Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 70 of 290
Found at i:21190386 original size:22 final size:22
Alignment explanation
Indices: 21190361--21190419 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
21190351 TTTAGTGGCT
21190361 AATTATTGAAATTATAAATTAA
1 AATTATTGAAATTATAAATTAA
* * *
21190383 AATTCA-AGGATTTATAAATTAA
1 AATT-ATTGAAATTATAAATTAA
21190405 AATT-TTAGAAATTAT
1 AATTATT-GAAATTAT
21190420 GATATAAATG
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.41
Consensus pattern (22 bp):
AATTATTGAAATTATAAATTAA
Found at i:21196560 original size:15 final size:15
Alignment explanation
Indices: 21196517--21196570 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
21196507 ATATTATAAT
21196517 TTTTATT-AATTCATA
1 TTTTATTAAATT-ATA
*
21196532 TTTTAATAATAATTATA
1 TTTT-ATTA-AATTATA
21196549 TTTTATTAAATTATA
1 TTTTATTAAATTATA
*
21196564 TATTATT
1 TTTTATT
21196571 TTATTAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 17 0.52
16 5 0.15
17 7 0.21
18 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTATTAAATTATA
Found at i:21200498 original size:10 final size:10
Alignment explanation
Indices: 21200464--21200518 Score: 67
Period size: 10 Copynumber: 5.5 Consensus size: 10
21200454 AATTTTAGCT
21200464 TTTATATTTA
1 TTTATATTTA
**
21200474 TTTATCCTTA
1 TTTATATTTA
21200484 TTTATATTTA
1 TTTATATTTA
*
21200494 ATTATATTTA
1 TTTATATTTA
21200504 TTTA-ATTGTA
1 TTTATATT-TA
21200514 TTTAT
1 TTTAT
21200519 CTTTTAGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
9 3 0.08
10 34 0.92
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTATATTTA
Found at i:21200498 original size:14 final size:14
Alignment explanation
Indices: 21200488--21200518 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21200478 TCCTTATTTA
21200488 TATTTAATTATATT
1 TATTTAATTATATT
*
21200502 TATTTAATTGTATT
1 TATTTAATTATATT
21200516 TAT
1 TAT
21200519 CTTTTAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
TATTTAATTATATT
Found at i:21215367 original size:7 final size:7
Alignment explanation
Indices: 21215328--21215410 Score: 70
Period size: 7 Copynumber: 12.3 Consensus size: 7
21215318 AACCCAACTT
21215328 TTATTT-
1 TTATTTA
*
21215334 TTGTTTA
1 TTATTTA
*
21215341 TT-TTTC
1 TTATTTA
21215347 TTA-TT-
1 TTATTTA
21215352 TTATATTA
1 TTAT-TTA
21215360 TTATTTA
1 TTATTTA
21215367 TTATTTA
1 TTATTTA
21215374 TTATTTA
1 TTATTTA
21215381 -T-TTTA
1 TTATTTA
*
21215386 TAATTTTA
1 TTA-TTTA
21215394 TTATTTA
1 TTATTTA
21215401 TTACTTTA
1 TTA-TTTA
21215409 TT
1 TT
21215411 TTTGGATATT
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
5 7 0.11
6 13 0.20
7 28 0.44
8 16 0.25
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:21215372 original size:20 final size:21
Alignment explanation
Indices: 21215347--21215410 Score: 55
Period size: 23 Copynumber: 3.1 Consensus size: 21
21215337 TTTATTTTTC
21215347 TTATTTTATATTATTA-TTTA
1 TTATTTTATATTATTACTTTA
*
21215367 TTA--TT-TATTATTTATTTTA
1 TTATTTTATATTA-TTACTTTA
*
21215386 TAATTTTATTATTTATTACTTTA
