Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020570.1 Corchorus olitorius cultivar O-4 contig20603, 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: 94581
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Found at i:4593 original size:17 final size:17
Alignment explanation
Indices: 4571--4606 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
4561 AACTTAAAAA
4571 ACTAAAACTGTAATCCT
1 ACTAAAACTGTAATCCT
4588 ACTAAAACTGTAATCCT
1 ACTAAAACTGTAATCCT
4605 AC
1 AC
4607 AAATCTATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.28
Consensus pattern (17 bp):
ACTAAAACTGTAATCCT
Found at i:15214 original size:6 final size:6
Alignment explanation
Indices: 15203--15228 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15193 ACCAACAAGT
15203 TCCACC TCCACC TCCACC TCCACC TC
1 TCCACC TCCACC TCCACC TCCACC TC
15229 ATCAGGGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.65, G:0.00, T:0.19
Consensus pattern (6 bp):
TCCACC
Found at i:19301 original size:19 final size:18
Alignment explanation
Indices: 19277--19312 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
19267 TGAAGACTTA
19277 TTGAAGATAATTTGAAGAT
1 TTGAAGATAA-TTGAAGAT
*
19296 TTGAAGATCATTGAAGA
1 TTGAAGATAATTGAAGA
19313 ATTATCTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (18 bp):
TTGAAGATAATTGAAGAT
Found at i:24271 original size:12 final size:11
Alignment explanation
Indices: 24256--24296 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
24246 CCTTTAATAA
24256 TTAATTTTGATT
1 TTAATTTT-ATT
24268 TTAATTTTATT
1 TTAATTTTATT
24279 ATT-ATTTT-TT
1 -TTAATTTTATT
24289 TTAATTTT
1 TTAATTTT
24297 TACACTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 7 0.26
11 8 0.30
12 10 0.37
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (11 bp):
TTAATTTTATT
Found at i:24533 original size:15 final size:15
Alignment explanation
Indices: 24492--24533 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
24482 GCTGCCGCCA
24492 CAGCGCACCAGGCGC
1 CAGCGCACCAGGCGC
*
24507 CAG-GCACAAGGCAG-
1 CAGCGCACCAGGC-GC
24521 CAGCGCACCAGGC
1 CAGCGCACCAGGC
24534 CGCGTAAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.26, C:0.40, G:0.33, T:0.00
Consensus pattern (15 bp):
CAGCGCACCAGGCGC
Found at i:25074 original size:19 final size:20
Alignment explanation
Indices: 25047--25086 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
25037 AAGCAATACT
* *
25047 AAGAGGCAAGGTCGAC-AAG
1 AAGAAGCAAAGTCGACTAAG
25066 AAGAAGCAAAGTCGACTAAG
1 AAGAAGCAAAGTCGACTAAG
25086 A
1 A
25087 GGTAGCGTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.47, C:0.15, G:0.30, T:0.07
Consensus pattern (20 bp):
AAGAAGCAAAGTCGACTAAG
Found at i:26121 original size:24 final size:21
Alignment explanation
Indices: 26079--26125 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
26069 TTTTAAGTTT
*
26079 TTTTTTTTTTTAGATTTAGGA
1 TTTTTATTTTTAGATTTAGGA
26100 TTTTTATTTTTATGCATCTTAGGA
1 TTTTTATTTTTA-G-AT-TTAGGA
26124 TT
1 TT
26126 AGTTATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 1 0.05
23 2 0.09
24 8 0.36
ACGTcount: A:0.19, C:0.04, G:0.13, T:0.64
Consensus pattern (21 bp):
TTTTTATTTTTAGATTTAGGA
Found at i:27727 original size:19 final size:18
Alignment explanation
Indices: 27703--27738 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
27693 TGAAGACTTA
27703 TTGAAGATAATTTGAAGAT
1 TTGAAGATAA-TTGAAGAT
*
27722 TTGAAGATCATTGAAGA
1 TTGAAGATAATTGAAGA
27739 ATTATCTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (18 bp):
TTGAAGATAATTGAAGAT
Found at i:33009 original size:81 final size:81
Alignment explanation
Indices: 32899--33052 Score: 263
