Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005599.1 Hibiscus syriacus cultivar Beakdansim tig00013024_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 204908
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:2507 original size:61 final size:61
Alignment explanation
Indices: 2357--2601 Score: 326
Period size: 61 Copynumber: 4.0 Consensus size: 61
2347 CGTCAATTTT
* *
2357 ATTATCCATCCAAATAATTAAATTTAAAAAATATCTTTCATTCATA-TAACATAAATTATCACTA
1 ATTATCCATCCAAATAATTAAATTT-AAAAATATATTTCATTCATATTAAC---ACTTATCACTA
*
2421 A-TATCCATCCAAATAATTAAA-TTAAAAATTTATTTCATTCATATTAACACTTATCACTA
1 ATTATCCATCCAAATAATTAAATTTAAAAATATATTTCATTCATATTAACACTTATCACTA
2480 ATTATCCATCCAAATAATTAAATTTAAAAATATATTTCATTCATATTAACACTTATCACTA
1 ATTATCCATCCAAATAATTAAATTTAAAAATATATTTCATTCATATTAACACTTATCACTA
* * *
2541 ATTATCCATCCAAA-AA--AAATTTAAAAA-ATATCCTCCATTCATGTTGACACTTATCAC-A
1 ATTATCCATCCAAATAATTAAATTTAAAAATATAT--TTCATTCATATTAACACTTATCACTA
2599 ATT
1 ATT
2602 TAATTAAAAG
Statistics
Matches: 169, Mismatches: 7, Indels: 16
0.88 0.04 0.08
Matches are distributed among these distances:
57 4 0.02
58 15 0.09
59 32 0.19
60 22 0.13
61 69 0.41
62 6 0.04
63 20 0.12
64 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (61 bp):
ATTATCCATCCAAATAATTAAATTTAAAAATATATTTCATTCATATTAACACTTATCACTA
Found at i:2616 original size:120 final size:120
Alignment explanation
Indices: 2357--2601 Score: 286
Period size: 120 Copynumber: 2.0 Consensus size: 120
2347 CGTCAATTTT
** *
2357 ATTATCCATCCAAATAATTAAATTTAAAAAATATCTTTCATTCATATAACATAAATTATCACTAA
1 ATTATCCATAAAAATAATTAAATTTAAAAAATATATTTCATTCATATAAC--AAATTATCACTAA
* *
2422 TATCCATCCAAATAATTAAATTAAAAATTTATTTCATTCATATTAACACTTATCACTA
64 TATCCATCCAAATAA-TAAATTAAAAATATATTCCATTCATATTAACACTTATCACTA
** *
2480 ATTATCCATCCAAATAATTAAATTT-AAAAATATATTTCATTCATATTAAC-ACTTATCACTAAT
1 ATTATCCATAAAAATAATTAAATTTAAAAAATATATTTCATTCATA-TAACAAATTATCACTAA-
* *
2543 TATCCATCCAAA-AA-AAATTTAAAAA-ATATCCTCCATTCATGTTGACACTTATCAC-A
64 TATCCATCCAAATAATAAA-TTAAAAATATAT--TCCATTCATATTAACACTTATCACTA
2599 ATT
1 ATT
2602 TAATTAAAAG
Statistics
Matches: 111, Mismatches: 6, Indels: 14
0.85 0.05 0.11
Matches are distributed among these distances:
118 6 0.05
119 11 0.10
120 34 0.31
121 12 0.11
122 19 0.17
123 29 0.26
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (120 bp):
ATTATCCATAAAAATAATTAAATTTAAAAAATATATTTCATTCATATAACAAATTATCACTAATA
TCCATCCAAATAATAAATTAAAAATATATTCCATTCATATTAACACTTATCACTA
Found at i:8359 original size:16 final size:16
Alignment explanation
Indices: 8289--8359 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
8279 GGTATTACCC
8289 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
*
8305 GACTTGTTTTCAACCT
1 GACCTGTTTTCAACCT
*
8321 GACCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
* *
8337 GATCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
8353 GACCTGT
1 GACCTGT
8360 AAATGATCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.42
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:8494 original size:30 final size:32
Alignment explanation
Indices: 8460--8520 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
8450 ATGATGTAAT
8460 TAAAATA-TTAATATGATTACTT-T-TTAAATG
1 TAAAATATTTAATATGA-TACTTATATTAAATG
*
8490 TAAAATATTTATTATGATACTTATATTAAAT
1 TAAAATATTTAATATGATACTTATATTAAAT
8521 AGACCTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 12 0.44
31 9 0.33
32 6 0.22
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (32 bp):
TAAAATATTTAATATGATACTTATATTAAATG
Found at i:8556 original size:9 final size:9
Alignment explanation
Indices: 8542--8571 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
8532 ATAAAATTAT
8542 TTAATAAAA
1 TTAATAAAA
8551 TTAATAAAA
1 TTAATAAAA
8560 TTAATAAAA
1 TTAATAAAA
8569 TTA
1 TTA
8572 TTTAAATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TTAATAAAA
Found at i:8635 original size:14 final size:14
Alignment explanation
Indices: 8613--8659 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
8603 TGTGAAGGAA
*
8613 AATTAATATAGTTT
1 AATTTATATAGTTT
8627 AATTTATATA----
1 AATTTATATAGTTT
8637 AA-TTATATAGTTT
1 AATTTATATAGTTT
8650 AATTTATATA
1 AATTTATATA
8660 AAGAAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:8646 original size:23 final size:24
Alignment explanation
Indices: 8612--8661 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
8602 ATGTGAAGGA
8612 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
8636 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
8659 AAA
1 AAA
8662 GAAAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:8895 original size:26 final size:26
Alignment explanation
Indices: 8866--8915 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
8856 AATGAAAAAT
8866 ATAATAAAATAA-ATTTAATGATAATG
1 ATAATAAAATAACATTTAAT-ATAATG
**
8892 ATAATTTAATAACATTTAATATAA
1 ATAATAAAATAACATTTAATATAA
8916 AATTTGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (26 bp):
ATAATAAAATAACATTTAATATAATG
Found at i:9217 original size:13 final size:13
Alignment explanation
Indices: 9199--9241 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
9189 AAAATATAAG
*
9199 GCAACAACATGAA
1 GCAACAACAGGAA
9212 GCAACAACAGGAA
1 GCAACAACAGGAA
*
9225 GCAAGCAGCAGGAA
1 GCAA-CAACAGGAA
9239 GCA
1 GCA
9242 GCAGGCAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.49, C:0.23, G:0.26, T:0.02
Consensus pattern (13 bp):
GCAACAACAGGAA
Found at i:11952 original size:102 final size:99
Alignment explanation
Indices: 11776--12000 Score: 333
Period size: 102 Copynumber: 2.2 Consensus size: 99
11766 AACAACCAAG
*
11776 AGTAGCAACAAATTAAACAGTTTATTTAAACTGTAAATAAAGACAGCTAACAACCTTATAAAAAC
1 AGTAGCAACAAATTAAACAGTTTATTTAAACTCTAAATAAAGACAGCTAACAACCTTATAAAAAC
11841 AATCCGAATGAACAACCAACAACACAAACAAATCAAC
66 AATCCGAATGAA-AA--AACAACACAAACAAATCAAC
* * * * **
11878 AGTAGCAACAAATTGAACAGTTTATTTAAACTCTAAATAAAGGCATCTAACAACCTTATAGAAGT
1 AGTAGCAACAAATTAAACAGTTTATTTAAACTCTAAATAAAGACAGCTAACAACCTTATAAAAAC
*
11943 AATCCGAATGAAAAATCAACACAAACAAATCAAC
66 AATCCGAATGAAAAAACAACACAAACAAATCAAC
* *
11977 AATAGCAACAAATTAAACATTTTA
1 AGTAGCAACAAATTAAACAGTTTA
12001 GTTACCTCTT
Statistics
Matches: 112, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
99 40 0.36
101 2 0.02
102 70 0.62
ACGTcount: A:0.52, C:0.19, G:0.08, T:0.21
Consensus pattern (99 bp):
AGTAGCAACAAATTAAACAGTTTATTTAAACTCTAAATAAAGACAGCTAACAACCTTATAAAAAC
AATCCGAATGAAAAAACAACACAAACAAATCAAC
Found at i:12211 original size:33 final size:32
Alignment explanation
Indices: 12174--12273 Score: 155
Period size: 33 Copynumber: 3.1 Consensus size: 32
12164 AAACCCTTGA
*
12174 AAAAAAGGATTCAAATATCAACCAAAAACAGAG
1 AAAAAA-GATTCGAATATCAACCAAAAACAGAG
*
12207 AAAAAAGATTCGAATATCAACCAAAAATAGAG
1 AAAAAAGATTCGAATATCAACCAAAAACAGAG
*
12239 AAAAAATAATTCGAATATCAACCAAAAACAGAG
1 AAAAAA-GATTCGAATATCAACCAAAAACAGAG
12272 AA
1 AA
12274 TTTGAGAGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
32 30 0.48
33 32 0.52
ACGTcount: A:0.61, C:0.14, G:0.11, T:0.14
Consensus pattern (32 bp):
AAAAAAGATTCGAATATCAACCAAAAACAGAG
Found at i:12329 original size:13 final size:13
Alignment explanation
Indices: 12297--12346 Score: 72
Period size: 13 Copynumber: 4.2 Consensus size: 13
12287 GAGAGCTAGT
12297 GAGATCAAAATGA
1 GAGATCAAAATGA
12310 GAG----AAATGA
1 GAGATCAAAATGA
12319 GAGATCAAAATGA
1 GAGATCAAAATGA
12332 GAGATCAAAATGA
1 GAGATCAAAATGA
12345 GA
1 GA
12347 TAAATGAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 9 0.27
13 24 0.73
ACGTcount: A:0.54, C:0.06, G:0.26, T:0.14
Consensus pattern (13 bp):
GAGATCAAAATGA
Found at i:13489 original size:24 final size:21
Alignment explanation
Indices: 13438--13541 Score: 108
Period size: 20 Copynumber: 5.0 Consensus size: 21
13428 TATAAGTTAC
13438 ATATATAGTTTATATA-ACAT
1 ATATATAGTTTATATATACAT
*
13458 ATAAATAGATTGTATATATACAT
1 ATATATAG-TT-TATATATACAT
*
13481 ATACTATAGGTTATATAT--AT
1 ATA-TATAGTTTATATATACAT
*
13501 ATATATAGTTTATATACAC-T
1 ATATATAGTTTATATATACAT
* *
13521 ATACATAGTTTATACATACAT
1 ATATATAGTTTATATATACAT
13542 GATACATGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
19 12 0.17
20 29 0.42
21 3 0.04
22 13 0.19
23 8 0.12
24 4 0.06
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (21 bp):
ATATATAGTTTATATATACAT
Found at i:13495 original size:22 final size:22
Alignment explanation
Indices: 13470--13546 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
13460 AAATAGATTG
13470 TATATATACATATACTATAGGT
1 TATATATACATATACTATAGGT
13492 TATATAT--ATATA-TATA-GT
1 TATATATACATATACTATAGGT
*
13510 T-TATATACACTATAC-ATAGTT
1 TATATATACA-TATACTATAGGT
*
13531 TATACATACATGATAC
1 TATATATACAT-ATAC
13547 ATGTACTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
17 5 0.11
18 3 0.07
19 5 0.11
20 12 0.26
21 3 0.07
22 18 0.39
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (22 bp):
TATATATACATATACTATAGGT
Found at i:13499 original size:39 final size:39
Alignment explanation
Indices: 13456--13534 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
13446 TTTATATAAC
*
13456 ATATAAATAGATTGTATATATACA-TATACTATAGGTTAT
1 ATATAAATAGATAGTATATATACACTATAC-ATAGGTTAT
* * * *
13495 ATATATATATATAGTTTATATACACTATACATAGTTTAT
1 ATATAAATAGATAGTATATATACACTATACATAGGTTAT
13534 A
1 A
13535 CATACATGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 29 0.85
40 5 0.15
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (39 bp):
ATATAAATAGATAGTATATATACACTATACATAGGTTAT
Found at i:13547 original size:22 final size:20
Alignment explanation
Indices: 13396--13548 Score: 86
Period size: 20 Copynumber: 7.3 Consensus size: 20
13386 CACAAACACA
*
13396 ATACATAATTTATACATACAT
1 ATACATAGTTTATA-ATACAT
13417 GATACAT--TTACTATAAGTTACAT
1 -ATACATAGTT--TATAA--TACAT
13440 AT--ATAGTTTAT-ATAACAT
1 ATACATAGTTTATAAT-ACAT
*
13458 ATAAATAGATTGTATATATACAT
1 ATACATAG-TT-TATA-ATACAT
* *
13481 ATACTATAGGTTAT-ATATAT
1 ATAC-ATAGTTTATAATACAT
*
13501 ATATATAGTTTAT-ATACACT
1 ATACATAGTTTATAATACA-T
13521 ATACATAGTTTATACATACAT
1 ATACATAGTTTATA-ATACAT
13542 GATACAT
1 -ATACAT
13549 GTACTATAAG
Statistics
Matches: 106, Mismatches: 7, Indels: 36
0.71 0.05 0.24
Matches are distributed among these distances:
17 1 0.01
18 6 0.06
19 13 0.12
20 32 0.30
21 4 0.04
22 31 0.29
23 13 0.12
24 6 0.06
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.41
Consensus pattern (20 bp):
ATACATAGTTTATAATACAT
Found at i:13585 original size:37 final size:37
Alignment explanation
Indices: 13537--13607 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
13527 AGTTTATACA
*
13537 TACATGATACATGTACTATAAGTTACA-TATATAGTT
