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 243 of 250
Found at i:75266218 original size:32 final size:32
Alignment explanation
Indices: 75266156--75266218 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
75266146 TATTATATCT
* **
75266156 TTTAAATTTTTTAATTAAGCTCACTTAAAATA
1 TTTAAATTTTCTAATTAAGCTCACAAAAAATA
* *
75266188 TTTAAATTTTCTCATTAATCTCACAAAAAAT
1 TTTAAATTTTCTAATTAAGCTCACAAAAAAT
75266219 TTAATTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.41, C:0.13, G:0.02, T:0.44
Consensus pattern (32 bp):
TTTAAATTTTCTAATTAAGCTCACAAAAAATA
Found at i:75268160 original size:18 final size:18
Alignment explanation
Indices: 75268132--75268167 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
75268122 AAAAAGATAA
75268132 AAATATTAATATT-TTAT
1 AAATATTAATATTCTTAT
75268149 AAATATTTAATATTCTTAT
1 AAATA-TTAATATTCTTAT
75268168 TCATGAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 8 0.47
19 4 0.24
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
AAATATTAATATTCTTAT
Found at i:75268742 original size:24 final size:25
Alignment explanation
Indices: 75268695--75268742 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
75268685 ATCTTTTAAA
*
75268695 AAAAATTATTATAGATAAACTTTTT
1 AAAAATTATTATAGATAAAATTTTT
75268720 AAAAATATATTAT-GA-AAAATTTT
1 AAAAAT-TATTATAGATAAAATTTT
75268743 AATTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 8 0.38
26 6 0.29
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (25 bp):
AAAAATTATTATAGATAAAATTTTT
Found at i:75277391 original size:16 final size:18
Alignment explanation
Indices: 75277370--75277403 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
75277360 TTTTTTATTA
75277370 AATA-TTTATT-TATTTT
1 AATATTTTATTATATTTT
75277386 AATATTTTATTATATTTT
1 AATATTTTATTATATTTT
75277404 TATAAGACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 6 0.38
18 6 0.38
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
AATATTTTATTATATTTT
Found at i:75278117 original size:22 final size:21
Alignment explanation
Indices: 75278092--75278146 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
75278082 TTTAAATACT
*
75278092 ATAAATTACACCATATATAAAA
1 ATAAATTACACAATAT-TAAAA
75278114 ATAAAATGTA-ACAATATTAAAA
1 AT-AAAT-TACACAATATTAAAA
*
75278136 ATAAGTTACAC
1 ATAAATTACAC
75278147 TTAGTTGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 2 0.07
21 5 0.18
22 9 0.32
23 10 0.36
24 2 0.07
ACGTcount: A:0.58, C:0.11, G:0.04, T:0.27
Consensus pattern (21 bp):
ATAAATTACACAATATTAAAA
Found at i:75278241 original size:19 final size:20
Alignment explanation
Indices: 75278209--75278246 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
75278199 AATCAACTTA
*
75278209 ATTTTTTTTATCT-ATATTC
1 ATTTTTTATATCTAATATTC
*
75278228 ATTTTTTATGTCTAATATT
1 ATTTTTTATATCTAATATT
75278247 TTTATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (20 bp):
ATTTTTTATATCTAATATTC
Found at i:75293995 original size:7 final size:7
Alignment explanation
Indices: 75293938--75293976 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
75293928 ATCTCCAGTA
75293938 AAAAATT
1 AAAAATT
75293945 AAAAATT
1 AAAAATT
75293952 AAAAATT
1 AAAAATT
75293959 AAAAATT
1 AAAAATT
75293966 AAAAA-T
1 AAAAATT
75293972 AAAAA
1 AAAAA
75293977 CTACTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:75294014 original size:26 final size:23
Alignment explanation
Indices: 75293936--75294022 Score: 79
Period size: 26 Copynumber: 3.6 Consensus size: 23
75293926 ACATCTCCAG
75293936 TAAAAAATTAAAAATTAAAA-AT
1 TAAAAAATTAAAAATTAAAATAT
*
75293958 T-AAAAATTAAAAATAAAAACTACTT
1 TAAAAAATTAAAAATTAAAA-TA--T
*
75293983 TTAAAAATTAAAACCATTAAAATTAT
1 TAAAAAATTAAAA--ATTAAAA-TAT
75294009 TAAAAAATATAAAA
1 TAAAAAAT-TAAAA
75294023 GTATATATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
21 17 0.32
22 1 0.02
23 1 0.02
25 2 0.04
26 19 0.36
27 5 0.09
28 8 0.15
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAAAATTAAAAATTAAAATAT
Found at i:75301676 original size:143 final size:146
Alignment explanation
Indices: 75301505--75301799 Score: 506
Period size: 144 Copynumber: 2.0 Consensus size: 146
75301495 ATAAAAATAA
*
75301505 TTAATCATTAGACATTTTAACTATTTATATCTGCTTTTACAGATTTCTGACGAA-TTTTTTTTCT
1 TTAATCATTAGACATTTTAACTATTTATATATGCTTTTACAGATTTCTGACGAATTTTTTTTTCT
75301569 AGTATAATAAGAAAACCTCGCTGATGATTCTTTTGGTATAATGATAA-TTTTTTA-TTTTTAAAT
66 AGTATAATAAGAAAACCTCGCTGATGATTCTTTTGGTATAATGATAATTTTTTTATTTTTTAAAT
*
75301632 ACGAACCTGTATAAAT
131 ACAAACCTGTATAAAT
* *
75301648 TTAATCATTAGACATTTTAACTATTTATATATGCTTTTACATATTTCTTACGAATTTTTTTTTCT
1 TTAATCATTAGACATTTTAACTATTTATATATGCTTTTACAGATTTCTGACGAATTTTTTTTTCT
*
75301713 AGTATAATAAGAAAACCTTGCTGATGATTCTTTTGGTATAATGATAATTTTTTTTATTTTTTAAA
66 AGTATAATAAGAAAACCTCGCTGATGATTCTTTTGGTATAATGATAA-TTTTTTTATTTTTTAAA
*
75301778 TACAAATCTGTATAAAT
130 TACAAACCTGTATAAAT
75301795 TTAAT
1 TTAAT
75301800 ATATTTTTAT
Statistics
Matches: 142, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
143 51 0.36
144 56 0.39
146 7 0.05
147 28 0.20
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.48
Consensus pattern (146 bp):
TTAATCATTAGACATTTTAACTATTTATATATGCTTTTACAGATTTCTGACGAATTTTTTTTTCT
AGTATAATAAGAAAACCTCGCTGATGATTCTTTTGGTATAATGATAATTTTTTTATTTTTTAAAT
ACAAACCTGTATAAAT
Found at i:75309864 original size:70 final size:70
Alignment explanation
Indices: 75309781--75309922 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
75309771 ATTCCATTTA
75309781 TAATACTTGAATTTATTAGTTTAAAATTTTGAAATAAAAAAGAAAATAAAGAGTTGTAAGTTGTG
1 TAATACTTGAATTTATTAGTTTAAAATTTTGAAATAAAAAAGAAAATAAAGAGTTGTAAGTTGTG
75309846 ATGAT
66 ATGAT
*
75309851 TAATACTTGAATTTATTAGTTTAAAATTTTGAAATAAAAAGGAAAATAAAGAGTTGTAAGTTGTG
1 TAATACTTGAATTTATTAGTTTAAAATTTTGAAATAAAAAAGAAAATAAAGAGTTGTAAGTTGTG
75309916 ATGAT
66 ATGAT
75309921 TA
1 TA
75309923 TAACTGTAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.45, C:0.01, G:0.16, T:0.37
Consensus pattern (70 bp):
TAATACTTGAATTTATTAGTTTAAAATTTTGAAATAAAAAAGAAAATAAAGAGTTGTAAGTTGTG
ATGAT
Found at i:75310108 original size:22 final size:20
Alignment explanation
Indices: 75310070--75310114 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
75310060 AAATTCTGAA
* *
75310070 TATTTTATTTTAAATAATAT
1 TATTTTATATTAAATAAAAT
75310090 TATTTTATATTAATTATAAAAT
1 TATTTTATATTAA--ATAAAAT
75310112 TAT
1 TAT
75310115 ATTTTATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
22 9 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTTATATTAAATAAAAT
Found at i:75310456 original size:28 final size:28
Alignment explanation
Indices: 75310420--75310480 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
75310410 AAATATATTC
75310420 AAATAATATAAT-TTATTTTAATTATAAA
1 AAATAATAT-ATCTTATTTTAATTATAAA
*
75310448 AAATTATATATCTTATTTTAATTATAAA
1 AAATAATATATCTTATTTTAATTATAAA
75310476 AAATA
1 AAATA
75310481 TTTTTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.07
28 28 0.93
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
AAATAATATATCTTATTTTAATTATAAA
Found at i:75318747 original size:21 final size:21
Alignment explanation
Indices: 75318709--75318748 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
75318699 TTTAATGGTG
*
75318709 TTAACAATTTAAACATAAATT
1 TTAACAATTTAAAAATAAATT
75318730 TTAA-AATTTAAAGAATAAA
1 TTAACAATTTAAA-AATAAA
75318749 GAAGCTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (21 bp):
TTAACAATTTAAAAATAAATT
Found at i:75319528 original size:20 final size:20
Alignment explanation
Indices: 75319496--75319533 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
75319486 TTGCATTATT
75319496 ATTATTTTATAACACAAACA
1 ATTATTTTATAACACAAACA
*
75319516 ATTAGTTTT-TAACTCAAA
1 ATTA-TTTTATAACACAAA
75319534 ACATTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTATTTTATAACACAAACA
Found at i:75326645 original size:23 final size:22
Alignment explanation
Indices: 75326616--75326658 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
75326606 CATTTCAAAA
*
75326616 TATAATTTTATCATTTATTAATT
