Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 95 of 120
Found at i:27313276 original size:12 final size:12
Alignment explanation
Indices: 27313259--27313283 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27313249 CTGCTTAGTA
27313259 TTAGTTAAACAT
1 TTAGTTAAACAT
27313271 TTAGTTAAACAT
1 TTAGTTAAACAT
27313283 T
1 T
27313284 AGATAACCAA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTAGTTAAACAT
Found at i:27314000 original size:21 final size:21
Alignment explanation
Indices: 27313959--27314000 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
27313949 TATTTTCACT
*
27313959 TTTTAAATATAAAATATTTAA
1 TTTTAAATATAAAATAATTAA
*
27313980 TTTTATATAATAAAA-AATTAA
1 TTTTAAAT-ATAAAATAATTAA
27314001 AATTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTTAAATATAAAATAATTAA
Found at i:27315488 original size:23 final size:22
Alignment explanation
Indices: 27315462--27315563 Score: 68
Period size: 23 Copynumber: 4.5 Consensus size: 22
27315452 ATTTATCATT
*
27315462 TAAATATATAATTTTAATATATA
1 TAAATATATAA-TATAATATATA
*
27315485 TAAATTATATAA-ATTAAAATATA
1 TAAA-TATATAATA-TAATATATA
* *
27315508 TTAATA-AT-ATAGAATAATATA
1 TAAATATATAATATAAT-ATATA
*
27315529 TAAATAATATTAATA-ATATATAAA
1 TAAAT-ATA-TAATATA-ATATATA
27315553 TAAATATATAA
1 TAAATATATAA
27315564 AGAAAATATG
Statistics
Matches: 63, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
20 3 0.05
21 12 0.19
22 6 0.10
23 19 0.30
24 18 0.29
25 5 0.08
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (22 bp):
TAAATATATAATATAATATATA
Found at i:27315517 original size:9 final size:9
Alignment explanation
Indices: 27315484--27315547 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 9
27315474 TTTAATATAT
27315484 ATAA-ATTA
1 ATAATATTA
27315492 TATAA-ATTA
1 -ATAATATTA
*
27315501 AAATATATTA
1 ATA-ATATTA
*
27315511 ATAATATAGA
1 ATAATAT-TA
27315521 ATAATATATAA
1 ATAATAT-T-A
27315532 ATAATATTA
1 ATAATATTA
27315541 ATAATAT
1 ATAATAT
27315548 ATAAATAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
8 2 0.04
9 21 0.45
10 16 0.34
11 8 0.17
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (9 bp):
ATAATATTA
Found at i:27315526 original size:21 final size:21
Alignment explanation
Indices: 27315480--27315560 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 21
27315470 TAATTTTAAT
*
27315480 ATATATAAATTATATA-AATTAAA
1 ATATATAAATAATATAGAA-T--A
*
27315503 ATATATTAATAATATAGAATA
1 ATATATAAATAATATAGAATA
*
27315524 ATATATAAATAATAT-TAATA
1 ATATATAAATAATATAGAATA
27315544 ATATATAAATAAATATA
1 ATATATAAAT-AATATA
27315561 TAAAGAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
20 14 0.27
21 20 0.39
23 15 0.29
24 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (21 bp):
ATATATAAATAATATAGAATA
Found at i:27315541 original size:30 final size:31
Alignment explanation
Indices: 27315462--27315564 Score: 101
Period size: 30 Copynumber: 3.4 Consensus size: 31
27315452 ATTTATCATT
27315462 TAAATATAT-AAT-T-TTAAT-ATATATAAA
1 TAAATATATAAATATATTAATAATATATAAA
* * *
27315489 TTATATAAATTAAAATATATTAATAATATA-GAA
1 -TAAATATA-T-AAATATATTAATAATATATAAA
27315522 T-AATATATAAATAATATTAATAATATATAAA
1 TAAATATATAAAT-ATATTAATAATATATAAA
27315553 TAAATATATAAA
1 TAAATATATAAA
27315565 GAAAATATGC
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
28 6 0.10
29 5 0.08
30 15 0.25
31 10 0.17
32 12 0.20
33 7 0.12
34 5 0.08
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (31 bp):
TAAATATATAAATATATTAATAATATATAAA
Found at i:27315572 original size:23 final size:21
Alignment explanation
Indices: 27315480--27315572 Score: 71
Period size: 23 Copynumber: 4.2 Consensus size: 21
27315470 TAATTTTAAT
*
27315480 ATATATAAATTATATAAATTAAA
1 ATATATAAA-TATATAAA-GAAA
* *
27315503 ATATATTAATA-ATATAGAATA
1 ATATATAAATATATAAAGAA-A
* *
27315524 ATATATAAATAATATTAATAATA
1 ATATATAAAT-ATATAAAGAA-A
*
27315547 TATAAATAAATATATAAAGAAA
1 -ATATATAAATATATAAAGAAA
27315569 ATAT
1 ATAT
27315573 GCGATATATA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
20 2 0.04
21 17 0.31
22 4 0.07
23 23 0.42
24 9 0.16
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATATAAATATATAAAGAAA
Found at i:27315616 original size:22 final size:22
Alignment explanation
Indices: 27315576--27315637 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 22
27315566 AAAATATGCG
27315576 ATATATATATATATATATA-TATA
1 ATATAT-TATATATATATACT-TA
27315599 ACTA-ATTATATACT-TATACTTA
1 A-TATATTATATA-TATATACTTA
27315621 ATATATTATATAGTATA
1 ATATATTATATA-TATA
27315638 ATGTCAGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
21 2 0.06
22 22 0.67
23 7 0.21
24 2 0.06
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (22 bp):
ATATATTATATATATATACTTA
Found at i:27324524 original size:20 final size:20
Alignment explanation
Indices: 27324499--27324538 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
27324489 TCATTTTATC
27324499 TTTTTTAAAAATTAATTTTA
1 TTTTTTAAAAATTAATTTTA
*
27324519 TTTTTTAATAATTAATTTTA
1 TTTTTTAAAAATTAATTTTA
27324539 GTTGTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTTAAAAATTAATTTTA
Found at i:27325574 original size:22 final size:23
Alignment explanation
Indices: 27325548--27325590 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
27325538 AAAAGGAAAA
27325548 ACTTGAGATTTTAC-AGAAAATT
1 ACTTGAGATTTTACAAGAAAATT
* *
27325570 ACTTGCGTTTTTACAAGAAAA
1 ACTTGAGATTTTACAAGAAAA
27325591 ACCCATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (23 bp):
ACTTGAGATTTTACAAGAAAATT
Found at i:27326467 original size:20 final size:21
Alignment explanation
Indices: 27326428--27326467 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
27326418 TCTCTCTCCT
* *
27326428 CTTTCATCTTCTTCTTCACTC
1 CTTTCATCTTCTTATCCACTC
27326449 CTTT-ATCTTCTTATCCACT
1 CTTTCATCTTCTTATCCACT
27326468 TCATCTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (21 bp):
CTTTCATCTTCTTATCCACTC
Found at i:27328186 original size:43 final size:43
Alignment explanation
Indices: 27328138--27328219 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
27328128 ATGCGCCAGG
* *
27328138 ATGCACCTCATGTGCCATGATGCGCTTCGTGCACTAATGCAGT
1 ATGCACCTCATGTGCCATCATGCGCTTCGTGCACCAATGCAGT
* * * *
27328181 ATGCACTTCATGTGGCTTCATGCGCTTTGTGCACCAATG
1 ATGCACCTCATGTGCCATCATGCGCTTCGTGCACCAATG
27328220 ATACGCTTCG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (43 bp):
ATGCACCTCATGTGCCATCATGCGCTTCGTGCACCAATGCAGT
Found at i:27332296 original size:92 final size:93
Alignment explanation
Indices: 27332109--27332296 Score: 342
Period size: 92 Copynumber: 2.0 Consensus size: 93
27332099 TGACAAAGAT
27332109 GAGGATTAGATAATTCTTTATATACTGGCTGTGTTGCATAATGGAAAAAAAAGGGGAAAAAAGAA
1 GAGGATTAGATAATTCTTTATATACTGGCTGTGTTGCATAATGG-AAAAAAAGGGGAAAAAAGAA
*
27332174 CACCCAAATCTAGATTTTATCTTCCAGGA
65 CACCCAAATCTAGATTGTATCTTCCAGGA
*
27332203 GAGGATTAGATAATTCTTTATATACTGGCTGTGTTGCATATTGG-AAAAAAGGGGAAAAAAGAAC
1 GAGGATTAGATAATTCTTTATATACTGGCTGTGTTGCATAATGGAAAAAAAGGGGAAAAAAGAAC
27332267 ACCCAAATCTAGATTGTATCTTCCAGGA
66 ACCCAAATCTAGATTGTATCTTCCAGGA
27332295 GA
1 GA
27332297 AGTGGTATAC
Statistics
Matches: 92, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
92 49 0.53
94 43 0.47
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (93 bp):
GAGGATTAGATAATTCTTTATATACTGGCTGTGTTGCATAATGGAAAAAAAGGGGAAAAAAGAAC
ACCCAAATCTAGATTGTATCTTCCAGGA
Found at i:27334617 original size:6 final size:6
Alignment explanation
Indices: 27334606--27334632 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
27334596 TACATTCATT
27334606 ATCCTC ATCCTC ATCCTC ATCCTC ATC
1 ATCCTC ATCCTC ATCCTC ATCCTC ATC
27334633 AAAATCTTCC
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:0.19, C:0.48, G:0.00, T:0.33
Consensus pattern (6 bp):
ATCCTC
Found at i:27335529 original size:27 final size:28
Alignment explanation
Indices: 27335471--27335535 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
27335461 CACACAATTG
27335471 AGAATGAT-AATTTTTTAGTTTAGTTGAT
1 AGAAT-ATAAATTTTTTAGTTTAGTTGAT
* *
27335499 AGAATTTAAATTTTTT-GTTTGGTTGGA-
1 AGAATATAAATTTTTTAGTTTAGTT-GAT
27335526 AGAATATAAA
1 AGAATATAAA
27335536 ATAAGTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 17 0.53
28 15 0.47
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.46
Consensus pattern (28 bp):
AGAATATAAATTTTTTAGTTTAGTTGAT
Found at i:27335537 original size:28 final size:28
Alignment explanation
Indices: 27335479--27335537 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
27335469 TGAGAATGAT
*
27335479 AATTTTTTAGTTTAGTTGATAGAATTTA
1 AATTTTTTAGTTTAGTTGATAGAATTAA
*
27335507 AATTTTTT-GTTTGGTTGGA-AGAATATAA
1 AATTTTTTAGTTTAGTT-GATAGAAT-TAA
27335535 AAT
1 AAT
27335538 AAGTTAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (28 bp):
AATTTTTTAGTTTAGTTGATAGAATTAA
Found at i:27355558 original size:21 final size:19
Alignment explanation
Indices: 27355524--27355580 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
27355514 AATTTTTTTC
*
27355524 CTTTTATTTTCCTTCTAAAA
1 CTTTTATCTTCCTTC-AAAA
27355544 CTTTTACTCTTCCTTCAAAA
1 CTTTTA-TCTTCCTTCAAAA
* *
27355564 ATTTTAT-TTCCTCCAAA
1 CTTTTATCTTCCTTCAAA
27355581 CCATCCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 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:0.26, C:0.25, G:0.00, T:0.49
Consensus pattern (19 bp):
CTTTTATCTTCCTTCAAAA
Found at i:27359980 original size:26 final size:26
Alignment explanation
Indices: 27359951--27360007 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
27359941 ATTCGATGAA
*
27359951 ATTA-ATTAATTTCACATTAATATATT
1 ATTATATTAA-TTAACATTAATATATT
* *
27359977 ATTATATTAATTAATATTAATTTATT
1 ATTATATTAATTAACATTAATATATT
27360003 ATTAT
1 ATTAT
27360008 CACATAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTATATTAATTAACATTAATATATT
Found at i:27360934 original size:16 final size:16
Alignment explanation
Indices: 27360888--27360936 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
27360878 TAAATCTAGG
27360888 TAATTAATTA-CTAAAA
1 TAATTAATTATC-AAAA
*
27360904 T-A-TAA-TATAAAAA
1 TAATTAATTATCAAAA
27360917 TAATTAATTATCAAAA
1 TAATTAATTATCAAAA
27360933 TAAT
1 TAAT
27360937 ATCCTCATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 7 0.26
14 4 0.15
15 4 0.15
16 12 0.44
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATTAATTATCAAAA
Found at i:27366647 original size:27 final size:27
Alignment explanation
Indices: 27366588--27366648 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
27366578 AAATAAATGC
* *
27366588 AAAAAATCAGAAAAAAAGGAAAATTTT
1 AAAAAATCAGAAAAAAAGGAAAAATCT
*
27366615 AGAAAAAT-AGCAAAAAAGGAAACAATCT
1 A-AAAAATCAGAAAAAAAGGAAA-AATCT
27366643 AAAAAA
1 AAAAAA
27366649 ATTAAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (27 bp):
AAAAAATCAGAAAAAAAGGAAAAATCT
Found at i:27366648 original size:28 final size:28