1 TACATGATACATATACTATAAGTTACATTATATAGTT
* *
13573 TACATGTATACATATATTATAGGTTACATTATATA
1 TACATG-ATACATATACTATAAGTTACATTATATA
13608 TATTAACTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 6 0.20
37 18 0.60
38 6 0.20
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (37 bp):
TACATGATACATATACTATAAGTTACATTATATAGTT
Found at i:13599 original size:24 final size:23
Alignment explanation
Indices: 13566--13610 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
13556 AAGTTACATA
*
13566 TATAGTTTACATGTATACATATAT
1 TATAGGTTACAT-TATACATATAT
*
13590 TATAGGTTACATTATATATAT
1 TATAGGTTACATTATACATAT
13611 TAACTATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.47
Consensus pattern (23 bp):
TATAGGTTACATTATACATATAT
Found at i:13671 original size:28 final size:28
Alignment explanation
Indices: 13625--13699 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
13615 TATTCTTTAT
* *
13625 GTTTAGGGTTTATGATTTATAA-TATAAGG
1 GTTTAAGGTTTAGGATTTA-AAGT-TAAGG
*
13654 G-TTAAGGTTTAGGATTTAAAGTTTAGG
1 GTTTAAGGTTTAGGATTTAAAGTTAAGG
13681 GTTTAAGGTTTAGGATTTA
1 GTTTAAGGTTTAGGATTTA
13700 GGGTTTAGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 7 0.17
28 33 0.80
29 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (28 bp):
GTTTAAGGTTTAGGATTTAAAGTTAAGG
Found at i:13677 original size:14 final size:14
Alignment explanation
Indices: 13655--13733 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
13645 AATATAAGGG
*
13655 TTAAGGTTTAGGAT
1 TTAAAGTTTAGGAT
*
13669 TTAAAGTTTAGGGT
1 TTAAAGTTTAGGAT
*
13683 TTAAGGTTTAGGAT
1 TTAAAGTTTAGGAT
**
13697 TTAGGGTTTA-GAT
1 TTAAAGTTTAGGAT
* *
13710 TATTAAGTTTAGGGT
1 T-TAAAGTTTAGGAT
*
13725 TTAGAGTTT
1 TTAAAGTTT
13734 TTTTATATAA
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
13 4 0.08
14 45 0.87
15 3 0.06
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.46
Consensus pattern (14 bp):
TTAAAGTTTAGGAT
Found at i:13683 original size:21 final size:20
Alignment explanation
Indices: 13659--13728 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 20
13649 TAAGGGTTAA
13659 GGTTTAGGATTTAAAGTTTAG
1 GGTTTAGGATTT-AAGTTTAG
*
13680 GGTTTAAGG-TTTAGGATTTAG
1 GGTTT-AGGATTTAAG-TTTAG
13701 GGTTTA-GATTATTAAGTTTAG
1 GGTTTAGGA-T-TTAAGTTTAG
13722 GGTTTAG
1 GGTTTAG
13729 AGTTTTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 30 0.73
22 7 0.17
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (20 bp):
GGTTTAGGATTTAAGTTTAG
Found at i:13705 original size:28 final size:28
Alignment explanation
Indices: 13651--13733 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
13641 TTATAATATA
*
13651 AGGG-TTAAGGTTTAGGATTTAAAGTTT
1 AGGGTTTAAGGTTTAGGATTTAGAGTTT
*
13678 AGGGTTTAAGGTTTAGGATTTAGGGTTT
1 AGGGTTTAAGGTTTAGGATTTAGAGTTT
** *
13706 AGATTATTAA-GTTTAGGGTTTAGAGTTT
1 AGGGT-TTAAGGTTTAGGATTTAGAGTTT
13734 TTTTATATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 4 0.08
28 40 0.83
29 4 0.08
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (28 bp):
AGGGTTTAAGGTTTAGGATTTAGAGTTT
Found at i:13726 original size:7 final size:7
Alignment explanation
Indices: 13659--13707 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
13649 TAAGGGTTAA
13659 GGTTTAG
1 GGTTTAG
* *
13666 GATTTAA
1 GGTTTAG
*
13673 AGTTTAG
1 GGTTTAG
*
13680 GGTTTAA
1 GGTTTAG
13687 GGTTTAG
1 GGTTTAG
*
13694 GATTTAG
1 GGTTTAG
13701 GGTTTAG
1 GGTTTAG
13708 ATTATTAAGT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:13815 original size:2 final size:2
Alignment explanation
Indices: 13810--13857 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
13800 TAATTTACTT
*
13810 TA TA TA -A TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13851 TA T- TA TA
1 TA TA TA TA
13858 CATAGTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13909 original size:18 final size:18
Alignment explanation
Indices: 13886--13956 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
13876 GTACTATAAG
13886 TTACATATATAGTTTACA
1 TTACATATATAGTTTACA
* * *
13904 TTACATGTATACATATACTATAA
1 TTACATATATA-GT-T--TA-CA
13927 GTTACATATATAGTTTACA
1 -TTACATATATAGTTTACA
*
13946 TTACATGTATA
1 TTACATATATA
13957 CACGTACTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
18 20 0.50
19 2 0.05
20 3 0.08
22 3 0.08
23 2 0.05
24 10 0.25
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.42
Consensus pattern (18 bp):
TTACATATATAGTTTACA
Found at i:13916 original size:42 final size:42
Alignment explanation
Indices: 13870--13979 Score: 202
Period size: 42 Copynumber: 2.6 Consensus size: 42
13860 TAGTTTATAC
13870 ATACATGTACTATAAGTTACATATATAGTTTACATTACATGT
1 ATACATGTACTATAAGTTACATATATAGTTTACATTACATGT
*
13912 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
1 ATACATGTACTATAAGTTACATATATAGTTTACATTACATGT
*
13954 ATACACGTACTATAAGTTACATATAT
1 ATACATGTACTATAAGTTACATATAT
13980 TAACTATTGT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (42 bp):
ATACATGTACTATAAGTTACATATATAGTTTACATTACATGT
Found at i:14199 original size:2 final size:2
Alignment explanation
Indices: 14192--14366 Score: 124
Period size: 2 Copynumber: 91.0 Consensus size: 2
14182 TATTTCTTTA
14192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* ** *
14234 AT AT AT AT CT AT AT AT -T ACT -T AT AT -T AGT -T AT GC AT AC AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT
*
14274 AT AT ACT AT AT -T A- AT AT A- AT -T AT A- AC AT AT AT AT AT -T
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
14311 TT AT AT AGT TT AT AC AT AT AT AGT TT AT AT AT AT AT AGT AT AT
1 AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT
14354 -T A- AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT
14367 TTTATAAACT
Statistics
Matches: 138, Mismatches: 16, Indels: 38
0.72 0.08 0.20
Matches are distributed among these distances:
1 13 0.09
2 117 0.85
3 8 0.06
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14332 original size:15 final size:14
Alignment explanation
Indices: 14312--14552 Score: 100
Period size: 15 Copynumber: 17.1 Consensus size: 14
14302 ATATATATTT
14312 TATATAGTTTATACA
1 TATATAGTTTATA-A
14327 TATATAGTTTATATA
1 TATATAGTTTATA-A
*
14342 TATATAGTATATTAATA
1 TATATAGTTTA-T-A-A
*
14359 TATAATATTTTATAA
1 TAT-ATAGTTTATAA
14374 -ACTATA-TTT-T--
1 TA-TATAGTTTATAA
*
14384 T-TGTAGTTTATACA
1 TATATAGTTTATA-A
14398 TATATAGTTTAT-A
1 TATATAGTTTATAA
*
14411 TATATAGTTCACATAA
1 TATATAGTT--TATAA
* *
14427 -ACATAATTTAT-A
1 TATATAGTTTATAA
14439 TATATAGCTTATAATAA
1 TATATAG-TT-T-ATAA
14456 TTATATAGTTTATAA
1 -TATATAGTTTATAA
*
14471 TATA-A--ATATAA
1 TATATAGTTTATAA
* *
14482 TTTATAATTT-TATA
1 TATATAGTTTATA-A
*
14496 TACATAGTTTAT-A
1 TATATAGTTTATAA
**
14509 TATATAGTACACATAA
1 TATATAGT--TTATAA
*
14525 -ATATAATTTAT-A
1 TATATAGTTTATAA
14537 TATATAGTTTATAA
1 TATATAGTTTATAA
14551 TA
1 TA
14553 ATTATATAGT
Statistics
Matches: 171, Mismatches: 25, Indels: 61
0.67 0.10 0.24
Matches are distributed among these distances:
9 3 0.02
10 3 0.02
11 9 0.05
12 4 0.02
13 42 0.25
14 23 0.13
15 57 0.33
16 7 0.04
17 10 0.06
18 13 0.08
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (14 bp):
TATATAGTTTATAA
Found at i:14479 original size:18 final size:18
Alignment explanation
Indices: 14435--14571 Score: 84
Period size: 18 Copynumber: 7.2 Consensus size: 18
14425 AAACATAATT
*
14435 TATATATATAGCTTATAA
1 TATATATATAGTTTATAA
14453 TA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
* *
14471 TATAAATATAATTTATAA
1 TATATATATAGTTTATAA
*
14489 TTTTATATACATAGTTTATATA
1 ---TATATATATAGTTTATA-A
* **
14511 TATAGTACACATA-AATATAA
1 TATA-T--ATATAGTTTATAA
14531 TTTATATATATAGTTTATAA
1 --TATATATATAGTTTATAA
14551 TA-ATTATATAGTTTAT-A
1 TATA-TATATAGTTTATAA
14568 TATA
1 TATA
14572 ATTTTATATT
Statistics
Matches: 94, Mismatches: 11, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
17 5 0.05
18 44 0.47
19 9 0.10
20 7 0.07
21 19 0.20
22 10 0.11
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (18 bp):
TATATATATAGTTTATAA
Found at i:14586 original size:15 final size:13
Alignment explanation
Indices: 14192--14598 Score: 124
Period size: 13 Copynumber: 32.2 Consensus size: 13
14182 TATTTCTTTA
14192 ATATATATA-TAT
1 ATATATATATTAT
14204 ATATATATA-TAT
1 ATATATATATTAT
14216 ATATATATA-TAT
1 ATATATATATTAT
14228 ATATATATA-TAT
1 ATATATATATTAT
*
14240 ATCTATATATTACT
1 ATATATATATTA-T
14254 -TATAT-TAGTTAT
1 ATATATATA-TTAT
** *
14266 GCATACATA-TAT
1 ATATATATATTAT
*
14278 ACTATAT-TAATAT
1 A-TATATATATTAT
**
14291 A-AT-TATAACAT
1 ATATATATATTAT
*
14302 ATATATATTTTAT
1 ATATATATATTAT
* *
14315 ATAGTTTATA-CAT
1 ATA-TATATATTAT
*
14328 ATATAGTTTATATAT
1 ATATA-TATAT-TAT
14343 ATATAGTATATTA-
1 ATATA-TATATTAT
*
14356 ATATATAATATTTT
1 ATATAT-ATATTAT
*
14370 ATAAACTATATT-T
1 ATATA-TATATTAT
* *
14383 -TTTGTAGT-TTAT
1 ATATATA-TATTAT
*
14395 ACATATATAGTT-T
1 ATATATATA-TTAT
*
14408 ATATATATAGTTCAC
1 ATATATATA-TT-AT
* *
14423 ATAAACATAATT-T
1 ATATATAT-ATTAT
*
14436 ATATATATAGCT-T
1 ATATATATA-TTAT
14449 ATA-ATA-ATTAT
1 ATATATATATTAT
* *
14460 ATAGTTTATAATAT
1 ATA-TATATATTAT
*
14474 AAATATA-ATT-T
1 ATATATATATTAT
14485 ATA-AT-T-TTAT
1 ATATATATATTAT
*
14495 ATACATAGT-TTAT
1 ATATATA-TATTAT
* *
14508 ATATATAGTA-CAC
1 ATATATA-TATTAT
*
14521 ATAAATATAATT-T
1 ATATATAT-ATTAT
14534 ATATATATAGTT-T
1 ATATATATA-TTAT
14547 ATA-ATA-ATTAT
1 ATATATATATTAT
*
14558 ATAGTTTATA-TAT
1 ATA-TATATATTAT
*
14571 A-ATTTTATATTAT
1 ATA-TATATATTAT
14584 ATATATATATTAT
1 ATATATATATTAT
14597 AT
1 AT
14599 TTTTTTCATT
Statistics
Matches: 299, Mismatches: 51, Indels: 89
0.68 0.12 0.20
Matches are distributed among these distances:
9 2 0.01
10 10 0.03
11 27 0.09
12 78 0.26
13 132 0.44
14 28 0.09
15 21 0.07
16 1 0.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (13 bp):
ATATATATATTAT
Found at i:18171 original size:71 final size:71
Alignment explanation
Indices: 18055--18196 Score: 266
Period size: 71 Copynumber: 2.0 Consensus size: 71
18045 ACAGGATAAT
*
18055 GAACTCATTGATATCTTCTTGGAAATGACAATTACTAGACATAGATAAGTTCGAACACGGAAAAT
1 GAACTCATTGACATCTTCTTGGAAATGACAATTACTAGACATAGATAAGTTCGAACACGGAAAAT
18120 AGAGAC
66 AGAGAC
*
18126 GAACTCATTGACATCTTCTTTGAAATGACAATTACTAGACATAGATAAGTTCGAACACGGAAAAT
1 GAACTCATTGACATCTTCTTGGAAATGACAATTACTAGACATAGATAAGTTCGAACACGGAAAAT
18191 AGAGAC
66 AGAGAC
18197 ATCTGGTTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (71 bp):
GAACTCATTGACATCTTCTTGGAAATGACAATTACTAGACATAGATAAGTTCGAACACGGAAAAT
AGAGAC
Found at i:29326 original size:26 final size:26
Alignment explanation
Indices: 29292--29355 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
29282 GTTTCACCCG