1 TTATTTTA-TA-TTATTACTTTA
21215409 TT
1 TT
21215411 TTTGGATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
17 5 0.15
18 5 0.15
19 6 0.18
20 3 0.09
21 2 0.06
23 10 0.29
24 3 0.09
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (21 bp):
TTATTTTATATTATTACTTTA
Found at i:21215393 original size:27 final size:27
Alignment explanation
Indices: 21215337--21215412 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
21215327 TTTATTTTTG
* * * *
21215337 TTTATT-TTTCTTATTTTATATTATTA
1 TTTATTATTTATTACTTTATTTTATAA
21215363 TTTATTATTTATTA-TTTATTTTATAA
1 TTTATTATTTATTACTTTATTTTATAA
21215389 TTTTATTATTTATTACTTTATTTT
1 -TTTATTATTTATTACTTTATTTT
21215413 TGGATATTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 16 0.36
27 20 0.45
28 8 0.18
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTATTATTTATTACTTTATTTTATAA
Found at i:21215412 original size:20 final size:19
Alignment explanation
Indices: 21215338--21215402 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
21215328 TTATTTTTGT
21215338 TTATTT-TTCTTATT-TTATA
1 TTATTTATT-TTATTATT-TA
21215357 TTA-TTA-TTTATTATTTA
1 TTATTTATTTTATTATTTA
*
21215374 TTATTTATTTTATAATTTTA
1 TTATTTATTTTATTA-TTTA
21215394 TTATTTATT
1 TTATTTATT
21215403 ACTTTATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
17 10 0.25
18 8 0.20
19 9 0.22
20 13 0.32
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
TTATTTATTTTATTATTTA
Found at i:21218148 original size:99 final size:99
Alignment explanation
Indices: 21217968--21218151 Score: 296
Period size: 99 Copynumber: 1.9 Consensus size: 99
21217958 AAATTATTTT
*
21217968 TTAGGAATATGTTGGACTGAGTAACTGAGGTGGGGTACTTGGCTGTCATCTCTCTTCGCGTCAAA
1 TTAGGAATATGTTGGACTGAGTAACCGAGGTGGGGTACTTGGCTGTCATCTCTCTTCGCGTCAAA
* *
21218033 AGGTTCGATATGTTCTTAAGAAAAATATAATAAA
66 AGGTTCAATATATTCTTAAGAAAAATATAATAAA
* * * *
21218067 TTAGGAGTATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
1 TTAGGAATATGTTGGACTGAGTAACCGAGGTGGGGTACTTGGCTGTCATCTCTCTTCGCGTCAAA
*
21218132 AGGTTCAATGTATTCTTAAG
66 AGGTTCAATATATTCTTAAG
21218152 CAATAATAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (99 bp):
TTAGGAATATGTTGGACTGAGTAACCGAGGTGGGGTACTTGGCTGTCATCTCTCTTCGCGTCAAA
AGGTTCAATATATTCTTAAGAAAAATATAATAAA
Found at i:21218192 original size:1 final size:1
Alignment explanation
Indices: 21218174--21218234 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
21218164 TTATAATGAT
* * * * * * * *
21218174 AAAAAGAAAATAAGAAAAAAAGAAAAAAAGAAAAAAGAAAAAAGAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21218235 GTAATGTATT
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (1 bp):
A
Found at i:21218224 original size:8 final size:8
Alignment explanation
Indices: 21218174--21218235 Score: 90
Period size: 8 Copynumber: 7.8 Consensus size: 8
21218164 TTATAATGAT
21218174 AAAAAGAA
1 AAAAAGAA
*
21218182 AATAAGAA
1 AAAAAGAA
21218190 AAAAAGAA
1 AAAAAGAA
21218198 AAAAAG-A
1 AAAAAGAA
21218205 AAAAAGAA
1 AAAAAGAA
*
21218213 AAAAGAAAA
1 AAAA-AGAA
