Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003585.1 Hibiscus syriacus cultivar Beakdansim tig00007561_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 147319
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:826 original size:36 final size:36
Alignment explanation
Indices: 786--995 Score: 386
Period size: 36 Copynumber: 5.9 Consensus size: 36
776 ACGGTGCTGG
*
786 ACATTGATACACGAATGTACCAAAGTTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
822 ACATTGATACACTAATGTATCAAAGC-GATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
857 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
893 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
929 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
965 ACATTGATACACGAATGTACCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
996 ATGGATAAAT
Statistics
Matches: 168, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
35 33 0.20
36 135 0.80
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:2554 original size:6 final size:7
Alignment explanation
Indices: 2529--2553 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2519 AAATAGCTTC
2529 AAAAATA
1 AAAAATA
2536 AAAAATA
1 AAAAATA
2543 AAAAATA
1 AAAAATA
2550 AAAA
1 AAAA
2554 TCTTACCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:2832 original size:29 final size:29
Alignment explanation
Indices: 2800--2859 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
2790 TTGACCCTTC
* * * *
2800 AATTTTCCAAAGTTTCATTTTAGTCATTA
1 AATTTTCAAAACTTACATTTTAGTCACTA
2829 AATTTTCAAAACTTACATTTTAGTCACTA
1 AATTTTCAAAACTTACATTTTAGTCACTA
2858 AA
1 AA
2860 CAAAATTTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.43
Consensus pattern (29 bp):
AATTTTCAAAACTTACATTTTAGTCACTA
Found at i:4809 original size:219 final size:219
Alignment explanation
Indices: 4424--5116 Score: 779
Period size: 227 Copynumber: 3.1 Consensus size: 219
4414 AGAACATAAG
* *
4424 AAATTAAGATTCTCTATCATTTGAAATTATTATTATGCCAAATCTGATTTTTCATTCACTATG-A
1 AAATTAAGATTCTCTGTCATTTGAAATTATTATTATACC--ATCTGATTTTTCATTCACTATGAA
* * **
4488 ATAAGTTTTGATTTAAGGTGATATTAATTGAAAATAAAAGGATGTGAATAGTTAAGATTCTCTAT
64 ATAAGTTTTGATTTAAGGTGATATTCACTGAAAATAAAAGGACATGAATAGTTAAGATTCTCTAT
* *
4553 CATTTGAAATTATTATTGTACCAGATAAAAATTTCATTCAATATGAAAGAAGTT-TGATTTGAGG
129 CATTTGAAATTATTATTGTACCAGATAAGATTTTCATTCAATATGAAAGAAGTTCTGATTTGAGG
*
4617 TGATATTTTGCTTAAAAAATAACGT-A
194 TGATATTTT-CTAAAAAAATAACGTGA
* *
4643 ACAATTAAGATTCTCTGTCATTTGAAATTTTTATTATACCATTTGATTTTTCATTCACTATGAAA
1 A-AATTAAGATTCTCTGTCATTTGAAATTATTATTATACCATCTGATTTTTCATTCACTATGAAA
* * * * *
4708 TAAG-TTTCATTTAAGGTGACATCTCACTGTAAAA-AATATGACATGAATAGTTAAGATTCTCTC
65 TAAGTTTTGATTTAAGGTGATAT-TCACTG-AAAATAAAAGGACATGAATAGTTAAGATTCTCTA
* *
4771 TCATTTGAAATTATTATTGCACCAGATAAGATTTTCATTCAATATGAAAGAAATTCTGATTTGAG
128 TCATTTGAAATTATTATTGTACCAGATAAGATTTTCATTCAATATGAAAGAAGTTCTGATTTGAG
* *
4836 GTGATATTTCTCTGAAAAGAAATGGACATGA
193 GTGATATTT-TCT-AAAA-AAAT-AACGTGA
* * * * * ***
4867 ATATCTAAGATTCTCTTTCATTTAAAATCATAATTGTATTGGATCTGATTTTTCATTCACTATGA
1 AAAT-TAAGATTCTCTGTCATTTGAAATTATTA-T-TATACCATCTGATTTTTCATTCACTATGA
* * * *
4932 AAT-AGTTTTTGATTTAAGGTGATATTTCACTGAAAATAACAGGACTTGAATAGTTAACATTCTT
63 AATAAG-TTTTGATTTAAGGTGATA-TTCACTGAAAATAAAAGGACATGAATAGTTAAGATTCTC
* * * *
4996 TGTCATTTG-AATAATTATTGTATCAGATAAGATTTTTCATTCAATATGAAAGAAGTTCTAATTT
126 TATCATTTGAAATTATTATTGTACCAGATAAGA-TTTTCATTCAATATGAAAGAAGTTCTGATTT
* * *
5060 TAGGGGATATTTCACTAAAAATAATATGACGTGA
190 GAGGTGATATTT-TCTAAAAA-AATA--ACGTGA
* *
5094 ATAGTTAAGATTCTATGTCATTT
1 A-AATTAAGATTCTCTGTCATTT
5117 TTAAATATTA
Statistics
Matches: 400, Mismatches: 52, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
218 37 0.09
219 86 0.22
220 59 0.15
221 4 0.01
222 4 0.01
223 5 0.01
224 25 0.06
225 4 0.01
226 59 0.15
227 115 0.29
228 2 0.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (219 bp):
AAATTAAGATTCTCTGTCATTTGAAATTATTATTATACCATCTGATTTTTCATTCACTATGAAAT
AAGTTTTGATTTAAGGTGATATTCACTGAAAATAAAAGGACATGAATAGTTAAGATTCTCTATCA
TTTGAAATTATTATTGTACCAGATAAGATTTTCATTCAATATGAAAGAAGTTCTGATTTGAGGTG
ATATTTTCTAAAAAAATAACGTGA
Found at i:4876 original size:113 final size:113
Alignment explanation
Indices: 4427--5116 Score: 645
Period size: 113 Copynumber: 6.2 Consensus size: 113
4417 ACATAAGAAA
* * * * ** * *
4427 TTAAGATTCTCTATCATTTGAAATTATTATTATGCCAAATCTGATTTTTCATTCACTATG-AATA
1 TTAAGATTCTCTGTCATTTGAAATTATTATTGTACCAGATAAGATTTTTCATTCAATATGAAAGA
* * * * *
4491 AGTTTTGATTTAAGGTGATA-TTAATTGAAAATAAAAGGATGTGAATAG
66 AG-TTTGATTTAAGGTGATATTTCACTGAAAATAATATGACGTGAATAG
* **
4539 TTAAGATTCTCTATCATTTGAAATTATTATTGTACCAGATAA-AAATTTCATTCAATATGAAAGA
1 TTAAGATTCTCTGTCATTTGAAATTATTATTGTACCAGATAAGATTTTTCATTCAATATGAAAGA
* ** * * *
4603 AGTTTGATTTGAGGTGATATTTTGCTTAAAA-AATA--ACGT-AACAA
66 AGTTTGATTTAAGGTGATATTTCACTGAAAATAATATGACGTGAATAG
* * ** * *
4647 TTAAGATTCTCTGTCATTTGAAATTTTTATTATACC--ATTTGATTTTTCATTCACTATGAAATA
1 TTAAGATTCTCTGTCATTTGAAATTATTATTGTACCAGATAAGATTTTTCATTCAATATGAAAGA
* * * *
4710 AGTTTCATTTAAGGTGACATCTCACTGTAAAA-AATATGACATGAATAG
66 AGTTTGATTTAAGGTGATATTTCACTG-AAAATAATATGACGTGAATAG
* *
4758 TTAAGATTCTCTCTCATTTGAAATTATTATTGCACCAGATAAGA-TTTTCATTCAATATGAAAGA
1 TTAAGATTCTCTGTCATTTGAAATTATTATTGTACCAGATAAGATTTTTCATTCAATATGAAAGA
* * * * *
4822 AATTCTGATTTGAGGTGATATTTCTCTGAAAAGAA-ATGGACATGAATA-
66 AGTT-TGATTTAAGGTGATATTTCACTGAAAATAATAT-GACGTGAATAG
* * * * *** ** *
4870 TCTAAGATTCTCTTTCATTTAAAATCATAATTGTATTGGATCTGATTTTTCATTCACTATGAAA-
1 T-TAAGATTCTCTGTCATTTGAAATTATTATTGTACCAGATAAGATTTTTCATTCAATATGAAAG
* * * *
4934 TAGTTTTTGATTTAAGGTGATATTTCACTGAAAATAACAGGACTTGAATAG
65 AAG--TTTGATTTAAGGTGATATTTCACTGAAAATAATATGACGTGAATAG
* * * *
4985 TTAACATTCTTTGTCATTTG-AATAATTATTGTATCAGATAAGATTTTTCATTCAATATGAAAGA
1 TTAAGATTCTCTGTCATTTGAAATTATTATTGTACCAGATAAGATTTTTCATTCAATATGAAAGA
* * * *
5049 AGTTCTAATTTTAGGGGATATTTCACTAAAAATAATATGACGTGAATAG
66 AGTT-TGATTTAAGGTGATATTTCACTGAAAATAATATGACGTGAATAG
*
5098 TTAAGATTCTATGTCATTT
1 TTAAGATTCTCTGTCATTT
5117 TTAAATATTA
Statistics
Matches: 468, Mismatches: 90, Indels: 39
0.78 0.15 0.07
Matches are distributed among these distances:
106 2 0.00
107 38 0.08
108 44 0.09
109 3 0.01
110 3 0.01
111 68 0.15
112 79 0.17
113 157 0.34
114 70 0.15
115 4 0.01
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (113 bp):
TTAAGATTCTCTGTCATTTGAAATTATTATTGTACCAGATAAGATTTTTCATTCAATATGAAAGA
AGTTTGATTTAAGGTGATATTTCACTGAAAATAATATGACGTGAATAG
Found at i:8118 original size:3 final size:3
Alignment explanation
Indices: 8110--8189 Score: 101
Period size: 3 Copynumber: 27.0 Consensus size: 3
8100 GTAAGTCTCA
8110 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * *
8158 -TC TATT TTC ATC ATC TTC TTA TTC -TC TTC TTC
1 TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC TTC
8190 AACTTTCTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
2 4 0.06
3 62 0.91
4 2 0.03
ACGTcount: A:0.05, C:0.31, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:12505 original size:48 final size:48
Alignment explanation
Indices: 12443--12537 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
12433 GGAGTGAGAT
12443 GAAACCTCGCGAAACTATTCTTCACGCGGAGTTTGCAACAGCCATCAA
1 GAAACCTCGCGAAACTATTCTTCACGCGGAGTTTGCAACAGCCATCAA
