Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 223 of 250
Found at i:68775666 original size:14 final size:14
Alignment explanation
Indices: 68775647--68775676 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
68775637 TATTTTCAAG
68775647 ATAGATTAACGCAT
1 ATAGATTAACGCAT
*
68775661 ATAGATTTACGCAT
1 ATAGATTAACGCAT
68775675 AT
1 AT
68775677 TTATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (14 bp):
ATAGATTAACGCAT
Found at i:68779482 original size:18 final size:18
Alignment explanation
Indices: 68779459--68779494 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
68779449 TTATTATTTT
68779459 TAAAATTATAAAAATATA
1 TAAAATTATAAAAATATA
* *
68779477 TAAAATTGTTAAAATATA
1 TAAAATTATAAAAATATA
68779495 CACTTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TAAAATTATAAAAATATA
Found at i:68780298 original size:27 final size:26
Alignment explanation
Indices: 68780247--68780303 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
68780237 AAATTTTATA
*
68780247 AAAATATAAAAAAAAATTAAATTCAAT
1 AAAATATAAAAAAAAATGAAATTC-AT
*
68780274 AAAATCATAAAAAAAAA-GAAGTTCAT
1 AAAAT-ATAAAAAAAAATGAAATTCAT
68780300 AAAA
1 AAAA
68780304 ATTCAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 6 0.22
27 10 0.37
28 11 0.41
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.21
Consensus pattern (26 bp):
AAAATATAAAAAAAAATGAAATTCAT
Found at i:68780304 original size:27 final size:27
Alignment explanation
Indices: 68780244--68780305 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
68780234 TTTAAATTTT
*
68780244 ATAAAAATATAAAAAAAAATTAAATTC
1 ATAAAAATATAAAAAAAAATGAAATTC
*
68780271 A-ATAAAATCATAAAAAAAAA-GAAGTTC
1 ATA-AAAAT-ATAAAAAAAAATGAAATTC
68780298 ATAAAAAT
1 ATAAAAAT
68780306 TCAAAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 1 0.03
27 17 0.57
28 12 0.40
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (27 bp):
ATAAAAATATAAAAAAAAATGAAATTC
Found at i:68780312 original size:27 final size:27
Alignment explanation
Indices: 68780244--68780312 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 27
68780234 TTTAAATTTT
**
68780244 ATAAAAATAT-AAAAAAAAATTAAATTC
1 ATAAAAAT-TCAAAAAAAAAAGAAATTC
*
68780271 A-ATAAAA-TCATAAAAAAAAAGAAGTTC
1 ATA-AAAATTCA-AAAAAAAAAGAAATTC
68780298 ATAAAAATTCAAAAA
1 ATAAAAATTCAAAAA
68780313 TATTAGTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
25 1 0.03
26 2 0.06
27 27 0.79
28 4 0.12
ACGTcount: A:0.70, C:0.06, G:0.03, T:0.22
Consensus pattern (27 bp):
ATAAAAATTCAAAAAAAAAAGAAATTC
Found at i:68780759 original size:29 final size:29
Alignment explanation
Indices: 68780724--68780802 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 29
68780714 AATTTAGTTA
68780724 TTAATATTTTCATTTTTAATTAAATTTTT
1 TTAATATTTTCATTTTTAATTAAATTTTT
* * *
68780753 TTAATATTTTC-TGTTAAATT-AA--CTT
1 TTAATATTTTCATTTTTAATTAAATTTTT
*
68780778 TT-AT-TTTTTATTTTTAATTAAATTT
1 TTAATATTTTCATTTTTAATTAAATTT
68780803 GTTCATTACT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
23 4 0.10
24 9 0.23
25 6 0.15
27 2 0.05
28 7 0.18
29 11 0.28
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (29 bp):
TTAATATTTTCATTTTTAATTAAATTTTT
Found at i:68785791 original size:13 final size:13
Alignment explanation
Indices: 68785773--68785798 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68785763 AATAACATAA
68785773 CATAGTGAAATGT
1 CATAGTGAAATGT
68785786 CATAGTGAAATGT
1 CATAGTGAAATGT
68785799 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
CATAGTGAAATGT
Found at i:68788582 original size:21 final size:21
Alignment explanation
Indices: 68788553--68788592 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
68788543 AAAATATTAA
*
68788553 ATTTGTTAAACAATAAATGAT
1 ATTTGTTAAACAAGAAATGAT
*
68788574 ATTTTTTAAACAAGAAATG
1 ATTTGTTAAACAAGAAATG
68788593 TTAGCTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
ATTTGTTAAACAAGAAATGAT
Found at i:68794350 original size:38 final size:38
Alignment explanation
Indices: 68794210--68794330 Score: 152
Period size: 38 Copynumber: 3.1 Consensus size: 38
68794200 AAACACAAAC
* * * ***
68794210 ATAACACCAGCACGAAGCCTACGAGACTTTAAACTTAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* *
68794250 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
68794288 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
68794326 ATAAT
1 ATAAT
68794331 TCTAGCATAT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 47 0.66
39 3 0.04
40 21 0.30
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:68797395 original size:23 final size:23
Alignment explanation
Indices: 68797361--68797408 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
68797351 GGGCTGTCAC
*
68797361 ATTAATAGTGTTATGAAAATTTG
1 ATTAATAGTGTTAAGAAAATTTG
68797384 ATTAAT-GATGTTAAGAAAATTTG
1 ATTAATAG-TGTTAAGAAAATTTG
68797407 AT
1 AT
68797409 GTGTTCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (23 bp):
ATTAATAGTGTTAAGAAAATTTG
Found at i:68798963 original size:3 final size:3
Alignment explanation
Indices: 68798951--68798981 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
68798941 TTAAACTCAA
68798951 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
68798982 CTCCTCTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:68800182 original size:3 final size:3
Alignment explanation
Indices: 68800174--68800200 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
68800164 CTAGTACAAA
68800174 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
68800201 AAAAGGGCGC
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:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:68802334 original size:28 final size:28
Alignment explanation
Indices: 68802303--68802357 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
68802293 TTAATATAAT
*
68802303 ATTTGGTATTTAAATTTGATTTTTTTTA
1 ATTTGGTATTTAAATTTAATTTTTTTTA
*
68802331 ATTTGGTGTTTAAATTTAATTTTTTTT
1 ATTTGGTATTTAAATTTAATTTTTTTT
68802358 CTTAATTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (28 bp):
ATTTGGTATTTAAATTTAATTTTTTTTA
Found at i:68808456 original size:10 final size:9
Alignment explanation
Indices: 68808443--68808580 Score: 77
Period size: 10 Copynumber: 14.4 Consensus size: 9
68808433 GACATGTGGC
68808443 AAAAGATTAT
1 AAAA-ATTAT
68808453 AAAAA-T-T
1 AAAAATTAT
*
68808460 AAAAATCAAT
1 AAAAAT-TAT
68808470 AAAAATTAT
1 AAAAATTAT
*
68808479 AAAAAATATT
1 AAAAATTA-T
*
68808489 AAATATTAAT
1 AAAAATT-AT
*
68808499 AAAAATATTT
1 AAAAAT-TAT
68808509 AAAAATTAT
1 AAAAATTAT
68808518 AAAAATCGTA-
1 AAAAAT--TAT
68808528 AAAAATTAT
1 AAAAATTAT
68808537 -AAAATATAT
1 AAAAAT-TAT
* *
68808546 AGAAATATAGA
1 AAAAAT-TA-T
68808557 AAAAATTTAT
1 AAAAA-TTAT
*
68808567 AAAATTTTAT
1 AAAA-ATTAT
68808577 AAAA
1 AAAA
68808581 TCGTAAGAAA
Statistics
Matches: 101, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
7 6 0.06
8 8 0.08
9 21 0.21
10 55 0.54
11 10 0.10
12 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:68808483 original size:19 final size:18
Alignment explanation
Indices: 68808451--68808540 Score: 76
Period size: 19 Copynumber: 4.8 Consensus size: 18
68808441 GCAAAAGATT
68808451 ATAAAAA-T-TAAAAATCA
1 ATAAAAATTATAAAAAT-A
68808468 ATAAAAATTATAAAAAATA
1 ATAAAAATTAT-AAAAATA
* *
68808487 TTAAATATTAATAAAAATA
1 ATAAAAATT-ATAAAAATA
* *
68808506 TTTAAAAATTATAAAAATC
1 -ATAAAAATTATAAAAATA
*
68808525 GTAAAAAATTATAAAA
1 AT-AAAAATTATAAAA
68808541 TATATAGAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
17 7 0.11
18 2 0.03
19 37 0.60
20 16 0.26
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (18 bp):
ATAAAAATTATAAAAATA
Found at i:68808514 original size:29 final size:29
Alignment explanation
Indices: 68808453--68808545 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 29
68808443 AAAAGATTAT
68808453 AAAA-ATTAAAAATCAATAAAAATTATAA
1 AAAATATTAAAAATCAATAAAAATTATAA
* * *
68808481 AAAATATTAAATATTAATAAAAATATTTAA
1 AAAATATTAAAAATCAATAAAAAT-TATAA
* *
68808511 AAATTA-TAAAAATC-GTAAAAAATTATAA
1 AAAATATTAAAAATCAAT-AAAAATTATAA
*
68808539 AATATAT
1 AAAATAT
68808546 AGAAATATAG
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
28 13 0.25
29 29 0.57
30 9 0.18
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (29 bp):
AAAATATTAAAAATCAATAAAAATTATAA
Found at i:68808540 original size:58 final size:58
Alignment explanation
Indices: 68808470--68808602 Score: 173
Period size: 58 Copynumber: 2.3 Consensus size: 58
68808460 AAAAATCAAT
* *
68808470 AAAAATTATAAAAAATAT-TAAATATTAATAAAAATATTTA-AAAATTATA-AAAATCGTA
1 AAAAATTATAAAAAATATAGAAATA-T-AGAAAAA-ATTTATAAAATTATATAAAATCGTA
* *
68808528 AAAAATTATAAAATATATAGAAATATAGAAAAAATTTATAAAATTTTATAAAATCGTA
1 AAAAATTATAAAAAATATAGAAATATAGAAAAAATTTATAAAATTATATAAAATCGTA
68808586 AGAAAATTATAAAAAAT
1 A-AAAATTATAAAAAAT
68808603 GTAAAGAAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
56 5 0.08
57 14 0.21
58 28 0.42
59 19 0.29
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (58 bp):
AAAAATTATAAAAAATATAGAAATATAGAAAAAATTTATAAAATTATATAAAATCGTA
Found at i:68808591 original size:21 final size:21
Alignment explanation
Indices: 68808567--68808611 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
68808557 AAAAATTTAT
* *
68808567 AAAATTTTATAAAATCGT-AAG
1 AAAATTATAAAAAAT-GTAAAG
68808588 AAAATTATAAAAAATGTAAAG
1 AAAATTATAAAAAATGTAAAG
68808609 AAA
1 AAA
68808612 TGTAAAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATTATAAAAAATGTAAAG
Found at i:68808848 original size:9 final size:9
Alignment explanation
Indices: 68808834--68808909 Score: 50
Period size: 9 Copynumber: 8.1 Consensus size: 9
68808824 TTTCATAATT
68808834 TTTTTATAA
1 TTTTTATAA
