Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 100 of 106
Found at i:21186741 original size:16 final size:16
Alignment explanation
Indices: 21186718--21186759 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
21186708 GGATAATGTA
21186718 AAAAAAATAAAT-AAT
1 AAAAAAATAAATAAAT
*
21186733 AAGAAAAAT-GATAAAT
1 AA-AAAAATAAATAAAT
21186749 AAAAAAATAAA
1 AAAAAAATAAA
21186760 ACAAATTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (16 bp):
AAAAAAATAAATAAAT
Found at i:21187102 original size:20 final size:19
Alignment explanation
Indices: 21187066--21187106 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
21187056 TCTAAATTTT
21187066 ATAATAAAAATAATTAATAA
1 ATAATAAAAATAATTAA-AA
21187086 ATAATAAAAA-AATTTAAAA
1 ATAATAAAAATAA-TTAAAA
21187105 AT
1 AT
21187107 TATCGTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATAATTAAAA
Found at i:21190484 original size:26 final size:26
Alignment explanation
Indices: 21190436--21190487 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
21190426 ATAAAATGAC
21190436 ATTATTAATTTAATTTTATTTATAAT
1 ATTATTAATTTAATTTTATTTATAAT
*
21190462 ATTATTATATTTTATTTTA-TTATAAT
1 ATTATTA-ATTTAATTTTATTTATAAT
21190488 TTTGTGTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTATTAATTTAATTTTATTTATAAT
Found at i:21190997 original size:19 final size:18
Alignment explanation
Indices: 21190973--21191042 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
21190963 GTTTTCAAAA
21190973 ATAAATTTTTAAAAAAATT
1 ATAAATTTTT-AAAAAATT
**
21190992 ATAAATTTTTTCAAAA--
1 ATAAATTTTTAAAAAATT
21191008 ATAAA-TTTTAAAAAATT
1 ATAAATTTTTAAAAAATT
21191025 ATAAAATTTTTAAAAAAT
1 AT-AAATTTTTAAAAAAT
21191043 AAATTTTCGA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
15 8 0.19
16 5 0.12
17 2 0.05
18 7 0.16
19 21 0.49
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAAATTTTTAAAAAATT
Found at i:21191026 original size:33 final size:34
Alignment explanation
Indices: 21190964--21191049 Score: 138
Period size: 33 Copynumber: 2.5 Consensus size: 34
21190954 TTTACGTAAG
*
21190964 TTTTCAAAAATAAATTTTTAAAAAAATTATAAATT
1 TTTTCAAAAATAAA-TTTTAAAAAAATTATAAAAT
21190999 TTTTCAAAAATAAATTTT-AAAAAATTATAAAAT
1 TTTTCAAAAATAAATTTTAAAAAAATTATAAAAT
*
21191032 TTTTAAAAAATAAATTTT
1 TTTTCAAAAATAAATTTT
21191050 CGAAAAGTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 31 0.63
34 4 0.08
35 14 0.29
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (34 bp):
TTTTCAAAAATAAATTTTAAAAAAATTATAAAAT
Found at i:21191055 original size:16 final size:15
Alignment explanation
Indices: 21190969--21191049 Score: 63
Period size: 18 Copynumber: 4.9 Consensus size: 15
21190959 GTAAGTTTTC
21190969 AAAAATAAATTTTTAAA
1 AAAAATAAA-TTTT-AA
**
21190986 AAAATTATAAATTTTTTC
1 AAAA--ATAAA-TTTTAA
21191004 AAAAATAAATTTTAA
1 AAAAATAAATTTTAA
*
21191019 AAAATTATAAAATTTTTA
1 AAAA--AT-AAATTTTAA
21191037 AAAAATAAATTTT
1 AAAAATAAATTTT
21191050 CGAAAAGTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
15 15 0.28
16 7 0.13
17 6 0.11
18 16 0.30
19 10 0.19
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAAATAAATTTTAA
Found at i:21198130 original size:79 final size:79
Alignment explanation
Indices: 21197997--21198154 Score: 219
Period size: 79 Copynumber: 2.0 Consensus size: 79
21197987 AAGAAGATTG
* *
21197997 CTTGTTTTGATTGCTTTTAACTTCACATATTGTGAAGCTCTCCTATTTCCATCATCGTTGTTTGA
1 CTTGTTTTGATCGCTTTCAACTTCACATATTGTGAAGCTCTCCTATTTCCATCATCGTTGTTTGA
* *
21198062 TATTTGTCTATGAA
66 TAGTTGTATATGAA
* * ** *
21198076 CTTGTTTTGATCGC-TTCAACCTTCTCATATTGTGAAGCTTTCCTATTTTTATCATTGTTGTTTG
1 CTTGTTTTGATCGCTTTCAA-CTTCACATATTGTGAAGCTCTCCTATTTCCATCATCGTTGTTTG
21198140 ATAGTTGTATATGAA
65 ATAGTTGTATATGAA
21198155 AAACCTGCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
78 4 0.06
79 65 0.94
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (79 bp):
CTTGTTTTGATCGCTTTCAACTTCACATATTGTGAAGCTCTCCTATTTCCATCATCGTTGTTTGA
TAGTTGTATATGAA
Found at i:21205499 original size:18 final size:17
Alignment explanation
Indices: 21205473--21205506 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21205463 AGAATAATGA
21205473 AATTATTTAATTTTTTTG
1 AATTATTT-ATTTTTTTG
*
21205491 AATTTTTTATTTTTTT
1 AATTATTTATTTTTTT
21205507 ATTTCTCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
AATTATTTATTTTTTTG
Found at i:21210398 original size:429 final size:432
Alignment explanation
Indices: 21209593--21210451 Score: 1503
Period size: 429 Copynumber: 2.0 Consensus size: 432
21209583 TACGAATGAG
* * * *
21209593 GAAGATATTAGCTCCTTCATATCACCCATTCAAATAACAATACCAGTTAAGCATATATTATTCTT
1 GAAGATATTAGCACCCTCATATCACCAATTCAAATAACAATACCAATTAAGCATATATTATTCTT
*
21209658 TAATTTTGATAATATGGCCTTTTTAAAAAATATATTTGAATTTAATTCCTTTAAAATTTCCCTTA
66 TAATTTTGATAATATGGCCTTTTTAAAAAATATATTTGAATTTAATTCCTTTAAAATTTCCCTAA
* *
21209723 TGCAAAATATATTATTATTTTTTTTTCATTTTATAAATTCTTCAACGTTTTGACAGAATTCATAA
131 TGCAAAATATATTATTATTTTTTTTGCATTCTATAAATTCTTCAACGTTTTGACAGAATTCATAA
*
21209788 AAATATCTTTATTCAAAAAATTTTTGAAAAAATTAATCATTCATAAAATTTTTGAAATTTTGTCA
196 AAATATCTTTATTCAAAAAATTTTTGAAAAAATTAATCATTCACAAAATTTTTGAAATTTTGTCA
*
21209853 TAACATATTTTGAGTATTTATTAAAATTAATTTTAGGATTATCCTAACTCTTCGGTAAAACCCTA
261 TAACATATTTTGAGTATTTATTAAAATTAATTTCAGGATTATCCTAACTCTTCGGTAAAACCCTA
* *
21209918 AAAAATTTTAAATAAATTTTAGGATCATCTTAACTTTCTAATGAGATCTTGAAAAAAATTA-TTT
326 AAAAATTTTAAATAAATTTTAGAATCATCTCAACTTTCTAATGAGATCTTGAAAAAAATTATTTT
21209982 TTTATTACTAATAATTAAGAAAAATGAGTTTCTCCCAATTAA
391 TTTATTACTAATAATTAAGAAAAATGAGTTTCTCCCAATTAA
*
21210024 GAAGATATTAGCACCCTCATATCACCAATTCAAATAACAATATCAATTAAGCATATATTATTCTT
1 GAAGATATTAGCACCCTCATATCACCAATTCAAATAACAATACCAATTAAGCATATATTATTCTT
21210089 TAATTTTGATAATATGG-CTTTTTAAAAAA-A-A-TTGAATTTAATTCCTTTAAAATTTCCCTAA
66 TAATTTTGATAATATGGCCTTTTTAAAAAATATATTTGAATTTAATTCCTTTAAAATTTCCCTAA
21210150 TGCAAAATATATTATTATTTTTTTTCGCATTCTATAAATTCTTCAACGTTTTGACAGAATTCATA
131 TGCAAAATATATTATTATTTTTTTT-GCATTCTATAAATTCTTCAACGTTTTGACAGAATTCAT-
21210215 AAAAATATCTTTATTCAAAAAATTTTTGAAAAAATTAATCATTCACAAAATTTTTGAAATTTTGT
194 AAAAATATCTTTATTCAAAAAATTTTTGAAAAAATTAATCATTCACAAAATTTTTGAAATTTTGT
* * * *
21210280 CATAACATATTTTGAGTATTTATTAAAATTAATTTCAGGATTATCCTGACTCTTCGGTGAAATCT
259 CATAACATATTTTGAGTATTTATTAAAATTAATTTCAGGATTATCCTAACTCTTCGGTAAAACCC
*
21210345 TAAAAAATTTTAAATAAATTTTAGAATCATCTCAACTTTCTAATGATATCTTGAAAAAAATTATT
324 TAAAAAATTTTAAATAAATTTTAGAATCATCTCAACTTTCTAATGAGATCTTGAAAAAAATTATT
*
21210410 TTTTTATTACTGATAATTAAGAAAAATGAGTTTCTCCCAATT
389 TTTTTATTACTAATAATTAAGAAAAATGAGTTTCTCCCAATT
21210452 TTTCTTAAAA
Statistics
Matches: 407, Mismatches: 18, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
427 54 0.13
428 37 0.09
429 185 0.45
430 54 0.13
431 77 0.19
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (432 bp):
GAAGATATTAGCACCCTCATATCACCAATTCAAATAACAATACCAATTAAGCATATATTATTCTT
TAATTTTGATAATATGGCCTTTTTAAAAAATATATTTGAATTTAATTCCTTTAAAATTTCCCTAA
TGCAAAATATATTATTATTTTTTTTGCATTCTATAAATTCTTCAACGTTTTGACAGAATTCATAA
AAATATCTTTATTCAAAAAATTTTTGAAAAAATTAATCATTCACAAAATTTTTGAAATTTTGTCA
TAACATATTTTGAGTATTTATTAAAATTAATTTCAGGATTATCCTAACTCTTCGGTAAAACCCTA
AAAAATTTTAAATAAATTTTAGAATCATCTCAACTTTCTAATGAGATCTTGAAAAAAATTATTTT
TTTATTACTAATAATTAAGAAAAATGAGTTTCTCCCAATTAA
Found at i:21212308 original size:6 final size:6
Alignment explanation
Indices: 21212284--21212343 Score: 72
Period size: 6 Copynumber: 10.5 Consensus size: 6
21212274 TATTCAAAGG
* * *
21212284 AAATCA AAATAA TAA-AA AAATAA AAATAA AGATAA AAATAA AAAT-A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
21212330 AAAT-A AAATAA AAA
1 AAATAA AAATAA AAA
21212344 ATACTAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
5 14 0.30
6 33 0.70
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:21212318 original size:23 final size:20
Alignment explanation
Indices: 21212284--21212344 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 20
21212274 TATTCAAAGG
21212284 AAATCAAAATAATAAAAAAATAA
1 AAAT-AAAATAA-AAAAAAAT-A
21212307 AAATAAAGATAAAAATAAAAATA
1 AAATAAA-AT-AAAA-AAAAATA
21212330 AAATAAAATAAAAAA
1 AAATAAAATAAAAAA
21212345 TACTAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
20 2 0.06
21 4 0.11
22 5 0.14
23 16 0.46
24 8 0.23
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (20 bp):
AAATAAAATAAAAAAAAATA
Found at i:21212320 original size:12 final size:11
Alignment explanation
Indices: 21212284--21212343 Score: 70
Period size: 11 Copynumber: 5.3 Consensus size: 11
21212274 TATTCAAAGG
21212284 AAATCAAAATAA
1 AAAT-AAAATAA
21212296 TAAA-AAAATAA
1 -AAATAAAATAA
21212307 AAATAAAGATAA
1 AAATAAA-ATAA
21212319 AAATAAAA-ATA
1 AAATAAAATA-A
21212330 AAATAAAATAA
1 AAATAAAATAA
21212341 AAA
1 AAA
21212344 ATACTAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