Alignment explanation
Indices: 27366588--27366650 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
27366578 AAATAAATGC
* *
27366588 AAAAAATCAGAAAAAAAGGAAAATTTTA
1 AAAAAATCAGAAAAAAAGGAAAAATCTA
* *
27366616 GAAAAAT-AGCAAAAAAGGAAACAATCTA
1 AAAAAATCAGAAAAAAAGGAAA-AATCTA
27366644 AAAAAAT
1 AAAAAAT
27366651 TAAAATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 13 0.45
28 16 0.55
ACGTcount: A:0.68, C:0.06, G:0.11, T:0.14
Consensus pattern (28 bp):
AAAAAATCAGAAAAAAAGGAAAAATCTA
Found at i:27370249 original size:17 final size:15
Alignment explanation
Indices: 27370224--27370267 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
27370214 AAATATAAAT
27370224 AATAATTTATTAATAA
1 AATAATTTATT-ATAA
27370240 AATCAATTTAAATTATAA
1 AAT-AATTT--ATTATAA
27370258 AATAATTTAT
1 AATAATTTAT
27370268 ATTTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 2 0.08
16 3 0.12
17 10 0.40
18 7 0.28
19 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AATAATTTATTATAA
Found at i:27385256 original size:43 final size:43
Alignment explanation
Indices: 27385192--27385275 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
27385182 GATTTTCCAA
27385192 TAGGTTTCTCAATTGTAATTTTATTTCAGTAGATTGCTTTCTT
1 TAGGTTTCTCAATTGTAATTTTATTTCAGTAGATTGCTTTCTT
* * *
27385235 TAGGTTTCTCGATTG-AGATTTTATTTCAGTTGATTTCTTTC
1 TAGGTTTCTCAATTGTA-ATTTTATTTCAGTAGATTGCTTTC
27385276 CTTTCTACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.19, C:0.12, G:0.15, T:0.54
Consensus pattern (43 bp):
TAGGTTTCTCAATTGTAATTTTATTTCAGTAGATTGCTTTCTT
Found at i:27388972 original size:16 final size:16
Alignment explanation
Indices: 27388927--27388976 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
27388917 TAAACCTAGC
27388927 TAATTAATTATCAAAA
1 TAATTAATTATCAAAA
*
27388943 T-A-TAA-TATAAAAAA
1 TAATTAATTAT-CAAAA
27388957 TAATTAATTATCAAAA
1 TAATTAATTATCAAAA
27388973 TAAT
1 TAAT
27388977 ATCCCCATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 3 0.11
14 8 0.29
15 2 0.07
16 12 0.43
17 3 0.11
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (16 bp):
TAATTAATTATCAAAA
Found at i:27389043 original size:30 final size:30
Alignment explanation
Indices: 27389009--27389103 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
27388999 AAATAGTACA
*
27389009 AAATAAATATTTATTTTGTACCATTTTAGT
1 AAATAAATATATATTTTGTACCATTTTAGT
** * * * * *
27389039 AAAT-AAT-GGTGTGTGGATACCAATTTGGT
1 AAATAAATATATATTTTG-TACCATTTTAGT
*
27389068 ATATAAATATATATTTTGTACCATTTTAGT
1 AAATAAATATATATTTTGTACCATTTTAGT
27389098 AAATAA
1 AAATAA
27389104 TCCATTTGGT
Statistics
Matches: 46, Mismatches: 16, Indels: 6
0.68 0.24 0.09
Matches are distributed among these distances:
28 4 0.09
29 16 0.35
30 22 0.48
31 4 0.09
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (30 bp):
AAATAAATATATATTTTGTACCATTTTAGT
Found at i:27391007 original size:21 final size:21
Alignment explanation
Indices: 27390961--27391007 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
27390951 ACGAGCCACC
* *
27390961 GCAATACTTTACTCTTCCCGG
1 GCAATACTCTACTCCTCCCGG
* *
27390982 ACAATACTCTACTCCTCCGGG
1 GCAATACTCTACTCCTCCCGG
27391003 GCAAT
1 GCAAT
27391008 TGGACCCTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (21 bp):
GCAATACTCTACTCCTCCCGG
Found at i:27394323 original size:4 final size:4
Alignment explanation
Indices: 27394304--27394381 Score: 68
Period size: 4 Copynumber: 19.2 Consensus size: 4
27394294 ACACATTACA
* * * * * *
27394304 TTTC TTTC CTTC -TTC TTTC TTTCC TCTC CTTC TTCC TTCC TTCC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTT-C TTTC TTTC TTTC TTTC TTTC TTTC
*
27394352 TTTC TTGC TTTC TTTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC -TTTC TTTC TTTC TTTC T
27394382 CGTTTATTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
3 3 0.05
4 52 0.84
5 7 0.11
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:27394370 original size:17 final size:17
Alignment explanation
Indices: 27394348--27394381 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27394338 CCTTCCTTCC
27394348 TTTCTTTCTTGCTTTCT
1 TTTCTTTCTTGCTTTCT
*
27394365 TTTCTTTCTTTCTTTCT
1 TTTCTTTCTTGCTTTCT
27394382 CGTTTATTTG
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:0.00, C:0.24, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTCTTTCTTGCTTTCT
Found at i:27394758 original size:15 final size:15
Alignment explanation
Indices: 27394738--27394777 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
27394728 TCCCATGGTG
27394738 CCGCCACTTAGAGTC
1 CCGCCACTTAGAGTC
27394753 CCGCCACTTAGAGTC
1 CCGCCACTTAGAGTC
27394768 CCGCCACTTA
1 CCGCCACTTA
27394778 ACTAATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.20, C:0.42, G:0.17, T:0.20
Consensus pattern (15 bp):
CCGCCACTTAGAGTC
Found at i:27394982 original size:22 final size:21
Alignment explanation
Indices: 27394958--27395017 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 21
27394948 TCATTCAACT
*
27394958 CTCTCAATTCTTTTATTC-TAA
1 CTCTCAATT-TTTAATTCTTAA
27394979 -TCTCAATTTTTAATTCTTAA
1 CTCTCAATTTTTAATTCTTAA
27394999 CCTCTCAATATTCTTAATT
1 -CTCTCAAT-TT-TTAATT
27395018 TTTTATCCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 7 0.21
20 11 0.33
22 7 0.21
23 2 0.06
24 6 0.18
ACGTcount: A:0.27, C:0.22, G:0.00, T:0.52
Consensus pattern (21 bp):
CTCTCAATTTTTAATTCTTAA
Found at i:27395045 original size:11 final size:11
Alignment explanation
Indices: 27395029--27395053 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27395019 TTTATCCTAA
27395029 TCTCTCAAATT
1 TCTCTCAAATT
27395040 TCTCTCAAATT
1 TCTCTCAAATT
27395051 TCT
1 TCT
27395054 ATCCTAACCA
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:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:27396603 original size:21 final size:22
Alignment explanation
Indices: 27396567--27396618 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
27396557 AATTAATCAA
*
27396567 TTTTTGTGACTTTTTTGA-ATAC
1 TTTTTGTGACTATTTTGAGAT-C
27396589 TTTTTGTGAC-ATTTTGAGATC
1 TTTTTGTGACTATTTTGAGATC
*
27396610 TTTTCGTGA
1 TTTTTGTGA
27396619 TGCTTTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.17, C:0.10, G:0.17, T:0.56
Consensus pattern (22 bp):
TTTTTGTGACTATTTTGAGATC
Found at i:27396800 original size:20 final size:20
Alignment explanation
Indices: 27396777--27396824 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
27396767 GATAAGCCCT
*
27396777 TTGATTGTTAGATTAAATGG
1 TTGATTGTTAGATTAAACGG
** * *
27396797 TTGACCGTTGGATTTAACGG
1 TTGATTGTTAGATTAAACGG
27396817 TTGATTGT
1 TTGATTGT
27396825 CAAGTCCCCA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.06, G:0.27, T:0.44
Consensus pattern (20 bp):
TTGATTGTTAGATTAAACGG
Found at i:27397446 original size:34 final size:33
Alignment explanation
Indices: 27397408--27397474 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
27397398 AAAAAAAAAA
* * * *
27397408 TAAATTAATTTAATGTTTTTTAATTTAAAAATAT
1 TAAATAAATTAAATCTTTTTTAA-CTAAAAATAT
27397442 TAAATAAATTAAATCTTTTTTAACTAAAAATAT
1 TAAATAAATTAAATCTTTTTTAACTAAAAATAT
27397475 ATTTGAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 9 0.31
34 20 0.69
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (33 bp):
TAAATAAATTAAATCTTTTTTAACTAAAAATAT
Found at i:27399693 original size:14 final size:14
Alignment explanation
Indices: 27399674--27399703 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
27399664 AACCCTAATT
27399674 CCTCTCTTGTTTTA
1 CCTCTCTTGTTTTA
27399688 CCTCTCTTGTTTTA
1 CCTCTCTTGTTTTA
27399702 CC
1 CC
27399704 GTGAATAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.33, G:0.07, T:0.53
Consensus pattern (14 bp):
CCTCTCTTGTTTTA
Found at i:27400667 original size:112 final size:111
Alignment explanation
Indices: 27400532--27400734 Score: 325
Period size: 112 Copynumber: 1.8 Consensus size: 111
27400522 CATTATAATT
* * *
27400532 ATTTTTTATTGATTTATTATATAAAAAGACAAAAACATTCTCATAAACATATAACTTAATTTGTA
1 ATTTATTATTGATTTATTATATAAAAAGACAAAAACATTCTCATAAAAATATAACTTAATTTATA
27400597 TATAAAAATATATTTTAATAATTTCAATTTCAAATCTCTTGAGATAA
66 TATAAAAA-ATATTTTAATAATTTCAATTTCAAATCTCTTGAGATAA
* * *
27400644 ATTTATTATTGATTTATTATATAAAAAGACAAAAACGTTCTTATAAAAATATAACTTAATTTATG
1 ATTTATTATTGATTTATTATATAAAAAGACAAAAACATTCTCATAAAAATATAACTTAATTTATA
* *
27400709 TATGAAAAATATTTTAGTAATTTCAA
66 TATAAAAAATATTTTAATAATTTCAA
27400735 AATTGAATTA
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
111 17 0.20
112 66 0.80
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (111 bp):
ATTTATTATTGATTTATTATATAAAAAGACAAAAACATTCTCATAAAAATATAACTTAATTTATA
TATAAAAAATATTTTAATAATTTCAATTTCAAATCTCTTGAGATAA
Found at i:27402997 original size:61 final size:60
Alignment explanation
Indices: 27402855--27403034 Score: 243
Period size: 61 Copynumber: 2.9 Consensus size: 60
27402845 TTGTATTTTT
* * * * *
27402855 TTAATTAGATTCAGCTGCTCTTTGAAACTCTGATTACTGTTTTGGTTTGTGTTTCTTTTTGA
1 TTAATTAGATTCAGCTGCTATTTGAAAC-CTGAATACTGATTTGATTTGTATTTC-TTTTGA
27402917 TTAATTAGATTCAGCTGCTATTTGAAATCCTGAATACTGATTTGATTTGTATTTCTTTTGA
1 TTAATTAGATTCAGCTGCTATTTGAAA-CCTGAATACTGATTTGATTTGTATTTCTTTTGA
** * *
27402978 TTAATTAGATTCAGCTGCTATTCAAAACCCTGAATATTGAGTTGATTTGTATTTCTT
1 TTAATTAGATTCAGCTGCTATTTGAAA-CCTGAATACTGATTTGATTTGTATTTCTT
27403035 CCTAAATGCT
Statistics
Matches: 107, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
61 58 0.54
62 48 0.45
63 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.48
Consensus pattern (60 bp):
TTAATTAGATTCAGCTGCTATTTGAAACCTGAATACTGATTTGATTTGTATTTCTTTTGA
Found at i:27410487 original size:51 final size:51
Alignment explanation
Indices: 27410411--27410509 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
27410401 CGTGATTACT
*
27410411 GAACGTTTAAGCTCGTCAGCTATACAGAATCAAAATAAATCATGTCAGACA
1 GAACGTTTAAGCTCGTCAACTATACAGAATCAAAATAAATCATGTCAGACA
* * * * *
27410462 GAACGTTTAAGTTTGTCAACTATACAGAATCAGAATGAATCGTGTCAG
1 GAACGTTTAAGCTCGTCAACTATACAGAATCAAAATAAATCATGTCAG
27410510 GCTCTCCTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (51 bp):
GAACGTTTAAGCTCGTCAACTATACAGAATCAAAATAAATCATGTCAGACA
Found at i:27413797 original size:42 final size:42
Alignment explanation
Indices: 27413750--27413832 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
27413740 AAAGGAGTTT
* *
27413750 TTTATGAGTGTTATTT-AGGAATAAAATTATAATTGGGTTTAG
1 TTTATGAGTGTT-TTTGAAGAATAAAATTATAATTGGATTTAG
* *
27413792 TTTATGAGTGTTTTTGAAGAATGAAATTATATTTGGATTTA
1 TTTATGAGTGTTTTTGAAGAATAAAATTATAATTGGATTTA
27413833 AAAATATTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 3 0.08
42 33 0.92
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (42 bp):
TTTATGAGTGTTTTTGAAGAATAAAATTATAATTGGATTTAG
Found at i:27413888 original size:13 final size:14
Alignment explanation