68808843 TTTTTATAAA
1 TTTTTAT-AA
* *
68808853 ATTTTACAA
1 TTTTTATAA
68808862 TTTTTTTATATA
1 --TTTTTATA-A
68808874 TTTTTA-AA
1 TTTTTATAA
*
68808882 TTTTAAT-A
1 TTTTTATAA
68808890 TTTTTA-ATA
1 TTTTTATA-A
68808899 TTTTTACTAA
1 TTTTTA-TAA
68808909 T
1 T
68808910 ATTCAATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
8 12 0.23
9 17 0.33
10 15 0.29
11 7 0.13
12 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:68808867 original size:21 final size:20
Alignment explanation
Indices: 68808843--68808885 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
68808833 TTTTTTATAA
68808843 TTTTTATAAAATTTTACAATT
1 TTTTTATAAAATTTTA-AATT
* *
68808864 TTTTTATATATTTTTAAATT
1 TTTTTATAAAATTTTAAATT
68808884 TT
1 TT
68808886 AATATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTATAAAATTTTAAATT
Found at i:68808884 original size:8 final size:9
Alignment explanation
Indices: 68808864--68808904 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
68808854 TTTTACAATT
68808864 TTTTTATATA
1 TTTTTA-ATA
68808874 TTTTTAA-A
1 TTTTTAATA
68808882 -TTTTAATA
1 TTTTTAATA
68808890 TTTTTAATA
1 TTTTTAATA
68808899 TTTTTA
1 TTTTTA
68808905 CTAATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.21
8 2 0.07
9 15 0.52
10 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTAATA
Found at i:68808892 original size:16 final size:18
Alignment explanation
Indices: 68808865--68808902 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
68808855 TTTACAATTT
68808865 TTTTATATATTTTTAA-A
1 TTTTATATATTTTTAATA
68808882 TTTTA-ATATTTTTAATA
1 TTTTATATATTTTTAATA
68808899 TTTT
1 TTTT
68808903 TACTAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATATATTTTTAATA
Found at i:68808920 original size:27 final size:25
Alignment explanation
Indices: 68808863--68808921 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 25
68808853 ATTTTACAAT
*
68808863 TTTTTTATATATTTTTAAATTTTAA
1 TTTTTTATATATTTTTAAATTTCAA
68808888 TATTTTTA-ATATTTTTACTAATATTCAA
1 T-TTTTTATATATTTTTA--AAT-TTCAA
68808916 TTTTTT
1 TTTTTT
68808922 TAAACTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 10 0.34
26 6 0.21
27 8 0.28
28 5 0.17
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTTTATATATTTTTAAATTTCAA
Found at i:68808921 original size:28 final size:25
Alignment explanation
Indices: 68808833--68808924 Score: 78
Period size: 28 Copynumber: 3.4 Consensus size: 25
68808823 ATTTCATAAT
68808833 TTTTTTATAAT-TTTTATAAAATTTTACAA
1 TTTTTT-TAATATTTT-T-AAA-TTT-CAA
*
68808862 TTTTTTTATATATTTTTAAATTTTAA
1 TTTTTTTA-ATATTTTTAAATTTCAA
*
68808888 TATTTTTAATATTTTTACTAATATTCAA
1 TTTTTTTAATATTTTTA--AAT-TTCAA
68808916 TTTTTTTAA
1 TTTTTTTAA
68808925 ACTTTTATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
25 9 0.17
26 9 0.17
27 6 0.11
28 17 0.31
29 9 0.17
30 4 0.07
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTTTTAATATTTTTAAATTTCAA
Found at i:68809201 original size:9 final size:9
Alignment explanation
Indices: 68809187--68809212 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
68809177 TATTTGACCG
68809187 TTTCTCCTC
1 TTTCTCCTC
68809196 TTTCTCCTC
1 TTTCTCCTC
68809205 TTTCTCCT
1 TTTCTCCT
68809213 TCACTCCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTCTCCTC
Found at i:68809909 original size:6 final size:6
Alignment explanation
Indices: 68809794--68809906 Score: 163
Period size: 6 Copynumber: 18.8 Consensus size: 6
68809784 CCGGCTTCGA
* *
68809794 CTCCGG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CACCTG
1 CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG
* * *
68809842 CACCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTA CTCGTG
1 CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG CTCCTG
* *
68809890 CTCCTA CTCCTA CTCCT
1 CTCCTG CTCCTG CTCCT
68809907 ACTACCACTT
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 99 1.00
ACGTcount: A:0.04, C:0.50, G:0.15, T:0.31
Consensus pattern (6 bp):
CTCCTG
Found at i:68813478 original size:27 final size:27
Alignment explanation
Indices: 68813421--68813495 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 27
68813411 ACTCATTAAT
*
68813421 ATTATAAATATTATTAACAAGATGTAAAA
1 ATTATAAATATTATT-A-AAGATATAAAA
*
68813450 ATTATAAATGATTATTAAA-ATATACAA
1 ATTATAAAT-ATTATTAAAGATATAAAA
68813477 ATTATAGAATAATTATTAA
1 ATTATA-AAT-ATTATTAA
68813496 TTATTAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 12 0.29
28 13 0.32
29 10 0.24
30 6 0.15
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (27 bp):
ATTATAAATATTATTAAAGATATAAAA
Found at i:68830441 original size:2 final size:2
Alignment explanation
Indices: 68830434--68830458 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68830424 AGGTGGGGTC
68830434 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
68830459 GCGCCTGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:68833917 original size:57 final size:57
Alignment explanation
Indices: 68833829--68833946 Score: 200
Period size: 57 Copynumber: 2.1 Consensus size: 57
68833819 ATATATTATC
* * *
68833829 ATTACCAATATATATATACACCCCAAAATGCATGTGGATCGAGTAATAAATAATTTA
1 ATTACCAATATATACATACACACCAAAATGCATGTGGATCGAGCAATAAATAATTTA
*
68833886 ATTACCAATATATACATACACACCAAAATGCATGTGGGTCGAGCAATAAATAATTTA
1 ATTACCAATATATACATACACACCAAAATGCATGTGGATCGAGCAATAAATAATTTA
68833943 ATTA
1 ATTA
68833947 TTTTTAAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (57 bp):
ATTACCAATATATACATACACACCAAAATGCATGTGGATCGAGCAATAAATAATTTA
Found at i:68842384 original size:68 final size:68
Alignment explanation
Indices: 68842275--68842409 Score: 270
Period size: 68 Copynumber: 2.0 Consensus size: 68
68842265 CCATTTGGAC
68842275 CGCCACGTAGACCGTTGTTAGGAAGGTAATGGAACTTAACGGTAGAGTGACCATTTTGTAACAAA
1 CGCCACGTAGACCGTTGTTAGGAAGGTAATGGAACTTAACGGTAGAGTGACCATTTTGTAACAAA
68842340 CGT
66 CGT
68842343 CGCCACGTAGACCGTTGTTAGGAAGGTAATGGAACTTAACGGTAGAGTGACCATTTTGTAACAAA
1 CGCCACGTAGACCGTTGTTAGGAAGGTAATGGAACTTAACGGTAGAGTGACCATTTTGTAACAAA
68842408 CG
66 CG
68842410 ATAACGTAAG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (68 bp):
CGCCACGTAGACCGTTGTTAGGAAGGTAATGGAACTTAACGGTAGAGTGACCATTTTGTAACAAA
CGT
Found at i:68842453 original size:29 final size:31
Alignment explanation
Indices: 68842417--68842485 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
68842407 ACGATAACGT
* * *
68842417 AAGTGACTAAAACGTAA-C-ATTTCAAACAC
1 AAGTGACTAAAACGTAATCAAATGCAAACAA
*
68842446 AAGTGACTAAAATGTAATCAAATGCAAACAA
1 AAGTGACTAAAACGTAATCAAATGCAAACAA
68842477 AAGTGACTA
1 AAGTGACTA
68842486 TTTTTGCACT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.47
30 1 0.03
31 17 0.50
ACGTcount: A:0.51, C:0.16, G:0.13, T:0.20
Consensus pattern (31 bp):
AAGTGACTAAAACGTAATCAAATGCAAACAA
Found at i:68843094 original size:16 final size:16
Alignment explanation
Indices: 68843069--68843102 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
68843059 TTGAATTTGA
* *
68843069 ATTATTTCAAGTTTAG
1 ATTATGTCAAGCTTAG
68843085 ATTATGTCAAGCTTAG
1 ATTATGTCAAGCTTAG
68843101 AT
1 AT
68843103 CAACTTGTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (16 bp):
ATTATGTCAAGCTTAG
Found at i:68848109 original size:18 final size:19
Alignment explanation
Indices: 68848088--68848125 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
68848078 TCTTTTTTAC
68848088 TATTTT-TTGCTTTT-TTTT
1 TATTTTCTTG-TTTTCTTTT
68848106 TATTTTCTTGTTTTCTTTT
1 TATTTTCTTGTTTTCTTTT
68848125 T
1 T
68848126 CAGTATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.05, C:0.08, G:0.05, T:0.82
Consensus pattern (19 bp):
TATTTTCTTGTTTTCTTTT
Found at i:68850108 original size:19 final size:19
Alignment explanation
Indices: 68850082--68850123 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
68850072 GGGGTCAAAT
* *
68850082 TTTAAAAAAATTA-ATATA
1 TTTATAAAAATTATATAAA
68850100 TTTATAAAAATTATATAAA
1 TTTATAAAAATTATATAAA
68850119 TTTAT
1 TTTAT
68850124 GTACAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTATAAAAATTATATAAA
Found at i:68856401 original size:13 final size:14
Alignment explanation
Indices: 68856373--68856407 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
68856363 TTTAGGTTGG
68856373 AAAATTTAAAGAAA
1 AAAATTTAAAGAAA
68856387 AAAATTTAAAGAAA
1 AAAATTTAAAGAAA
*
68856401 AACATTT
1 AAAATTT
68856408 TTATGTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (14 bp):
AAAATTTAAAGAAA
Found at i:68858579 original size:6 final size:6
Alignment explanation
Indices: 68858547--68858577 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
68858537 ACACTGACAA
*
68858547 CGATAC CGATAC CGATAC CGATAC CAATAC C
1 CGATAC CGATAC CGATAC CGATAC CGATAC C
68858578 AACTGAGCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.35, C:0.35, G:0.13, T:0.16
Consensus pattern (6 bp):
CGATAC
Found at i:68866881 original size:13 final size:14
Alignment explanation
Indices: 68866865--68866897 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
68866855 GCAAAACAAC
68866865 TTAATAAG-CTTAA
1 TTAATAAGACTTAA
68866878 TTAAT-AGACTTAA
1 TTAATAAGACTTAA
68866891 TTAATAA
1 TTAATAA
68866898 ACACATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 15 0.83
14 1 0.06
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (14 bp):
TTAATAAGACTTAA
Found at i:68867895 original size:30 final size:31
Alignment explanation
Indices: 68867861--68867962 Score: 113
Period size: 30 Copynumber: 3.4 Consensus size: 31
68867851 AAAAAAATAA
*
68867861 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* * *
68867891 AAATTTCATTTTAACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
68867921 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
68867951 AAATTTCATTTT
