Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 31 of 117
Found at i:4663720 original size:13 final size:13
Alignment explanation
Indices: 4663702--4663734 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4663692 AAAAATGATG
4663702 AAAATAATAAATA
1 AAAATAATAAATA
*
4663715 AAAATAATGAATA
1 AAAATAATAAATA
4663728 AAAATAA
1 AAAATAA
4663735 ATATTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AAAATAATAAATA
Found at i:4664055 original size:3 final size:3
Alignment explanation
Indices: 4664047--4664073 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4664037 TATAGGATGC
4664047 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
4664074 TTCACAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4669961 original size:14 final size:14
Alignment explanation
Indices: 4669903--4669963 Score: 50
Period size: 16 Copynumber: 4.0 Consensus size: 14
4669893 TTCTTTTTAT
4669903 TAAAATTAAAATAAAA
1 TAAAA-TAAAA-AAAA
4669919 TTAAAATATAAAAAAA
1 -TAAAATA-AAAAAAA
** *
4669935 TCAAAATCTAAAAAC
1 T-AAAATAAAAAAAA
4669950 TAAAATAAAAAAAA
1 TAAAATAAAAAAAA
4669964 AACCTTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
14 10 0.28
15 7 0.19
16 11 0.31
17 8 0.22
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAATAAAAAAAA
Found at i:4670094 original size:2 final size:2
Alignment explanation
Indices: 4670087--4670121 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4670077 GACAACACGA
4670087 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 A
4670122 AAAGAAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4670618 original size:34 final size:33
Alignment explanation
Indices: 4670574--4670670 Score: 95
Period size: 34 Copynumber: 2.8 Consensus size: 33
4670564 GATGCAATTC
* * **
4670574 AAAATTTTTAAAAATAAATGTTTAAAAGTTTTT
1 AAAAATTTTAAAAATAAATATTTAAAAACTTTT
*
4670607 AAAAAGTTTTAAAAATAAATATATAAAAACTTTT
1 AAAAA-TTTTAAAAATAAATATTTAAAAACTTTT
* *
4670641 AAGAATTTTCAAAAATTAAAATTTTTAAAA
1 AAAAATTTT-AAAAA-T-AAATATTTAAAA
4670671 TTAAATTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
33 8 0.15
34 33 0.63
35 1 0.02
36 10 0.19
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (33 bp):
AAAAATTTTAAAAATAAATATTTAAAAACTTTT
Found at i:4670665 original size:16 final size:15
Alignment explanation
Indices: 4670639--4670681 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
4670629 ATAAAAACTT
4670639 TTAAGAATTTTCAAAAA
1 TTAA-AATTTT-AAAAA
*
4670656 TTAAAATTTTTAAAA
1 TTAAAATTTTAAAAA
*
4670671 TTAAATTTTTA
1 TTAAAATTTTA
4670682 GAATATGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 6 0.26
17 4 0.17
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
TTAAAATTTTAAAAA
Found at i:4670678 original size:14 final size:15
Alignment explanation
Indices: 4670652--4670681 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4670642 AGAATTTTCA
4670652 AAAATTAAAATTTTT
1 AAAATTAAAATTTTT
4670667 AAAATT-AAATTTTT
1 AAAATTAAAATTTTT
4670681 A
1 A
4670682 GAATATGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATTAAAATTTTT
Found at i:4673552 original size:20 final size:20
Alignment explanation
Indices: 4673527--4673566 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4673517 AAGTTAAATG
*
4673527 TGGCTTGAGATGGTATCTAT
1 TGGCTTGACATGGTATCTAT
4673547 TGGCTTGACATGGTATCTAT
1 TGGCTTGACATGGTATCTAT
4673567 GATAAAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.12, G:0.28, T:0.40
Consensus pattern (20 bp):
TGGCTTGACATGGTATCTAT
Found at i:4677466 original size:19 final size:19
Alignment explanation
Indices: 4677444--4677498 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
4677434 TTTATTGAAA
*
4677444 ATTTTAAATGTTATTTTTT
1 ATTTTAAATATTATTTTTT
* *
4677463 ATTTTAAAAATTA-TTATT
1 ATTTTAAATATTATTTTTT
4677481 ATTTATAAATATTATTTT
1 ATTT-TAAATATTATTTT
4677499 ATAATATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 8 0.28
19 19 0.66
20 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTAAATATTATTTTTT
Found at i:4677484 original size:18 final size:18
Alignment explanation
Indices: 4677459--4677500 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
4677449 AAATGTTATT
4677459 TTTTATTT-TAAAAATTA
1 TTTTATTTATAAAAATTA
*
4677476 TTATTATTTATAAATATTA
1 TT-TTATTTATAAAAATTA
4677495 TTTTAT
1 TTTTAT
4677501 AATATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 10 0.45
19 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTATTTATAAAAATTA
Found at i:4677495 original size:13 final size:13
Alignment explanation
Indices: 4677477--4677510 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
4677467 TAAAAATTAT
4677477 TATTA-TTTATAAA
1 TATTATTTTAT-AA
4677490 TATTATTTTATAA
1 TATTATTTTATAA
4677503 TATTATTT
1 TATTATTT
4677511 GATTTAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATTTTATAA
Found at i:4678012 original size:24 final size:22
Alignment explanation
Indices: 4677962--4678012 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 22
4677952 ATGAAATAGC
4677962 ATAAATAAAATATATAAATATA
1 ATAAATAAAATATATAAATATA
*
4677984 A-AAATAATATATTATATAAT-TGA
1 ATAAATAAAATA-TATA-AATAT-A
4678007 ATAAAT
1 ATAAAT
4678013 GGGTCGGATC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 9 0.38
22 6 0.25
23 5 0.21
24 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
ATAAATAAAATATATAAATATA
Found at i:4680652 original size:37 final size:37
Alignment explanation
Indices: 4680598--4680671 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
4680588 AACTTGTTTT
*
4680598 AAAGGCTTGGGAGTTACACTTTTTTGATGAATTACTC
1 AAAGGCTTGGGAATTACACTTTTTTGATGAATTACTC
4680635 AAAGGCTTGGGAATTACACTTTTTTGATGAATTACTC
1 AAAGGCTTGGGAATTACACTTTTTTGATGAATTACTC
4680672 CTACAACATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (37 bp):
AAAGGCTTGGGAATTACACTTTTTTGATGAATTACTC
Found at i:4685902 original size:13 final size:13
Alignment explanation
Indices: 4685884--4685925 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
4685874 TATAATTTTT
4685884 AAAATAAATATAA
1 AAAATAAATATAA
*
4685897 AAAATAAATTTTAA
1 AAAATAAA-TATAA
*
4685911 AATATAAA-ATAA
1 AAAATAAATATAA
4685923 AAA
1 AAA
4685926 TTTAAATATC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 5 0.21
13 8 0.33
14 11 0.46
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAATAAATATAA
Found at i:4685903 original size:25 final size:26
Alignment explanation
Indices: 4685875--4685925 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
4685865 TAAATGTTTT
* *
4685875 ATAATTTTTAAAATA-AATATAAAAA
1 ATAAATTTTAAAATATAAAATAAAAA
4685900 ATAAATTTTAAAATATAAAATAAAAA
1 ATAAATTTTAAAATATAAAATAAAAA
4685926 TTTAAATATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
ATAAATTTTAAAATATAAAATAAAAA
Found at i:4685915 original size:21 final size:22
Alignment explanation
Indices: 4685889--4685971 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 22
4685879 TTTTTAAAAT
4685889 AAATATAAAA-AATAAATTTTA
1 AAATATAAAACAATAAATTTTA
*
4685910 AAATATAAAATAA-AAA-TTTA
1 AAATATAAAACAATAAATTTTA
* *
4685930 AATATCATAAAA-AGACATATTTTA
1 AA-AT-ATAAAACA-ATAAATTTTA
4685954 AAATATCAAAACAATAAA
1 AAATAT-AAAACAATAAA
4685972 GTAACAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
20 6 0.12
21 16 0.31
22 11 0.22
23 11 0.22
24 7 0.14
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (22 bp):
AAATATAAAACAATAAATTTTA
Found at i:4685926 original size:13 final size:14
Alignment explanation
Indices: 4685887--4685934 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 14
4685877 AATTTTTAAA
4685887 ATAAATATAAAAA-
1 ATAAATATAAAAAT
* *
4685900 ATAAATTTTAAAAT
1 ATAAATATAAAAAT
4685914 ATAAA-ATAAAAAT
1 ATAAATATAAAAAT
*
4685927 TTAAATAT
1 ATAAATAT
4685935 CATAAAAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 21 0.75
14 7 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAATATAAAAAT
Found at i:4693888 original size:18 final size:17
Alignment explanation
Indices: 4693841--4693889 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
4693831 ATAAGAAAAA
4693841 AAAAAGA-AAAAAAATG
1 AAAAAGAGAAAAAAATG
4693857 AAAGAATG-GAAAAAAATG
1 AAA-AA-GAGAAAAAAATG
4693875 AAAAAGAGAGAAAAA
1 AAAAAGAGA-AAAAA
4693890 GAATACTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 4 0.14
17 6 0.21
18 18 0.64
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (17 bp):
AAAAAGAGAAAAAAATG
Found at i:4694799 original size:23 final size:23
Alignment explanation
Indices: 4694773--4694816 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4694763 GAAGCCTATG
*
4694773 AATGGTGATCAAG-TGATGAAAAT
1 AATGATGATC-AGTTGATGAAAAT
4694796 AATGATGATCAGTTGATGAAA
1 AATGATGATCAGTTGATGAAA
4694817 CTTGTTCCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.27
Consensus pattern (23 bp):
AATGATGATCAGTTGATGAAAAT
Found at i:4695261 original size:20 final size:21
Alignment explanation
Indices: 4695233--4695288 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
4695223 AAATTTGTCG
*
4695233 AATGTGAATCTTTGAA-CTCA
1 AATGAGAATCTTTGAATCTCA
*
4695253 AATGAGAATCTTTGAATTTCA
1 AATGAGAATCTTTGAATCTCA
*
4695274 AATGAAAATCTTTGA
1 AATGAGAATCTTTGA
4695289 GGTATGAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (21 bp):
AATGAGAATCTTTGAATCTCA
Found at i:4695305 original size:79 final size:79
Alignment explanation
Indices: 4695170--4695422 Score: 373
Period size: 79 Copynumber: 3.2 Consensus size: 79
4695160 TTTTTAAGTT
* * *
4695170 CTCAAATGAGAATCTTTGAATTTCAAATTAGAATCTCTGAGG-AGTGAAACCAAAAATTTGTCGA
1 CTCAAATGAGAATCTTTGAATTTCAAATGAGAATCTTTGAGGTA-TGAAACCCAAAATTTGTCGA
4695234 ATGTGAATCTTTGAA
65 ATGTGAATCTTTGAA
*
4695249 CTCAAATGAGAATCTTTGAATTTCAAATGAAAATCTTTGAGGTATGAAACCCAAAATTTGTCGAA
1 CTCAAATGAGAATCTTTGAATTTCAAATGAGAATCTTTGAGGTATGAAACCCAAAATTTGTCGAA
* **
4695314 TGAGAATCTTCAAA
66 TGTGAATCTTTGAA
* * *
4695328 CTCAAATGAGAATCTTTGAATTTCAAATGAGAATCCTTGAGGTGTGAAACCCAAAATTTGTCAAA
1 CTCAAATGAGAATCTTTGAATTTCAAATGAGAATCTTTGAGGTATGAAACCCAAAATTTGTCGAA
*
4695393 TGTGAATATTTGAA
66 TGTGAATCTTTGAA
*
4695407 TTTCAAATGAGAATCT
1 -CTCAAATGAGAATCT
4695423 GTGAGGTGTG
Statistics
Matches: 156, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
79 141 0.90
80 15 0.10
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.32
Consensus pattern (79 bp):
CTCAAATGAGAATCTTTGAATTTCAAATGAGAATCTTTGAGGTATGAAACCCAAAATTTGTCGAA
TGTGAATCTTTGAA
Found at i:4695337 original size:20 final size:21
Alignment explanation
Indices: 4695312--4695362 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
4695302 AAATTTGTCG
4695312 AATGAGAATC-TTCAAACTCA
1 AATGAGAATCTTTCAAACTCA
* **
4695332 AATGAGAATCTTTGAATTTCA
1 AATGAGAATCTTTCAAACTCA
4695353 AATGAGAATC
1 AATGAGAATC
4695363 CTTGAGGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (21 bp):
AATGAGAATCTTTCAAACTCA
Found at i:4695421 original size:59 final size:60
Alignment explanation
Indices: 4695329--4695457 Score: 208
Period size: 59 Copynumber: 2.2 Consensus size: 60
4695319 ATCTTCAAAC
* *
4695329 TCAAATGAGAATCTTTGAATTTCAAATGAGAATCCT-TGAGGTGTGAAACCC-AAAATTTG
1 TCAAATGTGAATATTTGAATTTCAAATGAGAAT-CTGTGAGGTGTGAAACCCTAAAATTTG
*
4695388 TCAAATGTGAATATTTGAATTTCAAATGAGAATCTGTGAGGTGTGAAACCCTAAGATTTG
1 TCAAATGTGAATATTTGAATTTCAAATGAGAATCTGTGAGGTGTGAAACCCTAAAATTTG
4695448 TCAAATGTGA
1 TCAAATGTGA
4695458 GCCTTTGGAC
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
58 2 0.03
59 46 0.71
60 17 0.26
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (60 bp):
TCAAATGTGAATATTTGAATTTCAAATGAGAATCTGTGAGGTGTGAAACCCTAAAATTTG
Found at i:4695472 original size:59 final size:59
Alignment explanation
Indices: 4695329--4695478 Score: 180
Period size: 59 Copynumber: 2.5 Consensus size: 59
4695319 ATCTTCAAAC
* *
4695329 TCAAATGAGAATC-TTTGAATTTCAAATGAGAATCCTTGAGGTGTGAAACCCAAAATTTG
1 TCAAATGTGAA-CATTTGAATCTCAAATGAGAATCCTTGAGGTGTGAAACCCAAAATTTG
* * *
4695388 TCAAATGTGAATATTTGAATTTCAAATGAGAAT-CTGTGAGGTGTGAAACCCTAAGATTTG
1 TCAAATGTGAACATTTGAATCTCAAATGAGAATCCT-TGAGGTGTGAAACCC-AAAATTTG
* * *
4695448 TCAAATGTGAGCCTTTGGA-CTCAAATGAGAA
1 TCAAATGTGAACATTTGAATCTCAAATGAGAA
4695479 GTTTTGAACT
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
58 2 0.03
59 56 0.70
60 22 0.28
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (59 bp):
TCAAATGTGAACATTTGAATCTCAAATGAGAATCCTTGAGGTGTGAAACCCAAAATTTG
Found at i:4695564 original size:21 final size:21
Alignment explanation
Indices: 4695513--4695567 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
4695503 TCCAAAATTC
*
4695513 AAATGAAAATCTTTAAATCTT
1 AAATGAGAATCTTTAAATCTT
4695534 AAATGAGAATCTTTAAATCTT
1 AAATGAGAATCTTTAAATCTT
* *
4695555 TAATGTGAATCTT
1 AAATGAGAATCTT
4695568 GCAATTTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (21 bp):
AAATGAGAATCTTTAAATCTT
Found at i:4695853 original size:41 final size:40
Alignment explanation
Indices: 4695790--4695940 Score: 160
Period size: 41 Copynumber: 3.7 Consensus size: 40
4695780 AGCCTTTTGT
*