Period size: 81 Copynumber: 1.9 Consensus size: 81
32889 GTTTTACCTT
* * * *
32899 TTTTTTCTAGCACCAAACAAGGCTTAATGGACCGCCACCTTAAACTTGCTTAATTATTATAGTAT
1 TTTTTCCTAGCACCAAACAAAGCCTAATGGACCGCCACCTAAAACTTGCTTAATTATTATAGTAT
32964 TTTGTTAATACTTTTA
66 TTTGTTAATACTTTTA
*
32980 TTTTTCCTAGCACCAAACAAAGCCTAATGGTCCGCCACCTAAAACTTGCTTAATTATTATAGTAT
1 TTTTTCCTAGCACCAAACAAAGCCTAATGGACCGCCACCTAAAACTTGCTTAATTATTATAGTAT
33045 TTTGTTAA
66 TTTGTTAA
33053 ACGGAGTGAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (81 bp):
TTTTTCCTAGCACCAAACAAAGCCTAATGGACCGCCACCTAAAACTTGCTTAATTATTATAGTAT
TTTGTTAATACTTTTA
Found at i:35449 original size:7 final size:7
Alignment explanation
Indices: 35433--35489 Score: 53
Period size: 7 Copynumber: 7.7 Consensus size: 7
35423 TAAAAGAAAT
35433 AAAAATGG
1 AAAAA-GG
35441 AAAAAGG
1 AAAAAGG
*
35448 AAAAATAAGA
1 --AAA-AAGG
35458 AAAAAGG
1 AAAAAGG
*
35465 AAAAAGA
1 AAAAAGG
35472 AAAAAGG
1 AAAAAGG
35479 -AAAAGG
1 AAAAAGG
35485 AAAAA
1 AAAAA
35490 AAAAGATGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
6 6 0.15
7 21 0.51
8 8 0.20
9 3 0.07
10 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (7 bp):
AAAAAGG
Found at i:35473 original size:14 final size:14
Alignment explanation
Indices: 35454--35490 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
35444 AAGGAAAAAT
35454 AAGAAAAAAGGAAA
1 AAGAAAAAAGGAAA
35468 AAGAAAAAAGGAAA
1 AAGAAAAAAGGAAA
*
35482 AGGAAAAAA
1 AAGAAAAAA
35491 AAAGATGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAGGAAA
Found at i:36691 original size:18 final size:18
Alignment explanation
Indices: 36646--36691 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
36636 AAATCGGATG
36646 TAATTAATATTTTAAAATA
1 TAATT-ATATTTTAAAATA
*
36665 AAATT-TATTTTAAAA-A
1 TAATTATATTTTAAAATA
36681 TAATTCATATT
1 TAATT-ATATT
36692 CAAAAGTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 5 0.22
17 10 0.43
18 4 0.17
19 4 0.17
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATTATATTTTAAAATA
Found at i:37486 original size:20 final size:20
Alignment explanation
Indices: 37461--37499 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37451 TGAACCACTT
**
37461 AAATTACTACTTGAACAAAA
1 AAATTACTAAATGAACAAAA
37481 AAATTACTAAATGAACAAA
1 AAATTACTAAATGAACAAA
37500 GTGAATTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.23
Consensus pattern (20 bp):
AAATTACTAAATGAACAAAA
Found at i:42050 original size:51 final size:50
Alignment explanation
Indices: 41948--42056 Score: 114
Period size: 51 Copynumber: 2.1 Consensus size: 50
41938 GTTCATCATA
** * **
41948 TTTTTCTTGTTTAGATCTTGTCTCAGGACATTCAAACACTATTTTACTGT
1 TTTTTCTTGTTTAGATCTTGTCTCAGGACATAAAAACACTAGTACACTGT
*
41998 TTTTCTCTTGTTTCA-ATCTTGTCTCCGGACATAAAAACACT-GTACACGTGT
1 TTTT-TCTTGTTT-AGATCTTGTCTCAGGACATAAAAACACTAGTACAC-TGT
42049 TTCTTTCT
1 TT-TTTCT
42057 CATTAATAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
50 7 0.14
51 39 0.80
52 3 0.06
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (50 bp):
TTTTTCTTGTTTAGATCTTGTCTCAGGACATAAAAACACTAGTACACTGT
Found at i:42644 original size:23 final size:23
Alignment explanation
Indices: 42594--42652 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
42584 TCTACTTTCT
**
42594 CTTTAATTTTTTTCGTTTATTTA
1 CTTTAATTTTTTTAATTTATTTA
*
42617 CTTTAATTTTTTTTAATTTCTTTA
1 CTTTAA-TTTTTTTAATTTATTTA
*
42641 -TTT-ATTTATTTA
1 CTTTAATTTTTTTA
42653 TTTTTACACA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 7 0.23
22 1 0.03
23 9 0.29
24 14 0.45
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (23 bp):
CTTTAATTTTTTTAATTTATTTA
Found at i:46102 original size:2 final size:2