Indices: 27413870--27413898 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27413860 GGTTTTAAAT
27413870 ATTAGGAAAAA-AA
1 ATTAGGAAAAATAA
27413883 ATTAGGAAAAATAA
1 ATTAGGAAAAATAA
27413897 AT
1 AT
27413899 GGTTTGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.21
Consensus pattern (14 bp):
ATTAGGAAAAATAA
Found at i:27417629 original size:18 final size:18
Alignment explanation
Indices: 27417606--27417641 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27417596 TTTAATTAGT
*
27417606 TTTTAAAAAATTTTAAAA
1 TTTTAAAAAATTATAAAA
*
27417624 TTTTAAAATATTATAAAA
1 TTTTAAAAAATTATAAAA
27417642 ATTATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTTAAAAAATTATAAAA
Found at i:27417690 original size:9 final size:9
Alignment explanation
Indices: 27417612--27417690 Score: 58
Period size: 8 Copynumber: 8.4 Consensus size: 9
27417602 TAGTTTTTAA
27417612 AAAAT-TTT
1 AAAATATTT
27417620 AAAAT-TTT
1 AAAATATTT
27417628 AAAATATTAT
1 AAAATATT-T
27417638 AAAAATTATTTT
1 -AAAA-TA-TTT
*
27417650 AAAA-ATTA
1 AAAATATTT
27417658 AAAATCA-TT
1 AAAAT-ATTT
27417667 AAAATTATTT
1 AAAA-TATTT
27417677 AAAAATATTT
1 -AAAATATTT
27417687 AAAA
1 AAAA
27417691 ATAATATATT
Statistics
Matches: 59, Mismatches: 2, Indels: 19
0.74 0.03 0.24
Matches are distributed among these distances:
8 19 0.32
9 13 0.22
10 10 0.17
11 12 0.20
12 3 0.05
13 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (9 bp):
AAAATATTT
Found at i:27417691 original size:11 final size:10
Alignment explanation
Indices: 27417607--27417693 Score: 78
Period size: 10 Copynumber: 9.0 Consensus size: 10
27417597 TTAATTAGTT
27417607 TTTAAAAA-A
1 TTTAAAAATA
*
27417616 TTTTAAAAT-
1 TTTAAAAATA
27417625 TTT-AAAATA
1 TTTAAAAATA
27417634 TTATAAAAATTA
1 TT-TAAAAA-TA
*
27417646 TTTTAAAA-A
1 TTTAAAAATA
27417655 -TTAAAAATCA
1 TTTAAAAAT-A
*
27417665 -TTAAAATTA
1 TTTAAAAATA
27417674 TTTAAAAATA
1 TTTAAAAATA
27417684 TTTAAAAATA
1 TTTAAAAATA
27417694 ATATATTTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
8 11 0.17
9 14 0.22
10 27 0.42
11 9 0.14
12 4 0.06
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:27417691 original size:30 final size:30
Alignment explanation
Indices: 27417615--27417692 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 30
27417605 TTTTTAAAAA
*
27417615 ATTTTAAAAT-TTTAAAATATTATAAAAATT
1 ATTTTAAAATATTTAAAA-ATCATAAAAATT
*
27417645 ATTTTAAAA-A-TTAAAAATCATTAAAATT
1 ATTTTAAAATATTTAAAAATCATAAAAATT
*
27417673 ATTTAAAAATATTTAAAAAT
1 ATTTTAAAATATTTAAAAAT
27417693 AATATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 18 0.43
29 7 0.17
30 17 0.40
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (30 bp):
ATTTTAAAATATTTAAAAATCATAAAAATT
Found at i:27428072 original size:170 final size:173
Alignment explanation
Indices: 27427809--27428139 Score: 510
Period size: 170 Copynumber: 1.9 Consensus size: 173
27427799 TAAGCCATAC
* *
27427809 CTAAATAAAAATGAAGTCAAGTTCAGCTCAACGATTCAATCCATTAGATAGACATCATATCCACT
1 CTAAATAAAAATGAAATCAAGTTCAGCTCAACGATTCAATCCATTAGATAGACATCATATCAACT
* * **
27427874 TTAATTGCCTATCCTAATATCCTTCACATCTTTCCTTAAATGGATGATTGAGTTTTCTCAATTA-
66 TTAATTGCCTATCCTAATATCCTTCACATATTTCCTTAAATGGATGATTGAGTTTACTCAAAAAC
27427938 TTTTTT-C-AAAAACACTTTTAAAAAACATTCCTAAATTAGGT
131 TTTTTTCCTAAAAACACTTTTAAAAAACATTCCTAAATTAGGT
* *
27427979 CTAAGTAAAGATGAAATCAAG-TCTAGCTCAACGATTTC-ATCCATTAGATAGACATCATATCAA
1 CTAAATAAAAATGAAATCAAGTTC-AGCTCAACGA-TTCAATCCATTAGATAGACATCATATCAA
* *
27428042 CTTTAATTGCCTATCCTAATATCCTTCACATATTTTCTTAAATGGATGATTTAGTTTACTCAAAA
64 CTTTAATTGCCTATCCTAATATCCTTCACATATTTCCTTAAATGGATGATTGAGTTTACTCAAAA
*
27428107 ACTTTTTTCCTAAAAACATTTTTAAAAAACATT
129 ACTTTTTTCCTAAAAACACTTTTAAAAAACATT
27428140 ATTTTTTTTG
Statistics
Matches: 145, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
169 2 0.01
170 112 0.77
171 9 0.06
172 1 0.01
173 21 0.14
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (173 bp):
CTAAATAAAAATGAAATCAAGTTCAGCTCAACGATTCAATCCATTAGATAGACATCATATCAACT
TTAATTGCCTATCCTAATATCCTTCACATATTTCCTTAAATGGATGATTGAGTTTACTCAAAAAC
TTTTTTCCTAAAAACACTTTTAAAAAACATTCCTAAATTAGGT
Found at i:27430506 original size:28 final size:28
Alignment explanation
Indices: 27430453--27430506 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
27430443 TTTAAATATT
* * *
27430453 TAAAAGTAAACAAATTAATTCTTAAAAA
1 TAAAAGTAAACAAACTAAATCCTAAAAA
27430481 TAAAAGTATAA-AAACTAAATCCTAAA
1 TAAAAGTA-AACAAACTAAATCCTAAA
27430507 TTTATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 20 0.91
29 2 0.09
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (28 bp):
TAAAAGTAAACAAACTAAATCCTAAAAA
Found at i:27435733 original size:25 final size:25
Alignment explanation
Indices: 27435705--27435755 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
27435695 TGGTAGCTTT
*
27435705 TCTTTCTCGTCTTCTCCTAGATCAG
1 TCTTTCTCGTCTTCTCATAGATCAG
* *
27435730 TCTTTCTTGTCTTCTGATAGATCAG
1 TCTTTCTCGTCTTCTCATAGATCAG
27435755 T
1 T
27435756 TGCTTTTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.14, C:0.25, G:0.14, T:0.47
Consensus pattern (25 bp):
TCTTTCTCGTCTTCTCATAGATCAG
Found at i:27438505 original size:29 final size:29
Alignment explanation
Indices: 27438463--27438518 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
27438453 GAAAGATACA
*
27438463 ATTTCCATCATTATTAGGATCTTTTTAAC
1 ATTTCCATCATTATTAGGATCATTTTAAC
27438492 ATTTCCATCATTATTAGGATCATTTTA
1 ATTTCCATCATTATTAGGATCATTTTA
27438519 GGAGCAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.48
Consensus pattern (29 bp):
ATTTCCATCATTATTAGGATCATTTTAAC
Found at i:27446768 original size:23 final size:22
Alignment explanation
Indices: 27446725--27446769 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
27446715 TTTTTGATAT
*
27446725 AATATTTATAAAGTTATTATTA
1 AATATTTATAAAGTAATTATTA
27446747 AATATTTTATAAA-TAATATATTA
1 AATA-TTTATAAAGTAAT-TATTA
27446770 TACTATGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AATATTTATAAAGTAATTATTA
Found at i:27447056 original size:44 final size:43
Alignment explanation
Indices: 27446972--27447061 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 43
27446962 TTAACATCAT
* * * *
27446972 TTTAATCAACCAAACAATCTAATACTATTACTTATCTATTTTA
1 TTTAACCAACCAAACAATATAATACTATTACTTATATATTTCA
* * *
27447015 TTTAACCAACGAAACTATATAATATCTATTACTTTTATATTTCA
1 TTTAACCAACCAAACAATATAATA-CTATTACTTATATATTTCA
27447059 TTT
1 TTT
27447062 TTATTTTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 20 0.51
44 19 0.49
ACGTcount: A:0.38, C:0.17, G:0.01, T:0.44
Consensus pattern (43 bp):
TTTAACCAACCAAACAATATAATACTATTACTTATATATTTCA
Found at i:27447411 original size:14 final size:14
Alignment explanation
Indices: 27447382--27447417 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
27447372 GAAGTTTATT
27447382 TATTAAAATAATAA
1 TATTAAAATAATAA
27447396 TATTATAAATAA-AA
1 TATTA-AAATAATAA
27447410 TATTAAAA
1 TATTAAAA
27447418 AAGCTCACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 12 0.57
15 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TATTAAAATAATAA
Found at i:27453459 original size:103 final size:103
Alignment explanation
Indices: 27453272--27453460 Score: 254
Period size: 103 Copynumber: 1.8 Consensus size: 103
27453262 CAGTCATATG
* ** * **
27453272 ATTGTTGTATGATATTCCCAGCCCTACAACTCCTTTTGGGTAACATAGAATCTATTCAACAGTTG
1 ATTGTTGTATGATATTCCCAACCCTACAACTCCTTTTAAGTAACATAGAATCTATTCAACAATAA
*
27453337 CCCAATGTTTAACTGTAGGTGGAATGAGTATTTCTATT
66 CCCAATGTTTAACTATAGGTGGAATGAGTATTTCTATT
* * * *
27453375 ATTGTTGTATGATATTCCCAATCCT-CAAGCTCCTTTTAATTAACATAGAATTTGTTCAACAATA
1 ATTGTTGTATGATATTCCCAACCCTACAA-CTCCTTTTAAGTAACATAGAATCTATTCAACAATA
*
27453439 ACCCAATGTTTAGCTATAGGTG
65 ACCCAATGTTTAACTATAGGTG
27453461 CAGACATGAA
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
102 3 0.04
103 70 0.96
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (103 bp):
ATTGTTGTATGATATTCCCAACCCTACAACTCCTTTTAAGTAACATAGAATCTATTCAACAATAA
CCCAATGTTTAACTATAGGTGGAATGAGTATTTCTATT
Found at i:27453730 original size:207 final size:204
Alignment explanation
Indices: 27453375--27453766 Score: 631
Period size: 207 Copynumber: 1.9 Consensus size: 204
27453365 TATTTCTATT
* ** *
27453375 ATTGTTGTATGATATTCCCAATCCTCAAGCTCCTTTTAATTAACATAGAATTTGTTCAACAATAA
1 ATTGTTGTATGATATTCCCAATCCTAAAGCTCCTTTTAAGAAACATAGAATTAGTTCAACAATAA
* * * *
27453440 CCCAATGTTTAGCTATAGGTGCAGACATGAATAAGCTGACAATACTTACTGCAAATATAATGTTT
66 CCCAATGTCTAACTATAGGTGCAGACATGAATAAGCTGACAATACTCACTGCAAATATAATGTTC
* * *
27453505 GGACCAGTCACAGTAAGATTGTTTAATTTCCCAACTATCATCTTATATCTCTCGAGATTGGAACG
131 GGACCAGTCAAAGTAAGATAGTTTAATTTCCC-A--ATCATCTTATATCTCTCAAGATTGGAACG
27453570 ACTATTCCAATG
193 ACTATTCCAATG
* *
27453582 ATTGTTGTATTATATTCCCAATCCTAAAGCTCCTTTTAAGAAACATAGAATTAGTTCAACGATAA
1 ATTGTTGTATGATATTCCCAATCCTAAAGCTCCTTTTAAGAAACATAGAATTAGTTCAACAATAA
27453647 CCCAATGTCTAACTATAGGTGCAGACATGAATAAGCTGACAATACTCACTGCAAATATAATGTTC
66 CCCAATGTCTAACTATAGGTGCAGACATGAATAAGCTGACAATACTCACTGCAAATATAATGTTC
*
27453712 GGACCAGTCAAAGTAAGATAGTTTAGTTTCCCAATCATCTTATATCTCTCAAGAT
131 GGACCAGTCAAAGTAAGATAGTTTAATTTCCCAATCATCTTATATCTCTCAAGAT
27453767 CATCAAAGGG
Statistics
Matches: 171, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
204 21 0.12
206 1 0.01
207 149 0.87
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (204 bp):
ATTGTTGTATGATATTCCCAATCCTAAAGCTCCTTTTAAGAAACATAGAATTAGTTCAACAATAA
CCCAATGTCTAACTATAGGTGCAGACATGAATAAGCTGACAATACTCACTGCAAATATAATGTTC
GGACCAGTCAAAGTAAGATAGTTTAATTTCCCAATCATCTTATATCTCTCAAGATTGGAACGACT
ATTCCAATG
Found at i:27456012 original size:21 final size:22
Alignment explanation
Indices: 27455969--27456012 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
27455959 AATCATTGGA
27455969 TCTAGATATGACTGATCTTTTCC
1 TCTAGATATGACTGA-CTTTTCC
27455992 TCTA-ATATGACTG-CATTTTCC
1 TCTAGATATGACTGAC-TTTTCC
27456013 AGGAATCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.05
21 6 0.30
22 9 0.45
23 4 0.20
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (22 bp):
TCTAGATATGACTGACTTTTCC
Found at i:27461072 original size:6 final size:6
Alignment explanation
Indices: 27461061--27461088 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27461051 GGTTGGTAAA
27461061 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
27461089 TTTTAAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:27461869 original size:3 final size:3
Alignment explanation
Indices: 27461861--27461913 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
27461851 TATACAAAAA
27461861 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
27461909 ATT AT
1 ATT AT
27461914 GATATGTCAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:27471890 original size:25 final size:23
Alignment explanation
Indices: 27471862--27471907 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