* *
12491 GAAACCTCGTGAAACTATTCTTCGCGCGGAGTTTGCAACAGCCATCA
1 GAAACCTCGCGAAACTATTCTTCACGCGGAGTTTGCAACAGCCATCA
12538 GACTTATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (48 bp):
GAAACCTCGCGAAACTATTCTTCACGCGGAGTTTGCAACAGCCATCAA
Found at i:13580 original size:48 final size:48
Alignment explanation
Indices: 13524--13620 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
13514 TAGTCGGGTG
13524 TCAGAGTGCTTGAACTAAAACCTTTTGGTATAAGGCCCTGAGTACGAT
1 TCAGAGTGCTTGAACTAAAACCTTTTGGTATAAGGCCCTGAGTACGAT
*
13572 TCAGAGTGCTTGACCTAAAACCTTTTGGTATAAGGCCCTGAGTACGAT
1 TCAGAGTGCTTGAACTAAAACCTTTTGGTATAAGGCCCTGAGTACGAT
13620 T
1 T
13621 TCTTACTCTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (48 bp):
TCAGAGTGCTTGAACTAAAACCTTTTGGTATAAGGCCCTGAGTACGAT
Found at i:16141 original size:31 final size:31
Alignment explanation
Indices: 16106--16168 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
16096 AAATAGATGT
16106 CTAACGTTTTCTCCATTATCA-TTTTAGGTGC
1 CTAACGTTTTCTCCATTA-CATTTTTAGGTGC
* *
16137 CTAACGTTTTCTTCGTTACATTTTTAGGTGC
1 CTAACGTTTTCTCCATTACATTTTTAGGTGC
16168 C
1 C
16169 CGACGTCAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.46
Consensus pattern (31 bp):
CTAACGTTTTCTCCATTACATTTTTAGGTGC
Found at i:21279 original size:23 final size:23
Alignment explanation
Indices: 21239--21297 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
21229 CATATAACTA
21239 TAAATTATTT-AAAATTTAAAGG
1 TAAATTATTTAAAAATTTAAAGG
21261 TAAATTATTTAAAAATTTAAAGG
1 TAAATTATTTAAAAATTTAAAGG
*
21284 AAAATTATTTAAAA
1 TAAATTATTTAAAA
21298 TAAAGGGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 10 0.29
23 25 0.71
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (23 bp):
TAAATTATTTAAAAATTTAAAGG
Found at i:22127 original size:16 final size:16
Alignment explanation
Indices: 22106--22140 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
22096 GATTGGTGAG
* *
22106 AAAAATATATTAAATT
1 AAAAATAAATTAAAAT
22122 AAAAATAAATTAAAAT
1 AAAAATAAATTAAAAT
22138 AAA
1 AAA
22141 TTTAATTGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATAAATTAAAAT
Found at i:22765 original size:31 final size:29
Alignment explanation
Indices: 22729--22808 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 29
22719 TTAATCTCGC
*
22729 GAGTTTTCAAGTCGAGTCGAGCTGTATTTCA
1 GAGTTTTCGAGTCGAGTCGAGC--TATTTCA
*
22760 GAGTTTTCGACTCGAGTC-A-C-ATTTCA
1 GAGTTTTCGAGTCGAGTCGAGCTATTTCA
*
22786 GAGTTTTCGAGTTGAGTCGAGCT
1 GAGTTTTCGAGTCGAGTCGAGCT
22809 CAGTGATACT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 22 0.52
27 1 0.02
28 1 0.02
29 1 0.02
30 1 0.02
31 16 0.38
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.35
Consensus pattern (29 bp):
GAGTTTTCGAGTCGAGTCGAGCTATTTCA
Found at i:24474 original size:20 final size:20
Alignment explanation
Indices: 24435--24481 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
24425 CTGTAAGTGA
*
24435 GGTATCGATATTCGTAGGGT
1 GGTATCGATATTCATAGGGT
24455 GGTATCGATATTCAT--GG-
1 GGTATCGATATTCATAGGGT
24472 GGTATCGATA
1 GGTATCGATA
24482 CCAAGGGTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 10 0.38
18 2 0.08
20 14 0.54
ACGTcount: A:0.23, C:0.11, G:0.32, T:0.34
Consensus pattern (20 bp):
GGTATCGATATTCATAGGGT
Found at i:32255 original size:26 final size:26
Alignment explanation
Indices: 32179--32287 Score: 71
Period size: 32 Copynumber: 4.0 Consensus size: 26
32169 AAATTATTTA
*
32179 AAATAAATCAATCC-TACAACTACAAT
1 AAATAAATCAATCCATACAAATA-AAT
***
32205 -AATAAATCAATCCATA-TTTTAAAAT
1 AAATAAATCAATCCATACAAAT-AAAT
*
32230 AAATCAATCAATCCATACAAATAAATTATTT
1 AAATAAATCAATCCATACAAAT-AA--A--T
*
32261 AAAATAAATCAATCCATACTAATAAAT
1 -AAATAAATCAATCCATACAAATAAAT
32288 TATTTAAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
25 17 0.26
26 18 0.28
27 5 0.08
29 2 0.03
31 3 0.05
32 20 0.31
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (26 bp):
AAATAAATCAATCCATACAAATAAAT
Found at i:32320 original size:54 final size:55
Alignment explanation
Indices: 32111--32797 Score: 402
Period size: 54 Copynumber: 12.5 Consensus size: 55
32101 ACAACTACAA
* **
32111 TAATAAATTATTTAAAATAAATCAAT-CAATATTTTAAAATAAATCAATTTATAC
1 TAATAAATTATTTAAAATAAATCAATACTATATTTTAAAATAAATCAATCCATAC
* * * * **
32165 TCATAAATTATTTAAAATAAATCAATCCTACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATACTA-TATTTTAA-AATAAATCAATCCATAC
** * ** * * * *
32221 TTTTAAAATAAAT-CAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATAC---TATA-T-TTTAAAATAAATCAATCCATAC
*
32280 TAATAAATTATTTAAAATAAATCAAT-CTGTATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATACTATATTTTAAAATAAATCAATCCATAC
* *
32334 TAATAAATTATTTAAAATAAGTCAAT-CCATATTTTAAAATAAATCAA-CTCATAC
1 TAATAAATTATTTAAAATAAATCAATACTATATTTTAAAATAAATCAATC-CATAC
* * * **
32388 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATAC-TA-TATTTTAA-AATAAATCAATCCATAC
** * *
32445 TTTTAAA--A--T-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATACT-AT--A-T-TTTAAAATAAATCAATCCATAC
* *
32500 -AACTACA--A--T--AATAAATCAAT-CTATATTTTAAAATAAATCAATCTATAC
1 TAA-TAAATTATTTAAAATAAATCAATACTATATTTTAAAATAAATCAATCCATAC
*
32548 AAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATC-A---ATACT-AT--A-T-TTTAAAATAAATCAATCCATAC
* *** * * *
32612 TAATAAATTATTTAAAATAAATCAATTC-ATACAACTACAAT-AATAAAT-CAAAC
1 TAATAAATTATTTAAAATAAATCAATACTATA-TTTTAAAATAAATCAATCCATAC
32665 -AAT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATC-A---ATACT-AT--A-T-TTTAAAATAAATCAATCCATAC
* *
32724 -AACTACA--A--T--AATAAATCAAT-CCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATACTATATTTTAAAATAAATCAATCCATAC
*
32772 AAATAAATTATTTAAAATAAATCAAT
1 TAATAAATTATTTAAAATAAATCAAT
32798 CCATACTAAT
Statistics
Matches: 496, Mismatches: 75, Indels: 124
0.71 0.11 0.18
Matches are distributed among these distances:
48 62 0.12
49 8 0.02
50 5 0.01
51 1 0.00
52 24 0.05
53 10 0.02
54 175 0.35
55 29 0.06
56 17 0.03
57 31 0.06
58 50 0.10
59 21 0.04
60 16 0.03
62 2 0.00
63 2 0.00
64 43 0.09
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (55 bp):
TAATAAATTATTTAAAATAAATCAATACTATATTTTAAAATAAATCAATCCATAC
Found at i:32350 original size:32 final size:31
Alignment explanation
Indices: 32230--32499 Score: 194
Period size: 32 Copynumber: 9.6 Consensus size: 31
32220 ATTTTAAAAT
* *
32230 AAATCAATCAATCCATACAAATAAATTATTTA
1 AAATAAATCAATCCATACTAATAAA-TATTTA
32262 AAATAAATCAATCCATACTAATAAATTATTTA
1 AAATAAATCAATCCATACTAATAAA-TATTTA
*
32294 AAATAAATC-A---AT-CT-GT--AT-TTTA
1 AAATAAATCAATCCATACTAATAAATATTTA
32316 AAATAAATCAATCCATACTAATAAATTATTTA
1 AAATAAATCAATCCATACTAATAAA-TATTTA
*
32348 AAATAAGTCAAT-C---C--AT--AT-TTTA
1 AAATAAATCAATCCATACTAATAAATATTTA
32370 AAATAAATCAA-CTCATACTAATAAATTATTTA
1 AAATAAATCAATC-CATACTAATAAA-TATTTA
*
32402 AAATAAATCAATCCATAC-AACTACA-A--T-
1 AAATAAATCAATCCATACTAA-TAAATATTTA
32429 -AATAAATCAATCC--A-T-AT-----TTTA
1 AAATAAATCAATCCATACTAATAAATATTTA
32450 AAATAAATCAATCCATACTAATAAATTATTTA
1 AAATAAATCAATCCATACTAATAAA-TATTTA
32482 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
32500 AACTACAATA
Statistics
Matches: 193, Mismatches: 7, Indels: 76
0.70 0.03 0.28
Matches are distributed among these distances:
20 1 0.01
22 41 0.21
23 5 0.03
24 4 0.02
25 1 0.01