4695790 TTTTCCAAAGTTGTGGTGCCTCTATTTAGAAGAGCAGTTTA
1 TTTT-CAAAGTTGTGGTGCCTCTATTTAGAAGAGCAATTTA
* *
4695831 TTTTGTAAAGTTATGGTGCCTCTATTTA-AAGGAGCAATTTA
1 TTTT-CAAAGTTGTGGTGCCTCTATTTAGAA-GAGCAATTTA
* * * * *
4695872 TTTTCCAAAGTCGTGATACCTCTATTTAGATGAGCATTTTA
1 TTTT-CAAAGTTGTGGTGCCTCTATTTAGAAGAGCAATTTA
* *
4695913 TCTTTCAAAGTTGTTGAGCCTCTATTTA
1 T-TTTCAAAGTTGTGGTGCCTCTATTTA
4695941 AAGGAGCTTT
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
40 2 0.02
41 84 0.93
42 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (40 bp):
TTTTCAAAGTTGTGGTGCCTCTATTTAGAAGAGCAATTTA
Found at i:4695934 original size:82 final size:82
Alignment explanation
Indices: 4695790--4695947 Score: 219
Period size: 82 Copynumber: 1.9 Consensus size: 82
4695780 AGCCTTTTGT
* * * * *
4695790 TTTTCCAAAGTTGTGGTGCCTCTATTTAGAAGAGCAGTTTATTTTGTAAAGTTATGGTGCCTCTA
1 TTTTCCAAAGTCGTGATACCTCTATTTAGAAGAGCAGTTTATTTTGCAAAGTTATGGAGCCTCTA
4695855 TTTAAAGGAGCAATTTA
66 TTTAAAGGAGCAATTTA
* * * *
4695872 TTTTCCAAAGTCGTGATACCTCTATTTAGATGAGCATTTTATCTTT-CAAAGTTGTTGAGCCTCT
1 TTTTCCAAAGTCGTGATACCTCTATTTAGAAGAGCAGTTTAT-TTTGCAAAGTTATGGAGCCTCT
4695936 ATTTAAAGGAGC
65 ATTTAAAGGAGC
4695948 TTTGTTTACT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
82 63 0.95
83 3 0.05
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (82 bp):
TTTTCCAAAGTCGTGATACCTCTATTTAGAAGAGCAGTTTATTTTGCAAAGTTATGGAGCCTCTA
TTTAAAGGAGCAATTTA
Found at i:4697624 original size:54 final size:53
Alignment explanation
Indices: 4697562--4697735 Score: 179
Period size: 54 Copynumber: 3.2 Consensus size: 53
4697552 AAAAAAAAGA
*
4697562 ATTTCTAAATAGGCCCAAATAGTGGAAAATTTAGAAATTTTGAAAAAAGAAAAT
1 ATTTCTAAATAGGCCCAAATAGTGGAAAATTTAGAAA-TTTAAAAAAAGAAAAT
* * * * * *
4697616 ATTTCTAAATTGACCCAAATGGT-GAAAATTTTAAAGATAAATAAAAGAAAAGAAAAGGA
1 ATTTCTAAATAGGCCCAAATAGTGGAAAA-TTT--AGA-AATTTAAA-AAAAGAAAA--T
* * *
4697675 ATTTCTAAATAGGCCCAAATAATGGAAAATTTAGAAATTCAAAAAGAGAAAAT
1 ATTTCTAAATAGGCCCAAATAGTGGAAAATTTAGAAATTTAAAAAAAGAAAAT
4697728 ATTTCTAA
1 ATTTCTAA
4697736 TTTGACCTAA
Statistics
Matches: 97, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
53 13 0.13
54 23 0.24
55 8 0.08
56 12 0.12
57 14 0.14
59 22 0.23
60 5 0.05
ACGTcount: A:0.52, C:0.08, G:0.14, T:0.26
Consensus pattern (53 bp):
ATTTCTAAATAGGCCCAAATAGTGGAAAATTTAGAAATTTAAAAAAAGAAAAT
Found at i:4697688 original size:113 final size:110
Alignment explanation
Indices: 4697549--4697751 Score: 327
Period size: 113 Copynumber: 1.8 Consensus size: 110
4697539 TTTTCTTTCC
* *
4697549 AAGAAAAAAAAGAATTTCTAAATAGGCCCAAATAGTGGAAAATTTAGAAATTTTGAAAAA-AGAA
1 AAGAAAAAAAAGAATTTCTAAATAGGCCCAAATAATGGAAAATTTAGAAA--TTCAAAAAGAGAA
4697613 AATATTTCTAAATTGACCCAAATGGTGAAAATTTTAAAGATAAATAA
64 AATATTTCTAAATTGACCCAAATGGTGAAAATTTTAAAGATAAATAA
4697660 AAGAAAAGAAAAGGAATTTCTAAATAGGCCCAAATAATGGAAAATTTAGAAATTCAAAAAGAGAA
1 AAGAAAA-AAAA-GAATTTCTAAATAGGCCCAAATAATGGAAAATTTAGAAATTCAAAAAGAGAA
* *
4697725 AATATTTCTAATTTGACCTAAATGGTG
64 AATATTTCTAAATTGACCCAAATGGTG
4697752 GAATAATTAG
Statistics
Matches: 85, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
111 14 0.16
112 33 0.39
113 38 0.45
ACGTcount: A:0.52, C:0.08, G:0.15, T:0.26
Consensus pattern (110 bp):
AAGAAAAAAAAGAATTTCTAAATAGGCCCAAATAATGGAAAATTTAGAAATTCAAAAAGAGAAAA
TATTTCTAAATTGACCCAAATGGTGAAAATTTTAAAGATAAATAA
Found at i:4697754 original size:53 final size:52
Alignment explanation
Indices: 4697562--4697759 Score: 164
Period size: 54 Copynumber: 3.6 Consensus size: 52
4697552 AAAAAAAAGA
* * *
4697562 ATTTCTAAATAGGCCCAAATAGTGGAAAATTTAGAAATTTTGAAAAAAGAAAAT
1 ATTTCTAAATTGACCCAAATAGTGGAAAATTTAGAAA--TTAAAAAAAGAAAAT
* * *
4697616 ATTTCTAAATTGACCCAAATGGT-GAAAATTTTAAAGATAAATAAAAGAAAAGAAAAGGA
1 ATTTCTAAATTGACCCAAATAGTGGAAAA-TTT--AG--AAATTAAA-AAAAGAAAA--T
* * * *
4697675 ATTTCTAAATAGGCCCAAATAATGGAAAATTTAGAAATTCAAAAAGAGAAAAT
1 ATTTCTAAATTGACCCAAATAGTGGAAAATTTAGAAATT-AAAAAAAGAAAAT
* * *
4697728 ATTTCTAATTTGACCTAAATGGTGGAATAATT
1 ATTTCTAAATTGACCCAAATAGTGGAA-AATT
4697760 AGATATATTT
Statistics
Matches: 114, Mismatches: 19, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
53 26 0.23
54 27 0.24
55 12 0.11
56 8 0.07
57 11 0.10
58 3 0.03
59 22 0.19
60 5 0.04
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.28
Consensus pattern (52 bp):
ATTTCTAAATTGACCCAAATAGTGGAAAATTTAGAAATTAAAAAAAGAAAAT
Found at i:4699022 original size:181 final size:180
Alignment explanation
Indices: 4698690--4699889 Score: 856
Period size: 181 Copynumber: 6.7 Consensus size: 180
4698680 ATAAACAAAT
* * * * * * * ** *
4698690 AATCTCTTACTTATAAATTTTTGAAATATTAATAAATTAGTACTATTTTATTTTGAATTGGCTTG
1 AATCTCCTACTTATTAATTTTTGAAATATTAATAAAATAATATTA-TTTATTCT-AAATAACTTT
* * *
4698755 TAT-AATGAAAAACAATTGTTTTATAACAAAACAAAAGTTCATAACGATTTGAAATAGATAATTG
64 TATGAAT-AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTG
* * *
4698819 TTCAAATGGCCATAACTATTTGAACTGATTTGATAAACTA-ATTTATTTTTTA
128 TTCAAATAGTCATAACTATTTGAACTGATTCGATAAACTAGATTTATTTTTTA
* * * * **
4698871 AATCTCCAACTTCTTAATTTTTGAAATATTAATAAAGTAATATTATCTTATTTTGGATAAACTTT
1 AATCTCCTACTTATTAATTTTTGAAATATTAATAAAATAATATTAT-TTATTCTAAAT-AACTTT
* * ** *
4698936 TATGAA-ATCAAACAATTGTTTTATGATAAAATGAAAGGTCATAACGATTTTAAATAGATAAATT
64 TATGAATA-GAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGAT-AATT
* * * * *
4699000 -TTCAAATAGTCATAATTATTTGAATTTATTC-AGTAAA-TAAATTCATTTTTTAA
127 GTTCAAATAGTCATAACTATTTGAACTGATTCGA-TAAACTAGATTTATTTTTT-A
* * * *
4699053 AATC-CCTTGCTTATTAATTTTTTG-AATGTTAATAAAATATTATTATTTTATT-TCAAATAAGT
1 AATCTCC-TACTTATTAA-TTTTTGAAATATTAATAAAATAATATTA-TTTATTCT-AAATAACT
* * * * * * * * *
4699115 ATGTATGAACT-TAAACAATTATTTTATGACCAAATAAAAGGTTAAAACAAATTGAAATAGATAA
62 -TTTATGAA-TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAA
* * * * *
4699179 TTGTTCTAATAGTC-TTACTATTT-AACTAATTCGACAAA-TACATTTATTTTTTA
125 TTGTTCAAATAGTCATAACTATTTGAACTGATTCGATAAACTAGATTTATTTTTTA
* * ** ** * * *
4699232 AATC-CCTTGCTTATTAATTTTTAGAATATTATTAGTTTAGCAATA-T-TTTACTCTGAATAAGT
1 AATCTCC-TACTTATTAATTTTT-GAA-A-TATTAATAAAATAATATTATTTATTCTAAATAACT
* * * ** * *
4699294 TATATAAATAGAAACAATTGTTTTATGAGAAAAC-AAAGACCATACCAATTTGAAATAGATAATT
62 TTTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATT
* * * * * * *
4699358 GTTCAAATAGTCATAACTATTTAAACTGGTTTGGTAATC-AGATTTA-GTTTTG
127 GTTCAAATAGTCATAACTATTTGAACTGATTCGATAAACTAGATTTATTTTTTA
** * *
4699410 AA--T-CT-CTTATTAATTTTCAAAATATTAATAAAATAATATTGTTCTATTCTAAATAATTTTG
1 AATCTCCTACTTATTAATTTTTGAAATATTAATAAAATAATATTATT-TATTCTAAATAACTTT-
* ** * * *
4699471 TATGTATAGAAACAATTGTTTTACAACAAAACAAAATGTCATAATGATTTGAAATCGATAATAT-
64 TATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAAT-TG
** * * * * * *
4699535 TTCAAACGGACATTACTATTTGAACTTG-TTCAACAAAC-ATATTTATATTTTA
128 TTCAAATAGTCATAACTATTTGAAC-TGATTCGATAAACTAGATTTATTTTTTA
* * * * *
4699587 AATCTCCAACTTATTAATTTTT-AGAATATTAATAAATTAGTAGTATCTTATT-TCGAATAAACT
1 AATCTCCTACTTATTAATTTTTGA-AATATTAATAAAATAATATTAT-TTATTCT-AAAT-AACT
* * * ** * *
4699650 TGTACGAATAGAAACTATTGTTTTATGACAAAACAAAATATCATAATGATTTGAAATAAATAATT
62 TTTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATT
* * * * * *
4699715 ATTTAAATAGTCATAACTATTTGAACTCACTCGAT-AACCAGATTTATCTTTTA
127 GTTCAAATAGTCATAACTATTTGAACTGATTCGATAAACTAGATTTATTTTTTA
** * * * * *
4699768 AATCTTTTAGTTATTAATTTTTGGAATTTTAATAAATTAATATTATTTTATTCTAAATAAGCCTT
1 AATCTCCTACTTATTAATTTTTGAAATATTAATAAAATAATATTA-TTTATTCTAAATAA-CTTT
* * *
4699833 TATGAATAGAAACAATTGTTTTATGATAAAAAAAAAAGGTCATAATGATTTGAAATA
64 TATGAATAGAAACAATTGTTTTATGA-CAAAACAAAAGGTCATAACGATTTGAAATA
4699890 AATTGTTAGC
Statistics
Matches: 799, Mismatches: 169, Indels: 101
0.75 0.16 0.09
Matches are distributed among these distances:
171 11 0.01
172 2 0.00
173 4 0.01
174 24 0.03
175 28 0.04
176 54 0.07
177 45 0.06
178 44 0.06
179 47 0.06
180 40 0.05
181 350 0.44
182 143 0.18
183 7 0.01
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (180 bp):
AATCTCCTACTTATTAATTTTTGAAATATTAATAAAATAATATTATTTATTCTAAATAACTTTTA
TGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTC
AAATAGTCATAACTATTTGAACTGATTCGATAAACTAGATTTATTTTTTA
Found at i:4699293 original size:179 final size:179
Alignment explanation
Indices: 4698764--4699381 Score: 405
Period size: 182 Copynumber: 3.4 Consensus size: 179
4698754 GTATAATGAA
* * ** * * * * *
4698764 AAACAATTGTTTTATAACAAAACAAAAGTTCATAACGATTTGAAATAGATAATTGTTCAAATGGC
1 AAACAATTATTTTATGACAAAAC-AAAGACCAAAACAAATTGAAATAGATAATTGTTCAAATAGT
* * * * ** *
4698829 CATAACTATTTGAACTGATTTGATAAACT-AATTTATTTTTT-AAATCTCC-AACTTCTTAATTT
65 CATAACTATTT-AACTAATTCGACAAA-TAAATTCATTTTTTAAAATC-CCTTGCTTATTAATTT
* ** * * * *** * * *
4698891 TT-GAAATATTAATAAAGTAATATTATCTTATTTTGGATAAACTTTTATGAAAT-C
127 TTAG-AATATTAATAAAATAGCAATATTTTATCTCAAAT-AAGTTATAT-AAATAG
* * * ** * * * *
4698945 AAACAATTGTTTTATGATAAAATGAAAGGTCATAACGATTTTAAATAGATAAATT-TTCAAATAG
1 AAACAATTATTTTATGACAAAA-CAAAGACCAAAACAAATTGAAATAGAT-AATTGTTCAAATAG
* * * *
4699009 TCATAATTATTTGAATTTATTC-AGTAAATAAATTCATTTTTTAAAATCCCTTGCTTATTAATTT
64 TCATAACTATTT-AACTAATTCGA-CAAATAAATTCATTTTTTAAAATCCCTTGCTTATTAATTT
* * ** * * * * *
4699073 TTTGAATGTTAATAAAATATTATTATTTTATTTCAAATAAGTATGTATGAACT-T
127 TTAGAATATTAATAAAATAGCAATATTTTATCTCAAATAAGT-TATAT-AAATAG
*** *
4699127 AAACAATTATTTTATGACCAAATA-AAAGGTTAAAACAAATTGAAATAGATAATTGTTCTAATAG
1 AAACAATTATTTTATGA-CAAA-ACAAAGACCAAAACAAATTGAAATAGATAATTGTTCAAATAG
* * *
4699191 TC-TTACTATTTAACTAATTCGACAAATACATTTATTTTTT-AAATCCCTTGCTTATTAATTTTT
64 TCATAACTATTTAACTAATTCGACAAATAAATTCATTTTTTAAAATCCCTTGCTTATTAATTTTT
* *** *
4699254 AGAATATTATTAGTTTAGCAATATTTTA-CTCTGAATAAGTTATATAAATAG
129 AGAATATTAATAAAATAGCAATATTTTATCTC-AAATAAGTTATATAAATAG
* * * * *
4699305 AAACAATTGTTTTATGAGAAAACAAAGACCATACCAATTTGAAATAGATAATTGTTCAAATAGTC
1 AAACAATTATTTTATGACAAAACAAAGACCAAAACAAATTGAAATAGATAATTGTTCAAATAGTC
4699370 ATAACTATTTAA
66 ATAACTATTTAA
4699382 ACTGGTTTGG
Statistics
Matches: 356, Mismatches: 65, Indels: 35
0.78 0.14 0.08
Matches are distributed among these distances:
176 1 0.00
177 41 0.12
178 32 0.09
179 49 0.14
180 24 0.07
181 101 0.28
182 103 0.29
183 4 0.01
184 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (179 bp):
AAACAATTATTTTATGACAAAACAAAGACCAAAACAAATTGAAATAGATAATTGTTCAAATAGTC
ATAACTATTTAACTAATTCGACAAATAAATTCATTTTTTAAAATCCCTTGCTTATTAATTTTTAG
AATATTAATAAAATAGCAATATTTTATCTCAAATAAGTTATATAAATAG
Found at i:4709611 original size:23 final size:23
Alignment explanation
Indices: 4709568--4709611 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
4709558 CTTGCATTAA
* *
4709568 ACATGTTTTGTTTTGAGAATTTG
1 ACATATTTTGTTTTCAGAATTTG
4709591 ACATATTTTGGTTTTCA-AATT
1 ACATATTTT-GTTTTCAGAATT
4709612 GATTCTGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.52
Consensus pattern (23 bp):
ACATATTTTGTTTTCAGAATTTG
Found at i:4710296 original size:173 final size:172
Alignment explanation
Indices: 4709733--4710299 Score: 534
Period size: 180 Copynumber: 3.2 Consensus size: 172
4709723 GCCAACATAG
*
4709733 ATAATTGTTCAAATAATCATAACTATTTGAA-TGTGTTTAGA-AAACAGATTTATTTTTTAAATT
1 ATAATTGTTCAAATAATCATAACTATTTGAACT-TG-TTAGATAAACATATTTATTTTTTAAATT
* * * * *
4709796 TTGACTTATTAATCTTTGGAATATTAGTAAATTTATATTATTTTATTCAAAATAAGCTTGTATGA
64 TTTACTTATTAAT-TTTGGAATATTAATAAATTAATATTATTTTATTCCAAATAAGCCT-TAT--
* * * **
4709861 ACATAAACAATTGTTTTATGATAAAACAAAATGTCATAATGATTTGAAATGG
125 ---T-AATAATTGTTTTATGACAAAACAAAAAGTCATAATGATTTGAAATAA
* * * * * ** *
4709913 ATAACTGTTGAAATAGTCATAATTATTTGAACTTGTTCGATAAACATATTCCTTTTTTAAATCTC
1 ATAATTGTTCAAATAATCATAACTATTTGAACTTGTTAGATAAACATATTTATTTTTTAAAT-TT
* * * * * *
4709978 TTACTTTTTAATTTTTGGACTATTAA-AAAGTTACTATTATTTTATTTCGAATAAGCATATATGA
65 TTACTTATTAA-TTTTGGAATATTAATAAA-TTAATATTATTTTATTCCAAATAAGC--CT-T--
* *
4710042 ATTGATACGATT-TTTTATGACAAAACAAAATA-TCACAATGATTTGAAATAA
123 ATTAATA--ATTGTTTTATGACAAAACAAAA-AGTCATAATGATTTGAAATAA
* * * * *
4710093 ATAATTATTCAAATAGTTATCACTATTTGAACTTGTTAGATAAACATATTTATTTTTAAAATGTT
1 ATAATTGTTCAAATAATCATAACTATTTGAACTTGTTAGATAAACATATTTATTTTTTAAAT-TT
* * *
4710158 TTACTTATTAATTGTTGAAATATTAATGAATTAATATTATTTTAATCCAAATAAGCCTT-TTAAT
65 TTACTTATTAATT-TTGGAATATTAATAAATTAATATTATTTTATTCCAAATAAGCCTTATTAAT
* *
4710222 AATTGTTTTATGACAAAATAAAAAGTCATAACGATTTGAAATAA
129 AATTGTTTTATGACAAAACAAAAAGTCATAATGATTTGAAATAA
* *
4710266 ATAATTGTTCAAATAATGATAACAATTTGAACTT
1 ATAATTGTTCAAATAATCATAACTATTTGAACTT
4710300 ATTCAATAAA
Statistics
Matches: 314, Mismatches: 57, Indels: 39
0.77 0.14 0.10
Matches are distributed among these distances:
172 4 0.01
173 63 0.20
174 5 0.02
177 1 0.00
178 1 0.00
179 8 0.03
180 179 0.57
181 48 0.15
182 1 0.00
183 2 0.01
185 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (172 bp):
ATAATTGTTCAAATAATCATAACTATTTGAACTTGTTAGATAAACATATTTATTTTTTAAATTTT
TACTTATTAATTTTGGAATATTAATAAATTAATATTATTTTATTCCAAATAAGCCTTATTAATAA
TTGTTTTATGACAAAACAAAAAGTCATAATGATTTGAAATAA
