Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold562
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: 114374
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Found at i:5326 original size:65 final size:64
Alignment explanation
Indices: 5227--5382 Score: 199
Period size: 65 Copynumber: 2.4 Consensus size: 64
5217 CTTACAACAT
* * *
5227 TATCTTTCAAGGCTAAGATAGAAACATCCATATCTTTT-CAAAGGGCTAAAATAGAACCTCTTCC
1 TATCTTTCAAGGCTAAGATAG-AACCTCCATATCTTTTACAAA-GGCTAAAATAGAACCTCTGCA
5291 C
64 C
* * *
5292 TATCTTTTGCAA-GCTAAGATAGAACCTCCCTATCTTTTACAAAGGTTAAGATAGAACCTCTGCA
1 TATC-TTT-CAAGGCTAAGATAGAACCTCCATATCTTTTACAAAGGCTAAAATAGAACCTCTGCA
5356 C
64 C
*
5357 TATCTTTCAAGGCTAAGATGGAACCT
1 TATCTTTCAAGGCTAAGATAGAACCT
5383 ATCAATCACT
Statistics
Matches: 80, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
63 3 0.04
64 17 0.21
65 40 0.50
66 17 0.21
67 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (64 bp):
TATCTTTCAAGGCTAAGATAGAACCTCCATATCTTTTACAAAGGCTAAAATAGAACCTCTGCAC
Found at i:5374 original size:32 final size:31
Alignment explanation
Indices: 5227--5382 Score: 142
Period size: 32 Copynumber: 4.9 Consensus size: 31
5217 CTTACAACAT
*
5227 TATC-TTTCAAGGCTAAGATAGAAACATCCA-
1 TATCTTTTCAAGGCTAAGATAG-AACCTCCAC
* *
5257 TATCTTTTCAAAGGGCTAAAATAGAACCTCTTCCC
1 TATCTTTTC-AA-GGCTAAGATAGAACCTC--CAC
5292 TATCTTTTGCAA-GCTAAGATAGAACCTCC-C
1 TATCTTTT-CAAGGCTAAGATAGAACCTCCAC
*
5322 TATCTTTTACAAAGGTTAAGATAGAACCTCTGCAC
1 TATCTTTT-C-AAGGCTAAGATAGAACCTC--CAC
*
5357 TATC-TTTCAAGGCTAAGATGGAACCT
1 TATCTTTTCAAGGCTAAGATAGAACCT
5383 ATCAATCACT
Statistics
Matches: 106, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
30 14 0.13
31 7 0.07
32 38 0.36
33 26 0.25
34 5 0.05
35 15 0.14
36 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (31 bp):
TATCTTTTCAAGGCTAAGATAGAACCTCCAC
Found at i:10283 original size:32 final size:32
Alignment explanation
Indices: 10235--10303 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
10225 CTTCGTAACT
*
10235 ATACATTATATCGATACAA-AATATATGTATCG
1 ATACATTATATAGATACAATAAT-TATGTATCG
* *
10267 ATACATTGTATAGATACAATACTTATGTATCG
1 ATACATTATATAGATACAATAATTATGTATCG
10299 ATACA
1 ATACA
10304 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 31 0.94
33 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (32 bp):
ATACATTATATAGATACAATAATTATGTATCG
Found at i:11887 original size:16 final size:16
Alignment explanation
Indices: 11866--11904 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
11856 TTAAAGAAAG
11866 GTTGCCAGCAGCCTTT
1 GTTGCCAGCAGCCTTT
11882 GTTGCCAGCAGCCTTT
1 GTTGCCAGCAGCCTTT
11898 GTTGCCA
1 GTTGCCA
11905 ACTGCTGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.13, C:0.31, G:0.26, T:0.31
Consensus pattern (16 bp):
GTTGCCAGCAGCCTTT
Found at i:12451 original size:44 final size:43
Alignment explanation
Indices: 12332--12454 Score: 201
Period size: 44 Copynumber: 2.8 Consensus size: 43
12322 GGTGTTTTTA
*
12332 TTATTTATTTTTCGTGGATTGGCATAGCCACCCAATTGCATAT
1 TTATTTATTTTTCGTGGATTGGCATAGCCACTCAATTGCATAT
*
12375 TTATTTATTTTTCCGTGGATTAGCATAGCCACTCAATTGCATAT
1 TTATTTATTTTT-CGTGGATTGGCATAGCCACTCAATTGCATAT
*
12419 TTATTTATTTTTCTATGGATTGGCATAGCCACTCAA
1 TTATTTATTTTTC-GTGGATTGGCATAGCCACTCAA
12455 ATTCTAACAA
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 13 0.18
44 61 0.82
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (43 bp):
TTATTTATTTTTCGTGGATTGGCATAGCCACTCAATTGCATAT
Found at i:17125 original size:44 final size:43
Alignment explanation
Indices: 17062--17184 Score: 158
Period size: 44 Copynumber: 2.8 Consensus size: 43
17052 GATGTTTTTA
*
17062 TTATTTATTTTTCGTGGATTGACATAGCCACCCAATTGCATAT
1 TTATTTATTTTTCATGGATTGACATAGCCACCCAATTGCATAT
* * *
17105 TTATTTATTTTTTCATGGATT-AGCATTGGCATCCAATTGCATAT
1 TTATTTA-TTTTTCATGGATTGA-CATAGCCACCCAATTGCATAT
* *
17149 TTATTTATTTTTCTATAGATTGACATAGCTACCCAA
1 TTATTTATTTTTC-ATGGATTGACATAGCCACCCAA
17185 ATTCTAACAA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
43 14 0.21
44 52 0.78
45 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (43 bp):
TTATTTATTTTTCATGGATTGACATAGCCACCCAATTGCATAT
Found at i:17975 original size:9 final size:10
Alignment explanation
Indices: 17947--17980 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
17937 TTATAAATTT
17947 TTAAAAGAATA
1 TTAAAA-AATA
17958 TTAAAAAATA
1 TTAAAAAATA
17968 TTAAAAATATA
1 TTAAAAA-ATA
17979 TT
1 TT
17981 TAATTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 11 0.50
11 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (10 bp):
TTAAAAAATA
Found at i:19463 original size:32 final size:33
Alignment explanation
Indices: 19427--19490 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
19417 TATATTTTTA
**
19427 TTTTTTAAAATTTAATTTAT-AATAATTTAATT
1 TTTTTTAAAATTTAAAATATAAATAATTTAATT
* *
19459 TTTTTTTAATTTTAAAATATAAATAATTTAAT
1 TTTTTTAAAATTTAAAATATAAATAATTTAAT
19491 ATATATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
TTTTTTAAAATTTAAAATATAAATAATTTAATT
Found at i:19518 original size:36 final size:33
Alignment explanation
Indices: 19423--19525 Score: 102
Period size: 33 Copynumber: 3.0 Consensus size: 33
19413 ATATTATATT
* *
19423 TTTATTTTTTAAAATTTAATTTATAATAATTTAA