Alignment explanation
Indices: 46095--46167 Score: 80
Period size: 2 Copynumber: 38.0 Consensus size: 2
46085 AAATGCGGCT
* * *
46095 TA TA TA TA TA TA TA -A TT TT TA TT TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
46135 TA TT TA TA TA TA TA TA TA AA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46168 ATTAATTAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
1 3 0.05
2 57 0.95
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:46123 original size:21 final size:22
Alignment explanation
Indices: 46097--46167 Score: 94
Period size: 21 Copynumber: 3.4 Consensus size: 22
46087 ATGCGGCTTA
*
46097 TATATATATATAAT-TTTTATT
1 TATATATATATAATATATTATT
46118 TATATATATAT-ATATATTATT
1 TATATATATATAATATATTATT
* *
46139 TATATATATAT-ATAAATTATA
1 TATATATATATAATATATTATT
46160 TATATATA
1 TATATATA
46168 ATTAATTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 2 0.04
21 44 0.96
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATATATATATAATATATTATT
Found at i:46147 original size:17 final size:17
Alignment explanation
Indices: 46117--46167 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
46107 TAATTTTTAT
*
46117 TTATATATATATATATA
1 TTATTTATATATATATA
46134 TTATTTATATATATATA
1 TTATTTATATATATATA
* *
46151 TAAATTATATATATATA
1 TTATTTATATATATATA
46168 ATTAATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATTTATATATATATA
Found at i:52006 original size:16 final size:16
Alignment explanation
Indices: 51985--52043 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
51975 TGTGGGTTTG
51985 TAAGTGAGTATCTCAC
1 TAAGTGAGTATCTCAC
52001 TAAGTGAGTA-CTACAC
1 TAAGTGAGTATCT-CAC
* *
52017 CAAGTGAGTATGGT-AC
1 TAAGTGAGTAT-CTCAC
52033 TAAGTGAGTAT
1 TAAGTGAGTAT
52044 TTCGTTGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 2 0.05
16 34 0.92
18 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (16 bp):
TAAGTGAGTATCTCAC
Found at i:52254 original size:11 final size:12
Alignment explanation
Indices: 52224--52260 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
52214 ATACATTAAC
52224 ATATATATATAT-
1 ATATAT-TATATG
52236 ATATATTATATG
1 ATATATTATATG
52248 ATA-ATTATATG
1 ATATATTATATG
52259 AT
1 AT
52261 TGAAATCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (12 bp):
ATATATTATATG
Found at i:60315 original size:11 final size:11
Alignment explanation
Indices: 60299--60327 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
60289 CTGCCGGTTC
60299 TTCTTCCATCT
1 TTCTTCCATCT
60310 TTCTT-CATCT
1 TTCTTCCATCT
60320 TTCTTCCA
1 TTCTTCCA
60328 ATATGAGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.10, C:0.34, G:0.00, T:0.55
Consensus pattern (11 bp):
TTCTTCCATCT
Found at i:61526 original size:21 final size:21
Alignment explanation
Indices: 61502--61571 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
61492 TTTGATATAA
*
61502 AAAATTCAAATTGTGGTTACC
1 AAAATTCAAATTATGGTTACC
* *
61523 AAAATTTCAGGGA-TAT-GTTATC
1 AAAA-TTCA--AATTATGGTTACC
*
61545 AAAATTCATATTATGGTTACC
1 AAAATTCAAATTATGGTTACC
61566 AAAATT
1 AAAATT
61572 TCATAGGAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
19 1 0.03
20 3 0.08
21 19 0.49
22 13 0.33
23 2 0.05
24 1 0.03
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (21 bp):
AAAATTCAAATTATGGTTACC
Found at i:61531 original size:22 final size:22
Alignment explanation
Indices: 61501--61574 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
61491 ATTTGATATA
* *
61501 AAAAATTCAAATTGTGGTTACC
1 AAAATTTCAAATTATGGTTACC
* *
61523 AAAATTTCAGGGA-TAT-GTTATC
1 AAAATTTCA--AATTATGGTTACC
*
61545 AAAA-TTCATATTATGGTTACC
1 AAAATTTCAAATTATGGTTACC
61566 AAAATTTCA