1 TATAATTTCATCATTT-TTAATT
75326639 TATAATTTCATCATTTTTAA
1 TATAATTTCATCATTTTTAA
75326659 GGGATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (22 bp):
TATAATTTCATCATTTTTAATT
Found at i:75327572 original size:31 final size:29
Alignment explanation
Indices: 75327513--75327583 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 29
75327503 AAATGTTGGG
** *
75327513 CCCTTATTTGACAATTTTAAAAGTTTTAA
1 CCCTTATTTGACAATTCAAAAAGATTTAA
75327542 CCCTTATTTGAGCAACTTCAAAAAGATTTAA
1 CCCTTATTTGA-CAA-TTCAAAAAGATTTAA
* *
75327573 ACTTTATTTGA
1 CCCTTATTTGA
75327584 TATTTTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 11 0.31
30 3 0.09
31 21 0.60
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.41
Consensus pattern (29 bp):
CCCTTATTTGACAATTCAAAAAGATTTAA
Found at i:75332520 original size:17 final size:17
Alignment explanation
Indices: 75332498--75332531 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
75332488 ATCCACTAAT
*
75332498 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
75332515 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
75332532 AATCCACTAC
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:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:75337159 original size:17 final size:17
Alignment explanation
Indices: 75337137--75337170 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
75337127 ATCCACTAAT
*
75337137 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
*
75337154 CCACTATCAACAACAAC
1 CCACTACCAACAACAAC
75337171 AATCCACTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.47, G:0.00, T:0.09
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:75339661 original size:20 final size:20
Alignment explanation
Indices: 75339624--75339660 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
75339614 CAGTTTTTTC
75339624 ATTTTAATTTTAGGTTTTGA
1 ATTTTAATTTTAGGTTTTGA
*
75339644 ATTTT-ATTTTATGTTTT
1 ATTTTAATTTTAGGTTTT
75339661 TCTTAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.68
Consensus pattern (20 bp):
ATTTTAATTTTAGGTTTTGA
Found at i:75346682 original size:9 final size:9
Alignment explanation
Indices: 75346670--75346694 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
75346660 TGGTGGTGTA
75346670 GGTGATGGT
1 GGTGATGGT
75346679 GGTGATGGT
1 GGTGATGGT
75346688 GGTGATG
1 GGTGATG
75346695 AATCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.56, T:0.32
Consensus pattern (9 bp):
GGTGATGGT
Found at i:75347385 original size:18 final size:21
Alignment explanation
Indices: 75347362--75347417 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 21
75347352 TTTATATTTT
75347362 AATTATTTAA-T-TTTAAAA-
1 AATTATTTAATTATTTAAAAG
*
75347380 AATTATTAAATTATTTAAAAG
1 AATTATTTAATTATTTAAAAG
75347401 AATTTATTTAAGTTATT
1 AA-TTATTTAA-TTATT
75347418 GAATTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 9 0.29
19 1 0.03
20 7 0.23
21 2 0.06
22 7 0.23
23 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
AATTATTTAATTATTTAAAAG
Found at i:75347417 original size:31 final size:31
Alignment explanation
Indices: 75347382--75347444 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
75347372 TTTTAAAAAA
75347382 TTATTAAATTATTTAAAAGAATTTATTTAAG
1 TTATTAAATTATTTAAAAGAATTTATTTAAG
* ***
75347413 TTATTGAATTATTTAAAATTTTTTATTTAAG
1 TTATTAAATTATTTAAAAGAATTTATTTAAG
75347444 T
1 T
75347445 CGTTGAGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (31 bp):
TTATTAAATTATTTAAAAGAATTTATTTAAG
Found at i:75352135 original size:19 final size:18
Alignment explanation
Indices: 75352101--75352138 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
75352091 AACACTTGTC
75352101 TTTTTAATTTTATAATTA
1 TTTTTAATTTTATAATTA
75352119 TTTTTACATCTTT-TAATTA
1 TTTTTA-AT-TTTATAATTA
75352138 T
1 T
75352139 AAATTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 9 0.50
20 3 0.17
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTAATTTTATAATTA
Found at i:75357433 original size:21 final size:22
Alignment explanation
Indices: 75357409--75357458 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
75357399 AAAGATGTAA
**
75357409 TAATAAATTTAAATT-TTATAT
1 TAATAAATAAAAATTATTATAT
75357430 TAATATAAATAAAAATTATTATAT
1 T-A-ATAAATAAAAATTATTATAT
75357454 TAATA
1 TAATA
75357459 TTAGATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 4 0.17
23 12 0.50
24 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAATAAATAAAAATTATTATAT
Found at i:75357433 original size:24 final size:25
Alignment explanation
Indices: 75357406--75357458 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
75357396 TCAAAAGATG
**
75357406 TAATAATAAATTTAAATT-TTATAT
1 TAATAATAAATAAAAATTATTATAT
75357430 TAAT-ATAAATAAAAATTATTATAT
1 TAATAATAAATAAAAATTATTATAT
75357454 TAATA
1 TAATA
75357459 TTAGATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TAATAATAAATAAAAATTATTATAT
Found at i:75364308 original size:18 final size:18
Alignment explanation
Indices: 75364287--75364321 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
75364277 AAATTGTTTG
75364287 TAATATAAAAAATATTAT
1 TAATATAAAAAATATTAT
**
75364305 TAATATATTAAATATTA
1 TAATATAAAAAATATTA
75364322 ATTTTTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATATAAAAAATATTAT
Found at i:75367184 original size:20 final size:21
Alignment explanation
Indices: 75367146--75367185 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
75367136 TTGTATTTTA
*
75367146 TTCTTCAACTTTTTCCTTTCT
1 TTCTTCAACATTTTCCTTTCT
*
75367167 TTCTTC-ACATTTTGCTTTC
1 TTCTTCAACATTTTCCTTTC
75367186 CTGTTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.10, C:0.28, G:0.03, T:0.60
Consensus pattern (21 bp):
TTCTTCAACATTTTCCTTTCT
Found at i:75373965 original size:22 final size:23
Alignment explanation
Indices: 75373930--75373981 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
75373920 ATAATTATAG
*
75373930 ATTTATTGTTTAAATTTCTATTAT
1 ATTT-TTGTTTAAATTTCTAATAT
*
75373954 ATTTTTG-TTAAATTTTTAATAT
1 ATTTTTGTTTAAATTTCTAATAT
75373976 -TTTTTG
1 ATTTTTG
75373982 ATTATTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 6 0.23
22 13 0.50
23 3 0.12
24 4 0.15
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (23 bp):
ATTTTTGTTTAAATTTCTAATAT
Found at i:75375237 original size:16 final size:16
Alignment explanation
Indices: 75375216--75375246 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75375206 GTTGAGAATT
75375216 AATTTAGTTTAAATAC
1 AATTTAGTTTAAATAC
*
75375232 AATTTATTTTAAATA
1 AATTTAGTTTAAATA
75375247 GAAAAGTCGA
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:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (16 bp):
AATTTAGTTTAAATAC
Found at i:75378641 original size:39 final size:38
Alignment explanation
Indices: 75378593--75378668 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
75378583 TACCGGATAC
*
75378593 CAACTTTACTTCG-GCTAGGCCGATGAGACACTGGGTGT
1 CAACTTTACTTCGAACTA-GCCGATGAGACACTGGGTGT
* *
75378631 CAACTATTACTTCGAACTATCCGATGAGGCACTGGGTG
1 CAACT-TTACTTCGAACTAGCCGATGAGACACTGGGTG
75378669 CCATATTGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 5 0.15
39 25 0.76
40 3 0.09
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (38 bp):
CAACTTTACTTCGAACTAGCCGATGAGACACTGGGTGT
Found at i:75379883 original size:3 final size:3
Alignment explanation
Indices: 75379860--75380000 Score: 55
Period size: 3 Copynumber: 48.3 Consensus size: 3
75379850 GGGGAGAGTG
* * *
75379860 TTA TTT TTA ATA TTG TTA TTA TTA -TA TTTA TTA -TA TTA -TA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA -TTA
* * * **
75379904 TT- TTA TTA CTG TTA CTA TTA TT- TTA -TA TATA TTTA TTA CCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA
* * ** * * *
75379948 TT- TTT TTA TTA TTA TTA ATA ACA -TA TTG TTA TTT TTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
75379994 TTA TTA T
1 TTA TTA T
75380001 CATGGTGCTA
Statistics
Matches: 100, Mismatches: 26, Indels: 24
0.67 0.17 0.16
Matches are distributed among these distances:
2 15 0.15
3 76 0.76
4 8 0.08