1 AAATTTCATTTT
68867963 AATCCTAAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 4 0.07
30 55 0.92
31 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:68868369 original size:14 final size:14
Alignment explanation
Indices: 68868351--68868403 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
68868341 AAGAAGAAGA
68868351 AAAGAAAGAAAAAA-
1 AAAGAAA-AAAAAAG
***
68868365 AAAGAAAAAAGGGG
1 AAAGAAAAAAAAAG
68868379 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
68868393 AAAGAAAAAAA
1 AAAGAAAAAAA
68868404 TTAAAAAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
13 3 0.09
14 29 0.91
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:68868520 original size:15 final size:16
Alignment explanation
Indices: 68868488--68868525 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
68868478 GGCCAGCCCA
68868488 AAAAAAAAAACCAAAGC
1 AAAAAAAAAACC-AAGC
*
68868505 AAAAAAAAAAGC-AGC
1 AAAAAAAAAACCAAGC
68868520 AAAAAA
1 AAAAAA
68868526 GAAGAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
17 11 0.55
ACGTcount: A:0.79, C:0.13, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAACCAAGC
Found at i:68868536 original size:10 final size:10
Alignment explanation
Indices: 68868523--68868559 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
68868513 AAGCAGCAAA
68868523 AAAGAAGAAG
1 AAAGAAGAAG
*
68868533 AAAGAAGCAG
1 AAAGAAGAAG
*
68868543 AAAAAAGAAG
1 AAAGAAGAAG
68868553 AAAGAAG
1 AAAGAAG
68868560 CAGCCCAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.70, C:0.03, G:0.27, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAG
Found at i:68868552 original size:20 final size:21
Alignment explanation
Indices: 68868512--68868562 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
68868502 AGCAAAAAAA
* *
68868512 AAAGCAGCAAAAAAGAAGAAG
1 AAAGAAGCAGAAAAGAAGAAG
68868533 AAAGAAGCAGAAAA-AAGAAG
1 AAAGAAGCAGAAAAGAAGAAG
68868553 AAAGAAGCAG
1 AAAGAAGCAG
68868563 CCCAAATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.67, C:0.08, G:0.25, T:0.00
Consensus pattern (21 bp):
AAAGAAGCAGAAAAGAAGAAG
Found at i:68868699 original size:11 final size:10
Alignment explanation
Indices: 68868683--68868743 Score: 59
Period size: 10 Copynumber: 5.6 Consensus size: 10
68868673 GCCCAGCAGA
68868683 AAAAAAAATAG
1 AAAAAAAA-AG
68868694 AAAAAAAAAG
1 AAAAAAAAAG
*
68868704 AAAAAGAGAGAAA
1 AAAAA-A-A-AAG
68868717 AAGAAAAAAAG
1 AA-AAAAAAAG
*
68868728 AAAAAACAAG
1 AAAAAAAAAG
68868738 AAAAAA
1 AAAAAA
68868744 GGGGTTCAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
10 20 0.47
11 13 0.30
12 2 0.05
13 5 0.12
14 3 0.07
ACGTcount: A:0.84, C:0.02, G:0.13, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:68868707 original size:8 final size:8
Alignment explanation
Indices: 68868696--68868743 Score: 60
Period size: 8 Copynumber: 5.8 Consensus size: 8
68868686 AAAAATAGAA
68868696 AAAAAAAG
1 AAAAAAAG
*
68868704 AAAAAGAG
1 AAAAAAAG
*
68868712 AGAAAAAG
1 AAAAAAAG
68868720 AAAAAAAG
1 AAAAAAAG
68868728 AAAAAACAAG
1 -AAAAA-AAG
68868738 AAAAAA
1 AAAAAA
68868744 GGGGTTCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 21 0.62
9 10 0.29
10 3 0.09
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:68868717 original size:16 final size:15
Alignment explanation
Indices: 68868680--68868732 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
68868670 CCAGCCCAGC
68868680 AGAAAAA-AAAATAGAA
1 AGAAAAAGAAAA-AG-A
*
68868696 AAAAAAAGAAAAAGA
1 AGAAAAAGAAAAAGA
68868711 GAGAAAAAGAAAAA-A
1 -AGAAAAAGAAAAAGA
68868726 AGAAAAA
1 AGAAAAA
68868733 ACAAGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 7 0.21
15 2 0.06
16 20 0.61
17 4 0.12
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (15 bp):
AGAAAAAGAAAAAGA
Found at i:68868739 original size:24 final size:24
Alignment explanation
Indices: 68868696--68868742 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
68868686 AAAAATAGAA
*
68868696 AAAAAAAGAAAAAGAGAGAAAAAG
1 AAAAAAAGAAAAAGAAAGAAAAAG
68868720 AAAAAAAGAAAAA-ACAAGAAAAA
1 AAAAAAAGAAAAAGA-AAGAAAAA
68868743 AGGGGTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (24 bp):
AAAAAAAGAAAAAGAAAGAAAAAG
Found at i:68868743 original size:18 final size:17
Alignment explanation
Indices: 68868685--68868743 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
68868675 CCAGCAGAAA
68868685 AAAAAATAGAAAAAAAA-
1 AAAAAA-AGAAAAAAAAG
* *
68868702 AGAAAAAGAGAGAAAAAG
1 AAAAAAAGA-AAAAAAAG
68868720 AAAAAAAGAAAAAACAAG
1 AAAAAAAGAAAAAA-AAG
68868738 AAAAAA
1 AAAAAA
68868744 GGGGTTCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 3 0.09
17 15 0.43
18 17 0.49
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.02
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAG
Found at i:68869137 original size:21 final size:20
Alignment explanation
Indices: 68869105--68869146 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
68869095 TCGCGTTTCG
68869105 AAATTTTCGTGTCTTCAAAA
1 AAATTTTCGTGTCTTCAAAA
*
68869125 AAATTTCTCGTGTTTTCAAAA
1 AAATTT-TCGTGTCTTCAAAA
68869146 A
1 A
68869147 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
AAATTTTCGTGTCTTCAAAA
Found at i:68869147 original size:19 final size:19
Alignment explanation
Indices: 68869105--68869146 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
68869095 TCGCGTTTCG
68869105 AAATTTTCGTGTCTTCAAAA
1 AAATTTTCGTGTCTTC-AAA
*
68869125 AAATTTCTCGTGTTTTCAAA
1 AAATTT-TCGTGTCTTCAAA
68869145 AA
1 AA
68869147 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (19 bp):
AAATTTTCGTGTCTTCAAA
Found at i:68869333 original size:38 final size:37
Alignment explanation
Indices: 68869252--68869339 Score: 110
Period size: 38 Copynumber: 2.4 Consensus size: 37
68869242 AAAAATCAGA
*
68869252 AAAATTTTCGTG---TTTTCAAAAAATTCCATTTTTC
1 AAAATTTTCGTGTTTTTTTCAAAAAATTCCATATTTC
* *
68869286 AAAATTTTTCGTGTTTTTTTTAAAAATTTCCATATTTC
1 AAAA-TTTTCGTGTTTTTTTCAAAAAATTCCATATTTC
68869324 TAAAATTTTCGTGTTT
1 -AAAATTTTCGTGTTT
68869340 AAAAAATTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
34 4 0.09
35 8 0.17
38 30 0.65
39 4 0.09
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (37 bp):
AAAATTTTCGTGTTTTTTTCAAAAAATTCCATATTTC
Found at i:68869525 original size:18 final size:18
Alignment explanation
Indices: 68869251--68869723 Score: 164
Period size: 17 Copynumber: 26.3 Consensus size: 18
68869241 AAAAAATCAG
*
68869251 AAAAATTTTCGTGTTTTC
1 AAAAATTCTCGTGTTTTC
*
68869269 AAAAAATTC-CAT-TTTTC
1 -AAAAATTCTCGTGTTTTC
* * *
68869286 AAAATTTTTCGTGTTTTTTTT
1 AAAAATTCTCGTG---TTTTC
* *
68869307 AAAAATT-TCCAT-ATTTC
1 AAAAATTCT-CGTGTTTTC
* * *
68869324 TAAAATTTTCGTG-TTTA
1 AAAAATTCTCGTGTTTTC
*
68869341 AAAAATT-TCGTATTTTC
1 AAAAATTCTCGTGTTTTC
* * ** *
68869358 AAAATTTTTATTTTTTTC
1 AAAAATTCTCGTGTTTTC
*
68869376 AACAATTCTCGTG-TTTC
1 AAAAATTCTCGTGTTTTC
* *
68869393 ACAAATTCTCGTATTTT-
1 AAAAATTCTCGTGTTTTC
* * ** *
68869410 AAAATTTTTTATGTTTTAAAA
1 AAAAATTCTCGTGTTTT---C
68869431 AATAAATTTCTCGTG-TTTC
1 AA-AAA-TTCTCGTGTTTTC
* * *
68869450 AAATATTGTCATGTTTT-
1 AAAAATTCTCGTGTTTTC
* *
68869467 AAAAATTTTCATG-TTTC
1 AAAAATTCTCGTGTTTTC
* *
68869484 TAAAATGT-TCGT-ATTTC
1 AAAAAT-TCTCGTGTTTTC
*
68869501 AAAAAATCCTCGTGTTTTC
1 -AAAAATTCTCGTGTTTTC
*
68869520 AAAAATTCTCATG-TTTC
1 AAAAATTCTCGTGTTTTC
68869537 AAAAA-TCTTCGTGTTTTC
1 AAAAATTC-TCGTGTTTTC
*
68869555 -AAAATTCTAGTG-TTTC
1 AAAAATTCTCGTGTTTTC
* * *
68869571 AAAAATTTTCATATTTTC
1 AAAAATTCTCGTGTTTTC
* *
68869589 AAAAATTTCCCCTGTTTTC
1 AAAAA-TTCTCGTGTTTTC
*
68869608 AAAAATTCTCGT-ATTTC
1 AAAAATTCTCGTGTTTTC
* * *
68869625 AAAAATTTTCTTTTTTTC
1 AAAAATTCTCGTGTTTTC
68869643 AAAAAAAAAACTTC-CGTGTTTT-
1 -----AAAAA-TTCTCGTGTTTTC
*
68869665 ATAAA-TCTCCGTGTTTTC
1 AAAAATTCT-CGTGTTTTC
**
68869683 AAAAAATTCTCG-ACTTTC
1 -AAAAATTCTCGTGTTTTC
68869701 AAAAAATT-TCGTGTTTTC
1 -AAAAATTCTCGTGTTTTC
68869719 AAAAA
1 AAAAA
68869724 ATTGACATTG
Statistics
Matches: 334, Mismatches: 77, Indels: 88
0.67 0.15 0.18
Matches are distributed among these distances:
15 2 0.01
16 19 0.06
17 153 0.46
18 86 0.26
19 33 0.10
20 4 0.01
21 14 0.04
22 5 0.01
23 16 0.05
24 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.46
Consensus pattern (18 bp):
AAAAATTCTCGTGTTTTC
Found at i:68869572 original size:16 final size:16
Alignment explanation
Indices: 68869516--68869574 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
68869506 ATCCTCGTGT
68869516 TTTCAAAAATTCTCA-TG
1 TTTC-AAAATTCT-AGTG
* *
68869533 TTTCAAAAATCTTCGTG
1 TTTCAAAATTC-TAGTG
68869550 TTTTCAAAATTCTAGTG
1 -TTTCAAAATTCTAGTG
68869567 TTTCAAAA
1 TTTCAAAA
68869575 ATTTTCATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 14 0.40
17 11 0.31
18 10 0.29
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (16 bp):
TTTCAAAATTCTAGTG
Found at i:68869724 original size:18 final size:18
Alignment explanation
Indices: 68869251--68869726 Score: 113
Period size: 18 Copynumber: 26.4 Consensus size: 18
68869241 AAAAAATCAG
*
68869251 AAAAATTTTCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
* *
68869269 AAAAAATTCCAT-TTTTC
1 AAAAAATTTCGTGTTTTC
** *
68869286 AAAATTTTTCGTGTTTTTTT
1 AAAAAATTTCGTG--TTTTC
* * *
68869306 TAAAAATTTCCAT-ATTTC
1 AAAAAATTT-CGTGTTTTC
* *
68869324 TAAAATTTTCGTG-TTT-
1 AAAAAATTTCGTGTTTTC
*
68869340 AAAAAATTTCGTATTTTC
1 AAAAAATTTCGTGTTTTC
** ** *
68869358 AAAATTTTTATTTTTTTC
1 AAAAAATTTCGTGTTTTC
*
68869376 -AACAATTCTCGTG-TTTC
1 AAAAAATT-TCGTGTTTTC
* *
68869393 -ACAAATTCTCGTATTTT-
1 AAAAAATT-TCGTGTTTTC
** ** *
68869410 AAAATTTTTTATGTTTTAAA
1 AAAAAATTTCGTGTTTT--C
68869430 AAATAAATTTC-TCGTGTTTC
1 AAA-AAATTTCGT-GT-TTTC
* *
68869450 -AAATATTGTCATGTTTT-