26 21 0.11
27 4 0.02
28 7 0.04
30 3 0.02
31 6 0.03
32 99 0.51
33 1 0.01
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (31 bp):
AAATAAATCAATCCATACTAATAAATATTTA
Found at i:32436 original size:26 final size:26
Alignment explanation
Indices: 32403--32520 Score: 102
Period size: 26 Copynumber: 4.5 Consensus size: 26
32393 AATTATTTAA
32403 AATAAATCAATCCATACAACTACAAT
1 AATAAATCAATCCATACAACTACAAT
* **
32429 AATAAATCAATCCAT---ATTTTAA-
1 AATAAATCAATCCATACAACTACAAT
*
32451 AATAAATCAATCCATACTAA-TAAATTATTT
1 AATAAATCAATCCATAC-AACTACA--A--T
32481 AAAATAAATCAATCCATACAACTACAAT
1 --AATAAATCAATCCATACAACTACAAT
32509 AATAAATCAATC
1 AATAAATCAATC
32521 TATATTTTAA
Statistics
Matches: 74, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
22 15 0.20
23 4 0.05
25 2 0.03
26 28 0.38
27 1 0.01
28 1 0.01
30 1 0.01
31 2 0.03
32 20 0.27
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (26 bp):
AATAAATCAATCCATACAACTACAAT
Found at i:32451 original size:80 final size:79
Alignment explanation
Indices: 32349--32579 Score: 408
Period size: 80 Copynumber: 2.9 Consensus size: 79
32339 AATTATTTAA
*
32349 AATAAGTCAATCCATATTTTAAAATAAATCAACTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAA-TCATACTAATAAATTATTTAAAATAAATCAAT
32414 CCATACAACTACAAT
65 CCATACAACTACAAT
32429 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAAT-CATACTAATAAATTATTTAAAATAAATCAAT
32494 CCATACAACTACAAT
65 CCATACAACTACAAT
* *
32509 AATAAATCAATCTATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATC-ATACTAATAAATTATTTAAAATAAATCAAT
32574 CCATAC
65 CCATAC
32580 TAATAAATTA
Statistics
Matches: 146, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
79 2 0.01
80 144 0.99
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.32
Consensus pattern (79 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCATACTAATAAATTATTTAAAATAAATCAATC
CATACAACTACAAT
Found at i:32475 original size:22 final size:23
Alignment explanation
Indices: 32400--32474 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
32390 ATAAATTATT
32400 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
32422 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
32448 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
32471 TAAA
1 TAAA
32475 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:32565 original size:32 final size:32
Alignment explanation
Indices: 32526--32879 Score: 214
Period size: 32 Copynumber: 11.4 Consensus size: 32
32516 CAATCTATAT
*
32526 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
32558 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
32590 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
32622 TTTAAAATAAATCAATTCATACAACTACAA-TA
1 TTTAAAATAAATCAATCCATACAAATA-AATTA
* *** *
32654 -AT-AAATCAAA-CAATATTTTA-AAATAAATCAA
1 TTTAAAAT-AAATCAAT-CCATACAAATAAAT-TA
* * * * *
32685 TCCATACTAATAAAT-TAT--TTA-AAATAAATCAA
1 T--TTA-AAATAAATCAATCCATACAAATAAAT-TA
* * ** **
32717 TCCATACAACTACAAT-AATAAAT-C-AATCCA-TA
1 T--TTA-AAATA-AATCAATCCATACAAATAAATTA
32749 TTTTAAAATAAATCAATCCATACAAATAAATTA
1 -TTTAAAATAAATCAATCCATACAAATAAATTA
*
32782 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
32814 CTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
32836 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
32868 TTTAAAATAAAT
1 TTTAAAATAAAT
32880 TATTTTAAAA
Statistics
Matches: 264, Mismatches: 28, Indels: 60
0.75 0.08 0.17
Matches are distributed among these distances:
22 15 0.06
23 2 0.01
24 1 0.00
26 3 0.01
28 3 0.01
29 5 0.02
30 22 0.08
31 13 0.05
32 175 0.66
33 10 0.04
34 6 0.02
35 6 0.02
36 3 0.01
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:32613 original size:224 final size:224
Alignment explanation
Indices: 32143--32834 Score: 1059
Period size: 224 Copynumber: 3.1 Consensus size: 224
32133 CAATCAATAT
** *
32143 TTTAAAATAAATCAATTTATACTCATAAATTATTTAAAATAAATCAATCC-TACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
32207 TAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCA
66 TAAATCAATCCATATTTTAAAAT--A--AATCAATCCATACTAATAAATTATTTAAAATAAATCA
* * *
32272 ATCCATACTAA-TAAATTATTTAAAATAAATCAATCTGTATTTTAAAATAAATCAATCCATACTA
127 ATCCATAC-AACTACA--A--T--AATAAATCAATCTATATTTTAAAATAAATCAATCCATACAA
*
32336 ATAAATTATTTAAAATAAGTCAAT-C---C--AT--A-T-
185 ATAAATTATTTAAAATAAATCAATCCATACTAATAAATTA
32366 TTTAAAATAAATCAA-CTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATA
1 TTTAAAATAAATCAATC-CATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATA
32430 ATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
65 ATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
*
32495 CATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCTATACAAATAAATTATT
130 CATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATT
32560 TAAAATAAATCAATCCATACTAATAAATTA
195 TAAAATAAATCAATCCATACTAATAAATTA
*
32590 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
* *
32655 TAAATCAAACAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
66 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
*
32720 ATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTT
131 ATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATTT
32785 AAAATAAATCAATCCATACTAATAAATTA
196 AAAATAAATCAATCCATACTAATAAATTA
*
32814 CTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
32835 TTTTAAAATA
Statistics
Matches: 440, Mismatches: 15, Indels: 27
0.91 0.03 0.06
Matches are distributed among these distances:
214 61 0.14
215 1 0.00
216 1 0.00
218 2 0.00
219 2 0.00
220 49 0.11
222 2 0.00
223 47 0.11
224 274 0.62
225 1 0.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (224 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
ATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATTT
AAAATAAATCAATCCATACTAATAAATTA
Found at i:32615 original size:144 final size:144
Alignment explanation
Indices: 32446--32723 Score: 511
Period size: 144 Copynumber: 1.9 Consensus size: 144
32436 CAATCCATAT
32446 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
* * *
32511 TAAATCAATCTATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAATCC
66 TAAATCAAACAATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCC
32576 ATACTAATAAATTA
131 ATACTAATAAATTA
*
32590 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
32655 TAAATCAAACAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
66 TAAATCAAACAATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCC
32720 ATAC
131 ATAC
32724 AACTACAATA
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 129 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.33
Consensus pattern (144 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAAACAATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCC
ATACTAATAAATTA
Found at i:32681 original size:80 final size:80
Alignment explanation
Indices: 32590--32879 Score: 465
Period size: 80 Copynumber: 3.5 Consensus size: 80
32580 TAATAAATTA
*
32590 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
* *
32655 TAAATCAAACAATAT
66 TAAATCAATCCATAT
32670 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
32735 TAAATCAATCCATAT
66 TAAATCAATCCATAT
* *
32750 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A