Found at i:4710983 original size:181 final size:179
Alignment explanation
Indices: 4710759--4711635 Score: 766
Period size: 181 Copynumber: 4.9 Consensus size: 179
4710749 TAAATATATT
*
4710759 TTATTTTTTAAA--TC-T-CTTATTAATTTTTAAGATATTAATAAATTAATATTATTTTATTCTG
1 TTATTTTTTAAATCTCTTACTTATTAATTTTTAA-ATATTAATAAATTAGTATTATTTTATT-TG
* * * * * *
4710820 AACAAATTTATATAAACAAAAACATTTGTTTTATAATAAAACAAAAGGTAATAACAATTTAAAAT
64 AATAAATTTATATGAACAAAAATAATTGTTTTATAATAAAACAAAAGGTTATAACAATTTGAAAT
* * * *
4710885 AGATAATCATTCAAATATTCATAATTATTTGAACTAGTTTGACTAACAAAA
129 AGATAATTATTCAAATAGTCATAATTATTTGAACTGGTTTGACAAACAAAA
*
4710936 TTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTCAAT-TTATTTTATTTC
1 TTATTTTTTAAATCTCTTACTTATTAATTTTT-AAATATTAATAAATT-AGTATTATTTTATTT-
* * * * * * * *
4711000 GAAT-AAGTTAGTAAGAGCTGAAAA-AATTGTTTTACAATAAAATAAAATGTTATAACTATTTGA
63 GAATAAATTTA-TATGAAC-AAAAATAATTGTTTTATAATAAAACAAAAGGTTATAACAATTTGA
* * * * * * **
4711063 AATAGATAATTGTTCATATAGCCTTAACTATTTGAAGTGGTTTGACAAACAATT
126 AATAGATAATTATTCAAATAGTCATAATTATTTGAACTGGTTTGACAAACAAAA
* * ** * *
4711117 TTGTTTTTTAAATCTCTTAGTTATTAATTGTCAAAATATTATTAGATTAGTATTATTTTATTCT-
1 TTATTTTTTAAATCTCTTACTTATTAATT-TTTAAATATTAATAAATTAGTATTATTTTATT-TG
** * * * * * *
4711181 AGATAAGCTTGTATGAATAGAAATAATTGTTATATGATAGAACAAAAGGTTATAACAATTTGAAA
64 A-ATAAATTTATATGAACAAAAATAATTGTTTTATAATAAAACAAAAGGTTATAACAATTTGAAA
* * * ** * *
4711246 TATATAATTATTCAAATAGTGATAATTATTTGAATTGGTTCAATAAA-AAAT
128 TAGATAATTATTCAAATAGTCATAATTATTTGAACTGGTTTGACAAACAAAA
*
4711297 TTATTTTTTAAATCTCTTA--TA--AATTTTTTAAAATATTAATAAATTAGTTTTATTTTATTAT
1 TTATTTTTTAAATCTCTTACTTATTAA-TTTTT-AAATATTAATAAATTAGTATTATTTTATT-T
* * * * * * ** *
4711358 GAATAAACTTGA-ATGAGCTAAAATAATTATTTTATAACAAGACAAAA-GTTCATAATGATTGGA
63 GAATAAA-TTTATATGAACAAAAATAATTGTTTTATAATAAAACAAAAGGTT-ATAACAATTTGA
* * * * ** *
4711421 AATAGATAATTATTTATATAGTCTTAATTATTTGAATTGGTTCAACAAACAAAT
126 AATAGATAATTATTCAAATAGTCATAATTATTTGAACTGGTTTGACAAACAAAA
* * * ** * *
4711475 TTATTTTTTAACTCTCTTAGTTATCAATTTTTATAATATTTTTAATTTAGTGTTATTTTATTTCG
1 TTATTTTTTAAATCTCTTACTTATTAATTTTTA-AATATTAATAAATTAGTATTATTTTATTT-G
* * *
4711540 AATAAATTTATATGAATAGAAATAATTGTTTTATGAT-AAA-AAAA-GTTATAACAATTTG-AAT
64 AATAAATTTATATGAACAAAAATAATTGTTTTATAATAAAACAAAAGGTTATAACAATTTGAAAT
* *
4711601 AGATAATTGTTCAAATAGTCATAACTATTTGAACT
129 AGATAATTATTCAAATAGTCATAATTATTTGAACT
4711636 TATTTGGTAA
Statistics
Matches: 560, Mismatches: 112, Indels: 56
0.77 0.15 0.08
Matches are distributed among these distances:
176 6 0.01
177 154 0.28
178 34 0.06
179 9 0.02
180 43 0.08
181 298 0.53
182 16 0.03
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (179 bp):
TTATTTTTTAAATCTCTTACTTATTAATTTTTAAATATTAATAAATTAGTATTATTTTATTTGAA
TAAATTTATATGAACAAAAATAATTGTTTTATAATAAAACAAAAGGTTATAACAATTTGAAATAG
ATAATTATTCAAATAGTCATAATTATTTGAACTGGTTTGACAAACAAAA
Found at i:4711471 original size:358 final size:359
Alignment explanation
Indices: 4710758--4711635 Score: 961
Period size: 358 Copynumber: 2.5 Consensus size: 359
4710748 GTAAATATAT
* * * * * *
4710758 TTTATTTTTTAAATCTCTTA--T-T-AATTTTTAAGATATTAATAAATTAATATTATTTTATTCT
1 TTTATTTTTTAAATCTCTTAGTTATCAATTGTCAAAATATTATTAATTTAGTATTATTTTATT-T
* * * * * * * * * *
4710819 -GAACAAATTTATATAAACAAAAACATTTGTTTTATAATAAAACAAAAGGTAATAACAATTTAAA
65 AGAATAAACTTATATGAATAGAAATAATTGTTTTATGAT-AAACAAAAGGTTATAACAATTTGAA
* * * * *
4710883 ATAGATAATCATTCAAATATTCATAATTATTTGAACTAGTTTGACTAACAAAATTATTTTTTAAA
129 ATAGATAATTATTCAAATAGTCATAATTATTTGAACTAGGTTCAATAACAAAATTATTTTTTAAA
* *
4710948 TCTCTTACTTATTAATTTTTGAAATATTAATAAATTCAATTTATTTTATTTCGAATAAGTTAGTA
194 TCTCTTAC-TA-TAATTTTTAAAATATTAATAAATTCAATTTATTTTATTTCGAATAACTTAGTA
* * * * *
4711013 AGAGCTGAAAAAATTGTTTTACAATAAAATAAAATGTTATAACTATTTGAAATAGATAATTGTTC
257 AGAGCTGAAAAAATTATTTTACAACAAAACAAAATGTTATAACTATTGGAAATAGATAATTATTC
** *
4711078 ATATAGCCTTAACTATTTGAAGTGGTTTGACAAACAAT
322 ATATAGCCTTAACTATTTGAAGTGGTTCAACAAACAAA
* *
4711116 TTTGTTTTTTAAATCTCTTAGTTATTAATTGTCAAAATATTATTAGA-TTAGTATTATTTTATTC
1 TTTATTTTTTAAATCTCTTAGTTATCAATTGTCAAAATATTATTA-ATTTAGTATTATTTTATT-
* * *
4711180 TAG-ATAAGCTTGTATGAATAGAAATAATTGTTATATGATAGAACAAAAGGTTATAACAATTTGA
64 TAGAATAAACTTATATGAATAGAAATAATTGTTTTATGATA-AACAAAAGGTTATAACAATTTGA
* * *
4711244 AATATATAATTATTCAAATAGTGATAATTATTTGAA-TTGGTTCAATAA-AAAATTTATTTTTTA
128 AATAGATAATTATTCAAATAGTCATAATTATTTGAACTAGGTTCAATAACAAAA-TTATTTTTTA
*
4711307 AATCTCTTA-TA-AATTTTTTAAAATATTAATAAATT-AGTTTTATTTTATTAT-GAATAAACTT
192 AATCTCTTACTATAA-TTTTTAAAATATTAATAAATTCA-ATTTATTTTATT-TCGAAT-AACTT
* *
4711368 -G-AATGAGCT-AAAATAATTATTTTATAACAAGACAAAA-GTTCATAA-TGATTGGAAATAGAT
253 AGTAA-GAGCTGAAAA-AATTATTTTACAACAAAACAAAATGTT-ATAACT-ATTGGAAATAGAT
* * * *
4711428 AATTATTTATATAGTCTTAATTATTTGAATTGGTTCAACAAACAAA
314 AATTATTCATATAGCCTTAACTATTTGAAGTGGTTCAACAAACAAA
* * * * * * *
4711474 TTTATTTTTTAACTCTCTTAGTTATCAATTTTTATAATATTTTTAATTTAGTGTTATTTTATTTC
1 TTTATTTTTTAAATCTCTTAGTTATCAATTGTCAAAATATTATTAATTTAGTATTATTTTATTTA
*
4711539 GAATAAATTTATATGAATAGAAATAATTGTTTTATGATAAA-AAAA-GTTATAACAATTTG-AAT
66 GAATAAACTTATATGAATAGAAATAATTGTTTTATGATAAACAAAAGGTTATAACAATTTGAAAT
* *
4711601 AGATAATTGTTCAAATAGTCATAACTATTTGAACT
131 AGATAATTATTCAAATAGTCATAATTATTTGAACT
4711636 TATTTGGTAA
Statistics
Matches: 440, Mismatches: 61, Indels: 41
0.81 0.11 0.08
Matches are distributed among these distances:
354 32 0.07
355 15 0.03
356 4 0.01
357 18 0.04
358 218 0.50
359 7 0.02
360 5 0.01
361 29 0.07
362 110 0.25
363 2 0.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.44
Consensus pattern (359 bp):
TTTATTTTTTAAATCTCTTAGTTATCAATTGTCAAAATATTATTAATTTAGTATTATTTTATTTA
GAATAAACTTATATGAATAGAAATAATTGTTTTATGATAAACAAAAGGTTATAACAATTTGAAAT
AGATAATTATTCAAATAGTCATAATTATTTGAACTAGGTTCAATAACAAAATTATTTTTTAAATC
TCTTACTATAATTTTTAAAATATTAATAAATTCAATTTATTTTATTTCGAATAACTTAGTAAGAG
CTGAAAAAATTATTTTACAACAAAACAAAATGTTATAACTATTGGAAATAGATAATTATTCATAT
AGCCTTAACTATTTGAAGTGGTTCAACAAACAAA
Found at i:4711708 original size:358 final size:358
Alignment explanation
Indices: 4710758--4711744 Score: 919
Period size: 358 Copynumber: 2.8 Consensus size: 358
4710748 GTAAATATAT
* * * * * *
4710758 TTTATTTTTTAAATCTCTTA--T-T-AATTTTTAAGATATTAATAAATTAATATTATTTTATTCT
1 TTTATTTTTTAAATCTCTTAGTTATCAATTGTCAAAATATTATTAGATTAGTATTATTTTATTC-
* * * * * * * * * * * *
4710819 GA-ACAAATTTATATAAACAAAAACATTTGTTTTATAATAAAACAAAAGGTAATAACAATTTAAA
65 GAGATAAACTTATATGAATAGAAATAATTGTTATATGATAGAACAAAAGGTTATAACAATTTGAA
* * * * * * *
4710883 ATAGATAATCATTCAAATATTCATAATTATTTGAACTAGTTTGACTAACAAAA-TTATTTTTTAA
130 ATAGATAATTATTCAAATAGTCATAACTATTTGAA-TTGATTCAATAA-AAAATTTATTTTTTAA
* * * *
4710947 ATCTCTTACTTATTAATTT-TTGAAATATTAATAAATTCA-ATTTATTTTATT-TCGAAT-AAGT
193 ATCTC--A--TATAAATTTCTTAAAATATTAATAAATT-AGTTTTATTTTATTAT-GAATAAACT
* * * * * *
4711008 TAGTAA-GAGCTGAAAA-AATTGTTTTACAATAAAATAAAATGTT-ATAACT-ATTTGAAATAGA
252 T-G-AATGAGCT-AAAATAATTATTTTATAACAAGACAAAA-GTTCATAA-TGATTGGAAATAGA
* ** *
4711069 TAATTGTTCATATAGCCTTAACTATTTGAAGTGGTTTGACAAACAAT
312 TAATTATTCATATAGCCTTAACTATTTGAAGTGGTTCAACAAACAAA
* * *
4711116 TTTGTTTTTTAAATCTCTTAGTTATTAATTGTCAAAATATTATTAGATTAGTATTATTTTATTCT
1 TTTATTTTTTAAATCTCTTAGTTATCAATTGTCAAAATATTATTAGATTAGTATTATTTTATTCG
* *
4711181 AGATAAGCTTGTATGAATAGAAATAATTGTTATATGATAGAACAAAAGGTTATAACAATTTGAAA
66 AGATAAACTTATATGAATAGAAATAATTGTTATATGATAGAACAAAAGGTTATAACAATTTGAAA
* * * *
4711246 TATATAATTATTCAAATAGTGATAATTATTTGAATTGGTTCAATAAAAAATTTATTTTTTAAATC
131 TAGATAATTATTCAAATAGTCATAACTATTTGAATTGATTCAATAAAAAATTTATTTTTTAAATC
* *
4711311 TCTTATAAATTTTTTAAAATATTAATAAATTAGTTTTATTTTATTATGAATAAACTTGAATGAGC
196 TCATATAAATTTCTTAAAATATTAATAAATTAGTTTTATTTTATTATGAATAAACTTGAATGAGC
*
4711376 TAAAATAATTATTTTATAACAAGACAAAAGTTCATAATGATTGGAAATAGATAATTATTTATATA
261 TAAAATAATTATTTTATAACAAGACAAAAGTTCATAATGATTGGAAATAGATAATTATTCATATA
* * *
4711441 GTCTTAATTATTTGAATTGGTTCAACAAACAAA
326 GCCTTAACTATTTGAAGTGGTTCAACAAACAAA
* * * * * *
4711474 TTTATTTTTTAACTCTCTTAGTTATCAATTTTTATAATATTTTTA-ATTTAGTGTTATTTTATTT
1 TTTATTTTTTAAATCTCTTAGTTATCAATTGTCAAAATATTATTAGA-TTAGTATTATTTTA-TT
* *
4711538 CGA-ATAAATTTATATGAATAGAAATAATTGTTTTATGATA-AA-AAAA-GTTATAACAATTTG-
64 CGAGATAAACTTATATGAATAGAAATAATTGTTATATGATAGAACAAAAGGTTATAACAATTTGA
* *** **
4711598 AATAGATAATTGTTCAAATAGTCATAACTATTTGAACTT-ATTTGGTAAACCGATTT-TTTTATT
129 AATAGATAATTATTCAAATAGTCATAACTATTTGAA-TTGATTCAATAAA-AAATTTATTTT-TT
* * *
4711661 -AATCTCATACT-AA-TTCTTAAAATGTTAATAAATTAGTATTATTTTATT-TCAAATAAACTTG
191 AAATCTCATA-TAAATTTCTTAAAATATTAATAAATTAGTTTTATTTTATTAT-GAATAAACTTG
* ****
4711722 TATGTTAAAAAATAATTATTTTA
254 AATGAGCTAAAATAATTATTTTA
4711745 AGACAAAATA
Statistics
Matches: 526, Mismatches: 82, Indels: 47
0.80 0.13 0.07
Matches are distributed among these distances:
352 1 0.00
353 60 0.11
354 52 0.10
355 23 0.04
356 4 0.01
357 22 0.04
358 213 0.40
359 9 0.02
360 5 0.01
361 26 0.05
362 111 0.21
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.44
Consensus pattern (358 bp):
TTTATTTTTTAAATCTCTTAGTTATCAATTGTCAAAATATTATTAGATTAGTATTATTTTATTCG
AGATAAACTTATATGAATAGAAATAATTGTTATATGATAGAACAAAAGGTTATAACAATTTGAAA
TAGATAATTATTCAAATAGTCATAACTATTTGAATTGATTCAATAAAAAATTTATTTTTTAAATC
TCATATAAATTTCTTAAAATATTAATAAATTAGTTTTATTTTATTATGAATAAACTTGAATGAGC
TAAAATAATTATTTTATAACAAGACAAAAGTTCATAATGATTGGAAATAGATAATTATTCATATA
GCCTTAACTATTTGAAGTGGTTCAACAAACAAA
Found at i:4711995 original size:249 final size:239
Alignment explanation
Indices: 4711563--4712007 Score: 520
Period size: 249 Copynumber: 1.8 Consensus size: 239
4711553 GAATAGAAAT
* *
4711563 AATTGTTTTATGATAAAAAAAGTTATAACAATTTGAATAGATAATTGTTCAAATAGTCATAACTA
1 AATTGTTTTATGATAAAAAAAGTAATAACAATTTGAATAGATAATTATTCAAATAGTCATAACTA
* * *
4711628 TTTGAACTTATTTGGTAAACCGATTTTTTTATTAATCTCATACTAATTCTTAAAATGTTAATAAA
66 TTTAAACTTATTTAGTAAACCGATTTTTTTATTAATCTCATACTAATTCTTAAAATATTAATAAA
** * * *
4711693 TTAGTATTATTTTATTTCAAATAAACTTGTATGTTAAAAAATAATTATTTTAAGACAAAATAAAA
131 GCAGTATTATTTTATTTCAAATAAACTTGTATGTAAAAAAACAATTATTTTAAGACAAAACAAAA
4711758 GATAGTAACAATTTTATTTCAAATAAGCTTTTATGTTGAAAAAC
196 GATAGTAACAATTTTATTTCAAATAAGCTTTTATGTTGAAAAAC
** *
4711802 AATTGTTTTATGATAAAATGAAAGGTAATAATGATTTGAAATAGATAATTATTCAAAT-GGCTAT
1 AATTGTTTTATGATAAAA--AAA-GTAATAACAATTTG-AATAGATAATTATTCAAATAGTC-AT
* * * * * *
4711866 AATTATTTAAACTTATTTAGTAATCTGATTTATTTTTTTAAATCTCTTACTTGTTAATT-TTCAC
61 AACTATTTAAACTTATTTAGTAAACCGATTT-TTTTATT-AATCTCATAC----TAATTCTT-AA
*** * *
4711930 AATATTAATAAAGCAGTATTATTTTATTTTGGATATACTT-T-TGTAAACTAAAACAATTGTTTT
119 AATATTAATAAAGCAGTATTATTTTATTTCAAATAAACTTGTATGTAAA--AAAACAATTATTTT
4711993 AAGACAAAACAAAAG
182 AAGACAAAACAAAAG
4712008 TTCATAATGA
Statistics
Matches: 168, Mismatches: 24, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
239 18 0.11
241 3 0.02
242 13 0.08
243 46 0.27
244 6 0.04
245 9 0.05
247 5 0.03
248 3 0.02
249 65 0.39
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.42
Consensus pattern (239 bp):
AATTGTTTTATGATAAAAAAAGTAATAACAATTTGAATAGATAATTATTCAAATAGTCATAACTA
TTTAAACTTATTTAGTAAACCGATTTTTTTATTAATCTCATACTAATTCTTAAAATATTAATAAA
GCAGTATTATTTTATTTCAAATAAACTTGTATGTAAAAAAACAATTATTTTAAGACAAAACAAAA
GATAGTAACAATTTTATTTCAAATAAGCTTTTATGTTGAAAAAC
Found at i:4712167 original size:181 final size:180
Alignment explanation
Indices: 4711768--4714367 Score: 1956
Period size: 181 Copynumber: 14.5 Consensus size: 180
4711758 GATAGTAACA
* * * * * ** *
4711768 ATTTTATTTCAAATAAGCTTTTATG-TTGAAAAACAATTGTTTTATGATAAAATGAAAGGTAATA
1 ATTTTATTTCGAATAAGCTTGTATGAAT-AGAAACAATTGTTTTATGACAAAACAAAAGGTCATA
* * * * * * * *
4711832 ATGATTTGAAATAGATAATTATTCAAAT-GGCTATAATTATTTAAACTTATTTAGTAATCTGATT
65 ATGATTTGAAATAGATAATTGTTCAAATAGTC-ATAACTATTTGAACTTGTTCAGTAAACAGATT
* *** **
4711896 TATTTTTTTAAATCTCTTACTTGTTAATTTTCACAATATTAATAAAGCAGTATT
129 T-TTTTTTTAAATCTCTTACTTATTAATTTTTTGAA-ATTAATAAATTAGTATT
* * * * * * *
4711950 ATTTTATTTTGGATATA-CTTTTGTAAACTA-AAACAATTGTTTTAAGACAAAACAAAAGTTCAT
1 ATTTTATTTCGAATA-AGCTTGTATGAA-TAGAAACAATTGTTTTATGACAAAACAAAAGGTCAT
* * *
4712013 AATGATTTTAAATAGATAATTGTTCAAATAGTCATAGCTATTTGAACTTGTTCTGTAAACAGATT
64 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAGATT
*
4712078 TTTTTTTTAAATCTCTTGCTTATTAATTTTTTGAAAGTTAATAAATTAGTATT
129 TTTTTTTTAAATCTCTTACTTATTAATTTTTTGAAA-TTAATAAATTAGTATT
* * * * * *
4712131 ATTTTCTTTCGAATAAGCTTGTATGAATTGAAACAATTATTTTATGACTAAACGAAAGGTCAAAA
1 ATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA
* * * * * * *
4712196 TGATTTAAAATAGATAATTATTCTAATAATCTTAACTATTTGAA-TTGATTCA-CAAACACA-TT
66 TGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG-TTCAGTAAACAGATTT
* ** *
4712258 TTTTTTTAAA--TCTTACTTATTAGTTTTTAAAATATTATTAAATTAGTATT
130 TTTTTTTAAATCTCTTACTTATTAATTTTTTGAA-ATTAATAAATTAGTATT
* * * * * *
4712308 ATTTT-TATTCGAATCAGCTTTTATGATTAGAAATAATTATTTTATGACAAAAC-AAAGATCATA
