Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012047.1 Corchorus olitorius cultivar O-4 contig12080, 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: 52847
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:3799 original size:69 final size:69
Alignment explanation
Indices: 3724--3857 Score: 232
Period size: 69 Copynumber: 1.9 Consensus size: 69
3714 AAGTGCCAAA
3724 TGCTTGGATGGAACCAAACCTTAAACTGACTCATATGAAAACGAGTTTGGCTTGCAGAAAAGCCC
1 TGCTTGGATGGAACCAAACCTTAAACTGACTCATATGAAAACGAGTTTGGCTTGCAGAAAAGCCC
3789 TTGC
66 TTGC
* * * *
3793 TGCTTGGATGGAACCAAGCCTTAAACTGACTCGTTTGAAAACGAGTTTGGCTTGCGGAAAAGCCC
1 TGCTTGGATGGAACCAAACCTTAAACTGACTCATATGAAAACGAGTTTGGCTTGCAGAAAAGCCC
3858 CTTGATCGGT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (69 bp):
TGCTTGGATGGAACCAAACCTTAAACTGACTCATATGAAAACGAGTTTGGCTTGCAGAAAAGCCC
TTGC
Found at i:6609 original size:69 final size:69
Alignment explanation
Indices: 6474--6680 Score: 281
Period size: 68 Copynumber: 3.0 Consensus size: 69
6464 GGCTCGATCA
* * * * *
6474 CCCCTGCTGCTTGGATGGAACCAAGGCTTAAAACCGACTCGTATGGAAACGAGCTTGGCTTGTGG
1 CCCCTACTGCCTGGATGGAACCAAGGCTT-AAACTGACTCGTATGGAAACGAGTTTGGCTTATGG
6539 AAAAG
65 AAAAG
* * * * *
6544 CCCCTACTGCCTGGATGTAGCCAAGGCTTAAACTGCCTCGTATGGAAATGAGTTTGGCTTCTGGA
1 CCCCTACTGCCTGGATGGAACCAAGGCTTAAACTGACTCGTATGGAAACGAGTTTGGCTTATGGA
6609 AAA-
66 AAAG
* * *
6612 CCCCTACTGCCTGGATGGAACCAAGGTTTAAACTGACTCGTATGGAAACAAGTTTGACTTATGGA
1 CCCCTACTGCCTGGATGGAACCAAGGCTTAAACTGACTCGTATGGAAACGAGTTTGGCTTATGGA
6677 AAAG
66 AAAG
6681 TCAAAGCATT
Statistics
Matches: 119, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
68 60 0.50
69 34 0.29
70 25 0.21
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (69 bp):
CCCCTACTGCCTGGATGGAACCAAGGCTTAAACTGACTCGTATGGAAACGAGTTTGGCTTATGGA
AAAG
Found at i:8250 original size:17 final size:17
Alignment explanation
Indices: 8230--8264 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8220 TCATTCCATC
8230 TTTTCTATTTTT-CTTCT
1 TTTTC-ATTTTTCCTTCT
8247 TTTTCATTTTTCCTTCT
1 TTTTCATTTTTCCTTCT
8264 T
1 T
8265 ATCAAAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCATTTTTCCTTCT
Found at i:11393 original size:14 final size:13
Alignment explanation
Indices: 11356--11392 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
11346 TGAAAGCTCA
*
11356 TTTTTGAAAACCT
1 TTTTTGAAAACAT
11369 TTTCTTGAAAACAT
1 TTT-TTGAAAACAT
11383 TTTTTGAAAA
1 TTTTTGAAAA
11393 AATGTCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (13 bp):
TTTTTGAAAACAT
Found at i:13274 original size:41 final size:41
Alignment explanation
Indices: 13217--14144 Score: 956
Period size: 41 Copynumber: 23.0 Consensus size: 41
13207 GGAATAAGAT
* *
13217 AAGTAAACAACACCTTCCAGTGGGGAAGGGCAAACTAGGAA
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
*
13258 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAAAC-AGGAA
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGC-AAACTGGGAA
* * *
13299 TAA--AGACAACGCCTTCCGGTGGGGAAAGGCAAACTGGGAA
1 -AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
*
13339 AAGTAAACAACACCTTCC-ATGAGGGAAGGGCAAACTGGGAA
1 AAGTAAACAACACCTTCCGGTG-GGGAAGGGCAAACTGGGAA
* *
13380 ATGTAAACAACACCTTCCGGTGGGGAAGGGCAAATTGGG-A
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
* * * *
13420 ATGAAAACAACACCTTCTGGTGGGGAAGGGCAAACTTGGAA
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
* **
13461 AAGTAAACAACACATTCCGGTGGGGAAGGGCAAGTTGGGAA
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
* * * *
13502 TAA--AAACAACACCGTCTGGTGGGGAAGAGCAAACTGGGATT
1 -AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGA-A
* *
13543 AA--AAGCAACACCTTCCGGTGGGGAAGGACAAACTGGGAA
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
* * * * *
13582 AAGTAAACAACACCTTCCAGTGGGGAAGGACGAATTGAGAA