10 4 0.09
11 24 0.56
12 12 0.28
13 3 0.07
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:21212344 original size:17 final size:17
Alignment explanation
Indices: 21212289--21212346 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
21212279 AAAGGAAATC
*
21212289 AAAATAATAAAAAAAT-A
1 AAAATAA-AATAAAATAA
21212306 AAAATAAAGATAAAA-ATA
1 AAAATAAA-ATAAAATA-A
21212324 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
21212341 AAAATA
1 AAAATA
21212347 CTAAATAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 1 0.03
17 25 0.69
18 10 0.28
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAATAAAATAAAATAA
Found at i:21212354 original size:24 final size:23
Alignment explanation
Indices: 21212299--21212343 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
21212289 AAAATAATAA
21212299 AAAAATAAAAATAAAGATAAAAAT
1 AAAAAT-AAAATAAAGATAAAAAT
21212323 AAAAATAAAATAAA-ATAAAAA
1 AAAAATAAAATAAAGATAAAAA
21212344 ATACTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.33
23 8 0.38
24 6 0.29
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAAATAAAATAAAGATAAAAAT
Found at i:21212382 original size:3 final size:3
Alignment explanation
Indices: 21212363--21212397 Score: 52
Period size: 3 Copynumber: 11.0 Consensus size: 3
21212353 AATTCCAATC
21212363 TAA TCAA TAA CTAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
21212398 ATAAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 24 0.80
4 6 0.20
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:21212704 original size:22 final size:23
Alignment explanation
Indices: 21212679--21212721 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
21212669 AGATCGCTTC
21212679 TTTTTTTCTCT--CTC-TTCTCT
1 TTTTTTTCTCTCCCTCTTTCTCT
21212699 TTTTTTTCTCTCCCTCTTTCTCT
1 TTTTTTTCTCTCCCTCTTTCTCT
21212722 AAACAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 11 0.55
22 3 0.15
23 6 0.30
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTTTTCTCTCCCTCTTTCTCT
Found at i:21212808 original size:31 final size:31
Alignment explanation
Indices: 21212763--21212829 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
21212753 CAGAATCTGA
* ** * *
21212763 AAAAAGTCACCGAAAGCTTCAAATTTGGTCG
1 AAAAACTCACCGAAAAATTCAAAGTTCGTCG
*
21212794 AAAAACTCATCGAAAAATTCAAAGTTCGTCG
1 AAAAACTCACCGAAAAATTCAAAGTTCGTCG
21212825 AAAAA
1 AAAAA
21212830 TTTCGTCAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (31 bp):
AAAAACTCACCGAAAAATTCAAAGTTCGTCG
Found at i:21213204 original size:23 final size:23
Alignment explanation
Indices: 21213117--21213208 Score: 90
Period size: 22 Copynumber: 4.3 Consensus size: 23
21213107 GAAAACTTAT
*
21213117 ATATATTAATAGATAAATGATAA
1 ATATATTAATAGATAAATAATAA
**
21213140 A-A-A--AATTTA-AAATAAT-A
1 ATATATTAATAGATAAATAATAA
*
21213157 ATATTTTAATAGATAAA-AATAA
1 ATATATTAATAGATAAATAATAA
*
21213179 ATATATTAGTAGATAAATAATAA
1 ATATATTAATAGATAAATAATAA
21213202 ATATATT
1 ATATATT
21213209 CAAAAAAATA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
17 2 0.04
18 7 0.13
19 4 0.07
21 8 0.15
22 20 0.37
23 13 0.24
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATATTAATAGATAAATAATAA
Found at i:21213549 original size:41 final size:42
Alignment explanation
Indices: 21213470--21213665 Score: 211
Period size: 42 Copynumber: 4.7 Consensus size: 42
21213460 CACCTTTAAG
* *
21213470 TAGAGTCTCAATGAC-TTTG-AAAATAAATGGCT-ACTCTAAT
1 TAGAGGCTCAATGACTTTTGAAAAATAAAAGGCTCA-TCTAAT
21213510 TAGAGGCTCAATGAC-TTTGAAAAATAAAAGGCTCATCTAAT
1 TAGAGGCTCAATGACTTTTGAAAAATAAAAGGCTCATCTAAT
* *
21213551 TAGAGGCTCAATAACTTTTTTAAAAAATAAAAGGCTCATCTAAT
1 TAGAGGCTCAATGAC--TTTTGAAAAATAAAAGGCTCATCTAAT
* * * * **
21213595 CAGAGGCTCAACGACTTTTAAAAAATAAAAAGCTCCGCTAAT
1 TAGAGGCTCAATGACTTTTGAAAAATAAAAGGCTCATCTAAT
* * * *
21213637 CAGAGACTCAACGACTTTTGAAAAGTAAA
1 TAGAGGCTCAATGACTTTTGAAAAATAAA
21213666 TTACTTATCT
Statistics
Matches: 138, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
40 18 0.13
41 32 0.23
42 51 0.37
44 37 0.27
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (42 bp):
TAGAGGCTCAATGACTTTTGAAAAATAAAAGGCTCATCTAAT
Found at i:21213707 original size:41 final size:40
Alignment explanation
Indices: 21213653--21213790 Score: 188
Period size: 41 Copynumber: 3.4 Consensus size: 40
21213643 CTCAACGACT
* * *
21213653 TTTGAAAAGTAAATTACTTATCTCATCAGAGGCATCACAAC
1 TTTGAAAAATAAATTACTT-TCTAAACAGAGGCATCACAAC
*
21213694 TTTGAAAAATAAATTGCTCCTT-TAAACAGAGGCATCACAAC
1 TTTGAAAAATAAATTACT--TTCTAAACAGAGGCATCACAAC
21213735 TTTGAAAAATAAATTACTCTTCTAAACAGAGGCATCACAAC
1 TTTGAAAAATAAATTACT-TTCTAAACAGAGGCATCACAAC
21213776 TTTGAAAAAATAAAT
1 TTTG-AAAAATAAAT
21213791 GCTCCTTGAC
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
40 3 0.03
41 73 0.83
42 11 0.12
43 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.28
Consensus pattern (40 bp):
TTTGAAAAATAAATTACTTTCTAAACAGAGGCATCACAAC
Found at i:21214818 original size:11 final size:10
Alignment explanation
Indices: 21214804--21214863 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
21214794 TTTCATTCAC
*
21214804 TTTTTTTCCT
1 TTTTTTTTCT
21214814 TTTTTTTTCT
1 TTTTTTTTCT
*
21214824 TTTTTTTATTT
1 TTTTTTT-TCT
*
21214835 TTTTTATTTCG
1 TTTTT-TTTCT
*
21214846 TTTTTTCT-T
1 TTTTTTTTCT
21214855 TTTTTTTTC
1 TTTTTTTTC
21214864 AAGTATAGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
9 7 0.17
10 18 0.45
11 13 0.32
12 2 0.05
ACGTcount: A:0.03, C:0.10, G:0.02, T:0.85
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:21214830 original size:9 final size:9
Alignment explanation
Indices: 21214803--21214860 Score: 53
Period size: 9 Copynumber: 6.0 Consensus size: 9
21214793 TTTTCATTCA
*
21214803 CTTTTTTTC
1 CTTTTTTTT
21214812 CTTTTTTTTT
1 C-TTTTTTTT
21214822 CTTTTTTTT
1 CTTTTTTTT
*
21214831 ATTTTTTTT
1 CTTTTTTTT
*
21214840 ATTTCGTTTTTT
1 -CTT--TTTTTT
21214852 CTTTTTTTT
1 CTTTTTTTT
21214861 TTCAAGTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 23 0.56
10 10 0.24
11 2 0.05
12 6 0.15
ACGTcount: A:0.03, C:0.10, G:0.02, T:0.84
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:21214857 original size:22 final size:21
Alignment explanation
Indices: 21214813--21214862 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
21214803 CTTTTTTTCC
*
21214813 TTTTTTTTTCTTTTTTTTATT
1 TTTTTTTTTCTTTTTTCTATT
21214834 TTTTTTATTTCGTTTTTTCT-TT
1 TTTTTT-TTTC-TTTTTTCTATT
21214856 TTTTTTT
1 TTTTTTT
21214863 CAAGTATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 12 0.46
23 7 0.27
ACGTcount: A:0.04, C:0.06, G:0.02, T:0.88
Consensus pattern (21 bp):
TTTTTTTTTCTTTTTTCTATT
Found at i:21225343 original size:57 final size:57
Alignment explanation
Indices: 21225273--21225529 Score: 272
Period size: 58 Copynumber: 4.5 Consensus size: 57
21225263 TGCTTTCGTA
* * *
21225273 CAAGAACAATTGATACTTTCAACTTTTTC-CCAAAATGTTTTTCTAAAATTTTAATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCCAAAATATTTTT-TAAAA-ATTAATTTT
* * * *
21225331 -GAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATCTTTTTTAAAAAATT-ATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCCAAAATATTTTTT-AAAAATTAATTTT
** * * *
21225387 CAA-AGAAAATTGATACTTTCAACTTTTTCTTGAAAATATTTTTTTGAAGACTAATTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTTCTCCAAAATA-TTTTTTAAAAATTAATTTT
* * *
21225445 CAAGAAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAACTT-ATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCCAAAATATTTTTTA-AAAA-TTAATTTT
*
21225503 TAAGAAAAATTGATACTTTCAACTTTT
1 CAAGAAAAATTGATACTTTCAACTTTT
21225530 CCTTTAAAAA
Statistics
Matches: 167, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
56 5 0.03
57 69 0.41
58 91 0.54
59 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (57 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCCAAAATATTTTTTAAAAATTAATTTT
Found at i:21225469 original size:115 final size:114
Alignment explanation
Indices: 21225274--21225538 Score: 320
Period size: 115 Copynumber: 2.3 Consensus size: 114
21225264 GCTTTCGTAC
* * * * *
21225274 AAGAACAATTGATACTTTCAACTTTTTC-CCAAAATGTTTTTCTAAAATTTTAATTTTGAGGAAA
1 AAGAA-AATTGATACTTTCAACTTTTTCTTCAAAATATTTTTCTAAAA-TCTAATTTTAAGAAAA
* *
21225338 ATTGATACTTTCAACTTTTTCTCAAAAATCTTTTTTA-AAAAATTATTTTCA
64 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAATTATTTT-A
* * *
21225389 AAGAAAATTGATACTTTCAACTTTTTCTTGAAAATATTTTTTTGAAGA-CTAATTTTCAAGAAAA
1 AAGAAAATTGATACTTTCAACTTTTTCTTCAAAATATTTTTCT-AAAATCTAATTTT-AAGAAAA
* * *
21225453 ATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTT
64 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAATTATTTTA
* *
21225504 AAGAAAAATTGATACTTTCAACTTTTCCTTTAAAA
1 AAG-AAAATTGATACTTTCAACTTTTTCTTCAAAA
21225539 ATATATTTGT
Statistics