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:75379896 original size:14 final size:14
Alignment explanation
Indices: 75379879--75379911 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
75379869 ATATTGTTAT
75379879 TATTATATTTATTA
1 TATTATATTTATTA
*
75379893 TATTATATTTATTT
1 TATTATATTTATTA
75379907 TATTA
1 TATTA
75379912 CTGTTACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTATATTTATTA
Found at i:75379917 original size:40 final size:39
Alignment explanation
Indices: 75379864--75379940 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
75379854 AGAGTGTTAT
* *
75379864 TTTTAATATTGTTATTATTATATTTAT-TATATTATATTTA
1 TTTTAATACTGTTACTATTAT-TTTATATATATT-TATTTA
*
75379904 TTTTATTACTGTTACTATTATTTTATATATATTTATT
1 TTTTAATACTGTTACTATTATTTTATATATATTTATT
75379941 ACCATTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 9 0.27
40 24 0.73
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (39 bp):
TTTTAATACTGTTACTATTATTTTATATATATTTATTTA
Found at i:75379960 original size:24 final size:23
Alignment explanation
Indices: 75379898--75379964 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
75379888 TATTATATTA
* * *
75379898 TATTTATTTTATTACTGTTACTAT
1 TATTT-TTTTATTATTATTACCAT
*
75379922 TA-TTTTATATATATTTATTACCAT
1 TATTTTTTTAT-TA-TTATTACCAT
75379946 TATTTTTTTATTATTATTA
1 TATTTTTTTATTATTATTA
75379965 ATAACATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 5 0.14
23 10 0.29
24 13 0.37
25 7 0.20
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.64
Consensus pattern (23 bp):
TATTTTTTTATTATTATTACCAT
Found at i:75399167 original size:25 final size:27
Alignment explanation
Indices: 75399139--75399199 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 27
75399129 AACTACGTTA
75399139 AAAGAAATGAAG-AAGAG-A-GGAAAAT
1 AAAGAAA-GAAGAAAGAGAATGGAAAAT
*
75399164 AAAGGAAGAAGCAAAAGAGAATGGAAAAT
1 AAAGAAAGAAG--AAAGAGAATGGAAAAT
75399193 AAAGAAA
1 AAAGAAA
75399200 AAATAAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 4 0.14
25 6 0.21
27 5 0.17
28 1 0.03
29 13 0.45
ACGTcount: A:0.66, C:0.02, G:0.26, T:0.07
Consensus pattern (27 bp):
AAAGAAAGAAGAAAGAGAATGGAAAAT
Found at i:75405489 original size:24 final size:24
Alignment explanation
Indices: 75405453--75405503 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
75405443 AACGAAGGAT
*
75405453 GGACCTTTCGGTGATGGAATATCA
1 GGACCTTTAGGTGATGGAATATCA
* *
75405477 GGACTTTTAGGTGGTGGAATATCA
1 GGACCTTTAGGTGATGGAATATCA
75405501 GGA
1 GGA
75405504 GGGATGCTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.33, T:0.29
Consensus pattern (24 bp):
GGACCTTTAGGTGATGGAATATCA
Found at i:75407668 original size:27 final size:28
Alignment explanation
Indices: 75407621--75407673 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
75407611 AAATAATCAC
* *
75407621 AATTTCATTATTTATTAATTTGAATTTG
1 AATTTCATTATTTAATAATTTCAATTTG
75407649 AATTT-ATTATTATAAT-ATTTCAATT
1 AATTTCATTATT-TAATAATTTCAATT
75407674 ATAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (28 bp):
AATTTCATTATTTAATAATTTCAATTTG
Found at i:75410142 original size:20 final size:20
Alignment explanation
Indices: 75410101--75410143 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
75410091 ATTTTTGGCC
* *
75410101 AAAAATCTATTTTATTATTT
1 AAAAATATATTTTATTAATT
75410121 AAAAATATA-TTTATATAATT
1 AAAAATATATTTTAT-TAATT
75410141 AAA
1 AAA
75410144 TTTTAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAAATATATTTTATTAATT
Found at i:75411416 original size:21 final size:21
Alignment explanation
Indices: 75411392--75411431 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
75411382 GTTTTAGCTG
75411392 CTGAAAT-GTTGGTTTTTTTGT
1 CTGAAATAGTT-GTTTTTTTGT
*
75411413 CTGATATAGTTGTTTTTTT
1 CTGAAATAGTTGTTTTTTT
75411432 ATTGTATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.15, C:0.05, G:0.20, T:0.60
Consensus pattern (21 bp):
CTGAAATAGTTGTTTTTTTGT
Found at i:75412766 original size:172 final size:172
Alignment explanation
Indices: 75412480--75412807 Score: 647
Period size: 172 Copynumber: 1.9 Consensus size: 172
75412470 GGGTAAAATA
75412480 CATAGAAAGTTATTCTCCATTATCCTCTTTTATATCCCTTACATGGAGGTTCCTTGTTTGCATAT
1 CATAGAAAGTTATTCTCCATTATCCTCTTTTATATCCCTTACATGGAGGTTCCTTGTTTGCATAT
75412545 CTTTCCTACTGATGTCCATATGCCTCAATTGTTGGGACATTTTTGTAAAGTTTATTTCATTAAAC
66 CTTTCCTACTGATGTCCATATGCCTCAATTGTTGGGACATTTTTGTAAAGTTTATTTCATTAAAC
75412610 CCGAGATTTATTGGATTACGTTAATTTTTGTAAAGTTTATGT
131 CCGAGATTTATTGGATTACGTTAATTTTTGTAAAGTTTATGT
75412652 CATAGAAAGTTATTCTCCATTATCCTCTTTTATATCCCTTACATGGAGGTTCCTTGTTTGCATAT
1 CATAGAAAGTTATTCTCCATTATCCTCTTTTATATCCCTTACATGGAGGTTCCTTGTTTGCATAT
*
75412717 CTTTCCTACTGATGTCCATATGCCTCTATTGTTGGGACATTTTTGTAAAGTTTATTTCATTAAAC
66 CTTTCCTACTGATGTCCATATGCCTCAATTGTTGGGACATTTTTGTAAAGTTTATTTCATTAAAC
75412782 CCGAGATTTATTGGATTACGTTAATT
131 CCGAGATTTATTGGATTACGTTAATT
75412808 GTTTCTTTTA
Statistics
Matches: 155, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 155 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (172 bp):
CATAGAAAGTTATTCTCCATTATCCTCTTTTATATCCCTTACATGGAGGTTCCTTGTTTGCATAT
CTTTCCTACTGATGTCCATATGCCTCAATTGTTGGGACATTTTTGTAAAGTTTATTTCATTAAAC
CCGAGATTTATTGGATTACGTTAATTTTTGTAAAGTTTATGT
Found at i:75416209 original size:216 final size:208
Alignment explanation
Indices: 75415816--75416212 Score: 460
Period size: 216 Copynumber: 1.9 Consensus size: 208
75415806 GCATTGAGAT
* * *
75415816 TTTAGGGGGATTTGGATAGGAGGTTGTCATTGGTGATGTTTAATATGAATTTAATGGTTTTTGTA
1 TTTAGGGGGATTTGGATAGGAGGTTGTCATTGATGAAGTTTAATATGAATTTAATGCTTTTTGTA
** * * * *
75415881 TTGGAGTTCCAAAAATGAATTATCAACAGGTGATCAGAGACAGTGGCAGTGGACATCTCCCTAGG
66 TTGGAGTTCCAAAAACAAATTACCAACAGGTGATCAAAGACAGTGGCAGCGGACATCTCCCCAGG
* ** * **
75415946 CATTTGGACTGAATTTGAATCTTGGAGTCATCACTATTGGGAGGGCTTTACCTGAATACCACTCT
131 CATTTAGACTGAATTCAAATCTTAGAGTCATCACTATTGAAAGGGCTTTACCTGAATACCACTCT
75416011 GGCCTGAACAAGA
196 GGCCTGAACAAGA
* *
75416024 TTTAGGGGGATTTGGATATGAGGGGTTGTCATTGATGAAGTTTATATTTGAATTTAATGCTTTTT
1 TTTAGGGGGATTTGGATA-G-GAGGTTGTCATTGATGAAGTTTA-ATATGAATTTAATGCTTTTT
* * *
75416089 GTATTGGTGAAGTT-CAAAAGACAAATTACCAATAGGTGATCAAAAGA-AGTGGC-GCGGTTCTT
63 GTATT-G-G-AGTTCCAAAA-ACAAATTACCAACAGGTGATC-AAAGACAGTGGCAGCGG-ACAT
* *
75416151 CTTCCCCCGGGCATTTAGA-TTAAGTTCAAATCTTAGAGTCATCACTATTGAAAGGGCTTTAC
122 C-T-CCCCAGGCATTTAGACTGAA-TTCAAATCTTAGAGTCATCACTATTGAAAGGGCTTTAC
75416213 TAAATACTAC
Statistics
Matches: 155, Mismatches: 22, Indels: 16
0.80 0.11 0.08
Matches are distributed among these distances:
208 18 0.12
209 1 0.01
210 20 0.13
211 23 0.15
212 1 0.01
213 9 0.06
214 30 0.19
215 8 0.05
216 45 0.29
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (208 bp):
TTTAGGGGGATTTGGATAGGAGGTTGTCATTGATGAAGTTTAATATGAATTTAATGCTTTTTGTA
TTGGAGTTCCAAAAACAAATTACCAACAGGTGATCAAAGACAGTGGCAGCGGACATCTCCCCAGG
CATTTAGACTGAATTCAAATCTTAGAGTCATCACTATTGAAAGGGCTTTACCTGAATACCACTCT
GGCCTGAACAAGA
Found at i:75418033 original size:13 final size:14
Alignment explanation
Indices: 75418015--75418044 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
75418005 TTAAATTGTT
75418015 AAAAAGAAA-AAAA
1 AAAAAGAAAGAAAA
75418028 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
75418042 AAA
1 AAA
75418045 TGCATTCTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAAAA
Found at i:75418381 original size:13 final size:12
Alignment explanation
Indices: 75418356--75418403 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
75418346 TAAGTATTAA
*
75418356 TATATAATATAT
1 TATATTATATAT
75418368 TATATTATTATAT
1 TATATTA-TATAT
75418381 TATATTATATAT
1 TATATTATATAT
* *
75418393 AATATAATATA
1 TATATTATATA
75418404 AAAACATAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
12 20 0.62
13 12 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATTATATAT
Found at i:75418386 original size:10 final size:9
Alignment explanation
Indices: 75418350--75418402 Score: 53
Period size: 8 Copynumber: 6.3 Consensus size: 9
75418340 AATATTTAAG
75418350 TATTA-ATA
