-CATAAATTAAAAGGAATTAATAAAGGCATTTTCCTGGAAT
* * *
6763479 AAATGCCTTCACTAATTGTTTTAAAATTTGAGTAGTGAAATATAGAAGGTGTTTTTCACTAGAAG
65 AAATGCCTTCACTAACTGTCTT-AAATTTGAGTAGTGAAATATTGAAGGTGTTTTTCACTAGAAG
* **
6763544 ACACCTTTAATAATCCTAAATTTTTTTAAA
129 ACACCTTTAATAATCCAAAAAATTTTTAAA
6763574 GGAAGTTAGT
Statistics
Matches: 757, Mismatches: 124, Indels: 52
0.81 0.13 0.06
Matches are distributed among these distances:
369 10 0.01
370 9 0.01
371 98 0.13
372 23 0.03
373 213 0.28
374 199 0.26
375 188 0.25
376 17 0.02
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (369 bp):
AAAAAACGCCTTCAATAATTAGTACATAAATTAAAAGGAATTAATAAAGGCATTTTCCTGGAATA
AATGCCTTCACTAACTGTCTTAAATTTGAGTAGTGAAATATTGAAGGTGTTTTTCACTAGAAGAC
ACCTTTAATAATCCAAAAAATTTTTAAAAAAAATTATTGAAGGCATTTATTCTAAAAAATACCTT
CAATAATTATGTACAAAATTAAAAGGAATTAGTAAAGGCATTTTCCTAAAATAAACGCCTTCACT
AACCATTTTAAAATTTGAGTAGTAGAATATTAAAGGTATTTTTCACTAGAAGACGCCTTTAATAA
TCTCAAATAATTTTAAAAGAAAATTATTGAAGCCATTTGTTCTT
Found at i:6763585 original size:124 final size:121
Alignment explanation
Indices: 6763448--6763681 Score: 285
Period size: 123 Copynumber: 1.9 Consensus size: 121
6763438 CCATAAATTC
* * ****
6763448 AAAGGAATTAGTGAAGGTATTTTTCTAG-AATAAATGCCTTCACTAATTGTTTTAAAATTTGAGT
1 AAAGGAATTAGTGAAGGTATTTTTCT-GTAATAAACGCCTTCAATAA-CCCCTTAAAATTTGAGT
6763512 AGTGAAATA-TAGAAGGTGTTTT-TCACTAGAAGACACCTTTAATAATCCTAAATTTTTTT
64 AGTGAAATATTA-AAGGTGTTTTCT-AC-AGAAGACACCTTTAATAATCCTAAATTTTTTT
* * *
6763571 AAAGGAAGTTAGTGAAGGTGTTTTTCTGTAATAAGCGCCTTCAATAACCCCTTAAAATTTTAGTA
1 AAAGGAA-TTAGTGAAGGTATTTTTCTGTAATAAACGCCTTCAATAACCCCTTAAAATTTGAGTA
* * *
6763636 GTGTAATATTAAAGGTGTTTTCTACAGAAGACGCCTTTGATAATCC
65 GTGAAATATTAAAGGTGTTTTCTACAGAAGACACCTTTAATAATCC
6763682 CAAAAAAAAT
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
122 19 0.20
123 40 0.42
124 36 0.38
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (121 bp):
AAAGGAATTAGTGAAGGTATTTTTCTGTAATAAACGCCTTCAATAACCCCTTAAAATTTGAGTAG
TGAAATATTAAAGGTGTTTTCTACAGAAGACACCTTTAATAATCCTAAATTTTTTT
Found at i:6763719 original size:123 final size:123
Alignment explanation
Indices: 6763499--6763725 Score: 268
Period size: 123 Copynumber: 1.8 Consensus size: 123
6763489 ACTAATTGTT
*
6763499 TTAAAATTTGAGTAGTGAAATATAGAAGGTGTTTTTCACTAGAAGACACCTTTAATAATCCTAAA
1 TTAAAATTTGAGTAGTGAAATATAGAAGGTGTTTTTCACTAGAAGACACCTTTAATAATCCAAAA
* * *
6763564 TTTTTTTAAAGGAAGTTAGTGAAGGTGTTTTTCT-GTAATAAGCGCCTTCAATAACCCC
66 ATTTTTTAAA-GAAATTAGTGAAGATGTTTTTCTAGTAATAAGCGCCTTCAATAACCCC
* * * *
6763622 TTAAAATTTTAGTAGTGTAATATTA-AAGGTG-TTTTCTAC-AGAAGACGCCTTTGATAATCCCA
1 TTAAAATTTGAGTAGTGAAATA-TAGAAGGTGTTTTTC-ACTAGAAGACACCTTTAATAAT-CC-
*
6763684 AAAAAAATTTTTTAAA-AAATTATTGAAGATG-TTTTCTAGTAA
62 --AAAAATTTTTTAAAGAAATTAGTGAAGATGTTTTTCTAGTAA
6763726 AAAATTGCCT
Statistics
Matches: 88, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
122 22 0.25
123 36 0.41
124 18 0.20
126 12 0.14
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (123 bp):
TTAAAATTTGAGTAGTGAAATATAGAAGGTGTTTTTCACTAGAAGACACCTTTAATAATCCAAAA
ATTTTTTAAAGAAATTAGTGAAGATGTTTTTCTAGTAATAAGCGCCTTCAATAACCCC
Found at i:6775978 original size:19 final size:19
Alignment explanation
Indices: 6775950--6776010 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 19