Matches: 130, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
114 29 0.22
115 58 0.45
116 43 0.33
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (114 bp):
AAGAAAATTGATACTTTCAACTTTTTCTTCAAAATATTTTTCTAAAATCTAATTTTAAGAAAAAT
TGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAATTATTTTA
Found at i:21225570 original size:58 final size:55
Alignment explanation
Indices: 21225274--21225570 Score: 228
Period size: 58 Copynumber: 5.1 Consensus size: 55
21225264 GCTTTCGTAC
* **
21225274 AAGAACAATTGATACTTTCAACTTTTTCC-C-AAAATGTTTTTCTAA-AATTTTAATTTTG
1 AAGAA-AATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTT-TAAGAA-TTT--TTTCA
* * * *
21225332 AGGAAAATTGATACTTTCAACTTTTTCTCAAAAATCTTTTTTAAAAAATTATTTTCA
1 AAGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-AAGAATT-TTTTCA
* ** * *
21225389 AAGAAAATTGATACTTTCAACTTTTTCTTGAAAATATTTTTTTGAAGACTAATTTTC-
1 AAGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTT-AAGAAT-TTTTTCA
* * *
21225446 AAGAAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT-T
1 AAG-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTA-AGAA-TT-TTTTCA
*
21225504 AAGAAAAATTGATACTTTCAACTTTTCCTTTAAAAATATATTTGTT-AGAATTTTATTCA
1 AAG-AAAATTGATACTTTCAACTTTTCC-TCAAAAATAT-TTT-TTAAGAATTTT-TTCA
21225563 AAGAAAAT
1 AAGAAAAT
21225571 CAAAAAAATA
Statistics
Matches: 198, Mismatches: 24, Indels: 34
0.77 0.09 0.13
Matches are distributed among these distances:
56 6 0.03
57 66 0.33
58 103 0.52
59 18 0.09
60 3 0.02
61 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (55 bp):
AAGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAGAATTTTTTCA
Found at i:21225583 original size:14 final size:13
Alignment explanation
Indices: 21225566--21225608 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
21225556 TTATTCAAAG
*
21225566 AAAATCAAAAAAATA
1 AAAAT-AAAATAA-A
21225581 AAAATAAAATAAA
1 AAAATAAAATAAA
21225594 TAAAATAAAATAAA
1 -AAAATAAAATAAA
21225608 A
1 A
21225609 TAAGAAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 2 0.08
14 19 0.73
15 5 0.19
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:21225589 original size:5 final size:5
Alignment explanation
Indices: 21225566--21225611 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
21225556 TTATTCAAAG
*
21225566 AAAAT CAAA- AAAAT AAAAAT AAAAT -AAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
21225612 GAAATACTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
4 7 0.19
5 24 0.67
6 5 0.14
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:21226591 original size:33 final size:31
Alignment explanation
Indices: 21226507--21226593 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 31
21226497 ATATATATAT
*
21226507 ATATATTAATAGATAAATGATAAAAAAATAA
1 ATATATTAATAGATAAATAATAAAAAAATAA
* **
21226538 A-ATAATAATA-ATATGTTAATAGATAAAAATAA
1 ATATATTAATAGATA-AATAATA-A-AAAAATAA
*
21226570 ATATATTAGTAGATAAATAATAAA
1 ATATATTAATAGATAAATAATAAA
21226594 TATATTCAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
29 3 0.07
30 12 0.28
31 3 0.07
32 10 0.23
33 12 0.28
34 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (31 bp):
ATATATTAATAGATAAATAATAAAAAAATAA
Found at i:21226595 original size:23 final size:23
Alignment explanation
Indices: 21226507--21226634 Score: 101
Period size: 22 Copynumber: 5.9 Consensus size: 23
21226497 ATATATATAT
*
21226507 ATATATTAATAGATAAATGATAA
1 ATATATTAATAGATAAATAATAA
* *
21226530 A-AAAATAA-A-AT-AATAAT-A
1 ATATATTAATAGATAAATAATAA
*
21226548 ATATGTTAATAGATAAA-AATAA
1 ATATATTAATAGATAAATAATAA
*
21226570 ATATATTAGTAGATAAATAATAA
1 ATATATTAATAGATAAATAATAA
* * *
21226593 ATATATTCAAAAAATAAAAAATAA
1 ATATATT-AATAGATAAATAATAA
* *
21226617 AAATACTAATA-A-AAATAA
1 ATATATTAATAGATAAATAA
21226635 AAGCAAAAAT
Statistics
Matches: 82, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
18 2 0.02
19 9 0.11
20 3 0.04
21 11 0.13
22 24 0.29
23 16 0.20
24 17 0.21
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (23 bp):
ATATATTAATAGATAAATAATAA
Found at i:21226944 original size:36 final size:36
Alignment explanation
Indices: 21226903--21226974 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
21226893 TCTTAAAATT
** *
21226903 GAAAGCTCCTCTAACAAGAGGTTATGACACTTTAAA
1 GAAAGCTCCTCTAACAAGAGGCAATGAAACTTTAAA
* * *
21226939 GAAAGCTCTTCTGACTAGAGGCAATGAAACTTTAAA
1 GAAAGCTCCTCTAACAAGAGGCAATGAAACTTTAAA
21226975 TAGCTTCTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (36 bp):
GAAAGCTCCTCTAACAAGAGGCAATGAAACTTTAAA
Found at i:21238265 original size:18 final size:18
Alignment explanation
Indices: 21238242--21238276 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21238232 ATTTTTATTC
21238242 TAAAATGAGATAACGAAT
1 TAAAATGAGATAACGAAT
* *
21238260 TAAAATTAGATATCGAA
1 TAAAATGAGATAACGAA
21238277 AAAACCATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (18 bp):
TAAAATGAGATAACGAAT
Found at i:21238725 original size:3 final size:3
Alignment explanation
Indices: 21238717--21238770 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
21238707 TTATTAGGAA
* *
21238717 ATT ATT ATT ATT ATT ATT GTT ATT ATT ACT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21238765 ATT ATT
1 ATT ATT
21238771 TTTGCATTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:21239832 original size:5 final size:5
Alignment explanation
Indices: 21239818--21239860 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
21239808 ACGAACAACA
*
21239818 AAAAT AAAAT CAAAT AAAAT -AAA- AAAAT AAAACT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAA
21239861 AAGGAAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 6 0.18
5 22 0.67
6 5 0.15
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:21239868 original size:19 final size:20
Alignment explanation
Indices: 21239832--21239873 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
21239822 TAAAATCAAA
*
21239832 TAAAATAAAAAAA-TAAAAC
1 TAAAATAAAAAAAGAAAAAC
*
21239851 TAAAATAAAAAAGGAAAAAC
1 TAAAATAAAAAAAGAAAAAC
21239871 TAA
1 TAA
21239874 CCAAACGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (20 bp):
TAAAATAAAAAAAGAAAAAC
Found at i:21239873 original size:20 final size:19
Alignment explanation
Indices: 21239823--21239862 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
21239813 CAACAAAAAT
*
21239823 AAAATCAAA-TAAAATAAA
1 AAAATAAAACTAAAATAAA
21239841 AAAATAAAACTAAAATAAA
1 AAAATAAAACTAAAATAAA
21239860 AAA
1 AAA
21239863 GGAAAAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAATAAAACTAAAATAAA
Found at i:21241651 original size:28 final size:28
Alignment explanation
Indices: 21241579--21241654 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
21241569 TCGATACCCA
* * * *
21241579 ATTTCAATTCAACTAGGCTTCAGGCTCG
1 ATTTCAATTTATCTGGGCTTCAAGCTCG
*
21241607 ATTTCAATTTATTTGGGCTTCAAGCTCG
1 ATTTCAATTTATCTGGGCTTCAAGCTCG
*
21241635 ATTTCAGTTTGA-CTGGGCTT
1 ATTTCAATTT-ATCTGGGCTT
21241655 ACAGTCTGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (28 bp):
ATTTCAATTTATCTGGGCTTCAAGCTCG
Found at i:21241787 original size:18 final size:17
Alignment explanation
Indices: 21241764--21241799 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
21241754 ACCAAAATAT
*
21241764 AAAATATAAAATACCAAA
1 AAAATACAAAATA-CAAA
21241782 AAAATACAAAATACAAA
1 AAAATACAAAATACAAA
21241799 A
1 A
21241800 TACAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.75, C:0.11, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAATACAAAATACAAA
Found at i:21241792 original size:7 final size:7
Alignment explanation
Indices: 21241741--21241806 Score: 66
Period size: 7 Copynumber: 9.7 Consensus size: 7
21241731 TAAATTAAAC
21241741 CAAAATA
1 CAAAATA
*
21241748 CAGAATA
1 CAAAATA
21241755 CCAAAATA
1 -CAAAATA
*
21241763 TAAAATA
1 CAAAATA
*
21241770 TAAAATA
1 CAAAATA
*
21241777 C-CAA-A
1 CAAAATA
21241782 -AAAATA
1 CAAAATA
21241788 CAAAATA
1 CAAAATA
21241795 CAAAATA
1 CAAAATA
21241802 CAAAA
1 CAAAA
21241807 AAATTATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
5 3 0.06
6 3 0.06
7 37 0.76
8 6 0.12
ACGTcount: A:0.70, C:0.14, G:0.02, T:0.15
Consensus pattern (7 bp):
CAAAATA
Found at i:21241792 original size:25 final size:24
Alignment explanation
Indices: 21241741--21241810 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 24
21241731 TAAATTAAAC
* *
21241741 CAAAATACAGAATAC--CAAAATA
1 CAAAATACAAAATACAAAAAAATA
* *
21241763 TAAAATATAAAATACCAAAAAAATA
1 CAAAATACAAAATA-CAAAAAAATA
21241788 CAAAATACAAAATACAAAAAAAT
1 CAAAATACAAAATACAAAAAAAT
21241811 TATTAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
22 11 0.28
23 1 0.03
24 9 0.23
25 18 0.46
ACGTcount: A:0.70, C:0.13, G:0.01, T:0.16
Consensus pattern (24 bp):
CAAAATACAAAATACAAAAAAATA
Found at i:21242088 original size:14 final size:14