32814 CTTAAAATAAATCAATCCATAT
63 --T--AATAAATCAATCCATAT
32836 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
32880 TATTTTAAAA
Statistics
Matches: 197, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
80 133 0.68
81 2 0.01
82 1 0.01
84 1 0.01
86 60 0.30
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (80 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATAT
Found at i:32779 original size:22 final size:22
Alignment explanation
Indices: 32706--32779 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
32696 AAATTATTTA
*
32706 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
32731 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
32753 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
32776 AAAT
1 AAAT
32780 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:32843 original size:22 final size:22
Alignment explanation
Indices: 32815--32916 Score: 96
Period size: 22 Copynumber: 4.5 Consensus size: 22
32805 AATAAATTAC
32815 TTAAAATAAATCAATCCATATT
1 TTAAAATAAATCAATCCATATT
*
32837 TTAAAATAAATCAATCCATACTA
1 TTAAAATAAATCAATCCATA-TT
* * ** * **
32860 ATAAATTATTTAAAATAAATTATT
1 TTAAAATAAAT-CAATCCA-TATT
32884 TTAAAATAAATCAATCCATATT
1 TTAAAATAAATCAATCCATATT
*
32906 TTATAATAAAT
1 TTAAAATAAAT
32917 TATTTTATAA
Statistics
Matches: 60, Mismatches: 17, Indels: 6
0.72 0.20 0.07
Matches are distributed among these distances:
22 34 0.57
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAAATCAATCCATATT
Found at i:32888 original size:15 final size:15
Alignment explanation
Indices: 32859--32942 Score: 80
Period size: 15 Copynumber: 5.2 Consensus size: 15
32849 AATCCATACT
32859 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
32873 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
32888 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
32910 AATAAATTATTTTAT
1 AATAAATTATTTTAA
32925 AATAAATTATTTTAA
1 AATAAATTATTTTAA
32940 AAT
1 AAT
32943 TAATAACCTT
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
14 9 0.15
15 33 0.55
17 1 0.02
18 3 0.05
19 3 0.05
20 1 0.02
22 10 0.17
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:35127 original size:21 final size:21
Alignment explanation
Indices: 35101--35145 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
35091 GATTTCTGGG
* *
35101 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
35122 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
35143 CAA
1 CAA
35146 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:37096 original size:23 final size:23
Alignment explanation
Indices: 37059--37126 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
37049 ATTATTATAT
*
37059 GGCACTACGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
* *
37082 GGTACTCCGGTGCAATTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
* *
37105 GGCACTTCGGTGCAATTATACG
1 GGCACTCCGGTGCAATTCTACG
37127 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:39983 original size:24 final size:19
Alignment explanation
Indices: 39932--39976 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
39922 AACTGTGTTT
39932 TAAAATATTGATAATTTTA
1 TAAAATATTGATAATTTTA
39951 TAAAATATTGATAATTTTA
1 TAAAATATTGATAATTTTA
39970 TAAAATA
1 TAAAATA
39977 ATATATTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
TAAAATATTGATAATTTTA
Found at i:40118 original size:16 final size:16
Alignment explanation
Indices: 40097--40127 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
40087 TGCCAAAAAG
40097 TGGCAACTGGTTTTTC
1 TGGCAACTGGTTTTTC
40113 TGGCAACTGGTTTTT
1 TGGCAACTGGTTTTT
40128 GCATCAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.16, G:0.26, T:0.45
Consensus pattern (16 bp):
TGGCAACTGGTTTTTC
Found at i:40634 original size:15 final size:15
Alignment explanation
Indices: 40614--40649 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
40604 TGCTATGGAT
40614 GATGATGATCATGAC
1 GATGATGATCATGAC
*
40629 GATGATGATCATGTC
1 GATGATGATCATGAC
40644 GATGAT
1 GATGAT
40650 AATGATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.31
Consensus pattern (15 bp):
GATGATGATCATGAC
Found at i:42873 original size:79 final size:79
Alignment explanation
Indices: 42742--42890 Score: 298
Period size: 79 Copynumber: 1.9 Consensus size: 79
42732 TTTTCACCAT
42742 GACAACTTCATGTTCCTTGTTTTAGTTACTTATTATGTTTTTGATTATGCATAACATATTTTTGT
1 GACAACTTCATGTTCCTTGTTTTAGTTACTTATTATGTTTTTGATTATGCATAACATATTTTTGT
42807 TAGGAAAGTGCATC
66 TAGGAAAGTGCATC
42821 GACAACTTCATGTTCCTTGTTTTAGTTACTTATTATGTTTTTGATTATGCATAACATATTTTTGT
1 GACAACTTCATGTTCCTTGTTTTAGTTACTTATTATGTTTTTGATTATGCATAACATATTTTTGT
42886 TAGGA
66 TAGGA
42891 GTTTTCCCTG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (79 bp):
GACAACTTCATGTTCCTTGTTTTAGTTACTTATTATGTTTTTGATTATGCATAACATATTTTTGT
TAGGAAAGTGCATC
Found at i:45281 original size:3 final size:3
Alignment explanation
Indices: 45275--45376 Score: 132
Period size: 3 Copynumber: 34.0 Consensus size: 3
45265 ATTGGAAGAC
* * * *
45275 AAT AAT AAT AAT AAT AAT AAT TAT TAT TAT TAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
45323 TAT TAT TAT TAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
45371 AAT AAT
1 AAT AAT
45377 GGGAGTGACG
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 95 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:45309 original size:27 final size:27
Alignment explanation
Indices: 45279--45376 Score: 160
Period size: 27 Copynumber: 3.6 Consensus size: 27
45269 GAAGACAATA
45279 ATAATAATAATAATAATTATTATTATT
1 ATAATAATAATAATAATTATTATTATT
45306 ATAATAATAATAATAATTATTATTATT
1 ATAATAATAATAATAATTATTATTATT
* * * *
45333 ATAATAATAATAATAATAATAATAATA
1 ATAATAATAATAATAATTATTATTATT
45360 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
45377 GGGAGTGACG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
ATAATAATAATAATAATTATTATTATT
Found at i:53672 original size:13 final size:13
Alignment explanation
Indices: 53654--53702 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 13
53644 GAAAGTAATA
53654 AAATAATAAAAAT
1 AAATAATAAAAAT
*
53667 AAATAATAAAAGAAA
1 AAATAAT-AAA-AAT
53682 AAATAATTAGAAAAT
1 AAATAA-TA-AAAAT
53697 AAATAA
1 AAATAA
53703 AGTAGAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 7 0.23
14 3 0.10
15 17 0.57
16 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (13 bp):
AAATAATAAAAAT
Found at i:54310 original size:13 final size:12
Alignment explanation
Indices: 54292--54325 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
54282 TAGCATTGTG
54292 AAAAGAAAATAA
1 AAAAGAAAATAA
54304 TAAAAGAAAATAA
1 -AAAAGAAAATAA
54317 AGAAAGAAA
1 A-AAAGAAA
54326 GGTGGAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 1 0.05
13 19 0.95
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (12 bp):
AAAAGAAAATAA
Found at i:54521 original size:72 final size:74
Alignment explanation
Indices: 54429--54567 Score: 210
Period size: 73 Copynumber: 1.9 Consensus size: 74
54419 AGCCCGAGAG
* * * *
54429 TTCTAAGTAAATAAAATAACTAATTCCTAAATAAAA-GATAATGATATAATCAAACTAAAAATCC
1 TTCTAAATAAATAAAATAACTAATTCCTAAATAAAATAATAATAAAATAATCAAACTAAAAATCC
54493 TACTAGAAT
66 TACTAGAAT
* *
54502 TTCTAAATAAA-AAAATAACTAATTCTTAAATAAAATAATAGTAAAATAATCAAACTAAAAATCC