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
* * **
13623 AAGTAAACAACACCTTCTGGTGGGGAAGGGTAAGTTGGGAA
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
13664 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
* * * * * *
13705 AAATGAACAACACCTTTCGGTGCGAAAGGACAAACTGGG--
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
** * * *
13744 AA-TGGA-AACACCTTACGGTGGGAAAAGGCAAACTGGGAA
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
* * *
13783 AACTAAACAACACCTTCCAGTGGGGAAGGGCAAACTTGGAA
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
* *
13824 TAA--AAACAACACCTTCCGGTGGGGAAGAGCAAACTTGGAA
1 -AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
*
13864 TAA--AAACAACACCTTCCTGTGGGGAAGGGCAAAAC-GGGAA
1 -AAGTAAACAACACCTTCCGGTGGGGAAGGGC-AAACTGGGAA
* * *
13904 TAA--AAACGACATCTTCCGGTGGGGAAGGGCAAACTCGGAA
1 -AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
** * * *
13944 TAA--AAACAACACCTTCTAGTGGGAAATGGCAAAAC-GAGAA
1 -AAGTAAACAACACCTTCCGGTGGGGAAGGGC-AAACTGGGAA
13984 TAA--AAACAACACCTTCCGG-GGGGAAGGGCAAACTGGGGAA
1 -AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACT-GGGAA
*
14024 AAGTAAACAACACCTTCCAGTGGGGAAGGGCAAACTGGGGAA
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACT-GGGAA
* * * * *
14066 AA-TAACCAACACCTTTCGGTGGGGAAGGCCCAACTTGGAA
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
* * *
14106 ATGTAAACAACACCTTCCAGTGAGGAAGGGCAAACTGGG
1 AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGG
14145 TGATTAAATG
Statistics
Matches: 754, Mismatches: 107, Indels: 52
0.83 0.12 0.06
Matches are distributed among these distances:
37 27 0.04
38 7 0.01
39 26 0.03
40 282 0.37
41 377 0.50
42 35 0.05
ACGTcount: A:0.38, C:0.19, G:0.29, T:0.14
Consensus pattern (41 bp):
AAGTAAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA
Found at i:13365 original size:81 final size:78
Alignment explanation
Indices: 13221--14144 Score: 844
Period size: 81 Copynumber: 11.4 Consensus size: 78
13211 TAAGATAAGT
* *
13221 AAACAACACCTTCCAGTGGGGAAGGGCAAACTAGGAAAAGTAAACAACACCTTCCGGTGGGGAAG
1 AAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAAAA-TAAACAACACCTTCC-GTGGGGAAG
*
13286 GGCAAAAC-AGGAATAA
64 GGC-AAACTGGGAA-AA
* * * *
13302 AGACAACGCCTTCCGGTGGGGAAAGGCAAACTGGGAAAAGTAAACAACACCTTCCATGAGGGAAG
1 AAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAAAA-TAAACAACACCTTCCGTG-GGGAAG
*
13367 GGCAAACTGGGAAATGT
64 GGCAAACTGGGAAA--A
* * *
13384 AAACAACACCTTCCGGTGGGGAAGGGCAAATTGGGAATGA-AAACAACACCTTCTGGTGGGGAAG
1 AAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA-AATAAACAACACCTTC-CGTGGGGAAG
*
13448 GGCAAACTTGGAAAA
64 GGCAAACTGGGAAAA
* ** * *
13463 GTAAACAACACATTCCGGTGGGGAAGGGCAAGTTGGGAATAA-AAACAACACCGTCTGGTGGGGA
1 --AAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA-AATAAACAACACCTTC-CGTGGGGA
* *
13527 AGAGCAAACTGGGATTAA
62 AGGGCAAACTGGGA-AAA
* *
13545 AAGCAACACCTTCCGGTGGGGAAGGACAAACTGGGAAAAGTAAACAACACCTTCCAGTGGGGAAG
1 AAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAAAA-TAAACAACACCTTCC-GTGGGGAAG
* * * *
13610 GACGAATTGAGAAAA
64 GGCAAACTGGGAAAA
* * **
13625 GTAAACAACACCTTCTGGTGGGGAAGGGTAAGTTGGGAAAAGTAAACAACACCTTCCGGTGGGGA
1 --AAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAAAA-TAAACAACACCTTCC-GTGGGGA
13690 AGGGCAAACTGGGAAAA
62 AGGGCAAACTGGGAAAA
* * * * ** * *
13707 ATGAACAACACCTTTCGGTGCGAAAGGACAAACTGGG--AATGGA-AACACCTTACGGTGGGAAA
1 A--AACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAAAATAAACAACACCTT-CCGTGGGGAA
*
13769 AGGCAAACTGGGAAAA
63 GGGCAAACTGGGAAAA
* *
13785 CTAAACAACACCTTCCAGTGGGGAAGGGCAAACTTGGAATAA-AAACAACACCTTCCGGTGGGGA
1 --AAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAA-AATAAACAACACCTTCC-GTGGGGA
* *
13849 AGAGCAAACTTGGAATAA
62 AGGGCAAACTGGGAA-AA
* * *
13867 AAACAACACCTTCCTGTGGGGAAGGGCAAAAC-GGGAATAA-AAACGACATCTTCCGGTGGGGAA