21218222 AAAAAGAA
1 AAAAAGAA
21218230 AAAAAG
1 AAAAAG
21218236 TAATGTATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
7 7 0.15
8 34 0.71
9 7 0.15
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (8 bp):
AAAAAGAA
Found at i:21218233 original size:7 final size:7
Alignment explanation
Indices: 21218174--21218223 Score: 73
Period size: 7 Copynumber: 6.7 Consensus size: 7
21218164 TTATAATGAT
21218174 AAAAAGA
1 AAAAAGA
21218181 AAATAAGAA
1 AAA-AAG-A
21218190 AAAAAGAA
1 AAAAAG-A
21218198 AAAAAGA
1 AAAAAGA
21218205 AAAAAGA
1 AAAAAGA
21218212 AAAAAGA
1 AAAAAGA
21218219 AAAAA
1 AAAAA
21218224 AAAGAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 23 0.56
8 14 0.34
9 4 0.10
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:21218883 original size:10 final size:10
Alignment explanation
Indices: 21218868--21218916 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
21218858 AATTTTAGCT
21218868 TTTATCTTTA
1 TTTATCTTTA
21218878 TTTATCTTTA
1 TTTATCTTTA
*
21218888 ATTATCTTTA
1 TTTATCTTTA
*
21218898 TTTAAT-TGTA
1 TTT-ATCTTTA
21218908 TTTATCTTT
1 TTTATCTTT
21218917 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:21224605 original size:27 final size:27
Alignment explanation
Indices: 21224567--21224618 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
21224557 AAAGGTGAGA
*
21224567 TCATAAAATTAATA-TTTAGTTATTAAT
1 TCATAAAATTAA-ACTTAAGTTATTAAT
*
21224594 TCATCAAATTAAACTTAAGTTATTA
1 TCATAAAATTAAACTTAAGTTATTA
21224619 TTTATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (27 bp):
TCATAAAATTAAACTTAAGTTATTAAT
Found at i:21249282 original size:13 final size:13
Alignment explanation
Indices: 21249264--21249299 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
21249254 GAAGAAATTG
21249264 AAGTCACACGGCC
1 AAGTCACACGGCC
*
21249277 AAGTCACACAGCC
1 AAGTCACACGGCC
21249290 AAGTCACACG
1 AAGTCACACG
21249300 CTCGTGTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.36, G:0.19, T:0.08
Consensus pattern (13 bp):
AAGTCACACGGCC
Found at i:21268497 original size:16 final size:17
Alignment explanation
Indices: 21268458--21268501 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
21268448 TTTAATCTAG
* *
21268458 TTATTTTTAAATAATAT
1 TTATTTTAAAATAACAT
21268475 TTA-TTTAAAAT-ACAT
1 TTATTTTAAAATAACAT
21268490 TTATTTTAAAAT
1 TTATTTTAAAAT
21268502 TATTATAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 15 0.62
17 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATTTTAAAATAACAT
Found at i:21269716 original size:56 final size:56
Alignment explanation
Indices: 21269630--21269741 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
21269620 AATGTGTGTT
21269630 TATTTACATCTGAAGCAAAATTCAATTTGTCATGAAAGATTTGCAAACAATCTTTC
1 TATTTACATCTGAAGCAAAATTCAATTTGTCATGAAAGATTTGCAAACAATCTTTC
21269686 TATTTACATCTGAAGCAAAATTCAATTTGTCATGAAAGATTTGCAAACAATCTTTC
1 TATTTACATCTGAAGCAAAATTCAATTTGTCATGAAAGATTTGCAAACAATCTTTC
21269742 CTTATGAAGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (56 bp):