Alignment explanation
Indices: 21242069--21242097 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21242059 GCTCCTGGCC
21242069 AAACCTAAAAGGGG
1 AAACCTAAAAGGGG
21242083 AAACCTAAAAGGGG
1 AAACCTAAAAGGGG
21242097 A
1 A
21242098 GAAAAGGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.28, T:0.07
Consensus pattern (14 bp):
AAACCTAAAAGGGG
Found at i:21244175 original size:18 final size:18
Alignment explanation
Indices: 21244147--21244182 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
21244137 TTCACTTTAA
21244147 AAAAAAGCAAAAACAAAAT
1 AAAAAAGCAAAAA-AAAAT
21244166 AAAAAA-CAAAAAAAAAT
1 AAAAAAGCAAAAAAAAAT
21244183 TCACACATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 6 0.35
19 6 0.35
ACGTcount: A:0.83, C:0.08, G:0.03, T:0.06
Consensus pattern (18 bp):
AAAAAAGCAAAAAAAAAT
Found at i:21246179 original size:14 final size:15
Alignment explanation
Indices: 21246156--21246188 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
21246146 AGAAAGAATT
*
21246156 AAAAGCTAAAAA-AG
1 AAAAGATAAAAAGAG
21246170 AAAAGATAAAAAGAG
1 AAAAGATAAAAAGAG
21246185 AAAA
1 AAAA
21246189 TTTGAGACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (15 bp):
AAAAGATAAAAAGAG
Found at i:21255368 original size:49 final size:48
Alignment explanation
Indices: 21255297--21255834 Score: 462
Period size: 49 Copynumber: 11.0 Consensus size: 48
21255287 AGAACATATC
* * * *
21255297 AAATTTTTAGAGTTGTTAAGCCTCTACTGAGATGAGCTTTTTTCATATG
1 AAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGC-TTTTTCAGATG
* *
21255346 AGATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTATCAAGATG
1 AAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTC-AGATG
* * * * * *
21255395 AGAATTCTTTAAAGTTGTTAAGCCTCTGCTGATAAGAGCTTTTTTTAGGTTTT
1 A-AATT-TTTAAAGTTGTTGAGCCTCTGCTGAGATGAGC-TTTTTCA-G-ATG
* * ** * *
21255448 AAATTTTCAAAAGTTGTTGAACCTCTATTGAGAGGAGCTTTTCCAAGATG
1 AAATTTT-TAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTC-AGATG
* *
21255498 AGAATTTCTTTAAAGTTGTTGAGCCTCTACTGA-AAGAAGCTTTTT---AT-
1 A-AA-TT-TTTAAAGTTGTTGAGCCTCTGCTGAGATG-AGCTTTTTCAGATG
* * * * *
21255545 AAAATTTTAAAGTTGTTAAGCCTCTGTTGTGAGGAGCTTTTTCAGATG
1 AAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCAGATG
* * * * *
21255593 AAAATTTTAAAGTTCTTGAGCCTCTGCTAAAATGAG-TTTTTCAAAATG
1 AAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTC-AGATG
*
21255641 AAAATTTTTAAAGTTGTTGAGCCTCTGTTGAGATGAGCTTTTTTCGAGAT-
1 -AAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGC-TTTTTC-AGATG
* * * * * * * *
21255691 AAAATTTTAAAGTTTTTGAACATCTGCTAAAAAGTGCTTTTTTCAGATG
1 AAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGC-TTTTTCAGATG
*
21255740 AAA-TTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCTTTTTCAGATG
1 AAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCAGATG
* * *
21255787 AGATTTTTAAAGTTGTTGAGCCTCTACCGAGATGAGCCTTTTTCAGAT
1 AAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAG-CTTTTTCAGAT
21255835 TTTAAATTTT
Statistics
Matches: 393, Mismatches: 72, Indels: 48
0.77 0.14 0.09
Matches are distributed among these distances:
44 29 0.07
45 3 0.01
46 2 0.01
47 22 0.06
48 98 0.25
49 118 0.30
50 5 0.01
51 50 0.13
52 62 0.16
53 4 0.01
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.40
Consensus pattern (48 bp):
AAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCAGATG
Found at i:21255615 original size:48 final size:48
Alignment explanation
Indices: 21255301--21255834 Score: 445
Period size: 48 Copynumber: 10.9 Consensus size: 48
21255291 CATATCAAAT
* * * * * *
21255301 TTTTAGAGTTGTTAAGCCTCTACTGAGATGAGCTTTTTTCATATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGC-TTTTTCAGATGAAAA
* *
21255350 TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTATCAAGATGAGAAT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTC-AGATGA-AAA
* * * * * **
21255400 TCTTTAAAGTTGTTAAGCCTCTGCTGATAAGAGCTTTTTTTAGGTTTTAAA
1 T-TTTAAAGTTGTTGAGCCTCTGCTGAGATGAGC-TTTTTCA-GATGAAAA
* ** * * *
21255451 TTTTCAAAAGTTGTTGAACCTCTATTGAGAGGAGCTTTTCCAAGATGAGAATT
1 TTTT--AAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTC-AGATGA-AA-A
* *
21255504 TCTTTAAAGTTGTTGAGCCTCTACTGA-AAGAAGCTTTTT---AT-AAAA
1 T-TTTAAAGTTGTTGAGCCTCTGCTGAGATG-AGCTTTTTCAGATGAAAA
* * * *
21255549 TTTTAAAGTTGTTAAGCCTCTGTTGTGAGGAGCTTTTTCAGATGAAAA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCAGATGAAAA
* * * *
21255597 TTTTAAAGTTCTTGAGCCTCTGCTAAAATGAG-TTTTTCAAAATGAAAA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTC-AGATGAAAA
*
21255645 TTTTTAAAGTTGTTGAGCCTCTGTTGAGATGAGCTTTTTTCGAGAT-AAAA
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGC-TTTTTC-AGATGAAAA
* * * * * * *
21255695 TTTTAAAGTTTTTGAACATCTGCTAAAAAGTGCTTTTTTCAGATG-AAA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGC-TTTTTCAGATGAAAA
* * *
21255743 TTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCTTTTTCAGATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCAGATGAAAA
* *
21255791 TTTTAAAGTTGTTGAGCCTCTACCGAGATGAGCCTTTTTCAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAG-CTTTTTCAGAT
21255835 TTTAAATTTT
Statistics
Matches: 389, Mismatches: 72, Indels: 48
0.76 0.14 0.09
Matches are distributed among these distances:
44 29 0.07
45 3 0.01
46 2 0.01
47 20 0.05
48 106 0.27
49 106 0.27
50 10 0.03
51 50 0.13
52 59 0.15
53 1 0.00
54 3 0.01
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (48 bp):
TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCAGATGAAAA
Found at i:21255665 original size:97 final size:98
Alignment explanation
Indices: 21255297--21255811 Score: 462
Period size: 97 Copynumber: 5.3 Consensus size: 98
21255287 AGAACATATC
* * * * * * * *
21255297 AAATTTTTAGAGTTGTTAAGCCTCTACTGAGATGAGCTTTTTTCATATG-AGATTTTTAAAGTTG
1 AAATTTTTAAAGTTGTTGAGCCTCTGCTAAAAAGAGC-TTTTTCAGATGAAAATTTTTAAAGTTG
* *
21255361 TTGAGCCTCTGCTGAGATGAGCTTTATCAAGATG
65 TTGAGCCTCTGTTGAGATGAGCTTTTTCAAGATG
* * * * * ** *
21255395 AGAATTCTTTAAAGTTGTTAAGCCTCTGCTGATAAGAGCTTTTTTTAGGTTTTAAATTTTCAAAA
1 A-AATT-TTTAAAGTTGTTGAGCCTCTGCTAAAAAGAGC-TTTTTCA-GATGAAAATTTT-TAAA
* * * *
21255460 GTTGTTGAACCTCTATTGAGAGGAGCTTTTCCAAGATG
61 GTTGTTGAGCCTCTGTTGAGATGAGCTTTTTCAAGATG
* *
21255498 AGAATTTCTTTAAAGTTGTTGAGCCTCTACT-GAAAGAAGCTTTTT---AT-AAAA-TTTTAAAG
1 A-AA-TT-TTTAAAGTTGTTGAGCCTCTGCTAAAAAG-AGCTTTTTCAGATGAAAATTTTTAAAG
* * *
21255557 TTGTTAAGCCTCTGTTGTGAGGAGCTTTTTC-AGATG
62 TTGTTGAGCCTCTGTTGAGATGAGCTTTTTCAAGATG
* * * *
21255593 AAAATTTTAAAGTTCTTGAGCCTCTGCTAAAATGAG-TTTTTCAAAATGAAAATTTTTAAAGTTG
1 AAATTTTTAAAGTTGTTGAGCCTCTGCTAAAAAGAGCTTTTTC-AGATGAAAATTTTTAAAGTTG
*
21255657 TTGAGCCTCTGTTGAGATGAGCTTTTTTCGAGAT-
65 TTGAGCCTCTGTTGAGATGAGC-TTTTTCAAGATG
* * * * *
21255691 AAAATTTTAAAGTTTTTGAACATCTGCTAAAAAGTGCTTTTTTCAGATG-AAA-TTTTAAAGTTG
1 AAATTTTTAAAGTTGTTGAGCCTCTGCTAAAAAGAGC-TTTTTCAGATGAAAATTTTTAAAGTTG
* *
21255754 TTAAGCCTCTGCTGAGATGAGCTTTTTC-AGATG
65 TTGAGCCTCTGTTGAGATGAGCTTTTTCAAGATG
*
21255787 AGATTTTTAAAGTTGTTGAGCCTCT
1 AAATTTTTAAAGTTGTTGAGCCTCT
21255812 ACCGAGATGA
Statistics
Matches: 349, Mismatches: 49, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
91 5 0.01
92 23 0.07
93 4 0.01
94 2 0.01
95 12 0.03
96 60 0.17
97 64 0.18
98 44 0.13
99 13 0.04
100 41 0.12
101 1 0.00
102 6 0.02
103 47 0.13
104 27 0.08
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (98 bp):
AAATTTTTAAAGTTGTTGAGCCTCTGCTAAAAAGAGCTTTTTCAGATGAAAATTTTTAAAGTTGT
TGAGCCTCTGTTGAGATGAGCTTTTTCAAGATG
Found at i:21256274 original size:17 final size:19
Alignment explanation
Indices: 21256242--21256278 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
21256232 ACAAATTACA
21256242 AAAAATATATAAAAAATAG
1 AAAAATATATAAAAAATAG
21256261 AAAAA-ATA-AAAAAATAG
1 AAAAATATATAAAAAATAG
21256278 A
1 A
21256279 GGCTGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 3 0.17
19 5 0.28
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAAATATATAAAAAATAG
Found at i:21257659 original size:18 final size:18
Alignment explanation
Indices: 21257620--21257662 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21257610 TCTTATAAAA
*
21257620 TAATAAATAAAAACTAAT
1 TAATAAATAAAAACTAAG
*
21257638 TAATAAATTAAGAA-TAAG
1 TAATAAA-TAAAAACTAAG
21257656 TAATAAA
1 TAATAAA
21257663 AAATGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (18 bp):
TAATAAATAAAAACTAAG
Found at i:21259610 original size:2 final size:2
Alignment explanation
Indices: 21259605--21259630 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21259595 TTATATTAGA
21259605 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21259631 GAAACTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21259921 original size:10 final size:10
Alignment explanation
