Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold848
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: 100582
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:3838 original size:9 final size:9
Alignment explanation
Indices: 3824--3853 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3814 TCTGAGTCAC
*
3824 CATCATCAT
1 CATCATCTT
3833 CATCATCTT
1 CATCATCTT
3842 CATCATCTT
1 CATCATCTT
3851 CAT
1 CAT
3854 TGTCCTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (9 bp):
CATCATCTT
Found at i:5488 original size:13 final size:13
Alignment explanation
Indices: 5470--5494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5460 CATTTTATGG
5470 TGTATCGATACAA
1 TGTATCGATACAA
5483 TGTATCGATACA
1 TGTATCGATACA
5495 TACTTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5510 original size:32 final size:33
Alignment explanation
Indices: 5448--5514 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
5438 GTTGCAAGCT
*
5448 AATGTATCGATACATTTTATGGTGTATCGATAC
1 AATGTATCGATACATCTTATGGTGTATCGATAC
5481 AATGTATCGATACATACTT-T-GTGTATCGATAC
1 AATGTATCGATACAT-CTTATGGTGTATCGATAC
5513 AA
1 AA
5515 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.44
33 16 0.50
34 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (33 bp):
AATGTATCGATACATCTTATGGTGTATCGATAC
Found at i:5625 original size:13 final size:13
Alignment explanation
Indices: 5607--5631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5597 CTTTTAAACG
5607 TGTATCGATACAA
1 TGTATCGATACAA
5620 TGTATCGATACA
1 TGTATCGATACA
5632 TACTTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5652 original size:137 final size:137
Alignment explanation
Indices: 5449--5754 Score: 533
Period size: 137 Copynumber: 2.2 Consensus size: 137
5439 TTGCAAGCTA
**
5449 ATGTATCGATACATTTT-ATGGTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATAC
1 ATGTATCGATAC-TTTTAAACGTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATAC
5513 AAGTTTGGCTACTGCCAAGAAATCCCAATGACATGTATCGATACATCTTTTTCATATATCAATAA
65 AAGTTTGGCTACTGCCAAGAAATCCCAATGACATGTATCGATACATCTTTTTCATATATCAATAA
5578 AATGCAAC
130 AATGCAAC
5586 ATGTATCGATACTTTTAAACGTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATACA
1 ATGTATCGATACTTTTAAACGTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATACA
* * *
5651 AGTTTGGCTACTGCCAAGAAATCCCAATGACATGTATCGATACATCTTTTTCATGTATCGATACA
66 AGTTTGGCTACTGCCAAGAAATCCCAATGACATGTATCGATACATCTTTTTCATATATCAATAAA
*
5716 CTGCAAC
131 ATGCAAC
*
5723 ATGTATCGATACTTTTAAATGTGTATCGATAC
1 ATGTATCGATACTTTTAAACGTGTATCGATAC
5755 TTTTCAGGAT
Statistics
Matches: 161, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
136 4 0.02
137 157 0.98
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (137 bp):
ATGTATCGATACTTTTAAACGTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATACA
AGTTTGGCTACTGCCAAGAAATCCCAATGACATGTATCGATACATCTTTTTCATATATCAATAAA
ATGCAAC
Found at i:7991 original size:13 final size:13
Alignment explanation
Indices: 7973--7997 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7963 AACTCACTTA
7973 GTATCGATACATT
1 GTATCGATACATT
7986 GTATCGATACAT
1 GTATCGATACAT
7998 GATGAATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:8008 original size:20 final size:20
Alignment explanation
Indices: 7978--8037 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
7968 ACTTAGTATC
*
7978 GATACATTGTATCGATACAT
1 GATAAATTGTATCGATACAT
*
7998 GATGAATTGTATCGATACAT
1 GATAAATTGTATCGATACAT
* *
8018 GGTAAAATGTATCGATACAT
1 GATAAATTGTATCGATACAT
8038 TGAGCCCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
GATAAATTGTATCGATACAT
Found at i:9629 original size:19 final size:20
Alignment explanation
Indices: 9601--9653 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
9591 ATCGATACAA
*
9601 TGTATTGATACATGCTC-AT
1 TGTATCGATACATGCTCAAT
*
9620 TGTATCGATACATACTCAAT
1 TGTATCGATACATGCTCAAT
9640 TGTATCGATACATG
1 TGTATCGATACATG
9654 AAACTGACAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:9689 original size:42 final size:42
Alignment explanation
Indices: 9640--9734 Score: 181
Period size: 42 Copynumber: 2.3 Consensus size: 42
9630 CATACTCAAT
9640 TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
1 TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
9682 TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
1 TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
*
9724 TGTATCAATAC
1 TGTATCGATAC
9735 GTGGGACATT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (42 bp):
TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
Found at i:9762 original size:13 final size:13
Alignment explanation
Indices: 9744--9768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9734 CGTGGGACAT
9744 TGTATCGATACAA
1 TGTATCGATACAA
9757 TGTATCGATACA
1 TGTATCGATACA
9769 TGGTAAAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:10969 original size:13 final size:13
Alignment explanation
Indices: 10950--10986 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
10940 ACTATTTATG
10950 ATGTATCGATACA
1 ATGTATCGATACA
*
10963 CTGTATCGATACA
1 ATGTATCGATACA
10976 ATGTATCGATA
1 ATGTATCGATA
10987 TATGAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:11054 original size:31 final size:32
Alignment explanation
Indices: 10976--11064 Score: 119
Period size: 34 Copynumber: 2.8 Consensus size: 32
10966 TATCGATACA
*
10976 ATGTATCGATATATGAATAGTGATGAACAGTG
1 ATGTATCGATACATGAATAGTGATGAACAGTG
* *
11008 ATTTTTAACGATACATGAATAGTG-TGAACAGTG
1 A--TGTATCGATACATGAATAGTGATGAACAGTG
11041 ATGTATCGATACATGAA-AGTGATG
1 ATGTATCGATACATGAATAGTGATG
11065 TATCGATACA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
30 4 0.08
31 16 0.33
32 1 0.02
33 10 0.20
34 18 0.37
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (32 bp):
ATGTATCGATACATGAATAGTGATGAACAGTG
Found at i:11086 original size:22 final size:22
Alignment explanation
Indices: 11032--11086 Score: 103
Period size: 21 Copynumber: 2.5 Consensus size: 22
11022 ATGAATAGTG
11032 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