1 TTTATTTTTTAATATTTAATATA-AATAATTTAA
19457 TTT-TTTTTTAAT-TTTAAAATATAAATAATTTAA
1 TTTATTTTTTAATATTT--AATATAAATAATTTAA
*
19490 TATATATTTTTTAATATTTATATCTAAATATATTTA
1 T-T-TATTTTTTAATATTTA-ATATAAATA-ATTTA
19526 TTTTTTATAT
Statistics
Matches: 58, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
32 3 0.05
33 19 0.33
34 9 0.16
35 2 0.03
36 17 0.29
37 8 0.14
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (33 bp):
TTTATTTTTTAATATTTAATATAAATAATTTAA
Found at i:19577 original size:18 final size:18
Alignment explanation
Indices: 19556--19594 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
19546 TATAATCTTT
19556 ATATAAAATATAAAATTA
1 ATATAAAATATAAAATTA
* * *
19574 ATATATATTATATAATTA
1 ATATAAAATATAAAATTA
19592 ATA
1 ATA
19595 AATAAATCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATAAAATATAAAATTA
Found at i:21805 original size:13 final size:13
Alignment explanation
Indices: 21784--21817 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
21774 GAGAGATACA
*
21784 AGAGAGGATGCTTG
1 AGAG-GGATACTTG
21798 AGAGGGATACTTG
1 AGAGGGATACTTG
21811 AGAGGGA
1 AGAGGGA
21818 GGAGGGAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.32, C:0.06, G:0.44, T:0.18
Consensus pattern (13 bp):
AGAGGGATACTTG
Found at i:26467 original size:27 final size:27
Alignment explanation
Indices: 26406--26503 Score: 85
Period size: 27 Copynumber: 3.7 Consensus size: 27
26396 TAAAAATTAG
* * *
26406 CCACAAATTTTGACAAACAACATG---
1 CCACAATTTTTGACAAACAAAAAGAAA
* *
26430 CCACTATTTTTGACAAATAAAAAGAAA
1 CCACAATTTTTGACAAACAAAAAGAAA
* * *
26457 CCACCATTTTTGACAAACACAAAGTAA
1 CCACAATTTTTGACAAACAAAAAGAAA
* *
26484 CCATAAATTTTGACAAACAA
1 CCACAATTTTTGACAAACAA
26504 TGGGTGGTTT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
24 19 0.33
27 39 0.67
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.23
Consensus pattern (27 bp):
CCACAATTTTTGACAAACAAAAAGAAA
Found at i:29465 original size:143 final size:142
Alignment explanation
Indices: 29216--29476 Score: 391
Period size: 143 Copynumber: 1.8 Consensus size: 142
29206 CAAAAATCAC
* *
29216 ATTTCGTACCTTAATAAAGAACCAAAAAGATACAAAAAATTTTGAAGATTTCTGTACCCCTAAGG
1 ATTTCGTACCTTAATAAAGAACCAAAAAGATACAAAAAATTTTGAAGATTTCTATACCCCTAAGA
* * *
29281 AAAATCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTTTGAT
66 AAAATCATAGGAATATCAAAAATCTTAAAAAATTAAGATAATAA-TTTTATTTAATTTTTTTGAT
29346 TTCTAAAAAATTT
130 TTCTAAAAAATTT
* * * * *
29359 ATTTCGTACCTTAATAGAA-AACCGAAAAGATACGAAAAGTTTTGAAGATTTCTATGCCCCTACG
1 ATTTCGTACCTTAATA-AAGAACCAAAAAGATACAAAAAATTTTGAAGATTTCTATACCCCTAAG
29423 AAAAA-CTATAGGAATATCAAAAATCTTAAAAAATTAAGATAATAATTTTATTTA
65 AAAAATC-ATAGGAATATCAAAAATCTTAAAAAATTAAGATAATAATTTTATTTA
29477 GTGATCAAAT
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
142 10 0.09
143 94 0.89
144 2 0.02
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (142 bp):
ATTTCGTACCTTAATAAAGAACCAAAAAGATACAAAAAATTTTGAAGATTTCTATACCCCTAAGA
AAAATCATAGGAATATCAAAAATCTTAAAAAATTAAGATAATAATTTTATTTAATTTTTTTGATT
TCTAAAAAATTT
Found at i:30403 original size:14 final size:14
Alignment explanation
Indices: 30385--30429 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
30375 TAGCTTAATT
30385 TTTTTATTT-TTTC
1 TTTTTATTTCTTTC
*
30398 TCTTTTTTTTCTTTC
1 T-TTTTATTTCTTTC
*
30413 TTTTTCTTTCTTTC
1 TTTTTATTTCTTTC
30427 TTT
1 TTT
30430 CTCTCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 1 0.04
14 22 0.79
15 5 0.18
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTATTTCTTTC
Found at i:30404 original size:10 final size:9
Alignment explanation
Indices: 30383--30445 Score: 58
Period size: 9 Copynumber: 7.1 Consensus size: 9
30373 TTTAGCTTAA
*
30383 TTTTTTTAT
1 TTTTTTTCT
*
30392 TTTTTCTCT
1 TTTTTTTCT
30401 TTTTTTTCT
1 TTTTTTTCT
30410 TTCTTTTTC-
1 TT-TTTTTCT
*
30419 TTTCTTTC-
1 TTTTTTTCT
* *
30427 TTTCTCTCT
1 TTTTTTTCT
30436 TTTTTTTCT
1 TTTTTTTCT
30445 T
1 T
30446 GCTTGCTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
8 12 0.27
9 27 0.60
10 6 0.13
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:30502 original size:13 final size:13
Alignment explanation
Indices: 30484--30509 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30474 TTGCTCCCTA
30484 TTTATAGTGGGAG
1 TTTATAGTGGGAG
30497 TTTATAGTGGGAG
1 TTTATAGTGGGAG
30510 GGGATGGCAA
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:0.23, C:0.00, G:0.38, T:0.38
Consensus pattern (13 bp):
TTTATAGTGGGAG
Found at i:30804 original size:13 final size:13
Alignment explanation
Indices: 30786--30810 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30776 GTAAATAAAT
30786 TTAAAATTAAAAG
1 TTAAAATTAAAAG
30799 TTAAAATTAAAA
1 TTAAAATTAAAA
30811 TCAATTCTCA
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
TTAAAATTAAAAG
Found at i:30893 original size:15 final size:15
Alignment explanation
Indices: 30873--30905 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
30863 TAATATTGGT
30873 AAAATTT-TATGAAAA
1 AAAATTTGTAT-AAAA
30888 AAAATTTGTATAAAA
1 AAAATTTGTATAAAA
30903 AAA
1 AAA
30906 TCAATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (15 bp):
AAAATTTGTATAAAA
Found at i:38470 original size:16 final size:16
Alignment explanation
Indices: 38451--38488 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