Indices: 21259906--21259939 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
21259896 GAGGATTTTG
21259906 TTTCCTTTAC
1 TTTCCTTTAC
21259916 TTTCCTTTAC
1 TTTCCTTTAC
*
21259926 TTTACTTTAC
1 TTTCCTTTAC
21259936 TTTC
1 TTTC
21259940 TTTTCCCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTCCTTTAC
Found at i:21259923 original size:5 final size:5
Alignment explanation
Indices: 21259910--21259942 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
21259900 ATTTTGTTTC
*
21259910 CTTTA CTTTC CTTTA CTTTA CTTTA CTTT- CTTT
1 CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTT
21259943 TCCCTCTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (5 bp):
CTTTA
Found at i:21259930 original size:15 final size:15
Alignment explanation
Indices: 21259906--21259939 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21259896 GAGGATTTTG
*
21259906 TTTCCTTTACTTTCC
1 TTTCCTTTACTTTAC
*
21259921 TTTACTTTACTTTAC
1 TTTCCTTTACTTTAC
21259936 TTTC
1 TTTC
21259940 TTTTCCCTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTCCTTTACTTTAC
Found at i:21262488 original size:6 final size:6
Alignment explanation
Indices: 21262481--21262550 Score: 95
Period size: 6 Copynumber: 11.7 Consensus size: 6
21262471 GGCGGTGCCG
* * *
21262481 GAGCCG GAGCCT GAGCCT GAGCCT GAGCCG GAGCCT GAGCCT GAGCCG
1 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT
* *
21262529 GAGCCT GAGCCG GAGCTT GAGC
1 GAGCCT GAGCCT GAGCCT GAGC
21262551 TAAGGTTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.17, C:0.31, G:0.40, T:0.11
Consensus pattern (6 bp):
GAGCCT
Found at i:21268973 original size:18 final size:18
Alignment explanation
Indices: 21268950--21268984 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21268940 TTAGTAGATT
21268950 TAAGAAA-AACAGAAATAG
1 TAAGAAAGAA-AGAAATAG
21268968 TAAGAAAGAAAGAAATA
1 TAAGAAAGAAAGAAATA
21268985 TGATTTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.69, C:0.03, G:0.17, T:0.11
Consensus pattern (18 bp):
TAAGAAAGAAAGAAATAG
Found at i:21277627 original size:23 final size:24
Alignment explanation
Indices: 21277582--21277654 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 24
21277572 AAATTATAAA
* *
21277582 AAAAATATAAAACTGAAA-GTTTTT
1 AAAAATATAAATC-AAAACGTTTTT
*
21277606 AAAAAGTGTAAAT-AAAAC--TTTT
1 AAAAA-TATAAATCAAAACGTTTTT
*
21277628 AGAAATATAAATCAAAACGTTTTT
1 AAAAATATAAATCAAAACGTTTTT
21277652 AAA
1 AAA
21277655 GGTTTTTGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
21 6 0.16
22 13 0.34
23 3 0.08
24 11 0.29
25 5 0.13
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (24 bp):
AAAAATATAAATCAAAACGTTTTT
Found at i:21286304 original size:2 final size:2
Alignment explanation
Indices: 21286297--21286324 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21286287 CAAGAAAGGG
21286297 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
21286325 TTAACTGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:21297211 original size:12 final size:12
Alignment explanation
Indices: 21297194--21297220 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21297184 ATTAGGTAAA
21297194 ATTTCTCTAATT
1 ATTTCTCTAATT
21297206 ATTTCTCTAATT
1 ATTTCTCTAATT
21297218 ATT
1 ATT
21297221 ATTTAGCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTCTCTAATT
Found at i:21302595 original size:24 final size:24
Alignment explanation
Indices: 21302568--21302632 Score: 67
Period size: 30 Copynumber: 2.5 Consensus size: 24
21302558 AATAATACGA
21302568 TTTAAATTTTTTAAAAAATTATAT
1 TTTAAATTTTTTAAAAAATTATAT
21302592 TTTAAATTTAATAAAATTAAAAAATTATAT
1 TTTAAATTT--T----TTAAAAAATTATAT
*
21302622 TTTATATTTTT
1 TTTAAATTTTT
21302633 ATATTGATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
24 10 0.29
26 1 0.03
28 1 0.03
30 22 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTAAATTTTTTAAAAAATTATAT
Found at i:21305461 original size:48 final size:48
Alignment explanation
Indices: 21305388--21305482 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
21305378 AACTACATAG
* ** *
21305388 CAGAAACCAGCTTCTGAGAGTTTGGATAAAATGTAACTTTAAGCTTAA
1 CAGAAACCAGCTGCCAAGAGATTGGATAAAATGTAACTTTAAGCTTAA
21305436 CAGAAACCAGCTGCCAAGAGATTGGATAAAATGTAACTTTAAGCTTA
1 CAGAAACCAGCTGCCAAGAGATTGGATAAAATGTAACTTTAAGCTTA
21305483 TCTTGTACCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (48 bp):
CAGAAACCAGCTGCCAAGAGATTGGATAAAATGTAACTTTAAGCTTAA
Found at i:21307819 original size:39 final size:40
Alignment explanation
Indices: 21307765--21307841 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
21307755 AAAGTGATGG
*
21307765 AATGTACTATATTAAG-AACGTGTAAATACCCAATTTATA
1 AATGTACAATATTAAGAAACGTGTAAATACCCAATTTATA
* *
21307804 AATGTACAATATTAAGAAAATGTGTAAATGCCCAATTT
1 AATGTACAATATTAAG-AAACGTGTAAATACCCAATTT
21307842 TCTGGAGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 15 0.45
41 18 0.55
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (40 bp):
AATGTACAATATTAAGAAACGTGTAAATACCCAATTTATA
Found at i:21311804 original size:58 final size:58
Alignment explanation
Indices: 21311734--21311850 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
21311724 ATATGAACTT
21311734 TTGCAACTCCTAATGCAATCTATTGAGGAAAAAGGGAATGCCCTAAAAGTTGGATCTA
1 TTGCAACTCCTAATGCAATCTATTGAGGAAAAAGGGAATGCCCTAAAAGTTGGATCTA
* *
21311792 TTGCAACTCCTAATGCAATCTATTGTGGAAAAAGGGAATGCCCTTAAAGTTGGATCTA
1 TTGCAACTCCTAATGCAATCTATTGAGGAAAAAGGGAATGCCCTAAAAGTTGGATCTA
21311850 T
1 T
21311851 GTGATGTCGC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (58 bp):
TTGCAACTCCTAATGCAATCTATTGAGGAAAAAGGGAATGCCCTAAAAGTTGGATCTA
Found at i:21312253 original size:21 final size:22
Alignment explanation
Indices: 21312215--21312255 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21312205 TGTTTCCTAA
* *
21312215 TTTTTTTTCTTTTCTTTATGTG
1 TTTTTTTACGTTTCTTTATGTG
21312237 TTTTTTTACGTTT-TTTATG
1 TTTTTTTACGTTTCTTTATG
21312256 CATACTCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.07, C:0.07, G:0.10, T:0.76
Consensus pattern (22 bp):
TTTTTTTACGTTTCTTTATGTG
Found at i:21313091 original size:2 final size:2
Alignment explanation
Indices: 21313084--21313121 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
21313074 GCATGTTGTG
* *
21313084 AT AT AT AT AT AT AT AT AT AT TT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21313122 GAGGGATCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:21313334 original size:2 final size:2
Alignment explanation
Indices: 21313327--21313384 Score: 55
Period size: 2 Copynumber: 28.0 Consensus size: 2
21313317 TCTTCCTCTC
* * *
21313327 AT AT AT AT AT AT AT AT AT AA AT AGT CGT -T CT CAT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T -AT AT AT -AT AT AT AT AT
21313369 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
21313385 TGTTGTTCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
1 1 0.02
2 44 0.92
3 3 0.06
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:21313949 original size:3 final size:3
Alignment explanation
Indices: 21313943--21313969 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21313933 TATTATTTAC
21313943 TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG
21313970 ATTTGGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TAG
Found at i:21314582 original size:30 final size:30
Alignment explanation
Indices: 21314512--21314585 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
21314502 CCGTACAAAA
* **
21314512 AAAAGTTTAATTGGATAAAAATAAATGTTT
1 AAAAGTTTAATTGAATAAAAATAAACATTT
* *
21314542 AAAAGCTTAATTGAATAAAAATAAGCATTT
1 AAAAGTTTAATTGAATAAAAATAAACATTT
* *
21314572 GAAGGTTTAATTGA
1 AAAAGTTTAATTGA
21314586 TTTTAATAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.49, C:0.03, G:0.15, T:0.34
Consensus pattern (30 bp):
AAAAGTTTAATTGAATAAAAATAAACATTT
Found at i:21315488 original size:23 final size:23
Alignment explanation
Indices: 21315462--21315507 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
21315452 TTTGAAACTC
*
21315462 AATTTATAAATTTTATTTTTAAA
1 AATTTATAAATTTTATTTATAAA
* *
21315485 AATTTTTAAATTTTGTTTATAAA
1 AATTTATAAATTTTATTTATAAA
21315508 TATGATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
AATTTATAAATTTTATTTATAAA
Found at i:21316159 original size:20 final size:20
Alignment explanation
Indices: 21316136--21316174 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
21316126 TTTTAATTTT
*
21316136 ATTTTTAGAGAGAAAATTAA
1 ATTTTTAGAGAAAAAATTAA
21316156 ATTTTTAGAGAAAAAATTA
1 ATTTTTAGAGAAAAAATTA
21316175 TAAATTCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (20 bp):
ATTTTTAGAGAAAAAATTAA
Found at i:21317110 original size:28 final size:27
Alignment explanation
Indices: 21317061--21317114 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
21317051 TTAACATTAT