1 AAAATTTCA
61575 TAGGAAGCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 13 0.32
22 21 0.51
23 2 0.05
24 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
AAAATTTCAAATTATGGTTACC
Found at i:61587 original size:43 final size:43
Alignment explanation
Indices: 61502--61593 Score: 125
Period size: 43 Copynumber: 2.1 Consensus size: 43
61492 TTTGATATAA
* *
61502 AAAATTCAAATTGTGGTTACCAAAATTTCAGGGATATGTTATC
1 AAAATTCAAATTATGGTTACCAAAATTTCAAGGATATGTTATC
*
61545 AAAATTCATATTATGGTTACCAAAATTTCATAGGA-A-GCTTATC
1 AAAATTCAAATTATGGTTACCAAAATTTCA-AGGATATG-TTATC
61588 AAAATT
1 AAAATT
61594 TCATTATGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 1 0.02
43 40 0.91
44 3 0.07
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (43 bp):
AAAATTCAAATTATGGTTACCAAAATTTCAAGGATATGTTATC
Found at i:61590 original size:22 final size:22
Alignment explanation
Indices: 61539--61872 Score: 201
Period size: 22 Copynumber: 14.8 Consensus size: 22
61529 TCAGGGATAT
*
61539 GTTATCAAAA-TTCATA-TTATG
1 GTTATCAAAATTTCATAGTGA-G
*
61560 GTTACCAAAATTTCATAG-GAAG
1 GTTATCAAAATTTCATAGTG-AG
* *
61582 CTTATCAAAATTTCATTA-TGTG
1 GTTATCAAAATTTCA-TAGTGAG
*
61604 GTTATCAAAAATTTTATAGTGATTAG
1 GTTATC-AAAATTTCATAGTG---AG
* * *
61630 GTTATTAAAATTACATAGGGAG
1 GTTATCAAAATTTCATAGTGAG
* *
61652 GTTATGAAAGTTTCATAGTGAG
1 GTTATCAAAATTTCATAGTGAG
*
61674 GTTATCAAAATTTAATAGTGAG
1 GTTATCAAAATTTCATAGTGAG
* * * *
61696 GTTACCAAAATTTCAAAATGTG
1 GTTATCAAAATTTCATAGTGAG
* * *
61718 GTTATTAAAATTTCATAGGGTG
1 GTTATCAAAATTTCATAGTGAG
* * ** **
61740 ATTA-CTAATATTAGATAGCAAG
1 GTTATC-AAAATTTCATAGTGAG
* * *
61762 GTTACCAAAATTTCGTAGGGAG
1 GTTATCAAAATTTCATAGTGAG
* *
61784 GTTATCAAAAGTACTTCGTAGGGAG
1 GTTATCAAAA-T--TTCATAGTGAG
* *
61809 GTTATCAAAAGTATTTCATTGGGAG
1 GTTATC-AAA--ATTTCATAGTGAG
*
61834 GTTATCAAAATTTCATAGTGTG
1 GTTATCAAAATTTCATAGTGAG
* *
61856 ATCATCAAAATTTCATA
1 GTTATCAAAATTTCATA
61873 ATGTTGTTAT
Statistics
Matches: 243, Mismatches: 52, Indels: 35
0.74 0.16 0.11
Matches are distributed among these distances:
21 9 0.04
22 161 0.66
23 16 0.07
24 3 0.01
25 43 0.18
26 9 0.04
27 1 0.00
28 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (22 bp):
GTTATCAAAATTTCATAGTGAG
Found at i:61613 original size:44 final size:46
Alignment explanation
Indices: 61513--61744 Score: 178
Period size: 44 Copynumber: 5.2 Consensus size: 46
61503 AAATTCAAAT
* * *
61513 TGTGGTTACCAAAATTTC--AGGGATATGTTATCAAAA-TTCATAT
1 TGTGGTTACCAAAATTTCATAGTGATAGGTTATCAAAATTTCATAG
* *
61556 TATGGTTACCAAAATTTCATAG-GA-AGCTTATCAAAATTTCATTA-
1 TGTGGTTACCAAAATTTCATAGTGATAGGTTATCAAAATTTCA-TAG
* * * *
61600 TGTGGTTATCAAAAATTTTATAGTGATTAGGTTATTAAAATTACATAG
1 TGTGGTTA-CCAAAATTTCATAGTGA-TAGGTTATCAAAATTTCATAG
* * ** * *
61648 GGAGGTTATGAAAGTTTCATAGTG--AGGTTATCAAAATTTAATAG
1 TGTGGTTACCAAAATTTCATAGTGATAGGTTATCAAAATTTCATAG
* * * *
61692 TGAGGTTACCAAAATTTCAAAATG-T-GGTTATTAAAATTTCATAG
1 TGTGGTTACCAAAATTTCATAGTGATAGGTTATCAAAATTTCATAG
* *
61736 GGTGATTAC
1 TGTGGTTAC
61745 TAATATTAGA
Statistics
Matches: 150, Mismatches: 29, Indels: 19
0.76 0.15 0.10
Matches are distributed among these distances:
43 27 0.18
44 71 0.47
45 16 0.11
46 2 0.01
47 14 0.09
48 20 0.13
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.37
Consensus pattern (46 bp):
TGTGGTTACCAAAATTTCATAGTGATAGGTTATCAAAATTTCATAG
Found at i:61807 original size:25 final size:25
Alignment explanation
Indices: 61773--61843 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
61763 TTACCAAAAT
61773 TTCGTAGGGAGGTTATCAAAAGTAC
1 TTCGTAGGGAGGTTATCAAAAGTAC
*
61798 TTCGTAGGGAGGTTATCAAAAGTAT
1 TTCGTAGGGAGGTTATCAAAAGTAC
* *