6775940 TGATCTGATC
6775950 AAAAATATTATTATATTAAT
1 AAAAA-ATTATTATATTAAT
6775970 AAAAAATTATTATATTTTAAT
1 AAAAAATTATTATA--TTAAT
* **
6775991 TAAAAATTAAAATATTAAT
1 AAAAAATTATTATATTAAT
6776010 A
1 A
6776011 TTAAAAAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 14 0.40
20 5 0.14
21 16 0.46
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAAAATTATTATATTAAT
Found at i:6776191 original size:20 final size:19
Alignment explanation
Indices: 6776122--6776193 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
6776112 TGTAAGTATA
*
6776122 TAATAATAT-TTATTATTT
1 TAATAATATAATATTATTT
6776140 TAATAAT-TAATATTA-TT
1 TAATAATATAATATTATTT
6776157 TAATATACTATAATATTATTT
1 TAATA-A-TATAATATTATTT
6776178 TAATAATATGAATATT
1 TAATAATAT-AATATT
6776194 TTTAGTCATT
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
17 8 0.17
18 13 0.28
19 4 0.09
20 15 0.32
21 7 0.15
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (19 bp):
TAATAATATAATATTATTT
Found at i:6776340 original size:15 final size:17
Alignment explanation
Indices: 6776322--6776363 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
6776312 AAATAGATAC
*
6776322 TTTTAATATA-AATTA-
1 TTTTAATATATAAATAT
6776337 TTTTAATAGTATAAATAT
1 TTTTAATA-TATAAATAT
6776355 TTTTAATAT
1 TTTTAATAT
6776364 TTTAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 8 0.35
16 2 0.09
17 5 0.22
18 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTTAATATATAAATAT
Found at i:6776357 original size:17 final size:19
Alignment explanation
Indices: 6776328--6776362 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6776318 ATACTTTTAA
6776328 TATAAATTA-TTTTAATAG
1 TATAAATTATTTTTAATAG
6776346 TATAAA-TATTTTTAATA
1 TATAAATTATTTTTAATA
6776363 TTTTAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TATAAATTATTTTTAATAG
Found at i:6777098 original size:21 final size:23
Alignment explanation
Indices: 6777063--6777136 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 23
6777053 ATATTTTACC
*
6777063 ATTAATTTTATTTTTATTATTAT
1 ATTAATTTTAATTTTATTATTAT
*
6777086 ATT-A-TTTAATTTTATCA-TA-
1 ATTAATTTTAATTTTATTATTAT
6777105 ATTAATTTTAATTTTATTATTATT
1 ATTAATTTTAATTTTATTATTA-T
*
6777129 TTTAATTT
1 ATTAATTT
6777137 CACCGAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
19 3 0.07
20 3 0.07
21 23 0.55
22 3 0.07
23 3 0.07
24 7 0.17
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTAATTTTAATTTTATTATTAT
Found at i:6777415 original size:17 final size:18
Alignment explanation
Indices: 6777395--6777436 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
6777385 ATCCTTATAA
* *
6777395 TTTTATTTTTTTTA-TTT
1 TTTTATTTTCTTTACTAT
*
6777412 TTTTAATTTCTTTACTAT
1 TTTTATTTTCTTTACTAT
6777430 TTTTATT
1 TTTTATT
6777437 ATTTATTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTATTTTCTTTACTAT
Found at i:6777481 original size:23 final size:24
Alignment explanation
Indices: 6777431--6777483 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
6777421 CTTTACTATT
*
6777431 TTTATTATTTATTAATTAACAAAA
1 TTTATTATTTAATAATTAACAAAA
6777455 -TTATTATTTAAT-ATTAA-AATAA
1 TTTATTATTTAATAATTAACAA-AA
6777477 TTTATTA
1 TTTATTA
6777484 AATTTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 7 0.27
23 17 0.65