1 AAAAAATT-TCGTGTTTTC
* *
68869467 AAAAATTTTCATG-TTTC
1 AAAAAATTTCGTGTTTTC
* *
68869484 -TAAAATGTTCGT-ATTTC
1 AAAAAAT-TTCGTGTTTTC
*
68869501 AAAAAATCCTCGTGTTTTC
1 AAAAAAT-TTCGTGTTTTC
*
68869520 -AAAAATTCTCATG-TTTC
1 AAAAAATT-TCGTGTTTTC
68869537 -AAAAATCTTCGTGTTTTC
1 AAAAAAT-TTCGTGTTTTC
*
68869555 --AAAATTCTAGTG-TTTC
1 AAAAAATT-TCGTGTTTTC
* * *
68869571 AAAAATTTTCATATTTTC
1 AAAAAATTTCGTGTTTTC
*
68869589 -AAAAATTTCCCCTGTTTTC
1 AAAAAATTT--CGTGTTTTC
*
68869608 -AAAAATTCTCGT-ATTTC
1 AAAAAATT-TCGTGTTTTC
* * *
68869625 AAAAATTTTCTTTTTTTC
1 AAAAAATTTCGTGTTTTC
*
68869643 AAAAAAAAAACTTCCGTGTTTT-
1 ----AAAAAA-TTTCGTGTTTTC
* *
68869665 -ATAAATCTCCGTGTTTTC
1 AAAAAAT-TTCGTGTTTTC
**
68869683 AAAAAATTCTCG-ACTTTC
1 AAAAAATT-TCGTGTTTTC
68869701 AAAAAATTTCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
68869719 AAAAAATT
1 AAAAAATT
68869727 GACATTGTTT
Statistics
Matches: 332, Mismatches: 80, Indels: 92
0.66 0.16 0.18
Matches are distributed among these distances:
16 23 0.07
17 114 0.34
18 124 0.37
19 31 0.09
20 16 0.05
21 8 0.02
22 8 0.02
23 8 0.02
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.46
Consensus pattern (18 bp):
AAAAAATTTCGTGTTTTC
Found at i:68869816 original size:19 final size:19
Alignment explanation
Indices: 68869792--68869866 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
68869782 ATCAAAATTT
68869792 TTGTGTTTTCAAAATAAAA
1 TTGTGTTTTCAAAATAAAA
*
68869811 TTGTGTTTTAAAAATAAAA
1 TTGTGTTTTCAAAATAAAA
*
68869830 TTCGTGTTTTCAAAAAAAAA
1 TT-GTGTTTTCAAAATAAAA
*
68869850 TTCTCGTGTTTCAAAAT
1 TTGT-GT-TTTCAAAAT
68869867 TTTCGTGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 21 0.44
20 19 0.40
21 8 0.17
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (19 bp):
TTGTGTTTTCAAAATAAAA
Found at i:68869865 original size:18 final size:17
Alignment explanation
Indices: 68869844--68869968 Score: 53
Period size: 17 Copynumber: 7.1 Consensus size: 17
68869834 TGTTTTCAAA
68869844 AAAAAATTCTCGTGTTTC
1 AAAAAATT-TCGTGTTTC
* *
68869862 -AAAATTTTCGTGTTTTTTTA
1 AAAAAATTTCGTG----TTTC
*
68869882 AAAAAAATTCGTGTTTC
1 AAAAAATTTCGTGTTTC
* * * *
68869899 -TAAAATTCTTGTATTTT
1 AAAAAATT-TCGTGTTTC
*
68869916 AAAATATTTCGTGTTTC
1 AAAAAATTTCGTGTTTC
*
68869933 GAAAAAAGGTT-GTGTTTC
1 -AAAAAA-TTTCGTGTTTC
68869951 --AAAATTCTCGTGTTTC
1 AAAAAATT-TCGTGTTTC
68869967 AA
1 AA
68869969 TTGGATCACG
Statistics
Matches: 76, Mismatches: 18, Indels: 26
0.63 0.15 0.22
Matches are distributed among these distances:
14 1 0.01
15 5 0.07
16 17 0.22
17 21 0.28
18 17 0.22
19 2 0.03
20 3 0.04
21 10 0.13
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTC
Found at i:68869865 original size:20 final size:19
Alignment explanation
Indices: 68869740--68869865 Score: 67
Period size: 20 Copynumber: 5.9 Consensus size: 19
68869730 ATTGTTTCAT
68869740 AAATTTCCGTGTTTCAAAAA
1 AAATTT-CGTGTTTCAAAAA
*
68869760 AAATCCTCGTGTTTCATAATTTATCA
1 AAAT-TTCGTGTTTCA-AA---A--A
*
68869786 AAATTTTTGTGTTTTCAAAATA
1 AAA-TTTCGTG-TTTCAAAA-A
*
68869808 AAA-TT-GTGTTTTAAAAA
1 AAATTTCGTGTTTCAAAAA
*
68869825 TAAAATTCGTGTTTTCAAAAAA
1 -AAATTTCGTG-TTTC-AAAAA
68869847 AAATTCTCGTGTTTCAAAA
1 AAATT-TCGTGTTTCAAAA
68869866 TTTTCGTGTT
Statistics
Matches: 84, Mismatches: 7, Indels: 30
0.69 0.06 0.25
Matches are distributed among these distances:
17 1 0.01
18 10 0.12
19 5 0.06
20 22 0.26
21 14 0.17
22 14 0.17
23 1 0.01
24 1 0.01
26 10 0.12
27 6 0.07
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (19 bp):
AAATTTCGTGTTTCAAAAA
Found at i:68869867 original size:16 final size:16
Alignment explanation
Indices: 68869846--68869876 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68869836 TTTTCAAAAA
68869846 AAAATTCTCGTGTTTC
1 AAAATTCTCGTGTTTC
*
68869862 AAAATTTTCGTGTTT
1 AAAATTCTCGTGTTT
68869877 TTTTAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (16 bp):
AAAATTCTCGTGTTTC
Found at i:68869902 original size:19 final size:19
Alignment explanation
Indices: 68869798--68869903 Score: 62
Period size: 21 Copynumber: 5.5 Consensus size: 19
68869788 ATTTTTGTGT
68869798 TTTC-AAAATAAAATT-GTG
1 TTTCTAAAA-AAAATTCGTG
68869816 TTT-TAAAAATAAAATTCGTG
1 TTTCT-AAAA-AAAATTCGTG
*
68869836 TTTTCAAAAAAAAATTCTCGTG
1 -TTTCTAAAAAAAA-T-TCGTG
**
68869858 TTTC---AAAATTTTCGTG
1 TTTCTAAAAAAAATTCGTG
*
68869874 TTTTTTTAAAAAAAATTCGTG
1 --TTTCTAAAAAAAATTCGTG
68869895 TTTCTAAAA
1 TTTCTAAAA
68869904 TTCTTGTATT
Statistics
Matches: 69, Mismatches: 7, Indels: 23
0.70 0.07 0.23
Matches are distributed among these distances:
16 5 0.07
17 1 0.01
18 10 0.14
19 19 0.28
20 7 0.10
21 22 0.32
22 5 0.07
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (19 bp):
TTTCTAAAAAAAATTCGTG
Found at i:68882358 original size:73 final size:72
Alignment explanation
Indices: 68881955--68882527 Score: 861
Period size: 73 Copynumber: 8.1 Consensus size: 72
68881945 TAGTTAAGCC
* ** *
68881955 TTTT-AATTTATGTTTTTC-AAA-TC-ACTCATATTGC-AGAGGTGAGTTGAGCCTC-AGGCACG
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
*
68882014 CTGAGGTAA
65 TTGAGGT-A
* *
68882023 TTTT-AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
68882087 TGAGGTA
66 TGAGGTA
*
68882094 ATTTCAATTTCTGTTTTCAAAATTCAACT-ATATTGCGAGAAATGAGTTGAGCCTC-AGACAC--
1 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
68882155 TGAGGT-
66 TGAGGTA
*
68882161 TTTTCAATTTCTGCTTTTCAAAATTCAACT-ATATTGCGAGAAATGAGTTGAGCCTCAAGACACA
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
68882225 TTGAGGTA
65 TTGAGGTA
*
68882233 -ATTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
68882297 TGAGGTA
66 TGAGGTA
68882304 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
68882369 TTGA-GTA
65 TTGAGGTA
*
68882376 TTTTTAATTTTCTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
1 TTTTCAA-TTTC-TG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
68882441 CGTTGAGGTA
63 CGTTGAGGTA
*
68882451 ATTTCAATTTCTGTTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
68882516 TTGAGGTA
65 TTGAGGTA
68882524 TTTT
1 TTTT
68882528 TAGTATGTTT
Statistics
Matches: 471, Mismatches: 16, Indels: 31
0.91 0.03 0.06
Matches are distributed among these distances:
67 17 0.04
68 62 0.13
69 8 0.02
70 32 0.07
71 104 0.22
72 61 0.13
73 118 0.25
74 61 0.13
75 8 0.02
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (72 bp):
TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
TGAGGTA
Found at i:68882434 original size:147 final size:143
Alignment explanation
Indices: 68881955--68883014 Score: 1205
Period size: 143 Copynumber: 7.6 Consensus size: 143
68881945 TAGTTAAGCC
* ** * *
68881955 TTTT-AATTTATGTTTTTC-AAA-TC-ACTCATATTGC-AGAGGTGAGTTGAGCCTCAGGCACGC
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGACACGT
68882015 TGAGGTAATTTT-AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
65 TGAGGT-ATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
* *
68882079 GGACACGCTGAGGTA
129 AGACACGTTGAGGTA
*
68882094 ATTTCAATTTCTGTTTTCAAAATTCAACT-ATATTGCGAGAAATGAGTTGAGCCTCAGACAC--T
1 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGACACGTT
68882156 GAGGT-TTTTCAATTTCTGCTTTTCAAAATTCAACT-ATATTGCGAGAAATGAGTTGAGCCTCAA
66 GAGGTATTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
*
68882219 GACACATTGAGGTA
130 GACACGTTGAGGTA
*
68882233 -ATTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AGACACGT
68882297 TGAGGTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
65 TGAGGTATTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
68882362 AGACACGTTGA-GTA
129 AGACACGTTGAGGTA
*
68882376 TTTTTAATTTTCTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
1 TTTTCAA-TTTC-TG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AGACA
*
68882441 CGTTGAGGTAATTTCAATTTCTGTTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC
62 CGTTGAGGTATTTTCAATTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC
68882506 TCAAGACACGTTGAGGTA
126 TCAAGACACGTTGAGGTA
* * * * * * *
68882524 TTTT-TA-GTATGTTTT--AAATT-GACTCATATTGCGAG--A-G-G-TGAG--TTA-A-GCTTT
1 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGACACGTT
* * *** *
68882575 TA---ATTTTC--GTT-T-TTCAAA--ATTCAACTCATATTGCGAGAAAATGAGTTTAGCCTCAA
66 GAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAG-AAATGAGTTGAGCCTCAA
68882631 GACACGTTGAGGTA
130 GACACGTTGAGGTA
*
68882645 ATTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAG-AATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AGACACG
*
68882709 TTGAGGTAATTTCAATCTT-TGTTTTCAAAATTCAACTC-TATTGCGAGAAATGAGTTGAGCCTC
64 TTGAGGTATTTTCAAT-TTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
68882772 AAGACACG-TGAGAGTA
128 AAGACACGTTGAG-GTA
*
68882788 TTTTCAATTT-TGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAG-TGAGCCTCAAAGAC-C
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC--AGACAC
* * *
68882850 GGTGAGGTAATTTGCAA--TC--TTTTCAAATAATTAAACTCATATTGCGGAAGAAATGA-TGTG
63 GTTGAGGT-ATTTTCAATTTCTGTTTTC-AA-AATTCAACTCATATTGC-G-AGAAATGAGT-TG
*
68882910 AGCCTCAAGACACATTGAGGT-
122 AGCCTCAAGACACGTTGAGGTA
* * *
68882931 TTTTCAATTTCTGCTTTCAAAACTT-AACTCATATTGCGAGAGATGAGTT-AGCCTCAAGGCACG
1 TTTTCAATTTCTGTTTTCAAAA-TTCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AGACACG
*
68882994 CTGAGGTATTTTCAATTTCTG
64 TTGAGGTATTTTCAATTTCTG
68883015 CTTTACTAAT
Statistics
Matches: 802, Mismatches: 55, Indels: 121
0.82 0.06 0.12
Matches are distributed among these distances:
120 19 0.02
121 34 0.04
122 2 0.00
123 5 0.01
124 5 0.01
125 2 0.00
126 5 0.01
127 19 0.02
128 1 0.00
129 1 0.00
130 5 0.01
131 5 0.01
132 1 0.00
133 2 0.00
134 1 0.00
135 5 0.01
136 5 0.01
137 1 0.00
138 32 0.04
139 91 0.11
140 55 0.07
141 23 0.03