1 ATTTTAT-TTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATA
** * * ** * *
4712371 ATGATTT-AAGATTTATATTTGTTCAAATAGTCATAACTATTAGAAC-TGCTTTGGAAAATA-AC
65 ATGATTTGAA-ATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG-TTCAGTAAACAGA-
** * * * * *
4712433 TTTAGTTTTTAAATCTCCTACTTAATAA-TCTTTGAAATATTAATAAAGTAGGATT
127 TTTTTTTTTTAAATCTCTTACTTATTAATTTTTTG-AA-ATTAATAAATTAGTATT
* * * * * ** ** * * *
4712488 ATTTTATTTTGGATAAGTTTTTATTAACT-GAAATTATTGTTTTACAATAAAATAAAAGGTCAAA
1 ATTTTATTTCGAATAAGCTTGTATGAA-TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATA
* * * * *
4712552 ATAATTTTAAATAGATAATTGTTCAAATAGTCATATCTATTTGAAATTGTTCAGTAAATAGATTT
65 ATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAGATTT
* * * *
4712617 ATTGTTTTAAATCTCTTGCTTGTTAATTTTTTGAATGTTAATAAATTAGTATT
130 -TTTTTTTAAATCTCTTACTTATTAATTTTTTGAA-ATTAATAAATTAGTATT
* * * * * * *
4712670 ATTTTATTCCAAATAAGCTTGTATGAACT-GAAATAATTATTTTATGACTAAACAAAAGGTTAGA
1 ATTTTATTTCGAATAAGCTTGTATGAA-TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATA
** * ** * * ** * *
4712734 ACAATTTGAAGTAGATAATTGTTTTAACAGTCTTAACTATTTGAA-TTGGTTCAACAAAAATATT
65 ATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTT-GTTCAGTAAACAGATT
* * *
4712798 TATTTTTTAAATCTCTTACTTATTAA-TTTTTGAAATATTACTAAATTAGTATC
129 TTTTTTTTAAATCTCTTACTTATTAATTTTTTG-AA-ATTAATAAATTAGTATT
* * * * * * * *
4712851 ATTTTAATCCAAATAAGCTTGTATGAAAAGAAACAATTGTTGTATGACAAAA-TAAAGATCATTA
1 ATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA
* * * * * *
4712915 TGATTTGAGATGGAGAATTGTTCAAATAGTCATAAATATTTGAA-TCGATTCAGTAAGCAGA-TT
66 TGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG-TTCAGTAAACAGATTT
** * **
4712978 TAGTTTTAAA-ATC-T-CTTATTAATTTTTAAAATATTAATAAATTAGTATT
130 TTTTTTTAAATCTCTTACTTATTAATTTTTTGAA-ATTAATAAATTAGTATT
* * * * * * * *
4713027 ATTTTATTT-GAATAA-TTCTATATGAACAGAAATAATTATTTTACGATAAAAAAAAAGGTCATA
1 ATTTTATTTCGAATAAGCT-TGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATA
* * * *
4713090 ATGATTT-ACAATAGATAAATGTTCAAATGGACATAACTATTTGAACTTGTTC-GCTAAACATAT
65 ATGATTTGA-AATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCAG-TAAACAGAT
* * * **** * *
4713153 TTATTTTTTAAATCTCCTAC-CATTAATTTACACAATATTACTAAAATAGTATT
128 TTTTTTTTTAAATCTCTTACTTATTAATTTTTTGAA-ATTAATAAATTAGTATT
* * * * * * * *
4713206 ATTTTATTCCAAATAAACTTGTATGAATAAAAATAATTGCTTTATGACAAAACAAAAGATTATAA
1 ATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA
* * * * * ** **
4713271 CT-ATTTGAAATAAAAAATTGTTGAAACAATCATAACTATTT-AAGCTTACTC-GATAAATGGAT
66 -TGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAA-CTTGTTCAG-TAAACAGAT
* * *
4713333 TTATTTTTTAAATCTTTTACTTATTAATTTTTGGAATATTAATAAATTAGTATT
128 TTTTTTTTTAAATCTCTTACTTATTAATTTTTTGAA-ATTAATAAATTAGTATT
* * * * * * *
4713387 ATTTTATTTTGAGTAAGCTTGTATGGACAGACACAATTGGTTTATCACAAAA-ATAAAGGTCATA
1 ATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACA-AAAGGTCATA
* * * * * *
4713451 ACT-ATTTGAAATAGATAATTGTTCAAATAGTCAAAACTATTTGAACGTGTTCTA-AAAAAAAAA
65 A-TGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTC-AGTAAACAGAT
* *
4713514 TTATTTTTTAAA-----TA-TTA--AA-TTTTGGAATATTAATAAATT--TAATT
128 TTTTTTTTTAAATCTCTTACTTATTAATTTTTTGAA-ATTAATAAATTAGT-ATT
*
4713558 ATTTTA-TTCAAAATAAGCTTGTATGAATAGAAACAATTG-TTTATGACAAAACAAAAGGTCATA
1 ATTTTATTTC-GAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATA
* * *
4713621 ATGATTTGAAATAGATAATTGTTCAAACAGTCATAATTATTTAAACTTGATT-AGTAAACAGATT
65 ATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTG-TTCAGTAAACAGATT
* *
4713685 CATTTTTTTAAA--TC-T-CTTATTAATTTTTAGAATATTAATAAATTAGTGA-T
129 -TTTTTTTTAAATCTCTTACTTATTAATTTTTTGAA-ATTAATAAATTAGT-ATT
* * * * * * *
4713735 ATTTTATTTCAAATAAGCCTATATGAACT-GATATAATTGTTTTATGACAAAATAATAGGTCATA
1 ATTTTATTTCGAATAAGCTTGTATGAA-TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATA
** * * * * * *
4713799 ACAATTTAAAATAGATAATTATTCAAATAGTTATGACTATTTGAACTTATTCAGTAAACATA-TT
65 ATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAGATTT
* * * ** *
4713863 TATTTTAAAATCTTTTACTTATTAATTTTTAAAATATTAATAAATTAATATT
130 TTTTTTTAAATCTCTTACTTATTAATTTTTTGAA-ATTAATAAATTAGTATT
* ** * * * * * * *
4713915 ATTTTAATTCGAATTGGCTTGTATGAAGAAAAACAATTATGTCATGACAAAACAAAAAGTCAAAA
1 ATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA
* * * ** * *
4713980 CGATTTTAAATAAATTTTTGTTCAAATAGTCATAACTATTTGAACTTATTC-GATAAATAGATTT
66 TGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCAG-TAAACAGATTT
* * * * * *
4714044 ATTTTTTT-AATCTTTTACTTATTAGTTATCTGAATATTAATAAATTTGTATA
130 -TTTTTTTAAATCTCTTACTTATTAATTTTTTGAA-ATTAATAAATTAGTATT
* * *
4714096 ATCTTATTT-GAAATAAGCTTGTATGAATAGAAA-ATTTTGTTTTATGACAAAACAAAAGGTTAT
1 ATTTTATTTCG-AATAAGCTTGTATGAATAGAAACA-ATTGTTTTATGACAAAACAAAAGGTCAT
* * * * *
4714159 AGTGATTTGAAATAGATAATTGTTCAAATAGTCATAATTATTTGTACTTGTTCGGTAAACAAATT
64 AATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAGATT
** * * * * * *
4714224 CATTTTTTAAATCTCTTATTTATTAATTTTTAGAATGTTAAAAAAATAGAATT
129 TTTTTTTTAAATCTCTTACTTATTAATTTTTTGAA-ATTAATAAATTAGTATT
* * * * * * * * *
4714277 ATGTTATTTCAAATAAGCTTGTACGAATAAAAATAATTATTTTATGATAAAACAAAATGTCAAAA
1 ATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA
4714342 TGATTTGAAATAGATAATTGTTCAAA
66 TGATTTGAAATAGATAATTGTTCAAA
4714368 CAGTTGTCAT
Statistics
Matches: 1912, Mismatches: 422, Indels: 169
0.76 0.17 0.07
Matches are distributed among these distances:
169 2 0.00
170 72 0.04
171 45 0.02
172 20 0.01
173 6 0.00
174 1 0.00
175 40 0.02
176 163 0.09
177 131 0.07
178 92 0.05
179 66 0.03
180 368 0.19
181 652 0.34
182 244 0.13
183 9 0.00
184 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (180 bp):
ATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA
TGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCAGTAAACAGATTTT
TTTTTTAAATCTCTTACTTATTAATTTTTTGAAATTAATAAATTAGTATT
Found at i:4713993 original size:709 final size:709
Alignment explanation
Indices: 4711892--4714371 Score: 2296
Period size: 709 Copynumber: 3.5 Consensus size: 709
4711882 TTAGTAATCT
* ** **
4711892 GATTTATTTTTTTAAATCTCTTACTTGTTAATTTTCACAATATTAATAAAGCAGTATTATTTTAT
1 GATTTA-TTTTTTAAATCTCTTACTTATTAATTTT-TGAATATTAATAAATTAGTATTATTTTAT
* * * * * *
4711957 TTTGGATATA-CTTTTGTAAACTA-AAACAATTGTTTTAAGACAAAACAAAAGTTCATAA-TGAT
64 TTTGAATA-AGCTTGTATGAAC-AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTGAT
* * ** * * * *
4712019 TTTAAATAGATAATTGTTCAAATAGTCATAGCTATTTGAACTTGTTCTGTAAACAGATTTTTTTT
127 TTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTC-AAAAAAAAAATTATTTT
* * * *
4712084 TTAAATCTCTTGCTTATTAATTTTTTGAA-AGTTAATAAATTAGTATTATTTTCTTTCGAATAAG
191 TTAAA----TTACTTA-TAATTTTTGGAATA-TTAATAAATTAG-ATTATTTT-ATTCAAATAAG
* * * * *
4712148 CTTGTATGAATTGAAACAATTATTTTATGACTAAACGAAAGGTCAAAATGATTTAAAATAGATAA
248 CTTGTATGAATAGAAACAATTAGTTTATGACAAAACAAAAGGTCAAAATGATTTGAAATAGATAA
* * * * * * * *
4712213 TTATTCTAATAATCTTAACTATTTGAATTGATTCA-CAAACACATT-TTTTTTTAAATCTTACTT
313 TTGTTCAAACAGTCATAAATATTTGAATTGATTCAGTAAACAGATTATTTTTTTAAATC-T-CTT
* * * * * *
4712276 ATTAGTTTTTAAAATATTATTAAATTAGTATTATTTT-TATTCGAATCAGCTTTTATG-ATTAGA
376 ATTAATTTTTAAAATATTAATAAATTAGTATTATTTTAT-TTCGAATAAGCCTATATGAACT-GA
* * * ** *
4712339 AATAATTATTTTATGACAAAACAAAGATCATAATGATTTAAGATTTATATTTGTTCAAATAGTCA
439 AATAATTATTTTATGACAAAAAAAAGGTCATAATGATTTAAAATAGATAATTGTTCAAATAGTCA
* ** * * * * *
4712404 TAACTATTAGAACTGCTTTGGAAA-ATAACTTTAGTTTTTAAATCTCCTACTTAATAATCTTTGA
504 TAACTATTTGAACTTATTCGTAAACAT-A-TTTAGTTTTTAAATCTCCTACTTATTAATTTTTAA
* * * * * * * * ** * *
4712468 AATATTAATAAAGTAGGATTATTTTATTTTGGATAAGTTTTTATTAACTGAAATTATTGTTT-T-
567 AATATTAATAAAATAGTATTATTTTAATTCGAATAAGCTTGTATGAACAAAAATAATTATTTATG
* * * *
4712531 ACAATAAAATAAAAGGTCAAAATAATTTTAAATAGATAATTGTTCAAATAGTCATATCTATTTGA
632 ACAA-AACA-AAAA-GTCAAAACAATTTTAAATAAATAATTGTTCAAATAGTCATAACTATTTGA
* *
4712596 AATTGTTC-AGTAAATA
694 ACTTATTCGA-TAAATA
* * *
4712612 GATTTATTGTTTTAAATCTCTTGCTTGTTAATTTTTTGAATGTTAATAAATTAGTATTATTTTAT
1 GATTTATT-TTTTAAATCTCTTACTTATTAA-TTTTTGAATATTAATAAATTAGTATTATTTTAT
*** * * * * * * *
4712677 TCCAAATAAGCTTGTATGAACTGAAATAATTATTTTATGACTAAACAAAAGGTTAGAAC-AATTT
64 TTTGAATAAGCTTGTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTGATTT
* ** * * * *
4712741 GAAGTAGATAATTGTTTTAACAGTCTTAACTATTTGAA-TTGGTTCAACAAAAATATTTATTTTT
129 GAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTT-GTTCAA-AAAAAAAATTATTTTT
* * * *
4712805 TAAATCTCTTACTTATTAATTTTTGAAATATTACTAAATTAGTATCATTTTAATCCAAATAAGCT
192 TAAA----TTACTTA-TAATTTTTGGAATATTAATAAATTAG-ATTATTTT-ATTCAAATAAGCT
* * * ** * * *
4712870 TGTATGAAAAGAAACAATT-GTTGTATGACAAAA-TAAAGATCATTATGATTTGAGATGGAGAAT
250 TGTATGAATAGAAACAATTAGTT-TATGACAAAACAAAAGGTCAAAATGATTTGAAATAGATAAT
* * * * *
4712933 TGTTCAAATAGTCATAAATATTTGAATCGATTCAGTAAGCAGATT-TAGTTTTAAAATCTCTTAT
314 TGTTCAAACAGTCATAAATATTTGAATTGATTCAGTAAACAGATTAT-TTTTTTAAATCTCTTAT
** *
4712997 TAATTTTTAAAATATTAATAAATTAGTATTATTTTATTT-GAATAATTCTATATGAACAGAAATA
378 TAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCCTATATGAACTGAAATA
* * * * * *
4713061 ATTATTTTACGATAAAAAAAAAGGTCATAATGATTTACAATAGATAAATGTTCAAATGGACATAA
443 ATTATTTTATGA-CAAAAAAAAGGTCATAATGATTTAAAATAGATAATTGTTCAAATAGTCATAA
* * * ** *
4713126 CTATTTGAACTTGTTCGCTAAACATATTTATTTTTTAAATCTCCTAC-CATTAATTTACACAATA
507 CTATTTGAACTTATTCG-TAAACATATTTAGTTTTTAAATCTCCTACTTATTAATTTTTAAAATA
* * * * *
4713190 TTACTAAAATAGTATTATTTT-ATTCCAAATAAACTTGTATGAATAAAAATAATTGCTTTATGAC
571 TTAATAAAATAGTATTATTTTAATT-CGAATAAGCTTGTATGAACAAAAATAATT-ATTTATGAC
* * * * * * * *
4713254 AAAAC-AAAAGATTATAACTATTTGAAATAAAAAATTGTTGAAACAATCATAACTATTT-AAGCT
634 AAAACAAAAAG-TCAAAACAATTTTAAATAAATAATTGTTCAAATAGTCATAACTATTTGAA-CT
* *
4713317 TACTCGATAAATG
697 TATTCGATAAATA
*
4713330 GATTTATTTTTTAAATCTTTTACTTATTAATTTTTGGAATATTAATAAATTAGTATTATTTTATT
1 GATTTATTTTTTAAATCTCTTACTTATTAATTTTT-GAATATTAATAAATTAGTATTATTTTATT
* * * * *
4713395 TTGAGTAAGCTTGTATGGACAGACACAATTGGTTTATCACAAAA-ATAAAGGTCATAACT-ATTT
65 TTGAATAAGCTTGTATGAACAGAAACAATTGTTTTATGACAAAACA-AAAGGTCATAACTGATTT
* *
4713458 GAAATAGATAATTGTTCAAATAGTCAAAACTATTTGAACGTGTTCTAAAAAAAAAATTATTTTTT
129 GAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTC-AAAAAAAAAATTATTTTTT
4713523 AAA-TA-TTA-AA-TTTTGGAATATTAATAAATTTA-ATTATTTTATTCAAAATAAGCTTGTATG
193 AAATTACTTATAATTTTTGGAATATTAATAAA-TTAGATTATTTTATTC-AAATAAGCTTGTATG
*
4713583 AATAGAAACAATT-GTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAA
256 AATAGAAACAATTAGTTTATGACAAAACAAAAGGTCAAAATGATTTGAAATAGATAATTGTTCAA
* *
4713647 ACAGTCATAATTATTTAAACTTGATT-AGTAAACAGATTCATTTTTTTAAATCTCTTATTAATTT
321 ACAGTCATAAATATTTGAA-TTGATTCAGTAAACAGATT-ATTTTTTTAAATCTCTTATTAATTT
* * * *
4713711 TTAGAATATTAATAAATTAGTGA-TATTTTATTTCAAATAAGCCTATATGAACTGATATAATTGT
384 TTAAAATATTAATAAATTAGT-ATTATTTTATTTCGAATAAGCCTATATGAACTGAAATAATTAT
* ** * * *
4713775 TTTATGACAAAATAATAGGTCATAACAATTTAAAATAGATAATTATTCAAATAGTTATGACTATT
448 TTTATGACAAAA-AAAAGGTCATAATGATTTAAAATAGATAATTGTTCAAATAGTCATAACTATT
* **
4713840 TGAACTTATTCAGTAAACATATTTA-TTTTAAAATCTTTTACTTATTAATTTTTAAAATATTAAT
512 TGAACTTATTC-GTAAACATATTTAGTTTTTAAATCTCCTACTTATTAATTTTTAAAATATTAAT
* * ** * * *
4713904 AAATTAATATTATTTTAATTCGAATTGGCTTGTATGAAGAAAAACAATTATGTCATGACAAAACA
576 AAAATAGTATTATTTTAATTCGAATAAGCTTGTATGAACAAAAATAATTAT-TTATGACAAAACA
* **
4713969 AAAAGTCAAAACGATTTTAAATAAATTTTTGTTCAAATAGTCATAACTATTTGAACTTATTCGAT
640 AAAAGTCAAAACAATTTTAAATAAATAATTGTTCAAATAGTCATAACTATTTGAACTTATTCGAT
4714034 AAATA
705 AAATA
* * * * * * *
4714039 GATTTATTTTTTTAATCTTTTACTTATTAGTTATCTGAATATTAATAAATTTGTATAATCTTA-T
1 GATTTATTTTTTAAATCTCTTACTTATTAATT-TTTGAATATTAATAAATTAGTATTATTTTATT
* * * *
4714103 TTGAAATAAGCTTGTATGAATAGAAA-ATTTTGTTTTATGACAAAACAAAAGGTTAT-AGTGATT
65 TTG-AATAAGCTTGTATGAACAGAAACA-ATTGTTTTATGACAAAACAAAAGGTCATAACTGATT
* * *** *
4714166 TGAAATAGATAATTGTTCAAATAGTCATAATTATTTGTACTTGTTCGGTAAACAAATTCATTTTT
128 TGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCAAAAAAAAAATT-ATTTTT
* * * * * *
4714231 TAAATCTCTTATTTATTAATTTTTAGAATGTTAAAAAAATAGAATTATGTTATTTCAAATAAGCT
192 TAAA----TTACTTA-TAATTTTTGGAATATTAATAAATTAG-ATTATTTTA-TTCAAATAAGCT
* * * * * *
4714296 TGTACGAATAAAAATAATTATTTTATGATAAAACAAAATGTCAAAATGATTTGAAATAGATAATT
250 TGTATGAATAGAAACAATTAGTTTATGACAAAACAAAAGGTCAAAATGATTTGAAATAGATAATT
4714361 GTTCAAACAGT
315 GTTCAAACAGT
4714372 TGTCATAACG
Statistics
Matches: 1436, Mismatches: 262, Indels: 124
0.79 0.14 0.07
Matches are distributed among these distances:
706 13 0.01
707 95 0.07
708 105 0.07
709 365 0.25
710 14 0.01
711 3 0.00
712 2 0.00
714 2 0.00
715 3 0.00
716 6 0.00
717 156 0.11
718 148 0.10
719 209 0.15
720 295 0.21
721 20 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (709 bp):
GATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAATATTAATAAATTAGTATTATTTTATTT
TGAATAAGCTTGTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTGATTTGA
AATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCAAAAAAAAAATTATTTTTTAAA
TTACTTATAATTTTTGGAATATTAATAAATTAGATTATTTTATTCAAATAAGCTTGTATGAATAG
AAACAATTAGTTTATGACAAAACAAAAGGTCAAAATGATTTGAAATAGATAATTGTTCAAACAGT
CATAAATATTTGAATTGATTCAGTAAACAGATTATTTTTTTAAATCTCTTATTAATTTTTAAAAT
ATTAATAAATTAGTATTATTTTATTTCGAATAAGCCTATATGAACTGAAATAATTATTTTATGAC
AAAAAAAAGGTCATAATGATTTAAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTAT
TCGTAAACATATTTAGTTTTTAAATCTCCTACTTATTAATTTTTAAAATATTAATAAAATAGTAT
TATTTTAATTCGAATAAGCTTGTATGAACAAAAATAATTATTTATGACAAAACAAAAAGTCAAAA
CAATTTTAAATAAATAATTGTTCAAATAGTCATAACTATTTGAACTTATTCGATAAATA
Found at i:4714870 original size:14 final size:14
Alignment explanation
Indices: 4714841--4714869 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4714831 AGGATAAAAA
4714841 TTATTTATTATTTT
1 TTATTTATTATTTT
4714855 TTATTT-TTATTTT
1 TTATTTATTATTTT
4714868 TT
1 TT
4714870 TTTGAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTATTTATTATTTT
Found at i:4715868 original size:21 final size:19
Alignment explanation
Indices: 4715819--4715859 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
4715809 TACTAGTAAC
*
4715819 TTTTC-AAAA-CACCAATT
1 TTTTCAAAAATCAACAATT
4715836 TTTTCAAAAATCAACAATT
1 TTTTCAAAAATCAACAATT
4715855 TTTTC
1 TTTTC
4715860 CTAAAAATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 4 0.19
19 12 0.57
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTTCAAAAATCAACAATT
Found at i:4716149 original size:3 final size:3
Alignment explanation
Indices: 4716143--4716189 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
4716133 AAGAAGAAAA
* *
4716143 AAT AAT AAT AAT AAC AAT AAT AAT AAC AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
4716189 A
1 A
4716190 CTATACAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:4716161 original size:12 final size:12
Alignment explanation
Indices: 4716146--4716208 Score: 74
Period size: 12 Copynumber: 5.2 Consensus size: 12
4716136 AAGAAAAAAT
4716146 AATAATAATAAC
1 AATAATAATAAC
4716158 AATAATAATAAC
1 AATAATAATAAC
*
4716170 AATAATAATAATA
1 AATAATAATAA-C
*
4716183 AATAATACTATAC
1 AATAATAATA-AC
*
4716196 AAT-ATGATAAC
1 AATAATAATAAC
4716207 AA
1 AA
4716209 AAAATAGTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
11 4 0.09
12 27 0.61
13 12 0.27
14 1 0.02
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:4716205 original size:25 final size:25
Alignment explanation
Indices: 4716146--4716214 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
4716136 AAGAAAAAAT
4716146 AATAATAATAAC-AATAATAATAAC
1 AATAATAATAACAAATAATAATAAC
* *
4716170 AATAATAATAATAAATAATACTATAC
1 AATAATAATAACAAATAATAATA-AC
* *
4716196 AAT-ATGATAACAAAAAATA
1 AATAATAATAACAAATAATA
4716215 GTGAAATATG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
24 11 0.29
25 22 0.58
26 5 0.13
ACGTcount: A:0.65, C:0.07, G:0.01, T:0.26
Consensus pattern (25 bp):
AATAATAATAACAAATAATAATAAC
Found at i:4716262 original size:21 final size:21
Alignment explanation
Indices: 4716222--4716265 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4716212 ATAGTGAAAT
*
4716222 ATGGTCCAATTAACCCCGAAC
1 ATGGTCCAATCAACCCCGAAC
* *
4716243 ATGGTCCAATCGACCTCGAAC
1 ATGGTCCAATCAACCCCGAAC
4716264 AT
1 AT
4716266 AAATGAGTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (21 bp):
ATGGTCCAATCAACCCCGAAC
Found at i:4716679 original size:121 final size:121
Alignment explanation
Indices: 4716433--4716667 Score: 280
Period size: 121 Copynumber: 1.9 Consensus size: 121
4716423 GTCGATGTCA
* *
4716433 AAAATAAATGACTGAGATGGAACCATGAGTCATAAAAAAATGATCTAGGCTAAGCCAAGATCAGA
1 AAAATAAATGACCGAGATGGAACCATGAGTCATAAAAAAATGATCTAGACTAAGCCAAGATCAGA
** * ** *
4716498 AGACTGAGGTGAAATCTCAAGTCAAAAATGAAGTGACTAAGATCGAGTCGAAATTG
66 AGACTGAGGACAAAACTCAAGTCAAAAATGAAGCAACCAAGATCGAGTCGAAATTG
* * * *
4716554 AAAATAAATGACCGTGATGGAACCAT-ATGTCAT-AAGAAATGATTTAGACTGAGCCAAGATCAG
1 AAAATAAATGACCGAGATGGAACCATGA-GTCATAAAAAAATGATCTAGACTAAGCCAAGATCAG
* *
4716617 ATGATTGA-GACAAAAC-CATGAGTCAAAAAATGAAGCAACCAAGATCGAGTC
65 AAGACTGAGGACAAAACTCA--AGTC-AAAAATGAAGCAACCAAGATCGAGTC
4716668 AAGGTTGAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
118 2 0.02
119 5 0.05
120 37 0.39
121 52 0.54
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (121 bp):
AAAATAAATGACCGAGATGGAACCATGAGTCATAAAAAAATGATCTAGACTAAGCCAAGATCAGA
AGACTGAGGACAAAACTCAAGTCAAAAATGAAGCAACCAAGATCGAGTCGAAATTG
Found at i:4717477 original size:50 final size:50
Alignment explanation
Indices: 4717423--4717520 Score: 112
Period size: 50 Copynumber: 2.0 Consensus size: 50
4717413 CCCTTTCAGG
4717423 TTTTCAGTTTAAG-TCTTCTTTTTTCTTC-AT-TTGTCTCTTTTCCTTTTTCT
1 TTTTC-GTTT-AGCTCTT-TTTTTTCTTCAATGTTGTCTCTTTTCCTTTTTCT
* * * *
4717473 TTTTCGTTTTGCTCTTTTTTTTTTTCAATGTTGTGTTTTTTCCTTTTT
1 TTTTCGTTTAGCTCTTTTTTTTCTTCAATGTTGTCTCTTTTCCTTTTT
4717521 TTCTTCTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
48 10 0.24
49 10 0.24
50 21 0.51
ACGTcount: A:0.06, C:0.16, G:0.08, T:0.69
Consensus pattern (50 bp):
TTTTCGTTTAGCTCTTTTTTTTCTTCAATGTTGTCTCTTTTCCTTTTTCT
Found at i:4717534 original size:13 final size:13
Alignment explanation
Indices: 4717516--4717550 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
4717506 TGTTTTTTCC
*
4717516 TTTTTTTCTT-CT
1 TTTTTTTTTTGCT
4717528 TTTTTTTTTTGCT
1 TTTTTTTTTTGCT
4717541 TTTTTTTTTT
1 TTTTTTTTTT
4717551 TATACACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTGCT
Found at i:4717537 original size:16 final size:15
Alignment explanation
Indices: 4717516--4717551 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
4717506 TGTTTTTTCC
4717516 TTTTTTT-CTTCTTTT
1 TTTTTTTGCTT-TTTT
4717531 TTTTTTTGCTTTTTT
1 TTTTTTTGCTTTTTT
4717546 TTTTTT
1 TTTTTT
4717552 ATACACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (15 bp):
TTTTTTTGCTTTTTT
Found at i:4720703 original size:17 final size:18
Alignment explanation
Indices: 4720659--4720706 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
4720649 ATGAATAACT
*
4720659 AAAACAAATATAAGCAATG
1 AAAACAAATA-AAACAATG
*
4720678 AAAAGAAATAAAACAATG
1 AAAACAAATAAAACAATG
4720696 AAAA-AAATAAA
1 AAAACAAATAAA
4720707 TTTCAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 7 0.26
18 11 0.41
19 9 0.33
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.12
Consensus pattern (18 bp):
AAAACAAATAAAACAATG
Found at i:4721467 original size:15 final size:15
Alignment explanation
Indices: 4721447--4721476 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4721437 TTTTGAAAAC
4721447 TTTATTTAAAAAGAT
1 TTTATTTAAAAAGAT
*
4721462 TTTATTTGAAAAGAT
1 TTTATTTAAAAAGAT
4721477 ATTTTCATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (15 bp):
TTTATTTAAAAAGAT
Found at i:4721526 original size:24 final size:25
Alignment explanation
Indices: 4721485--4721531 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
4721475 ATATTTTCAT
*
4721485 ATTTTTTCTCTTGCTTTATAGAATC
1 ATTTTTTCTCTTGCTTTAAAGAATC
**
4721510 ATTTTTTCT-TTTTTTTAAAGAA
1 ATTTTTTCTCTTGCTTTAAAGAA
4721532 AATTTATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (25 bp):
ATTTTTTCTCTTGCTTTAAAGAATC
Found at i:4721636 original size:19 final size:19
Alignment explanation
Indices: 4721614--4721654 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4721604 GTTAAAAATC
* *
4721614 AAATCAAATCAAAAAATAA
1 AAATAAAATCAAAAAAGAA
*
4721633 AAATAAAATGAAAAAAGAA
1 AAATAAAATCAAAAAAGAA
4721652 AAA
1 AAA
4721655 CTTGAGATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (19 bp):
AAATAAAATCAAAAAAGAA
Found at i:4722407 original size:3 final size:3
Alignment explanation
Indices: 4722399--4722446 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
4722389 TTTTGGTCCC
4722399 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4722446 A
1 A
4722447 CTATACAATG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4722855 original size:181 final size:180
Alignment explanation
Indices: 4722542--4722985 Score: 482
Period size: 181 Copynumber: 2.5 Consensus size: 180
4722532 ATCTACAATG
* * * * * * * *
4722542 GTCATAACTATTTGTACTGGTCAGGCCAA-CATATTCATTTTTTAAATCTGTTACTTATTAATTT
1 GTCATAACTAATTGAACTGGTTAGGCAAATAAAATT-ATTTTTAAAATCTCTTACTTATTAATTT
* * * * * * *
4722606 TAGAATATTAATAACTTAGTATTACTTTATTCCGAATAAGACTGTATGAATAGAAACAATTGTTT
65 TAAAATATTAATAAATTAATATTACTTTATTCCAAACAAGACTATATGAATAAAAACAATTGTTT
* * *
4722671 TATGATAAAACAAATGGTCGTAATGATTTGAAATAAATAATTATTCAAATA
130 TATGACAAAACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAAATA
* * * * * * * *
4722722 GTTATAACTAATTGAACTAGTTTA-GTAAATAGATTTATTTTTCAAATTTCTTACTTCTTAATTT
1 GTCATAACTAATTGAACT-GGTTAGGCAAATAAAATTATTTTTAAAATCTCTTACTTATTAATTT
* *
4722786 TCAAAATATTAATAAATTAATATTATTTTATTTCAAACAA-ACTTATATGAATAAAAAC-ATGTG
65 T-AAAATATTAATAAATTAATATTACTTTATTCCAAACAAGAC-TATATGAATAAAAACAAT-TG
* *
4722849 TTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATA
127 TTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAAATA
* * * *
4722903 GTCATAATTATTTGAACTGGTTAGGCAAATAAAATTATTTTTTAAAATCTCTTACTTGTTAGGTT
1 GTCATAACTAATTGAACTGGTTAGGCAAATAAAATTA-TTTTTAAAATCTCTTACTTATTA-ATT
*
4722968 TTGAAATATTAATAAATT
64 TTAAAATATTAATAAATT
4722986 TGAAATATTA
Statistics
Matches: 215, Mismatches: 41, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
180 51 0.24
181 125 0.58
182 35 0.16
183 4 0.02
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (180 bp):
GTCATAACTAATTGAACTGGTTAGGCAAATAAAATTATTTTTAAAATCTCTTACTTATTAATTTT
AAAATATTAATAAATTAATATTACTTTATTCCAAACAAGACTATATGAATAAAAACAATTGTTTT
ATGACAAAACAAAAGGTCATAATGATTTGAAATAAATAATTATTCAAATA
Found at i:4723502 original size:181 final size:178
Alignment explanation
Indices: 4723286--4723812 Score: 526
Period size: 181 Copynumber: 2.9 Consensus size: 178
4723276 TGTCATAACA
* * * * * *
4723286 ATTTGAAATATATAATTGTTCAAATAGTCATAACTATTTGAACATGTTCAAAAAACATATTTATT
1 ATTTGAAAGAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAATAAACAAATTTATT
* *
4723351 TTTAAAATTTTTACTTATTAATTTTTGAAATTTTAATAAATTTATTATTATTTTATTCAAAATAC
66 TTTAAAATTTTTACTTATTAATTTTTGAAATATTAATAAA-TTAATATTATTTTATTCAAAA-A-
* * ** * *
4723416 GCTTGCATGAATAGAACCAATAATTTTATGACAAAACAGATGGTCATAATG
128 GCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAGAAGGTCACAATG
* * *** **
4723467 TTTTGAAATAGATAATTATTTTGATAGTCATAACTATTTGAACTTGTTCGGTAAACAAATTCATA
1 ATTTGAAAGAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAATAAACAAATT--TA
* ** **
4723532 TTTTT--AATTCCCTTACCCATTAA-TTTTGGTATATTAATAAATTAGA-ATTATTTTATTTCAA
64 TTTTTAAAATT--TTTACTTATTAATTTTTGAAATATTAATAAATTA-ATATTATTTTA-TTCAA
* * * *
4723593 AGAAGC-TGATATTAACT-GAAATAATTGTTTTATTACAAAACATAAGGTCACAATG
125 A-AAGCTTG-TATGAA-TAGAAACAATTGTTTTATGACAAAACAGAAGGTCACAATG
* * * * *
4723648 ATTTGAAAGAGATAATTATTCAAATAATCATGACTATTTGAACTTGTTTAATAAGCACATTTATT
1 ATTTGAAAGAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAATAAACAAATTTA-T
* * *
4723713 TTTTAAATTTTTTACTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCCAAACAA
65 TTTTAAAATTTTTACTTATTAATTTTTGAAATATTAATAAATTAATATTATTTT-ATTCAAA-AA
*
4723778 GCTTGTATGAATATAAACAATTGTTTTATGACAAA
128 GCTTGTATGAATAGAAACAATTGTTTTATGACAAA
4723813 CAAAAAAGTC
Statistics
Matches: 276, Mismatches: 53, Indels: 34
0.76 0.15 0.09
Matches are distributed among these distances:
179 2 0.01
180 18 0.07
181 210 0.76
182 29 0.11
183 17 0.06
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (178 bp):
ATTTGAAAGAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAATAAACAAATTTATT
TTTAAAATTTTTACTTATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTCAAAAAGCT
TGTATGAATAGAAACAATTGTTTTATGACAAAACAGAAGGTCACAATG
Found at i:4725271 original size:48 final size:49
Alignment explanation
Indices: 4725227--4725319 Score: 111
Period size: 47 Copynumber: 1.9 Consensus size: 49
4725217 GCTTTTGACG
4725227 ACTTTGCTGTTTCAATG-GGCAA-TTTTT-GGGTTTTAGGGGTTTTTGCA
1 ACTTTGCTGTTTCAA-GAGGCAATTTTTTAGGGTTTTAGGGGTTTTTGCA
* * * * *
4725274 ATTTTGGTGTTTCGAGAGGCAATTTTTTAGGTTTTTAGTGGTTTTT
1 ACTTTGCTGTTTCAAGAGGCAATTTTTTAGGGTTTTAGGGGTTTTT
4725320 AGGATTCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
46 1 0.03
47 17 0.45
48 5 0.13
49 15 0.39
ACGTcount: A:0.15, C:0.08, G:0.27, T:0.51
Consensus pattern (49 bp):
ACTTTGCTGTTTCAAGAGGCAATTTTTTAGGGTTTTAGGGGTTTTTGCA
Found at i:4725400 original size:57 final size:54
Alignment explanation
Indices: 4725274--4725439 Score: 136
Period size: 57 Copynumber: 2.9 Consensus size: 54
4725264 GGTTTTTGCA
* * * * * *
4725274 ATTTTGGTGTTTCGAGAGGCAATTTTTTAGGTTTTTAGTGGTTTTTAGGATTCAAT
1 ATTTTGGAGTTTCG-GGGGTAA-TTTTTAGGTTTTTAATGGTTTTTAGGGTTTAAT
* * *
4725330 AGTTTT-GAGGTTTCGTGGGGTAATTTTTAAGGTTTTCATTGGTTTTTAGGGTTTAGTT
1 A-TTTTGGA-GTTTCG-GGGGTAATTTTT-AGGTTTTTAATGGTTTTTAGGGTTTA-AT
* * * *
4725388 ATTTTGGAGTTTCAGGGGATGATTTTTGGGTTTTTAATGGTTTTTAGAGTTT
1 ATTTTGGAGTTTC-GGGGGTAATTTTTAGGTTTTTAATGGTTTTTAGGGTTT