*
29292 ACCCGACCCGAATATATGAATTAGAA
1 ACCCAACCCGAATATATGAATTAGAA
*
29318 ATCCAACCCGAATATATGAATTAGAA
1 ACCCAACCCGAATATATGAATTAGAA
*
29344 ACCCGACCCGAA
1 ACCCAACCCGAA
29356 ATAATAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.42, C:0.27, G:0.14, T:0.17
Consensus pattern (26 bp):
ACCCAACCCGAATATATGAATTAGAA
Found at i:30260 original size:14 final size:15
Alignment explanation
Indices: 30230--30280 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
30220 AATTACGTAT
30230 TTAATATTTAAATTA
1 TTAATATTTAAATTA
30245 TTAAT-TTT-AATCTA
1 TTAATATTTAAAT-TA
*
30259 TTTTAATATTTAAATTT
1 --TTAATATTTAAATTA
30276 TTAAT
1 TTAAT
30281 TTTTTTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 10 0.33
16 5 0.17
17 4 0.13
18 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAATATTTAAATTA
Found at i:30260 original size:23 final size:24
Alignment explanation
Indices: 30234--30294 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
30224 ACGTATTTAA
*
30234 TATTTAAATTATTAA-TTTTAATC
1 TATTTAAATTATAAATTTTTAATC
*
30257 TATTTTAATATT-TAAATTTTTAATT
1 TA-TTTAA-ATTATAAATTTTTAATC
*
30282 TTTTTAAATTATA
1 TATTTAAATTATA
30295 TCTGACGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 5 0.16
24 15 0.48
25 11 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTTAAATTATAAATTTTTAATC
Found at i:31088 original size:18 final size:18
Alignment explanation
Indices: 31063--31111 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
31053 CAAAAATTTT
31063 ATAATAATATTTAATGATA
1 ATAATAATATTTAAT-ATA
31082 A-AAT-A-ATTT-ATATA
1 ATAATAATATTTAATATA
31096 ATAATAATATTTAATA
1 ATAATAATATTTAATA
31112 GAAATGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
14 4 0.15
15 5 0.19
16 5 0.19
17 5 0.19
18 6 0.23
19 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAATAATATTTAATATA
Found at i:31972 original size:21 final size:20
Alignment explanation
Indices: 31948--31986 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
31938 CCGACCGTTG
*
31948 ATATTATTTATTTACTTTTTT
1 ATATTATATATTTA-TTTTTT
31969 ATATTATATATTTATTTT
1 ATATTATATATTTATTTT
31987 ATTTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (20 bp):
ATATTATATATTTATTTTTT
Found at i:33033 original size:21 final size:21
Alignment explanation
Indices: 33003--33127 Score: 114
Period size: 21 Copynumber: 6.0 Consensus size: 21
32993 GATTTACATA
*
33003 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
33024 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** * *
33045 TTCGCGTTGCGATTTTTCAAA
1 TTCGCGTTGCGATAGTCCAAG
* *
33066 TT--CGTTACGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
33085 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
33108 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
33127 T
1 T
33128 CTCGTCTCGA
Statistics
Matches: 82, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
19 21 0.26
21 52 0.63
23 9 0.11
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:33055 original size:42 final size:40
Alignment explanation
Indices: 33003--33127 Score: 160
Period size: 42 Copynumber: 3.0 Consensus size: 40
32993 GATTTACATA
* *
33003 TTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATATTCCAAGTT--CGTTGCGATAGTCGAAG
* * * *
33045 TTCGCGTTGCGATTTTTCAAATTCGTTACGATAGTCGAAG
1 TTCGCGTTGCGATATTCCAAGTTCGTTGCGATAGTCGAAG
33085 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGA--TATTCCAAGTTCGTTGCGATAGTCGAAG
33127 T
1 T
33128 CTCGTCTCGA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
40 28 0.39
42 43 0.61
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (40 bp):
TTCGCGTTGCGATATTCCAAGTTCGTTGCGATAGTCGAAG
Found at i:33084 original size:40 final size:42
Alignment explanation
Indices: 33028--33127 Score: 168
Period size: 40 Copynumber: 2.4 Consensus size: 42
33018 TCCAAGTTCG
33028 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTT-TT-CAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* *
33068 CGTTACGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
33110 CGTTGCGATAGTCGAAGT
1 CGTTGCGATAGTCGAAGT
33128 CTCGTCTCGA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 31 0.56
41 2 0.04
42 22 0.40
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (42 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:33198 original size:42 final size:42
Alignment explanation
Indices: 33134--33272 Score: 192
Period size: 42 Copynumber: 3.4 Consensus size: 42
33124 AAGTCTCGTC
*
33134 TCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACT
1 TCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACT
* *
33176 TCGACTATCGCAACGAATTTGGAATAAATCGTAACACGAACT
1 TCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACT
* * * *
33218 TCGACTATCACAACGAATTT--AAAAAATCACAACGCGAATT
1 TCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACT
*
33258 TCAACTATCGCAACG
1 TCGACTATCGCAACG
33273 CGAACTTCGA
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 28 0.33
42 58 0.67
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (42 bp):
TCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACT
Found at i:33285 original size:21 final size:21
Alignment explanation
Indices: 33134--33297 Score: 97
Period size: 21 Copynumber: 7.9 Consensus size: 21
33124 AAGTCTCGTC
33134 TCGACTATCGCAA--CGAACT
1 TCGACTATCGCAACGCGAACT
* *
33153 TGGAATAAATCGCAACGCGAACT
1 TCGACT--ATCGCAACGCGAACT
*
33176 TCGACTATCGCAA--CGAATT
1 TCGACTATCGCAACGCGAACT
* * * *
33195 TGGAATAAATCGTAACACGAACT
1 TCGACT--ATCGCAACGCGAACT
* *
33218 TCGACTATCACAA--CGAATT
1 TCGACTATCGCAACGCGAACT
** ** * *
33237 TAAAAAATCACAACGCGAATT
1 TCGACTATCGCAACGCGAACT
*
33258 TCAACTATCGCAACGCGAACT
1 TCGACTATCGCAACGCGAACT
*
33279 TCGACTATCGCAATGCGAA
1 TCGACTATCGCAACGCGAA
33298 TATATAAATC
Statistics
Matches: 110, Mismatches: 25, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
19 27 0.25
21 64 0.58
23 19 0.17
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (21 bp):
TCGACTATCGCAACGCGAACT
Found at i:42320 original size:19 final size:16
Alignment explanation
Indices: 42274--42308 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
42264 TAAATGTTCA
42274 ATTAAATTATAATCAG
1 ATTAAATTATAATCAG
42290 ATTAAATTATAATCAG
1 ATTAAATTATAATCAG
42306 ATT
1 ATT
42309 TCATTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTAAATTATAATCAG
Found at i:43161 original size:20 final size:20
Alignment explanation
Indices: 43098--43170 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
43088 AATTAATAAC
*
43098 AAATAAATATAATAATAATT
1 AAATAAATATAATAATAAAT
* *
43118 TAAT-AATAT--TAATTAAT
1 AAATAAATATAATAATAAAT
* *
43135 TATTAAATATAATAATAAAT
1 AAATAAATATAATAATAAAT
*
43155 AAATAAATATAGTAAT
1 AAATAAATATAATAAT
43171 TAAAATAGAT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
17 9 0.21
18 5 0.12
19 5 0.12
20 23 0.55
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (20 bp):
AAATAAATATAATAATAAAT
Found at i:43273 original size:36 final size:35
Alignment explanation
Indices: 43101--43275 Score: 100
Period size: 36 Copynumber: 4.9 Consensus size: 35
43091 TAATAACAAA
43101 TAAATATAAT-AATAATTTAATAATATTAATTAAT-TAT
1 TAAATATAATAAATAA-TTAAT-ATATT-A-TAATATAT
* * *
43138 TAAATATAAT-AATAAATAA-ATAAATATAGTA-AT
1 TAAATATAATAAATAATTAATAT-ATTATAATATAT
* *
43171 TAAA-ATAGATATTTTATAAATAATA-ATTATAATATATTT
1 TAAATATA-ATA---AATAATTAATATATTATAATATA--T
*
43210 TATAAAATAATGAAA-AATT-ATAT-TTATAATATAT
1 TA-AATATAAT-AAATAATTAATATATTATAATATAT
43244 TAAATATAATAAATAATTAATGATATTATAAT
1 TAAATATAATAAATAATTAAT-ATATTATAAT
43276 TATAATATAT
Statistics
Matches: 110, Mismatches: 9, Indels: 39
0.70 0.06 0.25
Matches are distributed among these distances:
32 6 0.05
33 22 0.20
34 8 0.07
35 4 0.04
36 30 0.27
37 27 0.25
38 2 0.02
39 3 0.03
40 4 0.04
41 4 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (35 bp):
TAAATATAATAAATAATTAATATATTATAATATAT
Found at i:43283 original size:33 final size:32
Alignment explanation
Indices: 43105--43284 Score: 81
Period size: 33 Copynumber: 5.5 Consensus size: 32
43095 AACAAATAAA
* *
43105 TATAATAATAATTTAATAATATTAATTAAT-TAT
1 TATAATTATAATATAATAA-A-TAATTAATATAT
*
43138 TA-AA-TATAATAATAAATAAATAAAT-ATAGTAAT
1 TATAATTATAAT-AT-AATAAATAATTAATA-T-AT
* * * * *
43171 TA-AAATAGATATTTTATAAATAA-TAATTATAA
1 TATAATTATA-ATATAATAAATAATTAA-TATAT
* *
43203 TATATTTTATAAAATAATGAAA-AATT-ATAT-T
1 TATA-ATTATAATATAAT-AAATAATTAATATAT
43234 TATAATATATTAAATATAATAAATAATTAATGATAT
1 TATAAT-TA-T-AATATAATAAATAATTAAT-ATAT
43270 TATAATTATAATATA
1 TATAATTATAATATA
43285 TTTTGAAATT
Statistics
Matches: 111, Mismatches: 16, Indels: 40
0.66 0.10 0.24
Matches are distributed among these distances:
30 3 0.03
31 15 0.14
32 16 0.14
33 48 0.43
34 16 0.14
35 6 0.05
36 7 0.06
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (32 bp):
TATAATTATAATATAATAAATAATTAATATAT
Found at i:64792 original size:17 final size:17
Alignment explanation
Indices: 64770--64803 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
64760 CGTGGTAAAC
64770 AAGGAAAGAAATCAGAG
1 AAGGAAAGAAATCAGAG
*
64787 AAGGAAAGAAATTAGAG
1 AAGGAAAGAAATCAGAG
64804 CCAACCCTGT
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:0.59, C:0.03, G:0.29, T:0.09
Consensus pattern (17 bp):
AAGGAAAGAAATCAGAG
Found at i:66751 original size:20 final size:19
Alignment explanation
Indices: 66728--66773 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
66718 CGATATAACA
66728 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAATC
*
66748 GGTATCAAAATGATAAAATC
1 GGTA-AAAAATGATAAAATC
66768 GGTAAA
1 GGTAAA
66774 TCGCTACCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.52, C:0.07, G:0.17, T:0.24
Consensus pattern (19 bp):
GGTAAAAAATGATAAAATC
Found at i:76284 original size:69 final size:70
Alignment explanation
Indices: 76158--76302 Score: 161
Period size: 69 Copynumber: 2.1 Consensus size: 70
76148 ATGCATGACG
* * * * *
76158 GTGGATTTTCAACACAACCCTATAGGCTCACAAGGTTCAACTCCATAAACAGTAGCAAAGACTTT
1 GTGGATTTTCAACACAACCCGAGACGCTCACAAGGTTCAACTCCATAAACAGCAGCAAAGACCTT
76223 GG-CA
66 GGCCA
* * * * * *
76227 GTGGATTTTC-ACAGCAACCCGAGACGCTCACTAGGTTCGATTCCATGAATAGCAGCAATGACCT
1 GTGGATTTTCAACA-CAACCCGAGACGCTCACAAGGTTCAACTCCATAAACAGCAGCAAAGACCT
76291 TGGCCA
65 TGGCCA
76297 -TGGATT
1 GTGGATT
76303 CTCATTTGAC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
68 3 0.05
69 58 0.92
70 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (70 bp):
GTGGATTTTCAACACAACCCGAGACGCTCACAAGGTTCAACTCCATAAACAGCAGCAAAGACCTT
GGCCA
Found at i:79814 original size:216 final size:217
Alignment explanation
Indices: 79384--79849 Score: 595