TATTTACATCTGAAGCAAAATTCAATTTGTCATGAAAGATTTGCAAACAATCTTTC
Found at i:21274661 original size:34 final size:34
Alignment explanation
Indices: 21274616--21274696 Score: 137
Period size: 34 Copynumber: 2.4 Consensus size: 34
21274606 TTAGCATGCA
*
21274616 AACCCCAATGTTATATAGTATGAAGTAGTATGTG
1 AACCCCCATGTTATATAGTATGAAGTAGTATGTG
*
21274650 AACCCCCATGTTATATAGTATGACGTAGTATGTG
1 AACCCCCATGTTATATAGTATGAAGTAGTATGTG
21274684 AA-CCCCATGTTAT
1 AACCCCCATGTTAT
21274697 GTACTTTGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 11 0.24
34 34 0.76
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (34 bp):
AACCCCCATGTTATATAGTATGAAGTAGTATGTG
Found at i:21274733 original size:15 final size:15
Alignment explanation
Indices: 21274713--21274925 Score: 128
Period size: 15 Copynumber: 14.3 Consensus size: 15
21274703 TGTGAATTAA
21274713 ATGTGCGAACCCTAT
1 ATGTGCGAACCCTAT
*
21274728 ATGTGCGAACCCTGT
1 ATGTGCGAACCCTAT
** *
21274743 ATGTGTAAACCCTAC
1 ATGTGCGAACCCTAT
*** *
21274758 ATGTATAAATCCTAT
1 ATGTGCGAACCCTAT
* *
21274773 ATGTGTGAACCTTGA-
1 ATGTGCGAACCCT-AT
*
21274788 ATGTGAGAACCCT-T
1 ATGTGCGAACCCTAT
* * **
21274802 ACGT-CTAAACAGTAT
1 ATGTGC-GAACCCTAT
** ** *
21274817 ATAAGCG-TTCCTGT
1 ATGTGCGAACCCTAT
21274831 ATGTGCGAACCCTAT
1 ATGTGCGAACCCTAT
* *
21274846 ATGTGTGAACCTTAT
1 ATGTGCGAACCCTAT
* * * *
21274861 ATGTACGATCCTTGT
1 ATGTGCGAACCCTAT
21274876 ATGTGCGAACCCTAT
1 ATGTGCGAACCCTAT
*
21274891 ATGCGCGAACCCTAT
1 ATGTGCGAACCCTAT
*
21274906 ATGTGCGAACCCTTT
1 ATGTGCGAACCCTAT
21274921 ATGTG
1 ATGTG
21274926 AACCTATAAC
Statistics
Matches: 146, Mismatches: 46, Indels: 12
0.72 0.23 0.06
Matches are distributed among these distances:
14 14 0.10
15 130 0.89
16 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (15 bp):
ATGTGCGAACCCTAT
Found at i:21277119 original size:17 final size:17
Alignment explanation
Indices: 21277099--21277138 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
21277089 TATAAAAGCC
21277099 TATAATAATTTAAAATA
1 TATAATAATTTAAAATA
* * *
21277116 TATAAAAATTTATAGTA
1 TATAATAATTTAAAATA
21277133 TATAAT
1 TATAAT
21277139 TTATAAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TATAATAATTTAAAATA
Found at i:21278027 original size:3 final size:3
Alignment explanation
Indices: 21278019--21278047 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21278009 CTTTTTTCTT
21278019 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21278048 TGGTTCCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:21281529 original size:19 final size:20
Alignment explanation
Indices: 21281507--21281546 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21281497 AAATAGTAAC
*
21281507 TAAATT-ATATTAGTTTTTT
1 TAAATTGATATTAATTTTTT
*
21281526 TAAATTGGTATTAATTTTTT
1 TAAATTGATATTAATTTTTT
21281546 T
1 T
21281547 TGTTAAGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (20 bp):
TAAATTGATATTAATTTTTT
Found at i:21282874 original size:7 final size:7
Alignment explanation
Indices: 21282854--21282900 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