142 99 0.12
143 146 0.18
144 84 0.10
145 18 0.02
146 7 0.01
147 122 0.15
148 7 0.01
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (143 bp):
TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGACACGTT
GAGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
ACACGTTGAGGTA
Found at i:68882720 original size:72 final size:72
Alignment explanation
Indices: 68882576--68883018 Score: 538
Period size: 71 Copynumber: 6.2 Consensus size: 72
68882566 TTAAGCTTTT
* *
68882576 AATTTTCGTTTTTCAAAATTCAACTCATATTGCGAGAAAATGAGTTTAGCCTCAAGACACGTTGA
1 AATTTT-GCTTTTCAAAATTCAACTCATATTGCGAG-AAATGAGTTGAGCCTCAAGACACGTTGA
68882641 GGTAATTTC
64 GGTAATTTC
68882650 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAG-AATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTT-TGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
68882714 GTAATTTC
65 GTAATTTC
68882722 AATCTTTG-TTTTCAAAATTCAACTC-TATTGCGAGAAATGAGTTGAGCCTCAAGACACG-TGAG
1 AAT-TTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
68882784 AGTATTTTC
65 -GTAATTTC
* *
68882793 AATTTTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAG-TGAGCCTCAAAGAC-CGGTGAG
1 AATTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AAGACACGTTGAG
68882856 GTAATTTGC
65 GTAATTT-C
* *
68882865 AA---T-CTTTTCAAATAATTAAACTCATATTGCGGAAGAAATGA-TGTGAGCCTCAAGACACAT
1 AATTTTGCTTTTC-AA-AATTCAACTCATATTGC-G-AGAAATGAGT-TGAGCCTCAAGACACGT
*
68882925 TGAGGT-TTTTC
61 TGAGGTAATTTC
* * *
68882936 AATTTCTGC-TTTCAAAACTT-AACTCATATTGCGAGAGATGAGTT-AGCCTCAAGGCACGCTGA
1 AATTT-TGCTTTTCAAAA-TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
*
68882998 GGTATTTTC
64 GGTAATTTC
68883007 AATTTCTGCTTT
1 AATTT-TGCTTT
68883019 ACTAATTCTA
Statistics
Matches: 330, Mismatches: 14, Indels: 52
0.83 0.04 0.13
Matches are distributed among these distances:
68 5 0.02
69 3 0.01
70 51 0.15
71 108 0.33
72 88 0.27
73 31 0.09
74 37 0.11
75 6 0.02
76 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (72 bp):
AATTTTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TAATTTC
Found at i:68883118 original size:14 final size:14
Alignment explanation
Indices: 68883096--68883128 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
68883086 TCTTTTCAAA
68883096 TTCTG-TTTTTAAT
1 TTCTGTTTTTTAAT
68883109 TTCTGTTTTTTAAT
1 TTCTGTTTTTTAAT
68883123 TTCTGT
1 TTCTGT
68883129 GTTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.70
Consensus pattern (14 bp):
TTCTGTTTTTTAAT
Found at i:68883349 original size:55 final size:54
Alignment explanation
Indices: 68883219--68883367 Score: 198
Period size: 55 Copynumber: 2.8 Consensus size: 54
68883209 TCAGTTTTGT
* * * *
68883219 TTTTCAAAAA-CAAAATCATATTGCGAGAGATGAGTTGAG-C-TTTAATTTCTAT
1 TTTTCAAAAATC-AACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAATTCTAG
68883271 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCT-G
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AAATTCTAG
*
68883326 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
68883368 CGGCTCACAT
Statistics
Matches: 87, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
52 35 0.40
53 2 0.02
54 3 0.03
55 41 0.47
56 6 0.07
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (54 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAATTCTAG
Found at i:68883408 original size:16 final size:17
Alignment explanation
Indices: 68883387--68883420 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
68883377 TGCTGAGGTA
*
68883387 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
68883403 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
68883420 T
1 T
68883421 CAAAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:68883575 original size:87 final size:88
Alignment explanation
Indices: 68883326--68883727 Score: 397
Period size: 87 Copynumber: 4.5 Consensus size: 88
68883316 GCAAATTCTG
*
68883326 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG--CACACGCTGAGGTATTT
* * * * * *
68883390 TCAATTTATGTTTTTTTCAATCTATGC
63 TCAATTTCTGCTTTTCT-AATTTCTAC
* * *
68883417 TTTTCAAAAATTAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACA--CTGAGGTATTTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCACACGCTGAGGTATTTT
*
68883480 CAATTTCTGCTTTACTAA-TTCTAC
64 CAATTTCTGCTTTTCTAATTTCTAC
* *
68883504 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGTATTTTC
* * * *
68883568 AAATTCTGTTTTTTTTTAATTTCT-G
65 AATTTCTG--CTTTTCTAATTTCTAC
*
68883593 TGTTTCAAAAACAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG-GCACGCTGAGGT
1 T-TTT------CAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGT
* **
68883657 ATTTTCAATTTCTACTTTTC-AATTTCTGT
59 ATTTTCAATTTCTGCTTTTCTAATTTCTAC
*
68883686 TTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
68883728 TTTAATTTCT
Statistics
Matches: 264, Mismatches: 29, Indels: 40
0.79 0.09 0.12
Matches are distributed among these distances:
84 3 0.01
85 36 0.14
86 1 0.00
87 62 0.23
88 2 0.01
89 31 0.12
90 7 0.03
91 44 0.17
92 10 0.04
93 7 0.03
95 22 0.08
96 1 0.00
97 38 0.14
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCA
ATTTCTGCTTTTCTAATTTCTAC
Found at i:68883862 original size:102 final size:102
Alignment explanation
Indices: 68883686--68883883 Score: 292
Period size: 102 Copynumber: 1.9 Consensus size: 102
68883676 CAATTTCTGT
* * *
68883686 TTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAAC
1 TTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTTTCAAATTCTAGTTTTCAAAAAC
* *
68883751 CAATTCATATTGCGAGAGGTGA-TTGAGCCTTTTTCTA
66 CAACTCATA-TGCGAGAAGTGAGTTGAGCCTTTTTCTA
* *
68883788 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCAAATTCT-GTTTTCAAAAA
1 TTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTTT-CAAATTCTAGTTTTCAAAAA
*
68883852 TCAACTCATATGCGAGAAGTGAGTTGAGCCTT
65 CCAACTCATATGCGAGAAGTGAGTTGAGCCTT
68883884 GGCTCACGTG
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
101 11 0.13
102 69 0.80
103 6 0.07
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (102 bp):
TTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTTTCAAATTCTAGTTTTCAAAAAC
CAACTCATATGCGAGAAGTGAGTTGAGCCTTTTTCTA
Found at i:68883883 original size:53 final size:53
Alignment explanation
Indices: 68883673--68883883 Score: 272
Period size: 54 Copynumber: 4.0 Consensus size: 53
68883663 AATTTCTACT
* *
68883673 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCC
1 TTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * * *
68883727 TTTTAATTTCTATTTTTCAAAAACCAATTCATATTGCGAGAGGTGA-TTGAGCC
1 TTTCAATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
68883780 -TT---TTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
68883829 TTTGCAAATTCTGTTTTCAAAAATCAACTCATA-TGCGAGAAGTGAGTTGAGCC
1 TTT-CAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
68883882 TT
1 TT
68883884 GGCTCACGTG
Statistics
Matches: 138, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
48 31 0.22
49 12 0.09
50 2 0.01
52 2 0.01
53 28 0.20
54 63 0.46
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (53 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:68884185 original size:30 final size:31
Alignment explanation
Indices: 68884151--68884252 Score: 113
Period size: 30 Copynumber: 3.4 Consensus size: 31
68884141 AAAAAAATAA
*
68884151 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* * *
68884181 AAATTTCATTTTAACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
68884211 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
68884241 AAATTTCATTTT
1 AAATTTCATTTT
68884253 AATCCTAAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 4 0.07
30 55 0.92
31 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:68884641 original size:9 final size:9
Alignment explanation
Indices: 68884627--68884678 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
68884617 AAGGAAGAAG
68884627 AAGAAAAGA
1 AAGAAAAGA
*
68884636 AAGAAAAAA
1 AAGAAAAGA
68884645 AAGAAAA-A
1 AAGAAAAGA
* *
68884653 AGGGGAAAGA
1 A-AGAAAAGA
*
68884663 AAAAAAAGA
1 AAGAAAAGA
68884672 AAGAAAA
1 AAGAAAA
68884679 AAATAAAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
8 2 0.06
9 30 0.88
10 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAGAAAAGA
Found at i:68884663 original size:14 final size:13
Alignment explanation
Indices: 68884631--68884681 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
68884621 AAGAAGAAGA
68884631 AAAGAAAGAAAAA-
1 AAAGAAA-AAAAAG
**
68884644 AAAGAAAAAAGGGG
1 AAAGAAAAAA-AAG
68884658 AAAGAAAAAAAAG
1 AAAGAAAAAAAAG
68884671 AAAGAAAAAAA
1 AAAGAAAAAAA
68884682 TAAAAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 3 0.09
13 19 0.59
14 10 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAG
Found at i:68884672 original size:41 final size:42
Alignment explanation
Indices: 68884609--68884687 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
68884599 GCTAGAGCCG
* * * *
68884609 AAAGAGGGAAGGAAGAAGAAGAAAAGAAAGAAA-AAAAAGAAA
1 AAAGAGGGAAAGAAAAAAAAG-AAAGAAAAAAATAAAAAGAAA
68884651 AAAG-GGGAAAGAAAAAAAAGAAAGAAAAAAATAAAAA
1 AAAGAGGGAAAGAAAAAAAAGAAAGAAAAAAATAAAAA
68884688 AATAAATATC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 10 0.31
41 18 0.56
42 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (42 bp):
AAAGAGGGAAAGAAAAAAAAGAAAGAAAAAAATAAAAAGAAA
Found at i:68884825 original size:21 final size:23
Alignment explanation
Indices: 68884788--68884838 Score: 88
Period size: 21 Copynumber: 2.3 Consensus size: 23
68884778 AGCAAAAAAA
68884788 AAGCAGCAAAAAGAAGAAGAAAG
1 AAGCAGCAAAAAGAAGAAGAAAG
68884811 AAGCAG-AAAAA-AAGAAGAAAG
1 AAGCAGCAAAAAGAAGAAGAAAG
68884832 AAGCAGC
1 AAGCAGC