1 AAACAACACCTTCCGGTGGGGAAGGGC-AAACTGGGAA-AATAAACAACACCTTCC-GTGGGGAA
*
13930 GGGCAAACTCGGAATAA
63 GGGCAAACTGGGAA-AA
** * * * *
13947 AAACAACACCTTCTAGTGGGAAATGGCAAAAC-GAGAATAA-AAACAACACCTTCCGGGGGGAAG
1 AAACAACACCTTCCGGTGGGGAAGGGC-AAACTGGGAA-AATAAACAACACCTTCCGTGGGGAAG
14010 GGCAAACTGGGGAAAA
64 GGCAAACT-GGGAAAA
* * *
14026 GTAAACAACACCTTCCAGTGGGGAAGGGCAAACTGGGGAAAATAACCAACACCTTTCGGTGGGGA
1 --AAACAACACCTTCCGGTGGGGAAGGGCAAACT-GGGAAAATAAACAACACC-TTCCGTGGGGA
* * * *
14091 AGGCCCAACTTGGAAATGT
62 AGGGCAAACTGGGAAA--A
* *
14110 AAACAACACCTTCCAGTGAGGAAGGGCAAACTGGG
1 AAACAACACCTTCCGGTGGGGAAGGGCAAACTGGG
14145 TGATTAAATG
Statistics
Matches: 707, Mismatches: 101, Indels: 70
0.81 0.12 0.08
Matches are distributed among these distances:
78 58 0.08
79 23 0.03
80 171 0.24
81 254 0.36
82 183 0.26
83 18 0.03
ACGTcount: A:0.38, C:0.19, G:0.29, T:0.14
Consensus pattern (78 bp):
AAACAACACCTTCCGGTGGGGAAGGGCAAACTGGGAAAATAAACAACACCTTCCGTGGGGAAGGG
CAAACTGGGAAAA
Found at i:14333 original size:50 final size:51
Alignment explanation
Indices: 14274--14392 Score: 179
Period size: 50 Copynumber: 2.4 Consensus size: 51
14264 TTTCAAATTC
* *
14274 ATCAAAAATTCAATCTTTTAACTT-AAAGATTTCATTTTTATTCCAAAGCT
1 ATCAAAAATTCAATCTTTTAACTTCAAAGACTTCATTTTTATTACAAAGCT
* * *
14324 ATCAAAAATTCAAACTTTTAGCTTCAAAGACTTCATTTTTATTACAAAGTT
1 ATCAAAAATTCAATCTTTTAACTTCAAAGACTTCATTTTTATTACAAAGCT
14375 ATC-AAAATTCAATCTTTT
1 ATCAAAAATTCAATCTTTT
14393 TTATTTAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 36 0.58
51 26 0.42
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (51 bp):
ATCAAAAATTCAATCTTTTAACTTCAAAGACTTCATTTTTATTACAAAGCT
Found at i:14409 original size:50 final size:51
Alignment explanation
Indices: 14274--14409 Score: 161
Period size: 50 Copynumber: 2.7 Consensus size: 51
14264 TTTCAAATTC
* *
14274 ATCAAAAATTCAATC-TTTTAACTTAAAGATTTCATTTTTATTCCAAAGCT
1 ATCAAAAATTCAATCTTTTTAATTTAAAGATTTCATTTTTATTACAAAGCT
* * * * *
14324 ATCAAAAATTCAAAC-TTTTAGCTTCAAAGACTTCATTTTTATTACAAAGTT
1 ATCAAAAATTCAATCTTTTTA-ATTTAAAGATTTCATTTTTATTACAAAGCT
* *
14375 ATC-AAAATTCAATCTTTTTTATTTAAAAATTTCAT
1 ATCAAAAATTCAATCTTTTTAATTTAAAGATTTCAT
14410 CTTTGTTATT
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
50 40 0.56
51 31 0.44
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.43
Consensus pattern (51 bp):
ATCAAAAATTCAATCTTTTTAATTTAAAGATTTCATTTTTATTACAAAGCT
Found at i:14421 original size:21 final size:22
Alignment explanation
Indices: 14378--14419 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14368 CAAAGTTATC
*
14378 AAAATTCAATCTTTTTTATTTA
1 AAAATTCAATCTTTGTTATTTA
14400 AAAATTTC-ATCTTTGTTATT
1 AAAA-TTCAATCTTTGTTATT
14420 AATTTACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.55
Consensus pattern (22 bp):
AAAATTCAATCTTTGTTATTTA
Found at i:16529 original size:25 final size:25
Alignment explanation
Indices: 16483--16534 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
16473 TTAATTGCCA
*
16483 TTGTTTTGATTTAATTTTCTTTGCT
1 TTGTTTTGATTTAATTTGCTTTGCT
* *
16508 TTGTTTTTAGTTTAA-TTGCTTTTCT
1 TTGTTTTGA-TTTAATTTGCTTTGCT
16533 TT
1 TT
16535 TTAATTGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.12, C:0.08, G:0.12, T:0.69
Consensus pattern (25 bp):
TTGTTTTGATTTAATTTGCTTTGCT
Found at i:22371 original size:27 final size:27
Alignment explanation
Indices: 22305--22406 Score: 114
Period size: 28 Copynumber: 3.7 Consensus size: 27
22295 AGTGAGCTTA
** *
22305 AAATGACCAAAATGCCATTGAATGTGC
1 AAATGACCAAAATGCCCCTGAACGTGC
*
22332 AAAATGACCAAAATGCCCCTGGACGTGC
1 -AAATGACCAAAATGCCCCTGAACGTGC
* * *
22360 AAATGACTAAAATGCCCCTCAACATGC
1 AAATGACCAAAATGCCCCTGAACGTGC
*
22387 AAATGACCCAAAATCCCCCT
1 AAATGA-CCAAAATGCCCCT
22407 AGGTGACCCT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 29 0.46
28 34 0.54