1 TATTATATA
75418358 TA-TA-ATA
1 TATTATATA
75418365 TATTATAT-
1 TATTATATA
75418373 TATTATATTA
1 TATTATA-TA
75418383 TATTATATA
1 TATTATATA
*
75418392 TAATATA-A
1 TATTATATA
75418400 TAT
1 TAT
75418403 AAAAACATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
7 7 0.18
8 14 0.36
9 11 0.28
10 7 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TATTATATA
Found at i:75419605 original size:22 final size:22
Alignment explanation
Indices: 75419566--75419629 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
75419556 GTACTATTAT
* *
75419566 TAGCACGTTAAGTGCTCTCTGTT
1 TAGCAC-TTTAGTGCTCTCTGTA
75419589 TAGCACATTT-GTGCTCTCTGTA
1 TAGCAC-TTTAGTGCTCTCTGTA
75419611 TAGCACTTTAGTGCTCTCT
1 TAGCACTTTAGTGCTCTCT
75419630 ATTCGTTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.08
22 26 0.70
23 8 0.22
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (22 bp):
TAGCACTTTAGTGCTCTCTGTA
Found at i:75422520 original size:47 final size:47
Alignment explanation
Indices: 75422451--75422619 Score: 240
Period size: 47 Copynumber: 3.6 Consensus size: 47
75422441 GATGCGAATG
75422451 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * *
75422498 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
75422544 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
75422591 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
75422620 ACTTATGGAT
Statistics
Matches: 107, Mismatches: 6, Indels: 18
0.82 0.05 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 29 0.27
47 58 0.54
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:75422561 original size:93 final size:93
Alignment explanation
Indices: 75422402--75422666 Score: 476
Period size: 93 Copynumber: 2.8 Consensus size: 93
75422392 GGATGGTTGA
* *
75422402 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATTGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
75422467 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
75422495 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
75422560 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
75422588 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
75422653 TGAGCCCGAGTTCG
66 TGAGTCCGAGTTCG
75422667 CTTATGGGCG
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 166 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:75422673 original size:46 final size:46
Alignment explanation
Indices: 75422409--75422673 Score: 276
Period size: 46 Copynumber: 5.7 Consensus size: 46
75422399 TGAGCATCCA
* * *
75422409 AACTCGTTGAGTTGAGTCCGAGTTCACTTATTGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCG
* *
75422455 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--GC--CCG
* *
75422502 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCG
* *
75422548 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--GC--CCG
75422595 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCG
* * *
75422641 AGCTCGTTGAGTTGAGCCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
75422674 GCGGGTTACA
Statistics
Matches: 184, Mismatches: 17, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 86 0.47
47 56 0.30
48 7 0.04
50 11 0.06
51 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCG
Found at i:75426922 original size:53 final size:53
Alignment explanation
Indices: 75426850--75426991 Score: 214
Period size: 53 Copynumber: 2.7 Consensus size: 53
75426840 TTTACATATC
* *
75426850 ATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTATCACATT
1 ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTATCACATT
*
75426903 ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATT
1 ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATT
** *
75426956 GCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 ATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
75426992 GCGCACTTAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
52 1 0.01
53 81 0.99
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (53 bp):
ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATT
Found at i:75430143 original size:18 final size:18
Alignment explanation
Indices: 75430120--75430156 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
75430110 GAATTAATTT
75430120 TTAAAAATTTTAATTTAA
1 TTAAAAATTTTAATTTAA
75430138 TTAAAAATTTTAATTTAA
1 TTAAAAATTTTAATTTAA
75430156 T
1 T
75430157 CGATTCAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAAAATTTTAATTTAA
Found at i:75430645 original size:29 final size:31
Alignment explanation
Indices: 75430586--75430646 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 31
75430576 TTTTGGACTG
* *
75430586 AAATATTTAAATAAAAAAAACTTAATTTTAA
1 AAATATTTAAATAAAAAAAACTAAATATTAA
* *
75430617 AAAT-TTTAAATACATAAAA-TAAATATTAA
1 AAATATTTAAATAAAAAAAACTAAATATTAA
75430646 A
1 A
75430647 TTTTATCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 9 0.35
30 13 0.50
31 4 0.15
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (31 bp):
AAATATTTAAATAAAAAAAACTAAATATTAA
Found at i:75439525 original size:12 final size:13
Alignment explanation
Indices: 75439503--75439567 Score: 56
Period size: 11 Copynumber: 5.6 Consensus size: 13
75439493 AATTTATAAA
75439503 ATTATAAATATAT
1 ATTATAAATATAT
75439516 A-T-TAAA-ATAT
1 ATTATAAATATAT
*
75439526 ATTATACA-A-AT
1 ATTATAAATATAT
75439537 -TTATAAATA-A-
1 ATTATAAATATAT
*
75439547 ATTAAAAATATAT
1 ATTATAAATATAT
75439560 ATTATAAA
1 ATTATAAA
75439568 AAATATATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
10 11 0.26
11 17 0.40
12 6 0.14
13 8 0.19
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTATAAATATAT
Found at i:75439531 original size:31 final size:32
Alignment explanation
Indices: 75439496--75439568 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 32
75439486 CCTTAGAAAT
75439496 TTATAAAA-TTATAAATATATATT-AAA-ATATA
1 TTATAAAATTTATAAATA-A-ATTAAAATATATA
75439527 TTATACAAATTTATAAATAAATTAAAAATATATA
1 TTATA-AAATTTATAAATAAATT-AAAATATATA
75439561 TTATAAAA
1 TTATAAAA
75439569 AATATATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
31 8 0.22
32 4 0.11
33 15 0.41
34 10 0.27
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (32 bp):
TTATAAAATTTATAAATAAATTAAAATATATA
Found at i:75439560 original size:19 final size:20
Alignment explanation
Indices: 75439501--75439560 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
75439491 GAAATTTATA
75439501 AAATTATAAATATATATTAAAAT
1 AAATTATAAA-ATATA-T-AAAT
* *
75439524 ATATTATACAAATTTATAAAT
1 AAATTATA-AAATATATAAAT
75439545 AAATTA-AAAATATATA
1 AAATTATAAAATATATA
75439561 TTATAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 8 0.25
20 1 0.03
21 9 0.28
22 1 0.03
23 11 0.34
24 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTATAAAATATATAAAT
Found at i:75439622 original size:15 final size:15
Alignment explanation
Indices: 75439604--75439648 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
75439594 AAATATTTTT
75439604 AAAATTTATATTATA
1 AAAATTTATATTATA
*
75439619 AAAATATATATTATA
1 AAAATTTATATTATA
*
75439634 AATATTT-T-TTATA
1 AAAATTTATATTATA
75439647 AA
1 AA
75439649 TTTATATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 7 0.26
14 1 0.04
15 19 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATTTATATTATA
Found at i:75439636 original size:28 final size:28
Alignment explanation
Indices: 75439592--75439672 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 28
75439582 GGCTTACGTA
75439592 AAAAATAT-TTTTA-AAATTTATATTAT
1 AAAAATATATTTTATAAATTTATATTAT
* *
75439618 AAAAATATATATTATAAATATT-TTTTAT
1 AAAAATATATTTTATAAAT-TTATATTAT
**
75439646 AAATTTATATGTTCTATAAATTTATAT
1 AAAAATATAT-TT-TATAAATTTATAT
75439673 ATTATAGGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
26 8 0.19
27 4 0.09
28 17 0.40
29 5 0.12
30 9 0.21
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
AAAAATATATTTTATAAATTTATATTAT
Found at i:75441199 original size:19 final size:20
Alignment explanation
Indices: 75441157--75441201 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