38441 CTTGAAACCG
*
38451 AAATGATCTGAATCCA
1 AAATGATCTGAACCCA
*
38467 AAATGATCTGAACCCG
1 AAATGATCTGAACCCA
38483 AAATGA
1 AAATGA
38489 CCGAACTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (16 bp):
AAATGATCTGAACCCA
Found at i:39809 original size:2 final size:2
Alignment explanation
Indices: 39802--39832 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
39792 AAGTTAGCAA
39802 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
39833 ATAAACAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:40144 original size:20 final size:19
Alignment explanation
Indices: 40119--40186 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
40109 TCAGTCAATT
*
40119 TATTTAAATAGTATTTTAAA
1 TATTTAAATA-AATTTTAAA
40139 TATTTAAATAAAAATTTT-AA
1 TATTTAAAT--AAATTTTAAA
*
40159 TA-TTAAATAAATATTAAA
1 TATTTAAATAAATTTTAAA
40177 TATATTAAAT
1 TAT-TTAAAT
40187 TATTAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
17 6 0.15
18 4 0.10
19 6 0.15
20 19 0.46
21 5 0.12
22 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (19 bp):
TATTTAAATAAATTTTAAA
Found at i:40196 original size:20 final size:20
Alignment explanation
Indices: 40158--40196 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
40148 AAAAATTTTA
*
40158 ATATTAAATAAATATTAAAT
1 ATATTAAATAAATAATAAAT
* *
40178 ATATTAAATTATTAATAAA
1 ATATTAAATAAATAATAAA
40197 AGCATGCATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATTAAATAAATAATAAAT
Found at i:42366 original size:34 final size:34
Alignment explanation
Indices: 42311--42459 Score: 147
Period size: 34 Copynumber: 4.4 Consensus size: 34
42301 GGTTTGGTAA
* **
42311 AAACCACCAAATCACCCATTTAATCAACAATAGC
1 AAACCACCAAATCTCTTATTTAATCAACAATAGC
* *
42345 AAACTACCAAATCTCTTATTTAGTCAACAATAGC
1 AAACCACCAAATCTCTTATTTAATCAACAATAGC
* * ** * * *
42379 AAACCATCAAATCACCAATTTAATCAATAATGGT
1 AAACCACCAAATCTCTTATTTAATCAACAATAGC
* * *
42413 AAACTACCAAATCT-TTCATTTAGTCAACAATGGC
1 AAACCACCAAATCTCTT-ATTTAATCAACAATAGC
42447 AAACCACCAAATC
1 AAACCACCAAATC
42460 AATAATGGCA
Statistics
Matches: 91, Mismatches: 23, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
34 91 1.00
ACGTcount: A:0.44, C:0.26, G:0.05, T:0.24
Consensus pattern (34 bp):
AAACCACCAAATCTCTTATTTAATCAACAATAGC
Found at i:42383 original size:68 final size:68
Alignment explanation
Indices: 42311--42460 Score: 230
Period size: 68 Copynumber: 2.2 Consensus size: 68
42301 GGTTTGGTAA
*
42311 AAACCACCAAATCACCCATTTAATCAACAATAGCAAACTACCAAATCTCTT-ATTTAGTCAACAA
1 AAACCACCAAATCACCAATTTAATCAACAATAGCAAACTACCAAATCT-TTCATTTAGTCAACAA
42375 TAGC
65 TAGC
* * * *
42379 AAACCATCAAATCACCAATTTAATCAATAATGGTAAACTACCAAATCTTTCATTTAGTCAACAAT
1 AAACCACCAAATCACCAATTTAATCAACAATAGCAAACTACCAAATCTTTCATTTAGTCAACAAT
*
42444 GGC
66 AGC
42447 AAACCACCAAATCA
1 AAACCACCAAATCA
42461 ATAATGGCAA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
67 2 0.03
68 72 0.97
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.24
Consensus pattern (68 bp):
AAACCACCAAATCACCAATTTAATCAACAATAGCAAACTACCAAATCTTTCATTTAGTCAACAAT
AGC
Found at i:42466 original size:22 final size:22
Alignment explanation
Indices: 42436--42482 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
42426 TTTCATTTAG
42436 TCAACAATGGCAAACCACCAAA
1 TCAACAATGGCAAACCACCAAA
* *
42458 TCAATAATGGCAAACTACCAAA
1 TCAACAATGGCAAACCACCAAA
42480 TCA
1 TCA
42483 CTATTTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.28, G:0.09, T:0.15
Consensus pattern (22 bp):
TCAACAATGGCAAACCACCAAA
Found at i:46958 original size:34 final size:34
Alignment explanation
Indices: 46920--47083 Score: 181
Period size: 34 Copynumber: 4.9 Consensus size: 34
46910 GGTTTAGTAA
46920 AAACTACCAAATCACCTATTTAATCAACAAT-AGC
1 AAACTACCAAATCACCTATTTAATCAACAATGA-C
* ** * *
46954 AAACTATCAAATTTCCCATTTAGTCAACAATGAC
1 AAACTACCAAATCACCTATTTAATCAACAATGAC
**
46988 AAACTACCAAATCA-CTAATTTAATCAACAATGGT
1 AAACTACCAAATCACCT-ATTTAATCAACAATGAC
*** *
47022 AAACTACCAAATCTTTTATTTAGTCAACAATGAC
1 AAACTACCAAATCACCTATTTAATCAACAATGAC
*
47056 AAACTACCAAATCATC-ATTTAATCAACA
1 AAACTACCAAATCACCTATTTAATCAACA
47084 TATTAGAGTA
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
33 12 0.11
34 93 0.87
35 2 0.02
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.27
Consensus pattern (34 bp):
AAACTACCAAATCACCTATTTAATCAACAATGAC
Found at i:47033 original size:68 final size:67
Alignment explanation
Indices: 46920--47083 Score: 233
Period size: 68 Copynumber: 2.4 Consensus size: 67
46910 GGTTTAGTAA
*
46920 AAACTACCAAATCACCTATTTAATCAACAATAGCAAACTATCAAAT-TTCCCATTTAGTCAACAA
1 AAACTACCAAATCA-CTATTTAATCAACAATAGCAAACTACCAAATCTT-CCATTTAGTCAACAA
46984 TGAC
64 TGAC
* * **
46988 AAACTACCAAATCACTAATTTAATCAACAATGGTAAACTACCAAATCTTTTATTTAGTCAACAAT
1 AAACTACCAAATCACT-ATTTAATCAACAATAGCAAACTACCAAATCTTCCATTTAGTCAACAAT
47053 GAC
65 GAC
47056 AAACTACCAAATCA-TCATTTAATCAACA
1 AAACTACCAAATCACT-ATTTAATCAACA
47084 TATTAGAGTA
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
67 15 0.17
68 71 0.81
69 2 0.02
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.27
Consensus pattern (67 bp):
AAACTACCAAATCACTATTTAATCAACAATAGCAAACTACCAAATCTTCCATTTAGTCAACAATG
AC
Found at i:50603 original size:17 final size:16