21282844 AATCTATTAT
21282854 ATTT-AA
1 ATTTAAA
21282860 ATTTAAA
1 ATTTAAA
*
21282867 ATTAAAA
1 ATTTAAA
21282874 ATTTAAA
1 ATTTAAA
*
21282881 ATTCAAA
1 ATTTAAA
21282888 ATTTAAA
1 ATTTAAA
21282895 ATTTAA
1 ATTTAA
21282901 TTTTTATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
6 4 0.11
7 32 0.89
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (7 bp):
ATTTAAA
Found at i:21282934 original size:17 final size:17
Alignment explanation
Indices: 21282894--21282937 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 17
21282884 CAAAATTTAA
21282894 AATTTAATTTTT-ATAT
1 AATTTAATTTTTAATAT
21282910 -A-TTAATTTTTAATAT
1 AATTTAATTTTTAATAT
*
21282925 AATTTGATTTTTA
1 AATTTAATTTTTA
21282938 TATTTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 9 0.38
15 5 0.21
16 1 0.04
17 9 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
AATTTAATTTTTAATAT
Found at i:21287492 original size:18 final size:18
Alignment explanation
Indices: 21287469--21287503 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
21287459 ATAAGAAATT
21287469 CTCCTAAGTATTATAGTC
1 CTCCTAAGTATTATAGTC
21287487 CTCCTAAGTATTATAGT
1 CTCCTAAGTATTATAGT
21287504 TTCATGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (18 bp):
CTCCTAAGTATTATAGTC
Found at i:21290368 original size:45 final size:45
Alignment explanation
Indices: 21290285--21290400 Score: 115
Period size: 45 Copynumber: 2.6 Consensus size: 45
21290275 GACAAGCTGG
* * * * * * * *
21290285 TAGTACGGTGTGGATAAACCATTTATTGGTGTAGATAAAAGTTAC
1 TAGTACGTTGTGAATAAACCACTCATTGATGCAAATAAAAGCTAC
*
21290330 TAGTACGTTGTGAATAAACCACTCATTGATGCAAATAAAAGCTGC
1 TAGTACGTTGTGAATAAACCACTCATTGATGCAAATAAAAGCTAC
* * * *
21290375 TAGTACATTATGCATAAACTACTCAT
1 TAGTACGTTGTGAATAAACCACTCAT
21290401 CAGGTTGCTA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (45 bp):
TAGTACGTTGTGAATAAACCACTCATTGATGCAAATAAAAGCTAC
Found at i:21290471 original size:79 final size:79
Alignment explanation
Indices: 21290329--21290480 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 79
21290319 ATAAAAGTTA
* *
21290329 CTAGTACGTTGTGAATAAACCACTCATTGATGCAAATAAAAGCTGCTAGTACATTATGCATAAAC
1 CTAGTACGTTGTGAATAAACCACTCATTGATACAAATAAAAGCTACTAGTACATTATGCATAAAC
*
21290394 TACTCATCAGGTTG
66 CACTCATCAGGTTG
* * ** * *
21290408 CTAGTATGTTGTGGATAAACCACTTGTTGATACAGATAAAAGCTACTAGTAC-GT-TGCAGATAA
1 CTAGTACGTTGTGAATAAACCACTCATTGATACAAATAAAAGCTACTAGTACATTATGC--ATAA
21290471 ACCACTCATC
64 ACCACTCATC
21290481 GATGCAGAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
77 3 0.05
78 1 0.02
79 58 0.94
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (79 bp):
CTAGTACGTTGTGAATAAACCACTCATTGATACAAATAAAAGCTACTAGTACATTATGCATAAAC
CACTCATCAGGTTG
Found at i:21291916 original size:30 final size:30
Alignment explanation
Indices: 21291882--21291938 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
21291872 TAGACACTTC
* *
21291882 CACACGGGTAATCTACACGCCCGTGTGAGA
1 CACACGGGTAAGCCACACGCCCGTGTGAGA
*
21291912 CACACGGGTAGGCCACACGCCCGTGTG
