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 217 of 250
Found at i:67198852 original size:27 final size:27
Alignment explanation
Indices: 67198811--67198867 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
67198801 GCAAGATATA
* * * *
67198811 TATATATATATAATATGATGTTAAGAG
1 TATACATATAAAATATAATGTTAAAAG
67198838 TATACATATAAAATATAATGTTAAAAG
1 TATACATATAAAATATAATGTTAAAAG
67198865 TAT
1 TAT
67198868 GTATGCATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.39
Consensus pattern (27 bp):
TATACATATAAAATATAATGTTAAAAG
Found at i:67199413 original size:18 final size:17
Alignment explanation
Indices: 67199392--67199425 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
67199382 ATACATTTAA
67199392 TATAACAAATATAAATAT
1 TATAACAAATA-AAATAT
67199410 TATAACAAATAAAATA
1 TATAACAAATAAAATA
67199426 CAGAAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
TATAACAAATAAAATAT
Found at i:67203165 original size:25 final size:25
Alignment explanation
Indices: 67203136--67203189 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
67203126 ACAAGATGCA
*
67203136 CATATATAAATATCACCACCTAATG
1 CATATACAAATATCACCACCTAATG
*
67203161 CATATGCAAATATCACCACCTAATG
1 CATATACAAATATCACCACCTAATG
67203186 CATA
1 CATA
67203190 GGCATAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.43, C:0.26, G:0.06, T:0.26
Consensus pattern (25 bp):
CATATACAAATATCACCACCTAATG
Found at i:67207626 original size:20 final size:18
Alignment explanation
Indices: 67207601--67207644 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
67207591 CCACACGGGT
*
67207601 ATATGGCCTGCTTGGGCCCA
1 ATATGGCC--CTTAGGCCCA
*
67207621 ATATGGGCCTTAGGCCCA
1 ATATGGCCCTTAGGCCCA
67207639 ATATGG
1 ATATGG
67207645 GTCAAAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 15 0.68
20 7 0.32
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (18 bp):
ATATGGCCCTTAGGCCCA
Found at i:67213146 original size:31 final size:29
Alignment explanation
Indices: 67213099--67213165 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 29
67213089 TTTTAAATTA
*
67213099 TTAA-ATATAAATTATTTACAAATTTA-AT
1 TTAATATATAAATTATTTA-AAATTTATAG
*
67213127 TTAATATATAAATCATATTTATAATTTATAG
1 TTAATATATAAAT--TATTTAAAATTTATAG
67213158 TTAATATA
1 TTAATATA
67213166 AATATTCTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 4 0.12
29 8 0.24
30 6 0.18
31 15 0.45
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (29 bp):
TTAATATATAAATTATTTAAAATTTATAG
Found at i:67215221 original size:20 final size:20
Alignment explanation
Indices: 67215196--67215235 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
67215186 CTGTTTTTAC
* *
67215196 ATATATTAATGAATTTATAT
1 ATATATTAATAAACTTATAT
67215216 ATATATTAATAAACTTATAT
1 ATATATTAATAAACTTATAT
67215236 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
ATATATTAATAAACTTATAT
Found at i:67216469 original size:45 final size:45
Alignment explanation
Indices: 67216368--67216475 Score: 146
Period size: 45 Copynumber: 2.4 Consensus size: 45
67216358 AACGGTAGCA
* * *
67216368 GTAACAGTAACAGTAGCAGTATTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCG
* *
67216413 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTG-TCGAATCG
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCT-GAATCG
*
67216458 GTAACAGTAACGATAACA
1 GTAACAGTAACGGTAACA
67216476 ATAACAGTAG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.02
45 54 0.98
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCG
Found at i:67216738 original size:40 final size:40
Alignment explanation
Indices: 67216689--67216774 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
67216679 ATTCGTTTCA
* *
67216689 TCAGAAATTTTACAGTTCAA-TGCAGTATACATAACAATAT
1 TCAGTAATTTTACAGTTCAACT-CAGTATACAAAACAATAT
* * *
67216729 TCAGTAATTTTATAGTTCAACTCGGTATTCAAAACAATAT
1 TCAGTAATTTTACAGTTCAACTCAGTATACAAAACAATAT
67216769 TCAGTA
1 TCAGTA
67216775 TCCCATAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (40 bp):
TCAGTAATTTTACAGTTCAACTCAGTATACAAAACAATAT
Found at i:67217894 original size:20 final size:20
Alignment explanation
Indices: 67217871--67217927 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
67217861 TTAATTTATT
67217871 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATCATAA
*
67217891 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAAT-AATCATAA
*
67217911 TTTGATAGAATAATAAT
1 TTT-A-ATAATAATAAT
67217928 AATGATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 2 0.06
20 19 0.61
21 1 0.03
22 7 0.23
23 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
TTTAATAATAATAATCATAA
Found at i:67217945 original size:17 final size:17
Alignment explanation
Indices: 67217893--67217942 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 17
67217883 AATCATAATT
*
67217893 TAATAAT-ATA-AATTA
1 TAATAATGATAGAATAA
*
67217908 TAAT-TTGATAGAATAA
1 TAATAATGATAGAATAA
67217924 TAATAATGATA-AATAA
1 TAATAATGATAGAATAA
67217940 TAA
1 TAA
67217943 ATATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 16 0.55
17 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
TAATAATGATAGAATAA
Found at i:67218110 original size:25 final size:26
Alignment explanation
Indices: 67218058--67218149 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 26
67218048 AATTCAATTC
67218058 ATAATATAATATTTATAATTAATTAATTTA
1 ATAATAT-AT-TTTATAATTAA--AATTTA
67218088 ATAATATATTTTATAATT-AAA-TT-
1 ATAATATATTTTATAATTAAAATTTA
* *
67218111 ATATATATATTTACATAATTAAAATCTA
1 ATA-ATATATTT-TATAATTAAAATTTA
67218139 A-AA-ATATTTTA
1 ATAATATATTTTA
67218150 GATTTTAACA
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
23 3 0.06
24 11 0.20
25 14 0.26
26 4 0.07
27 3 0.06
28 10 0.19
29 2 0.04
30 7 0.13
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
ATAATATATTTTATAATTAAAATTTA
Found at i:67218118 original size:24 final size:25
Alignment explanation
Indices: 67218077--67218133 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
67218067 TATTTATAAT
* *
67218077 TAATTAATTTAATAATATATTT-TA
1 TAATTAAATTAATAATATATTTACA
67218101 TAATTAAATT-ATATATATATTTACA
1 TAATTAAATTAATA-ATATATTTACA
67218126 TAATTAAA
1 TAATTAAA
67218134 ATCTAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.10
24 17 0.59
25 9 0.31
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
TAATTAAATTAATAATATATTTACA
Found at i:67221283 original size:25 final size:25
Alignment explanation
Indices: 67221255--67221304 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
67221245 GGAAGAGAAG
* *
67221255 ATGAAGAACGGATGAAGGAAAAGGA
1 ATGAAAAACGGAAGAAGGAAAAGGA
*
67221280 ATGAAAAACGGAAGAAGGAGAAGGA
1 ATGAAAAACGGAAGAAGGAAAAGGA
67221305 GCCTTACCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.36, T:0.06
Consensus pattern (25 bp):
ATGAAAAACGGAAGAAGGAAAAGGA
Found at i:67221679 original size:27 final size:23
Alignment explanation
Indices: 67221649--67221704 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 23
67221639 TATTAATTTA
*
67221649 TTTAAGTAATAATAAATATATTCTTAT
1 TTTAA-TAA-AATAAAT-TA-TATTAT
67221676 TTT-ATAAAATAAATTATATTAT
1 TTTAATAAAATAAATTATATTAT
67221698 TTTAATA
1 TTTAATA
67221705 GTTTTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 8 0.30
23 5 0.19
24 7 0.26
25 3 0.11
26 1 0.04
27 3 0.11
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTAATAAAATAAATTATATTAT
Found at i:67222863 original size:22 final size:22
Alignment explanation
Indices: 67222838--67222899 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
67222828 ATTTGAAATG
67222838 TTTTATAAATATATTTTTAAAA
1 TTTTATAAATATATTTTTAAAA
67222860 TTTTA-AATATATATTTTTAAAA
1 TTTTATAA-ATATATTTTTAAAA
67222882 -TTT-TAAATATATTTTTAA
1 TTTTATAAATATATTTTTAA
67222900 TAATATAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.32
21 7 0.18
22 19 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTATAAATATATTTTTAAAA
Found at i:67222866 original size:20 final size:20
Alignment explanation
Indices: 67222843--67223023 Score: 103
Period size: 20 Copynumber: 8.9 Consensus size: 20