11054 TGAA-AGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
11075 TGAACAGTGATG
1 TGAACAGTGATG
11087 AATAGTGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.66
22 11 0.34
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATACA
Found at i:11093 original size:10 final size:10
Alignment explanation
Indices: 11074--11104 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
11064 GTATCGATAC
11074 ATGAACAGTG
1 ATGAACAGTG
*
11084 ATGAATAGTG
1 ATGAACAGTG
11094 ATGAACAGTG
1 ATGAACAGTG
11104 A
1 A
11105 GATGAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:11191 original size:53 final size:53
Alignment explanation
Indices: 11127--11263 Score: 184
Period size: 53 Copynumber: 2.6 Consensus size: 53
11117 CTACTACCAA
* ** *
11127 TGTATCGATACATATTTTGTATATCGATACAAGTTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAAATTGGCTACTGCCAATGACC
* * *
11180 TGTATTGATACATATTGTGTGTATCGATACAAAATTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAAATTGGCTACTGCCAATGACC
* *
11233 TATATCAATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
11264 TATGCAATCT
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 59 0.82
54 13 0.18
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAAATTGGCTACTGCCAATGACC
Found at i:11299 original size:21 final size:20
Alignment explanation
Indices: 11251--11305 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
11241 TACATATTTG
**
11251 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
11271 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
11292 TGTGTATCGATACT
1 TGTGTATCGATACT
11306 TTTCAGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:13758 original size:51 final size:51
Alignment explanation
Indices: 13692--13860 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
13682 CGAAAATAAT
* * * * * *
13692 GGGGTTGGAGTATCCCTGATTTTGGAAAATCGATGCTTTAGAAATAAGACC
1 GGGGTTGGAGTATCCCTGATTGTGGAAAATTGGTGTTTTAGAAATAAAATC
* *
13743 GGGGTTGGAGTATCCCCGATTGT-GAGAAATTGGTGTTTTGGAAATAAAATC
1 GGGGTTGGAGTATCCCTGATTGTGGA-AAATTGGTGTTTTAGAAATAAAATC
** * * *
13794 GAAGTTGGAGTAT-CCTCGATTGTGAAAAATTGGTATTTTAGAAATAAAATA
1 GGGGTTGGAGTATCCCT-GATTGTGGAAAATTGGTGTTTTAGAAATAAAATC
13845 GGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
13861 CTCGGAAATA
Statistics
Matches: 97, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
50 4 0.04
51 90 0.93
52 3 0.03
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCTGATTGTGGAAAATTGGTGTTTTAGAAATAAAATC
Found at i:13920 original size:28 final size:28
Alignment explanation
Indices: 13845--13920 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 28
13835 AAATAAAATA
13845 GGGGTTGGAGTATCCCCTCG--GAAATAAC
1 GGGGTTGGAGTA-CCCC-CGATGAAATAAC
* *
13873 GGGATTGGAGTATCCCCGATGAAATAAC
1 GGGGTTGGAGTACCCCCGATGAAATAAC
13901 GGGGTTGGAGTACCCCCGAT
1 GGGGTTGGAGTACCCCCGAT
13921 TATGAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 2 0.05
27 3 0.07
28 37 0.88
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (28 bp):
GGGGTTGGAGTACCCCCGATGAAATAAC
Found at i:14049 original size:51 final size:51
Alignment explanation
Indices: 13990--14150 Score: 155
Period size: 51 Copynumber: 3.2 Consensus size: 51
13980 AATGGGGTTA
** *
13990 GAGTATCCCTAATTGTGAAAAATT-AGTGTTTTGGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTGAGAAAAATTGA-TGTTTTGGAAATAAAATCGGAGTTG
* ** * * * *
14041 GAGTATCCCCGATTGCGGTAAATCGATGCTTTAGAAATAAAATCGGAATTG
1 GAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTG
* * * *
14092 GAGTCTCCCCGATTAAGAAAAATTGATGTTTTGGACATGAAATCGG-GATTG
1 GAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGAG-TTG
*
14143 TAGTATCC
1 GAGTATCC
14151 TCAAGATGAA
Statistics
Matches: 86, Mismatches: 22, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
51 85 0.99
52 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (51 bp):
GAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTG
Found at i:16509 original size:13 final size:13
Alignment explanation
Indices: 16491--16520 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16481 GTAAATCCAG
*
16491 AATGTATCGATAT
1 AATGTATCGATAC
16504 AATGTATCGATAC
1 AATGTATCGATAC
16517 AATG
1 AATG
16521 AGCAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:16529 original size:20 final size:20
Alignment explanation
Indices: 16504--16558 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
16494 GTATCGATAT
*
16504 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAAC
* *
16524 AATGTATCTATATAATGAAC
1 AATGTATCGATACAATGAAC
16544 AATGTATCGATACAA
1 AATGTATCGATACAA
16559 ATTGTGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:19292 original size:20 final size:20
Alignment explanation
Indices: 19267--19351 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
19257 AAAAAACCTG
19267 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGTAA
19287 AATGTATCGATACATCTGGGTAAATCCA
1 AATGTATCGATACAT-T--GT--A---A
* *
19315 GAATGTATCGATACAATGCAA
1 -AATGTATCGATACATTGTAA
19336 AATGTATCGATACATT
1 AATGTATCGATACATT
19352 TGGGTAAACC
Statistics
Matches: 53, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
20 30 0.57
21 2 0.04
23 2 0.04
24 1 0.02
25 1 0.02
26 1 0.02
28 2 0.04
29 14 0.26
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTGTAA
Found at i:19320 original size:49 final size:48
Alignment explanation
Indices: 19266--19398 Score: 203
Period size: 49 Copynumber: 2.7 Consensus size: 48
19256 AAAAAAACCT
* *
19266 GAATGTATCGATACATTGTAAAATGTATCGATACATCTGGGTAAATCCA
1 GAATGTATCGATACAATG-AAAATGTATCGATACATCTGGGTAAACCCA
*
19315 GAATGTATCGATACAATGCAAAATGTATCGATACATTTGGGTAAACCCA
1 GAATGTATCGATACAATG-AAAATGTATCGATACATCTGGGTAAACCCA
*
19364 GAATGTATCGATACAATGAATAATGTATTGATACA
1 GAATGTATCGATACAATGAA-AATGTATCGATACA
19399 AATTGTGAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
48 2 0.03
49 76 0.97
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (48 bp):
GAATGTATCGATACAATGAAAATGTATCGATACATCTGGGTAAACCCA
Found at i:20404 original size:55 final size:55