Alignment explanation
Indices: 50581--50614 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
50571 TAGGGATATA
50581 TTCCTTTTAATATTTTT
1 TTCCTTTTAAT-TTTTT
*
50598 TTCCTTTTCATTTTTT
1 TTCCTTTTAATTTTTT
50614 T
1 T
50615 ATAGGTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCCTTTTAATTTTTT
Found at i:51334 original size:9 final size:10
Alignment explanation
Indices: 51306--51338 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
51296 TAATTACATT
51306 ATATAAATATA
1 ATATAAA-ATA
51317 ATATAAAATA
1 ATATAAAATA
51327 AT-TAAAATA
1 ATATAAAATA
51336 ATA
1 ATA
51339 ATATAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 5 0.24
11 7 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
ATATAAAATA
Found at i:54296 original size:2 final size:2
Alignment explanation
Indices: 54289--54323 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
54279 TGCTTGAACT
54289 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
54324 ATATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:54328 original size:2 final size:2
Alignment explanation
Indices: 54323--54347 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
54313 TCTCTCTCTC
54323 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
54348 CTTTGTTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:54578 original size:14 final size:14
Alignment explanation
Indices: 54550--54599 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
54540 ACCTATAATT
54550 TTAAAATAA-ATTA
1 TTAAAATAATATTA
54563 TTAAAATAATATTA
1 TTAAAATAATATTA
*
54577 TTTTAAAATTAT-TTA
1 --TTAAAATAATATTA
54592 TTAAAATA
1 TTAAAATA
54600 TTACTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 16 0.50
14 4 0.12
15 3 0.09
16 9 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAAAATAATATTA
Found at i:54581 original size:29 final size:29
Alignment explanation
Indices: 54547--54610 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
54537 AGCACCTATA
*
54547 ATTTTAAAATAAATTATTAAAATAATATT
1 ATTTTAAAATAAATTATTAAAATAATACT
* * *
54576 ATTTTAAAATTATTTATTAAAATATTACT
1 ATTTTAAAATAAATTATTAAAATAATACT
54605 ATTTTA
1 ATTTTA
54611 TTTACGTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
ATTTTAAAATAAATTATTAAAATAATACT
Found at i:55712 original size:21 final size:22
Alignment explanation
Indices: 55670--55712 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
55660 ATTTTAAATT
*
55670 TTTTAAAATATTTATCGTATAA
1 TTTTAAAATATTTATCATATAA
55692 TTTT-AAATATTT-TCATGATAA
1 TTTTAAAATATTTATCAT-ATAA
55713 AATACATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 12 0.63
22 4 0.21
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (22 bp):
TTTTAAAATATTTATCATATAA
Found at i:55778 original size:170 final size:166
Alignment explanation
Indices: 55580--55907 Score: 401
Period size: 170 Copynumber: 2.0 Consensus size: 166
55570 ATTAAGTTTA
* * * * ** *
55580 AAAGAAAAATATAAATTAACATTTTCGTATTAAAATATGACAGTTTCTTAATTCAAAAAATTAGT
1 AAAGAAAAAAATAAATTAACACTTTCGTATCAAAATATGACAGTTTATTAAGCCAAAAAA-TACT
* * *
55645 -TTTACATAATTATAGATTTTAAATTTTTTAAAATATTTATCGT-ATAATTTTAAATATTTTCAT
65 CTTTACATAATTATAGATTTT-AA-TTTTTAAAATATTTAT--TAAAAATTTTAAATATTTTAAA
* *
55708 GATAAAATACATTTA-TTAGATAAAAATTTATGATAACCCCT
126 AATAAAATACATTTAGTGA-ATAAAAATTTATGATAACCCCT
* * * *
55749 AAAGAAAAAAAGTAAATTGATACTTTCGTATCAAGATATGACAGTTTATTAAGCCAAAAAATCCT
1 AAAGAAAAAAA-TAAATTAACACTTTCGTATCAAAATATGACAGTTTATTAAGCCAAAAAATACT
* *
55814 CTTTACATAATTTTAGATTTTAATTTTTAAAATATTTATTAAAAATTTTATATATTTTAAAAATA
65 CTTTACATAATTATAGATTTTAATTTTTAAAATATTTATTAAAAATTTTAAATATTTTAAAAATA
*
55879 AAATATATTTAGTGAATAAAAATTTATGA
130 AAATACATTTAGTGAATAAAAATTTATGA
55908 AATAATAAAT
Statistics
Matches: 136, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
166 1 0.01
167 43 0.32
168 18 0.13
169 14 0.10
170 60 0.44
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (166 bp):
AAAGAAAAAAATAAATTAACACTTTCGTATCAAAATATGACAGTTTATTAAGCCAAAAAATACTC
TTTACATAATTATAGATTTTAATTTTTAAAATATTTATTAAAAATTTTAAATATTTTAAAAATAA
AATACATTTAGTGAATAAAAATTTATGATAACCCCT
Found at i:55884 original size:18 final size:18
Alignment explanation
Indices: 55841--55888 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
55831 TTTTAATTTT
55841 TAAAATAT-TTATTAAAAA
1 TAAAATATATT-TTAAAAA
***
55859 TTTTATATATTTTAAAAA
1 TAAAATATATTTTAAAAA
55877 TAAAATATATTT
1 TAAAATATATTT
55889 AGTGAATAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAAATATATTTTAAAAA
Found at i:56632 original size:20 final size:20
Alignment explanation
Indices: 56607--56794 Score: 169
Period size: 20 Copynumber: 8.8 Consensus size: 20
56597 TTTTACCCAG
56607 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
56627 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
56647 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
56667 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
56687 ATGTATCGATATATTCTGTTTTTTTATCCA
1 ATGTATCG--ATA--C----ATTTT-T-CA
56717 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * *
56738 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
56758 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
56778 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
56795 GTCTTTTTTC
Statistics