61823 TTCATTGGGAGGTTATCAAAA
1 TTCGTAGGGAGGTTATCAAAA
61844 TTTCATAGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (25 bp):
TTCGTAGGGAGGTTATCAAAAGTAC
Found at i:63910 original size:41 final size:41
Alignment explanation
Indices: 63865--64382 Score: 431
Period size: 41 Copynumber: 12.7 Consensus size: 41
63855 AGGAATAGGA
* *
63865 ACAACACCTCCCGATGAGGGAGGGCAAACTGAG-AAATGTAG
1 ACAACACCTTCCGATGAGGAAGGGCAAACTG-GTAAATGTAG
* * * *
63906 ACAACACCTTTCGATGAGGAAGAGCAAACTGGTGAACT-TAA
1 ACAACACCTTCCGATGAGGAAGGGCAAACTGGT-AAATGTAG
* *
63947 ACAACATCTTCCGATGAGGAAGGGCAAACTAGTAAACT-TA-
1 ACAACACCTTCCGATGAGGAAGGGCAAACTGGTAAA-TGTAG
* * *
63987 ACAACACCTTCCAATGAAGAAGGTCAAACTGGTAAACT-TA-
1 ACAACACCTTCCGATGAGGAAGGGCAAACTGGTAAA-TGTAG
* *
64027 ACAACACCTTCCGATGAGGAAGGGCAAACTGG-AAAGGTAA
1 ACAACACCTTCCGATGAGGAAGGGCAAACTGGTAAATGTAG
* * *
64067 ACAACACCTTCCGATGAGGAAGGGCAAACTGGACAAAGGCA-
1 ACAACACCTTCCGATGAGGAAGGGCAAACTGG-TAAATGTAG
* * * * *
64108 ACGATACCTCCCGATGAGGAAGGGCAAATTGGTAATTGCT-G
1 ACAACACCTTCCGATGAGGAAGGGCAAACTGGTAAATG-TAG
* *
64149 ACAACACCTTCCAATGAGGAAGGGCAAATTGGTAAATGCT-G
1 ACAACACCTTCCGATGAGGAAGGGCAAACTGGTAAATG-TAG
* * * * * * *
64190 ACAGCACCTTCCGACCG-GGGATGGCAAACTGGGAAAAGTAA
1 ACAACACCTTCCGA-TGAGGAAGGGCAAACTGGTAAATGTAG
*
64231 ACAACACCTTCCCG-GGAGGAAGGGCAAA-TCGGTAAATGCT-G
1 ACAACACCTT-CCGATGAGGAAGGGCAAACT-GGTAAATG-TAG
* * *
64272 ACAACACCTTCCGATGAAGAAGGGCAAACTGG-ACAAAG-GG
1 ACAACACCTTCCGATGAGGAAGGGCAAACTGGTA-AATGTAG
* * * * *
64312 TACAATAGCTCCCGATGAGGAAGGGCAAATTGGTAAATACT-G
1 -ACAACACCTTCCGATGAGGAAGGGCAAACTGGTAAAT-GTAG
*
64354 ACAACACCTTCCGATTAGGAAGGGCAAAC
1 ACAACACCTTCCGATGAGGAAGGGCAAAC
64383 AGGGAAAGAC
Statistics
Matches: 389, Mismatches: 65, Indels: 46
0.78 0.13 0.09
Matches are distributed among these distances:
39 5 0.01
40 110 0.28
41 257 0.66
42 17 0.04
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (41 bp):
ACAACACCTTCCGATGAGGAAGGGCAAACTGGTAAATGTAG
Found at i:67934 original size:28 final size:28
Alignment explanation
Indices: 67903--67969 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
67893 AGGATCAACT
* **
67903 AGGGGCATTTTGGTCATTTTGCATGTCC
1 AGGGGCATTTTGGTAATTTTGCACATCC
*
67931 AGGGGCATTTTGGTAATTTTGTACATCC
1 AGGGGCATTTTGGTAATTTTGCACATCC
67959 AGGGGCATTTT
1 AGGGGCATTTT
67970 AGTCGTTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.39
Consensus pattern (28 bp):
AGGGGCATTTTGGTAATTTTGCACATCC
Found at i:72524 original size:15 final size:14
Alignment explanation
Indices: 72504--72540 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
72494 AAATGGTTGC
72504 TTTGTTTTATTTTGG
1 TTTGTTTTATTTT-G
*
72519 TTTGTTTTGTTTTG
1 TTTGTTTTATTTTG
72533 TTTGTTTT
1 TTTGTTTT
72541 GATGTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.03, C:0.00, G:0.19, T:0.78
Consensus pattern (14 bp):
TTTGTTTTATTTTG
Found at i:74582 original size:21 final size:22
Alignment explanation
Indices: 74558--74599 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
74548 TTTGCCTCAT
74558 GCATTCATTCAT-CATGCCATG
1 GCATTCATTCATGCATGCCATG
* *
74579 GCATTCGTTCATGCATTCCAT
1 GCATTCATTCATGCATGCCAT
74600 TAAAACCTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (22 bp):
GCATTCATTCATGCATGCCATG
Found at i:76999 original size:18 final size:16
Alignment explanation
Indices: 76952--77002 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
76942 AAGAAATTCG
76952 AAAA-AAATCAAATAAA
1 AAAACAAATCAAA-AAA
**
76968 AAAACAAAAGAAAACAA
1 AAAACAAATCAAAA-AA
76985 AAAATCAAATCAAAAAA
1 AAAA-CAAATCAAAAAA
77002 A
1 A
77003 TTAAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 5 0.18
17 15 0.54
18 8 0.29