Alignment explanation
Indices: 20253--20506 Score: 337
Period size: 55 Copynumber: 4.5 Consensus size: 55
20243 GAGAAAAGGA
* * * *
20253 AAAGGCATCCTGCTCTTCGAGGACTAAAAAGTGCCACTAACTCGTGTGGGCTTTG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG
** *
20308 AAAAGAAAAGACGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG
1 -AAAG----G-CGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG
* *
20369 AAAGGCGTCCTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG
* * *
20424 AAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG
*
20479 AAAGGCATCCTGCTCTTTGAGGACTAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAAA
20507 GGGTGAAAGG
Statistics
Matches: 173, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
55 120 0.69
56 5 0.03
60 5 0.03
61 43 0.25
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (55 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG
Found at i:20476 original size:110 final size:113
Alignment explanation
Indices: 20253--20506 Score: 388
Period size: 110 Copynumber: 2.2 Consensus size: 113
20243 GAGAAAAGGA
* * *
20253 AAAGGCATCCTGCTCTTCGAGGACTAAAAAGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAG
1 AAAGGCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTCGTGTGGGCTTTGAAAAG---AG
*
20318 ACGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG
63 ACGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
* * * *
20369 AAAGGCGTCCTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-G-TG
1 AAAGGCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGAGACG
20431 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
66 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
20479 AAAGGCATCCTGCTCTTTGAGGACTAAA
1 AAAGGCATCCTGCTCTTTGAGGACTAAA
20507 GGGTGAAAGG
Statistics
Matches: 128, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
110 74 0.58
111 1 0.01
115 4 0.03
116 49 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (113 bp):
AAAGGCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGAGACG
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
Found at i:20556 original size:94 final size:96
Alignment explanation
Indices: 20430--20619 Score: 253
Period size: 94 Copynumber: 2.0 Consensus size: 96
20420 TTTGAAAGGT
* * *
20430 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-G-AAAGGCATCCTGCT
1 GTCCGGCTCTTTGAGCACTGAAAGGTGCCACCAACTTGTATGGGCTTTAGAAAAGGCATCCTGCT
*
20493 CTTTGAGGACT-AAAGGGTGAAAGGAGAGAGC
66 CTTTGAGGACTGAAA-AGTGAAAGGAGAGAGC
*
20524 GTCCGGCTCTTTGAGCACT-AGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCGTC
1 GTCCGGCTCTTTGAGCACTGA-AAGGTGCCACCAACTTGTATGGGCTTT---A-GAAAAGGCATC
20588 CTGCTCTTTGAGGACTGAAAAGTGAAAGGAGA
61 CTGCTCTTTGAGGACTGAAAAGTGAAAGGAGA
20620 AAGTTTAGAT
Statistics
Matches: 83, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
93 1 0.01
94 43 0.52
99 1 0.01
100 35 0.42
101 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (96 bp):
GTCCGGCTCTTTGAGCACTGAAAGGTGCCACCAACTTGTATGGGCTTTAGAAAAGGCATCCTGCT
CTTTGAGGACTGAAAAGTGAAAGGAGAGAGC
Found at i:21602 original size:16 final size:14
Alignment explanation
Indices: 21577--21615 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
21567 AAGCAGGTTC
21577 TTTTTTTTTTACTTT
1 TTTTTTTTTTA-TTT
21592 TTTTTTGTTTTATTT
1 TTTTTT-TTTTATTT
21607 TATTTTTTT
1 T-TTTTTTT
21616 GCCTTTTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.87
Consensus pattern (14 bp):
TTTTTTTTTTATTT
Found at i:23910 original size:20 final size:20
Alignment explanation
Indices: 23887--23935 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
23877 AAATTGCACC
**
23887 GTATCGATACATGACTAAAT
1 GTATCGATACATGAAAAAAT
*
23907 GTATCGATACTTGAAAAAAT
1 GTATCGATACATGAAAAAAT
23927 GTATCGATA
1 GTATCGATA
23936 TAGGTCATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGAAAAAAT
Found at i:24030 original size:33 final size:32
Alignment explanation
Indices: 23969--24036 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
23959 GTAGCTAAAT
* * *
23969 TTGTATCGATACACATAATATGTATCGATACA
1 TTGTATCAATACACACAAAATGTATCGATACA
*
24001 TTGTATCAATACATCACAAAATGTATCGATATA
1 TTGTATCAATACA-CACAAAATGTATCGATACA
24034 TTG
1 TTG
24037 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 12 0.39
33 19 0.61
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (32 bp):
TTGTATCAATACACACAAAATGTATCGATACA
Found at i:29975 original size:8 final size:8
Alignment explanation
Indices: 29962--29987 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
29952 ATTTGATTAA
29962 ATTTTGTG
1 ATTTTGTG
29970 ATTTTGTG
1 ATTTTGTG
29978 ATTTTGTG
1 ATTTTGTG
29986 AT
1 AT
29988 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:30184 original size:47 final size:50
Alignment explanation
Indices: 30096--30191 Score: 128
Period size: 47 Copynumber: 2.0 Consensus size: 50
30086 GGGTCAAATT
*
30096 CTGGAAAAATTCCAGAATGTATCGATACAGGTTCAAATGTATCGATACAA
1 CTGGAAAAATTCCAGAATGTATCGATACAGATTCAAATGTATCGATACAA
**
30146 CTGG-AAAATT-CAGAA-GTATCGATACAGCATTC-TCTGTATCGATACA
1 CTGGAAAAATTCCAGAATGTATCGATACAG-ATTCAAATGTATCGATACA
30192 TTATATCGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 24 0.57
48 8 0.19
49 6 0.14
50 4 0.10
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (50 bp):
CTGGAAAAATTCCAGAATGTATCGATACAGATTCAAATGTATCGATACAA
Found at i:32151 original size:21 final size:22
Alignment explanation
Indices: 32111--32155 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
32101 TGAAATTGTT
32111 AAATTATTTTATTAAGGGGGAG
1 AAATTATTTTATTAAGGGGGAG
32133 AAATT-TTTTGATTAAGGGGGAG
1 AAATTATTTT-ATTAAGGGGGAG
32155 A
1 A
32156 GAAAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (22 bp):
AAATTATTTTATTAAGGGGGAG
Found at i:32728 original size:13 final size:13
Alignment explanation
Indices: 32710--32735 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32700 AAATTGCACA
32710 GTATCGATACATT
1 GTATCGATACATT
32723 GTATCGATACATT
1 GTATCGATACATT
32736 ACTAAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:32747 original size:20 final size:21