75441147 ATTATTATAG
* *
75441157 AATATAAAAATTATGGAAATT
1 AATA-AAAAATTATGAAAAAT
75441178 AATAAAAAATTAT-AAAAAT
1 AATAAAAAATTATGAAAAAT
75441197 AATAA
1 AATAA
75441202 TATAATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 9 0.41
21 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (20 bp):
AATAAAAAATTATGAAAAAT
Found at i:75441231 original size:18 final size:18
Alignment explanation
Indices: 75441208--75441243 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
75441198 ATAATATAAT
*
75441208 TTATAAAGCACTTTAAAA
1 TTATAAAGCACATTAAAA
75441226 TTATAAAGCACATTAAAA
1 TTATAAAGCACATTAAAA
75441244 GTGGTGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.31
Consensus pattern (18 bp):
TTATAAAGCACATTAAAA
Found at i:75445172 original size:21 final size:20
Alignment explanation
Indices: 75445148--75445194 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
75445138 TTTTTAGTAC
75445148 TTTTAATAATTGTTTTA-AAA
1 TTTTAAT-ATTGTTTTATAAA
*
75445168 GTTTTCGATATTGTTTTATAAA
1 -TTTT-AATATTGTTTTATAAA
75445190 TTTTA
1 TTTTA
75445195 TTTTTTCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (20 bp):
TTTTAATATTGTTTTATAAA
Found at i:75445217 original size:15 final size:16
Alignment explanation
Indices: 75445199--75445228 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75445189 ATTTTATTTT
75445199 TTCTAT-TTTTATAAA
1 TTCTATATTTTATAAA
75445214 TTCTATATTTTATAA
1 TTCTATATTTTATAA
75445229 TAAATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (16 bp):
TTCTATATTTTATAAA
Found at i:75445395 original size:29 final size:29
Alignment explanation
Indices: 75445362--75445423 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
75445352 ATTTTCAATC
* *
75445362 TTTTATCATTTTTAATAATTTTATTGA-TA
1 TTTTATCAGTTTAAATAATTTTATT-ATTA
* *
75445391 TTTTATGAGTTTAAATATTTTTATTATTA
1 TTTTATCAGTTTAAATAATTTTATTATTA
75445420 TTTT
1 TTTT
75445424 CCCCTATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (29 bp):
TTTTATCAGTTTAAATAATTTTATTATTA
Found at i:75445643 original size:3 final size:3
Alignment explanation
Indices: 75445621--75445674 Score: 81
Period size: 3 Copynumber: 17.3 Consensus size: 3
75445611 ATTAAAAATT
*
75445621 ATA AAA ATA TATA TATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
75445668 ATA ATA A
1 ATA ATA A
75445675 AGACCACGCA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 41 0.85
4 7 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:75449698 original size:23 final size:23
Alignment explanation
Indices: 75449672--75449719 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
75449662 CGGGAAAGAA
* *
75449672 GTTTTTTAGTAAATAAAAATTAT
1 GTTTTTAAGTAAACAAAAATTAT
*
75449695 GTTTTTAAGTAAACAAAATTTAT
1 GTTTTTAAGTAAACAAAAATTAT
75449718 GT
1 GT
75449720 ATTGCCATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (23 bp):
GTTTTTAAGTAAACAAAAATTAT
Found at i:75450063 original size:54 final size:49
Alignment explanation
Indices: 75449971--75450080 Score: 130
Period size: 54 Copynumber: 2.1 Consensus size: 49
75449961 TTTTCTTATA
* * *
75449971 AATTTTTAATAGTTTCTATATTTTTTATATCTTTATAATAAATTTTAAT
1 AATTTTTAAAAGTTTCTATATTTTTTATATCTTTATAATAAACTTTAAC
* *
75450020 AATTTTCTAAAAGTTTTCTATATTTTTTTTTTATCTTTTATAATGAACTTTAAC
1 AATTTT-TAAAAG-TTTCTATA--TTTTTTATATC-TTTATAATAAACTTTAAC
75450074 AATTTTT
1 AATTTTT
75450081 TATATTTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
49 6 0.12
50 5 0.10
51 8 0.16
53 11 0.22
54 21 0.41
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (49 bp):
AATTTTTAAAAGTTTCTATATTTTTTATATCTTTATAATAAACTTTAAC
Found at i:75450104 original size:20 final size:19
Alignment explanation
Indices: 75450068--75450106 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
75450058 TATAATGAAC
75450068 TTTAACAATTTTTTATATT
1 TTTAACAATTTTTTATATT
75450087 TTTAA-AATGTTTTCTATATT
1 TTTAACAAT-TTTT-TATATT
75450107 GTTTTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 9 0.50
20 6 0.33
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTAACAATTTTTTATATT
Found at i:75450172 original size:31 final size:31
Alignment explanation
Indices: 75450134--75450193 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
75450124 ATTTTATTTG
* *
75450134 TATCTTTTATAATAAACTTTAATATTTTTTA
1 TATCTTTTATAATAAAATTTAATAATTTTTA
75450165 TATCTTTTATAATAAAATTTAATAATTTT
1 TATCTTTTATAATAAAATTTAATAATTTT
75450194 ATTTTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (31 bp):
TATCTTTTATAATAAAATTTAATAATTTTTA
Found at i:75450920 original size:19 final size:18
Alignment explanation
Indices: 75450896--75450945 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
75450886 AAATGTTTTC
75450896 TATATTGTTTTATAAATTT
1 TATATT-TTTTATAAATTT
*
75450915 TATATTTTATAATAAATTT
1 TATATTTT-TTATAAATTT
75450934 TAT-TTTTTTATA
1 TATATTTTTTATA
75450946 TTTCGAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 18 0.64
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TATATTTTTTATAAATTT
Found at i:75450980 original size:19 final size:18
Alignment explanation
Indices: 75450954--75450993 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
75450944 TATTTCGAAC
*
75450954 AAATTTTTAATAATTTTT
1 AAATTTTTAATAAATTTT
*
75450972 AAATGTTTTTATAAATTTT
1 AAAT-TTTTAATAAATTTT
75450991 AAA
1 AAA
75450994 AAATTACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
AAATTTTTAATAAATTTT
Found at i:75462403 original size:11 final size:11
Alignment explanation
Indices: 75462387--75462411 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
75462377 AAATCTTAAA
75462387 AATAATATATT
1 AATAATATATT
75462398 AATAATATATT
1 AATAATATATT
75462409 AAT
1 AAT
75462412 GTCTTCTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATAATATATT
Found at i:75462861 original size:5 final size:5
Alignment explanation
Indices: 75462834--75462878 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
75462824 ATATATTTCA
* *
75462834 AAAAT AAAAA ACAAAT ATAAAT ATAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT A-AAAT A-AAAT AAAAT AAAAT AAAAT AAAAT AAA
75462879 TTGAAGTGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:75462872 original size:19 final size:18
Alignment explanation
Indices: 75462834--75462878 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
75462824 ATATATTTCA
75462834 AAAATAAAAAACAAATAT
1 AAAATAAAAAACAAATAT
*
75462852 AAATATAATAAAATAAA-AT
1 AAA-ATAA-AAAACAAATAT
75462871 AAAATAAA
1 AAAATAAA
75462879 TTGAAGTGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 1 0.04
18 7 0.29
19 9 0.38
20 7 0.29
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAATAAAAAACAAATAT
Found at i:75466526 original size:27 final size:27
Alignment explanation
Indices: 75466466--75466533 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 27
75466456 ATATATATAT
* *
75466466 ATATATATATTATAAAAAAAAGTGATA
1 ATATAAATATTATAAAAAAAAGTAATA
*
75466493 A-AT-AATATTTTAAAAAAAA-TCAATA
1 ATATAAATATTATAAAAAAAAGT-AATA
75466518 ATATAAATATTCATAA
1 ATATAAATATT-ATAA
75466534 TGGAAGTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
24 1 0.03
25 18 0.55
26 4 0.12
27 7 0.21
28 3 0.09
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (27 bp):
ATATAAATATTATAAAAAAAAGTAATA
Found at i:75468785 original size:17 final size:17
Alignment explanation
Indices: 75468763--75468796 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
75468753 TTGATTAACA
*
75468763 ATTATTTTTTAATTTTT
1 ATTATTTTTCAATTTTT
75468780 ATTATTTTTCAATTTTT
1 ATTATTTTTCAATTTTT
75468797 CTTACCAAAC
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:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTATTTTTCAATTTTT
Found at i:75477519 original size:22 final size:21
Alignment explanation
Indices: 75477477--75477517 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
75477467 TATTTTATGA
75477477 GAGCAATTATTAATGTTAAATT
1 GAGCAATTATT-ATGTTAAATT
75477499 GAGCAATTAATT-TGTTAAA
1 GAGCAATT-ATTATGTTAAA
75477518 ATATTAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 8 0.44
23 3 0.17