67222833 AAATGTTTTA
67222843 TAAATATATTTTTAAAATTT
1 TAAATATATTTTTAAAATTT
67222863 TAAATATATATTTTTAAAATTT
1 T-AA-ATATATTTTTAAAATTT
*
67222885 TAAATATATTTTTAATAA-TA
1 TAAATATATTTTTAA-AATTT
*
67222905 TAAA-A-A-ATTTAAATATTT
1 TAAATATATTTTTAAA-ATTT
* *
67222923 TAAATATATGACATTTCAAA-TT
1 TAAATATAT---TTTTAAAATTT
* *
67222945 T-ATTATTAGTTTTATAATATTT
1 TAAATA-TA-TTTT-TAAAATTT
*
67222967 TAAATGTATATTTT-AAATTT
1 TAAATATAT-TTTTAAAATTT
67222987 TAAATAT-TTTTT--AATTT
1 TAAATATATTTTTAAAATTT
* *
67223004 TACATATAATTTTTTAAATT
1 TAAATAT-ATTTTTAAAATT
67223024 ATGATTTTTT
Statistics
Matches: 127, Mismatches: 13, Indels: 41
0.70 0.07 0.23
Matches are distributed among these distances:
16 1 0.01
17 17 0.13
18 10 0.08
19 8 0.06
20 32 0.25
21 18 0.14
22 31 0.24
23 4 0.03
24 6 0.05
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TAAATATATTTTTAAAATTT
Found at i:67222875 original size:44 final size:42
Alignment explanation
Indices: 67222806--67222899 Score: 100
Period size: 44 Copynumber: 2.2 Consensus size: 42
67222796 TCTATTATTG
* * *
67222806 ATTTTAAAAACTTAAAATGTATA-TTTGAAATGTTTTATAAATAT
1 ATTTTTAAAACTTAAAATATATATTTTGAAA--ATTT-TAAATAT
* * *
67222850 ATTTTTAAAATTTTAAATATATATTTTTAAAATTTTAAATAT
1 ATTTTTAAAACTTAAAATATATATTTTGAAAATTTTAAATAT
67222892 ATTTTTAA
1 ATTTTTAA
67222900 TAATATAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
42 15 0.35
43 3 0.07
44 19 0.44
45 6 0.14
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (42 bp):
ATTTTTAAAACTTAAAATATATATTTTGAAAATTTTAAATAT
Found at i:67226490 original size:18 final size:18
Alignment explanation
Indices: 67226475--67226522 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
67226465 ATAATAATAT
*
67226475 AATATAATAAAGTAATTA
1 AATAAAATAAAGTAATTA
* **
67226493 AATAAAATAAAATAAAAA
1 AATAAAATAAAGTAATTA
*
67226511 AATAAAAGAAAG
1 AATAAAATAAAG
67226523 AATGAATGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (18 bp):
AATAAAATAAAGTAATTA
Found at i:67226496 original size:13 final size:14
Alignment explanation
Indices: 67226454--67226498 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
67226444 TAATAATGAT
67226454 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
67226469 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
67226482 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
67226495 TAAA
1 TAAA
67226499 ATAAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:67229186 original size:22 final size:22
Alignment explanation
Indices: 67229147--67229236 Score: 58
Period size: 22 Copynumber: 3.9 Consensus size: 22
67229137 CCACCAAATA
*
67229147 AAATATTAATTT-TAAAAATTTT
1 AAAT-TTAATTTAAAAAAATTTT
*
67229169 AAATTTAATTTAAAAAAAATTT
1 AAATTTAATTTAAAAAAATTTT
* * *
67229191 GAATAT-CTTTAAAATTAAATTTT
1 AAATTTAATTTAAAA--AAATTTT
*
67229214 AAAATTAATAATTTATAAAAATT
1 -AAATT--TAATTTAAAAAAATT
67229237 ATATTTAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
21 14 0.27
22 16 0.31
23 6 0.12
24 3 0.06
25 5 0.10
26 1 0.02
27 6 0.12
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (22 bp):
AAATTTAATTTAAAAAAATTTT
Found at i:67229216 original size:13 final size:13
Alignment explanation
Indices: 67229198--67229248 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
67229188 TTTGAATATC
67229198 TTTAAAATTAAAT
1 TTTAAAATTAAAT
67229211 TTTAAAATTAATAAT
1 TTTAAAATT-A-AAT
*
67229226 TTATAAAAATTATA-
1 TT-T-AAAATTAAAT
67229240 TTTAAAATT
1 TTTAAAATT
67229249 TAAAATATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
12 6 0.18
13 10 0.30
14 3 0.09
15 6 0.18
16 2 0.06
17 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTAAAATTAAAT
Found at i:67229362 original size:30 final size:30
Alignment explanation
Indices: 67229315--67229397 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
67229305 CAAAAATAAT
*
67229315 ATATTTTAAAA-AAATTAAAAATACTAAAA
1 ATATTATAAAACAAATTAAAAATACTAAAA
* **
67229344 ATATTATAAAACAAATTAAAAATATTGTAA
1 ATATTATAAAACAAATTAAAAATACTAAAA
*
67229374 ATATTACAAAACAAATTAAAAATA
1 ATATTATAAAACAAATTAAAAATA
67229398 TTTAAAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 10 0.21
30 38 0.79
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (30 bp):
ATATTATAAAACAAATTAAAAATACTAAAA
Found at i:67229411 original size:16 final size:16
Alignment explanation
Indices: 67229386--67229434 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
67229376 ATTACAAAAC
*
67229386 AAATTAAAAATATTTA
1 AAATTTAAAATATTTA
67229402 AAATTTAAAATA--T-
1 AAATTTAAAATATTTA
*
67229415 ACATTTAAAATATTATA
1 AAATTTAAAATATT-TA
67229432 AAA
1 AAA
67229435 CTAATAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
13 11 0.42
14 1 0.04
16 12 0.46
17 2 0.08
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATTTAAAATATTTA
Found at i:67229507 original size:21 final size:20
Alignment explanation
Indices: 67229483--67229543 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
67229473 TAAATGTTTT
67229483 ATATTACTAAAAATATATTTA
1 ATATTA-TAAAAATATATTTA
*
67229504 ATATTTTAAAAATAATATTTA
1 ATATTATAAAAAT-ATATTTA
*
67229525 AAATTA-AAAAATA-ATTTA
1 ATATTATAAAAATATATTTA
67229543 A
1 A
67229544 AATATATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.17
19 1 0.03
20 13 0.36
21 16 0.44
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATTATAAAAATATATTTA
Found at i:67229541 original size:18 final size:19
Alignment explanation
Indices: 67229491--67229546 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
67229481 TTATATTACT
* *
67229491 AAAAATATATTTAATATTTT
1 AAAAATATATTTAA-AATTA
67229511 AAAAATAATATTTAAAATTA
1 AAAAAT-ATATTTAAAATTA
67229531 AAAAATA-ATTTAAAAT
1 AAAAATATATTTAAAAT
67229547 ATATATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.27
19 1 0.03
20 15 0.45
21 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATATATTTAAAATTA
Found at i:67229596 original size:21 final size:20
Alignment explanation
Indices: 67229492--67229615 Score: 73
Period size: 21 Copynumber: 6.2 Consensus size: 20
67229482 TATATTACTA
* *
67229492 AAAATATATTTAATATTTTA
1 AAAATATATTTAAAATTTTT
**
67229512 AAAATAATATTTAAAA-TTAA
1 AAAAT-ATATTTAAAATTTTT
67229532 AAAATA-ATTTAAAA----T
1 AAAATATATTTAAAATTTTT
*
67229547 -ATATATATTTAAAATTTTT
1 AAAATATATTTAAAATTTTT
*
67229566 AAAAAAATATTATAAAATATTTT
1 -AAAATATATT-TAAAAT-TTTT
**
67229589 AAATATATATTTCAATTTTTTT
1 AAA-ATATATTT-AAAATTTTT
67229611 AAAAT
1 AAAAT
67229616 CAATAATAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
14 4 0.05
15 8 0.10
18 8 0.10
19 2 0.02
20 13 0.16
21 18 0.22
22 17 0.20
23 13 0.16
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATATATTTAAAATTTTT
Found at i:67229598 original size:23 final size:23
Alignment explanation
Indices: 67229527--67229599 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
67229517 AATATTTAAA
* *
67229527 ATTAAAAAATAATTTAAAATATAT
1 ATTATAAAAT-ATTTTAAATATAT
* * *
67229551 ATATTTAAAAT-TTTTAAAAAAAT
1 AT-TATAAAATATTTTAAATATAT
67229574 ATTATAAAATATTTTAAATATAT
1 ATTATAAAATATTTTAAATATAT
67229597 ATT
1 ATT
67229600 TCAATTTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
22 7 0.18
23 24 0.62
24 2 0.05
25 6 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTATAAAATATTTTAAATATAT
Found at i:67229615 original size:23 final size:23
Alignment explanation
Indices: 67229547--67229615 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 23
67229537 AATTTAAAAT
67229547 ATATATATTTAAAA-TTTTTAAA
1 ATATATATTTAAAATTTTTTAAA
* *
67229569 A-AAATATTATAAAATATTTT-AA
1 ATATATATT-TAAAATTTTTTAAA
* *
67229591 ATATATATTTCAATTTTTTTAAA
1 ATATATATTTAAAATTTTTTAAA
67229614 AT
1 AT
67229616 CAATAATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
21 6 0.16
22 17 0.46
23 14 0.38
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (23 bp):
ATATATATTTAAAATTTTTTAAA
Found at i:67229625 original size:44 final size:46
Alignment explanation
Indices: 67229524--67229639 Score: 107
Period size: 46 Copynumber: 2.5 Consensus size: 46
67229514 AATAATATTT
* *