Alignment explanation
Indices: 32722--32773 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
32712 ATCGATACAT
**
32722 TGTATCGATACATT-ACTAAA
1 TGTATCGATACATTGAAAAAA
32742 TGTATCGATAC-TTGAAAAAA
1 TGTATCGATACATTGAAAAAA
32762 TGTATCGATACA
1 TGTATCGATACA
32774 AGTCATTGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATTGAAAAAA
Found at i:32843 original size:13 final size:13
Alignment explanation
Indices: 32825--32850 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32815 ACACACAATA
32825 TGTATCGATACAT
1 TGTATCGATACAT
32838 TGTATCGATACAT
1 TGTATCGATACAT
32851 CACAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:32861 original size:33 final size:32
Alignment explanation
Indices: 32805--32872 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
32795 GTAGCTAAAT
*
32805 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
32837 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
32870 TTG
1 TTG
32873 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:37318 original size:13 final size:13
Alignment explanation
Indices: 37300--37324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37290 CATTTTATGG
37300 TGTATCGATACAA
1 TGTATCGATACAA
37313 TGTATCGATACA
1 TGTATCGATACA
37325 TACTTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:37340 original size:32 final size:33
Alignment explanation
Indices: 37277--37344 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
37267 CGTTACAAGC
*
37277 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATCTTATGGTGTATCGATA
37310 CAATGTATCGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCGATA
37342 CAA
1 CAA
37345 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 17 0.52
34 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATCTTATGGTGTATCGATA
Found at i:39402 original size:21 final size:20
Alignment explanation
Indices: 39373--39415 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
39363 AGCTAGTGTG
* *
39373 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
39394 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
39414 GG
1 GG
39416 TGGGTGCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:39876 original size:13 final size:13
Alignment explanation
Indices: 39858--39889 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
39848 ATAATCCCCC
*
39858 TGTATCGATACAG
1 TGTATCGATACAA
39871 TGTATCGATACAA
1 TGTATCGATACAA
39884 TGTATC
1 TGTATC
39890 AATATGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:46111 original size:13 final size:13
Alignment explanation
Indices: 46093--46117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46083 CATTTTATGG
46093 TGTATCGATACAA
1 TGTATCGATACAA
46106 TGTATCGATACA
1 TGTATCGATACA
46118 TACTTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:46133 original size:32 final size:33
Alignment explanation
Indices: 46071--46137 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
46061 GTTGCAAGCT
*
46071 AATGTATCGATACATTTTATGGTGTATCGATAC
1 AATGTATCGATACATCTTATGGTGTATCGATAC
46104 AATGTATCGATACATACTT-T-GTGTATCGATAC
1 AATGTATCGATACAT-CTTATGGTGTATCGATAC
46136 AA
1 AA
46138 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.44
33 16 0.50
34 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (33 bp):
AATGTATCGATACATCTTATGGTGTATCGATAC
Found at i:46248 original size:13 final size:13
Alignment explanation
Indices: 46230--46256 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46220 CTTTTAAACG
46230 TGTATCGATACAA
1 TGTATCGATACAA
46243 TGTATCGATACAA
1 TGTATCGATACAA
46256 T
1 T
46257 CATTTTAAGC
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:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:48394 original size:13 final size:13
Alignment explanation
Indices: 48376--48400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48366 AACTCACTTA
48376 GTATCGATACATT
1 GTATCGATACATT
48389 GTATCGATACAT
1 GTATCGATACAT
48401 GATGAATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:48411 original size:20 final size:20
Alignment explanation
Indices: 48381--48440 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
48371 ACTTAGTATC
*
48381 GATACATTGTATCGATACAT
1 GATAAATTGTATCGATACAT
*
48401 GATGAATTGTATCGATACAT
1 GATAAATTGTATCGATACAT
* *
48421 GGTAAAATGTATCGATACAT
1 GATAAATTGTATCGATACAT
48441 TGAGCCCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
GATAAATTGTATCGATACAT
Found at i:50010 original size:13 final size:13
Alignment explanation
Indices: 49992--50017 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49982 ACACATCTAG
49992 ATGTATCGATACA
1 ATGTATCGATACA
50005 ATGTATCGATACA
1 ATGTATCGATACA
50018 TGCTCATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:50030 original size:19 final size:20
Alignment explanation
Indices: 50006--50058 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
49996 ATCGATACAA
50006 TGTATCGATACATGCTC-AT
1 TGTATCGATACATGCTCAAT
*
50025 TGTATCGATACATACTCAAT
1 TGTATCGATACATGCTCAAT
50045 TGTATCGATACATG
1 TGTATCGATACATG
50059 AAACTGACAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:50104 original size:42 final size:42
Alignment explanation
Indices: 50045--50139 Score: 181
Period size: 42 Copynumber: 2.3 Consensus size: 42
50035 CATACTCAAT
50045 TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
1 TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
50087 TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
1 TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
*
50129 TGTATCAATAC
1 TGTATCGATAC
50140 GTGGGACATT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (42 bp):
TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
Found at i:50192 original size:33 final size:33
Alignment explanation
Indices: 50127--50193 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
50117 CCCTAAGTGA
* * **
50127 AATGTATCAATACGTGGGACATTGTATCGATAC
1 AATGTATCAATACATGGGAAAAAGTATCGATAC
* *
50160 AATGTATCAATACATGGTAAAAAGTATTGATAC
1 AATGTATCAATACATGGGAAAAAGTATCGATAC