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (27 bp):
AAATGACCAAAATGCCCCTGAACGTGC
Found at i:22811 original size:39 final size:39
Alignment explanation
Indices: 22724--22817 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 39
22714 ATATGATCCT
* * *
22724 GAATTTAACTGTC-AAGCAATGATCCTAAATCAAGATCG
1 GAATATAACTGACAAAGCAATAATCCTAAATCAAGATCG
* * * * *
22762 AAATAAAACTGACAAAGCAATAATCCTAAATTAGGATTG
1 GAATATAACTGACAAAGCAATAATCCTAAATCAAGATCG
*
22801 GAATATAACTGATAAAG
1 GAATATAACTGACAAAG
22818 TAATGATCAA
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
38 9 0.20
39 35 0.80
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.24
Consensus pattern (39 bp):
GAATATAACTGACAAAGCAATAATCCTAAATCAAGATCG
Found at i:22949 original size:30 final size:30
Alignment explanation
Indices: 22913--23191 Score: 333
Period size: 30 Copynumber: 9.0 Consensus size: 30
22903 TTAACTGATG
22913 AAGCAATGATCCTAAACCAGGATTAAAATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
* * *
22943 AAGCAATGATCCTGAATCAGGATTAAAATG
1 AAGCAATGATCCTAAACCAGGATTAAAATA
* * *
22973 AAGCAATGATCCTCAACCAGTACCGAAATAAACTGATG
1 AAGCAATGATCCTAAACCAG----G-ATTAAA---ATA
23011 AAGCAATGATCCTAAACCAGGATTAAAATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
* *
23041 AAGCAATGATCCTAAAGCAGGATTAATATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
* * *
23071 AAGTAATGATCCTAAATCAGGACTAAAATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
23101 AAGCAATGATCCTAAACCAGGATTAAAATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
* *
23131 AAGCAATGATCCAAAACCAGGATTAACTCATA
1 AAGCAATGATCCTAAACCAGGATTAA--AATA
* *
23163 AAGCAATGACCCTAAACCAGGATCAAAAT
1 AAGCAATGATCCTAAACCAGGATTAAAAT
23192 TAACAAAGTA
Statistics
Matches: 215, Mismatches: 24, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
30 155 0.72
32 26 0.12
33 5 0.02
34 2 0.01
35 5 0.02
38 22 0.10
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20
Consensus pattern (30 bp):
AAGCAATGATCCTAAACCAGGATTAAAATA
Found at i:23007 original size:98 final size:93
Alignment explanation
Indices: 22905--23178 Score: 347
Period size: 98 Copynumber: 2.9 Consensus size: 93
22895 CATCGGGATT
* *
22905 AACTGATGAAGCAATGATCCTAAACCAGGATTAAAATAAAGCAATGATCCTGAATCAGGATTAAA
1 AACTGATGAAGCAATGATCCTAAACCAGGATTAAAATAAAGCAATGATCCTAAACCAGGATTAAA
* *
22970 ATGAAGCAATGATCCTCAACCAGTACCGAAATA
66 ATAAAGCAATGATCCT-AA--A-T-CAGAAATA
* *
23003 AACTGATGAAGCAATGATCCTAAACCAGGATTAAAATAAAGCAATGATCCTAAAGCAGGATTAAT
1 AACTGATGAAGCAATGATCCTAAACCAGGATTAAAATAAAGCAATGATCCTAAACCAGGATTAAA
* * *
23068 ATAAAGTAATGATCCTAAATCAGGACTA
66 ATAAAGCAATGATCCTAAATCAGAAATA
* *
23096 AA---ATAAAGCAATGATCCTAAACCAGGATTAAAATAAAGCAATGATCCAAAACCAGGATTAAC
1 AACTGATGAAGCAATGATCCTAAACCAGGATTAAAATAAAGCAATGATCCTAAACCAGGATTAA-
* *
23158 TCATAAAGCAATGACCCTAAA
65 -AATAAAGCAATGATCCTAAA
23179 CCAGGATCAA
Statistics
Matches: 160, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
90 56 0.35
92 17 0.11
93 7 0.04
94 1 0.01
95 1 0.01
97 2 0.01
98 76 0.47
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20
Consensus pattern (93 bp):
AACTGATGAAGCAATGATCCTAAACCAGGATTAAAATAAAGCAATGATCCTAAACCAGGATTAAA
ATAAAGCAATGATCCTAAATCAGAAATA
Found at i:23040 original size:38 final size:38
Alignment explanation
Indices: 22970--23042 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
22960 CAGGATTAAA
* * *
22970 ATGAAGCAATGATCCTCAACCAGTACCGAAATAAACTG
1 ATGAAGCAATGATCCTAAACCAGGACCAAAATAAACTG
**
23008 ATGAAGCAATGATCCTAAACCAGGATTAAAATAAA
1 ATGAAGCAATGATCCTAAACCAGGACCAAAATAAA
23043 GCAATGATCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (38 bp):
ATGAAGCAATGATCCTAAACCAGGACCAAAATAAACTG
Found at i:23194 original size:128 final size:123
Alignment explanation
Indices: 22913--23191 Score: 348
Period size: 128 Copynumber: 2.2 Consensus size: 123