4725440 CATTGATTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
56 28 0.31
57 56 0.63
58 5 0.06
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.51
Consensus pattern (54 bp):
ATTTTGGAGTTTCGGGGGTAATTTTTAGGTTTTTAATGGTTTTTAGGGTTTAAT
Found at i:4725539 original size:21 final size:19
Alignment explanation
Indices: 4725492--4725560 Score: 56
Period size: 21 Copynumber: 3.6 Consensus size: 19
4725482 TTTTAGTGGT
4725492 TTTTGGGTTTT---GGCGA
1 TTTTGGGTTTTAGAGGCGA
4725508 TTTTGGAGTTTTAGTAGGCGA
1 TTTTGG-GTTTTAG-AGGCGA
*
4725529 TTTTAGGGTTTCAAGAGGC-A
1 TTTT-GGGTTT-TAGAGGCGA
4725549 TTTTTGGGTTTT
1 -TTTTGGGTTTT
4725561 TACTGGTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
16 6 0.14
17 5 0.12
20 7 0.16
21 21 0.49
22 4 0.09
ACGTcount: A:0.14, C:0.06, G:0.32, T:0.48
Consensus pattern (19 bp):
TTTTGGGTTTTAGAGGCGA
Found at i:4725859 original size:17 final size:19
Alignment explanation
Indices: 4725819--4725860 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
4725809 TTTGATTTTG
*
4725819 AGTTTTTGAAATTTTTATT
1 AGTTTTTGAAATTTTTAGT
*
4725838 GGTTTTT-AAA-TTTTAGT
1 AGTTTTTGAAATTTTTAGT
4725855 AGTTTT
1 AGTTTT
4725861 GTTGTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 11 0.55
18 3 0.15
19 6 0.30
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (19 bp):
AGTTTTTGAAATTTTTAGT
Found at i:4726688 original size:28 final size:28
Alignment explanation
Indices: 4726643--4726696 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
4726633 TGGGGCTTTT
4726643 AGTGATTTTTGAAGTTTT-GACGATTTCG
1 AGTGATTTTTGAAGTTTTAGA-GATTTCG
*
4726671 AGTGATTTTTG-GGCTTTTAGAGATTT
1 AGTGATTTTTGAAG-TTTTAGAGATTT
4726697 TAATGACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 1 0.04
28 20 0.87
29 2 0.09
ACGTcount: A:0.20, C:0.06, G:0.26, T:0.48
Consensus pattern (28 bp):
AGTGATTTTTGAAGTTTTAGAGATTTCG
Found at i:4727160 original size:354 final size:352
Alignment explanation
Indices: 4726504--4727161 Score: 1199
Period size: 354 Copynumber: 1.9 Consensus size: 352
4726494 TACTAGTTTG
** **
4726504 ATAAAATTTATTTTGATACAGATCTTTCAATAATTTGGTTTGAACCTCGGACTGAATAAGATGTT
1 ATAAAATTTATTTTGATACAGATCTCCCAATAATTTGGTTTGAACCTCAAACTGAATAAGATGTT
4726569 TAGAGCAATTTTTGGGTTTTGGGGTTTTTAATGGTTTTTCGGATCCTAAGCAACTTTTAGGTGTT
66 TAGAGCAATTTTTGGGTTTTGGGGTTTTTAATGGTTTTTCGGATCCTAAGCAACTTTTAGGTGTT
*
4726634 GGGGCTTTTAGTGATTTTTGAAGTTTTGACGATTTCGAGTGATTTTTGGGCTTTTAGAGATTTTA
131 GGGGCTTTTAGTGATTTTTGAAGTTTTGACGATTTCAAGTGATTTTTGGGCTTTTAGAGATTTTA
4726699 ATGACTTTTGTGGTTTCGATGACTTTAAGGTTTTGGTTGGATTTCAAATAATTATTACTTTTTGT
196 ATGACTTTTGTGGTTTCGATGACTTTAAGGTTTTGGTTGGATTTCAAATAATTATTACTTTTTGT
4726764 ATTATCATAAATCAAATGTTTTTGTGCATACAAATTTATTCAAAATAAAATAATATTAATTTATT
261 ATTATCATAAATCAAATGTTTTTGTGCATACAAATTTATTCAAAATAAAATAATATTAATTTATT
4726829 AATATTACGAAAGTTAATAAGTAAAAT
326 AATATTACGAAAGTTAATAAGTAAAAT
*
4726856 ATAAATTTGTATTTTGATACAGATCTCCCAATAATTTGGTTTGAACCTCAAACTGAATAAGATGT
1 ATAAAATT-TATTTTGATACAGATCTCCCAATAATTTGGTTTGAACCTCAAACTGAATAAGATGT
* *
4726921 TTAGAGCAATTTTTGGGTTTTGGGGTTTTTTAATGGTTTTTCGGATCCTAAGCAACTTTTGGGTT
65 TTAGAGCAATTTTTGGGTTTTGGGG-TTTTTAATGGTTTTTCGGATCCTAAGCAACTTTTAGGTG
*
4726986 TTGGGGCTTTTAGTGATTTTTGAAGTTTTGACGATTTCAAGTGATTTTTGGGCTTTTGGAGATTT
129 TTGGGGCTTTTAGTGATTTTTGAAGTTTTGACGATTTCAAGTGATTTTTGGGCTTTTAGAGATTT
*
4727051 TAATGACTTTTGTGGTTTCGATGATTTTAAGGTTTTGGTTGGATTTCAAATAATTATTACTTTTT
194 TAATGACTTTTGTGGTTTCGATGACTTTAAGGTTTTGGTTGGATTTCAAATAATTATTACTTTTT
*
4727116 GTATTATCATAAATTAAATGTTTTTGTGCATACAAATTTATTCAAA
259 GTATTATCATAAATCAAATGTTTTTGTGCATACAAATTTATTCAAA
4727162 TTGGATTTCA
Statistics
Matches: 293, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
352 7 0.02
353 77 0.26
354 209 0.71
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.45
Consensus pattern (352 bp):
ATAAAATTTATTTTGATACAGATCTCCCAATAATTTGGTTTGAACCTCAAACTGAATAAGATGTT
TAGAGCAATTTTTGGGTTTTGGGGTTTTTAATGGTTTTTCGGATCCTAAGCAACTTTTAGGTGTT
GGGGCTTTTAGTGATTTTTGAAGTTTTGACGATTTCAAGTGATTTTTGGGCTTTTAGAGATTTTA
ATGACTTTTGTGGTTTCGATGACTTTAAGGTTTTGGTTGGATTTCAAATAATTATTACTTTTTGT
ATTATCATAAATCAAATGTTTTTGTGCATACAAATTTATTCAAAATAAAATAATATTAATTTATT
AATATTACGAAAGTTAATAAGTAAAAT
Found at i:4727207 original size:71 final size:73
Alignment explanation
Indices: 4727089--4727232 Score: 265
Period size: 71 Copynumber: 2.0 Consensus size: 73
4727079 AAGGTTTTGG
*
4727089 TTGGATTTCAAATAATTATTACTTTTTGTATTATCATAAATTAAATGTTTTTGTGCATACAAATT
1 TTGGATTTCAAATAATTATTACTTTTTGTATTATCATAAATCAAATGTTTTTGTGCATACAAATT
4727154 TATTCAAA
66 TATTCAAA
4727162 TTGGATTTCAAAT-ATTATTAC-TTTTGTATTATCATAAATCAAATGTTTTTGTGCATACAAATT
1 TTGGATTTCAAATAATTATTACTTTTTGTATTATCATAAATCAAATGTTTTTGTGCATACAAATT
4727225 TATTCAAA
66 TATTCAAA
4727233 ATAAAATAAT
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
71 49 0.70
72 8 0.11
73 13 0.19
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.47
Consensus pattern (73 bp):
TTGGATTTCAAATAATTATTACTTTTTGTATTATCATAAATCAAATGTTTTTGTGCATACAAATT
TATTCAAA
Found at i:4727425 original size:17 final size:18
Alignment explanation
Indices: 4727403--4727442 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
4727393 AACTTATTGG
4727403 AAATAAATTAATTATT-T
1 AAATAAATTAATTATTAT
*
4727420 AAAT-AATTATTTATTAT
1 AAATAAATTAATTATTAT
4727437 AAATAA
1 AAATAA
4727443 TTATGACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 10 0.50
17 9 0.45
18 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATAAATTAATTATTAT
Found at i:4727443 original size:17 final size:16
Alignment explanation
Indices: 4727403--4727446 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
4727393 AACTTATTGG
*
4727403 AAATAAATTAATTATTT
1 AAAT-AATTATTTATTT
4727420 AAATAATTATTTATTAT
1 AAATAATTATTTATT-T
4727437 AAATAATTAT
1 AAATAATTAT
4727447 GACTTTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAATAATTATTTATTT
Found at i:4729093 original size:17 final size:18
Alignment explanation
Indices: 4729071--4729106 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
4729061 AGACAAAAAC
4729071 TCTTTCTTTTTTT-TTTT
1 TCTTTCTTTTTTTATTTT
4729088 TCTTTCTTTTTTTATTTT
1 TCTTTCTTTTTTTATTTT
4729106 T
1 T
4729107 ATCCACTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (18 bp):
TCTTTCTTTTTTTATTTT
Found at i:4729177 original size:2 final size:2
Alignment explanation
Indices: 4729172--4729215 Score: 65
Period size: 2 Copynumber: 22.5 Consensus size: 2
4729162 TATACTTTTA
4729172 AT AT AT AT AT AT AT AT AT AT AT ACT -T AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
4729213 AT A
1 AT A
4729216 ATTGTTGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 2 0.05
2 36 0.92
3 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4729191 original size:29 final size:28
Alignment explanation
Indices: 4729155--4729217 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 28
4729145 GTTGTCTACT
*
4729155 TATAATATATACTTTTAATATATATATA
1 TATAATATATACTTATAATATATATATA
4729183 TATATATATATACTTATAATATATATATA
1 TATA-ATATATACTTATAATATATATATA
4729212 TATAAT
1 TATAAT
4729218 TGTTGATAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
28 6 0.18
29 27 0.82
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (28 bp):
TATAATATATACTTATAATATATATATA
Found at i:4729792 original size:20 final size:21
Alignment explanation
Indices: 4729767--4729807 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4729757 ATAATTATTT
* *
4729767 TATATTTAAATTTAT-TTAAA
1 TATATTAAAAATTATATTAAA
4729787 TATATTAAAAATTATATTAAA
1 TATATTAAAAATTATATTAAA
4729808 ACAAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTAAAAATTATATTAAA
Found at i:4735982 original size:30 final size:30
Alignment explanation
Indices: 4735946--4736010 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
4735936 GTAATGATTA
4735946 AATTTTTTTAAAGCTGAAAAAATTATTTTT
1 AATTTTTTTAAAGCTGAAAAAATTATTTTT
*
4735976 AATTTTTTTAAAGTTGAAAAAATTATTTTT
1 AATTTTTTTAAAGCTGAAAAAATTATTTTT
4736006 AATTT
1 AATTT
4736011 ATGAAATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (30 bp):
AATTTTTTTAAAGCTGAAAAAATTATTTTT
Found at i:4736183 original size:12 final size:12
Alignment explanation
Indices: 4736166--4736227 Score: 63
Period size: 12 Copynumber: 5.0 Consensus size: 12
4736156 TTATTTAATT
4736166 TAATTTTATATA
1 TAATTTTATATA
4736178 TAATTTTATATA
1 TAATTTTATATA
* *
4736190 TTATTTTATTTTATT
1 TAATTTTA---TATA
*
4736205 TTATTTTATA-A
1 TAATTTTATATA
4736216 TAATTTTATATA
1 TAATTTTATATA
4736228 ACAAACATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
11 9 0.21
12 22 0.52
15 11 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TAATTTTATATA
Found at i:4736200 original size:5 final size:5
Alignment explanation
Indices: 4736156--4736213 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
4736146 TAAAATAATA
* * *
4736156 TTATT TAATT TAATT TTATAT ATAATT TTATAT ATTATT TTATT TTATT
1 TTATT TTATT TTATT TTAT-T -TTATT TTAT-T -TTATT TTATT TTATT
4736205 TTATT TTAT
1 TTATT TTAT
4736214 AATAATTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 34 0.76
6 4 0.09
7 7 0.16
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (5 bp):
TTATT
Found at i:4737143 original size:2 final size:2
Alignment explanation
Indices: 4737136--4737178 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4737126 AAGCATCATC
4737136 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4737178 T
1 T
4737179 TTATTTGTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4737642 original size:41 final size:41
Alignment explanation
Indices: 4737597--4737676 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
4737587 TAAATAATAC
*
4737597 TTAACTTAAATTCGAATTTTAGTATTTCACAGCCAATCAGA
1 TTAACTTAAATTCAAATTTTAGTATTTCACAGCCAATCAGA
* *
4737638 TTAACTTAAATTCAAATTTTAGTATTTTACAGCTAATCA
1 TTAACTTAAATTCAAATTTTAGTATTTCACAGCCAATCA
4737677 AATAGAGGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (41 bp):
TTAACTTAAATTCAAATTTTAGTATTTCACAGCCAATCAGA
Found at i:4739555 original size:20 final size:21
Alignment explanation
Indices: 4739530--4739569 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4739520 ATTTATAACT
4739530 ATTGAT-TATTAAAAAATAAA
1 ATTGATATATTAAAAAATAAA
* *
4739550 ATTGATATTTTAAAATATAA
1 ATTGATATATTAAAAAATAA
4739570 TAGAATGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
ATTGATATATTAAAAAATAAA
Found at i:4740708 original size:19 final size:19
Alignment explanation
Indices: 4740681--4740722 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4740671 TTAAAAATAT
* *
4740681 TAATTATTTTAATATTAAA
1 TAATAATTTTAATAGTAAA
*
4740700 TAATAATTTTATTAGTAAA
1 TAATAATTTTAATAGTAAA
4740719 TAAT
1 TAAT
4740723 TAAAAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TAATAATTTTAATAGTAAA
Found at i:4744487 original size:18 final size:18
Alignment explanation
Indices: 4744448--4744504 Score: 80
Period size: 18 Copynumber: 3.1 Consensus size: 18
4744438 ATATAAATAG
4744448 ATTATTATTCATA-AAGGTC
1 ATTATTA-T-ATAGAAGGTC
*
4744467 ATTATTATATAGAATGTC
1 ATTATTATATAGAAGGTC
4744485 ATTATTATATAGAAGGTC
1 ATTATTATATAGAAGGTC
4744503 AT
1 AT
4744505 AACTATCTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
17 3 0.09
18 25 0.71
19 7 0.20
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (18 bp):
ATTATTATATAGAAGGTC
Found at i:4746975 original size:50 final size:50
Alignment explanation
Indices: 4746900--4747001 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
4746890 TTTCAAAGTT
*
4746900 CAAAAAATGATACACAGACCCAAATTAAAATCATTGATCTGGTGGAAACA
1 CAAAAAATGATACACAGACCCAAATTAAAATCATTGATCTGATGGAAACA
*
4746950 CAAAAAATGATACACAGACCCAAATTAAAATCATTGATCTGATGGAAGCA
1 CAAAAAATGATACACAGACCCAAATTAAAATCATTGATCTGATGGAAACA
4747000 CA
1 CA
4747002 TGTTTGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.20
Consensus pattern (50 bp):
CAAAAAATGATACACAGACCCAAATTAAAATCATTGATCTGATGGAAACA
Found at i:4757843 original size:26 final size:26
Alignment explanation
Indices: 4757814--4757889 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 26
4757804 ATTTAGTCTC
4757814 AAGCTCTAAATTAGTGAGCAATACAT
1 AAGCTCTAAATTAGTGAGCAATACAT
* *
4757840 AAGCTCTAAATCAGTCG-GTAATACAT
1 AAGCTCTAAATTAGT-GAGCAATACAT
*
4757866 AAGCTCTAAATTAGTCAGCAATAC
1 AAGCTCTAAATTAGTGAGCAATAC
4757890 TCAAATAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
26 42 0.98
27 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.26
Consensus pattern (26 bp):
AAGCTCTAAATTAGTGAGCAATACAT
Found at i:4761763 original size:2 final size:2
Alignment explanation
Indices: 4761758--4761784 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4761748 ATAAAAAACA
4761758 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
4761785 ATTTGAATTA
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:4764877 original size:150 final size:149
Alignment explanation
Indices: 4764531--4764913 Score: 371