Period size: 216 Copynumber: 2.2 Consensus size: 217
79374 GTTGGTAGTT
*
79384 TTAAA-TTGGAATCATGTCTTACTTTTTCATATCAATGCTTAGCGTTGCTAATGGTCACATAGTA
1 TTAAATTTGGAATCATGTCTAACTTTTTCATATCAATGCTTAGCGTTGCTAATGGTCACATAGTA
* * * * *
79448 GCTCCCTGATTTGTGGTTGAGCCCTTGAGCTTTGATTTTTGTTGTTTTAAATTGTTTACTGCCTT
66 GCTCCCTGATTTCTGGCTGAACCCTTGAACTTTGATTTTTGCTGTTTTAAATTGTTTACTGCCTT
* **
79513 GCTTCTAATGATTTCTGGACAACCACTTAGTGATTAGTTTTGAATTTCTCCTAGCCTTCTGCATC
131 GCTTCTAATGATTTCTGGACAACCACTTAGTGATTAGTTTTAAATTTCTCCTAGCCTTCACCATC
*
79578 ACCTTGGCAAGCTGATGGAGGG
196 ACCTTGGCAAGCTAATGGAGGG
** * * *
79600 TTAAATTTGGAATCATGTCTAACTTTTTTGTATCGATGCTTAGCTTTGTTAATGGTCACATAGTA
1 TTAAATTTGGAATCATGTCTAACTTTTTCATATCAATGCTTAGCGTTGCTAATGGTCACATAGTA
* * * * * *
79665 GTTCCTTGATTTCTGGCTGAACCTTTGAACTTTGA-TTTTGCTGTTTTCACTTGTTTCCTGCC-T
66 GCTCCCTGATTTCTGGCTGAACCCTTGAACTTTGATTTTTGCTGTTTTAAATTGTTTACTGCCTT
* * * **
79728 GCCTTCTAATGATTTCCT-GACAAGCATTTAATTG-TTAGTTTTAAATTTCTCCTAGTGTTCACC
131 G-CTTCTAATGATTT-CTGGACAACCACTT-AGTGATTAGTTTTAAATTTCTCCTAGCCTTCACC
*
79791 ATTACCTTGGCAAGCTAATGGAGGG
193 ATCACCTTGGCAAGCTAATGGAGGG
* *
79816 TTAAATTTGGAATCATGTGT--CTTTTTCTTATCAA
1 TTAAATTTGGAATCATGTCTAACTTTTTCATATCAA
79850 GATAGTTGCT
Statistics
Matches: 215, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
214 11 0.05
215 2 0.01
216 116 0.54
217 86 0.40
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (217 bp):
TTAAATTTGGAATCATGTCTAACTTTTTCATATCAATGCTTAGCGTTGCTAATGGTCACATAGTA
GCTCCCTGATTTCTGGCTGAACCCTTGAACTTTGATTTTTGCTGTTTTAAATTGTTTACTGCCTT
GCTTCTAATGATTTCTGGACAACCACTTAGTGATTAGTTTTAAATTTCTCCTAGCCTTCACCATC
ACCTTGGCAAGCTAATGGAGGG
Found at i:88004 original size:17 final size:18
Alignment explanation
Indices: 87967--88012 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
87957 TTTATGAGGA
*
87967 AATTAGAATCTGTGAAGG
1 AATTGGAATCTGTGAAGG
*
87985 AATTGGAATCTGT-CAGG
1 AATTGGAATCTGTGAAGG
88002 AATTGGAATCT
1 AATTGGAATCT
88013 AATTCCATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (18 bp):
AATTGGAATCTGTGAAGG
Found at i:88427 original size:21 final size:20
Alignment explanation
Indices: 88341--88498 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
88331 AAATGACCAA
**
88341 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* * *
88360 AAAAATCGCAACGCGATCTC
1 CAAAATCGCAACGCGATTTT
* ** *
88380 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
88400 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
88421 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
88442 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
88462 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
* *
88483 GAAAATTGCAACGCGA
1 CAAAATCGCAACGCGA
88499 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:88527 original size:20 final size:20
Alignment explanation
Indices: 88504--88618 Score: 160
Period size: 20 Copynumber: 5.7 Consensus size: 20
88494 CGCGAACACA
88504 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
88524 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
*
88544 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* * *
88564 TAAATCGCAACG-ATAATACA
1 TAAATCGCAACGCGT-ATCCG
88584 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCGTATCCG
88605 TAAATCGCAACGCG
1 TAAATCGCAACGCG
88619 ATATTTAAAG
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.01
20 65 0.79
21 15 0.18
22 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:88534 original size:40 final size:40
Alignment explanation
Indices: 88465--88619 Score: 177
Period size: 40 Copynumber: 3.9 Consensus size: 40
88455 CGATTTTCCA
* ** * *
88465 AAATCGCAACGCGAATATGAAAATTGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
88505 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
88545 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
88585 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
88620 TATTTAAAGC
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 61 0.64
41 33 0.35
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:89040 original size:33 final size:33
Alignment explanation
Indices: 89001--89071 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
88991 TTCACTTAGA
*
89001 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
89034 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
89067 TTTCA
1 TTTCA
89072 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:89208 original size:19 final size:20
Alignment explanation
Indices: 89151--89225 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
89141 TGCAGAAGAG
* *
89151 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGACAA
**
89172 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGACAA
*
89192 TCGCAACGCGA-AATGACAA
1 TCGCAACGAGAGAATGACAA
89211 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
89226 CGCAACGCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 16 0.36
20 18 0.40
21 11 0.24
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGACAA
Found at i:89228 original size:14 final size:14
Alignment explanation
Indices: 89209--89265 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
89199 GCGAAATGAC
89209 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
89223 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
89242 AATCGCAACGAGAG
1 AATCGCAACGAGAG
89256 AATCGCAACG
1 AATCGCAACG
89266 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:89234 original size:33 final size:33
Alignment explanation
Indices: 89163--89281 Score: 157
Period size: 33 Copynumber: 3.4 Consensus size: 33
89153 GCAACGAGAT
89163 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGCG
1 AAATGAAAATCGCAACGAGAG-A--A---TCGCAACGCG
*
89202 AAATGACAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
89235 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
89268 AAACCAAAATCGCA
1 AAATGAAAATCGCA
89282 TTGCGATTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
33 54 0.71
36 1 0.01
38 1 0.01
39 20 0.26
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:89247 original size:19 final size:19
Alignment explanation
Indices: 89163--89251 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 19
89153 GCAACGAGAT
*
89163 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
***
89182 AGAATGACTGTCGCAACGCG
1 A-AATGAAAATCGCAACGCG
*
89202 AAATGACAATCGCAA--CG
1 AAATGAAAATCGCAACGCG
*
89219 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
89235 AAATGAAAATCGCAACG
1 AAATGAAAATCGCAACG
89252 AGAGAATCGC
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 25 0.45
20 15 0.27
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:89299 original size:19 final size:19
Alignment explanation
Indices: 89277--89374 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
89267 GAAACCAAAA
*
89277 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
89296 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
89310 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
89329 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
89343 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
89362 TCGCGTTGCGATT
1 TCGCGTTGCGATT
89375 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:89318 original size:14 final size:14
Alignment explanation
Indices: 89299--89388 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
89289 TTTCATTTCG
89299 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
89313 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
89332 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
89346 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
89365 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
89379 CGTTGCGATT
1 CGTTGCGATT
89389 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:89324 original size:33 final size:33
Alignment explanation
Indices: 89282--89396 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
89272 CAAAATCGCA
89282 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
89315 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
89348 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
89381 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
89397 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:91674 original size:93 final size:93
Alignment explanation
Indices: 91090--91651 Score: 1108
Period size: 93 Copynumber: 6.1 Consensus size: 93
91080 TAGATTGCTT
*
91090 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
91155 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
91183 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
91248 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
91276 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
91341 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
91369 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
91434 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
91462 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
91527 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
91555 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
91620 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
91647 AGTAA
1 AGTAA
91652 TGCAATCCAT
Statistics
Matches: 468, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
92 6 0.01
93 462 0.99
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:91739 original size:19 final size:19
Alignment explanation
Indices: 91699--91827 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
91689 TAGTTTACTT
* *
91699 TCGCAACACGAAACATAAAA
1 TCGCAACGCGAAAC-CAAAA
91719 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
91738 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
91757 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
91771 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
91790 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
91804 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
91823 TCGCA
1 TCGCA
91828 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.08
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:91778 original size:33 final size:32
Alignment explanation
Indices: 91735--91827 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
91725 CGCGAAACCA
**
91735 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
91767 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
91800 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
91828 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:91825 original size:52 final size:52
Alignment explanation
Indices: 91699--91827 Score: 149
Period size: 52 Copynumber: 2.5 Consensus size: 52