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (21 bp):
GAGCAATTATTATGTTAAATT
Found at i:75480603 original size:26 final size:26
Alignment explanation
Indices: 75480574--75480626 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
75480564 ATGTAATTGA
75480574 ATATAAGTA-TATTTATTTAAATTTTT
1 ATATAAGTACTA-TTATTTAAATTTTT
**
75480600 ATATCCGTACTATTATTTAAATTTTT
1 ATATAAGTACTATTATTTAAATTTTT
75480626 A
1 A
75480627 ATTGAGTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.55
Consensus pattern (26 bp):
ATATAAGTACTATTATTTAAATTTTT
Found at i:75485453 original size:30 final size:30
Alignment explanation
Indices: 75485417--75485474 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
75485407 AGCTAGATTG
75485417 TAAATTGGTAACCAAACTCCAAAATATTTA
1 TAAATTGGTAACCAAACTCCAAAATATTTA
*
75485447 TAAATTGGTAACCGAACTCCAAAATATT
1 TAAATTGGTAACCAAACTCCAAAATATT
75485475 GTAGTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (30 bp):
TAAATTGGTAACCAAACTCCAAAATATTTA
Found at i:75493647 original size:21 final size:21
Alignment explanation
Indices: 75493605--75493643 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
75493595 TAAAATTTAA
*
75493605 AATTTTAATATGGATAAAATT
1 AATTTTAATAAGGATAAAATT
75493626 AATTTTAA-AAGGATAAAA
1 AATTTTAATAAGGATAAAA
75493644 ATTATAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (21 bp):
AATTTTAATAAGGATAAAATT
Found at i:75499462 original size:20 final size:20
Alignment explanation
Indices: 75499425--75499462 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
75499415 AATTTAATAC
*
75499425 ACTAAAATTTTATCATTTCA
1 ACTAAAATTTAATCATTTCA
75499445 ACTAAAACTTTAAT-ATTT
1 ACTAAAA-TTTAATCATTT
75499463 TTAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (20 bp):
ACTAAAATTTAATCATTTCA
Found at i:75500060 original size:31 final size:30
Alignment explanation
Indices: 75500022--75500085 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
75500012 CTTAACTATT
* *
75500022 TTTAATTATATTTA-AAAATATAATATAATCA
1 TTTAATTA-AGTTATAAAATATAAT-TAATAA
*
75500053 TTTAATTAAGTTATTAAATATAATTAATAA
1 TTTAATTAAGTTATAAAATATAATTAATAA
75500083 TTT
1 TTT
75500086 TATATAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 12 0.41
31 17 0.59
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (30 bp):
TTTAATTAAGTTATAAAATATAATTAATAA
Found at i:75500079 original size:22 final size:23
Alignment explanation
Indices: 75500054--75500097 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
75500044 ATATAATCAT
75500054 TTAATTAA-GTTAT-TAAATATAA
1 TTAA-TAATGTTATATAAATATAA
*
75500076 TTAATAATTTTATATAAATATA
1 TTAATAATGTTATATAAATATA
75500098 TATTTACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 3 0.16
22 8 0.42
23 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATAATGTTATATAAATATAA
Found at i:75502361 original size:13 final size:13
Alignment explanation
Indices: 75502343--75502367 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75502333 AACCGAATTA
75502343 GATTAATTCAATC
1 GATTAATTCAATC
75502356 GATTAATTCAAT
1 GATTAATTCAAT
75502368 TTTAATTCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
GATTAATTCAATC
Found at i:75507769 original size:29 final size:30
Alignment explanation
Indices: 75507734--75507790 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
75507724 ATTAATAAAA
* *
75507734 ATAAAATTATACTTTAATCTC-TAAAAATG
1 ATAAAATTATAATTTAATCCCTTAAAAATG
*
75507763 ATAAAATTTTAATTTAATCCCTTAAAAA
1 ATAAAATTATAATTTAATCCCTTAAAAA
75507791 ATATATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.39
Consensus pattern (30 bp):
ATAAAATTATAATTTAATCCCTTAAAAATG
Found at i:75508305 original size:18 final size:17
Alignment explanation
Indices: 75508278--75508312 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
75508268 ATGATATATT
75508278 TATTTTATTAGTATAAA
1 TATTTTATTAGTATAAA
*
75508295 TATTATTATTATTATAAA
1 TATT-TTATTAGTATAAA
75508313 AAATGTGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TATTTTATTAGTATAAA
Found at i:75508507 original size:11 final size:11
Alignment explanation
Indices: 75508476--75508506 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
75508466 AATCAAACAA
75508476 CTTTTGTTTTG
1 CTTTTGTTTTG
75508487 CTTTTGTTTTG
1 CTTTTGTTTTG
75508498 CTTTT-TTTT
1 CTTTTGTTTT
75508507 TTTTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.00, C:0.10, G:0.13, T:0.77
Consensus pattern (11 bp):
CTTTTGTTTTG
Found at i:75511479 original size:21 final size:21
Alignment explanation
Indices: 75511450--75511490 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
75511440 ATCTGCTCAA
* *
75511450 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
*
75511471 ACTCTACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
75511491 TCGCTTGTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:75514090 original size:37 final size:37
Alignment explanation
Indices: 75514025--75514170 Score: 224
Period size: 37 Copynumber: 4.0 Consensus size: 37
75514015 TACGTATGAT
* * *
75514025 CACTTATCAC-TTG-TCCCTGATCAAATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
75514060 CACCTATCACTTTGTTTCTTGATCACATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
75514097 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
75514134 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
75514171 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:75514187 original size:46 final size:46
Alignment explanation
Indices: 75514134--75514238 Score: 183
Period size: 46 Copynumber: 2.3 Consensus size: 46
75514124 TAAGTGTAGC
* *
75514134 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCAAAGCTAT
*
75514180 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCAAAGCTAT
75514226 CACTTATCACTTT
1 CACTTATCACTTT
75514239 TCACTTGTCA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCAAAGCTAT
Found at i:75514253 original size:52 final size:52
Alignment explanation
Indices: 75514177--75514511 Score: 282
Period size: 46 Copynumber: 6.3 Consensus size: 52
75514167 TAGCTAAAGC
* *
75514177 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
75514230 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTTCCAGATAAGTGTAGCCGAAGC-
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAG---CC-G--AAG-CTA-TC--A-CT
* *
75514292 TATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCAC---T---TTT-CACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
75514351 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
75514397 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
75514443 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
75514495 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
75514512 ATCAGAAGTA
Statistics
Matches: 235, Mismatches: 18, Indels: 58
0.76 0.06 0.19
Matches are distributed among these distances:
46 84 0.36
47 2 0.01
48 2 0.01
50 1 0.00
52 63 0.27
53 18 0.08
55 2 0.01
56 1 0.00
58 4 0.02
59 9 0.04
60 1 0.00
61 1 0.00
62 9 0.04
63 4 0.02
65 2 0.01
66 1 0.00
68 3 0.01
69 28 0.12
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:75514256 original size:98 final size:98
Alignment explanation
Indices: 75514134--75514517 Score: 384
Period size: 98 Copynumber: 3.7 Consensus size: 98
75514124 TAAGTGTAGC
* * * * *
75514134 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
75514199 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
75514233 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTTCCAGATAAGTGTAGCCGAAGCTATCAC
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGC-T----A-AAG-CTA-CC--A-CT-T---
* *
75514298 TTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
51 --ATCACTTT--A----TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* ** *
75514354 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
*
75514413 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
75514446 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
75514511 GATCAGA
66 GATCAGA
75514518 AGTACTCAAA
Statistics
Matches: 235, Mismatches: 21, Indels: 59
0.75 0.07 0.19