22903 TTAACTGATG
* * * *
22913 AAGCAATGATCCTAAACCAGGATTAAAATAAAGCAATGATCCTGAATCAGGATTAAAATGAAGCA
1 AAGCAATGACCCTAAACCAGGATTAAAATAAAGCAATGATCCTAAATCAGGACTAAAATAAAGCA
* * *
22978 ATGATCCTCAACCAGTACCGAAATAAACTGATGAAGCAATGATCCTAAACCAGGATTAAAATA
66 ATGATCCTAAACCAG---CGAAATAAAC--ATAAAGCAATGATCCAAAACCAGGATTAAAATA
* * * *
23041 AAGCAATGATCCTAAAGCAGGATTAATATAAAGTAATGATCCTAAATCAGGACTAAAATAAAGCA
1 AAGCAATGACCCTAAACCAGGATTAAAATAAAGCAATGATCCTAAATCAGGACTAAAATAAAGCA
* *
23106 ATGATCCTAAACCAG-G-ATTAAA-ATAAAGCAATGATCCAAAACCAGGATTAACTCATA
66 ATGATCCTAAACCAGCGAAATAAACATAAAGCAATGATCCAAAACCAGGATTAA--AATA
*
23163 AAGCAATGACCCTAAACCAGGATCAAAAT
1 AAGCAATGACCCTAAACCAGGATTAAAAT
23192 TAACAAAGTA
Statistics
Matches: 134, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
120 27 0.20
122 28 0.21
123 5 0.04
124 1 0.01
128 73 0.54
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20
Consensus pattern (123 bp):
AAGCAATGACCCTAAACCAGGATTAAAATAAAGCAATGATCCTAAATCAGGACTAAAATAAAGCA
ATGATCCTAAACCAGCGAAATAAACATAAAGCAATGATCCAAAACCAGGATTAAAATA
Found at i:23672 original size:69 final size:69
Alignment explanation
Indices: 23597--23750 Score: 175
Period size: 69 Copynumber: 2.2 Consensus size: 69
23587 TTCATCAAAC
* * * ** * *
23597 TTGGCTTATGGAAAAGCCCT-TGCCGTATGGATGGAACCAATGCTTTAATTGTCTTGTATGGAAA
1 TTGGCTTATGGAAAAG-CCTATGCCGCATGGATGGAACCAAGGCTTAAACCGACTCGTATGGAAA
23661 CGAAT
65 CGAAT
* * **
23666 TTGGCTTGTTGAAAAGCCTATGTGGCATGGATGGAACCAAGGCTTAAACCGACTCGTATGGAAAC
1 TTGGCTTATGGAAAAGCCTATGCCGCATGGATGGAACCAAGGCTTAAACCGACTCGTATGGAAAC
*
23731 GAGT
66 GAAT
*
23735 TTGACTTATGGAAAAG
1 TTGGCTTATGGAAAAG
23751 TCGAAGCAGT
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
68 3 0.04
69 66 0.96
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (69 bp):
TTGGCTTATGGAAAAGCCTATGCCGCATGGATGGAACCAAGGCTTAAACCGACTCGTATGGAAAC
GAAT
Found at i:24886 original size:19 final size:20
Alignment explanation
Indices: 24864--24903 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
24854 AGCTCTATTC
*
24864 TTTCCCTTTTTC-TTTTTTT
1 TTTCACTTTTTCATTTTTTT
*
24883 TTTCATTTTTTCATTTTTTT
1 TTTCACTTTTTCATTTTTTT
24903 T
1 T
24904 GTGCACTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTCACTTTTTCATTTTTTT
Found at i:25215 original size:14 final size:14
Alignment explanation
Indices: 25196--25238 Score: 58
Period size: 12 Copynumber: 3.4 Consensus size: 14
25186 CAATTCTTTT
25196 TTTTTATTATTTGA
1 TTTTTATTATTTGA
25210 TTTTTA-T-TTTGA
1 TTTTTATTATTTGA
25222 TTTTT-TTA-TTGA
1 TTTTTATTATTTGA
25234 TTTTT
1 TTTTT
25239 TTTTATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 20 0.74
13 1 0.04
14 6 0.22
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (14 bp):
TTTTTATTATTTGA
Found at i:25236 original size:29 final size:28
Alignment explanation
Indices: 25194--25269 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 28
25184 ATCAATTCTT
25194 TTTTTTTATTATTTGATTTTTA-TTTTGA
1 TTTTTTTATTATTT-ATTTTTATTTTTGA
*
25222 TTTTTTTATTGATTTTTTTTTATTTTTGA
1 TTTTTTTATT-ATTTATTTTTATTTTTGA
*
25251 TTTTTTTGTTA-TTATTTTT
1 TTTTTTTATTATTTATTTTT
25270 TCGAATTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 7 0.16
28 17 0.40
29 19 0.44
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (28 bp):
TTTTTTTATTATTTATTTTTATTTTTGA
Found at i:25239 original size:14 final size:13
Alignment explanation
Indices: 25192--25270 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 13
25182 CAATCAATTC
25192 TTTTTTTTTATTA
1 TTTTTTTTTATTA
*
25205 TTTGATTTTTATT-
1 TTT-TTTTTTATTA
25218 TTGATTTTTTTATTGA
1 TT--TTTTTTTATT-A
*
25234 TTTTTTTTTATTT
1 TTTTTTTTTATTA
*
25247 TTGATTTTTTTGTTA
1 TT--TTTTTTTATTA
25262 TTATTTTTT
1 TT-TTTTTT
25271 CGAATTTCTT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
13 7 0.13
14 33 0.61
15 12 0.22
16 2 0.04