ACGTcount: A:0.80, C:0.10, G:0.02, T:0.08
Consensus pattern (16 bp):
AAAACAAATCAAAAAA
Found at i:77652 original size:50 final size:49
Alignment explanation
Indices: 77595--77747 Score: 175
Period size: 50 Copynumber: 3.1 Consensus size: 49
77585 GAAAAAGAAG
*
77595 TTTTACAATAAAATTGCTTTCCATTTGAAAGTTTTTAA-ATCAAAATTCGC
1 TTTTACAATAAAATTGCTTTCCATTTGAAAG--TTCAAGATCAAAATTCGC
* *
77645 TTTTACAATAAAATTGCTTCCCATTTGAGAGTTCAAGATCAAAATTCGC
1 TTTTACAATAAAATTGCTTTCCATTTGAAAGTTCAAGATCAAAATTCGC
* * ** * *
77694 TTTT-CAAAGTAAGATTGCATTCCATTTGTGAGTCCAAGATCGAAATTCGC
1 TTTTAC-AA-TAAAATTGCTTTCCATTTGAAAGTTCAAGATCAAAATTCGC
77744 TTTT
1 TTTT
77748 CGAAGGGCAT
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
48 5 0.05
49 18 0.20
50 68 0.75
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (49 bp):
TTTTACAATAAAATTGCTTTCCATTTGAAAGTTCAAGATCAAAATTCGC
Found at i:78206 original size:15 final size:15
Alignment explanation
Indices: 78186--78216 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
78176 ACAGAGGTTG
78186 AAAGAAAACAATTAA
1 AAAGAAAACAATTAA
*
78201 AAAGAAAGCAATTAA
1 AAAGAAAACAATTAA
78216 A
1 A
78217 CTAGAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAGAAAACAATTAA
Found at i:79624 original size:19 final size:18
Alignment explanation
Indices: 79591--79626 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
79581 TTGAAATAAT
79591 TCTTCAATAATCTTCAAG
1 TCTTCAATAATCTTCAAG
*
79609 TCTTCAAATTATCTTCAA
1 TCTTC-AATAATCTTCAA
79627 TAAATCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (18 bp):
TCTTCAATAATCTTCAAG
Found at i:80288 original size:50 final size:50
Alignment explanation
Indices: 80213--80346 Score: 232
Period size: 50 Copynumber: 2.7 Consensus size: 50
80203 AATGCTTTCA
* * *
80213 CTTTTCCATAAGTCAAACGCGTTTCCATACGAGTCAATTAGCAACATAGG
1 CTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAATTAGCAACATAGG
80263 CTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAATTAGCAACATAGG
1 CTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAATTAGCAACATAGG
*
80313 CTTTTCCACAAGCCAAGCTCGTTTCCATACGAGT
1 CTTTTCCACAAGCCAAACTCGTTTCCATACGAGT
80347 TAGTTCAAAC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (50 bp):
CTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAATTAGCAACATAGG
Found at i:80392 original size:69 final size:69
Alignment explanation
Indices: 80311--80757 Score: 691
Period size: 69 Copynumber: 6.5 Consensus size: 69
80301 TAGCAACATA
* * *
80311 GGCTTTTCCACAAGCCAAGCTCGTTTCCATACGAGTTAGTTCAAACCTTGGTTCCATCCAAGTAG
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAACCTTGGTTCCATCCAAGCAG
80376 CAGG
66 CAGG
*
80380 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAACCTTGATTCCATCCAAGCAG
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAACCTTGGTTCCATCCAAGCAG
80445 CAGG
66 CAGG
*
80449 GGCTTTTCCGCAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAACCTTGGTTCCATCCAAGCAG
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAACCTTGGTTCCATCCAAGCAG
80514 CAGG
66 CAGG
* *
80518 GGCTTTTCCACAAGCCAAACTCGTTTCCTTATGAGTCAGTTCAAACCTTGGTTCCATCCAAGCAG
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAACCTTGGTTCCATCCAAGCAG
*
80583 CAAG
66 CAGG
80587 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAACCTTGGTTCCATCCAAGCAG
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAACCTTGGTTCCATCCAAGCAG
80652 CAGG
66 CAGG
* * ** * *
80656 CGCTTTTCCACAAGCCAAACTCGTTTCCATATGAGTCAGTTTTAGCCTTGGTTTCATCCAAGCCA
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAACCTTGGTTCCATCCAAG-CA
**
80721 -CATA
65 GCAGG
* * *
80725 GACCTTTCCACAAGCCACA-TCCGTTTCCATACG