Matches are distributed among these distances:
92 39 0.17
96 1 0.00
98 91 0.39
99 10 0.04
103 2 0.01
104 5 0.02
105 3 0.01
106 1 0.00
107 1 0.00
108 3 0.01
109 5 0.02
110 1 0.00
115 33 0.14
118 1 0.00
121 39 0.17
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:75514290 original size:69 final size:69
Alignment explanation
Indices: 75514203--75514338 Score: 254
Period size: 69 Copynumber: 2.0 Consensus size: 69
75514193 GTCTCTTGAT
*
75514203 CAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAG
1 CAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAG
75514268 CTTC
66 CTTC
*
75514272 CAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAG
1 CAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAG
75514337 CT
66 CT
75514339 GAAGCTATCA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (69 bp):
CAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAG
CTTC
Found at i:75529095 original size:15 final size:16
Alignment explanation
Indices: 75529062--75529097 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
75529052 CTTAATCCTA
75529062 TTTTTGATAAATTATT
1 TTTTTGATAAATTATT
75529078 TTTTTGATAAATTATT
1 TTTTTGATAAATTATT
75529094 TTTT
1 TTTT
75529098 AATTTAACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTTTGATAAATTATT
Found at i:75529183 original size:34 final size:35
Alignment explanation
Indices: 75529135--75529205 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 35
75529125 TGGCAGGTGC
75529135 CTTAAGGGGGTGAGTCAAGGTGAATACTGATGCAG
1 CTTAAGGGGGTGAGTCAAGGTGAATACTGATGCAG
75529170 CTTAA-GGGGTGAGTCAAGGTGAATACTGATGCAG
1 CTTAAGGGGGTGAGTCAAGGTGAATACTGATGCAG
75529204 CT
1 CT
75529206 GTGTATGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 31 0.86
35 5 0.14
ACGTcount: A:0.28, C:0.13, G:0.35, T:0.24
Consensus pattern (35 bp):
CTTAAGGGGGTGAGTCAAGGTGAATACTGATGCAG
Found at i:75538970 original size:28 final size:28
Alignment explanation
Indices: 75538938--75538993 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
75538928 AAAAATAAAA
75538938 TAAACAACTATCACATCAAATCTCATGT
1 TAAACAACTATCACATCAAATCTCATGT
75538966 TAAACAACTATCACATCAAATCTCATGT
1 TAAACAACTATCACATCAAATCTCATGT
75538994 CTGTAACTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.25, G:0.04, T:0.29
Consensus pattern (28 bp):
TAAACAACTATCACATCAAATCTCATGT
Found at i:75540564 original size:22 final size:24
Alignment explanation
Indices: 75540523--75540578 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
75540513 CTTCAATTTT
75540523 TTTATATTTTTTATACATTTA-AAA
1 TTTA-ATTTTTTATACATTTAGAAA
*
75540547 TTTAATTTTTT-TATATTTAGAAA
1 TTTAATTTTTTATACATTTAGAAA
75540570 TTTAATTTT
1 TTTAATTTT
75540579 AAAATTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 7 0.23
23 19 0.63
24 4 0.13
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTAATTTTTTATACATTTAGAAA
Found at i:75566410 original size:2 final size:2
Alignment explanation
Indices: 75566405--75566429 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
75566395 TATATATATA
75566405 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
75566430 TTGGTCGATC
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:75572252 original size:29 final size:31
Alignment explanation
Indices: 75572219--75572287 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
75572209 TAAAAATATT
* *
75572219 AATTTAACTCTTTTGAAAAT-TAA-GAGTCA
1 AATTTAACTCTTTTGAAAATATAATGAATAA
* *
75572248 AATTTGACTCTTTTTAAAATATAATGAATAA
1 AATTTAACTCTTTTGAAAATATAATGAATAA
75572279 AATTTAACT
1 AATTTAACT
75572288 GAAAAATAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 18 0.55
30 3 0.09
31 12 0.36
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (31 bp):
AATTTAACTCTTTTGAAAATATAATGAATAA
Found at i:75576836 original size:3 final size:3
Alignment explanation
Indices: 75576828--75576856 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
75576818 ATTAATTTGA
75576828 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
75576857 GGTTAGAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:75581010 original size:19 final size:21
Alignment explanation
Indices: 75580974--75581016 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
75580964 TAATACTTTC
75580974 AAAATAATATTTATTTTTTTAT
1 AAAATAATA-TTATTTTTTTAT
75580996 AAAATAATA-TA-TTTTTTAT
1 AAAATAATATTATTTTTTTAT
75581015 AA
1 AA
75581017 TTTCACAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.48
20 2 0.10
22 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AAAATAATATTATTTTTTTAT
Found at i:75583476 original size:27 final size:27
Alignment explanation
Indices: 75583424--75583476 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
75583414 GAATTTAAAC
* *
75583424 TAATTTAGAAATTTAATTTTGATGTTA
1 TAATTTAGAAAATAAATTTTGATGTTA
*
75583451 TAATTTATAAAATAAATATTTG-TGTT
1 TAATTTAGAAAATAAAT-TTTGATGTT
75583477 TATTTCTTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (27 bp):
TAATTTAGAAAATAAATTTTGATGTTA
Found at i:75584843 original size:53 final size:53
Alignment explanation
Indices: 75584781--75584890 Score: 220
Period size: 53 Copynumber: 2.1 Consensus size: 53
75584771 CCCCAAAGTA
75584781 TAAAAATATATATAAAACCCTAAAAGCTTATAAGTTTATTAAAATAAATCAAC
1 TAAAAATATATATAAAACCCTAAAAGCTTATAAGTTTATTAAAATAAATCAAC
75584834 TAAAAATATATATAAAACCCTAAAAGCTTATAAGTTTATTAAAATAAATCAAC
1 TAAAAATATATATAAAACCCTAAAAGCTTATAAGTTTATTAAAATAAATCAAC
75584887 TAAA
1 TAAA
75584891 TACCTTTGAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (53 bp):
TAAAAATATATATAAAACCCTAAAAGCTTATAAGTTTATTAAAATAAATCAAC
Found at i:75597658 original size:18 final size:18
Alignment explanation
Indices: 75597630--75597672 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
75597620 CTATATAATT
*
75597630 ATTACTAATACATAATATA
1 ATTATTAATACAT-ATATA
75597649 A-TATTAATACATATATA
1 ATTATTAATACATATATA
75597666 ATTATTA
1 ATTATTA
75597673 TTGTAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 15 0.68
19 1 0.05
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTATTAATACATATATA
Found at i:75599857 original size:32 final size:30
Alignment explanation
Indices: 75599821--75599891 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
75599811 TAAATCCCTT
*
75599821 TTTATAGATAATATAACATTTATAAATATGAA
1 TTTATAGA-AATATAACATTTATAAAAAT-AA
* *
75599853 TTTATA-ACATATAATATTTATAAAAATAA
1 TTTATAGAAATATAACATTTATAAAAATAA
75599882 TTT-TAGAAAT
1 TTTATAGAAAT
75599892 TGTCGAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 2 0.06
29 8 0.24
30 17 0.50
31 1 0.03
32 6 0.18
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (30 bp):
TTTATAGAAATATAACATTTATAAAAATAA
Found at i:75599881 original size:15 final size:15
Alignment explanation
Indices: 75599830--75599891 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
75599820 TTTTATAGAT
*
75599830 AATATAACATTTATA
1 AATATAATATTTATA
*
75599845 AATATGA-ATTTATA
1 AATATAATATTTATA
75599859 ACATATAATATTTATA
1 A-ATATAATATTTATA
* *
75599875 AAAATAAT-TTTAGA
1 AATATAATATTTATA
75599889 AAT
1 AAT
75599892 TGTCGAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 15 0.38
15 17 0.43
16 8 0.20
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (15 bp):
AATATAATATTTATA
Found at i:75600818 original size:19 final size:21
Alignment explanation
Indices: 75600784--75600830 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
75600774 TGTATACTTA
75600784 TATTTATATGATCATATCATC
1 TATTTATATGATCATATCATC
75600805 TATTT-TAT-ATCATATCA--
1 TATTTATATGATCATATCATC
75600822 TATTTATAT
1 TATTTATAT
75600831 AATAATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.20
18 3 0.12
19 9 0.36
20 3 0.12
21 5 0.20
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTTATATGATCATATCATC
Found at i:75610431 original size:17 final size:18
Alignment explanation
Indices: 75610390--75610432 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
75610380 TTGTAAGATA
75610390 ATATAATTATATTAACTT
1 ATATAATTATATTAACTT
**
75610408 ATA-AATTATA-TATTTT
1 ATATAATTATATTAACTT