68884839 CCAAATACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.59
22 5 0.19
23 6 0.22
ACGTcount: A:0.65, C:0.10, G:0.25, T:0.00
Consensus pattern (23 bp):
AAGCAGCAAAAAGAAGAAGAAAG
Found at i:68884971 original size:9 final size:8
Alignment explanation
Indices: 68884957--68885012 Score: 51
Period size: 9 Copynumber: 6.6 Consensus size: 8
68884947 CCCAGCAGAA
68884957 AAAAAAGAG
1 AAAAAA-AG
68884966 AAAAAAAAG
1 -AAAAAAAG
*
68884975 AAAAGAGAG
1 AAAA-AAAG
*
68884984 AAGAAAA-
1 AAAAAAAG
68884991 AAAAAAAG
1 AAAAAAAG
68884999 AAAAACAAG
1 AAAAA-AAG
68885008 AAAAA
1 AAAAA
68885013 GGGGTTCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 6 0.15
8 11 0.28
9 16 0.41
10 6 0.15
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:68884983 original size:18 final size:17
Alignment explanation
Indices: 68884958--68885013 Score: 71
Period size: 18 Copynumber: 3.4 Consensus size: 17
68884948 CCAGCAGAAA
68884958 AAAAAGAGAAAAAAAAG
1 AAAAAGAGAAAAAAAAG
*
68884975 AAAAGAGAGAAGAAAAA-
1 AAAA-AGAGAAAAAAAAG
*
68884992 AAAAA-AGAAAAACAAG
1 AAAAAGAGAAAAAAAAG
68885008 AAAAAG
1 AAAAAG
68885014 GGGTTCAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 8 0.24
16 6 0.18
17 8 0.24
18 11 0.33
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAGAGAAAAAAAAG
Found at i:68885170 original size:5 final size:5
Alignment explanation
Indices: 68885160--68885204 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
68885150 CATTTATATT
* * * *
68885160 TTTAA TTTAA TTTAA TTTAA TTCAA TTTTA TTTTA TTTTA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
68885205 ATACTTTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:68885407 original size:19 final size:20
Alignment explanation
Indices: 68885368--68885408 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
68885358 TCGCGTTTCG
68885368 AAATTTTCGTGTCTTCAAAA
1 AAATTTTCGTGTCTTCAAAA
68885388 AAATTTCTCGTGT-TTCAAAA
1 AAATTT-TCGTGTCTTCAAAA
68885408 A
1 A
68885409 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (20 bp):
AAATTTTCGTGTCTTCAAAA
Found at i:68885536 original size:18 final size:18
Alignment explanation
Indices: 68885513--68886000 Score: 224
Period size: 17 Copynumber: 27.4 Consensus size: 18
68885503 GAAAAATCAG
68885513 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
68885531 AAAAATTTTC--GTTTTC
1 AAAAATTTTCGTGTTTTC
* * *
68885547 AAAAAATTCCAT-TTTTC
1 AAAAATTTTCGTGTTTTC
* *
68885564 AAAATTTTTCGTGTTTTTTTA
1 AAAAATTTTCGTG---TTTTC
* * *
68885585 AAAAATTTCCAT-ATTTC
1 AAAAATTTTCGTGTTTTC
*
68885602 TAAAATTTTCGTG-TTT-
1 AAAAATTTTCGTGTTTTC
* *
68885618 AAAAAATTTCGTATTTTC
1 AAAAATTTTCGTGTTTTC
* ** *
68885636 AAAATTTTTATTTTTTTC
1 AAAAATTTTCGTGTTTTC
* *
68885654 AACAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* * *
68885671 ACAAATTCTCGTATTTT-
1 AAAAATTTTCGTGTTTTC
* ** *
68885688 AAAATTTTTTATGTTTTA
1 AAAAATTTTCGTGTTTTC
68885706 AAAAATAAATTTC-TCGTGTTTC
1 AAAAAT---TTTCGT-GT-TTTC
* * *
68885728 AAATATTGTCATGTTTT-
1 AAAAATTTTCGTGTTTTC
*
68885745 AAAAATTTTCATG-TTTC
1 AAAAATTTTCGTGTTTTC
* * *
68885762 TAAAATGTTCGT-ATTTC
1 AAAAATTTTCGTGTTTTC
**
68885779 AAAAAATCCTCGTGTTTTC
1 -AAAAATTTTCGTGTTTTC
* *
68885798 AAAAATTCTCATG-TTTC
1 AAAAATTTTCGTGTTTTC
*
68885815 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
68885833 -AAAATTCTAGTG-TTTC
1 AAAAATTTTCGTGTTTTC
*
68885849 AAAAATTTTCATGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
68885867 AAAAATTTCCCCTGTTTTC
1 AAAAATTT-TCGTGTTTTC
* *
68885886 -AAAATTCTCGT-ATTTC
1 AAAAATTTTCGTGTTTTC
*
68885902 AAAAATTTTC-TTTTTTC
1 AAAAATTTTCGTGTTTTC
* *
68885919 AAAAAAAAAACTTCCGTGTTTT-
1 -----AAAAATTTTCGTGTTTTC
* * *
68885941 ATAAATCTCCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* **
68885959 AAAAATTCTCG-ACTTTC
1 AAAAATTTTCGTGTTTTC
*
68885976 AAAAAATTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
68885994 AAAAATT
1 AAAAATT
68886001 GACATTGTTT
Statistics
Matches: 347, Mismatches: 88, Indels: 70
0.69 0.17 0.14
Matches are distributed among these distances:
16 36 0.10
17 153 0.44
18 100 0.29
19 17 0.05
20 2 0.01
21 18 0.05
22 16 0.05
23 5 0.01
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:68885595 original size:38 final size:36
Alignment explanation
Indices: 68885526--68885644 Score: 117
Period size: 33 Copynumber: 3.4 Consensus size: 36
68885516 AATTTTCGTG
* *
68885526 TTTTCAAAAATTTTC--GTTTTCAAAAAA-TTCCAT
1 TTTTCAAAATTTTTCGTGTTTTTAAAAAATTTCCAT
68885559 TTTTCAAAATTTTTCGTGTTTTTTTAAAAAATTTCCAT
1 TTTTCAAAATTTTTCGTG--TTTTTAAAAAATTTCCAT
* *
68885597 ATTTCTAAAA-TTTTCGTG--TTTAAAAAATTT-CGT
1 TTTTC-AAAATTTTTCGTGTTTTTAAAAAATTTCCAT
68885630 ATTTTCAAAATTTTT
1 -TTTTCAAAATTTTT
68885645 ATTTTTTTCA
Statistics
Matches: 73, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
33 20 0.27
34 20 0.27
35 1 0.01
37 10 0.14
38 18 0.25
39 4 0.05
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.51
Consensus pattern (36 bp):
TTTTCAAAATTTTTCGTGTTTTTAAAAAATTTCCAT
Found at i:68885830 original size:87 final size:86
Alignment explanation
Indices: 68885716--68885908 Score: 214
Period size: 87 Copynumber: 2.2 Consensus size: 86
68885706 AAAAATAAAT
* * *
68885716 TTCTCGTGTTTCAAATATTGTCATGTTTTAAAAATTTTCA-TGTTTCTAAAATGTTC-GTATTTC
1 TTCTCGTGTTTCAAAAATTGTCATGTTTTAAAAATTCT-AGTGTTTCAAAAATGTTCAGT-TTTC
*
68885779 AAAAA-ATCCTCGTGTTTTCAAAAA
64 AAAAATATCC-CCTGTTTTC-AAAA
* * * *
68885803 TTCTCATGTTTCAAAAATCT-TCGTGTTTTCAAAATTCTAGTGTTTCAAAAATTTTCATGTTTTC
1 TTCTCGTGTTTCAAAAAT-TGTCATGTTTTAAAAATTCTAGTGTTTCAAAAATGTTCA-GTTTTC
*
68885867 AAAAATTTCCCCTGTTTTCAAAA
64 AAAAATATCCCCTGTTTTCAAAA
*
68885890 TTCTCGTATTTCAAAAATT
1 TTCTCGTGTTTCAAAAATT
68885909 TTCTTTTTTC
Statistics
Matches: 90, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
86 2 0.02
87 65 0.72
88 18 0.20
89 5 0.06
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.45
Consensus pattern (86 bp):
TTCTCGTGTTTCAAAAATTGTCATGTTTTAAAAATTCTAGTGTTTCAAAAATGTTCAGTTTTCAA
AAATATCCCCTGTTTTCAAAA
Found at i:68885902 original size:53 final size:52
Alignment explanation
Indices: 68885794--68885923 Score: 176
Period size: 53 Copynumber: 2.5 Consensus size: 52
68885784 ATCCTCGTGT
* * *
68885794 TTTCAAAAATTCTCATG-TTTCAAAAATCTTCGTGTTTTCAAAATTCTAGTG
1 TTTCAAAAATTTTCATGTTTTCAAAAATCTTCCTGTTTTCAAAATTCTAGTA
*
68885845 TTTCAAAAATTTTCATGTTTTCAAAAAT-TTCCCCTGTTTTCAAAATTCTCGTA
1 TTTCAAAAATTTTCATGTTTTCAAAAATCTT--CCTGTTTTCAAAATTCTAGTA
*
68885898 TTTCAAAAATTTTC-TTTTTTCAAAAA
1 TTTCAAAAATTTTCATGTTTTCAAAAA
68885924 AAAAACTTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
51 18 0.25
52 21 0.30
53 32 0.45
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (52 bp):
TTTCAAAAATTTTCATGTTTTCAAAAATCTTCCTGTTTTCAAAATTCTAGTA
Found at i:68886087 original size:18 final size:18
Alignment explanation
Indices: 68886066--68886121 Score: 85
Period size: 18 Copynumber: 3.0 Consensus size: 18
68886056 ATCAAAATTT
68886066 TTGTGTTTTCAAAAAAAA
1 TTGTGTTTTCAAAAAAAA
*
68886084 TTGTGTTTTAAAAATAAAA
1 TTGTGTTTTCAAAA-AAAA
68886103 TTCGTGTTTTCAAAAAAAA
1 TT-GTGTTTTCAAAAAAAA
68886122 ATTCTCGTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 13 0.38
19 10 0.29
20 11 0.32
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (18 bp):
TTGTGTTTTCAAAAAAAA
Found at i:68886109 original size:20 final size:19
Alignment explanation
Indices: 68886068--68886125 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 19
68886058 CAAAATTTTT
*
68886068 GTGTTTTCAAAAAAAATT-
1 GTGTTTTAAAAAAAAATTC
68886086 GTGTTTTAAAAATAAAATTC
1 GTGTTTTAAAAA-AAAATTC
68886106 GTGTTTTCAAAAAAAAATTC
1 GTGTTTT-AAAAAAAAATTC
68886126 TCGTGTTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 11 0.31
19 6 0.17
20 14 0.39
21 5 0.14
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (19 bp):
GTGTTTTAAAAAAAAATTC
Found at i:68886138 original size:18 final size:18
Alignment explanation
Indices: 68886117--68886240 Score: 57
Period size: 18 Copynumber: 7.1 Consensus size: 18
68886107 TGTTTTCAAA
68886117 AAAAAATTCTCGTGTTTC
1 AAAAAATTCTCGTGTTTC
** * *
68886135 AAAATTTTCT-GTTTTTTTA
1 AAAAAATTCTCG--TGTTTC
*
68886154 AAAAAAAT-TCGTGTTTC
1 AAAAAATTCTCGTGTTTC
* * * *
68886171 -TAAAATTCTTGTATTTT
1 AAAAAATTCTCGTGTTTC
*
68886188 AAAATATT-TCGTGTTTC
1 AAAAAATTCTCGTGTTTC
*
68886205 GAAAAAAGGT-T-GTGTTTC
1 -AAAAAA-TTCTCGTGTTTC
68886223 --AAAATTCTCGTGTTTC
1 AAAAAATTCTCGTGTTTC
68886239 AA
1 AA
68886241 TTGGATCACG
Statistics
Matches: 73, Mismatches: 22, Indels: 22
0.62 0.19 0.19
Matches are distributed among these distances:
14 1 0.01
15 5 0.07
16 12 0.16
17 17 0.23
18 26 0.36
19 12 0.16
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.45
Consensus pattern (18 bp):
AAAAAATTCTCGTGTTTC
Found at i:68886138 original size:20 final size:19
Alignment explanation
Indices: 68886014--68886138 Score: 74
Period size: 20 Copynumber: 5.9 Consensus size: 19
68886004 ATTGTTTCAT
68886014 AAATTTCCGTGTTTCAAAAA
1 AAATTT-CGTGTTTCAAAAA
*
68886034 AAATCCTCGTGTTTCATAATTTATCA
1 AAAT-TTCGTGTTTCA-AA---A--A
*
68886060 AAATTTTTGTGTTTTCAAAAA
1 AAA-TTTCGTG-TTTCAAAAA
*
68886081 AAA-TT-GTGTTTTAAAAA
1 AAATTTCGTGTTTCAAAAA
*
68886098 TAAAATTCGTGTTTTCAAAAAA
1 -AAATTTCGTG-TTTC-AAAAA
68886120 AAATTCTCGTGTTTCAAAA
1 AAATT-TCGTGTTTCAAAA
68886139 TTTTCTGTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 30
0.70 0.05 0.25
Matches are distributed among these distances:
17 8 0.10
18 6 0.07
19 4 0.05
20 20 0.24
21 18 0.21
22 10 0.12
23 1 0.01
24 1 0.01
26 10 0.12
27 6 0.07
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (19 bp):
AAATTTCGTGTTTCAAAAA
Found at i:68886148 original size:37 final size:37
Alignment explanation
Indices: 68886059--68886177 Score: 97