67229524 AAAAT-TAAAAAATAATTTAAAATATATATATTTAAAATTTTTAAA
1 AAAATATATAAAATAATTTAAAATATATATATTCAAAATTTTTAAA
* **
67229569 AAAATATTATAAAAT-ATTTTAAATATATAT-TTCAATTTTTTTAAA
1 AAAATA-TATAAAATAATTTAAAATATATATATTCAAAATTTTTAAA
*
67229614 ATCAATA-ATAAAA-AATTAATAAAATA
1 A-AAATATATAAAATAATT--TAAAATA
67229640 AATAAGGACA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
44 9 0.16
45 18 0.31
46 24 0.41
47 7 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (46 bp):
AAAATATATAAAATAATTTAAAATATATATATTCAAAATTTTTAAA
Found at i:67229629 original size:46 final size:47
Alignment explanation
Indices: 67229529--67229629 Score: 116
Period size: 46 Copynumber: 2.2 Consensus size: 47
67229519 TATTTAAAAT
* *
67229529 TAAAAAATAATTTAAAATATATATATTTAAAATTTTTAAAAAAATAT
1 TAAAAAATAATTTAAAATATATATATTCAAAATTTTTAAAAAAATAA
* * ** *
67229576 TATAAAAT-ATTTTAAATATATAT-TTCAATTTTTTTAAAATCAATAA
1 TAAAAAATAATTTAAAATATATATATTCAAAATTTTTAAAA-AAATAA
67229622 TAAAAAAT
1 TAAAAAAT
67229630 TAATAAAATA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
45 13 0.29
46 25 0.56
47 7 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (47 bp):
TAAAAAATAATTTAAAATATATATATTCAAAATTTTTAAAAAAATAA
Found at i:67230632 original size:13 final size:13
Alignment explanation
Indices: 67230616--67230640 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67230606 AATATGGCAT
67230616 GAAAATTTTTATA
1 GAAAATTTTTATA
67230629 GAAAATTTTTAT
1 GAAAATTTTTAT
67230641 CGATTATGTG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
GAAAATTTTTATA
Found at i:67231118 original size:21 final size:23
Alignment explanation
Indices: 67231094--67231140 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
67231084 AATATGTTGT
* *
67231094 AAATTTAAAGTTTA-TGATAGA-
1 AAATTAAAAGGTTATTGATAGAG
67231115 AAA-TAAAAGGTTATTGATAGAG
1 AAATTAAAAGGTTATTGATAGAG
67231137 AAAT
1 AAAT
67231141 CACTTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
20 8 0.38
21 10 0.48
22 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.32
Consensus pattern (23 bp):
AAATTAAAAGGTTATTGATAGAG
Found at i:67231123 original size:20 final size:22
Alignment explanation
Indices: 67231100--67231140 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
67231090 TTGTAAATTT
*
67231100 AAAGTTTA-TGATAGA-AAATA
1 AAAGGTTATTGATAGAGAAATA
67231120 AAAGGTTATTGATAGAGAAAT
1 AAAGGTTATTGATAGAGAAAT
67231141 CACTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (22 bp):
AAAGGTTATTGATAGAGAAATA
Found at i:67237473 original size:44 final size:44
Alignment explanation
Indices: 67237423--67237507 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
67237413 CATGCATCGT
* * *
67237423 ATCCATAATGAACTCGGATCAACTCAATGAGCTCGGATGCCCGC
1 ATCCATAATGAACTCGGACCAACTCAACGAGCTCGAATGCCCGC
**
67237467 ATCCATAATGAACTTTGACCAACTCAACGAGCTCGAATGCC
1 ATCCATAATGAACTCGGACCAACTCAACGAGCTCGAATGCC
67237508 TCACATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (44 bp):
ATCCATAATGAACTCGGACCAACTCAACGAGCTCGAATGCCCGC
Found at i:67241049 original size:3 final size:3
Alignment explanation
Indices: 67241041--67241180 Score: 57
Period size: 3 Copynumber: 48.3 Consensus size: 3
67241031 GGGGAGAGTG
* * * *
67241041 TTA TTA TTA TTT TTA TTA -TA TTA -TA TTTA CT- TTA TTA CTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* **
67241084 CTA TTA TT- TTA -TA TATA TTTA TTA CCA TTA TTTA TT- TT- TTA TTA
1 TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* ** * *
67241128 TTA TTA GTA ACA -TA TTT TTA GTT- TTA TTA TT- TTA TTA TTA TTC
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
67241171 TTA TTA TTA T
1 TTA TTA TTA T
67241181 CATGGTACTA
Statistics
Matches: 101, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
2 18 0.18
3 71 0.70
4 11 0.11
5 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:67242377 original size:24 final size:23
Alignment explanation
Indices: 67242333--67242377 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
67242323 AGATCGATGG
* **
67242333 CGACTCCATTTTTTATTTTAAGT
1 CGACTCCATTTTTCAAATTAAGT
67242356 CGACTCCCATTTTTCAAATTAA
1 CGACT-CCATTTTTCAAATTAA
67242378 AAATGGTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (23 bp):
CGACTCCATTTTTCAAATTAAGT
Found at i:67254610 original size:7 final size:7
Alignment explanation
Indices: 67254593--67254629 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
67254583 ATACATATAT
67254593 TTTTATTA
1 TTTT-TTA
67254601 TTTTTTA
1 TTTTTTA
67254608 TTTTTTA
1 TTTTTTA
67254615 TTTTTTA
1 TTTTTTA
67254622 TTTTTTA
1 TTTTTTA
67254629 T
1 T
67254630 AATTGGAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 25 0.86
8 4 0.14
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:67256757 original size:22 final size:21
Alignment explanation
Indices: 67256714--67256765 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
67256704 ATAACATGAA
* *
67256714 ATATAAATACATAAAAAAATT
1 ATATAAAAAAATAAAAAAATT
67256735 AT-TAAAAAAATAATAAAAGATT
1 ATATAAAAAAATAA-AAAA-ATT
67256757 ATATAAAAA
1 ATATAAAAA
67256766 CATTATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 9 0.35
21 6 0.23
22 5 0.19
23 6 0.23
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
ATATAAAAAAATAAAAAAATT
Found at i:67256770 original size:13 final size:12
Alignment explanation
Indices: 67256727--67256773 Score: 53
Period size: 11 Copynumber: 4.0 Consensus size: 12
67256717 TAAATACATA
67256727 AAAAAATTAT-T
1 AAAAAATTATAT
*
67256738 AAAAAAATA-AT
1 AAAAAATTATAT
*
67256749 AAAAGATTATAT
1 AAAAAATTATAT
67256761 AAAAACATTATAT
1 AAAAA-ATTATAT
67256774 TAAATATGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (12 bp):
AAAAAATTATAT
Found at i:67261491 original size:43 final size:42
Alignment explanation
Indices: 67261443--67261573 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 42
67261433 GCAAAATTTT
* * *
67261443 GCGGCGTTTATTTAAAAAACGCCGCTAAAGACCATGGCCTTTA
1 GCGGCGTTT-TTCAGAAAACGCCGCTAAAGACCATGACCTTTA
* *
67261486 GCGGCGCTTTTCACGCAAACGCCGCTAAAGACCATGACCTTTA
1 GCGGCGTTTTTCA-GAAAACGCCGCTAAAGACCATGACCTTTA
* * *
67261529 GCGGCGCTTTTCCCGAAAACGCCGCTAAAAACCATGACCTTTA
1 GCGGCG-TTTTTCAGAAAACGCCGCTAAAGACCATGACCTTTA
67261572 GC
1 GC
67261574 AGCACTTTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
42 3 0.04
43 69 0.91
44 4 0.05
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (42 bp):
GCGGCGTTTTTCAGAAAACGCCGCTAAAGACCATGACCTTTA
Found at i:67261582 original size:43 final size:43
Alignment explanation
Indices: 67261458--67261644 Score: 202
Period size: 43 Copynumber: 4.4 Consensus size: 43
67261448 GTTTATTTAA
*
67261458 AAAACGCCGCTAAAGACCATGGCCTTTAGCGGCGCTTTTCACG
1 AAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCACG
* *
67261501 CAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCG
1 AAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCACG
* * * *
67261544 AAAACGCCGCTAAAAACCATGACCTTTAGCAGCACTTTTTTTAC-
1 AAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC--TTTTCACG
* * * * *
67261588 -AAACGCCACTACAGAACA-AACCTTTAGCGGCGCTTTTCTC-
1 AAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCACG
*
67261628 ACAAACGCTGCTAAAGA
1 A-AAACGCCGCTAAAGA
67261645 ATATAACCTT
Statistics
Matches: 119, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
40 5 0.04
42 24 0.20
43 85 0.71
45 5 0.04
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (43 bp):
AAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCACG
Found at i:67261677 original size:20 final size:20
Alignment explanation
Indices: 67261654--67261691 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
67261644 AATATAACCT
67261654 TTAAAAAATATATATTTTTA
1 TTAAAAAATATATATTTTTA
* *
67261674 TTAAATAATATTTATTTT
1 TTAAAAAATATATATTTT
67261692 CTATATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAAAAAATATATATTTTTA
Found at i:67263641 original size:6 final size:6
Alignment explanation
Indices: 67263630--67263656 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
67263620 ATTGAAAGAC
67263630 AAACCA AAACCA AAACCA AAACCA AAA