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTATTATTTAATAATTAACAAAA
Found at i:6777975 original size:25 final size:25
Alignment explanation
Indices: 6777941--6777991 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
6777931 TTTAAATGTT
*
6777941 TGAAATATTT-TAAAAATTATAAAAA
1 TGAAATATTTAAAAAAATTA-AAAAA
6777966 TGAAATATTTAAAAAAATTAAAAAA
1 TGAAATATTTAAAAAAATTAAAAAA
6777991 T
1 T
6777992 TATGAAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
TGAAATATTTAAAAAAATTAAAAAA
Found at i:6778156 original size:19 final size:19
Alignment explanation
Indices: 6778115--6778174 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 19
6778105 AAATTATAAA
6778115 TAAATAAATATAAAATATTTT
1 TAAA-AAATATAAAAT-TTTT
6778136 TAAAAAATATAAAATTTTT
1 TAAAAAATATAAAATTTTT
*
6778155 TAAAAATTATGACAAATTTT
1 TAAAAAATAT-A-AAATTTT
6778175 CATATTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 13 0.36
20 12 0.33
21 11 0.31
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
TAAAAAATATAAAATTTTT
Found at i:6778161 original size:18 final size:20
Alignment explanation
Indices: 6778115--6778160 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
6778105 AAATTATAAA
6778115 TAAATAAATATAAAATATTTT
1 TAAA-AAATATAAAATATTTT
6778136 TAAAAAATATAAAAT-TTTT
1 TAAAAAATATAAAATATTTT
6778155 TAAAAA
1 TAAAAA
6778161 TTATGACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 10 0.40
20 11 0.44
21 4 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAAAATATAAAATATTTT
Found at i:6778281 original size:9 final size:9
Alignment explanation
Indices: 6778260--6778292 Score: 52
Period size: 8 Copynumber: 3.9 Consensus size: 9
6778250 ATTAAAATTA
6778260 AAATTTTTC
1 AAATTTTTC
6778269 -AATTTTTC
1 AAATTTTTC
6778277 AAA-TTTTC
1 AAATTTTTC
6778285 AAATTTTT
1 AAATTTTT
6778293 TAAAAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 16 0.73
9 6 0.27
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (9 bp):
AAATTTTTC
Found at i:6778327 original size:46 final size:47
Alignment explanation
Indices: 6778277--6778409 Score: 109
Period size: 46 Copynumber: 2.9 Consensus size: 47
6778267 TCAATTTTTC
* * *
6778277 AAATTTTCAAATTTTTTAAAAATTGTTGAGAATTT-TTT-TTTTATAT
1 AAATTTTCAAATTTTTTAAAAATTGTTAAG-ATTTCTTTAATTTATAA
* * * *
6778323 AAATTTAT-AGATTTTTTGAAAATTTTTAAGATTTCTTTAATTTGTAA
1 AAATTT-TCAAATTTTTTAAAAATTGTTAAGATTTCTTTAATTTATAA
* *
6778370 AAATTTTCAAAATGTTTT--AAATT-TTAAAATTT-TTTAATTT
1 AAATTTTC-AAATTTTTTAAAAATTGTTAAGATTTCTTTAATTT
6778410 TTTTATGAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
44 8 0.11
45 12 0.17
46 33 0.46
47 12 0.17
48 7 0.10
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (47 bp):
AAATTTTCAAATTTTTTAAAAATTGTTAAGATTTCTTTAATTTATAA
Found at i:6778372 original size:28 final size:27
Alignment explanation
Indices: 6778336--6778433 Score: 74
Period size: 28 Copynumber: 3.6 Consensus size: 27
6778326 TTTATAGATT
* * *
6778336 TTTTGAAAATTTTTAAGAT-TTCTTTAA
1 TTTTAAAAATTTTTAAAATGTT-TTAAA
*
6778363 TTTGTAAAAATTTTCAAAATGTTTTAAA
1 TTT-TAAAAATTTTTAAAATGTTTTAAA
* * *
6778391 TTTT-AAAATTTTTTAATTTTTTTATGAA
1 TTTTAAAAATTTTTAAAATGTTTTA--AA
*
6778419 TTTTAAAAAATTTTA
1 TTTTAAAAATTTTTA
6778434 TTTTCATTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
26 16 0.29
27 4 0.07
28 26 0.46
29 10 0.18