Period size: 150 Copynumber: 2.6 Consensus size: 149
4764521 TCCATACTTT
* * * * * * *
4764531 TTCAATTCAATAACAAATCTCTACGACCCTTGAAGCGAAGCCCATATTCCTTCCATTCAAGAATA
1 TTCAATTAAAGAACAAGTCTCAAAGACCCTTGAAGCAAAGTCCATATTCCTT-CATTCAAGAATA
* *
4764596 AGTCTCAAAAACCCTTGATACAATGTTCATATTCTTTCAATTCAAAAATAAGTCTCAACAACACT
65 AGTCTCAAAAACCCTTGATACAAAGTTCATATTCATTCAATTCAAAAATAAGTCTCAACAACACT
4764661 TGAAGTGAAGTCCACATTCA
130 TGAAGTGAAGTCCACATTCA
* * * *
4764681 TTTAATTAAAGAATAAGTCTCAAAAACCCTTGAAGCAAAATCCATATTCCTTCAGTTCAAGAATA
1 TTCAATTAAAGAACAAGTCTCAAAGACCCTTGAAGCAAAGTCCATATTCCTTCA-TTCAAGAATA
* * * * * *
4764746 AGTCTCAACGAA-TCTTGA-ATCAAAGTTTATATTCATTCAATTTAAGAATAAGTTTCAA-AGAC
65 AGTCTCAA-AAACCCTTGATA-CAAAGTTCATATTCATTCAATTCAAAAATAAGTCTCAACA-AC
* * *
4764808 CCTTGAAG-GTAAGTTCACATTCC
127 ACTTGAAGTG-AAGTCCACATTCA
* * * * * ** *
4764831 TTCAATTTAAGAACAAGTCTTAATGACCCCTGAAGCAAAGTTCATATTTTTTCAATTTAAGAATA
1 TTCAATTAAAGAACAAGTCTCAAAGACCCTTGAAGCAAAGTCCATATTCCTTC-ATTCAAGAATA
* *
4764896 AATCATC-AAGACCCTTGA
65 AGTC-TCAAAAACCCTTGA
4764914 AGCAAATACC
Statistics
Matches: 187, Mismatches: 38, Indels: 16
0.78 0.16 0.07
Matches are distributed among these distances:
149 6 0.03
150 176 0.94
151 5 0.03
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (149 bp):
TTCAATTAAAGAACAAGTCTCAAAGACCCTTGAAGCAAAGTCCATATTCCTTCATTCAAGAATAA
GTCTCAAAAACCCTTGATACAAAGTTCATATTCATTCAATTCAAAAATAAGTCTCAACAACACTT
GAAGTGAAGTCCACATTCA
Found at i:4764917 original size:50 final size:50
Alignment explanation
Indices: 4764431--4764919 Score: 335
Period size: 50 Copynumber: 9.8 Consensus size: 50
4764421 TCTAAATTTC
* * * * * * * *
4764431 TTCAATTCAATAACAAGTTTGAATGACCTTTGAAGCAAAGTCAAAATATCT
1 TTCAATTCAAGAATAAGTCTCAAAGACCCTTGAAGCAAAGTCCATAT-TCT
* * * ** *
4764482 TT-AATTCAAAAACAAGTCTCTACA-ACTTTTGACGCAAAGTCCATACTT-T
1 TTCAATTCAAGAATAAGTCTC-AAAGACCCTTGAAGCAAAGTCCATA-TTCT
* * * * * * * *
4764531 TTCAATTCAATAACAAATCTCTACGACCCTTGAAGCGAAGCCCATATTCC
1 TTCAATTCAAGAATAAGTCTCAAAGACCCTTGAAGCAAAGTCCATATTCT
* * * *
4764581 TTCCATTCAAGAATAAGTCTCAAAAACCCTTGATA-CAATGTTCATATTCT
1 TTCAATTCAAGAATAAGTCTCAAAGACCCTTGA-AGCAAAGTCCATATTCT
* * ** *
4764631 TTCAATTCAAAAATAAGTCTCAACA-ACACTTGAAGTGAAGTCCACATTCAT
1 TTCAATTCAAGAATAAGTCTCAA-AGACCCTTGAAGCAAAGTCCATATTC-T
* * * *
4764682 TT-AATTAAAGAATAAGTCTCAAAAACCCTTGAAGCAAAATCCATATTCC
1 TTCAATTCAAGAATAAGTCTCAAAGACCCTTGAAGCAAAGTCCATATTCT
* * ** * ** *
4764731 TTCAGTTCAAGAATAAGTCTCAACGAATCTTGAATCAAAGTTTATATTCA
1 TTCAATTCAAGAATAAGTCTCAAAGACCCTTGAAGCAAAGTCCATATTCT
* * ** * * *
4764781 TTCAATTTAAGAATAAGTTTCAAAGACCCTTGAAGGTAAGTTCACATTCC
1 TTCAATTCAAGAATAAGTCTCAAAGACCCTTGAAGCAAAGTCCATATTCT
* * * * * * *
4764831 TTCAATTTAAGAACAAGTCTTAATGACCCCTGAAGCAAAGTTCATATTTT
1 TTCAATTCAAGAATAAGTCTCAAAGACCCTTGAAGCAAAGTCCATATTCT
* *
4764881 TTCAATTTAAGAATAAATCATC-AAGACCCTTGAAGCAAA
1 TTCAATTCAAGAATAAGTC-TCAAAGACCCTTGAAGCAAA
4764920 TACCAAATTT
Statistics
Matches: 340, Mismatches: 86, Indels: 25
0.75 0.19 0.06
Matches are distributed among these distances:
49 9 0.03
50 321 0.94
51 10 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (50 bp):
TTCAATTCAAGAATAAGTCTCAAAGACCCTTGAAGCAAAGTCCATATTCT
Found at i:4764967 original size:64 final size:64
Alignment explanation
Indices: 4764866--4764993 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
4764856 ACCCCTGAAG
4764866 CAAAGTTCATATTTTTTCAATTTAAGAATAAATCATCAAGACCCTTGAAGCAAATACCAAATTT
1 CAAAGTTCATATTTTTTCAATTTAAGAATAAATCATCAAGACCCTTGAAGCAAATACCAAATTT
4764930 CAAAGTTCATATTTTTTCAATTTAAGAATAAATCATCAAGACCCTTGAAGCAAATACCAAATTT
1 CAAAGTTCATATTTTTTCAATTTAAGAATAAATCATCAAGACCCTTGAAGCAAATACCAAATTT
4764994 ATTTCATTCA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (64 bp):
CAAAGTTCATATTTTTTCAATTTAAGAATAAATCATCAAGACCCTTGAAGCAAATACCAAATTT
Found at i:4768981 original size:169 final size:169
Alignment explanation
Indices: 4768693--4769014 Score: 446
Period size: 169 Copynumber: 1.9 Consensus size: 169
4768683 TTGTTCTAAA
* * * * *
4768693 AAGATTAATAAATACTTCACATGGCATTGGTAACAAGTTTCTTTCCAAATAAGATAAACCATACA
1 AAGACTAATAAATACTTCACATGGCATTGGCAACAAGTTCCCTTCAAAATAAGATAAACCATACA
* * * ** ** * *
4768758 GTGTTTGAGAAATATATAGCAATGGTTCATATAATATCGTTAATCAAGATGGAGTGCAAAATAAG
66 GTGTTAGAGAAACATATAACAATAATGAATATAATATAGTTAATCAAAATGGAGTGCAAAATAAG
4768823 CCCATCAATGGCAAGTTTCTTAAACATCAAGGTTTTAAG
131 CCCATCAATGGCAAGTTTCTTAAACATCAAGGTTTTAAG
* *
4768862 AAGACTAATAAATACTTCACATGGCATTGGCAACAAGTTCCCTTCAAAATGAGATGAACCATACA
1 AAGACTAATAAATACTTCACATGGCATTGGCAACAAGTTCCCTTCAAAATAAGATAAACCATACA
* * * * *
4768927 TTGTTAGAGAAACATATAACAATAATGAATATAATATATTTTATCAAAATGGAGTGTAGAATAAG
66 GTGTTAGAGAAACATATAACAATAATGAATATAATATAGTTAATCAAAATGGAGTGCAAAATAAG
*
4768992 CCCATCAATGGTAAGTTTCTTAA
131 CCCATCAATGGCAAGTTTCTTAA
4769015 GCGTCATTAT
Statistics
Matches: 131, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
169 131 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (169 bp):
AAGACTAATAAATACTTCACATGGCATTGGCAACAAGTTCCCTTCAAAATAAGATAAACCATACA
GTGTTAGAGAAACATATAACAATAATGAATATAATATAGTTAATCAAAATGGAGTGCAAAATAAG
CCCATCAATGGCAAGTTTCTTAAACATCAAGGTTTTAAG
Found at i:4769119 original size:36 final size:36
Alignment explanation
Indices: 4769079--4769170 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 36
4769069 AAACCTAACA
* *
4769079 CTCCTAAGTAAAAGCTTAACTGTACAAAAAATGATG
1 CTCCTAAATAAAAGCTTAACTGTACAAAAAACGATG
* * * *
4769115 CTCCTAAACAAAAGCCTAAACTGTTCAAAACACGATG
1 CTCCTAAATAAAAG-CTTAACTGTACAAAAAACGATG
*
4769152 CTCCTAAATAAGAGCTTAA
1 CTCCTAAATAAAAGCTTAA
4769171 TCAACACAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
36 16 0.35
37 30 0.65
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.23
Consensus pattern (36 bp):
CTCCTAAATAAAAGCTTAACTGTACAAAAAACGATG
Found at i:4769152 original size:37 final size:37
Alignment explanation
Indices: 4769050--4769159 Score: 107
Period size: 37 Copynumber: 3.0 Consensus size: 37
4769040 CCTTTCTATG
* * ** *
4769050 CAAAAGCCTAAACTATTCAAAAC-CTAACACTCCTAAG
1 CAAAAGCCTAAACTGTTCAAAACAC-GATGCTCCTAAA
* * * * *
4769087 TAAAAG-CTTAACTGTACAAAAAATGATGCTCCTAAA
1 CAAAAGCCTAAACTGTTCAAAACACGATGCTCCTAAA
4769123 CAAAAGCCTAAACTGTTCAAAACACGATGCTCCTAAA
1 CAAAAGCCTAAACTGTTCAAAACACGATGCTCCTAAA
4769160 TAAGAGCTTA
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
36 25 0.45
37 31 0.55
ACGTcount: A:0.45, C:0.25, G:0.09, T:0.21
Consensus pattern (37 bp):
CAAAAGCCTAAACTGTTCAAAACACGATGCTCCTAAA
Found at i:4770234 original size:7 final size:7
Alignment explanation
Indices: 4770212--4770247 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
4770202 AAAATCTAAC
4770212 TCAAAAT
1 TCAAAAT
*
4770219 TATAAAAT
1 T-CAAAAT
4770227 TCAAAAT
1 TCAAAAT
4770234 TCAAAAT
1 TCAAAAT
4770241 TCAAAAT
1 TCAAAAT
4770248 GATTGAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (7 bp):
TCAAAAT
Found at i:4771999 original size:16 final size:17
Alignment explanation
Indices: 4771966--4771999 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4771956 ACACTTTTTT
*
4771966 AGTCTAATTATAAAAAA
1 AGTCTAATAATAAAAAA
4771983 AGTCTAATAATAAAAAA
1 AGTCTAATAATAAAAAA
4772000 TTTTCATTCA
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:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (17 bp):
AGTCTAATAATAAAAAA
Found at i:4772553 original size:19 final size:18
Alignment explanation
Indices: 4772518--4772554 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4772508 AACATTTTTT
*
4772518 TAGTCTAATTATAAAAAA
1 TAGTCTAATAATAAAAAA
*
4772536 TAGTCTAATAATTAAAAA
1 TAGTCTAATAATAAAAAA
4772554 T
1 T
4772555 TTTATTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (18 bp):
TAGTCTAATAATAAAAAA
Found at i:4773538 original size:7 final size:7
Alignment explanation
Indices: 4773526--4773572 Score: 76
Period size: 7 Copynumber: 6.7 Consensus size: 7
4773516 GCATTGGCTT
4773526 TGGCTAA
1 TGGCTAA
4773533 TGGCTAA
1 TGGCTAA
4773540 TGGCTAA
1 TGGCTAA
4773547 TGGCTAA
1 TGGCTAA
4773554 TGGCTAA
1 TGGCTAA
* *
4773561 CGGTTAA
1 TGGCTAA
4773568 TGGCT
1 TGGCT
4773573 GCACCATGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (7 bp):
TGGCTAA
Found at i:4778180 original size:13 final size:13
Alignment explanation
Indices: 4778164--4778216 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 13
4778154 TAAATTATTT
4778164 ATGTATTAAATAA
1 ATGTATTAAATAA
4778177 ATGTATT--ATGAA
1 ATGTATTAAAT-AA
*
4778189 A-ATATTAAATAA
1 ATGTATTAAATAA
*
4778201 ATG-ATTATATAA
1 ATGTATTAAATAA
4778213 ATGT
1 ATGT
4778217 CATGTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
11 6 0.19
12 17 0.53
13 9 0.28
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (13 bp):
ATGTATTAAATAA
Found at i:4779662 original size:23 final size:23
Alignment explanation
Indices: 4779623--4779667 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4779613 TAAAATTTAA
**
4779623 AACAAAAGAAATTACAA-AAAAG
1 AACAAAAGAAAAAACAACAAAAG
4779645 AACAAAAGGAAAAAACAACAAAA
1 AACAAAA-GAAAAAACAACAAAA
4779668 AAAAAGTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.76, C:0.11, G:0.09, T:0.04
Consensus pattern (23 bp):
AACAAAAGAAAAAACAACAAAAG
Found at i:4779744 original size:30 final size:32
Alignment explanation
Indices: 4779710--4779772 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
4779700 CATAAAGTAT
*
4779710 TAAATA-ATAAATTT-ATT-AATATAATATATA
1 TAAATATA-AAATTTAATTAAAAATAATATATA
4779740 TAAATATAAAATTTAATTAAAAATAATATATA
1 TAAATATAAAATTTAATTAAAAATAATATATA
4779772 T
1 T
4779773 TTTTTATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 12 0.41
31 4 0.14
32 13 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
TAAATATAAAATTTAATTAAAAATAATATATA
Found at i:4779894 original size:27 final size:27
Alignment explanation
Indices: 4779852--4779914 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
4779842 TTATAAAAAT
* * * *
4779852 ATTAATTGAGTTTAAAATATTAATTT-
1 ATTAATTAAATTTTAAATAATAATTTG
*
4779878 TTTAATTAAATTTTAAATAATAATTTG
1 ATTAATTAAATTTTAAATAATAATTTG
4779905 ATTAATTAAA
1 ATTAATTAAA
4779915 AAATAATAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (27 bp):
ATTAATTAAATTTTAAATAATAATTTG
Found at i:4780638 original size:24 final size:22
Alignment explanation
Indices: 4780599--4780647 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
4780589 AAATAAAATC
**
4780599 TTTTAAAAAATATATTTTATAA
1 TTTTAAAAAATATATTAAATAA
4780621 TTTTAAAAAATATTTATTAAATAA
1 TTTTAAAAAATA--TATTAAATAA
4780645 TTT
1 TTT
4780648 CAAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
24 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAAAAATATATTAAATAA
Found at i:4780922 original size:15 final size:16
Alignment explanation
Indices: 4780904--4780933 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4780894 AAAAAGTATT
4780904 AAAAA-TAAAAAAAAG
1 AAAAAGTAAAAAAAAG
4780919 AAAAAGTAAAAAAAA
1 AAAAAGTAAAAAAAA
4780934 AAATGTGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.87, C:0.00, G:0.07, T:0.07
Consensus pattern (16 bp):
AAAAAGTAAAAAAAAG
Found at i:4781036 original size:17 final size:17
Alignment explanation
Indices: 4781014--4781048 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4781004 TTTTTTAAAT
*
4781014 TTAAAAATGAGAAAAAG
1 TTAAAAAAGAGAAAAAG
*
4781031 TTAAAAAAGATAAAAAG
1 TTAAAAAAGAGAAAAAG
4781048 T
1 T
4781049 CATCATCCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (17 bp):
TTAAAAAAGAGAAAAAG
Found at i:4782940 original size:21 final size:22
Alignment explanation
Indices: 4782897--4782940 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4782887 TGTGTTCATC
*
4782897 ATTTAATAAATATATATTCTTA
1 ATTTAACAAATATATATTCTTA
*
4782919 ATTTAACAAATA-ATATTTTTA
1 ATTTAACAAATATATATTCTTA
4782940 A
1 A
4782941 AAAATTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTAACAAATATATATTCTTA
Found at i:4792734 original size:8 final size:8
Alignment explanation
Indices: 4792721--4792747 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
4792711 GTCAAATATA
4792721 GGCACTTG
1 GGCACTTG
4792729 GGCACTTG
1 GGCACTTG
4792737 GGCACTTG
1 GGCACTTG
4792745 GGC
1 GGC
4792748 TTGTTTGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.41, T:0.22
Consensus pattern (8 bp):
GGCACTTG
Found at i:4794027 original size:2 final size:2
Alignment explanation
Indices: 4794022--4794070 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
4794012 GCCAATTTAA
4794022 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4794064 TC TC TC T
1 TC TC TC T
4794071 TTTTAATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:4797657 original size:10 final size:10
Alignment explanation
Indices: 4797644--4797700 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
4797634 ATGATTAGTT
4797644 ATTTATTAAA
1 ATTTATTAAA
*
4797654 ATTTATT--T
1 ATTTATTAAA
* *
4797662 TTTTACTAAA
1 ATTTATTAAA
4797672 A-TT-TTAAA
1 ATTTATTAAA
*
4797680 ATTAATTAAA
1 ATTTATTAAA
4797690 ATTTATTAAA
1 ATTTATTAAA