27471852 GTTGGATCCA
27471862 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAA-TCTAAAAA-ATAATTTG
*
27471887 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
27471908 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTTG
Found at i:27471994 original size:13 final size:13
Alignment explanation
Indices: 27471973--27472006 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
27471963 ACAATATAAT
27471973 AATAATAATCCTA
1 AATAATAATCCTA
*
27471986 AATATTAATCCTA
1 AATAATAATCCTA
*
27471999 AAAAATAA
1 AATAATAA
27472007 AGTTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:27479634 original size:114 final size:113
Alignment explanation
Indices: 27479424--27479732 Score: 333
Period size: 114 Copynumber: 2.7 Consensus size: 113
27479414 ATTGGATGTC
* *
27479424 AAACACCCAAAAATTATTTTTTTATTCGTA-TTTTTTGGGTGTCAGCCAAT-GCTTGCCAAACAC
1 AAACACCCAAAAAATATTTTTTTATTCGTATTTTTTTGGGTGTCAGCC-ATGGCTTGACAAACAC
* * *
27479487 CCAAAAAAATATTTTTAAATTTGAGAAATGTGGTGTA-AGCCATTAGATGGG
65 CCAAAAAAATATTTTGAAATTTGAAAAAGGTGGTGTAGA-CCA-TAGAT-GG
*
27479538 AAACACCCAAAAAATATTTTTTTATTCGTATTTTTTTAGGTGTCAGCCATGGCTTGACAAACA-C
1 AAACACCCAAAAAATATTTTTTTATTCGTATTTTTTTGGGTGTCAGCCATGGCTTGACAAACACC
* ** * * * *
27479602 CTAAAAAAT-TTTTGGGGATCTT-AAAAAGGTGGTGTCGACCATGGCTTG
66 CAAAAAAATATTTT-GAAAT-TTGAAAAAGGTGGTGTAGACCATAGATGG
* * *
27479650 ACAGACACCCAAAAAAATATTTTTTTATTCGTATTTTTTTTGGGTGTCTGCCATGGCTTGGCCAA
1 A-A-ACACCC-AAAAAATATTTTTTTATTCGTA-TTTTTTTGGGTGTCAGCCATGGCTTGACAAA
*
27479715 CATCCAAAAAAATATTTT
62 CACCCAAAAAAATATTTT
27479733 TTAAATGTAA
Statistics
Matches: 166, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
112 2 0.01
113 8 0.05
114 62 0.37
115 52 0.31
116 29 0.17
117 9 0.05
118 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (113 bp):
AAACACCCAAAAAATATTTTTTTATTCGTATTTTTTTGGGTGTCAGCCATGGCTTGACAAACACC
CAAAAAAATATTTTGAAATTTGAAAAAGGTGGTGTAGACCATAGATGG
Found at i:27479707 original size:60 final size:56
Alignment explanation
Indices: 27479425--27479734 Score: 168
Period size: 57 Copynumber: 5.4 Consensus size: 56
27479415 TTGGATGTCA
* * *
27479425 AACACCC-AAAAATTATTTTTTTATTCGTATTTTTTGGGTGTCAGCCAAT-GCTTGCC
1 AACACCCAAAAAAATATTTTTTTATTCGTATTTTTTTGGTGTC-GCC-ATGGCTTGAC
** * **** * * * * *
27479481 AAACACCCAAAAAAATATTTTTAAATTTG-AGAAATGTGGTGTAAGCCATTAGATGGGA-
1 -AACACCCAAAAAAATATTTTTTTATTCGTATTTTTTTGGTGT-CGCCA-TGGCT-TGAC
27479539 AACACCC-AAAAAATATTTTTTTATTCGTATTTTTTTAGGTGTCAGCCATGGCTTGAC
1 AACACCCAAAAAAATATTTTTTTATTCGTATTTTTTT-GGTGTC-GCCATGGCTTGAC
* *** * ******
27479596 AA-ACACCTAAAAAAT-TTTTGGGGA-TCTTAAAAAGGTGGTGTCGACCATGGCTTGAC
1 AACAC-CCAAAAAAATATTTT-TTTATTCGTATTTTTTTGGTGTCG-CCATGGCTTGAC
*
27479652 AGACACCCAAAAAAATATTTTTTTATTCGTATTTTTTTTGGGTGTCTGCCATGGCTTGGCC
1 A-ACACCCAAAAAAATATTTTTTTATTCGTA-TTTTTTT-GGTGTC-GCCATGGCTT-GAC
*
27479713 AACATCCAAAAAAATATTTTTT
1 AACACCCAAAAAAATATTTTTT
27479735 AAATGTAAAA
Statistics
Matches: 183, Mismatches: 49, Indels: 39
0.68 0.18 0.14
Matches are distributed among these distances:
55 1 0.01
56 41 0.22
57 55 0.30
58 45 0.25
59 2 0.01
60 35 0.19
61 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (56 bp):
AACACCCAAAAAAATATTTTTTTATTCGTATTTTTTTGGTGTCGCCATGGCTTGAC
Found at i:27485639 original size:23 final size:23
Alignment explanation
Indices: 27485597--27485640 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
27485587 GAAGACACCG
27485597 GAGAGAGAGGGGGAGAAGGCGAA
1 GAGAGAGAGGGGGAGAAGGCGAA
*
27485620 GAGAGA-AGGGTGAGAGAGGCG
1 GAGAGAGAGGGGGAGA-AGGCG
27485641 GAGTTGACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.36, C:0.05, G:0.57, T:0.02
Consensus pattern (23 bp):
GAGAGAGAGGGGGAGAAGGCGAA
Found at i:27488362 original size:26 final size:25
Alignment explanation
Indices: 27488317--27488375 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
27488307 TTTAGATGTG
*
27488317 AAATATT-TAACAAACAAAATAAATTT
1 AAATATTAAAACAAACAAAAT-AA-TT
27488343 AAATATTAAAACAAAC-AAATAATT
1 AAATATTAAAACAAACAAAATAATT
27488367 AAA-ATTAAA
1 AAATATTAAA
27488376 TAGCAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 6 0.19
24 5 0.16
25 2 0.06
26 11 0.35
27 7 0.23
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (25 bp):
AAATATTAAAACAAACAAAATAATT
Found at i:27488377 original size:30 final size:26
Alignment explanation
Indices: 27488317--27488377 Score: 68
Period size: 30 Copynumber: 2.2 Consensus size: 26
27488307 TTTAGATGTG
* *
27488317 AAATATTTAACAAACAAAATAAATTT
1 AAATATTAAACAAACAAAATAAAATT
27488343 AAATATTAAAACAAACAAATAATTAAAATT
1 AAATATT-AAACAAAC-AA-AA-TAAAATT
27488373 AAATA
1 AAATA
27488378 GCAAAATAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 7 0.24
27 7 0.24
28 2 0.07
29 2 0.07
30 11 0.38
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (26 bp):
AAATATTAAACAAACAAAATAAAATT
Found at i:27489530 original size:21 final size:21
Alignment explanation
Indices: 27489478--27489530 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
27489468 TTTGAAATTA
*
27489478 AAAATGAATTACATGTTGAAT
1 AAAATGAATTGCATGTTGAAT
*
27489499 CAAATGAATTGCATGTTGAAT
1 AAAATGAATTGCATGTTGAAT
27489520 AAAATGAATTG
1 AAAATGAATTG
27489531 TATATGTCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (21 bp):
AAAATGAATTGCATGTTGAAT
Found at i:27491902 original size:30 final size:32
Alignment explanation
Indices: 27491858--27491937 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 32
27491848 AAATTTTAAA
* *
27491858 TTAATAA-AAATAAAATTATAT-TTTAATTTT
1 TTAATAATTAATAAAATTATATATTTAATCTT
*
27491888 TTAA-AATTAATAAAATT-TTTATTTAATCTT
1 TTAATAATTAATAAAATTATATATTTAATCTT
*
27491918 TTAATAATT-ATAAAAATATA
1 TTAATAATTAATAAAATTATA
27491938 AGCTATTCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
29 4 0.10
30 32 0.78
31 5 0.12
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (32 bp):
TTAATAATTAATAAAATTATATATTTAATCTT
Found at i:27492431 original size:21 final size:21
Alignment explanation
Indices: 27492410--27492448 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
27492400 GATATTAATT
*
27492410 TTTA-ATTTTTTTA-AAAATA
1 TTTATATTCTTTTATAAAATA
27492429 TTTATATTCTTTTATAAAAT
1 TTTATATTCTTTTATAAAAT
27492449 TTAATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTATATTCTTTTATAAAATA
Found at i:27495034 original size:18 final size:17
Alignment explanation
Indices: 27495001--27495052 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
27494991 AAATTACAAA
*
27495001 AAAATAATTTTCAAAATT
1 AAAA-AATTTTAAAAATT
*
27495019 CAAAATATTTATAAAAATT
1 -AAAAAATTT-TAAAAATT
27495038 AAAAAATTTTAAAAA
1 AAAAAATTTTAAAAA
27495053 AAGATATAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 6 0.21
18 12 0.41
19 11 0.38
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAAATTTTAAAAATT
Found at i:27495060 original size:29 final size:30
Alignment explanation
Indices: 27495028--27495084 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
27495018 TCAAAATATT
*
27495028 TATAA-AA-ATTAAAAAATTTTAAAAAAAGA
1 TATAAGAAGATTAAAAAA-TTAAAAAAAAGA
*
27495057 TATAAGAAGGTTAAAAAATTAAAAAAAA
1 TATAAGAAGATTAAAAAATTAAAAAAAA
27495085 TAGAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.21
30 11 0.46
31 8 0.33
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (30 bp):
TATAAGAAGATTAAAAAATTAAAAAAAAGA
Found at i:27497899 original size:25 final size:25
Alignment explanation
Indices: 27497862--27497909 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
27497852 TCATTTTTCG
27497862 TTCTTTCAATTTATTATTGTTCTCA
1 TTCTTTCAATTTATTATTGTTCTCA
* *
27497887 TTCTTTCACTTTATTCTTGTTCT
1 TTCTTTCAATTTATTATTGTTCT
27497910 TTGAATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.15, C:0.19, G:0.04, T:0.62
Consensus pattern (25 bp):
TTCTTTCAATTTATTATTGTTCTCA
Found at i:27498680 original size:7 final size:7
Alignment explanation
Indices: 27498265--27498678 Score: 780
Period size: 7 Copynumber: 59.6 Consensus size: 7
27498255 CAAATTTGCT
27498265 GGGAACG
1 GGGAACG
27498272 GGGAACG
1 GGGAACG
27498279 GGGAACG
1 GGGAACG
27498286 GGGAAC-
1 GGGAACG
27498292 GGGAACG
1 GGGAACG
27498299 GGGAACG
1 GGGAACG
27498306 GGGAACG
1 GGGAACG
27498313 GGGAACG
1 GGGAACG
27498320 GGGAACG
1 GGGAACG
27498327 GGGAACG
1 GGGAACG
27498334 GGGAACG
1 GGGAACG
27498341 GGGAACG
1 GGGAACG
27498348 GGGAACG
1 GGGAACG
27498355 GGGAACG
1 GGGAACG
27498362 GGGAAC-
1 GGGAACG
27498368 GGGAACG
1 GGGAACG
27498375 GGGAACG
1 GGGAACG
27498382 GGGAACG
1 GGGAACG
27498389 GGGAACG
1 GGGAACG
27498396 GGGAACG
1 GGGAACG
27498403 GGGAACG
1 GGGAACG
27498410 GGGAACG
1 GGGAACG
27498417 GGGAACG
1 GGGAACG
27498424 GGGAACG
1 GGGAACG
27498431 GGGAACG
1 GGGAACG
27498438 GGGAACG
1 GGGAACG
27498445 GGGAACG
1 GGGAACG
27498452 GGGAACG
1 GGGAACG
27498459 GGGAACG
1 GGGAACG
27498466 GGGAACG
1 GGGAACG
27498473 GGGAACG
1 GGGAACG
27498480 GGGAACG
1 GGGAACG
27498487 GGGAACG
1 GGGAACG
27498494 GGGAACG
1 GGGAACG
27498501 GGGAACG
1 GGGAACG
27498508 GGGAACG
1 GGGAACG
27498515 GGGAACG
1 GGGAACG
27498522 GGGAAC-
1 GGGAACG
27498528 GGGAACG
1 GGGAACG
27498535 GGGAACG
1 GGGAACG
27498542 GGGAACG
1 GGGAACG
27498549 GGGAACG
1 GGGAACG
27498556 GGGAACG
1 GGGAACG
27498563 GGGAACG
1 GGGAACG
27498570 GGGAACG
1 GGGAACG
27498577 GGGAACG
1 GGGAACG
27498584 GGGAACG
1 GGGAACG
27498591 GGGAACG
1 GGGAACG
27498598 GGGAACG
1 GGGAACG
27498605 GGGAACG
1 GGGAACG
27498612 GGGAACG
1 GGGAACG
27498619 GGGAACG
1 GGGAACG
27498626 GGGAACG
1 GGGAACG
27498633 GGGAACG
1 GGGAACG
27498640 GGGAACG
1 GGGAACG
27498647 GGGAACG
1 GGGAACG
*
27498654 GGGATCG
1 GGGAACG
*
27498661 GGGATCG
1 GGGAACG
*
27498668 GGGATCG
1 GGGAACG
27498675 GGGA
1 GGGA
27498679 TCCTTGGCAC
Statistics
Matches: 403, Mismatches: 1, Indels: 6
0.98 0.00 0.01
Matches are distributed among these distances:
6 18 0.04
7 385 0.96
ACGTcount: A:0.28, C:0.14, G:0.57, T:0.01
Consensus pattern (7 bp):
GGGAACG
Found at i:27498835 original size:7 final size:7
Alignment explanation
Indices: 27498823--27498953 Score: 199
Period size: 7 Copynumber: 18.7 Consensus size: 7
27498813 TTTGCTGTTT
27498823 ACGGGAA
1 ACGGGAA
27498830 ACGGGAA
1 ACGGGAA
27498837 ACGGGAA
1 ACGGGAA
27498844 ACGGGAA
1 ACGGGAA
27498851 ACGGGAA
1 ACGGGAA
27498858 ACGGGAA
1 ACGGGAA
27498865 ACGGGAA
1 ACGGGAA
27498872 ACGGGAA
1 ACGGGAA
27498879 ACGGGAA
1 ACGGGAA
27498886 ACGGGAA
1 ACGGGAA
27498893 ACGGGAA
1 ACGGGAA
*
27498900 ACGGGGA
1 ACGGGAA
*
27498907 ACGGGGA
1 ACGGGAA
*
27498914 ACGGGGA
1 ACGGGAA
*
27498921 ACGGGGA
1 ACGGGAA
*
27498928 ACGGGGA
1 ACGGGAA
*
27498935 ACGGGGA
1 ACGGGAA
*
27498942 ACGGGGA
1 ACGGGAA
27498949 ACGGG
1 ACGGG
27498954 TTTGTTCTTT
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
7 123 1.00
ACGTcount: A:0.37, C:0.15, G:0.49, T:0.00
Consensus pattern (7 bp):
ACGGGAA
Found at i:27503131 original size:29 final size:28
Alignment explanation