1 GGCTTTTCCACAAGCCAAACT-CGTTTCCATACG
80758 GTGCATTACC
Statistics
Matches: 350, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
68 1 0.00
69 347 0.99
70 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (69 bp):
GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAACCTTGGTTCCATCCAAGCAG
CAGG
Found at i:80899 original size:50 final size:51
Alignment explanation
Indices: 80766--80923 Score: 248
Period size: 51 Copynumber: 3.1 Consensus size: 51
80756 CGGTGCATTA
80766 CCTTTTCAAGATCGAATTGGAAGACA-TTCCAAAGGATAAGCAGAAGACGGT
1 CCTTTTCAAGATCGAATTGGAAGACAGTT-CAAAGGATAAGCAGAAGACGGT
80817 CCTTTTCAAGATCGAATTGGAAGACAGTTCAAAGGATAAGCAGAAGACGGT
1 CCTTTTCAAGATCGAATTGGAAGACAGTTCAAAGGATAAGCAGAAGACGGT
** * * *
80868 CCTTTT-AAGATTAAATTGGAAGACAGTTCAAAGGATATGCGGAAGATGGT
1 CCTTTTCAAGATCGAATTGGAAGACAGTTCAAAGGATAAGCAGAAGACGGT
80918 CCTTTT
1 CCTTTT
80924 TATATTTGAA
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
50 45 0.45
51 54 0.53
52 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (51 bp):
CCTTTTCAAGATCGAATTGGAAGACAGTTCAAAGGATAAGCAGAAGACGGT
Found at i:80949 original size:51 final size:49
Alignment explanation
Indices: 80779--80951 Score: 204
Period size: 51 Copynumber: 3.4 Consensus size: 49
80769 TTTCAAGATC
*
80779 GAATTGGAAGAC-ATTCCAAAGGATAAGCAGAAGACGGTCCTTTTCAAGATC
1 GAATTGGAAGACAATT-CAAAGGATAAGCAGAAGACGGTCCTTTT-AA-ATT
*
80830 GAATTGGAAGACAGTTCAAAGGATAAGCAGAAGACGGTCCTTTTAAGATT
1 GAATTGGAAGACAATTCAAAGGATAAGCAGAAGACGGTCCTTTTAA-ATT
* * * * * *
80880 AAATTGGAAGACAGTTCAAAGGATATGCGGAAGATGGTCCTTTTTATATTT
1 GAATTGGAAGACAATTCAAAGGATAAGCAGAAGACGGTCC-TTTTA-AATT
*
80931 GAATTCGAAGACAATTCAAAG
1 GAATTGGAAGACAATTCAAAG
80952 AAGTTGATCG
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
50 41 0.38
51 65 0.60
52 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (49 bp):
GAATTGGAAGACAATTCAAAGGATAAGCAGAAGACGGTCCTTTTAAATT
Found at i:80949 original size:101 final size:102
Alignment explanation
Indices: 80766--80951 Score: 243
Period size: 101 Copynumber: 1.8 Consensus size: 102
80756 CGGTGCATTA
*
80766 CCTTTTCAAGATCGAATTGGAAGACATTCCAAAGGATAAGCAGAAGACGGTCCTTTTCAAGATCG
1 CCTTTTCAAGATCAAATTGGAAGACATTCCAAAGGATAAGCAGAAGACGGTCCTTTTCAAGATCG
* *
80831 AATTGGAAGACAGTTCAAAGGATAAGCAGAAGACGGT
66 AATTCGAAGACAATTCAAAGGATAAGCAGAAGACGGT
* * * * * *
80868 CCTTTT-AAGATTAAATTGGAAGACAGTT-CAAAGGATATGCGGAAGATGGTCCTTTTTATA-TT
1 CCTTTTCAAGATCAAATTGGAAGACA-TTCCAAAGGATAAGCAGAAGACGGTCCTTTTCA-AGAT
*
80930 TGAATTCGAAGACAATTCAAAG
64 CGAATTCGAAGACAATTCAAAG
80952 AAGTTGATCG
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
101 63 0.88
102 9 0.12
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (102 bp):
CCTTTTCAAGATCAAATTGGAAGACATTCCAAAGGATAAGCAGAAGACGGTCCTTTTCAAGATCG
AATTCGAAGACAATTCAAAGGATAAGCAGAAGACGGT
Found at i:84040 original size:2 final size:2
Alignment explanation
Indices: 84033--84073 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
84023 ATACACATAC
* * *
84033 AT AT AT AT AT AT AT AT AT AG AT AT TT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84074 AATTATCTCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:84833 original size:30 final size:29
Alignment explanation
Indices: 84755--84833 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
84745 TAAAAGTACA
* **
84755 AAATTTGTCCCTCAAGTGGAGCGAAAATAGC
1 AAATTAGTCCCTCAAGT-GA-AAAAAATAGC
*
84786 AAATTGGTCCCTCAAGTGAAAAAAATATGC
1 AAATTAGTCCCTCAAGTGAAAAAAATA-GC
* *
84816 AATTTAGTCCCTGAAGTG
1 AAATTAGTCCCTCAAGTG
84834 GAGTTAATTG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 6 0.15
30 19 0.46
31 16 0.39
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (29 bp):