Matches: 139, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
20 110 0.79
21 2 0.01
22 4 0.03
23 4 0.03
24 1 0.01
27 1 0.01
28 3 0.02
29 4 0.03
30 2 0.01
31 8 0.06
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:56644 original size:12 final size:12
Alignment explanation
Indices: 56627--56680 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
56617 ACATTTTTCA
56627 ATGTATCGATAC
1 ATGTATCGATAC
56639 ATGTAT-G--A-
1 ATGTATCGATAC
56647 ATGTATCGATAC
1 ATGTATCGATAC
56659 ATGTAT-G--A-
1 ATGTATCGATAC
56667 ATGTATCGATAC
1 ATGTATCGATAC
56679 AT
1 AT
56681 TCTTCAATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
8 12 0.35
9 4 0.12
11 4 0.12
12 14 0.41
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:56726 original size:51 final size:50
Alignment explanation
Indices: 56667--56844 Score: 189
Period size: 51 Copynumber: 3.7 Consensus size: 50
56657 ACATGTATGA
*
56667 ATGTATCGATACATTCTTCAATGTATCGATATATTCTGTTTTTTTATCCAG
1 ATGTATCGATACATTCTTCAATGTATCGATACATT-TGTTTTTTTATCCAG
* *
56718 ATGTATCGATACATTTTTCAATGTATCGATACA--TG------TAT-GA-
1 ATGTATCGATACATTCTTCAATGTATCGATACATTTGTTTTTTTATCCAG
*
56758 ATGTATCGATACATTCTTCAATGTATCGATACATTTTGTCTTTTTT-CCCAG
1 ATGTATCGATACATTCTTCAATGTATCGATACA-TTTGT-TTTTTTATCCAG
* * *
56809 ATGTATCGATACATTTTTTAATATATCGATACATTT
1 ATGTATCGATACATTCTTCAATGTATCGATACATTT
56845 CATTAAAATT
Statistics
Matches: 106, Mismatches: 9, Indels: 25
0.76 0.06 0.18
Matches are distributed among these distances:
40 32 0.30
41 1 0.01
42 3 0.03
43 2 0.02
48 2 0.02
50 5 0.05
51 61 0.58
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (50 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATTTGTTTTTTTATCCAG
Found at i:56782 original size:91 final size:91
Alignment explanation
Indices: 56627--56842 Score: 344
Period size: 91 Copynumber: 2.4 Consensus size: 91
56617 ACATTTTTCA
* * *
56627 ATGTATCGATACATGTATGAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTA
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTA
* *
56692 TCGATATATTCTGT-TTTTTTATCCAG
66 TCGATACATTCTGTCTTTTTT-CCCAG
56718 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTA
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTA
*
56783 TCGATACATTTTGTCTTTTTTCCCAG
66 TCGATACATTCTGTCTTTTTTCCCAG
* *
56809 ATGTATCGATACATTTTTTAATATATCGATACAT
1 ATGTATCGATACATTTTTCAATGTATCGATACAT
56843 TTCATTAAAA
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
91 110 0.95
92 6 0.05
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (91 bp):
ATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTA
TCGATACATTCTGTCTTTTTTCCCAG
Found at i:57441 original size:20 final size:20
Alignment explanation
Indices: 57416--57558 Score: 126
Period size: 20 Copynumber: 6.8 Consensus size: 20
57406 TTTTACCCGG
57416 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
57436 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
57456 ATGTATCAATACATTTTTTTTTACCCA
1 ATGTATCGATACA----TTTTT---CA
*
57483 GATGTATCGATACATTTTTTA
1 -ATGTATCGATACATTTTTCA
* * * *
57504 ATTTATCGATACATGTATAA
1 ATGTATCGATACATTTTTCA
*
57524 ATGTATCGATGCATTCTTT-A
1 ATGTATCGATACATT-TTTCA
57544 ATGTATCGATACATT
1 ATGTATCGATACATT
57559 CTGTCTTTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
20 74 0.74
21 3 0.03
24 9 0.09
27 2 0.02
28 12 0.12
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:57471 original size:40 final size:40
Alignment explanation
Indices: 57416--57558 Score: 142
Period size: 40 Copynumber: 3.4 Consensus size: 40
57406 TTTTACCCGG
*
57416 ATGTATCGATACATTTTTCAATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCAATGTATCGATACATTCTTTA
* *
57456 ATGTATCAATACATTTTTTTTTACCCAGATGTATCGATACATTTTTTA
1 ATGTATCGATACA----TTTTT---CA-ATGTATCGATACATTCTTTA
* * * * *
57504 ATTTATCGATACATGTATAAATGTATCGATGCATTCTTTA
1 ATGTATCGATACATTTTTCAATGTATCGATACATTCTTTA
57544 ATGTATCGATACATT
1 ATGTATCGATACATT
57559 CTGTCTTTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
40 43 0.52
41 1 0.01
44 8 0.10
47 2 0.02
48 29 0.35
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (40 bp):
ATGTATCGATACATTTTTCAATGTATCGATACATTCTTTA
Found at i:59243 original size:11 final size:10
Alignment explanation
Indices: 59218--59247 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
59208 CCTACTAGAT
59218 AATTTTTCAA
1 AATTTTTCAA
59228 AATTTTTCAA
1 AATTTTTCAA
59238 ACATTTTTCA
1 A-ATTTTTCA
59248 TAAAAACTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (10 bp):
AATTTTTCAA
Found at i:59916 original size:97 final size:95
Alignment explanation
Indices: 59744--59930 Score: 209
Period size: 97 Copynumber: 1.9 Consensus size: 95
59734 ATTTTTATTT
* *
59744 ATCGGGGACACTTCAACCCCATTCCTCCGAGGGGATACTCCAATCCCGCTTTTAAACGCATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAATCCCGCTTTTAAAC-CATAAAA
* * *
59809 GTTTAAATTTTATTCTCACTTAAATTGTCATC
65 ATTAAAATTTT-TTCTCACTCAAATTGTCATC
* * * *
59841 ATCGGGGACACTCCAACCCCATTCCTCCGAAGGGGATACTTCAA-CCCTGTTTTTCAA-TA-AAA
1 ATCGGGGACACTCCAACCCCATTCCTCCG-AGGGGATACTCCAATCCC-GCTTTTAAACCATAAA
*
59903 AATTAAATCATTTTTTCTCTCTCAAATT
64 AATTAAA--ATTTTTTCTCACTCAAATT
59931 TTGAGTCATA
Statistics
Matches: 76, Mismatches: 10, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
95 7 0.09