Indices: 27503085--27503139 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
27503075 TAAATAAAAT
*
27503085 AATTTCAAGATAGATTAATAAAAAATTAA
1 AATTTAAAGATAGATTAA-AAAAAATTAA
*
27503114 AATTTAAAGATA-ATTTAAAACAAATT
1 AATTTAAAGATAGA-TTAAAAAAAATT
27503140 TCTAAAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (28 bp):
AATTTAAAGATAGATTAAAAAAAATTAA
Found at i:27505718 original size:15 final size:16
Alignment explanation
Indices: 27505689--27505718 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27505679 TTTATTGTTG
27505689 TTTATTACATTAATAT
1 TTTATTACATTAATAT
27505705 TTTATTAC-TTAATA
1 TTTATTACATTAATA
27505719 ATATAACAAA
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:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTATTACATTAATAT
Found at i:27507074 original size:13 final size:13
Alignment explanation
Indices: 27507056--27507080 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27507046 CTGAAAATAT
27507056 CTGAATCAATGTA
1 CTGAATCAATGTA
27507069 CTGAATCAATGT
1 CTGAATCAATGT
27507081 GAAGTTCATA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
CTGAATCAATGTA
Found at i:27514119 original size:15 final size:14
Alignment explanation
Indices: 27514099--27514143 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
27514089 TTTTAGAATT
27514099 TTTTTAGAATTTATA
1 TTTTTA-AATTTATA
*
27514114 TTTTTAATTTTTATA
1 TTTTTAA-ATTTATA
*
27514129 TTTTTAAATATATA
1 TTTTTAAATTTATA
27514143 T
1 T
27514144 ATATATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTTTAAATTTATA
Found at i:27514170 original size:18 final size:18
Alignment explanation
Indices: 27514147--27514184 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
27514137 TATATATATA
27514147 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGG-ATTTT
27514165 TATAAATATTTGGATTTT
1 TATAAATATTTGGATTTT
27514183 TA
1 TA
27514185 AAAACTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (18 bp):
TATAAATATTTGGATTTT
Found at i:27521672 original size:25 final size:24
Alignment explanation
Indices: 27521644--27521733 Score: 67
Period size: 23 Copynumber: 3.6 Consensus size: 24
27521634 CAACCTTTTA
27521644 AATATTATTAATAATAATATTAAGT
1 AATATTATTAATAATAATATTAA-T
* *
27521669 AATAATCATGATAATAAATAATAGTAAT
1 AAT-ATTAT--TAAT-AATAATATTAAT
*
27521697 AA-A-TATTTATAATTAATATTAAT
1 AATATTATTAATAA-TAATATTAAT
* *
27521720 ATTAATATTAATAA
1 AATATTATTAATAA
27521734 ACAGTAATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
22 2 0.04
23 13 0.25
24 1 0.02
25 13 0.25
26 5 0.10
28 7 0.14
29 10 0.20
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (24 bp):
AATATTATTAATAATAATATTAAT
Found at i:27521719 original size:6 final size:6
Alignment explanation
Indices: 27521649--27521732 Score: 55
Period size: 6 Copynumber: 13.3 Consensus size: 6
27521639 TTTTAAATAT
* * * *
27521649 TATTAA TAATAA TATTAA GTAATAA TCATGATAA TAAATAA TAGTAA TA--AA
1 TATTAA TATTAA TATTAA -TATTAA T-AT--TAA T-ATTAA TATTAA TATTAA
*
27521700 TATTTA TAATTAA TATTAA TATTAA TATTAA TA
1 TATTAA T-ATTAA TATTAA TATTAA TATTAA TA
27521733 AACAGTAATA
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
4 4 0.06
6 38 0.61
7 15 0.24
9 5 0.08
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.42
Consensus pattern (6 bp):
TATTAA
Found at i:27532827 original size:28 final size:28
Alignment explanation
Indices: 27532797--27533119 Score: 193
Period size: 28 Copynumber: 11.5 Consensus size: 28
27532787 GTATATTTGA
* *
27532797 ATATTCTTGAAAAGGTATATCTAAAAGA
1 ATATTATTGAAAAGGTATATCTAAAAGG
*
27532825 ATA-TATTGAAAAGGTTATATCCGAAAA-G
1 ATATTATTGAAAAGG-TATAT-CTAAAAGG
* * *
27532853 ATA-TATTGAAAATGTTATATTTACAAGG
1 ATATTATTGAAAA-GGTATATCTAAAAGG
* *
27532881 ATA-TATTCAAAAGGTTATAT-TCGAAAGG
1 ATATTATTGAAAAGG-TATATCT-AAAAGG
* ** *
27532909 ATATT-TTGAAAAAGTTATATCCGAAATG
1 ATATTATTG-AAAAGGTATATCTAAAAGG
* * * *
27532937 ATATTTTTGAAAATGTTATAT-TCGAAAGA
1 ATATTATTGAAAA-GGTATATCT-AAAAGG
*
27532966 ATATT-TTGAAAAGGTTATATCCGAAAA-G
1 ATATTATTGAAAAGG-TATAT-CTAAAAGG
* * * *
27532994 ATACTA-TGAAAAAGTTGTATCCAAAAGG
1 ATATTATTG-AAAAGGTATATCTAAAAGG
* * **
27533022 ATATTTTTGAAAAGGTTACATCCGAAAGG
1 ATATTATTGAAAAGG-TATATCTAAAAGG
*
27533051 ATATTTTTGAAAAGGTTATATCTAAAAGG
1 ATATTATTGAAAAGG-TATATCTAAAAGG
*
27533080 ATATT-TTGAAAAGGTATATCCGAAAA-G
1 ATATTATTGAAAAGGTATAT-CTAAAAGG
27533107 ATATTATTGAAAA
1 ATATTATTGAAAA
27533120 AGGTTGCAAC
Statistics
Matches: 237, Mismatches: 36, Indels: 44
0.75 0.11 0.14
Matches are distributed among these distances:
27 32 0.14
28 123 0.52
29 82 0.35
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (28 bp):
ATATTATTGAAAAGGTATATCTAAAAGG
Found at i:27532836 original size:14 final size:13
Alignment explanation
Indices: 27532803--27533005 Score: 70
Period size: 14 Copynumber: 14.5 Consensus size: 13
27532793 TTGAATATTC
*
27532803 TTGAAAAGGTATA
1 TTGAAAAGATATA
27532816 TCT-AAAAGAATATA
1 T-TGAAAAG-ATATA
*
27532830 TTGAAAAGGTTATA
1 TTGAAAA-GATATA
*
27532844 TCCGAAAAGATATA
1 T-TGAAAAGATATA
*
27532858 TTGAAAATGTTATA
1 TTGAAAA-GATATA
* *
27532872 TTTACAAGGATATA
1 TTGA-AAAGATATA
* *
27532886 TTCAAAAGGTTATA
1 TTGAAAA-GATATA
* *
27532900 TTCGAAAGGATATT
1 TT-GAAAAGATATA
*
27532914 TTGAAAAAGTTATA
1 TTG-AAAAGATATA
* * *
27532928 TCCGAAATGATATTT
1 T-TGAAAAGATA-TA
*
27532943 TTGAAAATGTTATA
1 TTGAAAA-GATATA
*
27532957 TTCG-AAAGAATATT
1 TT-GAAAAG-ATATA
*
27532971 TTGAAAAGGTTATA
1 TTGAAAA-GATATA
*
27532985 TCCGAAAAGATACTA
1 T-TGAAAAGATA-TA
27533000 -TGAAAA
1 TTGAAAA
27533006 AGTTGTATCC
Statistics
Matches: 137, Mismatches: 34, Indels: 38
0.66 0.16 0.18
Matches are distributed among these distances:
13 22 0.16
14 89 0.65
15 26 0.19
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (13 bp):
TTGAAAAGATATA
Found at i:27532970 original size:57 final size:57
Alignment explanation
Indices: 27532797--27533124 Score: 287
Period size: 56 Copynumber: 5.8 Consensus size: 57
27532787 GTATATTTGA
* * * *
27532797 ATATTCTTG-AAAAGGTATAT-CTAAAAGA-ATATATTGAAAAGGTTATATCCGAAAA-G
1 ATATT-TTGAAAAAGTTATATCCGAAAAGATAT-TTTTGAAAAGGTTATATTC-AAAAGG
* * ** * * * *
27532853 ATATATTGAAAATGTTATAT-TTACAAGGATA-TATTCAAAAGGTTATATTCGAAAGG
1 ATATTTTGAAAAAGTTATATCCGA-AAAGATATTTTTGAAAAGGTTATATTCAAAAGG
* * * *
27532909 ATATTTTGAAAAAGTTATATCCGAAATGATATTTTTGAAAATGTTATATTCGAAAGA
1 ATATTTTGAAAAAGTTATATCCGAAAAGATATTTTTGAAAAGGTTATATTCAAAAGG
* * * * * *
27532966 ATATTTTGAAAAGGTTATATCCGAAAAGATA-CTATGAAAAAGTTGTATCCAAAAGG
1 ATATTTTGAAAAAGTTATATCCGAAAAGATATTTTTGAAAAGGTTATATTCAAAAGG
* * *
27533022 ATATTTTTGAAAAGGTTACATCCGAAAGGATATTTTTGAAAAGGTTATA-TCTAAAAGG
1 ATA-TTTTGAAAAAGTTATATCCGAAAAGATATTTTTGAAAAGGTTATATTC-AAAAGG
* *
27533080 ATATTTTG-AAAAGGTATATCCGAAAAGATATTATTGAAAAAGGTT
1 ATATTTTGAAAAAGTTATATCCGAAAAGATATTTTTG-AAAAGGTT
27533125 GCAACTAAAA
Statistics
Matches: 224, Mismatches: 38, Indels: 19
0.80 0.14 0.07
Matches are distributed among these distances:
55 6 0.03
56 101 0.45
57 95 0.42
58 22 0.10
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (57 bp):
ATATTTTGAAAAAGTTATATCCGAAAAGATATTTTTGAAAAGGTTATATTCAAAAGG
Found at i:27532982 original size:85 final size:85
Alignment explanation
Indices: 27532795--27533119 Score: 367
Period size: 85 Copynumber: 3.8 Consensus size: 85
27532785 TTGTATATTT
* * *
27532795 GAATATTCTTGAAAAGG-TATATCTAAAAGAATATATTGAAAAGGTTATATCCGAAAAGATA-TA
1 GAATATT-TTGAAAAGGTTATATCTAAAAGGATATTTTGAAAAAGTTATATCCGAAAAGATATTA
*
27532858 TTGAAAATGTTATATT-TACAA
65 TTGAAAATGTTATATTCGA-AA
* * * * * *
27532879 GGATATATTCAAAAGGTTATAT-TCGAAAGGATATTTTGAAAAAGTTATATCCGAAATGATATTT
1 GAATATTTTGAAAAGGTTATATCT-AAAAGGATATTTTGAAAAAGTTATATCCGAAAAGATATTA
27532943 TTGAAAATGTTATATTCGAAA
65 TTGAAAATGTTATATTCGAAA
* * * *
27532964 GAATATTTTGAAAAGGTTATATCCGAAAA-GATACTATGAAAAAGTTGTATCC-AAAAGGATATT
1 GAATATTTTGAAAAGGTTATAT-CTAAAAGGATATTTTGAAAAAGTTATATCCGAAAA-GATATT
* * * *
27533027 TTTGAAAAGGTTACATCCGAAA
64 ATTGAAAATGTTATATTCGAAA
* *
27533049 GGATATTTTTGAAAAGGTTATATCTAAAAGGATATTTTG-AAAAGGTATATCCGAAAAGATATTA
1 GAATA-TTTTGAAAAGGTTATATCTAAAAGGATATTTTGAAAAAGTTATATCCGAAAAGATATTA
27533113 TTGAAAA
65 TTGAAAA
27533120 AGGTTGCAAC
Statistics
Matches: 202, Mismatches: 29, Indels: 19
0.81 0.12 0.08
Matches are distributed among these distances:
83 9 0.04
84 45 0.22
85 116 0.57
86 32 0.16
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (85 bp):
GAATATTTTGAAAAGGTTATATCTAAAAGGATATTTTGAAAAAGTTATATCCGAAAAGATATTAT
TGAAAATGTTATATTCGAAA
Found at i:27533091 original size:14 final size:14
Alignment explanation
Indices: 27533046--27533119 Score: 55
Period size: 14 Copynumber: 5.2 Consensus size: 14
27533036 GTTACATCCG
27533046 AAAGGATATTTTTGA
1 AAAGGATA-TTTTGA
* *
27533061 AAAGGTTATATCT-A
1 AAAGGATAT-TTTGA
27533075 AAAGGATATTTTGA
1 AAAGGATATTTTGA
**
27533089 AAAGG-TATATCCGA
1 AAAGGATAT-TTTGA
27533103 AAA-GATATTATTGA
1 AAAGGATATT-TTGA
27533117 AAA
1 AAA
27533120 AGGTTGCAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
13 7 0.15
14 30 0.65
15 9 0.20
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.32
Consensus pattern (14 bp):
AAAGGATATTTTGA
Found at i:27533133 original size:57 final size:57
Alignment explanation
Indices: 27532797--27533134 Score: 255
Period size: 57 Copynumber: 6.0 Consensus size: 57
27532787 GTATATTTGA
* * * *
27532797 ATATTCTTGAAAAGG-TATAT-CTAAAAGA-ATATATTGAAAAGGTTATATCCGAAAA-G
1 ATATT-TTGAAAAGGTTATATCCGAAAAGATAT-TATTGAAAAGGTTGTA-ACTAAAAGG
* * ** * * * * *
27532853 ATATATTGAAAATGTTATAT-TTACAAGGATA-TATTCAAAAGGTTAT-ATTCGAAAGG
1 ATATTTTGAAAAGGTTATATCCGA-AAAGATATTATTGAAAAGGTTGTAACT-AAAAGG
* * * * * * * *
27532909 ATATTTTGAAAAAGTTATATCCGAAATGATATTTTTGAAAATGTTAT-ATTCGAAAGA
1 ATATTTTGAAAAGGTTATATCCGAAAAGATATTATTGAAAAGGTTGTAACT-AAAAGG
* * * *
27532966 ATATTTTGAAAAGGTTATATCCGAAAAGATACTA-TGAAAAAGTTGTATCCAAAAGG
1 ATATTTTGAAAAGGTTATATCCGAAAAGATATTATTGAAAAGGTTGTAACTAAAAGG
* * * * *
27533022 ATATTTTTGAAAAGGTTACATCCGAAAGGATATTTTTGAAAAGGTTATATCTAAAAGG
1 ATA-TTTTGAAAAGGTTATATCCGAAAAGATATTATTGAAAAGGTTGTAACTAAAAGG
*
27533080 ATATTTTGAAAAGG-TATATCCGAAAAGATATTATTGAAAAAGGTTGCAACTAAAA
1 ATATTTTGAAAAGGTTATATCCGAAAAGATATTATTG-AAAAGGTTGTAACTAAAA
27533135 CGAGCATCAA
Statistics
Matches: 229, Mismatches: 42, Indels: 21
0.78 0.14 0.07
Matches are distributed among these distances:
55 11 0.05
56 86 0.38
57 109 0.48
58 23 0.10
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.33
Consensus pattern (57 bp):
ATATTTTGAAAAGGTTATATCCGAAAAGATATTATTGAAAAGGTTGTAACTAAAAGG
Found at i:27537068 original size:50 final size:50
Alignment explanation
Indices: 27536986--27537105 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 50
27536976 TTTCAGATCT
* *
27536986 TATTTATTTAAATTA--TT-TTCAGATCTAATGTTTTAAATAAATATAAA
1 TATTTATTTTAATTATTTTGTTTAGATCTAATGTTTTAAATAAATATAAA
* * * *
27537033 TATTTA-TTTAATTTGTTTTGTTTAGATCTAGTGTTTTACATCAATATAAA