Period size: 38 Copynumber: 3.2 Consensus size: 37
68886049 ATAATTTATC
68886059 AAAATTTT-TGTGTTTTC-AAAAAAAATT-GTGTTT-T
1 AAAATTTTCTGT-TTTTCAAAAAAAAATTCGTGTTTCT
*
68886093 AAAAATAAAATTC-GTGTTTTCAAAAAAAAATTCTCGTGTTTC-
1 -AAAAT---TTTCTGT-TTTTCAAAAAAAAA-T-TCGTGTTTCT
**
68886135 AAAATTTTCTGTTTTTTTAAAAAAAATTCGTGTTTCT
1 AAAATTTTCTGTTTTTCAAAAAAAAATTCGTGTTTCT
68886172 AAAATT
1 AAAATT
68886178 CTTGTATTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
35 5 0.07
36 9 0.13
37 7 0.10
38 25 0.36
39 10 0.14
40 1 0.01
41 6 0.09
42 6 0.09
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.45
Consensus pattern (37 bp):
AAAATTTTCTGTTTTTCAAAAAAAAATTCGTGTTTCT
Found at i:68893861 original size:16 final size:18
Alignment explanation
Indices: 68893829--68893861 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68893819 GTTAATAAAG
68893829 TAAATTTAGTGTTAATTA
1 TAAATTTAGTGTTAATTA
68893847 TAAATTT-GT-TTAATT
1 TAAATTTAGTGTTAATT
68893862 TGTCAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (18 bp):
TAAATTTAGTGTTAATTA
Found at i:68898342 original size:14 final size:14
Alignment explanation
Indices: 68898323--68898363 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
68898313 TCCTTAGATT
68898323 AAATTATTAAATTA
1 AAATTATTAAATTA
68898337 AAATTATTAAA-T-
1 AAATTATTAAATTA
68898349 AAATTA--AAATTA
1 AAATTATTAAATTA
68898361 AAA
1 AAA
68898364 AATTTAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.12
11 1 0.04
12 9 0.36
13 1 0.04
14 11 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTATTAAATTA
Found at i:68898362 original size:15 final size:16
Alignment explanation
Indices: 68898342--68898378 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
68898332 AATTAAAATT
68898342 ATTAAATAAA-TTAA-A
1 ATTAAA-AAATTTAAGA
68898357 ATTAAAAAATTTAAGA
1 ATTAAAAAATTTAAGA
68898373 ATTAAA
1 ATTAAA
68898379 GGGGTCAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.15
15 10 0.50
16 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
ATTAAAAAATTTAAGA
Found at i:68898366 original size:18 final size:18
Alignment explanation
Indices: 68898330--68898366 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
68898320 ATTAAATTAT
**
68898330 TAAATTAAAATTATTAAA
1 TAAATTAAAATTAAAAAA
68898348 TAAATTAAAATTAAAAAA
1 TAAATTAAAATTAAAAAA
68898366 T
1 T
68898367 TTAAGAATTA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAATTAAAATTAAAAAA
Found at i:68908918 original size:21 final size:19
Alignment explanation
Indices: 68908888--68908940 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
68908878 TTGATATTTT
68908888 TATTTAAAAATATTAAAAA
1 TATTTAAAAATATTAAAAA
68908907 TATTATAGAAAATCA-TAAAAA
1 TATT-TA-AAAAT-ATTAAAAA
*
68908928 TGTTTAAAAATAT
1 TATTTAAAAATAT
68908941 AATGCGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 1 0.03
19 9 0.31
20 4 0.14
21 14 0.48
22 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
TATTTAAAAATATTAAAAA
Found at i:68908992 original size:37 final size:37
Alignment explanation
Indices: 68908947--68909053 Score: 114
Period size: 38 Copynumber: 2.9 Consensus size: 37
68908937 ATATAATGCG
*
68908947 TAAAAATTAAAAAATTATTATAAATGACAAAAAATTC
1 TAAAAATTAAAAAATTATTATAAATGACAAAAAATAC
* * *
68908984 TATAAATTATAAAATTTATTAAAAAATTG--AAAAAATAC
1 TAAAAATTA-AAAAATTATT-ATAAA-TGACAAAAAATAC
*
68909022 TAAAAATT-AAAAATT-TTATAAATTACAAAAAA
1 TAAAAATTAAAAAATTATTATAAATGACAAAAAA
68909054 AAATATGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
33 1 0.02
34 4 0.07
35 8 0.14
36 6 0.11
37 8 0.14
38 24 0.42
39 4 0.07
40 2 0.04
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (37 bp):
TAAAAATTAAAAAATTATTATAAATGACAAAAAATAC
Found at i:68908997 original size:19 final size:20
Alignment explanation
Indices: 68908954--68908997 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
68908944 GCGTAAAAAT
*
68908954 TAAAAAATTATTATAAATGA
1 TAAAAAATTACTATAAATGA
* *
68908974 CAAAAAATT-CTATAAATTA
1 TAAAAAATTACTATAAATGA
68908993 TAAAA
1 TAAAA
68908998 TTTATTAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (20 bp):
TAAAAAATTACTATAAATGA
Found at i:68909055 original size:37 final size:35
Alignment explanation
Indices: 68908947--68909053 Score: 99
Period size: 37 Copynumber: 2.9 Consensus size: 35
68908937 ATATAATGCG
* *
68908947 TAAAAATTAAAAAATTATTATAAATGACAAAAAATTC
1 TAAAAATT-AAAAATT-TTATAAATAACAAAAAATAC
* * *
68908984 TATAAATTATAAAA-TTTATTAAAAAATTGAAAAAATAC
1 TAAAAATTA-AAAATTTTA-TAAATAA--CAAAAAATAC
*
68909022 TAAAAATTAAAAATTTTATAAATTACAAAAAA
1 TAAAAATTAAAAATTTTATAAATAACAAAAAA
68909054 AAATATGAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
35 9 0.16
36 7 0.12
37 20 0.36
38 20 0.36
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (35 bp):
TAAAAATTAAAAATTTTATAAATAACAAAAAATAC
Found at i:68909128 original size:18 final size:18
Alignment explanation
Indices: 68909100--68909161 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
68909090 TGAAATTAAC
* *
68909100 AAAATATTATAAAACACAT
1 AAAA-ATTATAAAAAAAAT
68909119 AAAAATTATAAAAAAAAT
1 AAAAATTATAAAAAAAAT
68909137 -AAAATTATATGAAAAAAAT
1 AAAAATTATA--AAAAAAAT
68909156 ATAAAA
1 A-AAAA
68909162 CTAACCCTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
17 9 0.24
18 12 0.32
19 12 0.32
21 4 0.11
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAAATTATAAAAAAAAT
Found at i:68909129 original size:9 final size:9
Alignment explanation
Indices: 68908947--68909145 Score: 54
Period size: 9 Copynumber: 21.2 Consensus size: 9
68908937 ATATAATGCG
68908947 TAAAAATTA
1 TAAAAATTA
68908956 -AAAAATTA
1 TAAAAATTA
* *
68908964 TTATAAATGA
1 -TAAAAATTA
* *
68908974 CAAAAAATTC
1 -TAAAAATTA
*
68908984 TATAAATTA
1 TAAAAATTA
*
68908993 TAAAATTTA
1 TAAAAATTA
68909002 TTAAAAAATTGA
1 -T-AAAAATT-A
68909014 -AAAAA-TA
1 TAAAAATTA
68909021 CTAAAAA-T-
1 -TAAAAATTA
*
68909029 TAAAAATTT
1 TAAAAATTA
*
68909038 TATAAATTACAA
1 TAAAAATT---A
* *
68909050 AAAAAAATA
1 TAAAAATTA
* *
68909059 TGAAAATTG
1 TAAAAATTA
68909068 TAAAAATTA
1 TAAAAATTA
68909077 TTAAAAA-TA
1 -TAAAAATTA
68909086 TTAATGAAATTAA
1 -TAA--AAATT-A
*
68909099 CAAAATATTA
1 TAAAA-ATTA
*
68909109 TAAAACA-CA
1 TAAAA-ATTA
68909118 TAAAAATTA
1 TAAAAATTA
**
68909127 TAAAAAAAA
1 TAAAAATTA
68909136 T-AAAATTA
1 TAAAAATTA
68909144 TA
1 TA
68909146 TGAAAAAAAT
Statistics
Matches: 137, Mismatches: 33, Indels: 40
0.65 0.16 0.19
Matches are distributed among these distances:
7 7 0.05
8 17 0.12
9 65 0.47
10 26 0.19
11 12 0.09
12 9 0.07
13 1 0.01
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:68909454 original size:19 final size:19
Alignment explanation
Indices: 68909418--68909456 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
68909408 ACTTTTGTAA
*
68909418 TTTCCATTTTTATAATTTT
1 TTTCCATTTCTATAATTTT
68909437 TTTCACATTTCTAT-ATTTT
1 TTTC-CATTTCTATAATTTT
68909456 T
1 T
68909457 ATAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTCCATTTCTATAATTTT
Found at i:68909459 original size:28 final size:30
Alignment explanation
Indices: 68909423--68909486 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 30
68909413 TGTAATTTCC
* * *
68909423 ATTTTTATAATTTTTTTCA-CAT-TTCTAT
1 ATTTTTATAATATTTTTAATAATATTCTAT
68909451 ATTTTTATAATATTTTTAATAATATTCTAT
1 ATTTTTATAATATTTTTAATAATATTCTAT
68909481 ATTTTT
1 ATTTTT
68909487 TTAAATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 17 0.55
29 2 0.06
30 12 0.39
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (30 bp):
ATTTTTATAATATTTTTAATAATATTCTAT
Found at i:68909505 original size:21 final size:20
Alignment explanation
Indices: 68909458--68909505 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
68909448 TATATTTTTA
*
68909458 TAATATTTTTAATAATATTC
1 TAATTTTTTTAATAATATTC
68909478 TATATTTTTTTAA-ATATATTC
1 TA-ATTTTTTTAATA-ATATTC
68909499 TTAATTT
1 -TAATTT
68909506 ATAATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 3 0.12
21 19 0.79
22 2 0.08
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATTTTTTTAATAATATTC
Found at i:68909513 original size:25 final size:25
Alignment explanation
Indices: 68909485--68909533 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
68909475 TTCTATATTT
*
68909485 TTTTAAATATATTCTTAATTTATAA
1 TTTTAAATATATTCATAATTTATAA
* * *
68909510 TTTTTATTATGTTCATAATTTATA
1 TTTTAAATATATTCATAATTTATA
68909534 TAATTTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTTAAATATATTCATAATTTATAA
Found at i:68909579 original size:17 final size:16
Alignment explanation
Indices: 68909557--68909602 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
68909547 TTTTTAAATA
68909557 TTTTAA-TAATTTCTGAT
1 TTTTAATTAATTT-T-AT
68909574 TTTTAATTAATTTTAT
1 TTTTAATTAATTTTAT
68909590 TTTT-ATT-ATTTTA
1 TTTTAATTAATTTTA
68909603 ATAATTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.21
15 3 0.11
16 6 0.21
17 7 0.25
18 6 0.21
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTAATTAATTTTAT
Found at i:68910468 original size:15 final size:14
Alignment explanation
Indices: 68910438--68910480 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
68910428 TTTTTAAATA
*
68910438 TTAATTAATTAA--
1 TTAATTAAATAATT
68910450 TTAATTAAAATAATT
1 TTAATT-AAATAATT
68910465 TTAATTAAATAATT
1 TTAATTAAATAATT
68910479 TT
1 TT
68910481 TCTCAACTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 6 0.22
13 5 0.19
14 10 0.37
15 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTAATTAAATAATT
Found at i:68910481 original size:15 final size:15
Alignment explanation
Indices: 68910450--68910480 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
68910440 AATTAATTAA
68910450 TTAATTAAAATAATT
1 TTAATTAAAATAATT