1 AAACCA AAACCA AAACCA AAACCA AAA
67263657 TCAAGTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACCA
Found at i:67269035 original size:17 final size:18
Alignment explanation
Indices: 67269002--67269035 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67268992 TATCTCTTAA
67269002 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
67269020 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
67269036 AAAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:67269541 original size:7 final size:7
Alignment explanation
Indices: 67269525--67269558 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
67269515 ACCATGGACA
*
67269525 TTAAACC
1 TTAAATC
67269532 TTAAATC
1 TTAAATC
67269539 TTAAATC
1 TTAAATC
67269546 TTAAATC
1 TTAAATC
*
67269553 ATAAAT
1 TTAAAT
67269559 TCTAAACCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (7 bp):
TTAAATC
Found at i:67270231 original size:41 final size:41
Alignment explanation
Indices: 67270186--67270334 Score: 262
Period size: 41 Copynumber: 3.6 Consensus size: 41
67270176 TTACTTTTTT
*
67270186 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCACGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
*
67270227 GCGGCGTTTTTCCAAAAGCGCAGCTAAAACCTCGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
*
67270268 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
*
67270309 GCAGCGTTTTTCCAAAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
67270335 TTGTTCAGTT
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 103 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
Found at i:67270365 original size:41 final size:41
Alignment explanation
Indices: 67270320--67270398 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
67270310 CAGCGTTTTT
* *
67270320 CCAAAAGCGCCGCTATTGTTCAGTTTTTAGCGGCGTTTGGA
1 CCAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTTGGA
*
67270361 CCAAAAACGCCTCTATTGCTCAGTTTTTAGCGGCGTTT
1 CCAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTT
67270399 TATTGCAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (41 bp):
CCAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTTGGA
Found at i:67270460 original size:12 final size:12
Alignment explanation
Indices: 67270445--67270469 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67270435 TTTTTTGTTC
67270445 AAACGCCACTAA
1 AAACGCCACTAA
67270457 AAACGCCACTAA
1 AAACGCCACTAA
67270469 A
1 A
67270470 GCCATATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.32, G:0.08, T:0.08
Consensus pattern (12 bp):
AAACGCCACTAA
Found at i:67270704 original size:20 final size:20
Alignment explanation
Indices: 67270666--67270713 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
67270656 TAAATTCTAA
* **
67270666 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
67270686 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
67270706 AAA-ATAAA
1 AAAGATAAA
67270714 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:67270815 original size:5 final size:5
Alignment explanation
Indices: 67270762--67270796 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
67270752 TAATTATCCT
67270762 AATATA AATAA AATAA AATAA AATAA AATAA AATA
1 AATA-A AATAA AATAA AATAA AATAA AATAA AATA
67270797 GAGTCTTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:67276140 original size:43 final size:43
Alignment explanation
Indices: 67276079--67276164 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
67276069 AAACCAAATC
67276079 TGCAATGTAAAATGTAATAGCGAGCATTCACCATCTCATCTAA
1 TGCAATGTAAAATGTAATAGCGAGCATTCACCATCTCATCTAA
67276122 TGCAATGTAAAATGTAATAGCGAGCATTCACCATCTCATCTAA
1 TGCAATGTAAAATGTAATAGCGAGCATTCACCATCTCATCTAA
67276165 CTTCAAACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (43 bp):
TGCAATGTAAAATGTAATAGCGAGCATTCACCATCTCATCTAA
Found at i:67284375 original size:12 final size:13
Alignment explanation
Indices: 67284352--67284387 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
67284342 CAACAACACG
67284352 AAAAATAAATAGT
1 AAAAATAAATAGT
*
67284365 AGAAA-AAATAGT
1 AAAAATAAATAGT
67284377 AAAAATAAATA
1 AAAAATAAATA
67284388 CTGTAATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (13 bp):
AAAAATAAATAGT
Found at i:67285576 original size:4 final size:4
Alignment explanation
Indices: 67285562--67285619 Score: 75
Period size: 4 Copynumber: 15.0 Consensus size: 4
67285552 GTTATTATTA
* * *
67285562 TTAT CTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA- TTAC TTCT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
67285609 TTAT TT-T TTAT
1 TTAT TTAT TTAT
67285620 ACATACTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
3 6 0.13
4 41 0.87
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:67292667 original size:26 final size:25
Alignment explanation
Indices: 67292638--67292743 Score: 68
Period size: 26 Copynumber: 4.0 Consensus size: 25
67292628 TTAGAATAGG
* *
67292638 TAATATGGGCCAAAGTTTGAAATAAA
1 TAATATGGG-AAAAGTTTAAAATAAA
*
67292664 TAATATACGGGAAAAGTTTAAAATGAA
1 TAATAT--GGGAAAAGTTTAAAATAAA
** * * *
67292691 TAATATGTAAAATAATTTAAGATAAT
1 TAATATGGGAAA-AGTTTAAAATAAA
** *
67292717 TAATATATGAATGAGTTTAAAATAAA
1 TAATATGGGAA-AAGTTTAAAATAAA
67292743 T
1 T
67292744 GTTATGTAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
25 4 0.07
26 35 0.57
27 19 0.31
28 3 0.05
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.32
Consensus pattern (25 bp):
TAATATGGGAAAAGTTTAAAATAAA
Found at i:67292927 original size:25 final size:25
Alignment explanation
Indices: 67292847--67292931 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 25
67292837 TAATATATAT
* *
67292847 AATTTTAAAGTAAATAA--TAAAAC
1 AATTTTAAAATAAATAATGTAAAAG
*
67292870 AA-TTTAAAATGAAA-AATGCATAAAG
1 AATTTTAAAAT-AAATAATGTA-AAAG
*
67292895 CAAGTTTAAAATAAATAATGTAAAAG
1 -AATTTTAAAATAAATAATGTAAAAG
67292921 AATTTTAAAAT
1 AATTTTAAAAT
67292932 CTATATTACA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
22 9 0.18
23 5 0.10
24 1 0.02
25 13 0.26
26 9 0.18
27 13 0.26
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (25 bp):
AATTTTAAAATAAATAATGTAAAAG
Found at i:67293284 original size:21 final size:20
Alignment explanation
Indices: 67293231--67293284 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
67293221 AAATAACTTA
*
67293231 AAATATAAAATAATTTGAAAT
1 AAATAT-AAATAATTTGAAAG
*
67293252 AAATATATAATAATTTTTAAAG
1 AAATATA-AATAA-TTTGAAAG
*
67293274 AATTATAAATA
1 AAATATAAATA
67293285 TCTAAAAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.04
21 15 0.54
22 12 0.43
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AAATATAAATAATTTGAAAG
Found at i:67294818 original size:5 final size:5
Alignment explanation
Indices: 67294808--67294847 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
67294798 ATCCTAAATT
*
67294808 AATAA AATAA AA-ATA AATAA AATTA AATAA AATAA AATAA
1 AATAA AATAA AATA-A AATAA AATAA AATAA AATAA AATAA
67294848 TATCTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 1 0.03
5 29 0.94
6 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:67295131 original size:13 final size:13
Alignment explanation
Indices: 67295113--67295140 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
67295103 GTGGTCTTAC
67295113 TCACACACATATA
1 TCACACACATATA
67295126 TCACACACATATA
1 TCACACACATATA
67295139 TC
1 TC
67295141 GAAATCACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (13 bp):
TCACACACATATA
Found at i:67299218 original size:41 final size:41
Alignment explanation
Indices: 67299173--67299328 Score: 278
Period size: 41 Copynumber: 3.8 Consensus size: 41
67299163 TGATTCAGTA
67299173 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
67299214 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
67299255 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
67299296 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTG
67299329 TATTACATTC
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
40 2 0.02
41 110 0.98