4797700 A
1 A
4797701 CAATAATTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
8 10 0.29
9 3 0.09
10 22 0.63
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (10 bp):
ATTTATTAAA
Found at i:4798767 original size:21 final size:23
Alignment explanation
Indices: 4798743--4798788 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
4798733 AAATATTAAT
*
4798743 AATAA-AATTTAAAATAA-CAAA
1 AATAACAATTTAAAAAAATCAAA
*
4798764 AATAACATTTTAAAAAAATCAAA
1 AATAACAATTTAAAAAAATCAAA
4798787 AA
1 AA
4798789 AATTCTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 10 0.48
23 6 0.29
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.24
Consensus pattern (23 bp):
AATAACAATTTAAAAAAATCAAA
Found at i:4799494 original size:19 final size:20
Alignment explanation
Indices: 4799458--4799504 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
4799448 GTTTGAATGG
* *
4799458 TTTTTTTTTTTGTAGAAAGA-
1 TTTTTTTTATTCTAGAAA-AC
4799478 TTTTTTTTATTCT-GAAAAC
1 TTTTTTTTATTCTAGAAAAC
4799497 TTTTTTTT
1 TTTTTTTT
4799505 GCAGGATCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 12 0.50
20 11 0.46
ACGTcount: A:0.21, C:0.04, G:0.09, T:0.66
Consensus pattern (20 bp):
TTTTTTTTATTCTAGAAAAC
Found at i:4800547 original size:22 final size:20
Alignment explanation
Indices: 4800508--4800547 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
4800498 TAATGCACAC
*
4800508 ATTTTATTTTTTATTTAAAA
1 ATTTTATTTTTTAATTAAAA
4800528 ATTTTATTAATTTTAATTAA
1 ATTTTATT--TTTTAATTAA
4800548 TTTTTATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
22 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTATTTTTTAATTAAAA
Found at i:4800986 original size:213 final size:212
Alignment explanation
Indices: 4800582--4800986 Score: 498
Period size: 212 Copynumber: 1.9 Consensus size: 212
4800572 AATGAAAAAA
* * ** *
4800582 AAAAGAAAATTTTATTATATTGAAGATTTTCTATAAATATTTAATACACTAATAATATTTTAAAA
1 AAAAGAAAATTTTATTATATTAAAAATTTTCTATAAATATCCAATACACTAATAATATTTAAAAA
* * ** * *
4800647 AAATCTTCTCGTCTAGGGATTTTTTAAAGCATCTCTACTCGGAATACTTTTAGAATCCCATCATT
66 AAATCTTCTCGACTAGAGATTTCGTAAAGCATCACTACTCGGAATACTTTTAGAATCCCATCATC
* *
4800712 GGATAAAATTTCTTTTTTCTTCATTTTTTATTACTTATTCTTAATTTATTAATTAATTTTTATTT
131 GGATAAAATTTCTTTTTTCTTCATTTTTTATTACTTATTATTAATTTATAAATTAATTTTTATTT
4800777 ACTCTTTCATAACCAAG
196 ACTCTTTCATAACCAAG
* * * *
4800794 AAAAGAAAATTTTCATTGTATTAAAAATTTTTTATAAATACTCCAATATACTGATAATATTTAAA
1 AAAAGAAAATTTT-ATTATATTAAAAATTTTCTATAAATA-TCCAATACACTAATAATATTTAAA
* * *
4800859 AAAAATCTTCTC-ACATAGAGATTTCGTAAA-TATCACTACTCGGAGTACTTTT-GAATCTCATC
64 AAAAATCTTCTCGAC-TAGAGATTTCGTAAAGCATCACTACTCGGAATACTTTTAGAATCCCATC
* * *
4800921 ATCGGATAAAATTT-TTTTTTTTTACATTTTTTATTAATT-TATATT-ATTATATAAGATTTATT
128 ATCGGATAAAATTTCTTTTTTCTT-CATTTTTTATTACTTAT-TATTAATT-TATAA-ATTAATT
4800983 TTTA
189 TTTA
4800987 AAATAGCAAA
Statistics
Matches: 163, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
211 12 0.07
212 56 0.34
213 52 0.32
214 43 0.26
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (212 bp):
AAAAGAAAATTTTATTATATTAAAAATTTTCTATAAATATCCAATACACTAATAATATTTAAAAA
AAATCTTCTCGACTAGAGATTTCGTAAAGCATCACTACTCGGAATACTTTTAGAATCCCATCATC
GGATAAAATTTCTTTTTTCTTCATTTTTTATTACTTATTATTAATTTATAAATTAATTTTTATTT
ACTCTTTCATAACCAAG
Found at i:4809690 original size:18 final size:18
Alignment explanation
Indices: 4809647--4809693 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
4809637 TTGCTTGAAA
* *
4809647 ATTTTT-AAAATATTATT
1 ATTTTTAAAAACATAATT
*
4809664 ATATCTTAAAAACATAATT
1 AT-TTTTAAAAACATAATT
4809683 ATTTTTAAAAA
1 ATTTTTAAAAA
4809694 ATATTTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 2 0.08
18 11 0.46
19 11 0.46
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTTTAAAAACATAATT
Found at i:4809727 original size:39 final size:38
Alignment explanation
Indices: 4809653--4809727 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 38
4809643 GAAAATTTTT
* * *
4809653 AAAATATTATTATATCTTAAAAACATAATTATTTTTAA
1 AAAATATTATTACATCTCAAAAACAAAATTATTTTTAA
* *
4809691 AAAATATTTTTTACATCTCAAAATCAAAATTATTTTT
1 AAAATA-TTATTACATCTCAAAAACAAAATTATTTTT
4809728 TGATTATTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 6 0.19
39 25 0.81
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (38 bp):
AAAATATTATTACATCTCAAAAACAAAATTATTTTTAA
Found at i:4812022 original size:14 final size:14
Alignment explanation
Indices: 4812005--4812036 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4811995 ATCTATATCC
4812005 ATATATAAATATAA
1 ATATATAAATATAA
*
4812019 ATATATAAATATAT
1 ATATATAAATATAA
4812033 ATAT
1 ATAT
4812037 GGTACAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATATAAATATAA
Found at i:4829070 original size:25 final size:23
Alignment explanation
Indices: 4829003--4829063 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 23
4828993 AAAATAATTA
4829003 ATATAAAGGATATAAAAAAAACT
1 ATATAAAGGATATAAAAAAAACT
* *
4829026 ATATAAAAGAAAGATAAAAAAAA-T
1 ATAT-AAAG-GATATAAAAAAAACT
4829050 GATATAAAGGATAT
1 -ATATAAAGGATAT
4829064 CTAAAAAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 7 0.23
24 9 0.29
25 15 0.48
ACGTcount: A:0.66, C:0.02, G:0.11, T:0.21
Consensus pattern (23 bp):
ATATAAAGGATATAAAAAAAACT
Found at i:4829209 original size:2 final size:2
Alignment explanation
Indices: 4829202--4829233 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4829192 GTCCCGACCG
4829202 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4829234 TTGTGACTTC
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):
CT
Found at i:4830763 original size:2 final size:2
Alignment explanation
Indices: 4830756--4830781 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4830746 GTTGCACTTG
4830756 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4830782 GCATGGTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4832733 original size:60 final size:60
Alignment explanation
Indices: 4832606--4832993 Score: 444
Period size: 60 Copynumber: 6.5 Consensus size: 60
4832596 GCCTTTATTC
** **
4832606 AAGAAAAATTGATACTTTCAACTTTTCCT-TGAAATGTATTTTTTGAAATTTTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAATATTTTTTGAAATTTTTATTTTT
* * *
4832665 AAGAAAAATTGATATTTTCAACTTTTCCTCAAAAAAATATTTCTTGAAGTTTTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAATATTTTTTGAAATTTTTATTTTT
* * *
4832725 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTTGAAGTTTTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAA-ATATTTTTTGAAATTTTTATTTTT
* * * ** * *
4832786 AAGAAAAATTGATACCTTCAACTTTT-CTGAAAAATATCCTTTTTGAAAATTTCATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAATATTTTTTGAAATTTTTATTTTT
* * * * *
4832845 AAGAAAAATTGAAACTTTCAACTTTTTCTCAAAAATATTTTTTTTGAATTTTTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAATATTTTTTGAAATTTTTATTTTT
* * * * *
4832905 AAGAAAAATTGACACTTTCAACTTTT--TTAAAAAAATATTTTTTTTGAAAATTTCATTTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAATA--TTTTTTGAAATTTTTATTTTT
* *
4832965 AA-AGAAATTTGATACTTTTAACTTTTCCT
1 AAGA-AAAATTGATACTTTCAACTTTTCCT
4832994 TAAACTTTTT
Statistics
Matches: 282, Mismatches: 39, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
58 8 0.03
59 72 0.26
60 155 0.55
61 46 0.16
62 1 0.00
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (60 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAATATTTTTTGAAATTTTTATTTTT
Found at i:4832915 original size:180 final size:179
Alignment explanation
Indices: 4832606--4832994 Score: 514
Period size: 180 Copynumber: 2.2 Consensus size: 179
4832596 GCCTTTATTC
* ** * *
4832606 AAGAAAAATTGATACTTTCAACTTTTCCTTGAAATGTATTTTTTGAAATTTTTATTTTTAAGAAA
1 AAGAAAAATTGATACCTTCAACTTTTCCTTGAAAAATATTTTTTGAAAATTTCATTTTTAAGAAA
* * *
4832671 AATTGATATTTTCAACTTTTCCTCAAAAAAATATTTCTTGAAGTTTTTATTTTTAAGGAAAATTG
66 AATTGAAACTTTCAACTTTTCCTCAAAAAAATATTTCTTGAAGTTTTTATTTTTAAGAAAAATTG
* *
4832736 ATACTTTCAACTTTTCCTCAAAAAATATTTTTTTTGAAGTTTTTATTTTT
131 ACACTTTCAACTTTT-CTAAAAAAATATTTTTTTTGAAGTTTTTATTTTT
4832786 AAGAAAAATTGATACCTTCAACTTTT-C-TGAAAAATATCCTTTTTGAAAATTTCATTTTTAAGA
1 AAGAAAAATTGATACCTTCAACTTTTCCTTGAAAAATAT--TTTTTGAAAATTTCATTTTTAAGA
* * * * *
4832849 AAAATTGAAACTTTCAACTTTTTCTCAAAAATATTTTTTTTGAATTTTTTATTTTTAAGAAAAAT
64 AAAATTGAAACTTTCAACTTTTCCTCAAAAAAATATTTCTTGAAGTTTTTATTTTTAAGAAAAAT
* ** * *
4832914 TGACACTTTCAACTTTTTTAAAAAAATATTTTTTTTGAAAATTTCATTTTC
129 TGACACTTTCAACTTTTCTAAAAAAATATTTTTTTTGAAGTTTTTATTTTT
* * *
4832965 AA-AGAAATTTGATACTTTTAACTTTTCCTT
1 AAGA-AAAATTGATACCTTCAACTTTTCCTT
4832995 AAACTTTTTT
Statistics
Matches: 181, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
178 9 0.05
179 50 0.28
180 121 0.67
181 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (179 bp):
AAGAAAAATTGATACCTTCAACTTTTCCTTGAAAAATATTTTTTGAAAATTTCATTTTTAAGAAA
AATTGAAACTTTCAACTTTTCCTCAAAAAAATATTTCTTGAAGTTTTTATTTTTAAGAAAAATTG
ACACTTTCAACTTTTCTAAAAAAATATTTTTTTTGAAGTTTTTATTTTT
Found at i:4834869 original size:85 final size:86
Alignment explanation
Indices: 4834638--4834872 Score: 251
Period size: 85 Copynumber: 2.8 Consensus size: 86
4834628 ATAGGATGAC
* * * *
4834638 CCAAAGATGAATCTGGCATAGGTCAAAATCTAAAACAAAATAATCTGGATGGAACCGAAGTCT-A
1 CCAAAGAAGGATCTGGCATAGGTCAAAATCTAAAACAAAATAACCTGGATAGAACCGAAGTCTGA
*
4834702 AGATAAGTAACTTAGACTGAA
66 AGATAAGTAACTTAGACTAAA
*** * * * * * *
4834723 TTGAAGAAGGATCTAGCATAGGCCAAAATTTAAAACAAAATAACTTGAACTA-AACTGAAGTCTG
1 CCAAAGAAGGATCTGGCATAGGTCAAAATCTAAAACAAAATAACCTGGA-TAGAACCGAAGTCTG
* * *
4834787 AA-ATAATTAACTTGGATTAAA
65 AAGATAAGTAACTTAGACTAAA
** * *
4834808 CCAAAGAAGGATCTGGCATAGGTTGAAATCCAAAACAAAATAACCTGGATAGAACCAAAGTCTGA
1 CCAAAGAAGGATCTGGCATAGGTCAAAATCTAAAACAAAATAACCTGGATAGAACCGAAGTCTGA
4834873 CTTTACAATA
Statistics
Matches: 117, Mismatches: 30, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
84 2 0.02
85 112 0.96
86 3 0.03
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.22
Consensus pattern (86 bp):
CCAAAGAAGGATCTGGCATAGGTCAAAATCTAAAACAAAATAACCTGGATAGAACCGAAGTCTGA
AGATAAGTAACTTAGACTAAA
Found at i:4835084 original size:17 final size:17
Alignment explanation
Indices: 4835049--4835087 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4835039 AGGATTCAAA
*
4835049 ATTCATAAGAATTTCAT
1 ATTCATAAGAATTGCAT
* *
4835066 ATTCGTAAGAATTGGAT
1 ATTCATAAGAATTGCAT
4835083 ATTCA
1 ATTCA
4835088 CAAAAATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (17 bp):
ATTCATAAGAATTGCAT
Found at i:4835103 original size:17 final size:17
Alignment explanation
Indices: 4835083--4835126 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
4835073 AGAATTGGAT
*
4835083 ATTCACAAAAATTTTAG
1 ATTCATAAAAATTTTAG
* * *
4835100 ATTCGTAAGATTTTTAG
1 ATTCATAAAAATTTTAG
4835117 ATTCATAAAA
1 ATTCATAAAA
4835127 TTAAAGATTC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (17 bp):
ATTCATAAAAATTTTAG
Found at i:4835135 original size:33 final size:34
Alignment explanation
Indices: 4835098--4835189 Score: 105
Period size: 33 Copynumber: 2.7 Consensus size: 34
4835088 CAAAAATTTT
4835098 AGATTCGTAAGATTTTTAGATTCATAA-AATTAA
1 AGATTCGTAAGATTTTTAGATTCATAATAATTAA
** * * *
4835131 AGATTCGTAAGGCTTTCAGATTCGTAATAATTGA
1 AGATTCGTAAGATTTTTAGATTCATAATAATTAA
*
4835165 AGATTCGTAAAAACTTTTTAGATTC
1 AGATTCGT-AAGA-TTTTTAGATTC
4835190 GCAAGAATTG
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
33 23 0.49
34 13 0.28
35 2 0.04
36 9 0.19
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (34 bp):
AGATTCGTAAGATTTTTAGATTCATAATAATTAA
Found at i:4835173 original size:34 final size:34
Alignment explanation
Indices: 4835125--4835303 Score: 162
Period size: 34 Copynumber: 5.2 Consensus size: 34
4835115 AGATTCATAA
* * * *
4835125 AATTAAAGATTCGTAAGGCTTTCAGATTCGTAAT
1 AATTGAAGATTCGTAAAGCTTTCAGATTCGCAAG
* *
4835159 AATTGAAGATTCGTAAAAACTTTTTAGATTCGCAAG
1 AATTGAAGATTCGT-AAAGC-TTTCAGATTCGCAAG
* * ** * *
4835195 AATTGGAGACTCACAAAGTTTTTAGATTCGCAAG
1 AATTGAAGATTCGTAAAGCTTTCAGATTCGCAAG
* * *
4835229 AATTAAAAATTCGTAAGGCTTTCAGATTCGCAAG
1 AATTGAAGATTCGTAAAGCTTTCAGATTCGCAAG
* * *
4835263 AATT-AGAGATTCGTAAAGTTTTCAAATTCGTAAG
1 AATTGA-AGATTCGTAAAGCTTTCAGATTCGCAAG
4835297 AATTGAA
1 AATTGAA
4835304 AAATCTTCTA
Statistics
Matches: 115, Mismatches: 26, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
33 1 0.01
34 85 0.74
35 7 0.06
36 22 0.19
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (34 bp):
AATTGAAGATTCGTAAAGCTTTCAGATTCGCAAG
Found at i:4836536 original size:6 final size:6
Alignment explanation
Indices: 4836522--4836569 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
4836512 TCCTTTTCTC
*
4836522 TTTTT- TTTTTA TTTTTTA TTTTTA TTTTTA ATTTTA TTTTTCA TTTTT
1 TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTT-A TTTTT
4836570 TTCACTTCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 5 0.13
6 21 0.55
7 12 0.32
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Done.