*
21317061 TTAAAAAATATATGATAAATTAAAATA
1 TTAAAAAATATATCATAAATTAAAATA
21317088 TTAAAAAATATA-CATAAGTATTAAAAT
1 TTAAAAAATATATCATAA--ATTAAAAT
21317115 TTTATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 12 0.50
28 8 0.33
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (27 bp):
TTAAAAAATATATCATAAATTAAAATA
Found at i:21333325 original size:39 final size:39
Alignment explanation
Indices: 21333271--21333354 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
21333261 GCTGGGAAAG
21333271 CATTAATAACGGAATCAGATGAGGAAAAGTAAACATTAC
1 CATTAATAACGGAATCAGATGAGGAAAAGTAAACATTAC
* *
21333310 CATTAATAACGGAATCAGATGAGGAAAAGTAAGCGTTAC
1 CATTAATAACGGAATCAGATGAGGAAAAGTAAACATTAC
21333349 C-TTAAT
1 CATTAAT
21333355 TGGAGATCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 5 0.12
39 38 0.88
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (39 bp):
CATTAATAACGGAATCAGATGAGGAAAAGTAAACATTAC
Found at i:21334391 original size:3 final size:3
Alignment explanation
Indices: 21334383--21334409 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21334373 ATGAAATTAA
21334383 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
21334410 TGGTTTGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:21335376 original size:20 final size:20
Alignment explanation
Indices: 21335338--21335376 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
21335328 TTTGATTTGC
21335338 TAAAGACTTATCTACTTTTT
1 TAAAGACTTATCTACTTTTT
*
21335358 TAAA-ACTTATCTTCTTTTT
1 TAAAGACTTATCTACTTTTT
21335377 AGAAACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.54
Consensus pattern (20 bp):
TAAAGACTTATCTACTTTTT
Found at i:21354215 original size:26 final size:24
Alignment explanation
Indices: 21354186--21354250 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
21354176 TAATTATTTT
*
21354186 TAATTTTTTATTTATATATAATTACA
1 TAATTTTTTATTTATATATAA--AAA
* * *
21354212 TAATTATATATTTATATTTAAAAA
1 TAATTTTTTATTTATATATAAAAA
21354236 TAATATTTTTATTTA
1 TAAT-TTTTTATTTA
21354251 AAAAAATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 6 0.19
25 8 0.25
26 18 0.56
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TAATTTTTTATTTATATATAAAAA
Found at i:21354243 original size:19 final size:19
Alignment explanation
Indices: 21354219--21354268 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 19
21354209 ACATAATTAT
21354219 ATATTTATATTT-AAAAATA
1 ATATTT-TATTTAAAAAATA
21354238 ATATTTTTATTTAAAAAAATA
1 ATA-TTTTATTT-AAAAAATA
21354259 ATATTTTATT
1 ATATTTTATT
21354269 AATTTCGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.29
20 10 0.36
21 10 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATATTTTATTTAAAAAATA
Found at i:21354246 original size:21 final size:21
Alignment explanation
Indices: 21354219--21354265 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
21354209 ACATAATTAT
*
21354219 ATATTTATATTT--AAAAATA
1 ATATTTTTATTTAAAAAAATA
21354238 ATATTTTTATTTAAAAAAATA
1 ATATTTTTATTTAAAAAAATA
21354259 ATATTTT
1 ATATTTT
21354266 ATTAATTTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 11 0.44
21 14 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTTTATTTAAAAAAATA
Found at i:21356824 original size:25 final size:24
Alignment explanation
Indices: 21356767--21356824 Score: 57
Period size: 25 Copynumber: 2.3 Consensus size: 24
21356757 TAATTATTAA
*
21356767 AAGTTATTTGTGATAAAAAAATTT
1 AAGTTATTAGTGATAAAAAAATTT
21356791 ATA-TCTATTAGTGTATAAAAAAGA-TT
1 A-AGT-TATTAGTG-ATAAAAAA-ATTT
21356817 AAGTTATT
1 AAGTTATT
21356825 TAATAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
24 2 0.07
25 13 0.46
26 12 0.43
27 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (24 bp):
AAGTTATTAGTGATAAAAAAATTT
Found at i:21359859 original size:6 final size:6
Alignment explanation
Indices: 21359850--21359913 Score: 92
Period size: 6 Copynumber: 10.7 Consensus size: 6
21359840 AGTCTAGATA
* * * *
21359850 ATGGTA ATGGTG ATGGTA ATGGTG ATGGTG ATGGTG ATGGTA ATGGAG
1 ATGGTG ATGGTG ATGGTG ATGGTG ATGGTG ATGGTG ATGGTG ATGGTG
21359898 ATGGTG ATGGTG ATGG
1 ATGGTG ATGGTG ATGG
21359914 GGTGGAATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.31
Consensus pattern (6 bp):
ATGGTG
Found at i:21359877 original size:24 final size:24
Alignment explanation
Indices: 21359850--21359913 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
21359840 AGTCTAGATA
* *
21359850 ATGGTAATGGTGATGGTAATGGTG
1 ATGGTGATGGTGATGGTAATGGAG
21359874 ATGGTGATGGTGATGGTAATGGAG
1 ATGGTGATGGTGATGGTAATGGAG
21359898 ATGGTGATGGTGATGG
1 ATGGTGATGGTGATGG
21359914 GGTGGAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.31
Consensus pattern (24 bp):
ATGGTGATGGTGATGGTAATGGAG
Found at i:21360305 original size:18 final size:18
Alignment explanation
Indices: 21360284--21360347 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
21360274 TCCTCAACCT
*
21360284 CAAATGTATCATTTACCA
1 CAAATTTATCATTTACCA
****
21360302 CAAATTTATCCCCCACCA
1 CAAATTTATCATTTACCA
* *
21360320 CAAATATATCGTTTACCA
1 CAAATTTATCATTTACCA
21360338 CAAATTTATC
1 CAAATTTATC
21360348 CCCCACCATA
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (18 bp):
CAAATTTATCATTTACCA
Found at i:21360306 original size:36 final size:36
Alignment explanation
Indices: 21360266--21360360 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
21360256 TTATCCACCT
* * * *
21360266 CAAATGTATCCTCAACCTCAAATGTATCATTTACCA
1 CAAATTTATCCCCAACCACAAATATATCATTTACCA
* *
21360302 CAAATTTATCCCCCACCACAAATATATCGTTTACCA
1 CAAATTTATCCCCAACCACAAATATATCATTTACCA
* *
21360338 CAAATTTATCCCCCACCATAAAT
1 CAAATTTATCCCCAACCACAAAT
21360361 GTTTCAAGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.37, C:0.32, G:0.03, T:0.28
Consensus pattern (36 bp):
CAAATTTATCCCCAACCACAAATATATCATTTACCA
Found at i:21360355 original size:18 final size:18
Alignment explanation
Indices: 21360298--21360360 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
21360288 TGTATCATTT
21360298 ACCACAAATTTATCCCCC
1 ACCACAAATTTATCCCCC
* ****
21360316 ACCACAAATATATCGTTT
1 ACCACAAATTTATCCCCC
21360334 ACCACAAATTTATCCCCC
1 ACCACAAATTTATCCCCC
*
21360352 ACCATAAAT
1 ACCACAAAT
21360361 GTTTCAAGAA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.38, C:0.35, G:0.02, T:0.25
Consensus pattern (18 bp):
ACCACAAATTTATCCCCC
Found at i:21364316 original size:25 final size:25
Alignment explanation
Indices: 21364269--21364316 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
21364259 TTATTGACAT
* *
21364269 TAAAAATTATAAAATTTTAATTATA
1 TAAAAAATATAAAATTTAAATTATA
21364294 TAAAAAAT-TAAAATTTAATATTA
1 TAAAAAATATAAAATTTAA-ATTA
21364317 AATATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
TAAAAAATATAAAATTTAAATTATA
Found at i:21364435 original size:15 final size:15
Alignment explanation
Indices: 21364415--21364446 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21364405 AAATGAATTG
21364415 AAAGAAAGAAAAAGA
1 AAAGAAAGAAAAAGA
*
21364430 AAAGAAAGGAAAAGA
1 AAAGAAAGAAAAAGA
21364445 AA
1 AA
21364447 TGTTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAAAAGA
Found at i:21364589 original size:17 final size:16
Alignment explanation
Indices: 21364567--21364601 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
21364557 AAAATAATTC
21364567 ATTATAATATTTTTTTA
1 ATTATAA-ATTTTTTTA
*
21364584 ATTATAACTTTTTTTA
1 ATTATAAATTTTTTTA
21364600 AT
1 AT
21364602 AAACTAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTATAAATTTTTTTA
Found at i:21368153 original size:24 final size:24
Alignment explanation
Indices: 21368099--21368153 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
21368089 TAAATTTGTT
**
21368099 ATTA-AAT-TTTTTTTTAATCGTA
1 ATTACAATATTTTTTTTAATCACA
*
21368121 ATTATAATATTTTTTTTAATCACA
1 ATTACAATATTTTTTTTAATCACA
*
21368145 TTTACAATA
1 ATTACAATA
21368154 ATTTATATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 4 0.15
23 3 0.11
24 20 0.74
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTACAATATTTTTTTTAATCACA
Found at i:21370510 original size:14 final size:16
Alignment explanation
Indices: 21370470--21370511 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
21370460 TATTTATTTA
*
21370470 TATATATTTATATAAT
1 TATATATTTAAATAAT
21370486 TATATATTTAAAT-AT
1 TATATATTTAAATAAT
21370501 T-TATATTTAAA
1 TATATATTTAAA
21370512 AAATAACGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 12 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:21370546 original size:21 final size:20
Alignment explanation
Indices: 21370496--21370546 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
21370486 TATATATTTA
21370496 AATATTTATATTTAAAAAAT
1 AATATTTATATTTAAAAAAT
21370516 AACGT-TTTATATTTAAAAAAT
1 AA--TATTTATATTTAAAAAAT
21370537 AATATCTTAT
1 AATAT-TTAT