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (27 bp):
TTTTAAAAATTTTTAAAATGTTTTAAA
Found at i:6778404 original size:17 final size:18
Alignment explanation
Indices: 6778370--6778410 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
6778360 TAATTTGTAA
6778370 AAATTTTCAAAATGTTTT
1 AAATTTTCAAAATGTTTT
6778388 AAATTTT-AAAAT-TTTT
1 AAATTTTCAAAATGTTTT
*
6778404 TAATTTT
1 AAATTTT
6778411 TTTATGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.45
17 5 0.23
18 7 0.32
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
AAATTTTCAAAATGTTTT
Found at i:6778411 original size:17 final size:17
Alignment explanation
Indices: 6778371--6778411 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6778361 AATTTGTAAA
*
6778371 AATTTTCAAAATGTTTT
1 AATTTTTAAAATGTTTT
* *
6778388 AAATTTTAAAATTTTTT
1 AATTTTTAAAATGTTTT
6778405 AATTTTT
1 AATTTTT
6778412 TTATGAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
AATTTTTAAAATGTTTT
Found at i:6778543 original size:18 final size:18
Alignment explanation
Indices: 6778520--6778557 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6778510 ATTTTTTTAA
*
6778520 TTTTAACTTTTTATAATT
1 TTTTAAATTTTTATAATT
6778538 TTTTAAATTTTTATAATT
1 TTTTAAATTTTTATAATT
6778556 TT
1 TT
6778558 CAAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTAAATTTTTATAATT
Found at i:6778615 original size:36 final size:37
Alignment explanation
Indices: 6778545--6778619 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
6778535 ATTTTTTAAA
6778545 TTTTTATAATTTTCAAAAATAGTTCATATTTTTTATTT
1 TTTTTATAATTTTCAAAAATAGTTCATA-TTTTTATTT
* ** *
6778583 TTTTTATATTTTTTGAAAATATTTCATA-TTTTATTT
1 TTTTTATAATTTTCAAAAATAGTTCATATTTTTATTT
6778619 T
1 T
6778620 AAAATTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 9 0.27
38 24 0.73
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (37 bp):
TTTTTATAATTTTCAAAAATAGTTCATATTTTTATTT
Found at i:6778631 original size:10 final size:10
Alignment explanation
Indices: 6778616--6778659 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
6778606 TCATATTTTA
6778616 TTTTAAAATT
1 TTTTAAAATT
*
6778626 TTTT--AAGT
1 TTTTAAAATT
*
6778634 TTTTAAAATA
1 TTTTAAAATT
6778644 TTTTAAAATT
1 TTTTAAAATT
6778654 TTTTAA
1 TTTTAA
6778660 TTCTAACTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 7 0.25
10 21 0.75
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:6778655 original size:18 final size:18
Alignment explanation
Indices: 6778615--6778655 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6778605 TTCATATTTT
* *
6778615 ATTTTAAAATTTTTTAAG
1 ATTTTAAAATATTTTAAA
*
6778633 TTTTTAAAATATTTTAAA
1 ATTTTAAAATATTTTAAA
6778651 ATTTT
1 ATTTT
6778656 TTAATTCTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTTTAAAATATTTTAAA
Found at i:6778671 original size:28 final size:27
Alignment explanation
Indices: 6778614--6778665 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
6778604 TTTCATATTT
*
6778614 TATTTTAAAATTTTTTAAGTTTTTAAAA
1 TATTTTAAAATTTTTTAAG-TTCTAAAA
6778642 TATTTTAAAATTTTTTAA-TTCTAA
1 TATTTTAAAATTTTTTAAGTTCTAA
6778666 CTAATAATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 5 0.22
28 18 0.78
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TATTTTAAAATTTTTTAAGTTCTAAAA