1 TTCTAAATAAATAAAATAACTAATTCCTAAATAAAATAATAATAAAATAATCAAACTAAAAATCC
54566 TA
66 TA
54568 AATCTATAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 23 0.39
73 36 0.61
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.29
Consensus pattern (74 bp):
TTCTAAATAAATAAAATAACTAATTCCTAAATAAAATAATAATAAAATAATCAAACTAAAAATCC
TACTAGAAT
Found at i:64253 original size:81 final size:81
Alignment explanation
Indices: 64216--64557 Score: 499
Period size: 81 Copynumber: 4.2 Consensus size: 81
64206 ACTCTTCTTT
* *
64216 CAAATGCACAGCTAGGTCATGTATCTTTTACTAAAAGGTCTTTAATCGTTCATCTAATTGGCATA
1 CAAATGCACAGCTAGGCCATGTATCTTTTACTCAAAGGTCTTTAATCGTTCATCTAATTGGCATA
64281 ATTGACACCTTTCTAC
66 ATTGACACCTTTCTAC
*
64297 CAAATGCACAGCTAGGCCATGTATCTTTTACTCAATGGTCTTTAATCGTTCATCTAATTGGCATA
1 CAAATGCACAGCTAGGCCATGTATCTTTTACTCAAAGGTCTTTAATCGTTCATCTAATTGGCATA
* *
64362 ATTAACACCTTTCTGC
66 ATTGACACCTTTCTAC
* * * *
64378 CAAATGCACAACTAGGCCATGTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATA
1 CAAATGCACAGCTAGGCCATGTATCTTTTACTCAAAGGTCTTTAATCGTTCATCTAATTGGCATA
* *
64443 ATTGACACATTTCTGC
66 ATTGACACCTTTCTAC
* * * *
64459 CAAATGCACAGCTAGGCCATATAT-TTCTTACTCAACGGTCTTTAA-CAGTTCATCTAACTGACA
1 CAAATGCACAGCTAGGCCATGTATCTT-TTACTCAAAGGTCTTTAATC-GTTCATCTAATTGGCA
*
64522 TAATTGACACCTTTCTGC
64 TAATTGACACCTTTCTAC
*
64540 CAAATGCACAGTTAGGCC
1 CAAATGCACAGCTAGGCC
64558 TCAAAGGCAC
Statistics
Matches: 243, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
80 3 0.01
81 240 0.99
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (81 bp):
CAAATGCACAGCTAGGCCATGTATCTTTTACTCAAAGGTCTTTAATCGTTCATCTAATTGGCATA
ATTGACACCTTTCTAC
Found at i:64598 original size:68 final size:68
Alignment explanation
Indices: 64507--64829 Score: 538
Period size: 68 Copynumber: 4.8 Consensus size: 68
64497 TCTTTAACAG
* *
64507 TTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
64572 CCT
66 CCT
* * * * *
64575 TTTATCTAACTGGCATAATTGACACCTTTCTGTCAAAAGCACAATTATGCCTCAAAGGTACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
64640 CCT
66 CCT
* * *
64643 TTCATCTAACTGGAATAATTGACACATTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
64708 CCT
66 CCT
* *
64711 TTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
64776 CCT
66 CCT
64779 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
64830 ATGTAATCTT
Statistics
Matches: 236, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 236 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:65160 original size:109 final size:111
Alignment explanation
Indices: 65036--65245 Score: 318
Period size: 110 Copynumber: 1.9 Consensus size: 111
65026 TCACATATAT
* *
65036 TTCCTATACGGAAATTAATACACTTAGTAACGATTTCTTAG-TTTGCACACATAGTGC-CTATAC
1 TTCCCATACGGAAATTAATACACTTAGTAACAATTTCTTAGCTTTGCACACATAGTGCTC-ATAC
65099 AAAAATTCATACACTTAATATGAATATCTT-AGTTTTGAACACATAG
65 AAAAATTCATACACTTAATATGAATATCTTAAGTTTTGAACACATAG
* * * *
65145 TTCCCATATGGAAATTCATACACTTAGTATCAATTTCTTAGCTTTGCACACATAGTGCTCATACG
1 TTCCCATACGGAAATTAATACACTTAGTAACAATTTCTTAGCTTTGCACACATAGTGCTCATACA
* *
65210 AAAATTCATACACTTAGTATGAATTTCTTAAGTTTT
66 AAAATTCATACACTTAATATGAATATCTTAAGTTTT
65246 TGCACGCTTA
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
109 36 0.40
110 47 0.52
111 7 0.08
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (111 bp):
TTCCCATACGGAAATTAATACACTTAGTAACAATTTCTTAGCTTTGCACACATAGTGCTCATACA
AAAATTCATACACTTAATATGAATATCTTAAGTTTTGAACACATAG
Found at i:65164 original size:55 final size:55
Alignment explanation
Indices: 65041--65245 Score: 243
Period size: 55 Copynumber: 3.7 Consensus size: 55
65031 TATATTTCCT
* * * * *
65041 ATACGGAAATTAATACACTTAGTAACG-ATTTCTTAG-TTTGCACACATAGTGCCT
1 ATACGAAAATTCATACACTTAGT-ATGAATTTCTTAGTTTTGAACACATAGTGCCC
* * * *
65095 ATACAAAAATTCATACACTTAATATGAATATCTTAGTTTTGAACACATAGTTCCC
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGAACACATAGTGCCC
* * * * * *
65150 ATATGGAAATTCATACACTTAGTATCAATTTCTTAGCTTTGCACACATAGTGCTC
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGAACACATAGTGCCC
65205 ATACGAAAATTCATACACTTAGTATGAATTTCTTAAGTTTT
1 ATACGAAAATTCATACACTTAGTATGAATTTCTT-AGTTTT
65246 TGCACGCTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.02
54 27 0.22
55 91 0.73
56 5 0.04
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (55 bp):
ATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGAACACATAGTGCCC
Found at i:67546 original size:42 final size:41
Alignment explanation
Indices: 67498--67630 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 41
67488 AAAAAATACA
67498 GCAATAGAGTGGTAAATTAGCGGTATTTATACCACAAACGCC
1 GCAATAGAGTGGTAAATTA-CGGTATTTATACCACAAACGCC
* * * * * *
67540 GTAATAGAAT-ATAATTTTTACGGTATTT-TGGCCA-AAATGCC
1 GCAATAGAGTGGTAA--ATTACGGTATTTAT-ACCACAAACGCC
* **
67581 ACAATAGAGTGGTAAATTAACGACATTTATACCACAAACGCC
1 GCAATAGAGTGGTAAATT-ACGGTATTTATACCACAAACGCC
67623 GCAATAGA
1 GCAATAGA
67631 TTACACATAT
Statistics
Matches: 68, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
40 2 0.03
41 27 0.40
42 36 0.53
43 3 0.04
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (41 bp):
GCAATAGAGTGGTAAATTACGGTATTTATACCACAAACGCC
Found at i:67684 original size:13 final size:13
Alignment explanation
Indices: 67666--67699 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
67656 TCAAACGCGG
67666 CAATAGTGATAAT
1 CAATAGTGATAAT
67679 CAATAGTGATAAT
1 CAATAGTGATAAT
67692 CAATAGTG
1 CAATAGTG
67700 GCGTTTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (13 bp):
CAATAGTGATAAT
Found at i:67727 original size:41 final size:41
Alignment explanation
Indices: 67679--67822 Score: 193
Period size: 41 Copynumber: 3.5 Consensus size: 41
67669 TAGTGATAAT
* *
67679 CAATAGTGATAATCAATAGTGGCGTTTTTAGACAAACGTCG
1 CAATAGTGTTAATCAATAGTGGCGTTTTTAGACAAACGCCG
* * * *
67720 CGATAGTGTTAATCAATGGTGGCATTTTTAGACAATCGCCG
1 CAATAGTGTTAATCAATAGTGGCGTTTTTAGACAAACGCCG
* *
67761 CAATAGTGTTAATCAATAGTGGTGTTTTTTA-ACAAACGCCA
1 CAATAGTGTTAATCAATAGTGGCG-TTTTTAGACAAACGCCG
67802 CAATAGTG-TAATCAATAGTGG
1 CAATAGTGTTAATCAATAGTGG
67823 TATTTTTTTG
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
40 13 0.14
41 71 0.79
42 6 0.07
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.31
Consensus pattern (41 bp):
CAATAGTGTTAATCAATAGTGGCGTTTTTAGACAAACGCCG
Found at i:67823 original size:40 final size:42
Alignment explanation
Indices: 67679--67854 Score: 191
Period size: 41 Copynumber: 4.3 Consensus size: 42
67669 TAGTGATAAT
* * *
67679 CAATAGTGATAATCAATAGTGGCG-TTTTTAGACAAACGTCG
1 CAATAGTGTTAATCAATAGTGGTGTTTTTTAGACAAACGCCG
* * ** *
67720 CGATAGTGTTAATCAATGGTGG-CATTTTTAGACAATCGCCG
1 CAATAGTGTTAATCAATAGTGGTGTTTTTTAGACAAACGCCG
*
67761 CAATAGTGTTAATCAATAGTGGTGTTTTTTA-ACAAACGCCA
1 CAATAGTGTTAATCAATAGTGGTGTTTTTTAGACAAACGCCG
* * *
67802 CAATAGTG-TAATCAATAGTGGTATTTTTTTGTATAAACGCCG
1 CAATAGTGTTAATCAATAGTGGTGTTTTTTAG-ACAAACGCCG
*
67844 CAA-AATGTTAA
1 CAATAGTGTTAA
67855 ATATTTAGTC
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
40 20 0.18
41 73 0.65
42 20 0.18
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (42 bp):
CAATAGTGTTAATCAATAGTGGTGTTTTTTAGACAAACGCCG
Found at i:67830 original size:82 final size:82
Alignment explanation
Indices: 67679--67829 Score: 216
Period size: 82 Copynumber: 1.9 Consensus size: 82