50193 A
1 A
50194 TTGTGCCTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (33 bp):
AATGTATCAATACATGGGAAAAAGTATCGATAC
Found at i:51478 original size:10 final size:10
Alignment explanation
Indices: 51459--51489 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
51449 GTATCGATAC
51459 ATGAACAGTG
1 ATGAACAGTG
*
51469 ATGAATAGTG
1 ATGAACAGTG
51479 ATGAACAGTG
1 ATGAACAGTG
51489 A
1 A
51490 AATGAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:51576 original size:53 final size:53
Alignment explanation
Indices: 51512--51648 Score: 213
Period size: 53 Copynumber: 2.6 Consensus size: 53
51502 CTACTACCAA
*
51512 TGTATCGATACATATTTTGTATATCGATACAAATTTGGCTACTG-CAAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAA-TGACC
* *
51565 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
51618 TGTATCAATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
51649 TATGCAATCT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
53 61 0.79
54 16 0.21
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:51684 original size:21 final size:20
Alignment explanation
Indices: 51636--51690 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
51626 TACATATTTG
**
51636 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
51656 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
51677 TGTGTATCGATACT
1 TGTGTATCGATACT
51691 TTTCAGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:54152 original size:51 final size:51
Alignment explanation
Indices: 54085--54254 Score: 191
Period size: 51 Copynumber: 3.3 Consensus size: 51
54075 TCGAAAATAA
* * * * * *
54085 CGGGGTTGGAGTATCCCTGATTTTGGAAAATCGATGCTTTAGAAATAAGAC
1 CGGGGTTGGAGTATCCCTGATTGTGGAAAATTGGTGTTTTAGAAATAAAAT
* *
54136 CGGGGTTGGAGTATCCCCGATTGT-GAGAAATTGGTGTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCTGATTGTGGA-AAATTGGTGTTTTAGAAATAAAAT
** * *
54187 CGAAGTTGGAGTAT-CCTCGATTGTGAAAAATTGGTATTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCT-GATTGTGGAAAATTGGTGTTTTAGAAATAAAAT
*
54238 AGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
54255 CTCGGAAATA
Statistics
Matches: 98, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
50 4 0.04
51 91 0.93
52 3 0.03
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCTGATTGTGGAAAATTGGTGTTTTAGAAATAAAAT
Found at i:54274 original size:28 final size:28
Alignment explanation
Indices: 54240--54313 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
54230 AATAAAATAG
**
54240 GGGTTGGAGTATCCCCTCGGAAATAAC-
1 GGGTTGGAGTATCCCCGAGGAAATAACA
*
54267 GGGATTGGAGTATCCCCGATGAAATAACA
1 GGG-TTGGAGTATCCCCGAGGAAATAACA
*
54296 GGGTTGGAGTACCCCCGA
1 GGGTTGGAGTATCCCCGA
54314 TTATGAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
27 3 0.07
28 35 0.85
29 3 0.07
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGAGGAAATAACA
Found at i:54443 original size:51 final size:51
Alignment explanation
Indices: 54384--54544 Score: 157
Period size: 51 Copynumber: 3.2 Consensus size: 51
54374 AATGGGGTTA
**
54384 GAGTATCCCTAATTGTGAAAAATT-AGTGTTTTGGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTGTGAAAAATTGA-TGTTTTGGAAATAAAATCGGAGTTG
* * * * *
54435 GAGTATCCCCGATTGCTG-TAAATCGATGCTTTAGAAATAAAATCGGAATTG
1 GAGTATCCCCGATTG-TGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTG
* ** * *
54486 GAGTCTCCCCGATTAAGAAAAATTGATGTTTTGGACATGAAATCGG-GATTG
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAG-TTG
*
54537 TAGTATCC
1 GAGTATCC
54545 TCAAGATGAA
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
50 1 0.01
51 83 0.95
52 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTG
Found at i:56898 original size:13 final size:13
Alignment explanation
Indices: 56880--56909 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
56870 GTAAATCCAA
*
56880 AATGTATCGATAT
1 AATGTATCGATAC
56893 AATGTATCGATAC
1 AATGTATCGATAC
56906 AATG
1 AATG
56910 AGCAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:56918 original size:20 final size:20
Alignment explanation
Indices: 56893--56967 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
56883 GTATCGATAT
*
56893 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAAC
* *
56913 AATGTATCTATATAATGAAC
1 AATGTATCGATACAATGAAC
* *
56933 AATGTATCTATATAATGAAC
1 AATGTATCGATACAATGAAC
56953 AATGTATCGATACAA
1 AATGTATCGATACAA
56968 ATTGTGAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:59735 original size:49 final size:48
Alignment explanation
Indices: 59679--59810 Score: 194
Period size: 49 Copynumber: 2.7 Consensus size: 48
59669 AAAAAACCTA
*
59679 AATGTATCGATA-AATTGTAAAATGTATCGATACATCTGGGTAAATCCAG
1 AATGTATCGATACAA-TG-AAAATGTATCGATACATCTGGGTAAACCCAG
*
59728 AATGTATCGATACAATGCAAAATGTATCGATACATTTGGGTAAACCCAG
1 AATGTATCGATACAATG-AAAATGTATCGATACATCTGGGTAAACCCAG
*
59777 AATGTATCGATACAATGAATAATGTATAGATACA
1 AATGTATCGATACAATGAA-AATGTATCGATACA
59811 AATTGTGAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
48 2 0.03
49 73 0.95
50 2 0.03
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (48 bp):
AATGTATCGATACAATGAAAATGTATCGATACATCTGGGTAAACCCAG
Found at i:60816 original size:55 final size:55
Alignment explanation
Indices: 60665--60917 Score: 335
Period size: 55 Copynumber: 4.5 Consensus size: 55
60655 GAGAAAAGGA
* * *
60665 AAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACTAACTCGTGTGGGCTTTG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG
** *
60720 AAAAGAAAAGACGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG
1 -AAAG----G-CGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG
* *
60781 AAAGGCGTCCTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG
* * *
60836 AAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG
* *
60891 AAAGGCATCCTGCTCTTTCAGGACTAA
1 AAAGGCGTCCTGCTCTTTGAGGACTAA
60918 TGGGTGAAAG
Statistics
Matches: 172, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
55 118 0.69
56 5 0.03
60 5 0.03
61 44 0.26
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (55 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG
Found at i:60891 original size:110 final size:113
Alignment explanation
Indices: 60665--60917 Score: 386
Period size: 110 Copynumber: 2.2 Consensus size: 113
60655 GAGAAAAGGA
* *
60665 AAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAG
1 AAAGGCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTCGTGTGGGCTTTGAAAAG---AG
*
60730 ACGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG
63 ACGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
* * * *
60781 AAAGGCGTCCTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-G-TG
1 AAAGGCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGAGACG
60843 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
66 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
*
60891 AAAGGCATCCTGCTCTTTCAGGACTAA
1 AAAGGCATCCTGCTCTTTGAGGACTAA
60918 TGGGTGAAAG
Statistics
Matches: 127, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
110 72 0.57
111 1 0.01
115 4 0.03
116 50 0.39
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (113 bp):
AAAGGCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGAGACG
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
Found at i:64320 original size:20 final size:20
Alignment explanation
Indices: 64297--64345 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
64287 AAATTGCACC
*
64297 GTATCGATACATGACTAAAT
1 GTATCGATACATGAATAAAT
*
64317 GTATCGATACTTGAATAAAT
1 GTATCGATACATGAATAAAT
64337 GTATCGATA
1 GTATCGATA
64346 TAGGTCATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGAATAAAT
Found at i:64440 original size:33 final size:32
Alignment explanation
Indices: 64379--64446 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
64369 GTAGCTAAAT
* * *
64379 TTGTATCGATACACATAATATGTATCGATACA
1 TTGTATCAATACACACAAAATGTATCGATACA
*
64411 TTGTATCAATACATCACAAAATGTATCGATATA
1 TTGTATCAATACA-CACAAAATGTATCGATACA
64444 TTG
1 TTG
64447 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 12 0.39
33 19 0.61
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (32 bp):
TTGTATCAATACACACAAAATGTATCGATACA
Found at i:69082 original size:33 final size:33
Alignment explanation
Indices: 69045--69114 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
69035 TTCAACGATT
69045 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
69078 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
69111 TGTA
1 TGTA
69115 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:69083 original size:13 final size:13
Alignment explanation
Indices: 69065--69089 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69055 CATAAAATGT
69065 TGTATCGATACAA
1 TGTATCGATACAA
69078 TGTATCGATACA
1 TGTATCGATACA
69090 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:69174 original size:13 final size:13
Alignment explanation
Indices: 69156--69180 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69146 ATTACTCACA
69156 TGTATCGATACAT
1 TGTATCGATACAT
69169 TGTATCGATACA
1 TGTATCGATACA
69181 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:69245 original size:52 final size:52
Alignment explanation
Indices: 69189--69309 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
69179 CACTGATCTT
*
69189 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
69241 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
69293 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
69310 TAACTCTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:72666 original size:684 final size:683
Alignment explanation
Indices: 71721--73083 Score: 2431
Period size: 684 Copynumber: 2.0 Consensus size: 683
71711 TTCATTGTCG
*
71721 TATTAACATGTTTCTTTTATGTTAATCTTGACGGCATTCATATTTTAAAATTGGTTTACAAAAAC
1 TATTAACATGTTTCTTTTATGTTAATCTTGACGGCATTCATATTTTAAAACTGGTTTACAAAAAC
* * *
71786 CGTAAGGCAATGTTCCGTGTCGGTATCTCTCCCGTGCTGGACACGGAATATCCAGTTTTCAAAGT
66 CGTAAGGCAATATTCCGTGTCGGTATCTCTCCAGTGCTGGACACGGAATATCAAGTTTTCAAAGT
* * *
71851 GAAATCTAGAGAGCGTTTTATGTCTTTATGTTCCCTAGCTCTCCGGGGCGCATATGAGATGAAAA
131 GAAATCTAGAGAGCATTTTATATCTCTATGTTCCCTAGCTCTCCGGGGCGCATATGAGATGAAAA
* * * *
71916 CGATTGTCAAAAACCTAGATTTCTTTTTACATAAAATTCATACATTCAAAGGGGATCATATCGAA
196 CGATTGTCAAAAACCTAGATTTCCTTTTACACAAAATGCATACATTCAAAAGGGATCATATCGAA
* * *
71981 ATAATGATAAATCGAAATCAATGCAACCAATATTGAGTCAAAACGTTGCTAGTAAGGTACCGATT
261 ATAATGAAAAATCGAAATCAATGCAACCAACATCGAGTCAAAACGTTGCTAGTAAGGTACCGATT
72046 TCGGGCGTCGCGAGGAGGTTCGTACCTCTTTGCGCGTAACCAACTCCCGAACCCAACCGGCGAAT
326 TCGGGCGTCGCGAGGAGGTTCGTACCTCTTTGCGCGTAACCAACTCCCGAACCCAACCGGCGAAT
* *
72111 CTCTAAAGTACGCAGACCACGGGATCGATGTTTTGAGTTTTGTAACTCAAGACATAGGTTTCAAT
391 CTCTAAAGTACGCAGACCACGGGATCAATGTTTTGAGTTTCGTAACTCAAGACATAGGTTTCAAT
72176 AGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCAAAATTTCGGTCACTTCGTAG
456 AGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCAAAATTTCGGTCACTTCGTAG
* * *
72241 TGACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGGTCTTCCCCCGTTAATCAACATATT
521 TGACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCGTTAATCAACACACT
* *
72306 TCCCATCATGCCATAAAAATCCCCAATCGTGAGGGATATTAAGTCGAGCGTGCCTCATTTGCCCT
586 TCCCATCATACCATAAAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGTGCCTCATTTGCCCT
72371 ATCGCCGGGGTCGAGCGCACGTTACGACAGTCA
651 ATCGCCGGGGTCGAGCGCACGTTACGACAGTCA
72404 TATTAACATGTTTCTTTTATGTTAATCTTGACGGCATTCATATTTTAAAACTGGTTTACAAAAAA
1 TATTAACATGTTTCTTTTATGTTAATCTTGACGGCATTCATATTTTAAAACTGGTTTAC-AAAAA
72469 CCGTAAGGCAATATTCCGTGTCGGTATCTCTCCAGTGCTGGACACGGAATATCAAGTTTTCAAAG
65 CCGTAAGGCAATATTCCGTGTCGGTATCTCTCCAGTGCTGGACACGGAATATCAAGTTTTCAAAG
72534 TGAAATCTAGAGAGCATTTTATATCTCTATGTTTCCC-AGCTCTCCGGGGCGCATATGAGATGAA
130 TGAAATCTAGAGAGCATTTTATATCTCTATG-TTCCCTAGCTCTCCGGGGCGCATATGAGATGAA
* *
72598 AATGATTGTCAAAAACCTAGATTTCCTTTTACCCAAAATGCATACATTCAAAAGGGATCATATCG
194 AACGATTGTCAAAAACCTAGATTTCCTTTTACACAAAATGCATACATTCAAAAGGGATCATATCG
* *
72663 AAATAATGAAAAATCGAAATCAATGTAACCAACATCGAGTCAAAACGTTGCTGGTAAGGTACCGA
259 AAATAATGAAAAATCGAAATCAATGCAACCAACATCGAGTCAAAACGTTGCTAGTAAGGTACCGA