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (13 bp):
TTTTTTTTTATTA
Found at i:25241 original size:28 final size:28
Alignment explanation
Indices: 25194--25270 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 28
25184 ATCAATTCTT
*
25194 TTTTTTTATTATTTGATTTTTA-TTTTGA
1 TTTTTTTATTATTT-TTTTTTATTTTTGA
25222 TTTTTTTATTGATTTTTTTTTATTTTTGA
1 TTTTTTTATT-ATTTTTTTTTATTTTTGA
* *
25251 TTTTTTTGTTATTATTTTTT
1 TTTTTTTATTATTTTTTTTT
25271 CGAATTTCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 25 0.57
29 19 0.43
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.79
Consensus pattern (28 bp):
TTTTTTTATTATTTTTTTTTATTTTTGA
Found at i:25242 original size:17 final size:17
Alignment explanation
Indices: 25192--25263 Score: 63
Period size: 18 Copynumber: 3.7 Consensus size: 17
25182 CAATCAATTC
25192 TTTTTTTTTATTATTTGA
1 TTTTTTTTTATT-TTTGA
25210 TTTTTATTTTGATTTTTTTATTGA
1 TTTTT-TTTT-A----TTT-TTGA
25234 TTTTTTTTTATTTTTGA
1 TTTTTTTTTATTTTTGA
25251 TTTTTTTGTTATT
1 TTTTTTT-TTATT
25264 ATTTTTTCGA
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
17 11 0.24
18 13 0.28
19 4 0.09
20 1 0.02
22 1 0.02
23 5 0.11
24 11 0.24
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (17 bp):
TTTTTTTTTATTTTTGA
Found at i:25254 original size:12 final size:11
Alignment explanation
Indices: 25205--25248 Score: 63
Period size: 12 Copynumber: 3.9 Consensus size: 11
25195 TTTTTTATTA
25205 TTTGATTTTTAT
1 TTTGATTTTT-T
25217 TTTGATTTTTT
1 TTTGATTTTTT
25228 TATTGATTTTTT
1 T-TTGATTTTTT
25240 TTT-ATTTTT
1 TTTGATTTTT
25249 GATTTTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 6 0.19
11 4 0.13
12 21 0.68
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (11 bp):
TTTGATTTTTT
Found at i:25668 original size:16 final size:16
Alignment explanation
Indices: 25647--25694 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
25637 AGTGCCTTTA
25647 TTTTCATTTTTCATTT
1 TTTTCATTTTTCATTT
*
25663 TTTTCATTCATTC-TTT
1 TTTTCATT-TTTCATTT
*
25679 TCTTCATTTTTTCATT
1 TTTTCA-TTTTTCATT
25695 CATTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTCATTTTTCATTT
Found at i:25674 original size:20 final size:21
Alignment explanation
Indices: 25649--25701 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 21
25639 TGCCTTTATT
25649 TTCATTTTTCAT-TTTTTTCA
1 TTCATTTTTCATATTTTTTCA
*
25669 TTCATTCTTTTCTTCATTTTTTCA
1 TTCA-T-TTTTCAT-ATTTTTTCA
25693 TTCATTTTT
1 TTCATTTTT
25702 TTTATTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.14
21 1 0.04
22 10 0.36
23 1 0.04
24 12 0.43
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (21 bp):
TTCATTTTTCATATTTTTTCA
Found at i:25686 original size:12 final size:12
Alignment explanation
Indices: 25656--25702 Score: 69
Period size: 12 Copynumber: 3.8 Consensus size: 12
25646 ATTTTCATTT
25656 TTCATTTTTTTCA
1 TTCA-TTTTTTCA
25669 TTCATTCTTTTC-
1 TTCATT-TTTTCA
25681 TTCATTTTTTCA
1 TTCATTTTTTCA
25693 TTCATTTTTT
1 TTCATTTTTT
25703 TTATTATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.16
12 18 0.56
13 9 0.28
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (12 bp):
TTCATTTTTTCA
Found at i:25693 original size:24 final size:25
Alignment explanation
Indices: 25656--25703 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
25646 ATTTTCATTT
25656 TTCATTTTTTTCATTCATTCTTTTC
1 TTCATTTTTTTCATTCATTCTTTTC
*
25681 TTCA-TTTTTTCATTCATTTTTTT
1 TTCATTTTTTTCATTCATTCTTTT
25704 TATTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (25 bp):
TTCATTTTTTTCATTCATTCTTTTC
Found at i:25711 original size:12 final size:13
Alignment explanation
Indices: 25656--25713 Score: 77
Period size: 13 Copynumber: 4.7 Consensus size: 13
25646 ATTTTCATTT
25656 TTCATTTTTTTCA
1 TTCATTTTTTTCA
*
25669 TTCATTCTTTTC-
1 TTCATTTTTTTCA
25681 TTCA-TTTTTTCA
1 TTCATTTTTTTCA
*
25693 TTCATTTTTTTTA