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:67314841 original size:78 final size:78
Alignment explanation
Indices: 67314552--67314842 Score: 431
Period size: 78 Copynumber: 3.7 Consensus size: 78
67314542 GAAGAAACAT
** * * *
67314552 ATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGGCCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
67314617 CAGATCCAAGATG
66 CAGATCCAAGATG
* *
67314630 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTTATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
*
67314695 TAGATCCAAGATG
66 CAGATCCAAGATG
* * *
67314708 ATTTGGTATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAAAT-TGGACCTTCATTGAA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAA
67314772 GCAGATCCAAGATG
65 GCAGATCCAAGATG
* * * *
67314786 ATTTGGCATCTATGTATTTGAAGGGGAGCAGATCGAAGACATAGCAGATTTGACCTT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTT
67314843 AATGTGTTTA
Statistics
Matches: 191, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.01
78 189 0.99
79 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (78 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
CAGATCCAAGATG
Found at i:67314923 original size:45 final size:45
Alignment explanation
Indices: 67314859--67315058 Score: 249
Period size: 45 Copynumber: 4.5 Consensus size: 45
67314849 TTTACATCGA
* * * *
67314859 AGCAGATCCAAGATGACAGATTTGTCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
* * *
67314904 AGCAAATCGGAGATAACAGATTTGGCATCTCTATATTAGACAGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
* * * * *
67314949 TGCAGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
* *
67314993 AGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
* *
67315038 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
67315059 ATCTCATTCC
Statistics
Matches: 133, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
44 37 0.28
45 96 0.72
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
Found at i:67314980 original size:89 final size:90
Alignment explanation
Indices: 67314859--67315058 Score: 278
Period size: 89 Copynumber: 2.2 Consensus size: 90
67314849 TTTACATCGA
* * **
67314859 AGCAGATCCAAGAT-GACAGATTTGTCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACAG
1 AGCAGATCAAAGATAG-CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAG
67314923 ATTTGGCATCTCTATATTAGACAGGG
65 ATTTGGCATCTCTATATTAGACAGGG
* ** * *
67314949 TGCAGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAGA
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAGA
* *
67315013 TTTGGCGTCTCTGTATTAGACAGGG
66 TTTGGCATCTCTATATTAGACAGGG
67315038 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAGAT
67315059 ATCTCATTCC
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
89 77 0.81
90 18 0.19
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (90 bp):
AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAGA
TTTGGCATCTCTATATTAGACAGGG
Found at i:67315485 original size:17 final size:19
Alignment explanation
Indices: 67315408--67315478 Score: 87
Period size: 18 Copynumber: 3.9 Consensus size: 19
67315398 ATAATCTTCA
67315408 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
67315426 ATGATA--CATTCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
67315443 ATGAT-TGCAATCTTAAAA
1 ATGATATGCAATCTTAGAT
67315461 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
67315479 AGATATGATT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
17 15 0.34
18 18 0.41
19 11 0.25
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:67315488 original size:40 final size:35
Alignment explanation
Indices: 67315408--67315478 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
67315398 ATAATCTTCA
* * *
67315408 ATGATTGCAATCTTAGATATGATACATTCTTAGAT
1 ATGATTGCAATCTTAAAAATGATACAATCTTAGAT
67315443 ATGATTGCAATCTTAAAAATGATATGCAATCTTAGA
1 ATGATTGCAATCTTAAAAATGATA--CAATCTTAGA
67315479 AGATATGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 22 0.71
37 9 0.29
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAAAAATGATACAATCTTAGAT
Found at i:67315801 original size:17 final size:18
Alignment explanation
Indices: 67315768--67315803 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
67315758 TGTTTCCCTA
*
67315768 ATTTTTTTATTATATTTT
1 ATTTTTTTAATATATTTT
67315786 ATTTTTTTAATA-ATTTT
1 ATTTTTTTAATATATTTT
67315803 A
1 A
67315804 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTTTTAATATATTTT
Found at i:67318141 original size:11 final size:11
Alignment explanation
Indices: 67318114--67318234 Score: 80
Period size: 11 Copynumber: 10.8 Consensus size: 11
67318104 AAACACGGCA
*
67318114 AAAAGTAGCAGC
1 AAAA-TAGCACC
*
67318126 AAAATAACACC
1 AAAATAGCACC
* *
67318137 AAAATACCATC
1 AAAATAGCACC
**
67318148 AAAGCAGCACC
1 AAAATAGCACC
* *
67318159 AAAATACCATC
1 AAAATAGCACC
*
67318170 AAAACAGCACC
1 AAAATAGCACC
67318181 AAAATAGCACC
1 AAAATAGCACC
* * *
67318192 CAAACAGCAAC
1 AAAATAGCACC
*
67318203 AAAACAGCACC
1 AAAATAGCACC
* * *
67318214 CAAACAGCACAA
1 AAAATAGCAC-C
67318226 AAAATAGCA
1 AAAATAGCA
67318235 TCACCAACAA
Statistics
Matches: 83, Mismatches: 25, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
11 72 0.87
12 11 0.13
ACGTcount: A:0.55, C:0.29, G:0.09, T:0.07
Consensus pattern (11 bp):
AAAATAGCACC
Found at i:67318158 original size:22 final size:22
Alignment explanation
Indices: 67318133--67318252 Score: 105
Period size: 22 Copynumber: 5.4 Consensus size: 22
67318123 AGCAAAATAA
*
67318133 CACCAAAATACCATCAAAGCAG
1 CACCAAAATACCATCAAAACAG
67318155 CACCAAAATACCATCAAAACAG
1 CACCAAAATACCATCAAAACAG
* * *
67318177 CACCAAAATAGCACCCAAACAG
1 CACCAAAATACCATCAAAACAG
* * * * *
67318199 CAACAAAACAGCACCCAAACAG
1 CACCAAAATACCATCAAAACAG
* * * *
67318221 CACAAAAAATAGCATCACCAACAA
1 CAC-CAAAATACCATCA-AAACAG
67318245 CACCAAAA
1 CACCAAAA
67318253 ACTTGCAAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
22 62 0.76
23 13 0.16
24 7 0.09
ACGTcount: A:0.54, C:0.33, G:0.07, T:0.06
Consensus pattern (22 bp):
CACCAAAATACCATCAAAACAG
Found at i:67318190 original size:33 final size:33
Alignment explanation
Indices: 67318120--67318252 Score: 104
Period size: 33 Copynumber: 4.0 Consensus size: 33
67318110 GGCAAAAAGT
* * * * * * *
67318120 AGCAGCAAAATAACACCAAAATACCATCAAAGC
1 AGCACCAAAATAGCATCAAAACAGCACCAAAAC
* *
67318153 AGCACCAAAATACCATCAAAACAGCACCAAAAT
1 AGCACCAAAATAGCATCAAAACAGCACCAAAAC
* * * *
67318186 AGCACCCAAACAGCAACAAAACAGCACCCAAAC
1 AGCACCAAAATAGCATCAAAACAGCACCAAAAC
* * *
67318219 AGCACAAAAAATAGCATCACCAACAACACCAAAA
1 AGCAC-CAAAATAGCATCA-AAACAGCACCAAAA
67318253 ACTTGCAAAA
Statistics
Matches: 77, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
33 57 0.74
34 9 0.12
35 11 0.14
ACGTcount: A:0.55, C:0.32, G:0.08, T:0.06
Consensus pattern (33 bp):
AGCACCAAAATAGCATCAAAACAGCACCAAAAC
Found at i:67323377 original size:17 final size:17
Alignment explanation
Indices: 67323342--67323377 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
67323332 TTAACACTTC
*
67323342 GTGCAGGTGACAACGCA
1 GTGCAGGTGACAACACA
*
67323359 GTGCAGGTGACGACACA
1 GTGCAGGTGACAACACA
67323376 GT
1 GT
67323378 AACACTCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.22, G:0.36, T:0.14
Consensus pattern (17 bp):
GTGCAGGTGACAACACA
Found at i:67324186 original size:22 final size:23
Alignment explanation
Indices: 67324155--67324197 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
67324145 GGGTGAACTT
67324155 GATAGGAAAAACACAGACGTGGG
1 GATAGGAAAAACACAGACGTGGG
* *
67324178 GATA-GAAAACCACAGGCGTG
1 GATAGGAAAAACACAGACGTG
67324198 CCAGGGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.42, C:0.16, G:0.33, T:0.09
Consensus pattern (23 bp):
GATAGGAAAAACACAGACGTGGG
Found at i:67326212 original size:10 final size:9
Alignment explanation
Indices: 67326191--67326285 Score: 60
Period size: 8 Copynumber: 10.4 Consensus size: 9
67326181 GAATCCTCCA
67326191 ATTT-TTTT
1 ATTTATTTT
67326199 ATTTATTCTT
1 ATTTATT-TT
*
67326209 ATTT-TTAT
1 ATTTATTTT
67326217 -TTTATTTT
1 ATTTATTTT