91689 TAGTTTACTT
*
91699 TCGCAACACGAAACATAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
91751 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
91804 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
91828 TTGCGATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 43 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.08
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:91845 original size:19 final size:19
Alignment explanation
Indices: 91823--91941 Score: 123
Period size: 19 Copynumber: 6.8 Consensus size: 19
91813 GAAACCAAAA
*
91823 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
91842 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
91858 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
91875 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
91891 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
91908 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
91927 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
91942 ATGTTTCGTG
Statistics
Matches: 83, Mismatches: 7, Indels: 20
0.75 0.06 0.18
Matches are distributed among these distances:
14 15 0.18
16 11 0.13
17 11 0.13
19 46 0.55
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:91864 original size:14 final size:14
Alignment explanation
Indices: 91845--91901 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
91835 TTTCATTTCG
91845 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
91859 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
91876 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
91892 CGTTGCGATT
1 CGTTGCGATT
91902 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:91870 original size:33 final size:33
Alignment explanation
Indices: 91828--91920 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
91818 CAAAATCGCA
*
91828 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
91861 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
91894 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
91921 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:91949 original size:20 final size:19
Alignment explanation
Indices: 91892--91957 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
91882 GCGATTCTGT
91892 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTT-AGTTTCG
*
91911 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAGTTTCG
91930 CGTTGCGATTTTATGTTTCG
1 CGTTGCGATTTTA-GTTTCG
*
91950 TGTTGCGA
1 CGTTGCGA
91958 AAGTAAACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (19 bp):
CGTTGCGATTTTAGTTTCG
Found at i:94048 original size:19 final size:19
Alignment explanation
Indices: 94024--94140 Score: 172
Period size: 19 Copynumber: 6.4 Consensus size: 19
94014 AAAATTGACT
94024 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
94043 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
94062 ATCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
94081 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
94095 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
94114 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
94134 ATCGCAA
1 ATCGCAA
94141 CGGGAGAATC
Statistics
Matches: 88, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 1 0.01
18 1 0.01
19 57 0.65
20 16 0.18
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:94098 original size:33 final size:36
Alignment explanation
Indices: 94024--94140 Score: 150
Period size: 33 Copynumber: 3.2 Consensus size: 36
94014 AAAATTGACT
94024 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAA
* *
94062 ATCGCAATGTGAAATGAAAATCGCAA-CG-A-GAGA
1 ATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAA
94095 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GC-G-AATGAAA
94134 ATCGCAA
1 ATCGCAA
94141 CGGGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
33 28 0.41
34 1 0.01
35 1 0.01
36 3 0.04
38 26 0.38
39 10 0.14
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (36 bp):
ATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAA
Found at i:94172 original size:53 final size:53
Alignment explanation
Indices: 94042--94159 Score: 211
Period size: 53 Copynumber: 2.2 Consensus size: 53
94032 GCGAAATGAA
*
94042 AATCGCAATGCGAAATGAAAATCGCAATG-TGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAG
*
94094 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGGAG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAG
94147 AATCGCAATGCGA
1 AATCGCAATGCGA
94160 TTTTAATTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.14
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAG
Found at i:94246 original size:20 final size:19
Alignment explanation
Indices: 94149--94285 Score: 159
Period size: 19 Copynumber: 7.7 Consensus size: 19
94139 AACGGGAGAA
* *
94149 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
94168 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
94184 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
94201 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
94220 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
94239 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
94257 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
94273 TCGCATTGCGATT
1 TCGCATTGCGATT
94286 CTCTCGTTGC
Statistics
Matches: 101, Mismatches: 6, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
14 17 0.17
16 9 0.09
17 7 0.07
18 1 0.01
19 51 0.50
20 16 0.16
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:94269 original size:72 final size:71
Alignment explanation
Indices: 94149--94285 Score: 213
Period size: 72 Copynumber: 1.9 Consensus size: 71
94139 AACGGGAGAA
94149 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
94214 TTCATT
66 TTCATT
* * * *
94220 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCATTGCGA
1 TCGCAATGCGATTTTAATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTGCGA
94284 TT
64 TT
94286 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
71 18 0.30
72 41 0.68
73 1 0.02
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (71 bp):
TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
TTCATT
Found at i:94307 original size:33 final size:33
Alignment explanation
Indices: 94155--94299 Score: 184
Period size: 33 Copynumber: 4.2 Consensus size: 33
94145 AGAATCGCAA
*
94155 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
94188 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
*
94226 TGCGATTTTCATTTCCGCATTGCGATTTTCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
*
94260 TGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
94293 TGCGATT
1 TGCGATT
94300 GTAATTTCCG
Statistics
Matches: 97, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
32 1 0.01
33 45 0.46
34 14 0.14
35 3 0.03
36 6 0.06
37 3 0.03
38 15 0.15
39 10 0.10
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:96760 original size:24 final size:24
Alignment explanation
Indices: 96726--96772 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
96716 CTGAAACATC
96726 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
96750 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
96773 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:97483 original size:20 final size:20
Alignment explanation
Indices: 97455--97744 Score: 312
Period size: 20 Copynumber: 14.5 Consensus size: 20
97445 AAATTTCAGT
* *
97455 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
97475 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
**
97495 GTTGCGATTTATAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
97515 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
97535 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
97555 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
97575 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
97595 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
97615 GTTGCGATATACGGATACCC
1 GTTGCGATTTACGGATTCTC
* * *
97635 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
97655 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
97675 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
97695 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
97715 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
97735 GTTGCGATTT
1 GTTGCGATTT
97745 TGTAAAATCG
Statistics
Matches: 236, Mismatches: 32, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
20 235 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:97761 original size:21 final size:21
Alignment explanation
Indices: 97731--97809 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
97721 ATTTTCATAT
*
97731 TCGCGTTGCGATTTTGTAAAA
1 TCGCATTGCGATTTTGTAAAA
* * **
97752 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGTAAAA
*
97773 TCGCATTGCGATTTT-AAAGAA
1 TCGCATTGCGATTTTGTAA-AA
*
97794 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
97810 GAAACTGATT
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
20 1 0.02
21 44 0.98
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (21 bp):
TCGCATTGCGATTTTGTAAAA
Found at i:97804 original size:42 final size:43
Alignment explanation
Indices: 97711--97809 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
97701 ATTTATGTGT
* *
97711 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGTAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGAAAAA
**
97752 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-AAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGAAA-AA
*
97794 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
97810 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGAAAAA
Found at i:100514 original size:19 final size:18
Alignment explanation
Indices: 100490--100525 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
100480 ATTTATCCTC
*
100490 ATTATTTTATTTTTTTTAT
1 ATTA-TTTATTTTCTTTAT
100509 ATTATTTATTTTCTTTA
1 ATTATTTATTTTCTTTA
100526 CTGTAACACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (18 bp):
ATTATTTATTTTCTTTAT
Found at i:102985 original size:22 final size:22
Alignment explanation
Indices: 102957--103015 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
102947 AATTCAACCG
*
102957 TTTGTAACTCATGCAATAAAGC
1 TTTGTAACTCTTGCAATAAAGC
* *
102979 TTTGTAACTCTTGTATTAAAGC
1 TTTGTAACTCTTGCAATAAAGC
*
103001 TTTATAACTCTTGCA
1 TTTGTAACTCTTGCA
103016 TTCATTCTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.41
Consensus pattern (22 bp):
TTTGTAACTCTTGCAATAAAGC
Found at i:107365 original size:29 final size:29
Alignment explanation