67669 TAGTGATAAT
* * * *
67679 CAATAGTGATAATCAATAGTGGCGTTTTTAGACAAACGTCGCGATAGTGTTAATCAATGGTGGCA
1 CAATAGTGATAATCAATAGTGGCGTTTTTAGACAAACGCCACAATAGTGTTAATCAATAGTGGCA
67744 TTTTTAGACAATCGCCG
66 TTTTTAGACAATCGCCG
* * *
67761 CAATAGTGTTAATCAATAGTGGTGTTTTTTA-ACAAACGCCACAATAGTG-TAATCAATAGTGGT
1 CAATAGTGATAATCAATAGTGGCG-TTTTTAGACAAACGCCACAATAGTGTTAATCAATAGTGGC
67824 ATTTTT
65 ATTTTT
67830 TTGTATAAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 18 0.30
82 37 0.61
83 6 0.10
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (82 bp):
CAATAGTGATAATCAATAGTGGCGTTTTTAGACAAACGCCACAATAGTGTTAATCAATAGTGGCA
TTTTTAGACAATCGCCG
Found at i:69894 original size:23 final size:21
Alignment explanation
Indices: 69844--69897 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
69834 CTTAACGAGC
*
69844 AATTAGTTTTTTAGTGAACACG
1 AATT-GTTTTTTACTGAACACG
69866 AATTGTTTTTTACTGAACACG
1 AATTGTTTTTTACTGAACACG
69887 AA-TGTTGTTTT
1 AATTGTT-TTTT
69898 GTAATTAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 4 0.13
21 22 0.73
22 4 0.13
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (21 bp):
AATTGTTTTTTACTGAACACG
Found at i:69911 original size:22 final size:22
Alignment explanation
Indices: 69886--69942 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
69876 TACTGAACAC
*
69886 GAATGTTGTTTTGTAATTAAGG
1 GAATGTTGTTTTATAATTAAGG
*
69908 GAATGTTGTTTCATAATTAAGG
1 GAATGTTGTTTTATAATTAAGG
69930 GAATGTTGTTTTA
1 GAATGTTGTTTTA
69943 GACAGTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.46
Consensus pattern (22 bp):
GAATGTTGTTTTATAATTAAGG
Found at i:76836 original size:21 final size:21
Alignment explanation
Indices: 76810--76901 Score: 89
Period size: 21 Copynumber: 4.4 Consensus size: 21
76800 AGCGGAAAAT
76810 GAAGCAAG-GAAAGCAGAGAGA
1 GAAGC-AGCGAAAGCAGAGAGA
* **
76831 GCAGCAGC-AGAAGCAGTCAGA
1 GAAGCAGCGA-AAGCAGAGAGA
* *
76852 GCAGCAGCGAAAGCAGAGAGG
1 GAAGCAGCGAAAGCAGAGAGA
* *
76873 GAAGCAGTGGAAGCAGAGAGA
1 GAAGCAGCGAAAGCAGAGAGA
76894 GAAGCAGC
1 GAAGCAGC
76902 ATATCAACAG
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
20 3 0.05
21 53 0.93
22 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.39, T:0.02
Consensus pattern (21 bp):
GAAGCAGCGAAAGCAGAGAGA
Found at i:76900 original size:42 final size:42
Alignment explanation
Indices: 76810--76901 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
76800 AGCGGAAAAT
* *
76810 GAAGCAAG-GAAAGCAGAGAGAGCAGCAGCAGAAGCAGTCAGA
1 GAAGC-AGCGAAAGCAGAGAGAGAAGCAGCAGAAGCAGACAGA
* * ** *
76852 GCAGCAGCGAAAGCAGAGAGGGAAGCAGTGGAAGCAGAGAGA
1 GAAGCAGCGAAAGCAGAGAGAGAAGCAGCAGAAGCAGACAGA
76894 GAAGCAGC
1 GAAGCAGC
76902 ATATCAACAG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 2 0.05
42 39 0.95
ACGTcount: A:0.42, C:0.16, G:0.39, T:0.02
Consensus pattern (42 bp):
GAAGCAGCGAAAGCAGAGAGAGAAGCAGCAGAAGCAGACAGA
Found at i:77358 original size:43 final size:42
Alignment explanation
Indices: 77297--77390 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 42
77287 AGACCTTTAT
77297 CGGCGTTTTTAGCAAAAACACCGCAAAACATCA-ACACCTACTG
1 CGGCG-TTTTAGCAAAAACACCGCAAAACATCATA-ACCTACTG
* * * *
77340 CGGCGTTTTAGAGAAAAACGCCGCTAAACATCATAACCTATTG
1 CGGCGTTTTAG-CAAAAACACCGCAAAACATCATAACCTACTG
*
77383 CAGCGTTT
1 CGGCGTTT
77391 ATCTAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
42 6 0.14
43 37 0.84
44 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (42 bp):
CGGCGTTTTAGCAAAAACACCGCAAAACATCATAACCTACTG
Found at i:77400 original size:43 final size:43
Alignment explanation
Indices: 77309--77520 Score: 203
Period size: 43 Copynumber: 4.9 Consensus size: 43
77299 GCGTTTTTAG
* * * * *
77309 CAAAAACACCGCAAAACATCAACACCTACTGCGGCGTTT-TAGA
1 CAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGT-CA
* * * *
77352 GAAAAACGCCGCTAAACATCATA-ACCTATTGCAGCGTTTATCTA
1 CAAAAACGCCGCTAAATATCA-ACACCTATTGCGGCGTTTGTC-A
* * * *
77396 AAAAAATGCCGCTAAATATCAACACCTATTACGGCATTTGTCA
1 CAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTCA
* * * *
77439 TAAAAACGCCGTTAAATATCAACACCTATTACGGTGTTTGTCA
1 CAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTCA
* * *
77482 CACAAACGCCGCTAAATATCAATACCTATTGTGGCGTTT
1 CAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTT
77521 TTTGTTTTGA
Statistics
Matches: 140, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
43 104 0.74
44 36 0.26
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (43 bp):
CAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTCA
Found at i:77418 original size:87 final size:85
Alignment explanation
Indices: 77310--77521 Score: 210
Period size: 87 Copynumber: 2.5 Consensus size: 85
77300 CGTTTTTAGC
* * * * *
77310 AAAAACACCGCAAAACATCAACACCTACTGCGGCGTTTTAGAGAAAAACGCCGCTAAACATCATA
1 AAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTT-CAGAAAAACGCCGCTAAACATCA-A
*
77375 -ACCTATTGCAGCGTTTATCTAA
64 CACCTATTACAGCGTTTATC-AA
* * * * * *
77397 AAAAATGCCGCTAAATATCAACACCTATTACGGCATTTGTCATAAAAACGCCGTTAAATATCAAC
1 AAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTT-TCAGAAAAACGCCGCTAAACATCAAC
* * * *
77462 ACCTATTACGGTGTTTGTCAC
65 ACCTATTACAGCGTTTATCAA
* * *
77483 ACAAACGCCGCTAAATATCAATACCTATTGTGGCGTTTT
1 AAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTT
77522 TTGTTTTGAA
Statistics
Matches: 101, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
85 1 0.01
86 34 0.34
87 65 0.64
88 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (85 bp):
AAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTCAGAAAAACGCCGCTAAACATCAACA
CCTATTACAGCGTTTATCAA
Found at i:79201 original size:37 final size:36
Alignment explanation
Indices: 79126--79201 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
79116 TTTTTATATT
*
79126 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
79162 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
79199 TTT
1 TTT
79202 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:79583 original size:20 final size:20
Alignment explanation
Indices: 79530--79588 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
79520 TATTATATAT
*
79530 TATTATTTATTTCATATAAAA
1 TATTATTTA-TTAATATAAAA
* *
79551 GATTAATTT-TTAATGTAAAA
1 TATT-ATTTATTAATATAAAA
79571 TATTATTTATTAAATATA
1 TATTATTTATT-AATATA
79589 TATATTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 4 0.13
20 14 0.47
21 8 0.27
22 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (20 bp):
TATTATTTATTAATATAAAA
Found at i:81017 original size:29 final size:28
Alignment explanation
Indices: 80965--81019 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
80955 TTAAAATAAG
80965 ATTATTAAAATTTAACATTATTTGGTAT
1 ATTATTAAAATTTAACATTATTTGGTAT
*
80993 ATTATTAAGAATGTT-ATATTATTTGGT
1 ATTATTAA-AAT-TTAACATTATTTGGT
81020 TTGGTCTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 14 0.58
30 2 0.08
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (28 bp):
ATTATTAAAATTTAACATTATTTGGTAT
Found at i:81163 original size:18 final size:18
Alignment explanation
Indices: 81136--81177 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
81126 AAGTTGTTAA
81136 ATTTTAAAAAAA-ATATTT
1 ATTTTAAAAAAATATA-TT
* *
81154 ATTTTTAAAACATATATT
1 ATTTTAAAAAAATATATT
81172 ATTTTA
1 ATTTTA