75610424 ATATAATTA
1 ATATAATTA
75610433 ATAAAATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 12 0.55
18 3 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATAATTATATTAACTT
Found at i:75613663 original size:20 final size:20
Alignment explanation
Indices: 75613625--75613664 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
75613615 TTGAGTTTGG
**
75613625 AATTTGGGGTTCATTATTCA
1 AATTTGGGGTTCAGGATTCA
*
75613645 AATTTGGGGTTTAGGATTCA
1 AATTTGGGGTTCAGGATTCA
75613665 TGATTCAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (20 bp):
AATTTGGGGTTCAGGATTCA
Found at i:75615847 original size:17 final size:18
Alignment explanation
Indices: 75615822--75615860 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
75615812 TTAGCATTTG
*
75615822 TTGTGAACTTGTTTAAC-
1 TTGTCAACTTGTTTAACA
75615839 TTGTCAACTTGTTTAACA
1 TTGTCAACTTGTTTAACA
75615857 TTGT
1 TTGT
75615861 ATTTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (18 bp):
TTGTCAACTTGTTTAACA
Found at i:75625430 original size:10 final size:10
Alignment explanation
Indices: 75625415--75625441 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
75625405 CTTTTTTAAA
75625415 AAAATATGTT
1 AAAATATGTT
75625425 AAAATATGTT
1 AAAATATGTT
75625435 AAAATAT
1 AAAATAT
75625442 TTTATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (10 bp):
AAAATATGTT
Found at i:75626971 original size:28 final size:28
Alignment explanation
Indices: 75626913--75626967 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
75626903 ATAATTTAGA
*
75626913 TAATGTTATTTAACATTATAACATTCTC
1 TAATGTTATTTAACATAATAACATTCTC
*
75626941 TAATTTTATTTATA-ATAATAAC-TTCTC
1 TAATGTTATTTA-ACATAATAACATTCTC
75626968 CTAACTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.21
28 18 0.75
29 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (28 bp):
TAATGTTATTTAACATAATAACATTCTC
Found at i:75631026 original size:15 final size:14
Alignment explanation
Indices: 75631006--75631044 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
75630996 AAATTAAATT
75631006 ATTAAACGTGTCAAA
1 ATTAAA-GTGTCAAA
* *
75631021 ATTAAAATATCAAA
1 ATTAAAGTGTCAAA
75631035 ATTAAAGTGT
1 ATTAAAGTGT
75631045 ATTTTAAGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (14 bp):
ATTAAAGTGTCAAA
Found at i:75649318 original size:69 final size:70
Alignment explanation
Indices: 75649206--75649379 Score: 262
Period size: 69 Copynumber: 2.5 Consensus size: 70
75649196 CCAACAATAC
* *
75649206 TAACTACGATTATAAGTAATTTCTAGACACCAGA-AACCACTCAGTCGCATTCCAAAATGCAGTC
1 TAACTACGATTATAAGTAATTTCTAGACATCAGAGAACCACTCAGTCGCATTCCAAAATGCAATC
75649270 AATTA
66 AATTA
* * *
75649275 TAACTATGATTATAAGTAATTTCTAGACATCAGAGATCC-CTCAGTTGCATTCCAAAATGCAATC
1 TAACTACGATTATAAGTAATTTCTAGACATCAGAGAACCACTCAGTCGCATTCCAAAATGCAATC
*
75649339 AGTTA
66 AATTA
* *
75649344 TAACTACGATTTTAAGTAATTTCTACACATCAGAGA
1 TAACTACGATTATAAGTAATTTCTAGACATCAGAGA
75649380 CCATCATTCA
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
69 92 0.97
70 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (70 bp):
TAACTACGATTATAAGTAATTTCTAGACATCAGAGAACCACTCAGTCGCATTCCAAAATGCAATC
AATTA
Found at i:75650345 original size:3 final size:3
Alignment explanation
Indices: 75650337--75650371 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
75650327 ACAAATTTGA
75650337 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
75650372 AGGGCCTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:75651908 original size:81 final size:82
Alignment explanation
Indices: 75651768--75651968 Score: 298
Period size: 81 Copynumber: 2.4 Consensus size: 82
75651758 AAATAAAAGA
* * * **
75651768 AAAGCTTTGATTTAATAATCGTCTAAACTTGATCTTAAATAAATGTGGGTTGATTGGATAAATCA
1 AAAGCTTTGATCTAATGATCGTCTAAACTTAATCTTAAATAAATGTGGGCCGATTGGATAAATCA
75651833 TATTT-TTTT-CCTTGAT
66 T-TTTATTTTCCCTTGAT
*
75651849 AAAGTTTTGATCTAATGATCGTCTAAACTTAATCTTAAATAAATGTGGGCCGATTGGATAAATCA
1 AAAGCTTTGATCTAATGATCGTCTAAACTTAATCTTAAATAAATGTGGGCCGATTGGATAAATCA
75651914 TTTTATTTTGCCCCTTGAT
66 TTTTATTTT--CCCTTGAT
*
75651933 AAAGCTTTGATCTAATGATCGTATAAACTTAATCTT
1 AAAGCTTTGATCTAATGATCGTCTAAACTTAATCTT
75651969 TGATAGACTT
Statistics
Matches: 108, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
80 3 0.03
81 64 0.59
84 41 0.38
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (82 bp):
AAAGCTTTGATCTAATGATCGTCTAAACTTAATCTTAAATAAATGTGGGCCGATTGGATAAATCA
TTTTATTTTCCCTTGAT
Found at i:75655442 original size:40 final size:41
Alignment explanation
Indices: 75655367--75655447 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 41
75655357 TTTGGGATGG
* * *
75655367 TTATGAAAATAAATTTTCTTATATTATAAAATATAA-AAAA
1 TTATAAAAATAAATTGTCGTATATTATAAAATATAACAAAA
*
75655407 TTATAAAAATAAATTGT-GTATTTTATAAAATTATAACAAAA
1 TTATAAAAATAAATTGTCGTATATTATAAAA-TATAACAAAA
75655448 AAATTAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 11 0.31
40 20 0.57
41 4 0.11
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (41 bp):
TTATAAAAATAAATTGTCGTATATTATAAAATATAACAAAA
Found at i:75656737 original size:19 final size:21
Alignment explanation
Indices: 75656709--75656765 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
75656699 ATATTAATTA
75656709 AAATTTTAAAAATATAA-AAT
1 AAATTTTAAAAATATAATAAT
** *
75656729 TTA-TTT-AAATTATAATAAT
1 AAATTTTAAAAATATAATAAT
75656748 AAATTTTAAAAATATAAT
1 AAATTTTAAAAATATAAT
75656766 TACTAAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
18 8 0.29
19 7 0.25
20 4 0.14
21 9 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTTTAAAAATATAATAAT
Found at i:75664728 original size:29 final size:30
Alignment explanation
Indices: 75664669--75664726 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
75664659 TCCGAGCCTT
*
75664669 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
75664699 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
75664727 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:75664956 original size:13 final size:13
Alignment explanation
Indices: 75664938--75664969 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
75664928 TTTCCAGCAA
75664938 TTATGAATTTATT
1 TTATGAATTTATT
75664951 TTATGAATTTATT
1 TTATGAATTTATT
*
75664964 TGATGA
1 TTATGA
75664970 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:75665198 original size:51 final size:50
Alignment explanation
Indices: 75665068--75665199 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 50
75665058 GGGTAAAGAG
* * * * *
75665068 ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGACACGAGAC
* * *
75665118 GTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-CACGAG-AC
75665169 ATCCCATGTAAGACCATGTCTGGGACATGGC
1 ATCCCATGTAAGACCATGTCTGGGACATGGC
75665200 TTTGGCATGT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.01
50 39 0.57
51 29 0.42
ACGTcount: A:0.27, C:0.26, G:0.28, T:0.20
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGACACGAGAC
Found at i:75668136 original size:22 final size:25
Alignment explanation
Indices: 75668111--75668156 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
75668101 AAAGAGCACA
75668111 AATGTGCT-A-AAT-GGAGAGCATT
1 AATGTGCTAATAATCGGAGAGCATT
*
75668133 AATGTGTTAATAATCGGAGAGCAT
1 AATGTGCTAATAATCGGAGAGCAT
75668157 GCTAAGGTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 3 0.15
25 9 0.45
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (25 bp):
AATGTGCTAATAATCGGAGAGCATT
Found at i:75669720 original size:42 final size:38
Alignment explanation
Indices: 75669644--75669721 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 38
75669634 AATTTAATGG
* *
75669644 GATGTTTAAAACAAATAATAATGGAAAAATTATATTGA
1 GATGTTTAAAACAAATAATAATAGAAAAAATATATTGA
*
75669682 GATGTTTAAAAATAAATAATAATATAGATAAAAATATATT
1 GATGTTT-AAAACAAATAAT-A-ATAGA-AAAAATATATT
75669722 ATACGAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 7 0.21
39 11 0.33
40 1 0.03
41 4 0.12
42 10 0.30
ACGTcount: A:0.55, C:0.01, G:0.10, T:0.33
Consensus pattern (38 bp):
GATGTTTAAAACAAATAATAATAGAAAAAATATATTGA
Done.