Indices: 107332--107393 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
107322 AAAAACAGAT
*
107332 GATTAGAGCATTAAAGAACAAGCTCCAAA
1 GATTAGAGCAATAAAGAACAAGCTCCAAA
107361 GATTAGAGCAATAAAGAACAAGCTCCAAA
1 GATTAGAGCAATAAAGAACAAGCTCCAAA
107390 GATT
1 GATT
107394 CGAGTAAAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (29 bp):
GATTAGAGCAATAAAGAACAAGCTCCAAA
Found at i:116501 original size:3 final size:3
Alignment explanation
Indices: 116493--116533 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
116483 CGTATTTGTC
*
116493 TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
116534 AAATCTTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:119472 original size:18 final size:17
Alignment explanation
Indices: 119445--119478 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
119435 TTATTACTGT
*
119445 CTAAAATTGTGTTTATG
1 CTAAAATTGTGATTATG
119462 CTAATAATTGTGATTAT
1 CTAA-AATTGTGATTAT
119479 AAACCCTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (17 bp):
CTAAAATTGTGATTATG
Found at i:121078 original size:19 final size:17
Alignment explanation
Indices: 121023--121071 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
121013 GATGTGTATA
121023 TAAATTAATTTTATTTT
1 TAAATTAATTTTATTTT
*
121040 TAAATT-ATGGTTTTTATTT
1 TAAATTAAT--TTTAT-TTT
121059 TAAATTAATTTTA
1 TAAATTAATTTTA
121072 AATTTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 2 0.08
17 6 0.23
18 7 0.27
19 9 0.35
20 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (17 bp):
TAAATTAATTTTATTTT
Found at i:121121 original size:41 final size:41
Alignment explanation
Indices: 121050--121128 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 41
121040 TAAATTATGG
*
121050 TTTTTATTTTAAATTAATTTTAAAT-TTTTTAAACATTTTA
1 TTTTTATTTTAAATTAATTTTAAATATTTTAAAACATTTTA
*
121090 TTTTTATTTTAAAATTATTTTCTAAA-ATTTTAAAACATT
1 TTTTTATTTT-AAATTAATTT-TAAATATTTTAAAACATT
121129 CTAATTTACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 10 0.29
41 9 0.26
42 15 0.44
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (41 bp):
TTTTTATTTTAAATTAATTTTAAATATTTTAAAACATTTTA
Found at i:130806 original size:17 final size:17
Alignment explanation
Indices: 130770--130807 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
130760 TCATTTTTAG
130770 AAATTTAAAAAATAATT
1 AAATTTAAAAAATAATT
*
130787 AAATTATAAAGAATAA-T
1 AAATT-TAAAAAATAATT
130804 AAAT
1 AAAT
130808 ATTGACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
AAATTTAAAAAATAATT
Found at i:131278 original size:37 final size:37
Alignment explanation
Indices: 131193--131281 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 37
131183 CGATCATACT
* * ** * *
131193 CGAAAATTTTATATCTTACATCTGATTTGATTTGACC
1 CGAAAATTTTATATCCTACATCTGAATCAATCTAACC
*
131230 CTTAAAA-TTTATATCCTACATCTGAATCAATCTAACC
1 C-GAAAATTTTATATCCTACATCTGAATCAATCTAACC
131267 CGAAAATTTTATATC
1 CGAAAATTTTATATC
131282 TTTCACCTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
36 4 0.10
37 34 0.81
38 4 0.10
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (37 bp):
CGAAAATTTTATATCCTACATCTGAATCAATCTAACC
Found at i:132016 original size:209 final size:209
Alignment explanation
Indices: 131777--132198 Score: 835
Period size: 209 Copynumber: 2.0 Consensus size: 209
131767 CTCATGCCAG
131777 ACATTTGGCTCCTTCACTAAATAATTTCTTTTTTTGAAGTAATTTATTGTAATATAATGATGTAT
1 ACATTTGGCTCCTTCACTAAATAATTTCTTTTTTTGAAGTAATTTATTGTAATATAATGATGTAT
131842 ATAATATTTAATTTTTATATACTTTATCAATTTAATTTATATTTTTTAATTAAAATATATTTTTT
66 ATAATATTTAATTTTTATATACTTTATCAATTTAATTTATATTTTTTAATTAAAATATATTTTTT
131907 AATATTTTTAGCTAAATTAATATATTTTTAAAAATAATAATTAAATGGGTGTTTTTATTATAAAA
131 AATATTTTTAGCTAAATTAATATATTTTTAAAAATAATAATTAAATGGGTGTTTTTATTATAAAA
131972 TAACAAGAAAATTC
196 TAACAAGAAAATTC
*
131986 ACATTTGGCTCCTTCACTAAATAATTTCTTTTTTTGAAGTAATTTATTGTACTATAATGATGTAT
1 ACATTTGGCTCCTTCACTAAATAATTTCTTTTTTTGAAGTAATTTATTGTAATATAATGATGTAT
132051 ATAATATTTAATTTTTATATACTTTATCAATTTAATTTATATTTTTTAATTAAAATATATTTTTT
66 ATAATATTTAATTTTTATATACTTTATCAATTTAATTTATATTTTTTAATTAAAATATATTTTTT
132116 AATATTTTTAGCTAAATTAATATATTTTTAAAAATAATAATTAAATGGGTGTTTTTATTATAAAA
131 AATATTTTTAGCTAAATTAATATATTTTTAAAAATAATAATTAAATGGGTGTTTTTATTATAAAA
132181 TAACAAGAAAATTC
196 TAACAAGAAAATTC
132195 ACAT
1 ACAT
132199 ATAATTGATA
Statistics
Matches: 212, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
209 212 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (209 bp):
ACATTTGGCTCCTTCACTAAATAATTTCTTTTTTTGAAGTAATTTATTGTAATATAATGATGTAT
ATAATATTTAATTTTTATATACTTTATCAATTTAATTTATATTTTTTAATTAAAATATATTTTTT
AATATTTTTAGCTAAATTAATATATTTTTAAAAATAATAATTAAATGGGTGTTTTTATTATAAAA
TAACAAGAAAATTC
Found at i:132688 original size:14 final size:14
Alignment explanation
Indices: 132671--132711 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
132661 GAGAAAAGAA
132671 TAATAAAAAAATAT
1 TAATAAAAAAATAT
* *
132685 TAATATAATAATAT
1 TAATAAAAAAATAT
*
132699 TAATAAATAAATA
1 TAATAAAAAAATA
132712 ATATATATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAATAAAAAAATAT
Found at i:133142 original size:33 final size:33
Alignment explanation
Indices: 133086--133171 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 33
133076 GTCCTACTTG
*
133086 GACTCAAA-ATGCTTCGGTTTTAGTGTTTCAGTAA
1 GACTCAAATATG-TT-GGTTTTAGTGTTTCAATAA
*
133120 GACTCAAATATGTTGGTTTTAGTGTTTCAATAG
1 GACTCAAATATGTTGGTTTTAGTGTTTCAATAA
*
133153 GACTCAAATATATTGGTTT
1 GACTCAAATATGTTGGTTT
133172 ATTTTCTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
33 35 0.73
34 10 0.21
35 3 0.06
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.41
Consensus pattern (33 bp):
GACTCAAATATGTTGGTTTTAGTGTTTCAATAA
Found at i:133232 original size:8 final size:8
Alignment explanation
Indices: 133219--133276 Score: 62
Period size: 8 Copynumber: 6.9 Consensus size: 8
133209 GGGGCCTACA
133219 AAAATAAT
1 AAAATAAT
133227 AAAATAAT
1 AAAATAAT
133235 AATAATAAT
1 AA-AATAAT
133244 AATAATAAT
1 AA-AATAAT
* *
133253 TAATTAATT
1 AAAATAA-T
*
133262 AATATAAT
1 AAAATAAT
133270 AAAATAA
1 AAAATAA
133277 AATGTTTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
8 21 0.50
9 21 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATAAT
Found at i:133235 original size:3 final size:3
Alignment explanation
Indices: 133221--133276 Score: 64
Period size: 3 Copynumber: 18.7 Consensus size: 3
133211 GGCCTACAAA
133221 AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AATT AATT AATT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AA-T AAT AAT
133267 AAT AA- AAT AA
1 AAT AAT AAT AA
133277 AATGTTTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 6 0.12
3 32 0.65
4 11 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:133251 original size:23 final size:23
Alignment explanation
Indices: 133221--133279 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
133211 GGCCTACAAA
133221 AATAATAAAATAA-TAATAATAAT
1 AATAATAAAATAATTAAT-ATAAT
133244 AATAATAATTAATTAATTAATATAAT
1 AATAATAA--AA-TAATTAATATAAT
133270 AA-AATAAAAT
1 AATAATAAAAT
133280 GTTTTTGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
22 1 0.03
23 10 0.31
25 7 0.22
26 10 0.31
27 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AATAATAAAATAATTAATATAAT
Found at i:133939 original size:84 final size:84
Alignment explanation
Indices: 133667--134756 Score: 1067
Period size: 84 Copynumber: 13.1 Consensus size: 84
133657 TGCCTTGAGC
* * * * * *
133667 TATGTTGCAAATGATAGTGCCTTTGAGCTGTGTGGAGTCGAACTCGAAGGTCTTT-GTTGACAGA
1 TATGCTGCAAATGAT-GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGA
*
133731 TAACCCTTCTAGTCTTAAGT
65 TAACCCTTCTAGACTTAAGT
* * * * * * * *
133751 TATGTTGTAAATG-TGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTC--T--TTGGCAGA
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGA
* * **
133811 TAGCCCTTCTCGACTTAAAC
65 TAACCCTTCTAGACTTAAGT
* * *
133831 TATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCAAACTCGAAGGTCTTTGGTTGGCAAAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
*
133896 AACCCTTCTCGACTTAAGT
66 AACCCTTCTAGACTTAAGT
* * * * * * ** *
133915 TATTCTACAAATGATATGCATTGGAGCTGATCGTAATCGAACTCGAAGGTCTTTTGG-TCACATA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGA
* *
133979 TAACCCTTCTAGCCTTGAGT
65 TAACCCTTCTAGACTTAAGT
* * * * * * *
133999 TATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGAAATCGAACTCGAGGGTC--T--TTGGCAGA
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGA
* * *
134060 TAGCCCTTCTCGACTTAAGA
65 TAACCCTTCTAGACTTAAGT
*
134080 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
*
134145 AACCCTTCTCGACTTAAGT
66 AACCCTTCTAGACTTAAGT
** * **
134164 TATATTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TCACAGA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGA
* *
134228 TAACCCTTCTAGCCTTGAGT
65 TAACCCTTCTAGACTTAAGT
* * * * * *
134248 TATACTGTAAATGATGTGCCCTTGAAGTTGAGTGTAATCGAACTCG-AGAGTC--T--TTGGCAG
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAG-GTCTTTGGTTGGCAG
* *
134308 ATAGCCC-TCTCGACTTAAGT
64 ATAACCCTTCTAGACTTAAGT
*
134328 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGACCTCGAAGGTCTTTGGTTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
*
134393 AACCCTTCTCGACTTAAGT
66 AACCCTTCTAGACTTAAGT
* * * * * *
134412 TATGCTGCACATGATATACCTTGGAGATGAGCGTAGTCGAACTTGAAGCTC-TTGG-TGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
* * * *
134475 AGCTCTTCTAG-CTTGAGA
66 AACCCTTCTAGACTTAAGT
* * * *
134493 TATGCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT-GCTGACAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
* *
134557 AACCCTTTTAGCCTTAAGT
66 AACCCTTCTAGACTTAAGT
* * * * * * *
134576 TATGTTGTAAATGATGTGCCCTCGAAGCTGAGCATAGTCGAATTCGAAGGTCTTTGG-TGACAGA
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGA
* *
134640 TAACCCTTCTAGCCTTGAGT
65 TAACCCTTCTAGACTTAAGT
* * * *
134660 TATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGA
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGA
* * *
134725 TAACCCTTTTCG-CATTGAGT
65 TAACCCTTCTAGAC-TTAAGT
134745 TATGCTGCAAAT
1 TATGCTGCAAAT
134757 AGAAAAATTG
Statistics
Matches: 834, Mismatches: 142, Indels: 59
0.81 0.14 0.06
Matches are distributed among these distances:
79 25 0.03
80 117 0.14
81 101 0.12
82 40 0.05
83 63 0.08
84 393 0.47
85 95 0.11
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (84 bp):
TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
AACCCTTCTAGACTTAAGT
Found at i:134125 original size:249 final size:249
Alignment explanation
Indices: 133667--134756 Score: 1390
Period size: 249 Copynumber: 4.4 Consensus size: 249