81178 TTATTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTTAAAAAAATATATT
Found at i:81168 original size:17 final size:18
Alignment explanation
Indices: 81137--81176 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
81127 AGTTGTTAAA
*
81137 TTTTAAAAAAAATATTTAT
1 TTTTAAAAAATATA-TTAT
*
81156 TTTTAAAACATATATTAT
1 TTTTAAAAAATATATTAT
81174 TTT
1 TTT
81177 ATTATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTAAAAAATATATTAT
Found at i:85240 original size:64 final size:64
Alignment explanation
Indices: 85172--85352 Score: 213
Period size: 65 Copynumber: 2.8 Consensus size: 64
85162 TTGGAACACT
* *** *
85172 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAA-ATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAT-GCA
** * *
85236 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATATGCA
* * *
85301 T-AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
85353 CAATTAATTC
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
64 46 0.46
65 51 0.52
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (64 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATATGCA
Found at i:85326 original size:19 final size:18
Alignment explanation
Indices: 85302--85350 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
85292 AAATATTCAT
85302 AGTGCATCGATGCATGGA
1 AGTGCATCGATGCATGGA
*
85320 GAGTGCATCGGTGCATGGA
1 -AGTGCATCGATGCATGGA
85339 A-TGCATTCGATG
1 AGTGCA-TCGATG
85351 TTCAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 17 0.63
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.24
Consensus pattern (18 bp):
AGTGCATCGATGCATGGA
Found at i:91825 original size:22 final size:21
Alignment explanation
Indices: 91783--91822 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
91773 GAGTTTGTTT
*
91783 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
91804 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
91823 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:93817 original size:64 final size:63
Alignment explanation
Indices: 93749--93929 Score: 218
Period size: 64 Copynumber: 2.8 Consensus size: 63
93739 TTGGAACACT
* ***
93749 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
93813 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * *
93877 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
93930 CAATTAATTC
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
64 54 0.55
65 45 0.45
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:93901 original size:19 final size:19
Alignment explanation
Indices: 93877--93927 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
93867 GAAAATATTC
93877 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
93896 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
93915 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
93928 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:93903 original size:65 final size:65
Alignment explanation
Indices: 93770--93929 Score: 216
Period size: 65 Copynumber: 2.5 Consensus size: 65
93760 TGCACCAAGT
* ***
93770 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
93834 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
93898 A
65 A
* *
93899 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
93930 CAATTAATTC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 37 0.44
65 47 0.56
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:93969 original size:65 final size:63
Alignment explanation
Indices: 93771--93978 Score: 210
Period size: 65 Copynumber: 3.2 Consensus size: 63
93761 GCACCAAGTG
* * *
93771 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGGCTTG-
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT-TCATGATGCATCGATGCATGAC-TGA
*
93835 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAA-ATTCATGA-TGCATCGATGCAT-GACT
93897 GA
62 GA
* * * *
93899 GTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAATTCATCGATGCATCGATGCATAGACT
1 -TGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAATTCAT-GATGCATCGATGCAT-GACT
93963 GA
62 GA
*
93965 TGCATCGGTGCATG
1 TGCATCGATGCATG
93979 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 10, Indels: 21
0.80 0.06 0.14
Matches are distributed among these distances:
63 10 0.08
64 45 0.37
65 63 0.51
66 5 0.04
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (63 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATTCATGATGCATCGATGCATGACTGA
Found at i:94487 original size:26 final size:25
Alignment explanation
Indices: 94444--94497 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
94434 TCTTAATTTA
* *
94444 TTATGAGAAAAACATAATCTCTAAC
1 TTATGAGAAAAAAATAATATCTAAC
*
94469 TTATGAGAAAAAAAATAATATTTAAC
1 TTATGAG-AAAAAAATAATATCTAAC
94495 TTA
1 TTA
94498 GAAAAACAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.31
Consensus pattern (25 bp):
TTATGAGAAAAAAATAATATCTAAC
Found at i:99900 original size:71 final size:72
Alignment explanation
Indices: 99811--99951 Score: 194
Period size: 71 Copynumber: 2.0 Consensus size: 72
99801 AAGGTAAATT
* * * * * ** *
99811 TTTTAATGAGCTTAACGAGCAATGAGTCGAGTTGAGC-ATCCAATTTTTTAACGAGCACGAGTCG
1 TTTTAACGAGCTTAACGAGCAACGAATCGAGTCGAACAATAAAATTTTATAACGAGCACGAGTCG
99875 AGCACAA
66 AGCACAA
*
99882 TTTTAACGAGCTTAACGAGCAACGAATCGAGTCGAACAATAAAATTTTATAACGAGCACGAGTTG
1 TTTTAACGAGCTTAACGAGCAACGAATCGAGTCGAACAATAAAATTTTATAACGAGCACGAGTCG
99947 AGCAC
66 AGCAC
99952 TATCCAACTC
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
71 32 0.53
72 28 0.47
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (72 bp):
TTTTAACGAGCTTAACGAGCAACGAATCGAGTCGAACAATAAAATTTTATAACGAGCACGAGTCG
AGCACAA
Found at i:100875 original size:23 final size:22
Alignment explanation
Indices: 100848--100890 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
100838 TTTCTCTTAG
* *
100848 TTTATTTAGTAAAAGAATAATTA
1 TTTATTCAATAAAA-AATAATTA
100871 TTTATTCAATAAAAAATAAT
1 TTTATTCAATAAAAAATAAT
100891 ATATGAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (22 bp):
TTTATTCAATAAAAAATAATTA
Found at i:101435 original size:14 final size:15
Alignment explanation
Indices: 101416--101445 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
101406 TCCTCCAACT
101416 ATTAAAAAA-ATTAA
1 ATTAAAAAATATTAA
101430 ATTAAAAAATATTAA
1 ATTAAAAAATATTAA
101445 A
1 A
101446 ATGTTTGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAAAAAATATTAA
Found at i:104345 original size:21 final size:22
Alignment explanation
Indices: 104320--104361 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
104310 TGTGGAAAAG
104320 GTGAAGAA-TGTGTTTGTTGAA
1 GTGAAGAATTGTGTTTGTTGAA
*
104341 GTGAAGAATTGTTTTTGTTGA
1 GTGAAGAATTGTGTTTGTTGA
104362 GTATGAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (22 bp):
GTGAAGAATTGTGTTTGTTGAA
Found at i:106565 original size:24 final size:25
Alignment explanation
Indices: 106534--106585 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
106524 TCTTAATTTA
*
106534 TTATGAG-AAAAAATAATCTCTAAC
1 TTATGAGAAAAAAATAACCTCTAAC
*
106558 TTATGAGAAAAAAATAACCTTTAAC
1 TTATGAGAAAAAAATAACCTCTAAC
106583 TTA
1 TTA
106586 GAAAAACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.31
Consensus pattern (25 bp):
TTATGAGAAAAAAATAACCTCTAAC
Found at i:115931 original size:20 final size:20