1 TTCATTTTTTTCA
25706 TT-ATTTTT
1 TTCATTTTT
25714 ATGGGAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
11 6 0.15
12 14 0.35
13 20 0.50
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (13 bp):
TTCATTTTTTTCA
Found at i:34190 original size:27 final size:27
Alignment explanation
Indices: 34124--34225 Score: 123
Period size: 28 Copynumber: 3.7 Consensus size: 27
34114 AGTAAGCTTA
* * *
34124 AAATGACCAAAATGACCTTGAATATGC
1 AAATGACCAAAATGCCCCTGAACATGC
* *
34151 AAAATGACCAAAATGCCCCTGGACGTGC
1 -AAATGACCAAAATGCCCCTGAACATGC
*
34179 AAATGACTAAAATGCCCCTGAACATGC
1 AAATGACCAAAATGCCCCTGAACATGC
*
34206 AAATGACCCAAAATCCCCCT
1 AAATGA-CCAAAATGCCCCT
34226 AGGTTAGGTG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 30 0.48
28 33 0.52
ACGTcount: A:0.40, C:0.27, G:0.15, T:0.18
Consensus pattern (27 bp):
AAATGACCAAAATGCCCCTGAACATGC
Found at i:34664 original size:21 final size:21
Alignment explanation
Indices: 34630--34679 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
34620 CGTGCTAACA
* *
34630 CCGTGCCAAGACCAACTAAGC
1 CCGTGCCAACACCAACCAAGC
* * *
34651 CCGTGCCACCACCAGCCATGC
1 CCGTGCCAACACCAACCAAGC
34672 CCGTGCCA
1 CCGTGCCA
34680 TAACCATTCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.46, G:0.20, T:0.10
Consensus pattern (21 bp):
CCGTGCCAACACCAACCAAGC
Found at i:36765 original size:8 final size:8
Alignment explanation
Indices: 36754--36807 Score: 65
Period size: 8 Copynumber: 6.8 Consensus size: 8
36744 ATTTTCTGAT
36754 TTTTTTCA
1 TTTTTTCA
36762 TTTTTTTCA
1 -TTTTTTCA
36771 TTTTTTCA
1 TTTTTTCA
*
36779 -TTTTTCC
1 TTTTTTCA
* *
36786 TTTCTTCT
1 TTTTTTCA
36794 TTTTTTCA
1 TTTTTTCA
36802 TTTTTT
1 TTTTTT
36808 TCTTCAACTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
7 6 0.15
8 25 0.64
9 8 0.21
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTCA
Found at i:37502 original size:41 final size:41
Alignment explanation
Indices: 37455--37557 Score: 111
Period size: 41 Copynumber: 2.5 Consensus size: 41
37445 AATAAAATCT
* * *
37455 TAAATCAGGGGCAAAATTGAA-CTAATTAATAAATATTAA-CC
1 TAAATCAGGGACAAAATTGAATC-AATTAACAAACA-TAACCC
* *
37496 TCAATCAGGGACGAAATTGAATCAATTAACAAACATAACCC
1 TAAATCAGGGACAAAATTGAATCAATTAACAAACATAACCC
* *
37537 TAAATCAGGGACTATATTGAA
1 TAAATCAGGGACAAAATTGAA
37558 AACGGAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
40 3 0.06
41 48 0.92
42 1 0.02
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.24
Consensus pattern (41 bp):
TAAATCAGGGACAAAATTGAATCAATTAACAAACATAACCC
Found at i:45020 original size:24 final size:24
Alignment explanation
Indices: 44993--45048 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
44983 CATATAAATA
44993 GTAAAAATCATTGGGAAAATGATC
1 GTAAAAATCATTGGGAAAATGATC
*
45017 GTAAAAATCATTGGGAAATTGATC
1 GTAAAAATCATTGGGAAAATGATC
*
45041 ATAAAAAT
1 GTAAAAAT
45049 AGGGTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (24 bp):
GTAAAAATCATTGGGAAAATGATC
Found at i:47493 original size:27 final size:26
Alignment explanation
Indices: 47430--47532 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 26
47420 AAATAAAGAA
* *
47430 TTTTTTTTTAACAACGCAAAAAAAAT
1 TTTTTTTTTAAAAACGCAAAAACAAT
47456 TTATTTATTTTAGAAAACGCAAAAACAAT
1 TT-TTT-TTTTA-AAAACGCAAAAACAAT
47485 TTTTTTTTTCAAAAACGCAAAAACAAT
1 TTTTTTTTT-AAAAACGCAAAAACAAT
*
47512 TTTTTTTTACAAAAACGCAAA
1 TTTTTTTT-TAAAAACGCAAA
47533 TTTTTTTAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
26 2 0.03
27 42 0.61
28 9 0.13
29 16 0.23
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.37
Consensus pattern (26 bp):
TTTTTTTTTAAAAACGCAAAAACAAT
Found at i:50706 original size:204 final size:204
Alignment explanation
Indices: 50017--50839 Score: 1549
Period size: 204 Copynumber: 4.0 Consensus size: 204
50007 TCATGATTGC
50017 GATGGTGAATGCAAACTGAAATGTGAGTGATCCTAAGATGGAGAAATGCAAAGAGCTGAATTGCT