21370547 TAATTTCAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 1 0.04
20 3 0.11
21 22 0.81
22 1 0.04
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
AATATTTATATTTAAAAAAT
Found at i:21371641 original size:75 final size:75
Alignment explanation
Indices: 21371513--21371661 Score: 262
Period size: 75 Copynumber: 2.0 Consensus size: 75
21371503 GAGCCAAACA
* * * *
21371513 GGAGCAACTGAGAGTAAAGCTCAAGTTTCAGCTGCCCCAAAACAGTTTGGAGTTGATGATCATAC
1 GGAGAAACTGAGAATAAAGCTCAAGTTTCAGCTGCCACAAAACAGTTTGGAGTTGACGATCATAC
21371578 TCTCCTTGAT
66 TCTCCTTGAT
21371588 GGAGAAACTGAGAATAAAGCTCAAGTTTCAGCTGCCACAAAACAGTTTGGAGTTGACGATCATAC
1 GGAGAAACTGAGAATAAAGCTCAAGTTTCAGCTGCCACAAAACAGTTTGGAGTTGACGATCATAC
21371653 TCTCCTTGA
66 TCTCCTTGA
21371662 CTTGGTTTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (75 bp):
GGAGAAACTGAGAATAAAGCTCAAGTTTCAGCTGCCACAAAACAGTTTGGAGTTGACGATCATAC
TCTCCTTGAT
Found at i:21373575 original size:20 final size:21
Alignment explanation
Indices: 21373539--21373578 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21373529 ATTTTTTAAA
*
21373539 TAAAATTATTTGGTAAAAAAT
1 TAAAATTATTTGATAAAAAAT
21373560 TAAAATTATTT-ATAAAAAA
1 TAAAATTATTTGATAAAAAA
21373579 CTATATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
TAAAATTATTTGATAAAAAAT
Found at i:21388022 original size:21 final size:21
Alignment explanation
Indices: 21387966--21388023 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
21387956 TATCCTACAT
* * *
21387966 ATATATATTTATATATTTAGTA
1 ATATAAATTTAT-TATTAAATA
* *
21387988 A-ATAGATTTTTTATTAAATA
1 ATATAAATTTATTATTAAATA
21388008 ATATAAATTTATTATT
1 ATATAAATTTATTATT
21388024 TTAGATTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 8 0.28
21 20 0.69
22 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
ATATAAATTTATTATTAAATA
Found at i:21389828 original size:12 final size:12
Alignment explanation
Indices: 21389807--21389881 Score: 57
Period size: 12 Copynumber: 6.2 Consensus size: 12
21389797 ATTAAAAATA
*
21389807 ATTATTATTATT
1 ATTATAATTATT
*
21389819 ATTATAATTATA
1 ATTATAATTATT
21389831 ATTAATAA-TATAT
1 ATT-ATAATTAT-T
21389844 ATTATAATT-TT
1 ATTATAATTATT
*
21389855 AATTTTAATT-TT
1 -ATTATAATTATT
* *
21389867 ATTAAAATTAAT
1 ATTATAATTATT
21389879 ATT
1 ATT
21389882 TAAATTCAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
11 8 0.16
12 35 0.69
13 8 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATAATTATT
Found at i:21389847 original size:31 final size:31
Alignment explanation
Indices: 21389803--21389864 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
21389793 TGAAATTAAA
*
21389803 AATAATTATTATTATTATTATAATTATAATT
1 AATAATTATTATTATAATTATAATTATAATT
* *
21389834 AATAA-TATATATTATAATTTTAATTTTAATT
1 AATAATTAT-TATTATAATTATAATTATAATT
21389865 TTATTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
AATAATTATTATTATAATTATAATTATAATT
Found at i:21389907 original size:21 final size:20
Alignment explanation
Indices: 21389875--21389914 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
21389865 TTATTAAAAT
21389875 TAATATTTAAATTCAATTAA
1 TAATATTTAAATTCAATTAA
*
21389895 TAATATATTAAATTTAATTA
1 TAATAT-TTAAATTCAATTA
21389915 CATCACACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATATTTAAATTCAATTAA
Found at i:21400557 original size:27 final size:29
Alignment explanation
Indices: 21400513--21400581 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 29
21400503 TTTGGTCTTT
* *
21400513 TAAAATT-TATTAAGAAATTTA-TAAAAA
1 TAAAATTATATTTAGAAATTAATTAAAAA
*
21400540 TAAAATTATATTTA-AAATTAATTTAAAA
1 TAAAATTATATTTAGAAATTAATTAAAAA
21400568 T-AAA-TATATTTAGA
1 TAAAATTATATTTAGA
21400582 TTGTTAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 8 0.22
27 17 0.47
28 11 0.31
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (29 bp):
TAAAATTATATTTAGAAATTAATTAAAAA
Found at i:21400565 original size:11 final size:12
Alignment explanation
Indices: 21400540--21400568 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
21400530 TTTATAAAAA
21400540 TAAAATTATATT
1 TAAAATTATATT
21400552 TAAAATTA-ATT
1 TAAAATTATATT
21400563 TAAAAT
1 TAAAAT
21400569 AAATATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAAAATTATATT
Found at i:21409370 original size:16 final size:16
Alignment explanation
Indices: 21409352--21409381 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21409342 GAAAATTCAA
21409352 AAAAAAT-TAAAAAAC
1 AAAAAATCTAAAAAAC
21409367 AAAAAATCTAAAAAA
1 AAAAAATCTAAAAAA
21409382 ATTCAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAAATCTAAAAAAC
Found at i:21409441 original size:19 final size:19
Alignment explanation
Indices: 21409416--21409497 Score: 69
Period size: 19 Copynumber: 4.2 Consensus size: 19
21409406 GATAATAATG
21409416 AAAATC-CAAAAATTAAAA
1 AAAATCTCAAAAATTAAAA
***
21409434 ACAAATC-CTAAAAATTTTCA
1 A-AAATCTC-AAAAATTAAAA
*
21409454 AAAATCTTAAAAATTAAAA
1 AAAATCTCAAAAATTAAAA
*
21409473 ATAAATTCTCAAAAAATAAAA
1 A-AAA-TCTCAAAAATTAAAA
21409494 AAAA
1 AAAA
21409498 ATCTTATTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
18 1 0.02
19 20 0.40
20 15 0.30
21 14 0.28
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAATCTCAAAAATTAAAA
Found at i:21409543 original size:21 final size:20
Alignment explanation
Indices: 21409517--21409559 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
21409507 TTTTAAAAGC
*
21409517 AAAAATTGATAAAAATCTAAA
1 AAAAATT-ATAAAAATCCAAA
*
21409538 AAAAATTTTAAAAATCCAAA
1 AAAAATTATAAAAATCCAAA
21409558 AA
1 AA
21409560 TTAGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAAATTATAAAAATCCAAA
Found at i:21409594 original size:27 final size:26
Alignment explanation
Indices: 21409555--21409620 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
21409545 TTAAAAATCC
*
21409555 AAAAATTAGAAAAAATA-TAAAATATA
1 AAAAATT-GAAAAAAAAGTAAAATATA
*
21409581 AAAATATTGAAAAAAAAGTAAAATCTA
1 AAAA-ATTGAAAAAAAAGTAAAATATA
*
21409608 AAAAATTGCAAAA
1 AAAAATTGAAAAA
21409621 GGTCAACCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 20 0.57
27 15 0.43
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (26 bp):
AAAAATTGAAAAAAAAGTAAAATATA
Found at i:21410125 original size:20 final size:20
Alignment explanation
Indices: 21410090--21410147 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
21410080 ATTTTTCTTT
*
21410090 TTTTTTTTGAAATTTTTAGGA
1 TTTTTTTT-AATTTTTTAGGA
* **
21410111 TTTTTTTTAATTTTTCAGTT
1 TTTTTTTTAATTTTTTAGGA
*
21410131 TTTTTTTTACTTTTTTA
1 TTTTTTTTAATTTTTTA
21410148 ATTTGTCATA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
20 23 0.74
21 8 0.26
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.72
Consensus pattern (20 bp):
TTTTTTTTAATTTTTTAGGA
Found at i:21410135 original size:21 final size:21
Alignment explanation
Indices: 21410069--21410138 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
21410059 AAAATTAAAA
*
21410069 TTTTTTTTATAATTTTTC--T
1 TTTTTTTTTTAATTTTTCAGT
21410088 TTTTTTTTTTGAAATTTTT-AG-
1 TTTTTTTTTT--AATTTTTCAGT
**
21410109 GATTTTTTTTAATTTTTCAGT
1 TTTTTTTTTTAATTTTTCAGT
21410130 TTTTTTTTT
1 TTTTTTTTT
21410139 ACTTTTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
19 16 0.40
20 2 0.05
21 22 0.55
ACGTcount: A:0.16, C:0.03, G:0.06, T:0.76
Consensus pattern (21 bp):
TTTTTTTTTTAATTTTTCAGT
Found at i:21412152 original size:7 final size:7
Alignment explanation
Indices: 21412137--21412166 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
21412127 ATTATTAGAG
21412137 AAAAAAT
1 AAAAAAT
*
21412144 AAAAGAT
1 AAAAAAT
21412151 AAAAAAT
1 AAAAAAT
21412158 AAAAAAT
1 AAAAAAT
21412165 AA
1 AA
21412167 TGAAATTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:21416728 original size:22 final size:21
Alignment explanation
Indices: 21416689--21416746 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
21416679 AGAGTGACAC
*
21416689 AATATAAAATCTTAATAACAATTA
1 AATAT-AAAT-TTAATAA-AATAA
21416713 AATATAAATTTAATAAAATAA
1 AATATAAATTTAATAAAATAA
*
21416734 AAAATATAATTTA
1 AATATA-AATTTA
21416747 TATTTTCGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 9 0.29
22 13 0.42
23 4 0.13
24 5 0.16
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
AATATAAATTTAATAAAATAA
Found at i:21418282 original size:17 final size:18
Alignment explanation
Indices: 21418239--21418283 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
21418229 TCAAAGATTC
21418239 ATTTATATTAATATAAAT
1 ATTTATATTAATATAAAT
* *
21418257 AAATTATATTAATATACAT
1 -ATTTATATTAATATAAAT
21418276 -TTTATATT
1 ATTTATATT
21418284 TTCTTATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 7 0.30
19 16 0.70
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTATATTAATATAAAT
Found at i:21419466 original size:12 final size:13