Alignment explanation
Indices: 115901--115949 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
115891 TTGTTTTTAA
* * *
115901 TGAACAATATCGTTATTGTG
1 TGAACAGTATCATTACTGTG
*
115921 TGAATAGTATCATTACTGTG
1 TGAACAGTATCATTACTGTG
115941 TGAACAGTA
1 TGAACAGTA
115950 CCGATGCTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (20 bp):
TGAACAGTATCATTACTGTG
Found at i:119285 original size:118 final size:114
Alignment explanation
Indices: 119144--119379 Score: 330
Period size: 118 Copynumber: 2.0 Consensus size: 114
119134 AAAAGAAAAG
* *
119144 AAAAATGATTAAATTTAATTCAAAATTGAATGAATAAATAAGAGAAATTGAAAAAGGAGGTAAAA
1 AAAAATGATTAAATTTAATTCAAAATTGAATGAATAAATAAGAGAAATGGAAAAAAGA-GTAAAA
* *
119209 AATTAAACATTTTATGAATTTATAAAAAGTAGGGGCCTT-ATTTATAAATATA
65 AATTAAA-ATTTCATGAAATTATAAAAAGTA-GGGCCTTAATTT-TAAATATA
* * * * *
119261 AAAAATTGGTTAAATTTAATTCAAAATTGGATGAATTAGTAAGAGAAATGGAAAAAAGAGTTAAA
1 AAAAA-TGATTAAATTTAATTCAAAATTGAATGAATAAATAAGAGAAATGGAAAAAAGAGTAAAA
*
119326 AATTAAAATTTCATGAAATTATAAAAATTAGGGCCTTAATTTTAAATATA
65 AATTAAAATTTCATGAAATTATAAAAAGTAGGGCCTTAATTTTAAATATA
119376 AAAA
1 AAAA
119380 TTAGAGGCCC
Statistics
Matches: 107, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
115 19 0.18
116 24 0.22
117 17 0.16
118 47 0.44
ACGTcount: A:0.52, C:0.03, G:0.14, T:0.31
Consensus pattern (114 bp):
AAAAATGATTAAATTTAATTCAAAATTGAATGAATAAATAAGAGAAATGGAAAAAAGAGTAAAAA
ATTAAAATTTCATGAAATTATAAAAAGTAGGGCCTTAATTTTAAATATA
Found at i:119406 original size:27 final size:27
Alignment explanation
Indices: 119345--119407 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
119335 TTCATGAAAT
* *
119345 TATAAAAATTAGGGCCTTAATTTTAAA
1 TATAAAAATTAGGGCCCTAATTATAAA
*
119372 TATAAAAATTAGAGGCCCTAATTATGAA
1 TATAAAAATTAG-GGCCCTAATTATAAA
*
119400 TACAAAAA
1 TATAAAAA
119408 ATTGGGGTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 12 0.39
28 19 0.61
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.30
Consensus pattern (27 bp):
TATAAAAATTAGGGCCCTAATTATAAA
Found at i:120925 original size:39 final size:39
Alignment explanation
Indices: 120864--120972 Score: 139
Period size: 39 Copynumber: 2.8 Consensus size: 39
120854 GATTATTGGC
* *
120864 CAAAATTGCAGGTGCATCATTTGTTGAAATTTTGTTCGT
1 CAAACTTGCAGGTGCATTATTTGTTGAAATTTTGTTCGT
* *
120903 TAAACTTGCAGGTGCATTATTTGTTGAAATTTTGTTGGT
1 CAAACTTGCAGGTGCATTATTTGTTGAAATTTTGTTCGT
***
120942 CAAACTTATTGGTGCATCT-TTTGTTGAAATT
1 CAAACTTGCAGGTGCAT-TATTTGTTGAAATT
120973 GGTTGCCAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 60 0.98
40 1 0.02
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.44
Consensus pattern (39 bp):
CAAACTTGCAGGTGCATTATTTGTTGAAATTTTGTTCGT
Found at i:125055 original size:18 final size:19
Alignment explanation
Indices: 125028--125066 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
125018 TTTAGTCAAA
*
125028 TTTCTCTTGATTA-TTTGT
1 TTTCTCTTGAATACTTTGT
*
125046 TTTCTTTTGAATACTTTGT
1 TTTCTCTTGAATACTTTGT
125065 TT
1 TT
125067 GAGAGCATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.13, C:0.10, G:0.10, T:0.67
Consensus pattern (19 bp):
TTTCTCTTGAATACTTTGT
Found at i:129194 original size:52 final size:52
Alignment explanation
Indices: 129116--129215 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 52
129106 TGTTAATATC
129116 ACATAAATAGAGGCCCATTTCTTTTATTTCGCCCTGAGCCAAAAAATAAAGA
1 ACATAAATAGAGGCCCATTTCTTTTATTTCGCCCTGAGCCAAAAAATAAAGA
* *
129168 ACATAAATAGAGGCCCATTTCTTTTATTTTGCCCTGGGCCAAAAAATA
1 ACATAAATAGAGGCCCATTTCTTTTATTTCGCCCTGAGCCAAAAAATA
129216 CCCAGAGCCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (52 bp):
ACATAAATAGAGGCCCATTTCTTTTATTTCGCCCTGAGCCAAAAAATAAAGA
Found at i:134958 original size:24 final size:24
Alignment explanation
Indices: 134902--134972 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
134892 TAGTGGTGAG
* * *
134902 GTTGTTTCTTGCTGCTGCGGTTGTT
1 GTTGTTGC-TGCTGCTGCAGCTGTT
**
134927 GTAATTGCTGCTGCTGCAGCTGTT
1 GTTGTTGCTGCTGCTGCAGCTGTT
* * *
134951 GTTGTTGCCGTTGATGCAGCTG
1 GTTGTTGCTGCTGCTGCAGCTG
134973 CTGCTGCAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.07, C:0.18, G:0.32, T:0.42
Consensus pattern (24 bp):
GTTGTTGCTGCTGCTGCAGCTGTT
Found at i:135019 original size:18 final size:18
Alignment explanation
Indices: 134998--135054 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
134988 CTGTTGCTGT
134998 TGTTGCTGCAATTGCAAC
1 TGTTGCTGCAATTGCAAC
*
135016 TGTTGCTGC---TG---T
1 TGTTGCTGCAATTGCAAC
135028 TGTTGCTGCAATTGCAAC
1 TGTTGCTGCAATTGCAAC
135046 TGTTGCTGC
1 TGTTGCTGC
135055 TGCTGTTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
12 9 0.29
15 4 0.13
18 18 0.58
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.39
Consensus pattern (18 bp):
TGTTGCTGCAATTGCAAC
Found at i:135026 original size:30 final size:30
Alignment explanation
Indices: 134974--135062 Score: 148
Period size: 30 Copynumber: 3.1 Consensus size: 30
134964 ATGCAGCTGC
134974 TGCTGCAATTGCAACTG-T--TGCTGTTGT
1 TGCTGCAATTGCAACTGTTGCTGCTGTTGT
135001 TGCTGCAATTGCAACTGTTGCTGCTGTTGT
1 TGCTGCAATTGCAACTGTTGCTGCTGTTGT
*
135031 TGCTGCAATTGCAACTGTTGCTGCTGCTGT
1 TGCTGCAATTGCAACTGTTGCTGCTGTTGT
135061 TG
1 TG
135063 TTGCTGCTGC
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
27 17 0.29
28 1 0.02
30 40 0.69
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.39
Consensus pattern (30 bp):
TGCTGCAATTGCAACTGTTGCTGCTGTTGT
Found at i:135066 original size:15 final size:15
Alignment explanation
Indices: 135046--135074 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
135036 CAATTGCAAC
135046 TGTTGCTGCTGCTGT
1 TGTTGCTGCTGCTGT
135061 TGTTGCTGCTGCTG
1 TGTTGCTGCTGCTG
135075 GTTCATGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.21, G:0.34, T:0.45
Consensus pattern (15 bp):
TGTTGCTGCTGCTGT
Found at i:135627 original size:9 final size:9
Alignment explanation
Indices: 135571--135627 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
135561 CTGCGATGGC
*
135571 TGCTGCTGC
1 TGCTGCTGT
135580 TGCTGCTGT
1 TGCTGCTGT
* *
135589 TGTTGTTGT
1 TGCTGCTGT
*
135598 TGCAATTGCTGC
1 TGC---TGCTGT
135610 TGCTGCTGT
1 TGCTGCTGT
135619 TGCTGCTGT
1 TGCTGCTGT
135628 ATCATCTGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
9 31 0.82
12 7 0.18
ACGTcount: A:0.04, C:0.21, G:0.32, T:0.44
Consensus pattern (9 bp):
TGCTGCTGT
Found at i:145725 original size:23 final size:23
Alignment explanation
Indices: 145699--145789 Score: 128
Period size: 23 Copynumber: 4.0 Consensus size: 23
145689 ATTATTGTAT
145699 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
* * *
145722 GGCACTTCGGTGCAATTCTACGT
1 GGCACTACGGTGCATTTCTACGC
*
145745 GGCACTACGGTGCATTTCTACTC
1 GGCACTACGGTGCATTTCTACGC
* *
145768 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCATTTCTACG
145790 AGCTGTGGTG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:146036 original size:19 final size:19
Alignment explanation
Indices: 146014--146053 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
146004 CAAGATCATG
146014 TGATAAATAAT-GATGATAA
1 TGAT-AATAATAGATGATAA
*
146033 TGATAATAATATATGATAA
1 TGATAATAATAGATGATAA
146052 TG
1 TG
146054 CTAAGAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (19 bp):
TGATAATAATAGATGATAA
Done.