72728 TTTCGGGCGTCGCGAGGAGGTTCGTACCTCTTTGCGCGTAACCAACTCCCGAACCCAACCGGCGA
324 TTTCGGGCGTCGCGAGGAGGTTCGTACCTCTTTGCGCGTAACCAACTCCCGAACCCAACCGGCGA
72793 ATCTCTAAAGTACGCAGACCACGGGATCAATGTTTTGAGTTTCGTAACTCAAGACATAGGTTTCA
389 ATCTCTAAAGTACGCAGACCACGGGATCAATGTTTTGAGTTTCGTAACTCAAGACATAGGTTTCA
*
72858 ATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCTAAAATTTCGGTCACTTCGT
454 ATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCAAAATTTCGGTCACTTCGT
* *
72923 AGTGACCATTGAAGATCACTTAGATGGGCGATTCATCTACTGATCTTCCCCCTTTAATCAACACA
519 AGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCGTTAATCAACACA
* *
72988 CTTCCCATCATACCATAGAAATCCCCATTCGCGAGGGATATTAAGTCGAGCGTGCCTCATTTGCC
584 CTTCCCATCATACCATAAAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGTGCCTCATTTGCC
73053 CTATCGCCGGGGTCGAGCGCACGTTACGACA
649 CTATCGCCGGGGTCGAGCGCACGTTACGACA
73084 ACCATGCTTT
Statistics
Matches: 648, Mismatches: 30, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
683 58 0.09
684 585 0.90
685 5 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (683 bp):
TATTAACATGTTTCTTTTATGTTAATCTTGACGGCATTCATATTTTAAAACTGGTTTACAAAAAC
CGTAAGGCAATATTCCGTGTCGGTATCTCTCCAGTGCTGGACACGGAATATCAAGTTTTCAAAGT
GAAATCTAGAGAGCATTTTATATCTCTATGTTCCCTAGCTCTCCGGGGCGCATATGAGATGAAAA
CGATTGTCAAAAACCTAGATTTCCTTTTACACAAAATGCATACATTCAAAAGGGATCATATCGAA
ATAATGAAAAATCGAAATCAATGCAACCAACATCGAGTCAAAACGTTGCTAGTAAGGTACCGATT
TCGGGCGTCGCGAGGAGGTTCGTACCTCTTTGCGCGTAACCAACTCCCGAACCCAACCGGCGAAT
CTCTAAAGTACGCAGACCACGGGATCAATGTTTTGAGTTTCGTAACTCAAGACATAGGTTTCAAT
AGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCAAAATTTCGGTCACTTCGTAG
TGACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCGTTAATCAACACACT
TCCCATCATACCATAAAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGTGCCTCATTTGCCCT
ATCGCCGGGGTCGAGCGCACGTTACGACAGTCA
Found at i:75648 original size:47 final size:50
Alignment explanation
Indices: 75560--75655 Score: 128
Period size: 47 Copynumber: 2.0 Consensus size: 50
75550 GGGTCAAATT
*
75560 CTGGAAAAATTCCAGAATGTATCGATACAGGTTCAAATGTATCGATACAA
1 CTGGAAAAATTCCAGAATGTATCGATACAGATTCAAATGTATCGATACAA
**
75610 CTGG-AAAATT-CAGAA-GTATCGATACAGCATTC-TCTGTATCGATACA
1 CTGGAAAAATTCCAGAATGTATCGATACAG-ATTCAAATGTATCGATACA
75656 TTATATCGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 24 0.57
48 8 0.19
49 6 0.14
50 4 0.10
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (50 bp):
CTGGAAAAATTCCAGAATGTATCGATACAGATTCAAATGTATCGATACAA
Found at i:76141 original size:21 final size:20
Alignment explanation
Indices: 76115--76166 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
76105 CCCTTAGGCA
*
76115 GCACCCACCAGGTCGCGACCG
1 GCACCC-CCAGGTCGCAACCG
*
76136 GCACCCTCAGGTCGCAACCGG
1 GCACCCCCAGGTCGCAACC-G
76157 GCAGCCCCCA
1 GCA-CCCCCA
76167 CACTAGCAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 11 0.42
21 10 0.38
22 5 0.19
ACGTcount: A:0.19, C:0.48, G:0.27, T:0.06
Consensus pattern (20 bp):
GCACCCCCAGGTCGCAACCG
Found at i:77613 original size:21 final size:22
Alignment explanation
Indices: 77575--77619 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
77565 TGAAATTGTT
77575 AAATTATTTTATTAAAGGGGAG
1 AAATTATTTTATTAAAGGGGAG
*
77597 AAATT-TTTTGATTAAGGGGGAG
1 AAATTATTTT-ATTAAAGGGGAG
77619 A
1 A
77620 GAAAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.38, C:0.00, G:0.27, T:0.36
Consensus pattern (22 bp):
AAATTATTTTATTAAAGGGGAG
Found at i:78192 original size:13 final size:13
Alignment explanation
Indices: 78174--78198 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78164 AAATTGCACA
78174 GTATCGATACATT
1 GTATCGATACATT
78187 GTATCGATACAT
1 GTATCGATACAT
78199 GACTAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:78211 original size:20 final size:20
Alignment explanation
Indices: 78186--78237 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
78176 ATCGATACAT
**
78186 TGTATCGATACATGACTAAA
1 TGTATCGATACATGAAAAAA
*
78206 TGTATCGATACTTGAAAAAA
1 TGTATCGATACATGAAAAAA
78226 TGTATCGATACA
1 TGTATCGATACA
78238 AGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGAAAAAA
Found at i:78307 original size:13 final size:13
Alignment explanation
Indices: 78289--78314 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78279 ACACACAATA
78289 TGTATCGATACAT
1 TGTATCGATACAT
78302 TGTATCGATACAT
1 TGTATCGATACAT
78315 CACAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:78325 original size:33 final size:32
Alignment explanation
Indices: 78269--78336 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
78259 GTAGCTAAAT
*
78269 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
78301 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
78334 TTG
1 TTG
78337 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:82786 original size:19 final size:20
Alignment explanation
Indices: 82743--82793 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
82733 TACAAGCCAA
*
82743 TGTATCGATACATTTTATGG
1 TGTATCGATACATCTTATGG
82763 TGTATCGATACATACTT-T-G
1 TGTATCGATACAT-CTTATGG
82782 TGTATCGATACA
1 TGTATCGATACA
82794 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.45
20 14 0.48
21 2 0.07
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATCTTATGG
Found at i:85326 original size:13 final size:13
Alignment explanation
Indices: 85308--85346 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
85298 ATAATCCCCC
*
85308 TGTATCGATACAG
1 TGTATCGATACAA
85321 TGTATCGATACAA
1 TGTATCGATACAA
85334 TGTATCGATACAA
1 TGTATCGATACAA
85347 AGAATAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:91512 original size:13 final size:13
Alignment explanation
Indices: 91494--91518 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91484 TATTTGATGG
91494 TGTATCGATACAA
1 TGTATCGATACAA
91507 TGTATCGATACA
1 TGTATCGATACA
91519 TACTTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:93871 original size:13 final size:13
Alignment explanation
Indices: 93853--93877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93843 AACTCACTTA