133657 TGCCTTGAGC
* * * * * * *
133667 TATGTTGCAAATGATAGTGCCTTTGAGCTGTGTGGAGTCGAACTCGAAGGTC-TTTGTTGACAGA
1 TATGCTGCAAATGATA-TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGA
* * *
133731 TAACCCTTCTAGTCTTAAGTTATGTTGTAAATG-TGTGCCCTCGAAGCTGAGTGTAATCAAACTC
65 TAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTC
133795 GAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA-ACTATGCTGCAAATGATGTGCCTTGGAGCT
130 GAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGA-TATGCTGCAAATGATGTGCCTTGGAGCT
* * *
133859 GAGTGTAGTCAAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAAGT
194 GAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
* * * * * *
133915 TATTCTACAAATGATATGCATTGGAGCTGATCGTAATCGAACTCGAAGGTCTTTTGGTCACATAT
1 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGAT
* *
133980 AACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGAAATCGAACTCG
66 AACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCG
134045 AGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGATATGCTGCAAATGATGTGCCTTGGAGCTGA
131 AGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGATATGCTGCAAATGATGTGCCTTGGAGCTGA
*
134110 GCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGT
196 GCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
**
134164 TATATTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGAT
1 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGAT
* * * *
134229 AACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTTGAAGTTGAGTGTAATCGAACTCG
66 AACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCG
* *
134294 AGAGTCTTTGGCAGATAGCCC-TCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGA
131 AGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGATATGCTGCAAATGATGTGCCTTGGAGCTGA
*
134358 GCGTAGTCGACCTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
196 GCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
* * * * * **
134412 TATGCTGCACATGATATACCTTGGAGATGAGCGTAGTCGAACTTGAA-G-CTCTTGGTGGCAGAT
1 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGAT
* * * * * * * * *
134475 AGCTCTTCTAG-CTTGAGATATGCTGCAAATGACGTG-CCTTGGAGCTGAGCGTAGTCAAACTCG
66 AACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCG
* * * * * * * * * *
134538 AAGGTCTTTGCTGACAGATAACCCTTTTAGCCTTAAGTTATGTTGTAAATGATGTGCCCTCGAAG
131 AGGGTCTTTG--G-CAGATAGCCCTTCTCGACTTAAGATATGCTGCAAATGATGTG-CCTTGGAG
* * * * * *
134603 CTGAGCATAGTCGAATTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGT
192 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
* * * * *
134660 TATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTAGCAG
1 TATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCA-CAG
* * * *
134724 ATAACCCTTTTCGCATTGAGTTATGCTGCAAAT
64 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAAT
134757 AGAAAAATTG
Statistics
Matches: 738, Mismatches: 91, Indels: 22
0.87 0.11 0.03
Matches are distributed among these distances:
244 30 0.04
245 21 0.03
246 22 0.03
247 38 0.05
248 250 0.34
249 340 0.46
250 7 0.01
251 13 0.02
252 17 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (249 bp):
TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGAT
AACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACTCG
AGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGATATGCTGCAAATGATGTGCCTTGGAGCTGA
GCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
Found at i:134397 original size:413 final size:410
Alignment explanation
Indices: 133598--134716 Score: 1345
Period size: 413 Copynumber: 2.7 Consensus size: 410
133588 GCAACGCGGT
* * * * * *
133598 TGATATGCCCTCGAGCTAAATGAAATCGAACTCAAGGGTCTTTGGCAGATAGGCCTTTTTGCCTT
1 TGATATGCCCTCGAGCTGAGTGAAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTAG-CTT
* * * * * *
133663 GAGCTATGTTGCAAATGATAGTGCCTTTGAGCTGTGTGGAGTCGAACTCGAAGGTCTTTGTTGAC
65 GAGATATGCTGCAAATGAT-GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGAC
* * * *
133728 AGATAACCCTTCTAGTCTTAAGTTATGTTGTAAATG-TGTGCCCTCGAAGCTGAGTGTAATCAAA
129 AGATAACCCTTCTAGACTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAA
* * * * * ** *
133792 CTCGAGGGTCTTTGG--CAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTG-CCTTG
194 CTCGAAGGTCTTTGGTACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTTG
* * *
133854 GAGCTGAGTGTAGTCAAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAAGTTATT
259 AAGCTGAGTGTAGTCGAACTCGAAGGTC--T--TTGGCAAATAACCCTTCTCGACTTAAGTTATG
* *
133919 CTACAAATGATATGCATTGGAGCTGATCGTAATCGAACTCGAAGGTCTTTTGGTCACATATAACC
320 CTACAAATGATATGCATTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTGGTCACAGATAACC
* * *
133984 CTTCTAGCCTTGAGTTATGCTGTAAA
385 CTTCTAGACTTAAGTTATGCTGCAAA
* *
134010 TGATGTGCCCTCGAAGCTGAGTGAAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACT
1 TGATATGCCCTCG-AGCTGAGTGAAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTAG-CT
* *
134075 TAAGATATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGG
64 TGAGATATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGA
* * * * * * *
134140 TAGATAACCCTTCTCGACTTAAGTTATATTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGA
128 CAGATAACCCTTCTAGACTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGA
*
134204 ACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCC
193 ACTCGAAGGTC-TTTGGT-ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCC
* * * *
134269 TTGAAGTTGAGTGTAATCGAACTCG-AGAGTCTTTGGCAGATAGCCC-TCTCGACTTAAGTTATG
256 TTGAAGCTGAGTGTAGTCGAACTCGAAG-GTCTTTGGCAAATAACCCTTCTCGACTTAAGTTATG
* * * * * **
134332 CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGACCTCGAAGGTC-TTTGGTTGGCAGATAAC
320 CTACAAATGATATGCATTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTGG-TCACAGATAAC
* *
134396 CCTTCTCGACTTAAGTTATGCTGCACA
384 CCTTCTAGACTTAAGTTATGCTGCAAA
* * * * * * * * * * *
134423 TGATATACCTTGGAGATGAGCGTAGTCGAACTTGAAGCTCTTGGTGGCAGATAGCTCTTCTAGCT
1 TGATATGCCCTCGAGCTGAGTGAAATCGAACTCGAGGGTCTT--TGGCAGATAGCCCTTCTAGCT
* * *
134488 TGAGATATGCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGCTGAC
64 TGAGATATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGAC
* * *
134553 AGATAACCCTTTTAGCCTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGCATAGTCGAA
129 AGATAACCCTTCTAGACTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAA
* *
134618 TTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC
194 CTCGAAGGTCTTTGGT-ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTT
*
134683 GAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
258 GAAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGG
134717 TTAGCAGATA
Statistics
Matches: 601, Mismatches: 92, Indels: 28
0.83 0.13 0.04
Matches are distributed among these distances:
412 192 0.32
413 309 0.51
414 37 0.06
416 1 0.00
417 36 0.06
418 26 0.04
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (410 bp):
TGATATGCCCTCGAGCTGAGTGAAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTAGCTTG
AGATATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGACAG
ATAACCCTTCTAGACTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACT
CGAAGGTCTTTGGTACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTTGAA
GCTGAGTGTAGTCGAACTCGAAGGTCTTTGGCAAATAACCCTTCTCGACTTAAGTTATGCTACAA
ATGATATGCATTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTA
GACTTAAGTTATGCTGCAAA
Found at i:134607 original size:497 final size:495
Alignment explanation
Indices: 133671--134756 Score: 1399
Period size: 497 Copynumber: 2.2 Consensus size: 495
133661 TTGAGCTATG
* * * * * *
133671 TTGCAAATGATAGTGCCTTTGAGCTGTGTGGAGTCGAACTCGAAGGTCTTTGTTGACAGATAACC
1 TTGCAAATGATA-TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAGATAACC
* * * *
133736 CTTCTAGTCTTAAGTTATGTTGTAAATGTGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGT
65 CTTCTAGCCTTGAGTTATGCTGTAAATGTGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGAGT
*
133801 CTTTGGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTA
130 CTTTGGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTA
*
133866 GTCAAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAAGTTATTCTACAAATGATA
195 GTCAAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAAGTTATGCTACAAATGATA
* * * * *
133931 TGCATTGGAGCTGATCGTAATCGAACTCGAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTG
260 TACATTGGAGATGAGCGTAATCGAACTCGAAGGTCTCTTGGTCACAGATAACCCTTCTAGCCTTG
* * * * * *
133996 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGAAATCGAACTCGAGGGTCTTTGGCAGAT
325 AGATATGCTGCAAATGACGTGCCCTCGAAGCTGAGCGAAATCAAACTCGAAGGTCTTTGGCAGAT
* * * * *
134061 AGCCCTTCTCGACTTAAGATATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGA
390 AACCCTTCTAGACTTAAGATATGCTGCAAATGATGTGCCTCGAAGCTGAGCATAGTCGAACTCGA
** *
134126 AGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATA
455 AGGTCTTTGG-TGACAGATAACCCTTCTAGACTTAAGTTATA
134168 TTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACC
1 TTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTCACAGATAACC
* * * *
134233 CTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTTGAAGTTGAGTGTAATCGAACTCGAGAG
65 CTTCTAGCCTTGAGTTATGCTGTAAATG-TGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGAG
**
134298 TCTTTGGCAGATAGCCC-TCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGT
129 TCTTTGGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGT
* * * * *
134362 AGTCGACCTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCACATGAT
194 AGTCAAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAAGTTATGCTACAAATGAT
* * * ** * *
134427 ATACCTTGGAGATGAGCGTAGTCGAACTTGAA-G-CTCTTGGTGGCAGATAGCTCTTCTAG-CTT
259 ATACATTGGAGATGAGCGTAATCGAACTCGAAGGTCTCTTGGTCACAGATAACCCTTCTAGCCTT
* * * *
134489 GAGATATGCTGCAAATGACGTG-CCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGCTGAC
324 GAGATATGCTGCAAATGACGTGCCCTCGAAGCTGAGCGAAATCAAACTCGAAGGTCTTTG--G-C
* * * * *
134553 AGATAACCCTTTTAGCCTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGCATAGTCGAA
386 AGATAACCCTTCTAGACTTAAGATATGCTGCAAATGATGTG-CCTCGAAGCTGAGCATAGTCGAA
* * * *
134618 TTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATG
450 CTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATA
* * * * * *
134664 CTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGATAAC
1 TTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCA-CAGATAAC
* * * *
134729 CCTTTTCGCATTGAGTTATGCTGCAAAT
64 CCTTCTAGCCTTGAGTTATGCTGTAAAT
134757 AGAAAAATTG
Statistics
Matches: 508, Mismatches: 73, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
493 30 0.06
494 22 0.04
495 21 0.04