1 GATGGTGAATGCAAACTGAAATGTGAGTGATCCTAAGATGGAGAAATGCAAAGAGCTGAATTGCT
*
50082 TCCAAGTCATGTAGTGTCATGTACGAATGCTATGTGCCTTATCTGATCATGTAAAATAGTGGAAG
66 TCCAAGTCATGTAGTGCCATGTACGAATGCTATGTGCCTTATCTGATCATGTAAAATAGTGGAAG
50147 GAAATGCAATTGAAATGCTAGTATGTAGGTGATACTAAAAATGCCATGCTCTGTCAAAATGGACT
131 GAAATGCAATTGAAATGCTAGTATGTAGGTGATACTAAAAATGCCATGCTCTGTCAAAATGGACT
50212 CCTACAAAT
196 CCTACAAAT
50221 GATGGTGAATGCAAACTGAAATGTGAGTGATCCTAAGATGGAGAAATGCAAAGAGCTGAATTGCT
1 GATGGTGAATGCAAACTGAAATGTGAGTGATCCTAAGATGGAGAAATGCAAAGAGCTGAATTGCT
*
50286 TCCAAGTCATGTAGTGTCATGTACGAATGCTATGTGCCTTATCTGATCATGTAAAATAGTGGAAG
66 TCCAAGTCATGTAGTGCCATGTACGAATGCTATGTGCCTTATCTGATCATGTAAAATAGTGGAAG
50351 GAAATGCCAATTCGAAATGCTAGTAGTGTAGGTGATACTAAAAATTGACCACTGCTCTGTCAAAA
131 GAAATG-CAATT-GAAATGCTAGTA-TGTAGGTGATACTAAAAA-TG-CCA-TGCTCTGTCAAAA
50416 TGGACTCCTACAAAT
190 TGGACTCCTACAAAT
50431 GAT-GTGAATGCAAACTGAAATGTGAGTGATCCTAAGATGGAGAAATGCAAAGAGCTGAATTGCT
1 GATGGTGAATGCAAACTGAAATGTGAGTGATCCTAAGATGGAGAAATGCAAAGAGCTGAATTGCT
*
50495 TCCTAGTCATGTAGTGCCATGTACGAATGCTATGTGCCTTATCTGATCATGTAAAATAGTGGAAG
66 TCCAAGTCATGTAGTGCCATGTACGAATGCTATGTGCCTTATCTGATCATGTAAAATAGTGGAAG
50560 GAAATGCAATTGAAATGCTAGTATGTAGGTGATACTAAAAATGCCATGCTCTGTCAAAATGGACT
131 GAAATGCAATTGAAATGCTAGTATGTAGGTGATACTAAAAATGCCATGCTCTGTCAAAATGGACT
50625 CCTACAAAT
196 CCTACAAAT
50634 GATGGTGAATGCAAACTGAAATGTGAGTGATCCTAAGATGGAGAAATGCAAAGAGCTGAATTGCT
1 GATGGTGAATGCAAACTGAAATGTGAGTGATCCTAAGATGGAGAAATGCAAAGAGCTGAATTGCT
*
50699 TCCTAGTCATGTAGTGCCATGTACGAATGCTATGTGCCTTATCTGATCATGTAAAATAGTGGAAG
66 TCCAAGTCATGTAGTGCCATGTACGAATGCTATGTGCCTTATCTGATCATGTAAAATAGTGGAAG
50764 GAAATGCAATTGAAATGCTAGTATGTAGGTGATACTAAAAATGCCATGCTCTGTCAAAATGGACT
131 GAAATGCAATTGAAATGCTAGTATGTAGGTGATACTAAAAATGCCATGCTCTGTCAAAATGGACT
50829 CCTACAAAT
196 CCTACAAAT
50838 GA
1 GA
50840 ATGATGTAAT
Statistics
Matches: 610, Mismatches: 2, Indels: 14
0.97 0.00 0.02
Matches are distributed among these distances:
203 31 0.05
204 341 0.56
205 7 0.01
206 30 0.05
207 30 0.05
208 7 0.01
209 133 0.22
210 31 0.05
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (204 bp):
GATGGTGAATGCAAACTGAAATGTGAGTGATCCTAAGATGGAGAAATGCAAAGAGCTGAATTGCT
TCCAAGTCATGTAGTGCCATGTACGAATGCTATGTGCCTTATCTGATCATGTAAAATAGTGGAAG
GAAATGCAATTGAAATGCTAGTATGTAGGTGATACTAAAAATGCCATGCTCTGTCAAAATGGACT
CCTACAAAT
Found at i:52538 original size:11 final size:11
Alignment explanation
Indices: 52514--52548 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
52504 TTGACAGCGC
52514 AACAAAAACAA
1 AACAAAAACAA
* *
52525 AACGAAAACGA
1 AACAAAAACAA
52536 AACAAAAACAA
1 AACAAAAACAA
52547 AA
1 AA
52549 ACAGAAAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.77, C:0.17, G:0.06, T:0.00
Consensus pattern (11 bp):
AACAAAAACAA
Found at i:52540 original size:16 final size:16
Alignment explanation
Indices: 52519--52566 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
52509 AGCGCAACAA
52519 AAACAAAACGAAAACG
1 AAACAAAACGAAAACG
*
52535 AAACAAAAACAAAAAC-
1 AAAC-AAAACGAAAACG
*
52551 AGA-AAAACGAAAACG
1 AAACAAAACGAAAACG
52566 A
1 A
52567 TGCCAAACGA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 10 0.37
15 1 0.04
16 6 0.22
17 10 0.37
ACGTcount: A:0.73, C:0.17, G:0.10, T:0.00
Consensus pattern (16 bp):
AAACAAAACGAAAACG
Found at i:52540 original size:22 final size:25
Alignment explanation
Indices: 52514--52562 Score: 77
Period size: 22 Copynumber: 2.1 Consensus size: 25
52504 TTGACAGCGC
52514 AACAAAAAC-AAAAC-G-AAAACGA
1 AACAAAAACAAAAACAGAAAAACGA
52536 AACAAAAACAAAAACAGAAAAACGA
1 AACAAAAACAAAAACAGAAAAACGA
52561 AA
1 AA
52563 ACGATGCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 9 0.38
23 5 0.21
24 1 0.04
25 9 0.38
ACGTcount: A:0.76, C:0.16, G:0.08, T:0.00
Consensus pattern (25 bp):
AACAAAAACAAAAACAGAAAAACGA
Done.