93853 GTATCGATACATT
1 GTATCGATACATT
93866 GTATCGATACAT
1 GTATCGATACAT
93878 GATGAATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:93888 original size:20 final size:20
Alignment explanation
Indices: 93858--93917 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
93848 ACTTAGTATC
*
93858 GATACATTGTATCGATACAT
1 GATAAATTGTATCGATACAT
*
93878 GATGAATTGTATCGATACAT
1 GATAAATTGTATCGATACAT
* *
93898 GGTAAAATGTATCGATACAT
1 GATAAATTGTATCGATACAT
93918 TGACCAACGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
GATAAATTGTATCGATACAT
Found at i:95509 original size:19 final size:20
Alignment explanation
Indices: 95481--95535 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 20
95471 ATCGATACAA
*
95481 TGTATTGATACATGCTC-AT
1 TGTATCGATACATGCTCAAT
*
95500 TGTATCGATACAATACTCAAT
1 TGTATCGATAC-ATGCTCAAT
95521 TGTATCCGATACATG
1 TGTAT-CGATACATG
95536 AAACTGACAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 10 0.33
20 5 0.17
21 9 0.30
22 6 0.20
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:95588 original size:41 final size:42
Alignment explanation
Indices: 95521--95615 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 42
95511 AATACTCAAT
95521 TGTATCCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
1 TGTAT-CGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
95564 TGTATCGATACATG-AACTGACAGTAGCTACCCTAAGTGAAA
1 TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
*
95605 TGTATCAATAC
1 TGTATCGATAC
95616 GTGGGACATT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 37 0.73
42 9 0.18
43 5 0.10
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (42 bp):
TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
Found at i:96951 original size:10 final size:10
Alignment explanation
Indices: 96932--96962 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
96922 GTATCGATAC
96932 ATGAACAGTG
1 ATGAACAGTG
*
96942 ATGAATAGTG
1 ATGAACAGTG
96952 ATGAACAGTG
1 ATGAACAGTG
96962 A
1 A
96963 GATGAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:97048 original size:52 final size:52
Alignment explanation
Indices: 96985--97119 Score: 182
Period size: 52 Copynumber: 2.6 Consensus size: 52
96975 CTACTACCAA
* * *
96985 TGTATCGATACATATTTTGTATATCGATACAAGTTTGGCTACTG-CAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAA-ATTGGCTACTGCCAATGACC
* *
97037 TGTATCGATACATATTGTGTGTATCGATACAAATTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTGGCTACTGCCAATGACC
* *
97089 TATATCAATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
97120 TATGCAATCT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
51 10 0.14
52 50 0.68
53 13 0.18
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (52 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTGGCTACTGCCAATGACC
Found at i:97155 original size:21 final size:20
Alignment explanation
Indices: 97107--97161 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
97097 TACATATTTG
**
97107 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
97127 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
97148 TGTGTATCGATACT
1 TGTGTATCGATACT
97162 TTTCAGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:99638 original size:50 final size:50
Alignment explanation
Indices: 99545--99712 Score: 176
Period size: 51 Copynumber: 3.3 Consensus size: 50
99535 GAAAATAATG
* * * * * * *
99545 GGGTTGGAGTATCCCTGATTTTG-GAAAATCGATGCTTTAGAAATAAGACC
1 GGGTTGGAGTATCCCCGATTGTGAG-AAATTGGTGTTTTAGAAATAAAAAC
* *
99595 GGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAATC
1 GGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTAGAAATAAAAAC
* * * * *
99645 GAAGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTAGAAATAAAATAG
1 G-GGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTAGAAATAAAA-AC
99697 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
99713 TCGGAAATAA
Statistics
Matches: 98, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 41 0.42
51 56 0.57
52 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.31
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTAGAAATAAAAAC
Found at i:99731 original size:28 final size:27
Alignment explanation
Indices: 99697--99769 Score: 101
Period size: 28 Copynumber: 2.7 Consensus size: 27
99687 AATAAAATAG
**
99697 GGGTTGGAGTATCCCCTCGGAAATAAC
1 GGGTTGGAGTATCCCCGAGGAAATAAC
*
99724 GGGATTGGAGTATCCCCGATGAAATAAC
1 GGG-TTGGAGTATCCCCGAGGAAATAAC
*
99752 GGGTTGGAGTACCCCCGA
1 GGGTTGGAGTATCCCCGA
99770 TTATGAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 17 0.41
28 24 0.59
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.21
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGAGGAAATAAC
Found at i:99767 original size:27 final size:27
Alignment explanation
Indices: 99697--99770 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
99687 AATAAAATAG
99697 GGGTTGGAGTATCCCCTCG--GAAATAAC
1 GGGTTGGAGTA-CCCC-CGATGAAATAAC
*
99724 GGGATTGGAGTATCCCCGATGAAATAAC
1 GGG-TTGGAGTACCCCCGATGAAATAAC
99752 GGGTTGGAGTACCCCCGAT
1 GGGTTGGAGTACCCCCGAT
99771 TATGAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 2 0.05
27 21 0.50
28 19 0.45
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (27 bp):
GGGTTGGAGTACCCCCGATGAAATAAC
Found at i:99899 original size:51 final size:51
Alignment explanation
Indices: 99840--100000 Score: 157
Period size: 51 Copynumber: 3.2 Consensus size: 51
99830 AATGGGGTTA
**
99840 GAGTATCCCTAATTGTGAAAAATT-AGTGTTTTGGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTGTGAAAAATTGA-TGTTTTGGAAATAAAATCGGAGTTG
* * * * *
99891 GAGTATCCCCGATTGCTG-TAAATCGATGCTTTAGAAATAAAATCGGAATTG
1 GAGTATCCCCGATTG-TGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTG
* ** * *
99942 GAGTCTCCCCGATTAAGAAAAATTGATGTTTTGGACATGAAATCGG-GATTG
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAG-TTG
*
99993 TAGTATCC
1 GAGTATCC
100001 TCAAGATGAA
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
50 1 0.01
51 83 0.95
52 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTG
Done.