496 110 0.22
497 276 0.54
498 49 0.10
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (495 bp):
TTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAGATAACCC
TTCTAGCCTTGAGTTATGCTGTAAATGTGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGAGTC
TTTGGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
TCAAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAAGTTATGCTACAAATGATAT
ACATTGGAGATGAGCGTAATCGAACTCGAAGGTCTCTTGGTCACAGATAACCCTTCTAGCCTTGA
GATATGCTGCAAATGACGTGCCCTCGAAGCTGAGCGAAATCAAACTCGAAGGTCTTTGGCAGATA
ACCCTTCTAGACTTAAGATATGCTGCAAATGATGTGCCTCGAAGCTGAGCATAGTCGAACTCGAA
GGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATA
Found at i:139245 original size:21 final size:21
Alignment explanation
Indices: 139203--139245 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
139193 TTTCTGGGCT
* *
139203 AGGGGAATCGATACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
139224 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
139245 A
1 A
139246 ACGAACCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.30, G:0.23, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:140616 original size:13 final size:13
Alignment explanation
Indices: 140598--140624 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
140588 TGAAGCTACG
140598 AGCTTATATGAAT
1 AGCTTATATGAAT
140611 AGCTTATATGAAT
1 AGCTTATATGAAT
140624 A
1 A
140625 TGTGATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
AGCTTATATGAAT
Found at i:140898 original size:23 final size:22
Alignment explanation
Indices: 140872--140944 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
140862 ACTACGGTGT
140872 AATTCTACGTGGCTCTCCTGTGC
1 AATTCTACGTGGCTCT-CTGTGC
* *
140895 AATTCTACG-CGATACTCTGGTGC
1 AATTCTACGTGGCT-CTCT-GTGC
* *
140918 AATTCTACGTGGCACTTCGGTGC
1 AATTCTACGTGGCTC-TCTGTGC
140941 AATT
1 AATT
140945 ACACGAGCTG
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
22 4 0.10
23 33 0.82
24 3 0.08
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (22 bp):
AATTCTACGTGGCTCTCTGTGC
Found at i:141897 original size:18 final size:17
Alignment explanation
Indices: 141856--141916 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
141846 TGGATTGTAA
141856 AAATGAAAAAAACATAAGA-
1 AAAT-AAAAAAA-ATAA-AT
*
141875 AAATAAAAAAAATTAAT
1 AAATAAAAAAAATAAAT
*
141892 ATAATAAAATAAATAAAT
1 A-AATAAAAAAAATAAAT
141910 AAATAAA
1 AAATAAA
141917 TAAATATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 1 0.03
17 10 0.27
18 22 0.59
19 4 0.11
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (17 bp):
AAATAAAAAAAATAAAT
Found at i:141905 original size:4 final size:4
Alignment explanation
Indices: 141884--141922 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
141874 AAAATAAAAA
*
141884 AAAT TAAT ATAAT AAAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT A-AAT -AAAT AAAT AAAT AAAT AAAT AAAT A
141923 TATATATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 24 0.77
5 6 0.19
6 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:142340 original size:33 final size:33
Alignment explanation
Indices: 142286--142371 Score: 102
Period size: 33 Copynumber: 2.6 Consensus size: 33
142276 GTCATACTTG
142286 GACTCAAA-ATGCTTCGGTTTTAATGTTTCAATAA
1 GACTCAAATATG-TT-GGTTTTAATGTTTCAATAA
* * *
142320 TACTCAAATATGTTGGTTTTAGTGTTTCAATAG
1 GACTCAAATATGTTGGTTTTAATGTTTCAATAA
* *
142353 GACTCAAATACGTTAGTTT
1 GACTCAAATATGTTGGTTT
142372 ATTTTTTGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
33 33 0.73
34 9 0.20
35 3 0.07
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (33 bp):
GACTCAAATATGTTGGTTTTAATGTTTCAATAA
Found at i:142439 original size:3 final size:3
Alignment explanation
Indices: 142421--142476 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
142411 GGCCTACAAA
142421 AAT AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AATT AAT -AT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
142466 -AT AAT AA- AAT A
1 AAT AAT AAT AAT A
142477 TTTTTGTAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
2 8 0.17
3 33 0.70
4 6 0.13
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:144318 original size:14 final size:14
Alignment explanation
Indices: 144301--144328 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
144291 ATCATAACAA
144301 AATTATATAACTAT
1 AATTATATAACTAT
144315 AATTATATAACTAT
1 AATTATATAACTAT
144329 TCTTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:147044 original size:6 final size:6
Alignment explanation
Indices: 147033--147066 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
147023 CCAAAACACT
* *
147033 CTCTCG CTCTCG CTCTTG CTCTTG CTCTCG CTCT
1 CTCTCG CTCTCG CTCTCG CTCTCG CTCTCG CTCT
147067 TCACAATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.44, G:0.15, T:0.41
Consensus pattern (6 bp):
CTCTCG
Found at i:147059 original size:18 final size:18
Alignment explanation
Indices: 147033--147067 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
147023 CCAAAACACT
147033 CTCTCGCTCTCGCTCTTG
1 CTCTCGCTCTCGCTCTTG
*
147051 CTCTTGCTCTCGCTCTT
1 CTCTCGCTCTCGCTCTT
147068 CACAATTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.14, T:0.43
Consensus pattern (18 bp):
CTCTCGCTCTCGCTCTTG
Found at i:150180 original size:40 final size:40
Alignment explanation
Indices: 150128--150207 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
150118 TATTTCATGT
150128 TTTTGAACATGTTTGTGAACACTGAACGAACATGTTCACG
1 TTTTGAACATGTTTGTGAACACTGAACGAACATGTTCACG
* *
150168 TTTTGAATATGTTTGTGAACACTGAACGGACATGTTCACG
1 TTTTGAACATGTTTGTGAACACTGAACGAACATGTTCACG
150208 ACTATGAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (40 bp):
TTTTGAACATGTTTGTGAACACTGAACGAACATGTTCACG
Found at i:154955 original size:20 final size:19
Alignment explanation
Indices: 154927--154965 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
154917 TCAATACCCG
*
154927 ATTTATTATATATATTTTTA
1 ATTTATTAT-TAAATTTTTA
*
154947 ATTTTTTATTAAATTTTTA
1 ATTTATTATTAAATTTTTA
154966 TTCATAATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTATTATTAAATTTTTA
Found at i:155346 original size:24 final size:23
Alignment explanation
Indices: 155318--155384 Score: 68
Period size: 25 Copynumber: 2.9 Consensus size: 23
155308 ATATAATATA
155318 ATTTTATATATATTAACTTAAAAT
1 ATTTT-TATATATTAACTTAAAAT
155342 A-TTTT-TATATTAACTTATTAAAT
1 ATTTTTATATATTAACTTA--AAAT
*
155365 ATATTTTA-CTATTAACTTAA
1 AT-TTTTATATATTAACTTAA
155385 TTTTAAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
21 12 0.32
22 1 0.03
23 9 0.24
24 1 0.03
25 14 0.38
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTTTATATATTAACTTAAAAT
Found at i:155350 original size:21 final size:22
Alignment explanation
Indices: 155326--155384 Score: 84
Period size: 21 Copynumber: 2.6 Consensus size: 22
155316 TAATTTTATA
155326 TATATTAACTTAAAATAT-TTT
1 TATATTAACTTAAAATATATTT
155347 TATATTAACTTATTAAATATATTT
1 TATATTAACTTA--AAATATATTT
155371 TACTATTAACTTAA
1 TA-TATTAACTTAA
155385 TTTTAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 12 0.35
23 7 0.21
24 5 0.15
25 10 0.29
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATTAACTTAAAATATATTT
Found at i:155368 original size:25 final size:24
Alignment explanation
Indices: 155335--155383 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
155325 ATATATTAAC
155335 TTAAAATATTTTTA-TATTAACTTA
1 TTAAAATA-TTTTACTATTAACTTA
155359 TTAAATATATTTTACTATTAACTTA
1 TTAAA-ATATTTTACTATTAACTTA
155384 ATTTTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAAAATATTTTACTATTAACTTA
Found at i:159113 original size:20 final size:20
Alignment explanation
Indices: 159080--159118 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
159070 TTTGTTAGTT
*
159080 ATTAGATAAGATCAGTTTTA
1 ATTAGATAAGATCAATTTTA
159100 ATTAGAT-AGAATCAATTTT
1 ATTAGATAAG-ATCAATTTT
159119 TTATTCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (20 bp):
ATTAGATAAGATCAATTTTA
Found at i:159122 original size:53 final size:53
Alignment explanation
Indices: 159064--159171 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
159054 TAACTAGATA
*
159064 TTTTATTTTGTTAGTTATTAGATAAGATCAGTTTTAATTAGATAGAATCAATT
1 TTTTATTCTGTTAGTTATTAGATAAGATCAGTTTTAATTAGATAGAATCAATT
* *
159117 TTTTATTCTGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTT
1 TTTTATTCTGTTAGTTATTAGATAAGATCAGTTTTAATTAGATAGAATCAATT
159170 TT
1 TT
159172 ATTCTGATGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (53 bp):
TTTTATTCTGTTAGTTATTAGATAAGATCAGTTTTAATTAGATAGAATCAATT
Found at i:159158 original size:20 final size:20
Alignment explanation
Indices: 159133--159172 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
159123 TCTGTTAGTT
*
159133 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
159153 ATTAGATAGAATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
159173 TTCTGATGCT
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:0.05, G:0.17, T:0.40
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:163311 original size:28 final size:28
Alignment explanation
Indices: 163279--163344 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
163269 TTTGTCTGGG
163279 GCAACTTAGTTACTTGGAGAAGCAAGAA
1 GCAACTTAGTTACTTGGAGAAGCAAGAA
163307 GCAACTTAGTTACTTGGAGAAGCAAGAA
1 GCAACTTAGTTACTTGGAGAAGCAAGAA
163335 GCAAC-TAGTT
1 GCAACTTAGTT
163345 GTCTCTAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.13
28 33 0.87
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (28 bp):
GCAACTTAGTTACTTGGAGAAGCAAGAA
Found at i:163796 original size:20 final size:20
Alignment explanation
Indices: 163771--163809 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
163761 TATGTTAGTT
*
163771 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
163791 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
163810 TTATTCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:168644 original size:22 final size:22
Alignment explanation
Indices: 168619--168670 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
168609 AGTAAACATG
*
168619 AATAAAAGTTTAAGATGAATAC
1 AATAAAAGTTTAAGATAAATAC
* *
168641 AATAAAATTTTAAGATAAATAT
1 AATAAAAGTTTAAGATAAATAC
168663 ATATAAAA
1 A-ATAAAA
168671 TAATAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (22 bp):
AATAAAAGTTTAAGATAAATAC
Found at i:168879 original size:2 final size:2
Alignment explanation
Indices: 168872--168909 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
168862 TTATTTCTTT
168872 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
168910 ATTTTATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.