68910465 TTAATT-AAATAATT
1 TTAATTAAAATAATT
68910479 TT
1 TT
68910481 TCTCAACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAATTAAAATAATT
Found at i:68913011 original size:17 final size:18
Alignment explanation
Indices: 68912986--68913019 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68912976 AAACATGCCA
68912986 AAAAAAAT-ATATTTTAT
1 AAAAAAATAATATTTTAT
*
68913003 AAAACAATAATATTTTA
1 AAAAAAATAATATTTTA
68913020 ATCTTTACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAAAATAATATTTTAT
Found at i:68927032 original size:3 final size:3
Alignment explanation
Indices: 68927024--68927056 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
68927014 AGTCACAATT
68927024 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
68927057 GGGGTAGACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:68930786 original size:13 final size:14
Alignment explanation
Indices: 68930770--68930798 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
68930760 TTTTGAACAA
68930770 TTTATTT-TTTATT
1 TTTATTTCTTTATT
68930783 TTTATTTCTTTATT
1 TTTATTTCTTTATT
68930797 TT
1 TT
68930799 CCTTTTCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTATTTCTTTATT
Found at i:68936170 original size:19 final size:18
Alignment explanation
Indices: 68936129--68936172 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
68936119 CGGTTAATTA
* *
68936129 ATTAA-TTTTAATTGATT
1 ATTAATTTTTAATTAATG
68936146 ATTAATTTTTAATTTAATG
1 ATTAATTTTTAA-TTAATG
68936165 ATTAATTT
1 ATTAATTT
68936173 ATATTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTAATTTTTAATTAATG
Found at i:68936804 original size:29 final size:30
Alignment explanation
Indices: 68936772--68936842 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
68936762 AAATAAAAAA
*
68936772 TTCATGTATAAAATTGCACA-AAATCAAAG
1 TTCATGTATAAAATTGCACATAAACCAAAG
* * *
68936801 TTCATATATATAATTGCACATTAAACCATAG
1 TTCATGTATAAAATTGCACA-TAAACCAAAG
68936832 TTCATGTATAA
1 TTCATGTATAA
68936843 TCTTGGGATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 18 0.53
31 16 0.47
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (30 bp):
TTCATGTATAAAATTGCACATAAACCAAAG
Found at i:68941266 original size:26 final size:28
Alignment explanation
Indices: 68941218--68941270 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
68941208 TTATTTAGTA
68941218 ATTTTTTATAATTTTTGAAAGATTAAATT
1 ATTTTTTATAATTTTTG-AAGATTAAATT
*
68941247 ATTTTTT-TTATTTTTG-AGATTAAA
1 ATTTTTTATAATTTTTGAAGATTAAA
68941271 ATATAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
28 8 0.35
29 7 0.30
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (28 bp):
ATTTTTTATAATTTTTGAAGATTAAATT
Found at i:68941279 original size:29 final size:29
Alignment explanation
Indices: 68941216--68941289 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 29
68941206 CATTATTTAG
*
68941216 TAATTTTTTATAATTTTTGAAAGATTAAAT
1 TAATTTTTTATTATTTTTG-AAGATTAAAT
68941246 T-ATTTTTT-TTATTTTTG-AGATTAAAAT
1 TAATTTTTTATTATTTTTGAAGATT-AAAT
68941273 ATAATTTTATTATTATT
1 -TAATTTT-TTATTATT
68941290 AATCTAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
26 5 0.13
27 4 0.11
28 9 0.24
29 12 0.32
30 3 0.08
31 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (29 bp):
TAATTTTTTATTATTTTTGAAGATTAAAT
Found at i:68941280 original size:26 final size:27
Alignment explanation
Indices: 68941228--68941280 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
68941218 ATTTTTTATA
* **
68941228 ATTTTTGAAAGATTAAATTATTTTTTTT
1 ATTTTTG-AAGATTAAAATATAATTTTT
68941256 ATTTTTG-AGATTAAAATATAATTTT
1 ATTTTTGAAGATTAAAATATAATTTT
68941281 ATTATTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 15 0.68
28 7 0.32
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (27 bp):
ATTTTTGAAGATTAAAATATAATTTTT
Found at i:68941280 original size:28 final size:27
Alignment explanation
Indices: 68941216--68941286 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 27
68941206 CATTATTTAG
68941216 TAATTTTTTATAATTTTTGAAAGATTAAAT
1 TAATTTTTT-T-ATTTTTG-AAGATTAAAT
*
68941246 TATTTTTTTTATTTTTG-AGATTAAAAT
1 TAATTTTTTTATTTTTGAAGATT-AAAT
*
68941273 ATAATTTTATTATT
1 -TAATTTTTTTATT
68941287 ATTAATCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 5 0.14
27 4 0.11
28 18 0.50
29 1 0.03
30 8 0.22
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (27 bp):
TAATTTTTTTATTTTTGAAGATTAAAT
Found at i:68943696 original size:48 final size:48
Alignment explanation
Indices: 68943625--68943720 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
68943615 AATTGGGAAA
68943625 GAATCGTCATTCTCTTGTGTGTCTAGGCTTATATAGTGGGTTATCCAC
1 GAATCGTCATTCTCTTGTGTGTCTAGGCTTATATAGTGGGTTATCCAC
68943673 GAATCGTCATTCTCTTGTGTGTCTAGGCTTATATAGTGGGTTATCCAC
1 GAATCGTCATTCTCTTGTGTGTCTAGGCTTATATAGTGGGTTATCCAC
68943721 TTATCATTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (48 bp):
GAATCGTCATTCTCTTGTGTGTCTAGGCTTATATAGTGGGTTATCCAC
Found at i:68944466 original size:30 final size:30
Alignment explanation
Indices: 68944432--68944490 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
68944422 TATAAAACTT
*
68944432 ATTTTCTTATTATTTTAAAGGCATTTGTTA
1 ATTTTCTTATTATTTTAAAGACATTTGTTA
* *
68944462 ATTTTTTTATTATTTTAGAGACATTTGTT
1 ATTTTCTTATTATTTTAAAGACATTTGTT
68944491 TGTTAAGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.05, G:0.10, T:0.59
Consensus pattern (30 bp):
ATTTTCTTATTATTTTAAAGACATTTGTTA
Found at i:68953021 original size:19 final size:19
Alignment explanation
Indices: 68952983--68953022 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
68952973 TCATTATAAT
* * *
68952983 ATCTTATTCGAGATAGCAA
1 ATCTTATTCCACATAACAA
68953002 ATCTTATTCCACATAACAA
1 ATCTTATTCCACATAACAA
68953021 AT
1 AT
68953023 TTTTCATGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (19 bp):
ATCTTATTCCACATAACAA
Found at i:68953838 original size:39 final size:39
Alignment explanation
Indices: 68953784--68953866 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
68953774 GAGATTGACG
* *
68953784 GGTGGACCGATGGTGACTACCTGACTGGTGAACAATGAT
1 GGTGGACCGATGGTGACTACCTGACTGATGAACAACGAT
* * *
68953823 GGTGGACCGGTGGTGACTGCCTGACTGATGAACGACGAT
1 GGTGGACCGATGGTGACTACCTGACTGATGAACAACGAT
68953862 GGTGG
1 GGTGG
68953867 TGGCTGGTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.22, C:0.18, G:0.39, T:0.22
Consensus pattern (39 bp):
GGTGGACCGATGGTGACTACCTGACTGATGAACAACGAT
Found at i:68954607 original size:29 final size:30
Alignment explanation
Indices: 68954551--68954618 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
68954541 AATTTGTGAG
* *
68954551 AATTAGATCAAATCATAATTTCATGTATAA
1 AATTATATAAAATCATAATTTCATGTATAA
*
68954581 AATTATATAAAATCA-AATTTTATGTATAA
1 AATTATATAAAATCATAATTTCATGTATAA
*
68954610 AATTGTATA
1 AATTATATA
68954619 TTTGAACAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (30 bp):
AATTATATAAAATCATAATTTCATGTATAA
Found at i:68959114 original size:19 final size:19
Alignment explanation
Indices: 68959092--68959128 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
68959082 GAGGATAGAT
* *
68959092 TTGAGAGAAAATAATAATA
1 TTGAAAGAAAAAAATAATA
68959111 TTGAAAGAAAAAAATAAT
1 TTGAAAGAAAAAAATAAT
68959129 TTTACTAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (19 bp):
TTGAAAGAAAAAAATAATA
Found at i:68965533 original size:9 final size:9
Alignment explanation
Indices: 68965521--68965648 Score: 53
Period size: 9 Copynumber: 13.4 Consensus size: 9
68965511 TTTTTATGCA
68965521 TTTTATAATT
1 TTTTATAA-T
*
68965531 TTTTATTAT
1 TTTTATAAT
*
68965540 TTTTATAAAA
1 TTTTAT-AAT
* * *
68965550 ATTCACAATT
1 TTTTATAA-T
*
68965560 TTTTTTATAT
1 TTTTATA-AT
* *
68965570 TTTCATGAT
1 TTTTATAAT
68965579 -TTTATAAT
1 TTTTATAAT
* *
68965587 TTTTTTTAT
1 TTTTATAAT
*
68965596 TTTTATTAAAA
1 TTTTA-T-AAT
*
68965607 TTTAATAAT
1 TTTTATAAT
68965616 TTTTATAAAT
1 TTTTAT-AAT
68965626 TTATTA-AATT
1 TT-TTATAA-T
68965636 TTTTATAAT
1 TTTTATAAT
68965645 TTTT
1 TTTT
68965649 TTGTTAAATG
Statistics
Matches: 84, Mismatches: 24, Indels: 21
0.65 0.19 0.16
Matches are distributed among these distances:
8 6 0.07
9 38 0.45
10 31 0.37
11 9 0.11
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:68965610 original size:28 final size:28
Alignment explanation
Indices: 68965522--68965650 Score: 102
Period size: 28 Copynumber: 4.5 Consensus size: 28
68965512 TTTTATGCAT
*
68965522 TTTATAATTTTTTATTATTTTTATAAAAA
1 TTTATAATTTTTT-TTATTTTTATTAAAA
* * * *
68965551 TTCACAATTTTTTTTATATTTTCA-T-GAT
1 TTTATAATTTTTTTTAT-TTTT-ATTAAAA
68965579 TTTATAATTTTTTTTATTTTTATTAAAA
1 TTTATAATTTTTTTTATTTTTATTAAAA
* ** *
68965607 TTTAATAA-TTTTTATAAATTTATTAAATTT
1 TTT-ATAATTTTTTTTATTTTTATTAAA--A
68965637 TTTATAATTTTTTT
1 TTTATAATTTTTTT
68965651 GTTAAATGTC
Statistics
Matches: 78, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
26 1 0.01
27 5 0.06
28 40 0.51
29 23 0.29
30 9 0.12
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTATAATTTTTTTTATTTTTATTAAAA
Found at i:68965617 original size:57 final size:57
Alignment explanation
Indices: 68965507--68965619 Score: 158
Period size: 57 Copynumber: 2.0 Consensus size: 57
68965497 TGGTTAAAAG
* *
68965507 TTATTTTTTATGCATTTTATAATTTTTTATTATTTTTATAAAAATTCACAATTTTTT
1 TTATTTTTCATGCATTTTATAATTTTTTATTATTTTTATAAAAATTAACAATTTTTT
* *
68965564 TTATATTTTCATG-ATTTTATAATTTTTT-TTATTTTTATTAAAATTTAATAATTTTT
1 TTAT-TTTTCATGCATTTTATAATTTTTTATTATTTTTA-TAAAAATTAACAATTTTT
68965620 ATAAATTTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
56 9 0.18
57 34 0.68
58 7 0.14
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (57 bp):
TTATTTTTCATGCATTTTATAATTTTTTATTATTTTTATAAAAATTAACAATTTTTT
Done.