1 CACACGGGTAAGCCACACGCCCGTGTG
21291939 TCATGGTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.23, C:0.33, G:0.30, T:0.14
Consensus pattern (30 bp):
CACACGGGTAAGCCACACGCCCGTGTGAGA
Found at i:21305570 original size:25 final size:25
Alignment explanation
Indices: 21305542--21305620 Score: 108
Period size: 25 Copynumber: 3.2 Consensus size: 25
21305532 CAAAATGACT
21305542 TGGCACTAAGTGTGCGGAAATTATA
1 TGGCACTAAGTGTGCGGAAATTATA
*
21305567 TGGCACTAAGTGTGCGGAAATTTTA
1 TGGCACTAAGTGTGCGGAAATTATA
* *
21305592 TGGCACTATGTGTAC-G-AATATATA
1 TGGCACTAAGTGTGCGGAAAT-TATA
21305616 TGGCA
1 TGGCA
21305621 TTGGTGTGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 3 0.06
24 9 0.18
25 37 0.76
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (25 bp):
TGGCACTAAGTGTGCGGAAATTATA
Found at i:21310840 original size:22 final size:23
Alignment explanation
Indices: 21310801--21310857 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
21310791 AATAATAATT
*
21310801 TTAAATAATATTCTTAATATTTTA
1 TTAAA-AATATACTTAATATTTTA
21310825 TTAAAAATATAC-TAATATTTTA
1 TTAAAAATATACTTAATATTTTA
*
21310847 ATATAAAATAT
1 TTA-AAAATAT
21310858 TTATTACAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 12 0.40
23 13 0.43
24 5 0.17
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAAAAATATACTTAATATTTTA
Found at i:21310854 original size:23 final size:22
Alignment explanation
Indices: 21310815--21310857 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
21310805 ATAATATTCT
*
21310815 TAATATTTTATTAAAAATATAC
1 TAATATTTTAATAAAAATATAC
21310837 TAATATTTTAATATAAAATAT
1 TAATATTTTAATA-AAAATAT
21310858 TTATTACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATATTTTAATAAAAATATAC
Found at i:21311206 original size:171 final size:171
Alignment explanation
Indices: 21310921--21311263 Score: 641
Period size: 171 Copynumber: 2.0 Consensus size: 171
21310911 TAATATAACT
21310921 ATAAGTATTTGTTATCTTGCTTAATTTTATTTATCCCTTTGAACACTAATGTGACATTTTCTGCT
1 ATAAGTATTTGTTATCTTGCTTAATTTTATTTATCCCTTTGAACACTAATGTGACATTTTCTGCT
* *
21310986 TCTCATATTTATATTCATATTATTATTAATATTGAGTTAATGTTATCTCTCAATTGAGTTTCAAC
66 TCTCATAATTATATTCATATTATTATTAAGATTGAGTTAATGTTATCTCTCAATTGAGTTTCAAC
* *
21311051 TTAGTTATGAAATTACTGAAATTTTATTTTTTTACTAAACA
131 TTAGTTATGAAATTACAGAAATTTCATTTTTTTACTAAACA
21311092 ATAAGTATTTGTTATCTTGCTTAATTTTATTTATCCCTTTGAACACTAATGTGACATTTTCTGCT
1 ATAAGTATTTGTTATCTTGCTTAATTTTATTTATCCCTTTGAACACTAATGTGACATTTTCTGCT
*
21311157 TCTCATAATTATATTCATATTATTATTAAGATTGAGTTAATGTTATCTCTTAATTGAGTTTCAAC
66 TCTCATAATTATATTCATATTATTATTAAGATTGAGTTAATGTTATCTCTCAATTGAGTTTCAAC
21311222 TTAGTTATGAAATTACAGAAATTTCATTTTTTTACTAAACA
131 TTAGTTATGAAATTACAGAAATTTCATTTTTTTACTAAACA
21311263 A
1 A
21311264 CAAATATTAT
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 167 1.00
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (171 bp):
ATAAGTATTTGTTATCTTGCTTAATTTTATTTATCCCTTTGAACACTAATGTGACATTTTCTGCT
TCTCATAATTATATTCATATTATTATTAAGATTGAGTTAATGTTATCTCTCAATTGAGTTTCAAC