Found at i:6778841 original size:35 final size:35
Alignment explanation
Indices: 6778777--6778846 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
6778767 TTTAATGAAA
* *
6778777 TAAAAATTAAAATATTAAATAATAATTTTA-ATTT
1 TAAAAATTAAAATAATAAAAAATAATTTTATATTT
* *
6778811 TAAAATATTAAACTAATAAAAAATATTTTTATATTT
1 TAAAA-ATTAAAATAATAAAAAATAATTTTATATTT
6778847 AACCCTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 5 0.17
35 21 0.70
36 4 0.13
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (35 bp):
TAAAAATTAAAATAATAAAAAATAATTTTATATTT
Found at i:6779342 original size:2 final size:2
Alignment explanation
Indices: 6779335--6779366 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6779325 TTCCTAATAT
6779335 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6779367 GTATATGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6779385 original size:2 final size:2
Alignment explanation
Indices: 6779380--6779406 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6779370 TATGTGTGTG
6779380 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6779407 TTGTGCATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6783314 original size:2 final size:2
Alignment explanation
Indices: 6783307--6783347 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6783297 TTGGGGAAAG
6783307 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6783348 AAAGATTAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6790632 original size:32 final size:31
Alignment explanation
Indices: 6790557--6790636 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 31
6790547 ATCACAATTG
*
6790557 AAAAAAACAAATAACATCAGATATTACCGTTA
1 AAAAAAATAAATAAC-TCAGATATTACCGTTA
* *
6790589 GAAAACATAAATAACTCAGATATTACCG-TA
1 AAAAAAATAAATAACTCAGATATTACCGTTA
6790619 AAAAAAATGTAAATAACT
1 AAAAAAA--TAAATAACT
6790637 TTAGATATCA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 7 0.17
31 13 0.32
32 21 0.51
ACGTcount: A:0.56, C:0.14, G:0.07, T:0.23
Consensus pattern (31 bp):
AAAAAAATAAATAACTCAGATATTACCGTTA
Found at i:6790771 original size:60 final size:61
Alignment explanation
Indices: 6790637--6790771 Score: 143
Period size: 66 Copynumber: 2.2 Consensus size: 61
6790627 GTAAATAACT
* * * *
6790637 TTAGATATCATTATTGATAAATACATATGACTTTGGATATTGCCACTGAAATTTTAAAAGAAAAC
1 TTAGATATCATTATTGAGAAATACAAATGACTTTGGATATTGCCAC--AAA--TAAAAAAAAAAC
6790702 TT-GAATATCATTATTGAGAAAGTACAAATGACTCTT-GATATTGCCA-AAA-AAAAAAAAAAC
1 TTAG-ATATCATTATTGAGAAA-TACAAATGACT-TTGGATATTGCCACAAATAAAAAAAAAAC
6790762 TTAGATATCA
1 TTAGATATCA
6790772 CCATCAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 13
0.78 0.05 0.16
Matches are distributed among these distances:
60 17 0.27
61 1 0.02
63 3 0.05
64 1 0.02
65 18 0.29
66 20 0.32
67 2 0.03
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (61 bp):
TTAGATATCATTATTGAGAAATACAAATGACTTTGGATATTGCCACAAATAAAAAAAAAAC
Found at i:6791307 original size:18 final size:19
Alignment explanation
Indices: 6791273--6791308 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6791263 CAACAATATA
*
6791273 AATGCAAATGCCCTTTTAT
1 AATGCAAATGACCTTTTAT
6791292 AATGCAAAT-ACCTTTTA
1 AATGCAAATGACCTTTTA
6791309 CAAATATGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (19 bp):
AATGCAAATGACCTTTTAT
Done.