96 13 0.17
97 36 0.47
98 20 0.26
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (95 bp):
ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAATCCCGCTTTTAAACCATAAAAA
TTAAAATTTTTTCTCACTCAAATTGTCATC
Found at i:62552 original size:16 final size:17
Alignment explanation
Indices: 62533--62567 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
62523 TAAAAAATTG
62533 ATTTAAT-AATTTAAAT
1 ATTTAATAAATTTAAAT
62549 ATTTAATAAATTTAAAT
1 ATTTAATAAATTTAAAT
62566 AT
1 AT
62568 CCGATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTAATAAATTTAAAT
Found at i:63955 original size:31 final size:31
Alignment explanation
Indices: 63913--63973 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
63903 AGTGTTAAAT
*
63913 ATTATTATATAT-TTAATATAAATAATATTTA
1 ATTATTATATATATT-ATAAAAATAATATTTA
* *
63944 ATTATTTTATATATTTTAAAAATAATATTT
1 ATTATTATATATATTATAAAAATAATATTT
63974 TTATATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
ATTATTATATATATTATAAAAATAATATTTA
Found at i:64017 original size:13 final size:13
Alignment explanation
Indices: 63999--64024 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63989 AATATGAGTC
63999 AAATATAAATATT
1 AAATATAAATATT
64012 AAATATAAATATT
1 AAATATAAATATT
64025 TAAAAAAAAT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATATAAATATT
Found at i:66535 original size:36 final size:33
Alignment explanation
Indices: 66493--66573 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
66483 TATAATAACA
66493 ATTTAAAAATATAATGAATAATAATTATTTTAATCT
1 ATTTAAAAA-AT--TGAATAATAATTATTTTAATCT
*** *
66529 ATTTAAAAAATTTCTTAATAATTATTTTCATCT
1 ATTTAAAAAATTGAATAATAATTATTTTAATCT
66562 ATTTAAAAAATT
1 ATTTAAAAAATT
66574 TCTTACATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
33 30 0.73
35 2 0.05
36 9 0.22
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (33 bp):
ATTTAAAAAATTGAATAATAATTATTTTAATCT
Found at i:66553 original size:33 final size:33
Alignment explanation
Indices: 66511--66578 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
66501 ATATAATGAA
66511 TAATAATTATTTTAATCTATTTAAAAAATTTCT
1 TAATAATTATTTTAATCTATTTAAAAAATTTCT
*
66544 TAATAATTATTTTCATCTATTTAAAAAATTTCT
1 TAATAATTATTTTAATCTATTTAAAAAATTTCT
66577 TA
1 TA
66579 CATTATGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (33 bp):
TAATAATTATTTTAATCTATTTAAAAAATTTCT
Found at i:66782 original size:69 final size:69
Alignment explanation
Indices: 66700--66833 Score: 268
Period size: 69 Copynumber: 1.9 Consensus size: 69
66690 AATAATTATC
66700 CTATAAATATCTTCTCTCAATCCTCTTCAAAATCATTATCATTTTTCAAAGAAAGAAGAGTTAAG
1 CTATAAATATCTTCTCTCAATCCTCTTCAAAATCATTATCATTTTTCAAAGAAAGAAGAGTTAAG
66765 ATTG
66 ATTG
66769 CTATAAATATCTTCTCTCAATCCTCTTCAAAATCATTATCATTTTTCAAAGAAAGAAGAGTTAAG
1 CTATAAATATCTTCTCTCAATCCTCTTCAAAATCATTATCATTTTTCAAAGAAAGAAGAGTTAAG
66834 TTTTCCTTGA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (69 bp):
CTATAAATATCTTCTCTCAATCCTCTTCAAAATCATTATCATTTTTCAAAGAAAGAAGAGTTAAG
ATTG
Found at i:70400 original size:31 final size:31
Alignment explanation
Indices: 70365--70440 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
70355 GATACATTGA
*
70365 AAAATGTATTGATATATCCAGGTAAAAAGAC
1 AAAATGTATCGATATATCCAGGTAAAAAGAC
* ** *
70396 AAAATTTATCGATATATCTGGGTAAAAAGAT
1 AAAATGTATCGATATATCCAGGTAAAAAGAC
* *
70427 AGAATATATCGATA
1 AAAATGTATCGATA
70441 AATTCATACA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (31 bp):
AAAATGTATCGATATATCCAGGTAAAAAGAC
Found at i:71096 original size:2 final size:2
Alignment explanation
Indices: 71089--71119 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
71079 TTTTCTCCAA
71089 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71120 AAACAAGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71910 original size:16 final size:16
Alignment explanation
Indices: 71868--71911 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
71858 TTATTTGATG
*
71868 TAAAAATTTAAAATAT
1 TAAAAATTTATAATAT
* *
71884 TAAATATTTATAATTT
1 TAAAAATTTATAATAT
71900 TAAAAATTTATA
1 TAAAAATTTATA
71912 TTTGTATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAAAATTTATAATAT
Found at i:72454 original size:65 final size:65
Alignment explanation
Indices: 72350--72475 Score: 227
Period size: 65 Copynumber: 1.9 Consensus size: 65
72340 ACTGAGCAAT
*
72350 GCTTTTTCGTGTTTTGGGGTTTATTGAGTAATTCAATAGGAAAGGATAGAAAGAAAAGAAATGAA
1 GCTTTTTCGTGTTTTGGGGTTTACTGAGTAATTCAATAGGAAAGGATAGAAAGAAAAGAAATGAA
72415 GCTTTTGT-GTGTTTTGGGGTTTACTGAGTAATTCAATAGGAAAGGATAGAAAGAAAAGAAA
1 GCTTTT-TCGTGTTTTGGGGTTTACTGAGTAATTCAATAGGAAAGGATAGAAAGAAAAGAAA
72476 AGGAAAGAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
65 58 0.98
66 1 0.02
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.32
Consensus pattern (65 bp):
GCTTTTTCGTGTTTTGGGGTTTACTGAGTAATTCAATAGGAAAGGATAGAAAGAAAAGAAATGAA
Found at i:72489 original size:20 final size:19
Alignment explanation
Indices: 72455--72568 Score: 66
Period size: 20 Copynumber: 5.7 Consensus size: 19
72445 ATTCAATAGG
*
72455 AAAGGATAGAAAGAAAAGA
1 AAAGGAAAGAAAGAAAAGA
*
72474 AAAGGAAAGAAAAGAAATGA
1 AAAGGAAAG-AAAGAAAAGA
* * * *
72494 AAGGGATAGAAGGGAAAGA
1 AAAGGAAAGAAAGAAAAGA
* *
72513 AGAGGGAAAGAAGAAGGAAAGA
1 A-AAGGAAAG-A-AAGAAAAGA
* * *