67326225 ATTTA-TTT
1 ATTTATTTT
67326233 ATTT-TTATT
1 ATTTATT-TT
67326242 -TTTATTTT
1 ATTTATTTT
67326250 GATTTTTATTTT
1 -A--TTTATTTT
67326262 CATTTCAATTTT
1 -ATTT--ATTTT
67326274 A-TTATTTT
1 ATTTATTTT
67326282 ATTT
1 ATTT
67326286 TAAAAGACAT
Statistics
Matches: 70, Mismatches: 3, Indels: 27
0.70 0.03 0.27
Matches are distributed among these distances:
7 3 0.04
8 27 0.39
9 14 0.20
10 11 0.16
11 1 0.01
12 14 0.20
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (9 bp):
ATTTATTTT
Found at i:67326215 original size:16 final size:15
Alignment explanation
Indices: 67326194--67326286 Score: 72
Period size: 14 Copynumber: 6.3 Consensus size: 15
67326184 TCCTCCAATT
67326194 TTTTTATTTATTCTTA
1 TTTTTATTTATT-TTA
67326210 TTTTTATTTTATTTTA
1 TTTTTA-TTTATTTTA
67326226 --TTTATTTATTTTTA
1 TTTTTATTTA-TTTTA
*
67326240 TTTTTA--T-TTTGA
1 TTTTTATTTATTTTA
*
67326252 TTTTTATTTTCATTTCA
1 TTTTTA-TTT-ATTTTA
*
67326269 ATTTTA-TTATTTTA
1 TTTTTATTTATTTTA
67326283 TTTT
1 TTTT
67326287 AAAAGACATA
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
12 10 0.16
13 4 0.06
14 18 0.29
15 3 0.05
16 13 0.21
17 15 0.24
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (15 bp):
TTTTTATTTATTTTA
Found at i:67326216 original size:6 final size:6
Alignment explanation
Indices: 67326191--67326266 Score: 77
Period size: 6 Copynumber: 12.7 Consensus size: 6
67326181 GAATCCTCCA
*
67326191 ATTTTT -TTATTT ATTCTT ATTTTT A-TTTT A-TTTT ATTTATTT ATTTTT
1 ATTTTT ATT-TTT ATTTTT ATTTTT ATTTTT ATTTTT A-TT-TTT ATTTTT
* *
67326239 ATTTTT ATTTTG ATTTTT ATTTTC ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
67326267 CAATTTTATT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
5 12 0.20
6 39 0.65
7 5 0.08
8 4 0.07
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:67326221 original size:5 final size:5
Alignment explanation
Indices: 67326195--67326287 Score: 70
Period size: 5 Copynumber: 18.0 Consensus size: 5
67326185 CCTCCAATTT
67326195 TTTTA -TTTA TTCTTA TTTTTA TTTTA TTTTA -TTTA -TTTA TTTTTA
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA
*
67326240 TTTTTA TTTTGA TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTTA
1 -TTTTA TTTT-A -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTTA
67326288 AAAGACATAT
Statistics
Matches: 75, Mismatches: 2, Indels: 22
0.76 0.02 0.22
Matches are distributed among these distances:
3 3 0.04
4 12 0.16
5 28 0.37
6 26 0.35
7 6 0.08
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:67326230 original size:30 final size:31
Alignment explanation
Indices: 67326191--67326260 Score: 108
Period size: 30 Copynumber: 2.3 Consensus size: 31
67326181 GAATCCTCCA
67326191 ATTTT-TTTATTTATTCTTATTTTTATTTT-
1 ATTTTATTTATTTATTCTTATTTTTATTTTG
*
67326220 ATTTTATTTATTTATTTTTATTTTTATTTTG
1 ATTTTATTTATTTATTCTTATTTTTATTTTG
67326251 ATTTTTATTT
1 A-TTTTATTT
67326261 TCATTTCAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
29 5 0.14
30 23 0.62
31 1 0.03
32 8 0.22
ACGTcount: A:0.19, C:0.01, G:0.01, T:0.79
Consensus pattern (31 bp):
ATTTTATTTATTTATTCTTATTTTTATTTTG
Found at i:67326272 original size:18 final size:18
Alignment explanation
Indices: 67326233--67326273 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
67326223 TTATTTATTT
* **
67326233 ATTTTTATTTTTATTTTG
1 ATTTTTATTTTCATTTCA
67326251 ATTTTTATTTTCATTTCA
1 ATTTTTATTTTCATTTCA
67326269 ATTTT
1 ATTTT
67326274 ATTATTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTTTATTTTCATTTCA
Found at i:67330477 original size:13 final size:13
Alignment explanation
Indices: 67330459--67330483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67330449 AAAACAACAT
67330459 ATAGAATACCCAC
1 ATAGAATACCCAC
67330472 ATAGAATACCCA
1 ATAGAATACCCA
67330484 GAAGAGATCG
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:0.48, C:0.28, G:0.08, T:0.16
Consensus pattern (13 bp):
ATAGAATACCCAC
Found at i:67331861 original size:22 final size:22
Alignment explanation
Indices: 67331799--67331863 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
67331789 TATGCACTAT
*
67331799 TAAACAGAGAGCACTAAAGTGC
1 TAAACAGAGAGCACTAATGTGC
* * **
67331821 TATACAGAAAGCAAGAATGTGC
1 TAAACAGAGAGCACTAATGTGC
67331843 TAAACAGAGAGCACTAATGTG
1 TAAACAGAGAGCACTAATGTG
67331864 TTAGTAATCG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.17
Consensus pattern (22 bp):
TAAACAGAGAGCACTAATGTGC
Found at i:67332329 original size:41 final size:41
Alignment explanation
Indices: 67332272--67332353 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
67332262 TAGAATTCCG
* *
67332272 GTATGATGTTAGCAATCAAACTTTAAGCCTTGAAATCCCAA
1 GTATGACGTTAGCAATCAAACTTTAAACCTTGAAATCCCAA
67332313 GTATGACGTTAGCAATCAAACTTTAAACCTTGAAATCCCAA
1 GTATGACGTTAGCAATCAAACTTTAAACCTTGAAATCCCAA
67332354 ATTTTCTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (41 bp):
GTATGACGTTAGCAATCAAACTTTAAACCTTGAAATCCCAA
Found at i:67332453 original size:5 final size:5
Alignment explanation
Indices: 67332443--67332520 Score: 149
Period size: 5 Copynumber: 15.8 Consensus size: 5
67332433 TTCTTTGTTT
67332443 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
67332493 TATAA TATAA TATAA TATAA TAT-A TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
67332521 CTTAACTTTT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.06
5 68 0.94
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:67333876 original size:13 final size:14
Alignment explanation
Indices: 67333860--67333895 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
67333850 CAATCTCATA
67333860 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
67333873 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
67333886 TCTC-ATTTCA
1 TCTCAATTTCA
67333896 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:67333885 original size:18 final size:19
Alignment explanation
Indices: 67333847--67333887 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
67333837 TGGTTCATGT
67333847 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
67333866 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
67333884 TTTC
1 TTTC
67333888 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:67334077 original size:39 final size:38
Alignment explanation
Indices: 67334010--67334144 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
67334000 ACCAATATGG
* * *
67334010 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
67334049 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
67334087 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
67334128 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
67334145 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:67334410 original size:18 final size:19
Alignment explanation
Indices: 67334384--67334422 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
67334374 TTTCAATTCA
67334384 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
67334403 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
67334421 AT
1 AT
67334423 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:67335752 original size:5 final size:5
Alignment explanation
Indices: 67335742--67335798 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
67335732 TTACTTATTT
* *
67335742 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
67335790 ATAT- ATATA
1 ATATA ATATA
67335799 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:67335758 original size:12 final size:12
Alignment explanation
Indices: 67335741--67335796 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
67335731 TTTACTTATT
67335741 TATATAATATAA
1 TATATAATATAA
67335753 TATATAATATAATA
1 TATATAATAT-A-A
67335767 TACTATAATATAA
1 TA-TATAATATAA
*
67335780 TA-ATAATTTAA
1 TATATAATATAA
67335791 TATATA
1 TATATA
67335797 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:67335811 original size:26 final size:26
Alignment explanation
Indices: 67335743--67335798 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
67335733 TACTTATTTA
*