1 TATTTATTTTAA-TTATTTTGTTTAGATCTAATGTTTTAAATAAATATAAA
27537083 TATTTATTTTAATTATTTTGTTT
1 TATTTATTTTAATTATTTTGTTT
27537106 CAAATCTTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
46 4 0.07
47 8 0.13
49 2 0.03
50 42 0.69
51 5 0.08
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (50 bp):
TATTTATTTTAATTATTTTGTTTAGATCTAATGTTTTAAATAAATATAAA
Found at i:27537511 original size:23 final size:23
Alignment explanation
Indices: 27537472--27537527 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
27537462 ATTATCTTGT
27537472 CACCTTTGTCAACATATCCTAGTC
1 CACCTTTG-CAACATATCCTAGTC
27537496 CACCTTTGCAACATATCCTAGTC
1 CACCTTTGCAACATATCCTAGTC
27537519 CACCTTTGC
1 CACCTTTGC
27537528 TTGGTTCTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 24 0.75
24 8 0.25
ACGTcount: A:0.23, C:0.36, G:0.09, T:0.32
Consensus pattern (23 bp):
CACCTTTGCAACATATCCTAGTC
Found at i:27537803 original size:24 final size:24
Alignment explanation
Indices: 27537762--27537809 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
27537752 TGAGAAACAT
* ** *
27537762 TTTTTTTTTGTTTGATTTGATTAA
1 TTTTTTTTTATTAAATTTAATTAA
27537786 TTTTTTTTTATTAAATTTAATTAA
1 TTTTTTTTTATTAAATTTAATTAA
27537810 ATGAAAGTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (24 bp):
TTTTTTTTTATTAAATTTAATTAA
Found at i:27540601 original size:2 final size:2
Alignment explanation
Indices: 27540594--27540638 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
27540584 TTTGAGGTCC
27540594 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27540635 AT AT
1 AT AT
27540639 TTATTTAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27555953 original size:57 final size:57
Alignment explanation
Indices: 27555892--27556012 Score: 172
Period size: 57 Copynumber: 2.1 Consensus size: 57
27555882 TCAATGTCAC
*
27555892 GACTTTGCTGCTGTTTGAGATCAACTTCCATCTTCAGGCTATG-GGCTTGAATGTCGT
1 GACTTTGCTGCTGTTTGAGATCAACTTCCATCTTCAAGCTA-GCGGCTTGAATGTCGT
* * * * *
27555949 GACTTTGCTGTTGTTTGTGATCAACTTTCATCTTCAAGCTAGCTGCTTGAATGTTGT
1 GACTTTGCTGCTGTTTGAGATCAACTTCCATCTTCAAGCTAGCGGCTTGAATGTCGT
27556006 GACTTTG
1 GACTTTG
27556013 GGGATCAGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 1 0.02
57 56 0.98
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.40
Consensus pattern (57 bp):
GACTTTGCTGCTGTTTGAGATCAACTTCCATCTTCAAGCTAGCGGCTTGAATGTCGT
Found at i:27558260 original size:23 final size:24
Alignment explanation
Indices: 27558216--27558269 Score: 56
Period size: 27 Copynumber: 2.2 Consensus size: 24
27558206 TATATTATTT
*
27558216 TATATAAAAATAAATTTTTTTATCAAA
1 TATATAAAAATAAA---TTTTAACAAA
*
27558243 TATATAAAAATAAA-TTTAAGAAA
1 TATATAAAAATAAATTTTAACAAA
27558266 TATA
1 TATA
27558270 ATACGTACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 11 0.44
27 14 0.56
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
TATATAAAAATAAATTTTAACAAA
Found at i:27564231 original size:13 final size:12
Alignment explanation
Indices: 27564209--27564242 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
27564199 CTTAATTTTA
27564209 TTTTTTTATTAT
1 TTTTTTTATTAT
27564221 TTTTATTTATTAT
1 TTTT-TTTATTAT
*
27564234 TATTTTTAT
1 TTTTTTTAT
27564243 GAATATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTATTAT
Found at i:27564233 original size:16 final size:16
Alignment explanation
Indices: 27564204--27564242 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
27564194 CGAAACTTAA
*
27564204 TTTTATTTTTTTATTAT
1 TTTTA-TTTATTATTAT
27564221 TTTTATTTATTATTAT
1 TTTTATTTATTATTAT
27564237 TTTTAT
1 TTTTAT
27564243 GAATATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTATTTATTATTAT
Found at i:27564293 original size:14 final size:15
Alignment explanation
Indices: 27564271--27564300 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
27564261 AAATATTAAT
27564271 TTTATTTTATTATTA
1 TTTATTTTATTATTA
27564286 TTTA-TTTATTATTA
1 TTTATTTTATTATTA
27564300 T
1 T
27564301 ATGAATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTTTATTATTA
Found at i:27564359 original size:63 final size:64
Alignment explanation
Indices: 27564217--27564384 Score: 226
Period size: 63 Copynumber: 2.7 Consensus size: 64
27564207 TATTTTTTTA
* *
27564217 TTATTTTTATTTA-TTATTATTTTTATGAATAT--A-AAA-AAATATAAAAATATTAATTTTATT
1 TTATTATTATTTATTTATTA-TTTTATGAATATAAATAAATAAATATAAAAATATTAATTTTATG
*
27564277 TTATTATTATTTATTTATTATTATATGAATATAAATAAATAAATATAAAATAATATTAA-TTT-T
1 TTATTATTATTTATTTATTATTTTATGAATATAAATAAATAAATAT-AAA-AATATTAATTTTAT
27564340 G
64 G
27564341 TT-TTATTATTTATTTATTATTTTATGAATATAAATAAATAAATA
1 TTATTATTATTTATTTATTATTTTATGAATATAAATAAATAAATA
27564385 ACATACCAAA
Statistics
Matches: 97, Mismatches: 4, Indels: 11
0.87 0.04 0.10
Matches are distributed among these distances:
60 23 0.24
61 6 0.06
62 1 0.01
63 44 0.45
64 9 0.09
65 6 0.06
66 8 0.08
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (64 bp):
TTATTATTATTTATTTATTATTTTATGAATATAAATAAATAAATATAAAAATATTAATTTTATG
Found at i:27569392 original size:9 final size:9
Alignment explanation
Indices: 27569378--27569437 Score: 61
Period size: 9 Copynumber: 6.6 Consensus size: 9
27569368 AATTTCACCA
27569378 AAAAAAAGG
1 AAAAAAAGG
27569387 AAAAAAAGG
1 AAAAAAAGG
*
27569396 AAAAAAGAGAA
1 AAAAAA-AG-G
27569407 AAAGAAAAGG
1 AAA-AAAAGG
27569417 AAAAAAA-G
1 AAAAAAAGG
*
27569425 AAGAAAA-G
1 AAAAAAAGG
27569433 AAAAA
1 AAAAA
27569438 CGGGGAGGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
8 12 0.27
9 19 0.43
10 5 0.11
11 5 0.11
12 3 0.07
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAAAAGG
Found at i:27569414 original size:21 final size:22
Alignment explanation
Indices: 27569377--27569436 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
27569367 AAATTTCACC
*
27569377 AAAAAA-AAGGAAA-AAAAGG-
1 AAAAAAGAAGAAAAGAAAAGGA
27569396 AAAAAAG-AGAAAAAGAAAAGGA
1 AAAAAAGAAG-AAAAGAAAAGGA
27569418 AAAAAAGAAGAAAAGAAAA
1 AAAAAAGAAGAAAAGAAAA
27569437 ACGGGGAGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
19 8 0.23
20 3 0.09
21 6 0.17
22 16 0.46
23 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAAAAGAAGAAAAGAAAAGGA
Found at i:27570578 original size:80 final size:80
Alignment explanation
Indices: 27570445--27570939 Score: 749
Period size: 80 Copynumber: 6.2 Consensus size: 80
27570435 AGTTACAACC
* *
27570445 TCCAATCTTTTACCCTAACCAGAGGGCAAGACTGAAGATCATCTGATCTTTTACCCCGATCATGG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCTGATCTTTTACCCCGATCATGG
27570510 GGCAGATTGAAGAAA
66 GGCAGATTGAAGAAA
* * *
27570525 TCCAATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACTATCTGATCTTTTACTCCGATCATGG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCTGATCTTTTACCCCGATCATGG
27570590 GGCAGATTGAAGAAA
66 GGCAGATTGAAGAAA
* * *
27570605 TCTAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCAT-TCGATCTTTTACCCTGATAATG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCT-GATCTTTTACCCCGATCATG
*
27570669 GGGCAAATTGAAGAAA
65 GGGCAGATTGAAGAAA
** * * *
27570685 TCCAATCTTTTACCCTAACCAGAGAACAAGATTGAAGATCATCTGATCTTTTACCTCGATCATAG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCTGATCTTTTACCCCGATCATGG
27570750 GGCAGATTGAAGAAA
66 GGCAGATTGAAGAAA
* * * *
27570765 TCCTATCTTTTACCCTAACCAGAGGGCAAGATTGAAAACCATCCGATCTTTTACCCCAATCATGG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCTGATCTTTTACCCCGATCATGG
27570830 GGCAGATTGAAGAAA
66 GGCAGATTGAAGAAA
* * * * * **
27570845 TTCAATCTTTTACCCTAACTAAAGGGCAAGATCGAAGACCATCCGATCTTTTACCTTGATCATGG
1 TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCTGATCTTTTACCCCGATCATGG
27570910 GGCAGATTGAAGAAA
66 GGCAGATTGAAGAAA
27570925 TCCAATCTTTTACCC
1 TCCAATCTTTTACCC
27570940 CGACTATGGG
Statistics
Matches: 373, Mismatches: 40, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
79 1 0.00
80 371 0.99
81 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (80 bp):
TCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCTGATCTTTTACCCCGATCATGG
GGCAGATTGAAGAAA
Found at i:27571042 original size:79 final size:76
Alignment explanation
Indices: 27570909--27571136 Score: 251
Period size: 79 Copynumber: 2.9 Consensus size: 76
27570899 CTTGATCATG
** * * *
27570909 GGGCAGATTGAAGAAATCCAATCTTTTACCCCGACTATGGGGTAGATTGAAGCAATTCAATCTTT
1 GGGCAGATTGAAGCCATCCGATCTCTTA-CCCGAC-ATGGGGCAGATTGAAGCAATTCAATCTTT
27570974 TACCCTAACCAGA
64 TACCCTAACCAGA
* *
27570987 GGGCAGATTGAAGGCCATCCGATCTCTTACCTCGATCATGGGGCAGATTGAAGCAATCCAATTTT
1 GGGCAGATTGAA-GCCATCCGATCTCTTACC-CGA-CATGGGGCAGATTGAAGCAATTCAATCTT
*
27571052 TTACCCTAACTAGA
63 TTACCCTAACCAGA
* * * **
27571066 GGGCAGATTGAATACCATCAGATCTCTTATCCCGACCATGGGGCAAATTGAAATAA-TCTAATCT
1 GGGCAGATTGAA-GCCATCCGATCTCTTA-CCCGA-CATGGGGCAGATTGAAGCAATTC-AATCT
27571130 TTTACCC
62 TTTACCC
27571137 CTAAAACTAT
Statistics
Matches: 128, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 15 0.12
79 110 0.86
80 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (76 bp):
GGGCAGATTGAAGCCATCCGATCTCTTACCCGACATGGGGCAGATTGAAGCAATTCAATCTTTTA
CCCTAACCAGA
Found at i:27571135 original size:118 final size:118
Alignment explanation
Indices: 27570509--27571135 Score: 389
Period size: 119 Copynumber: 5.3 Consensus size: 118
27570499 CCCGATCATG
* * * * **
27570509 GGGCAGATTGAAGA-AATCCAATCTTTTACC-CTAAC-TAGAGGGCAAGATTGAAGACTATCTGA
1 GGGCAAATTGAAGACAATCCAATCTTTTACCTCGATCAT-G-GGGC-AGATTGAAGA-AATCCAA
* * *
27570571 TCTTTTACTCCGA-TCATGGGGCAGATTGAAGA-AA-TCTAATCTTTTACCCTAACCAGA
62 TCTTTTACCCCAACT-ATGGGGCAGATTGAA-ACAATTC-AATCTCTTACCCTAACCAGA
* * * * *
27570628 GGGCAAGATTGAAGACCATTCGATCTTTTACC-CTGATAATGGGGCAAATTGAAGAAATCCAATC
1 GGGCAA-ATTGAAGACAATCCAATCTTTTACCTC-GATCATGGGGCAGATTGAAGAAATCCAATC
* * ** * * * * *
27570692 TTTTACCCTAACCA-GAGAACAAGATTGAAGATC-A-TCTGATCTTTTA-CCTCGATCATA
64 TTTTACCCCAACTATG-GGGC-AGATTGAA-A-CAATTC-AATCTCTTACCCT-AACCAGA
* * * * *
27570749 GGGCAGATTGAAGA-AATCCTATCTTTTACC-CTAACCA-GAGGGCAAGATTGAA-AACCATCCG
1 GGGCAAATTGAAGACAATCCAATCTTTTACCTC-GATCATG-GGGC-AGATTGAAGAA--ATCCA
* * *
27570810 ATCTTTTACCCCAA-TCATGGGGCAGATTGAAGA-AATTCAATCTTTTACCCTAACTAAA
61 ATCTTTTACCCCAACT-ATGGGGCAGATTGAA-ACAATTCAATCTCTTACCCTAACCAGA
* * * *
27570868 GGGCAAGATCGAAGACCATCCGATCTTTTACCTTGATCATGGGGCAGATTGAAGAAATCCAATCT
1 GGGCAA-ATTGAAGACAATCCAATCTTTTACCTCGATCATGGGGCAGATTGAAGAAATCCAATCT
* * * *
27570933 TTTACCCCGACTATGGGGTAGATTGAAGCAATTCAATCTTTTACCCTAACCAGA
65 TTTACCCCAACTATGGGGCAGATTGAAACAATTCAATCTCTTACCCTAACCAGA
* * * * * * *
27570987 GGGCAGATTGAAGGCCATCCGATCTCTTACCTCGATCATGGGGCAGATTGAAGCAATCCAATTTT
1 GGGCAAATTGAAGACAATCCAATCTTTTACCTCGATCATGGGGCAGATTGAAGAAATCCAATCTT
* * *
27571052 TTACCCTAACTA-GAGGGCAGATTGAATACCA-TCAGATCTCTTATCCC-GACCATG-
66 TTACCCCAACTATG-GGGCAGATTGAA-ACAATTCA-ATCTCTTA-CCCTAACCA-GA
* *
27571106 GGGCAAATTGAA-ATAATCTAATCTTTTACC
1 GGGCAAATTGAAGACAATCCAATCTTTTACC