72535 AAAGGGATAGAAGGGAAAGA
1 AAA-GGAAAGAAAGAAAAGA
**
72555 AAAAAAAAGAAAGA
1 AAAGGAAAGAAAGA
72569 GAAAAATTAA
Statistics
Matches: 73, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
19 22 0.30
20 34 0.47
21 3 0.04
22 14 0.19
ACGTcount: A:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (19 bp):
AAAGGAAAGAAAGAAAAGA
Found at i:72506 original size:9 final size:9
Alignment explanation
Indices: 72494--72555 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 9
72484 AAAGAAATGA
*
72494 AAGGGATAG
1 AAGGGAAAG
72503 AAGGGAAAG
1 AAGGGAAAG
72512 AAGAGGGAAAG
1 -A-AGGGAAAG
72523 AAGAAGGAAAG
1 AAG--GGAAAG
*
72534 AAAAGGGATAG
1 --AAGGGAAAG
72545 AAGGGAAAG
1 AAGGGAAAG
72554 AA
1 AA
72556 AAAAAAAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 20 0.45
10 2 0.05
11 19 0.43
13 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.40, T:0.03
Consensus pattern (9 bp):
AAGGGAAAG
Found at i:72520 original size:11 final size:11
Alignment explanation
Indices: 72504--72555 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
72494 AAGGGATAGA
72504 AGGGAAAGAAG
1 AGGGAAAGAAG
72515 AGGGAAAGAAG
1 AGGGAAAGAAG
* *
72526 AAGGAAAGAAA
1 AGGGAAAGAAG
*
72537 AGGGATAG-A-
1 AGGGAAAGAAG
72546 AGGGAAAGAA
1 AGGGAAAGAA
72556 AAAAAAAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 7 0.20
10 2 0.06
11 26 0.74
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (11 bp):
AGGGAAAGAAG
Found at i:72543 original size:42 final size:39
Alignment explanation
Indices: 72454--72572 Score: 134
Period size: 42 Copynumber: 3.0 Consensus size: 39
72444 AATTCAATAG
* *
72454 GAAA-GGATAGAAAGAAAAGAAAAGGAAAGAAAAGAAAT
1 GAAAGGGATAGAAGGGAAAGAAAAGGAAAGAAAAGAAAT
*
72492 GAAAGGGATAGAAGGGAAAGAAGAGGGAAAGAAGAAGGAAA-
1 GAAAGGGATAGAAGGGAAAGAA-AAGGAAAGAA-AA-GAAAT
**
72533 GAAAAGGGATAGAAGGGAAAGAAAAAAAAAGAAAGAGAAA
1 G-AAAGGGATAGAAGGGAAAGAAAAGGAAAGAAA-AGAAA
72573 AATTAAAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
38 4 0.06
39 15 0.22
40 14 0.20
41 11 0.16
42 25 0.36
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (39 bp):
GAAAGGGATAGAAGGGAAAGAAAAGGAAAGAAAAGAAAT
Found at i:72870 original size:21 final size:21
Alignment explanation
Indices: 72831--72870 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
72821 TATCATGACT
* *
72831 TAATTTATGATATTTATTTTA
1 TAATTTATGATAATAATTTTA
*
72852 TAATTTATTATAATAATTT
1 TAATTTATGATAATAATTT
72871 ATTTTTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
TAATTTATGATAATAATTTTA
Found at i:72870 original size:25 final size:26
Alignment explanation
Indices: 72842--72893 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
72832 AATTTATGAT
*
72842 ATTTA-TTTTATAATTTATTATAATA
1 ATTTATTTTTATAATTTATCATAATA
72867 ATTTATTTTTTTATAATTTATCATAAT
1 ATTTA--TTTTTATAATTTATCATAAT
72894 TATTCATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
28 18 0.78
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTATTTTTATAATTTATCATAATA
Found at i:72884 original size:15 final size:15
Alignment explanation
Indices: 72841--72887 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
72831 TAATTTATGA
72841 TATTTATTTTATAATT
1 TATTT-TTTTATAATT
* *
72857 TA--TTATAATAATT
1 TATTTTTTTATAATT
72870 TATTTTTTTATAATT
1 TATTTTTTTATAATT
72885 TAT
1 TAT
72888 CATAATTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
13 10 0.40
14 1 0.04
15 12 0.48
16 2 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTTTTTTATAATT
Found at i:73396 original size:2 final size:2
Alignment explanation
Indices: 73389--73413 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
73379 CCCCAAGAGC
73389 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
73414 CCTTGACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:74795 original size:28 final size:28
Alignment explanation
Indices: 74740--74796 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
74730 TCAAATCAAA
** *
74740 TTTAAATTTAAATAATTTTATCACTATT
1 TTTAAATTTAAATAAAATTAACACTATT
74768 TTTAAATTTAAATCAAAATTAACA-TATT
1 TTTAAATTTAAAT-AAAATTAACACTATT
74796 T
1 T
74797 ACGTATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (28 bp):
TTTAAATTTAAATAAAATTAACACTATT
Found at i:76597 original size:17 final size:16
Alignment explanation
Indices: 76573--76608 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
76563 TTTTAAGTTC
76573 TTTTATTTTAAATTAT
1 TTTTATTTTAAATTAT
*
76589 TTTTAATTTTAAATTCT
1 TTTT-ATTTTAAATTAT
76606 TTT
1 TTT
76609 GATTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATTTTAAATTAT
Found at i:76621 original size:21 final size:20
Alignment explanation
Indices: 76595--76640 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
76585 TTATTTTTAA
*
76595 TTTTAAATTCTT-TTGATTAT
1 TTTTAAATT-TTAATGATTAT
76615 TATTTAAATTTTAATGATTAT
1 T-TTTAAATTTTAATGATTAT
76636 TTTTA
1 TTTTA
76641 TATAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTAAATTTTAATGATTAT
Found at i:77135 original size:16 final size:16
Alignment explanation
Indices: 77116--77171 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
77106 TTTAGTTTTT
*
77116 AATTATTTTAAATTTA
1 AATTATTTTAAGTTTA
*
77132 AATTACTTTAAGTTTA
1 AATTATTTTAAGTTTA
* * *
77148 AGTCATTTCAAGTTTA
1 AATTATTTTAAGTTTA
77164 AATT-TTTT
1 AATTATTTT