Alignment explanation
Indices: 21419451--21419491 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
21419441 TAAATATTAT
21419451 ATTAT-TTAATAA
1 ATTATATTAATAA
*
21419463 ATTATAATTTATAA
1 ATTAT-ATTAATAA
21419477 ATTATATTAA-AA
1 ATTATATTAATAA
21419489 ATT
1 ATT
21419492 TTAATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 10 0.40
13 4 0.16
14 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTATATTAATAA
Found at i:21419480 original size:26 final size:26
Alignment explanation
Indices: 21419451--21419501 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
21419441 TAAATATTAT
21419451 ATTAT-TTAATAAATTATAATTTATAA
1 ATTATATTAA-AAATTATAATTTATAA
*
21419477 ATTATATTAAAAATTTTAATTTATA
1 ATTATATTAAAAATTATAATTTATA
21419502 CCTCATAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTATATTAAAAATTATAATTTATAA
Found at i:21419513 original size:26 final size:26
Alignment explanation
Indices: 21419461--21419520 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
21419451 ATTATTTAAT
* * *
21419461 AAATTATAATTTATAAATTATATTAA
1 AAATTTTAATTTATAAATCATAGTAA
**
21419487 AAATTTTAATTTATACCTCATAGTAA
1 AAATTTTAATTTATAAATCATAGTAA
*
21419513 ATATTTTA
1 AAATTTTA
21419521 TTATTATTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (26 bp):
AAATTTTAATTTATAAATCATAGTAA
Found at i:21419580 original size:18 final size:19
Alignment explanation
Indices: 21419545--21419581 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
21419535 TATTTGTAAC
21419545 ATTAATCTAAAATAAAAAA
1 ATTAATCTAAAATAAAAAA
21419564 ATTAATC-AAAAGTAAAAA
1 ATTAATCTAAAA-TAAAAA
21419582 GTGTAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (19 bp):
ATTAATCTAAAATAAAAAA
Found at i:21436068 original size:2 final size:2
Alignment explanation
Indices: 21436061--21436089 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21436051 ATCTATACTC
21436061 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 A
21436090 GGAGATATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21437732 original size:27 final size:27
Alignment explanation
Indices: 21437702--21437753 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
21437692 TAACAGTTAC
*
21437702 TTCA-ATTCAGATTTGATTTGATTTTGA
1 TTCAGATT-AGATTTGATTTAATTTTGA
*
21437729 TTCAGATTTGATTTGATTTAATTTT
1 TTCAGATTAGATTTGATTTAATTTT
21437754 TTAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.25, C:0.06, G:0.13, T:0.56
Consensus pattern (27 bp):
TTCAGATTAGATTTGATTTAATTTTGA
Found at i:21437734 original size:22 final size:22
Alignment explanation
Indices: 21437706--21437747 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
21437696 AGTTACTTCA
21437706 ATTCAGATTTGATTTGATTTTG
1 ATTCAGATTTGATTTGATTTTG
21437728 ATTCAGATTTGATTTGATTT
1 ATTCAGATTTGATTTGATTT
21437748 AATTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.17, T:0.55
Consensus pattern (22 bp):
ATTCAGATTTGATTTGATTTTG
Found at i:21437909 original size:31 final size:32
Alignment explanation
Indices: 21437872--21437948 Score: 79
Period size: 33 Copynumber: 2.4 Consensus size: 32
21437862 TTTTTAATTT
*
21437872 TTTTAATTTTAT-A-TATTATTTTAATATAAAA
1 TTTTAATTTTATAAGTA-GATTTTAATATAAAA
*
21437903 TTTTAATATATT-TAAGTAGATTTTGATATAAAA
1 TTTTAAT-T-TTATAAGTAGATTTTAATATAAAA
21437936 TTATTAATTTTAT
1 TT-TTAATTTTAT
21437949 TTTATAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
31 7 0.18
32 4 0.11
33 20 0.53
34 7 0.18
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (32 bp):
TTTTAATTTTATAAGTAGATTTTAATATAAAA
Found at i:21438706 original size:25 final size:24
Alignment explanation
Indices: 21438673--21438721 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
21438663 AAAGTATTTT
*
21438673 TTATTTTATTTTTGA-ATTTTTATG
1 TTATTTTATATTT-ACATTTTTATG
21438697 TTATATTTATATTTACATTTTTATG
1 TTAT-TTTATATTTACATTTTTATG
21438722 AGTATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.67
Consensus pattern (24 bp):
TTATTTTATATTTACATTTTTATG
Found at i:21441742 original size:2 final size:2
Alignment explanation
Indices: 21441735--21441769 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
21441725 AATATGCAGC
*
21441735 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21441770 GTAGATTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21442296 original size:34 final size:34
Alignment explanation
Indices: 21442258--21442322 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
21442248 TATAGTTAAA
21442258 TTTTTATTTAATTTATTTATT-TGTTTTATTGAGT
1 TTTTTATTTAATTTATTTATTAT-TTTTATTGAGT
21442292 TTTTTATTTAATTTATTTATTATTTTTATTG
1 TTTTTATTTAATTTATTTATTATTTTTATTG
21442323 TTTAAAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (34 bp):
TTTTTATTTAATTTATTTATTATTTTTATTGAGT
Found at i:21443029 original size:301 final size:306
Alignment explanation
Indices: 21442557--21443169 Score: 952
Period size: 313 Copynumber: 2.0 Consensus size: 306
21442547 ATCAAAGAAG
21442557 AAAAGCAAGAGAGTAAAAAACATATTTGTGAAAGTATTAGGCAAAAAAAAAAAAAAAAGTTTTCA
1 AAAAGCAAGAGAGTAAAAAACATATTTGTGAAAGTATTAGGC--AAAAAAAAAAAAAAGTTTTCA
* *
21442622 GGGAAATTGTTCTGGTAATATTGTTCTTAACTCGCTCCATTGCTACAAGTCAAGTCGCCCTCTAG
64 GGAAAATTGTTCTGGTAATATTCTTCTTAACTCGCTCCATTGCTACAAGTCAAGTCGCCCTCTAG
* *
21442687 TTGAGTAGCCACGCTACTTCTTTTTGTCTTTATAGCTTAGTC-A-AGCTGCACCTTTATTCAATC
129 TTGAGTAGCCAAGCTACTTCTTTTTGTCTTTACAGCTTAGTCGACAGCTGCACCTTTATTCAATC
21442750 AAGCTAATTTCTTTGGG-GTTTTT-TTTTTATGTATT-AAATTATTTTTTTAGATATAAATTTTA
194 AAGCTAATTTCTTTGGGTGTTTTTATTTTTATGTATTGAAATTATTTTTTTAGATATAAATTTTA
21442812 TATTAAATATATTTTTTTAATTTTACTAAATTTTTAGAGGATTTAGGC
259 TATTAAATATATTTTTTTAATTTTACTAAATTTTTAGAGGATTTAGGC
*
21442860 AAAAGCAAGAGAGTAAAAAACATATTTGTGAGAGTATTAGGC-AAAAAAAAAAAAAGTTTT-AGG
1 AAAAGCAAGAGAGTAAAAAACATATTTGTGAAAGTATTAGGCAAAAAAAAAAAAAAGTTTTCAGG
* * * * * *
21442923 AAAATTGTTTTGGTAATGTTACTTGTTAACTCGCTCCATTGCTATAAGTCGAGTCGCCTGTCTAG
66 AAAATTGTTCTGGTAATATT-CTTCTTAACTCGCTCCATTGCTACAAGTCAAGTCGCC-CTCTAG
* *
21442988 TTGAGTAGCCAAGCTGCTTCTTTTTGTCTTTACAGCTTAGTCGAGCCGAGTTGCACCTTTATTCA
129 TTGAGTAGCCAAGCTACTTCTTTTTGTCTTTACAGCTTAGTCGA--C-AGCTGCACCTTTATTCA
*
21443053 GTCAAGCTAATTTCTTTGGGTTTTTGTTTTTATTTTTATGTATTGAAATTATTTTTTTAGATATA
191 ATCAAGCTAATTTCTTTGGG----TGTTTTTATTTTTATGTATTGAAATTATTTTTTTAGATATA
21443118 AATTTTATATTAAATATATTTTTTTAATTTTACTAAATTTTTAGAGGATTTA
252 AATTTTATATTAAATATATTTTTTTAATTTTACTAAATTTTTAGAGGATTTA
21443170 AATCTCAAAT
Statistics
Matches: 282, Mismatches: 14, Indels: 18
0.90 0.04 0.06
Matches are distributed among these distances:
299 20 0.07
300 51 0.18
301 44 0.16
302 1 0.00
303 41 0.15
306 35 0.12
311 6 0.02
312 12 0.04
313 72 0.26
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (306 bp):
AAAAGCAAGAGAGTAAAAAACATATTTGTGAAAGTATTAGGCAAAAAAAAAAAAAAGTTTTCAGG
AAAATTGTTCTGGTAATATTCTTCTTAACTCGCTCCATTGCTACAAGTCAAGTCGCCCTCTAGTT
GAGTAGCCAAGCTACTTCTTTTTGTCTTTACAGCTTAGTCGACAGCTGCACCTTTATTCAATCAA
GCTAATTTCTTTGGGTGTTTTTATTTTTATGTATTGAAATTATTTTTTTAGATATAAATTTTATA
TTAAATATATTTTTTTAATTTTACTAAATTTTTAGAGGATTTAGGC
Found at i:21444751 original size:29 final size:29
Alignment explanation
Indices: 21444692--21444751 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
21444682 AACTATAATG
*
21444692 TTTTATTAAATTAAGATATCAAATAATAA
1 TTTTATTAAATTAAGATATCAAATAAAAA
*
21444721 TTTTATT-AATATAATATAT-AAATATAAAA
1 TTTTATTAAAT-TAAGATATCAAATA-AAAA
21444750 TT
1 TT
21444752 AAGTAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
TTTTATTAAATTAAGATATCAAATAAAAA
Found at i:21445216 original size:17 final size:19
Alignment explanation
Indices: 21445182--21445224 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
21445172 CTTGCAAAAT
*
21445182 TTATATTTATATTTTAATA
1 TTATTTTTATATTTTAATA
21445201 TT-TTTTTATA-TTTAATA
1 TTATTTTTATATTTTAATA
21445218 TTATTTT
1 TTATTTT
21445225 GGTTTATACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 11 0.50
19 2 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTTTTATATTTTAATA
Found at i:21445522 original size:16 final size:16
Alignment explanation
Indices: 21445479--21445525 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
21445469 AAATATAAAA
* * *
21445479 AAGAAGAGAAAAACTT
1 AAGAAAAGAAAAAATG
21445495 AAGAAAATGAAAAAATG
1 AAGAAAA-GAAAAAATG
21445512 AAGAAAAGAAAAAA
1 AAGAAAAGAAAAAA
21445526 AAAGAGTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.72, C:0.02, G:0.17, T:0.09
Consensus pattern (16 bp):
AAGAAAAGAAAAAATG
Found at i:21445737 original size:3 final size:3
Alignment explanation
Indices: 21445729--21445760 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
21445719 AATATATTTT
*
21445729 TAA TAA TAA TAA TAC TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
21445761 TCAAATGAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Done.