27571136 CCTAAAACTA
Statistics
Matches: 404, Mismatches: 73, Indels: 63
0.75 0.14 0.12
Matches are distributed among these distances:
117 1 0.00
118 91 0.23
119 145 0.36
120 80 0.20
121 82 0.20
122 4 0.01
123 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (118 bp):
GGGCAAATTGAAGACAATCCAATCTTTTACCTCGATCATGGGGCAGATTGAAGAAATCCAATCTT
TTACCCCAACTATGGGGCAGATTGAAACAATTCAATCTCTTACCCTAACCAGA
Found at i:27571777 original size:67 final size:63
Alignment explanation
Indices: 27571661--27571841 Score: 221
Period size: 67 Copynumber: 2.9 Consensus size: 63
27571651 CCATTTTTCT
* *
27571661 TATTATTTTTA-TTTATTTATTTA-TAATTATTTTTATG-A-AT--ATAAATAAATATAAAATAA
1 TATTAATTTTATTTTA-TTATTTATTTATTA-TTTTATGAATATAAATAAATAAATATAAAATAA
* *
27571720 TATTTATTTTATTTTATTATTTATTTATTTATTATTGTATGAATATAAATAAATAAATGTAAAAT
1 TATTAATTTTATTTTATTATTTATTTA-TTA-T-TT-TATGAATATAAATAAATAAATATAAAAT
27571785 AA
62 AA
*
27571787 TATTAATTTTGTTTTATTATTTATTTATTATTTTATGAATATAAATAAATAAATA
1 TATTAATTTTATTTTATTATTTATTTATTATTTTATGAATATAAATAAATAAATA
27571842 ACAAACAAAA
Statistics
Matches: 106, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
59 16 0.15
60 6 0.06
61 5 0.05
62 2 0.02
63 25 0.24
64 3 0.03
65 3 0.03
66 3 0.03
67 43 0.41
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (63 bp):
TATTAATTTTATTTTATTATTTATTTATTATTTTATGAATATAAATAAATAAATATAAAATAA
Found at i:27571839 original size:63 final size:63
Alignment explanation
Indices: 27571661--27571840 Score: 237
Period size: 63 Copynumber: 2.9 Consensus size: 63
27571651 CCATTTTTCT
* *
27571661 TATTATTTTTA-TTTATTTATTTA-TAATTATTTTTATGAATATAAATAAAT--A-TAAAATAA
1 TATTAATTTTATTTTA-TTATTTATTTATTATTTTTATGAATATAAATAAATAAATTAAAATAA
*
27571720 TATTTATTTTATTTTATTATTTATTTATTTATTATTGTATGAATATAAATAAATAAATGTAAAAT
1 TATTAATTTTATTTTATTATTTATTTA-TTATT-TT-TATGAATATAAATAAATAAAT-TAAAAT
27571785 AA
62 AA
*
27571787 TATTAATTTTGTTTTATTATTTATTTATTA-TTTTATGAATATAAATAAATAAAT
1 TATTAATTTTATTTTATTATTTATTTATTATTTTTATGAATATAAATAAATAAAT
27571841 AACAAACAAA
Statistics
Matches: 107, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
59 16 0.15
60 6 0.06
61 5 0.05
62 2 0.02
63 38 0.36
64 2 0.02
65 2 0.02
66 3 0.03
67 33 0.31
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (63 bp):
TATTAATTTTATTTTATTATTTATTTATTATTTTTATGAATATAAATAAATAAATTAAAATAA
Found at i:27571842 original size:67 final size:67
Alignment explanation
Indices: 27571701--27571841 Score: 227
Period size: 67 Copynumber: 2.2 Consensus size: 67
27571691 TTTTATGAAT
*
27571701 ATAAATAAATATAAAATAATATTTATTTTATTTTATTATTTATTTATTTATTATTGTATGAATAT
1 ATAAATAAATATAAAATAATATTAATTTTATTTTATTATTTATTTATTTATTATTGTATGAATAT
27571766 AA
66 AA
* *
27571768 ATAAATAAATGTAAAATAATATTAATTTTGTTTTATTATTTATTTA-TTA-T-TT-TATGAATAT
1 ATAAATAAATATAAAATAATATTAATTTTATTTTATTATTTATTTATTTATTATTGTATGAATAT
27571829 AA
66 AA
27571831 ATAAATAAATA
1 ATAAATAAATA
27571842 ACAAACAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
63 21 0.30
64 2 0.03
65 1 0.01
66 3 0.04
67 43 0.61
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (67 bp):
ATAAATAAATATAAAATAATATTAATTTTATTTTATTATTTATTTATTTATTATTGTATGAATAT
AA
Found at i:27584008 original size:2 final size:2
Alignment explanation
Indices: 27584001--27584026 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27583991 GACATGACAT
27584001 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
27584027 GAGGGGAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27593086 original size:20 final size:20
Alignment explanation
Indices: 27593051--27593091 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
27593041 ATCTTTTTAC
* *
27593051 TCTTGGTTTTAGTCGAGTGT
1 TCTTGGTTTCAATCGAGTGT
*
27593071 TCTTGGTTTCAATCGATTGT
1 TCTTGGTTTCAATCGAGTGT
27593091 T
1 T
27593092 GTGCTTTTCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.51
Consensus pattern (20 bp):
TCTTGGTTTCAATCGAGTGT
Found at i:27597645 original size:59 final size:58
Alignment explanation
Indices: 27597584--27597892 Score: 421
Period size: 59 Copynumber: 5.3 Consensus size: 58
27597574 CTTGATGGTA
* *
27597584 AAAAT-GTAA-TTTTGG-GAAAATTCGGGGTTAAAAATGGAATCTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTG-AAA-TCGGGGTTAAAAATGGGATTTTGGAAAGTTT-GGGGT
*
27597642 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGAAAGTTTGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTG-GGGT
**
27597701 AAAATGGTAATTTTTGGTGAAATTAGGGTT-AAAATGGGATTTTGGAAAGTTTGGGAGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGG-GT
* *
27597759 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGCAAAGTTCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT-TGGGGT
* * * *
27597818 AAAATGGTAATTTTTGGTGATATCGGGGTTAAAAATAGAAATTTGGAAAGTTTGGGGTT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGGG-T
27597877 AAAAT-GTAATTTTTGG
1 AAAATGGTAATTTTTGG
27597893 ATAGTTTAGG
Statistics
Matches: 227, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
57 2 0.01
58 73 0.32
59 139 0.61
60 12 0.05
61 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGGGT
Found at i:27597761 original size:28 final size:27
Alignment explanation
Indices: 27597614--27597824 Score: 99
Period size: 30 Copynumber: 7.3 Consensus size: 27
27597604 TTCGGGGTTA
* *
27597614 AAAATGGAATCTTGGAAAGTTTAGGGGT
1 AAAATGGGATTTTGGAAAGTTT-GGGGT
* *
27597642 AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGG-GA-TTTT-G-GAAAGTTTGGGG-T
*
27597672 AAAAATGGGATTTTAGAAAGTTTGAGGGT
1 -AAAATGGGATTTTGGAAAGTTTG-GGGT
* * *
27597701 AAAATGGTAATTTTTGGTGAAA-TTAGGGTT
1 AAAATGG-GA-TTTT-G-GAAAGTTTGGGGT
27597731 AAAATGGGATTTTGGAAAGTTTGGGAGT
1 AAAATGGGATTTTGGAAAGTTTGGG-GT
* *
27597759 AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGG-GA-TTTT-G-GAAAGTTTGGGG-T
* *
27597789 AAAAATGGGATTTTGCAAAGTTCAGGGGT
1 -AAAATGGGATTTTGGAAAGTT-TGGGGT
27597818 AAAATGG
1 AAAATGG
27597825 TAATTTTTGG
Statistics
Matches: 142, Mismatches: 17, Indels: 48
0.69 0.08 0.23
Matches are distributed among these distances:
26 4 0.03
27 13 0.09
28 34 0.24
29 23 0.16
30 37 0.26
31 19 0.13
32 12 0.08
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.33
Consensus pattern (27 bp):
AAAATGGGATTTTGGAAAGTTTGGGGT
Found at i:27597761 original size:117 final size:116
Alignment explanation
Indices: 27597575--27597892 Score: 432
Period size: 117 Copynumber: 2.7 Consensus size: 116
27597565 ATTTTGACTC
* *
27597575 TTGATGGTAAAAAT-GTAA-TTTTGG-GAAAATTCGGGGTTAAAAATGGAATCTTGGAAAGTTTA
1 TTGAGGGT-AAAATGGTAATTTTTGGTG-AAATT-GGGGTTAAAAATGGAATTTTGGAAAGTTT-
27597637 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAG-AAAG
62 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTT-GCAAAG
* *
27597692 TTTGAGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTT-AAAATGGGATTTTGGAAAGTTTGGG
1 -TTGAGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGG
27597756 AGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGCAAAG
65 -GTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGCAAAG
* * * * *
27597809 TTCAGGGGTAAAATGGTAATTTTTGGTGATATCGGGGTTAAAAATAGAAATTTGGAAAGTTTGGG
1 TTGA-GGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGG
27597874 GTTAAAAT-GTAATTTTTGG
65 G-TAAAATGGTAATTTTTGG
27597893 ATAGTTTAGG
Statistics
Matches: 181, Mismatches: 11, Indels: 17
0.87 0.05 0.08
Matches are distributed among these distances:
116 7 0.04
117 118 0.65
118 44 0.24
119 11 0.06
120 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.35
Consensus pattern (116 bp):
TTGAGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGG
TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGCAAAG
Found at i:27598587 original size:16 final size:16
Alignment explanation
Indices: 27598566--27598597 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27598556 AAACCCGAAC
*
27598566 CCAGATCTAGTAAAAT
1 CCAGATCTAGAAAAAT
27598582 CCAGATCTAGAAAAAT
1 CCAGATCTAGAAAAAT
27598598 TTCAAAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (16 bp):
CCAGATCTAGAAAAAT
Found at i:27600335 original size:200 final size:200
Alignment explanation
Indices: 27600031--27600618 Score: 980
Period size: 200 Copynumber: 2.9 Consensus size: 200
27600021 CGTAATTATC
* * *
27600031 TGTTTTAATTCGCTTCTCTGGATCTCCTTAGGAAGACGAATTTGGTTCACTTCTCTATGTCTCAT
1 TGTTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCAT
* *
27600096 TAGGAAGCTAACC-TTTTCATCGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCG
66 CAGGAAGCTAACCATTTT-ATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCG
* ** *
27600160 AAGATTTGCTCCCATTGAGCGTTGAGTTGGTATTCTTCTCTGTGTCTCATCAGGAAGAGGGTCAC
130 AAGATTGGCTCGTATTGAGCGTTGAGTTGGTATTCTTCTCTGTGTCTCATCAGGAAGAGGGCCAC
27600225 CTCGCT
195 CTCGCT
* * * *
27600231 TGTTTCAATTCGCTTCTCTAGATCTCCTCAGGAAGATGAATTTGGTCCACTTCTCTGTGTCTTAT
1 TGTTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCAT
* *
27600296 CAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAACTGGGTACGA
66 CAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGA
*
27600361 AGATTGGCTCGTATTGAGCGTTGAGTTGGTATTCTTCTCTGTGTCTCATCAGGAAGATGGCCACC
131 AGATTGGCTCGTATTGAGCGTTGAGTTGGTATTCTTCTCTGTGTCTCATCAGGAAGAGGGCCACC
27600426 TCGCT
196 TCGCT
27600431 TGTTTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCA
1 TG-TTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCA
27600496 TCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCG
65 TCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCG
* * *
27600561 AAGATTGGCTCGTGTTGAGCGTTAAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGA
130 AAGATTGGCTCGTATTGAGCGTTGAGTTGGTATTCTTCTCTGTGTCTCATCAGGAAGA
27600619 TGACTGCCTC
Statistics
Matches: 361, Mismatches: 25, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
200 181 0.50
201 180 0.50
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (200 bp):
TGTTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCAT
CAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGA
AGATTGGCTCGTATTGAGCGTTGAGTTGGTATTCTTCTCTGTGTCTCATCAGGAAGAGGGCCACC
TCGCT
Found at i:27600540 original size:201 final size:200
Alignment explanation
Indices: 27599991--27600620 Score: 985
Period size: 201 Copynumber: 3.1 Consensus size: 200
27599981 TGACTTAGTC
* * ** **
27599991 TTCTTCTCTGTGTCTTATCAGGAAGATGACCGTAATTATC-TGTTTTAATTCGCTTCTCTGGATC
1 TTCTTCTCTGTGTCTCATCAGGAAGATGGCC--ACCTCGCTTGTTTTAATTCGCTTCTCTGGATC
* * * * *
27600055 TCCTTAGGAAGACGAATTTGGTTCACTTCTCTATGTCTCATTAGGAAGCTAACC-TTTTCATCGC
64 TCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTT-ATTGC
* **
27600119 TTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCCCATTGAGCGTTG
128 TTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTATTGAGCGTTG
27600184 AGTTGGTA
193 AGTTGGTA
* * * *
27600192 TTCTTCTCTGTGTCTCATCAGGAAGAGGGTCACCTCGCTTGTTTCAATTCGCTTCTCTAGATCTC