77172 CATGGTCTTT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
15 3 0.10
16 28 0.90
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (16 bp):
AATTATTTTAAGTTTA
Found at i:77720 original size:15 final size:15
Alignment explanation
Indices: 77681--77720 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
77671 TTGTTCATTA
77681 TATTATTAAT-TTTT
1 TATTATTAATATTTT
77695 TATT-TTAAATATTTT
1 TATTATT-AATATTTT
77710 TATTATTAATA
1 TATTATTAATA
77721 AAATTTATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.09
14 7 0.30
15 12 0.52
16 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTATTAATATTTT
Found at i:77820 original size:73 final size:74
Alignment explanation
Indices: 77740--77876 Score: 222
Period size: 73 Copynumber: 1.9 Consensus size: 74
77730 TTACTTATAA
* * *
77740 ATAATAAAATTTATTACATTTGTAAATAAGAATTTTAATTATATTGAAAGA-TTTGGTTAAATGA
1 ATAATAAAATTTATTACATTTGTAAATAAGAATTCTAATTATATTAAAAGACTTTGGGTAAATGA
77804 ATTTATTGG
66 ATTTATTGG
* *
77813 ATAATAAAATTTATTATATTTGTAAATAAGAATTCTAATTCTATTAAAAGACTTTGGGTAAATG
1 ATAATAAAATTTATTACATTTGTAAATAAGAATTCTAATTATATTAAAAGACTTTGGGTAAATG
77877 GAAATTTTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
73 47 0.81
74 11 0.19
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (74 bp):
ATAATAAAATTTATTACATTTGTAAATAAGAATTCTAATTATATTAAAAGACTTTGGGTAAATGA
ATTTATTGG
Found at i:79877 original size:12 final size:12
Alignment explanation
Indices: 79855--79888 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
79845 TTACTCGTAT
79855 TTTTTTGAATTTA
1 TTTTTT-AATTTA
79868 TTTTTTAATTTA
1 TTTTTTAATTTA
*
79880 ATTTTTAAT
1 TTTTTTAAT
79889 AATTACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTTTAATTTA
Found at i:80715 original size:22 final size:22
Alignment explanation
Indices: 80674--80716 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
80664 AAATAATATT
*
80674 ATTAAATTTTTATTATTAATTA
1 ATTAAATTTTTATTACTAATTA
80696 ATTAAATTATTTA-TACTAATT
1 ATTAAATT-TTTATTACTAATT
80717 TTAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTAAATTTTTATTACTAATTA
Found at i:80912 original size:16 final size:17
Alignment explanation
Indices: 80893--80924 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
80883 TGTTTAATGA
80893 TATAATTTA-ATAAAAT
1 TATAATTTATATAAAAT
80909 TATAATTTATATAAAA
1 TATAATTTATATAAAA
80925 ATTGAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TATAATTTATATAAAAT
Found at i:82012 original size:21 final size:22
Alignment explanation
Indices: 81974--82015 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
81964 CATTATCTAT
*
81974 TTTTTTGAATATGAATGCATTAG
1 TTTTTGGAATAT-AATGCATTAG
81997 TTTTTGGAATAT-ATGCATT
1 TTTTTGGAATATAATGCATT
82016 CAAATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
23 11 0.61
ACGTcount: A:0.29, C:0.05, G:0.17, T:0.50
Consensus pattern (22 bp):
TTTTTGGAATATAATGCATTAG
Found at i:82165 original size:16 final size:18
Alignment explanation
Indices: 82127--82166 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
82117 TATTTTTTAT
82127 GTAATATAAACTATATAA
1 GTAATATAAACTATATAA
82145 -T-ATATAAA-TATA-AA
1 GTAATATAAACTATATAA
82159 GTAATATA
1 GTAATATA
82167 TTATATAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
14 2 0.10
15 5 0.25
16 12 0.60
17 1 0.05
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (18 bp):
GTAATATAAACTATATAA
Found at i:82171 original size:23 final size:22
Alignment explanation
Indices: 82129--82174 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
82119 TTTTTTATGT
82129 AATATAAACTATATAATATATA
1 AATATAAACTATATAATATATA
* *
82151 AATATAAAGTAATATATTATATA
1 AATATAAACT-ATATAATATATA
82174 A
1 A
82175 CTGTTTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
AATATAAACTATATAATATATA
Found at i:83126 original size:31 final size:28
Alignment explanation
Indices: 83060--83127 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 28
83050 ATAATATAAT
*
83060 ATAATTTAATAAAATTAAATTAAATTTT
1 ATAATTTAATAAAATTAAATTAAATTTA
* *
83088 TTTATTTATATAAAAATTAATATTAAATTTA
1 ATAATTTA-AT-AAAATTAA-ATTAAATTTA
83119 ATAATTTAA
1 ATAATTTAA
83128 AATATAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 6 0.19
29 2 0.06
30 9 0.28
31 15 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
ATAATTTAATAAAATTAAATTAAATTTA
Found at i:90159 original size:2 final size:2
Alignment explanation
Indices: 90154--90188 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
90144 ATTATTAAAA
90154 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
90189 AGAATGGCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:91894 original size:19 final size:19
Alignment explanation
Indices: 91866--91902 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
91856 TGTGCCATCG
*
91866 ATTAATATTAAATTTTTTT
1 ATTAAAATTAAATTTTTTT
91885 ATTAAAATTAAATTTTTT
1 ATTAAAATTAAATTTTTT
91903 AATCTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTAAAATTAAATTTTTTT
Found at i:105472 original size:1 final size:1
Alignment explanation
Indices: 105468--105494 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
105458 GGTGGAAAAA
105468 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGG
105495 CGCTGAGTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Done.