67335743 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
67335770 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
67335795 TATA
1 TATA
67335799 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:67339247 original size:35 final size:35
Alignment explanation
Indices: 67339201--67339275 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
67339191 CCAAATCCGG
*
67339201 CGAGTAAGCTCGTATATTTTATTATTTAATATTTA
1 CGAGTAAGCTCGTACATTTTATTATTTAATATTTA
67339236 CGAGTAAGCTCGTACATTTTATTATTTAATATTTA
1 CGAGTAAGCTCGTACATTTTATTATTTAATATTTA
67339271 CGAGT
1 CGAGT
67339276 CAAATATGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (35 bp):
CGAGTAAGCTCGTACATTTTATTATTTAATATTTA
Found at i:67339717 original size:29 final size:29
Alignment explanation
Indices: 67339683--67339741 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
67339673 ATATATTGAA
67339683 CTTAAATAAGACAAATTGAAATTTAAAAG
1 CTTAAATAAGACAAATTGAAATTTAAAAG
67339712 CTTAAATAAGACAAATTGAAATTTAAAAG
1 CTTAAATAAGACAAATTGAAATTTAAAAG
67339741 C
1 C
67339742 ATTCTAGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.27
Consensus pattern (29 bp):
CTTAAATAAGACAAATTGAAATTTAAAAG
Found at i:67340181 original size:21 final size:21
Alignment explanation
Indices: 67340152--67340265 Score: 104
Period size: 21 Copynumber: 5.4 Consensus size: 21
67340142 TTTTACTTTT
* *
67340152 TGTTTAGCTCTTTCGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
67340173 TGTTCAGCTCTTACGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
* ** * *
67340194 AGTTCAAATCTTATGAGTTTC
1 TGTTCAGCTCTTACGAGCTTC
* * *
67340215 TATTCAGTTCTTACGAGCTGC
1 TGTTCAGCTCTTACGAGCTTC
* *
67340236 TATTCAGCTCTTAC-ATGCTTT
1 TGTTCAGCTCTTACGA-GCTTC
67340257 TGTTCAGCT
1 TGTTCAGCT
67340266 TTTGAGCTTT
Statistics
Matches: 74, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
20 1 0.01
21 73 0.99
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.43
Consensus pattern (21 bp):
TGTTCAGCTCTTACGAGCTTC
Found at i:67342804 original size:34 final size:34
Alignment explanation
Indices: 67342761--67342828 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
67342751 CTTAACGAGT
* *
67342761 TTATTTTTAACGCATAGGTACAGTTAGACTCGAA
1 TTATTTTTAACGCATAGGTACAATTAAACTCGAA
67342795 TTATTTTTAACGCATAGGTACAATTAAACTCGAA
1 TTATTTTTAACGCATAGGTACAATTAAACTCGAA
67342829 GAGGTAGAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (34 bp):
TTATTTTTAACGCATAGGTACAATTAAACTCGAA
Found at i:67344913 original size:30 final size:30
Alignment explanation
Indices: 67344879--67344939 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
67344869 TTCCCGAGCC
*
67344879 TAGGGGCAAAAGTGTAAATATGTAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
67344909 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
67344939 T
1 T
67344940 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:67347679 original size:19 final size:19
Alignment explanation
Indices: 67347655--67347732 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
67347645 AATCATATCT
67347655 TCTAAGATTACATATCTTA
1 TCTAAGATTACATATCTTA
**
67347674 TCTAAGA-TATGTAATCTTA
1 TCTAAGATTACAT-ATCTTA
*
67347693 --TAA-AATA-ATATCTTA
1 TCTAAGATTACATATCTTA
*
67347708 --TAAGATTACATATCATA
1 TCTAAGATTACATATCTTA
67347725 TCTAAGAT
1 TCTAAGAT
67347733 CTCTAAGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 9 0.19
16 5 0.10
17 12 0.25
18 3 0.06
19 19 0.40
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCTTA
Found at i:67347695 original size:51 final size:51
Alignment explanation
Indices: 67347632--67347764 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 51
67347622 CAATCAAATC
* * *
67347632 TCTAAGAATATAAAATCATATCTTCTAAGATTACATATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
67347683 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
*
67347734 TCTAAGATTATAAAATCATATCTTTTAAGAT
1 TCTAAGATTATAAAATCATATCTTATAAGAT
67347765 CATGTTTCCA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:67367809 original size:41 final size:41
Alignment explanation
Indices: 67367731--67367825 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 41
67367721 AGTATGATGC
* **
67367731 AGTCGTATTTGTTGCCTATTACCTCAACTGATATTGTGACG
1 AGTCGTATTTATTGCCTATTACCTCAACCAATATTGTGACG
* * * * *
67367772 AGTCATATTTATTGTCTATTATCTCAACCAATTTTGTGATG
1 AGTCGTATTTATTGCCTATTACCTCAACCAATATTGTGACG
*
67367813 AGTTGTATTTATT
1 AGTCGTATTTATT
67367826 ACCTCTTTTC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (41 bp):
AGTCGTATTTATTGCCTATTACCTCAACCAATATTGTGACG
Found at i:67375911 original size:28 final size:29
Alignment explanation
Indices: 67375879--67375936 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
67375869 TCTTGTAAAT
* *
67375879 AGAAACTA-ATCTCAGTTACTGATTCTTA
1 AGAAACTAGATATCAATTACTGATTCTTA
*
67375907 AGAAATTAGGATATCAATTACTGATTCTTA
1 AGAAACTA-GATATCAATTACTGATTCTTA
67375937 GGGATTAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.28
30 18 0.72
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (29 bp):
AGAAACTAGATATCAATTACTGATTCTTA
Found at i:67382298 original size:32 final size:32
Alignment explanation
Indices: 67382240--67382302 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
67382230 ATTAATCCGT
*
67382240 ATGAGTTATCAAATTATATTAATTAATTTATC
1 ATGAGTTATCAAATTATAGTAATTAATTTATC
* *
67382272 ATGAGTTATTAAATTCA-AGTAGTTAATTTAT
1 ATGAGTTATCAAATT-ATAGTAATTAATTTAT
67382303 AAATGTATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.46
Consensus pattern (32 bp):
ATGAGTTATCAAATTATAGTAATTAATTTATC
Found at i:67382467 original size:16 final size:16
Alignment explanation
Indices: 67382446--67382488 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
67382436 CTGAAATTTA
67382446 AATATTTTATTAAAAT
1 AATATTTTATTAAAAT
*
67382462 AATATTTTAATTAATAT
1 AATATTTT-ATTAAAAT
*
67382479 CAT-TTTTATT
1 AATATTTTATT
67382489 TAATAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.12
16 12 0.50
17 9 0.38
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
AATATTTTATTAAAAT
Found at i:67383553 original size:24 final size:22
Alignment explanation
Indices: 67383526--67383579 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
67383516 AAGTAATGGC
67383526 AAATATATATATAACTTTTTTTAT
1 AAATATATATATAA--TTTTTTAT
* *
67383550 AAATAAATATATTATTTTTTAT
1 AAATATATATATAATTTTTTAT
67383572 AACATATA
1 AA-ATATA
67383580 GCAGCATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 10 0.38
23 4 0.15
24 12 0.46
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATATATATATAATTTTTTAT
Found at i:67388017 original size:22 final size:24
Alignment explanation
Indices: 67387979--67388023 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
67387969 AATGCAATAT
67387979 TGTTGAAAAATCAAATAA-AAAAG
1 TGTTGAAAAATCAAATAAGAAAAG
67388002 TGTTG-AAAA-CACAATAAGAAAA
1 TGTTGAAAAATCA-AATAAGAAAA
67388024 AAACATAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.10
22 9 0.45
23 9 0.45
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (24 bp):
TGTTGAAAAATCAAATAAGAAAAG
Found at i:67391833 original size:19 final size:19
Alignment explanation
Indices: 67391809--67391852 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
67391799 ACGTAAAAAG
67391809 TAAAAAGAAAAAGATGAAA
1 TAAAAAGAAAAAGATGAAA
*
67391828 TAAAAATAAAAAGATGAAA
1 TAAAAAGAAAAAGATGAAA
67391847 TAAAAA
1 TAAAAA
67391853 AATAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (19 bp):
TAAAAAGAAAAAGATGAAA
Found at i:67391871 original size:21 final size:21
Alignment explanation
Indices: 67391810--67391863 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 21
67391800 CGTAAAAAGT
* *
67391810 AAAAAGAAAAAGATGAAAT--
1 AAAAATAAAAAAATGAAATAA
*
67391829 AAAAATAAAAAGATGAAATAA
1 AAAAATAAAAAAATGAAATAA
67391850 AAAAATAAAAAAAT
1 AAAAATAAAAAAAT
67391864 AATTTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 18 0.58
21 13 0.42
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (21 bp):
AAAAATAAAAAAATGAAATAA
Found at i:67392755 original size:11 final size:11