1 TTCTTCTCTGTGTCTCATCAGGAAGATGGCCACCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
* *
27600257 CTCAGGAAGATGAATTTGGTCCACTTCTCTGTGTCTTATCAGGAAGCTAACCATTTTATTGCTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTC
* *
27600322 GACCTGCTTCTCAGTGTCTCATCAGGAAACTGGGTACGAAGATTGGCTCGTATTGAGCGTTGAGT
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTATTGAGCGTTGAGT
27600387 TGGTA
196 TGGTA
27600392 TTCTTCTCTGTGTCTCATCAGGAAGATGGCCACCTCGCTTGTTTTTAATTCGCTTCTCTGGATCT
1 TTCTTCTCTGTGTCTCATCAGGAAGATGGCCACCTCGCTTG-TTTTAATTCGCTTCTCTGGATCT
27600457 CCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTT
65 CCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTT
* *
27600522 CGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGCGTTAAG
130 CGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTATTGAGCGTTGAG
27600587 TTGGTA
195 TTGGTA
*
27600593 TTCTTCTCTGTATCTCATCAGGAAGATG
1 TTCTTCTCTGTGTCTCATCAGGAAGATG
27600621 ACTGCCTCAA
Statistics
Matches: 393, Mismatches: 33, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
199 3 0.01
200 181 0.46
201 209 0.53
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (200 bp):
TTCTTCTCTGTGTCTCATCAGGAAGATGGCCACCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTC
GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTATTGAGCGTTGAGT
TGGTA
Found at i:27606622 original size:17 final size:17
Alignment explanation
Indices: 27606600--27606635 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
27606590 TTTTGCCACT
27606600 CCGGGTAATCAAGTTTA
1 CCGGGTAATCAAGTTTA
27606617 CCGGGTAATCAAGTTTA
1 CCGGGTAATCAAGTTTA
27606634 CC
1 CC
27606636 TCTTTCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (17 bp):
CCGGGTAATCAAGTTTA
Found at i:27612749 original size:57 final size:59
Alignment explanation
Indices: 27612675--27612888 Score: 235
Period size: 58 Copynumber: 3.7 Consensus size: 59
27612665 AAAAATGCAA
* * *
27612675 TTTTGG-GAAATTTGAGGTT-AAAATAGAATCTTAGAAAGTTTAGGGGT-AAATGGTAAT
1 TTTTGGTGAAA-TCGAGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTAAAATGGTAAT
* *
27612732 TTTTAGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTAAAACGGTAA-
1 TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTAAAATGGTAAT
* * * * * *
27612790 TTTTGGTAAAAT-TAGGGTT-AAAATGGGATTTTGGAAAG-TTCGAGGGTAAAATGATAAT
1 TTTTGGTGAAATCGA-GGTTAAAAATGGAATTTTAGAAAGTTTAG-GGGTAAAATGGTAAT
* *
27612848 TTTTGGTGAAATCGGGGTTAAAAATGGGATTTTAGAAAGTT
1 TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTT
27612889 CGAGGGTAAA
Statistics
Matches: 131, Mismatches: 17, Indels: 15
0.80 0.10 0.09
Matches are distributed among these distances:
56 3 0.02
57 42 0.32
58 59 0.45
59 26 0.20
60 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.34
Consensus pattern (59 bp):
TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTAAAATGGTAAT
Found at i:27612821 original size:28 final size:28
Alignment explanation
Indices: 27612789--27612880 Score: 71
Period size: 28 Copynumber: 3.2 Consensus size: 28
27612779 TAAAACGGTA
27612789 ATTTTGGTAAAATTAGGGTTAAAATGGG
1 ATTTTGGTAAAATTAGGGTTAAAATGGG
* **
27612817 ATTTTGG-AAAGTTCGAGGG-TAAAATGATA
1 ATTTTGGTAAAATT--AGGGTTAAAATG-GG
* **
27612846 ATTTTTGGTGAAATCGGGGTTAAAAATGGG
1 A-TTTTGGTAAAATTAGGGTT-AAAATGGG
27612876 ATTTT
1 ATTTT
27612881 AGAAAGTTCG
Statistics
Matches: 48, Mismatches: 9, Indels: 13
0.69 0.13 0.19
Matches are distributed among these distances:
27 5 0.10
28 14 0.29
29 12 0.25
30 8 0.17
31 9 0.19
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (28 bp):
ATTTTGGTAAAATTAGGGTTAAAATGGG
Found at i:27612835 original size:29 final size:29
Alignment explanation
Indices: 27612666--27612900 Score: 104
Period size: 29 Copynumber: 8.2 Consensus size: 29
27612656 CTCAATGGCA
* *
27612666 AAAATGCAATTTTGGGAAA-TTTGA-GGTT
1 AAAATGGAATTTT-GGAAAGTTCGAGGGTT
* * * * *
27612694 AAAATAGAATCTTAGAAAGTT-TAGGGGT
1 AAAATGGAATTTTGGAAAGTTCGAGGGTT
27612722 -AAATGGTAATTTTTAGTGAAA--TCGA-GGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTCGAGGGTT
* * *
27612751 AAAAATGGAATTTTAGAAAGTT-TAGGGGT
1 -AAAATGGAATTTTGGAAAGTTCGAGGGTT
* *
27612780 AAAACGGTAATTTTGGTAAAATT--AGGGTT
1 AAAATGG-AATTTTGG-AAAGTTCGAGGGTT
*
27612809 AAAATGGGATTTTGGAAAGTTCGAGGG-T
1 AAAATGGAATTTTGGAAAGTTCGAGGGTT
*
27612837 AAAATGATAATTTTTGGTGAAA--TCG-GGGTT
1 AAAATG-GAA-TTTT-G-GAAAGTTCGAGGGTT
* *
27612867 AAAAATGGGATTTTAGAAAGTTCGAGGG-T
1 -AAAATGGAATTTTGGAAAGTTCGAGGGTT
27612896 AAAAT
1 AAAAT
27612901 AAAGTTTGGG
Statistics
Matches: 156, Mismatches: 26, Indels: 50
0.67 0.11 0.22
Matches are distributed among these distances:
27 23 0.15
28 43 0.28
29 49 0.31
30 20 0.13
31 17 0.11
32 4 0.03
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.32
Consensus pattern (29 bp):
AAAATGGAATTTTGGAAAGTTCGAGGGTT
Found at i:27612906 original size:18 final size:18
Alignment explanation
Indices: 27612883--27612918 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27612873 GGGATTTTAG
27612883 AAAGTTCGAGGGTAAAAT
1 AAAGTTCGAGGGTAAAAT
* *
27612901 AAAGTTTGGGGGTAAAAT
1 AAAGTTCGAGGGTAAAAT
27612919 GGTAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.31, T:0.25
Consensus pattern (18 bp):
AAAGTTCGAGGGTAAAAT
Found at i:27613748 original size:16 final size:16
Alignment explanation
Indices: 27613727--27613758 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27613717 AAACCCGAAC
*
27613727 CCAGATCTGGTAAAAT
1 CCAGATCTGGAAAAAT
27613743 CCAGATCTGGAAAAAT
1 CCAGATCTGGAAAAAT
27613759 TTCAAAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (16 bp):
CCAGATCTGGAAAAAT
Found at i:27614032 original size:21 final size:22
Alignment explanation
Indices: 27614008--27614065 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
27613998 TATTTTTACT
27614008 AATTATTATTAATATTA-AAAC
1 AATTATTATTAATATTATAAAC
* *
27614029 AATTATTATTATGATATTATCATC
1 AATTATTATTA--ATATTATAAAC
27614053 AA-TATTATTAATA
1 AATTATTATTAATA
27614066 ACATATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 14 0.44
23 14 0.44
24 4 0.12
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (22 bp):
AATTATTATTAATATTATAAAC
Found at i:27616509 original size:105 final size:104
Alignment explanation
Indices: 27616394--27616942 Score: 487
Period size: 105 Copynumber: 5.2 Consensus size: 104
27616384 TAAAGCACAA
* * **
27616394 CATTAAGCCTAACGTCGTCACATATAGTATATTGATCGATGGGCTTTGCAAGCAAGGAATGTTAT
1 CATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATGCTCTTTGCAAGCAAGGAATGTT-T
* **
27616459 CTAAAGCCGGAGATATTGTTGACATAATGACAAAGCAAGG
65 CTAAAGCCGAAGATATTGTTGACGCAATGACAAAGCAAGG
* *
27616499 CATTAAGCCTAATGTTGTCACATATAGTATGTTGATCGATGCTCTTTGCAA-AAGAGGAATGGTT
1 CATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATGCTCTTTGCAAGCA-AGGAAT-GTT
*
27616563 TCTAAAGCCGAAGATATTGTTGGCGCAATGACAAAGCAAGG
64 TCTAAAGCCGAAGATATTGTTGACGCAATGACAAAGCAAGG
* * * * * * *
27616604 CATTAAGCTTGATGTTGTCACATATAGTATATTCATCGACGCTCTTTGCAAGACAGGGGAGGTTT
1 CATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATGCTCTTTGCAAG-CAAGGAATGTTT
* * * *
27616669 CTAAAGCCGAAGGTGTTGTTGACGCGATGAGAAAGCAAGG
65 CTAAAGCCGAAGATATTGTTGACGCAATGACAAAGCAAGG
* * * * * * * * *
27616709 CATCGAA-CCTAATGTTGTCACGTATAGTACATTGATAGATTCACTTTGCAAGGATGGTATGGTT
1 CAT-TAAGCCTAATGTTGTCACATATAGTATATTGATCGATGCTCTTTGCAAGCAAGGAAT-GTT
* * ** * * * * *
27616773 TCTAGAGCTGAATTTGTTGTTGGCACGATGAGAAAGCAAGG
64 TCTAAAGCCGAAGATATTGTTGACGCAATGACAAAGCAAGG
* * ** * * * * * *
27616814 CGCTGAA-CCTAATGTCATCACGTATAATATATTGATGGATTCACTTTGCAAG-AATGGTATGGT
1 C-ATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATGCTCTTTGCAAGCAA-GGAAT-GT
* * *
27616877 TTCTGAAGCCGAAGATATTGTTGGCAG-AATGAGAAAGCAAGG
63 TTCTAAAGCCGAAGATATTGTTGAC-GCAATGACAAAGCAAGG
* *
27616919 CATTGAGCCTGATGTTGTCACATA
1 CATTAAGCCTAATGTTGTCACATA
27616943 CAACACTCTG
Statistics
Matches: 368, Mismatches: 66, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
104 8 0.02
105 350 0.95
106 9 0.02
107 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (104 bp):
CATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATGCTCTTTGCAAGCAAGGAATGTTTC
TAAAGCCGAAGATATTGTTGACGCAATGACAAAGCAAGG
Found at i:27616674 original size:210 final size:210
Alignment explanation
Indices: 27616401--27616942 Score: 554
Period size: 210 Copynumber: 2.6 Consensus size: 210
27616391 CAACATTAAG
* ** *
27616401 CCTAACGTCGTCACATATAGTATATTGATCGATGGGCTTTGCAAG-CAAGGAATGTTATCTAAAG
1 CCTAATGTCGTCACATATAGTATATTGATCGATGCACTTTGCAAGACAAGGAAGGTT-TCTAAAG
* * * **
27616465 CCGGAGATATTGTTGACATAATGACAAAGCAAGGCATTAAGCCTAATGTTGTCACATATAGTATG
65 CCGAAGATATTGTTGACACAATGAGAAAGCAAGGCATTAAGCCTAATGTTGTCACATATAGTACA
* * *
27616530 TTGATCGATGCTCTTTGCAAAAGA-GGAATGGTTTCTAAAGCCGAAGATATTGTTGGCGCAATGA
130 TTGATAGATGCACTTTGC-AAAGATGGAATGGTTTCTAAAGCCGAAGATATTGTTGGCACAATGA
*
27616594 CAAAGCAAGGC-ATTAA
194 CAAAGCAAGGCGATGAA
* * * * * * * *
27616610 GCTTGATGTTGTCACATATAGTATATTCATCGACGCTCTTTGCAAGACAGGGGAGGTTTCTAAAG
1 -CCTAATGTCGTCACATATAGTATATTGATCGATGCACTTTGCAAGACAAGGAAGGTTTCTAAAG
* * * * * *
27616675 CCGAAGGTGTTGTTGACGCGATGAGAAAGCAAGGCATCGAA-CCTAATGTTGTCACGTATAGTAC
65 CCGAAGATATTGTTGACACAATGAGAAAGCAAGGCAT-TAAGCCTAATGTTGTCACATATAGTAC
* * * * * ** * *
27616739 ATTGATAGATTCACTTTGCAAGGATGGTATGGTTTCTAGAGCTGAATTTGTTGTTGGCACGATGA
129 ATTGATAGATGCACTTTGCAAAGATGGAATGGTTTCTAAAGCCGAAGATATTGTTGGCACAATGA
* *
27616804 GAAAGCAAGGCGCTGAA
194 CAAAGCAAGGCGATGAA
* * * * * * * *
27616821 CCTAATGTCATCACGTATAATATATTGATGGATTCACTTTGCAAGA-ATGGTATGGTTTCTGAAG
1 CCTAATGTCGTCACATATAGTATATTGATCGATGCACTTTGCAAGACAAGG-AAGGTTTCTAAAG
* * * *
27616885 CCGAAGATATTGTTGGCAGAATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCACATA
65 CCGAAGATATTGTTGACACAATGAGAAAGCAAGGCATTAAGCCTAATGTTGTCACATA
27616943 CAACACTCTG
Statistics
Matches: 264, Mismatches: 62, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
209 8 0.03
210 243 0.92
211 13 0.05
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (210 bp):
CCTAATGTCGTCACATATAGTATATTGATCGATGCACTTTGCAAGACAAGGAAGGTTTCTAAAGC
CGAAGATATTGTTGACACAATGAGAAAGCAAGGCATTAAGCCTAATGTTGTCACATATAGTACAT
TGATAGATGCACTTTGCAAAGATGGAATGGTTTCTAAAGCCGAAGATATTGTTGGCACAATGACA
AAGCAAGGCGATGAA
Found at i:27618500 original size:29 final size:28
Alignment explanation
Indices: 27618441--27618517 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 28
27618431 TAAAGTAGGT
* *
27618441 AAAAAAATTTTGGACCTTTAAAAGCTAA
1 AAAAAAATTTTGGACCCTTAAAAACTAA
* *
27618469 AAAAAAATTTTGGGCCACTTAAAAATTTAA
1 AAAAAAATTTTGGACC-CTTAAAAA-CTAA
27618499 AAAACCACAATTTTGGACC
1 AAAA--A-AATTTTGGACC
27618518 ATTTTTAACT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 15 0.38
29 6 0.15
30 7 0.18
32 1 0.03
33 10 0.26
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.27
Consensus pattern (28 bp):
AAAAAAATTTTGGACCCTTAAAAACTAA
Done.