AAATTAGTCCCTCAAGTGAAAAAAATAGC
Found at i:85074 original size:30 final size:31
Alignment explanation
Indices: 85012--85086 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
85002 AAATTTGGTG
*
85012 AGGGACCCAATTGCTCAATTAACTCAACTTC
1 AGGGACCCAATTGCTCAACTAACTCAACTTC
* *
85043 AGGGACTCAATTGCTC-ACTAAGTTC-ACTTC
1 AGGGACCCAATTGCTCAACTAA-CTCAACTTC
*
85073 AGGGACCCATTTGC
1 AGGGACCCAATTGC
85087 ACATTTGCCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 21 0.55
31 17 0.45
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (31 bp):
AGGGACCCAATTGCTCAACTAACTCAACTTC
Found at i:88385 original size:79 final size:79
Alignment explanation
Indices: 88254--88600 Score: 509
Period size: 79 Copynumber: 4.4 Consensus size: 79
88244 CCAACAAAAC
* *
88254 TGACGGTTGAACACCTAAA-CTAGTGTCCCCGTATAACTAATAAAGAGGACGAACGTCCCGTATG
1 TGACGGTTGAACACCTAAACCGA-TGTCCCCGTATAACTAATAAAGAGGACGAACGTCCCCTATG
*
88318 AGGCGTTATCTCTAA
65 AGGCGTTACCTCTAA
88333 TGACGGTTGAACACCTAAACCGATGTCCCCGTATAACTAATAAAGAGGACGAACGTCCCCTATGA
1 TGACGGTTGAACACCTAAACCGATGTCCCCGTATAACTAATAAAGAGGACGAACGTCCCCTATGA
88398 GGCGTTACCTCTAA
66 GGCGTTACCTCTAA
* * *
88412 AGACGGTTGAACACCTATACTCG-TATCCCCGTATAACTAATAAAGAGGACGAACGTCCCCTATG
1 TGACGGTTGAACACCTAAAC-CGATGTCCCCGTATAACTAATAAAGAGGACGAACGTCCCCTATG
88476 AGGCGTTACCTCTAA
65 AGGCGTTACCTCTAA
* * * * *
88491 AGACGGTTGAACACCTAAACTGGTGTCCCCGTATAACTAATACAGAGGACGAACGCCCCCTATGA
1 TGACGGTTGAACACCTAAACCGATGTCCCCGTATAACTAATAAAGAGGACGAACGTCCCCTATGA
*
88556 GGCGTTTCCCTCTAA
66 GGCG-TTACCTCTAA
* * * *
88571 TGACGATTGAACACCAAAACTGGTGTCCCC
1 TGACGGTTGAACACCTAAACCGATGTCCCC
88601 ATACAACATA
Statistics
Matches: 249, Mismatches: 15, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
78 1 0.00
79 208 0.84
80 40 0.16
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (79 bp):
TGACGGTTGAACACCTAAACCGATGTCCCCGTATAACTAATAAAGAGGACGAACGTCCCCTATGA
GGCGTTACCTCTAA
Found at i:89642 original size:44 final size:44
Alignment explanation
Indices: 89592--89675 Score: 168
Period size: 44 Copynumber: 1.9 Consensus size: 44
89582 TGGTCTGCAA
89592 ATAAGTAGTAGGAATGAAAGAAACGAAAGGATGACGATAAAAGC
1 ATAAGTAGTAGGAATGAAAGAAACGAAAGGATGACGATAAAAGC
89636 ATAAGTAGTAGGAATGAAAGAAACGAAAGGATGACGATAA
1 ATAAGTAGTAGGAATGAAAGAAACGAAAGGATGACGATAA
89676 TAACCCAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.52, C:0.06, G:0.27, T:0.14
Consensus pattern (44 bp):
ATAAGTAGTAGGAATGAAAGAAACGAAAGGATGACGATAAAAGC
Found at i:93433 original size:124 final size:128
Alignment explanation
Indices: 93275--93528 Score: 356
Period size: 124 Copynumber: 2.0 Consensus size: 128
93265 CATTATTTAA
* * *
93275 ACTTTTATAATTTCACTAAACTAAAAACTCTATTTTTATTTAATTAAATCTAATAT-CTT-T-GT
1 ACTTTTACAATTTCACTAAACTAAAAACTCTATTTTTATTTAATTAAAACTAATATCCTTATACT
*
93337 A-ATTTTTACCATTTTACTATCTTAATTAAAAAACCTTATATATATTAGAA-TTTTTTAAATAT
66 ATATTTTTACCATTTTAATATCTTAATTAAAAAA-CTTATATATATTAGAATTTTTTTAAATAT
* * *
93399 ACTTTTACAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAAACTAATATCCTTATACC
1 ACTTTTACAATTTCACTAAACTAAAAACTCTATTTTTATTTAATTAAAACTAATATCCTTATA-C
*
93464 TATTTTATTTTTACCATTTTAATATTTTAATTAAAAAACTTATATATATTAGAATTTTTTTAAAT
65 TA---TATTTTTACCATTTTAATATCTTAATTAAAAAACTTATATATATTAGAATTTTTTTAAAT
93529 TTATTTCTTA
Statistics
Matches: 113, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
124 51 0.45
125 3 0.03
126 1 0.01
128 2 0.02
131 16 0.14
132 40 0.35
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (128 bp):
ACTTTTACAATTTCACTAAACTAAAAACTCTATTTTTATTTAATTAAAACTAATATCCTTATACT
ATATTTTTACCATTTTAATATCTTAATTAAAAAACTTATATATATTAGAATTTTTTTAAATAT
Done.