Alignment explanation
Indices: 67392741--67392811 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
67392731 ATAGCTTAAG
*
67392741 AAAATTAATAT
1 AAAATTAAAAT
67392752 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
67392764 AATAA-T-AATT
1 AA-AATTAAAAT
*
67392774 AAAAAT-AAAT
1 AAAATTAAAAT
67392784 AAAATTAAAAT
1 AAAATTAAAAT
*
67392795 AAACTTAAAAT
1 AAAATTAAAAT
*
67392806 AGAATT
1 AAAATT
67392812 TCTTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:67392780 original size:16 final size:16
Alignment explanation
Indices: 67392750--67392797 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
67392740 GAAAATTAAT
67392750 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
67392765 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
67392782 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
67392797 A
1 A
67392798 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:67397035 original size:19 final size:18
Alignment explanation
Indices: 67397011--67397058 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
67397001 ACGTAAAAAG
67397011 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
67397030 TAAAAATAAAAAGATGAAA
1 TAAAAAT-AAAAGATGAAA
67397049 TAAAAATAAA
1 TAAAAATAAA
67397059 TAACAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:67397983 original size:16 final size:16
Alignment explanation
Indices: 67397953--67398000 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
67397943 GAAAATTAAT
67397953 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
67397968 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
67397985 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
67398000 A
1 A
67398001 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:67397999 original size:11 final size:11
Alignment explanation
Indices: 67397944--67398014 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
67397934 ATAGCTTAAG
*
67397944 AAAATTAATAT
1 AAAATTAAAAT
67397955 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
67397967 AATAA-T-AATT
1 AA-AATTAAAAT
*
67397977 AAAAAT-AAAT
1 AAAATTAAAAT
67397987 AAAATTAAAAT
1 AAAATTAAAAT
*
67397998 AAACTTAAAAT
1 AAAATTAAAAT
*
67398009 AGAATT
1 AAAATT
67398015 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:67406109 original size:16 final size:16
Alignment explanation
Indices: 67406084--67406131 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
67406074 CTATTTTAAG
67406084 TTTA-TTTTAATTTTA
1 TTTATTTTTAATTTTA
67406099 TTTATTTTTAATTATTA
1 TTTATTTTTAATT-TTA
*
67406116 -TTATTTTAAATTTTA
1 TTTATTTTTAATTTTA
67406131 T
1 T
67406132 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.24
16 19 0.66
17 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATTTTTAATTTTA
Found at i:67407067 original size:19 final size:19
Alignment explanation
Indices: 67407020--67407059 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
67407010 TATTTTGTTA
67407020 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
67407039 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
67407058 TT
1 TT
67407060 ACTTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:67411314 original size:16 final size:16
Alignment explanation
Indices: 67411295--67411346 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
67411285 TTTAAGTTTA
67411295 TTTAATTTTAT-TTATT
1 TTTAATTTTATATTA-T
67411311 TTTAATTTT-TATTAT
1 TTTAATTTTATATTAT
67411326 TTTAGATTTTATATTAAT
1 TTTA-ATTTTATATT-AT
67411344 TTT
1 TTT
67411347 CTTAAGCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 6 0.19
16 17 0.53
17 4 0.12
18 5 0.16
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTAATTTTATATTAT
Found at i:67412249 original size:19 final size:19
Alignment explanation
Indices: 67412225--67412264 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
67412215 TATTTTGTTA
67412225 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
67412244 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
67412263 TT
1 TT
67412265 ACCTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:67415796 original size:57 final size:57
Alignment explanation
Indices: 67415708--67415820 Score: 226
Period size: 57 Copynumber: 2.0 Consensus size: 57
67415698 CATGTTGTTG
67415708 CCTCTAAGTTTTCCCACCTTGAAACAGATTGTGAACAGTTTGCAAAACCTGTATATT
1 CCTCTAAGTTTTCCCACCTTGAAACAGATTGTGAACAGTTTGCAAAACCTGTATATT
67415765 CCTCTAAGTTTTCCCACCTTGAAACAGATTGTGAACAGTTTGCAAAACCTGTATAT
1 CCTCTAAGTTTTCCCACCTTGAAACAGATTGTGAACAGTTTGCAAAACCTGTATAT
67415821 GATAACTTCG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (57 bp):
CCTCTAAGTTTTCCCACCTTGAAACAGATTGTGAACAGTTTGCAAAACCTGTATATT
Found at i:67416660 original size:13 final size:13
Alignment explanation
Indices: 67416644--67416672 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
67416634 TGTTTAACCA
67416644 AATATAAATTGAT
1 AATATAAATTGAT
67416657 AATATAAATTGAT
1 AATATAAATTGAT
67416670 AAT
1 AAT
67416673 CATTTATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (13 bp):
AATATAAATTGAT
Found at i:67419906 original size:6 final size:6
Alignment explanation
Indices: 67419880--67419925 Score: 65
Period size: 6 Copynumber: 7.3 Consensus size: 6
67419870 ATAAATCTTC
*
67419880 AAAAAT AAATAT AGGAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT A--AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
67419926 TAAAAAGGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 31 0.86
8 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:67420008 original size:22 final size:24
Alignment explanation
Indices: 67419980--67420024 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
67419970 GGCGCTGGTG
67419980 GAAAGGGAA-AAA-GAAAGGGAAA
1 GAAAGGGAAGAAATGAAAGGGAAA
*
67420002 GAAAGGGAAGAAATGAAGGGGAA
1 GAAAGGGAAGAAATGAAAGGGAA
67420025 GTCGTGGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 3 0.15
24 8 0.40
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (24 bp):
GAAAGGGAAGAAATGAAAGGGAAA
Found at i:67429805 original size:3 final size:3
Alignment explanation
Indices: 67429799--67429827 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
67429789 CCTGACTCTC
67429799 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
67429828 ACAAGCTCGG
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:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:67433372 original size:12 final size:12
Alignment explanation
Indices: 67433355--67433380 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
67433345 AAAATAGGGC
67433355 TTTAGCGGCGTT
1 TTTAGCGGCGTT
67433367 TTTAGCGGCGTT
1 TTTAGCGGCGTT
67433379 TT
1 TT
67433381 ATCAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:67434081 original size:24 final size:24
Alignment explanation
Indices: 67434054--67434102 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
67434044 CGTATATTTA
*
67434054 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
67434078 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
67434102 T
1 T
67434103 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:67434200 original size:21 final size:22
Alignment explanation
Indices: 67434176--67434221 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
67434166 ATGATTTACA
*
67434176 GTTTATGGTTTAAGG-GTT-GGG
1 GTTTAAGGTTT-AGGTGTTAGGG
67434197 GTTTAAGGTTTAGGTGTTAGGG
1 GTTTAAGGTTTAGGTGTTAGGG
67434219 GTT
1 GTT
67434222 AGGGGTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 13 0.59
22 6 0.27
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.43
Consensus pattern (22 bp):
GTTTAAGGTTTAGGTGTTAGGG
Found at i:67434606 original size:22 final size:21
Alignment explanation
Indices: 67434563--67434607 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
67434553 AATTTAATCT
*
67434563 AATTATTTTAAATATTACTTA
1 AATTATTTTAAAAATTACTTA
* *
67434584 AATTTTTTTAAAAAATTATTTA
1 AATTATTTT-AAAAATTACTTA
67434606 AA
1 AA
67434608 ATTAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTATTTTAAAAATTACTTA
Done.