TTAGTTATGAAATTACAGAAATTTCATTTTTTTACTAAACA
Found at i:21312274 original size:20 final size:19
Alignment explanation
Indices: 21312232--21312275 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
21312222 TTATAACATT
* * *
21312232 TTCTTTCAACTTTTTTTTG
1 TTCTTTCAACGTTTCTTTC
21312251 TTCTTTACAACGTTTCTTTC
1 TTCTTT-CAACGTTTCTTTC
21312271 TTCTT
1 TTCTT
21312276 CTTTTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.11, C:0.20, G:0.05, T:0.64
Consensus pattern (19 bp):
TTCTTTCAACGTTTCTTTC
Found at i:21314010 original size:21 final size:22
Alignment explanation
Indices: 21313980--21314036 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
21313970 CCTTAAAAAA
*
21313980 TCTATCAAAATTC-ATTGAAATT
1 TCTATCAAAATTCTA-TCAAATT
*
21314002 T-TCTCAAAATTCTATCAAATT
1 TCTATCAAAATTCTATCAAATT
21314023 TCTATCAAAATTCT
1 TCTATCAAAATTCT
21314037 TTGTTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.42
Consensus pattern (22 bp):
TCTATCAAAATTCTATCAAATT
Found at i:21314019 original size:11 final size:11
Alignment explanation
Indices: 21313975--21314036 Score: 63
Period size: 11 Copynumber: 5.7 Consensus size: 11
21313965 TATTCCCTTA
*
21313975 AAAAATCTATC
1 AAAATTCTATC
*
21313986 AAAATTC-ATT
1 AAAATTCTATC
* * *
21313996 GAAATTTTCTC
1 AAAATTCTATC
21314007 AAAATTCTATC
1 AAAATTCTATC
*
21314018 AAATTTCTATC
1 AAAATTCTATC
21314029 AAAATTCT
1 AAAATTCT
21314037 TTGTTTAAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
10 7 0.18
11 32 0.82
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.39
Consensus pattern (11 bp):
AAAATTCTATC
Found at i:21314234 original size:48 final size:47
Alignment explanation
Indices: 21314173--21314280 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 47
21314163 GATAATTTTA
*
21314173 AAATTTCAATACTATTCGATATTATT-TTAATTTATGCAAATT-TAATT
1 AAATTTCAATACTATTCAATATT-TTATTAATTTATGC-AATTATAATT
* *
21314220 AAATTTGCAATACTATTTAATATTTTATTCATTTATGCAATTATAATT
1 AAATTT-CAATACTATTCAATATTTTATTAATTTATGCAATTATAATT
21314268 ACAATTTCAATAC
1 A-AATTTCAATAC
21314281 AGCTTTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
47 12 0.22
48 37 0.69
49 5 0.09
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (47 bp):
AAATTTCAATACTATTCAATATTTTATTAATTTATGCAATTATAATT
Found at i:21315294 original size:7 final size:7
Alignment explanation
Indices: 21315282--21315307 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21315272 TAGTCGTTTC
21315282 GTATTTA
1 GTATTTA
21315289 GTATTTA
1 GTATTTA
21315296 GTATTTA
1 GTATTTA
21315303 GTATT
1 GTATT
21315308 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:21315549 original size:25 final size:25
Alignment explanation
Indices: 21315515--21315567 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
21315505 TCCGACAACC
*
21315515 GATTCTCATGGCACTCGATGTGTTT
1 GATTCTCATGGCACCCGATGTGTTT
21315540 GATTCTCATGGCACCCGATGTGTTT
1 GATTCTCATGGCACCCGATGTGTTT
21315565 GAT
1 GAT
21315568 GATGAGCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.38
Consensus pattern (25 bp):
GATTCTCATGGCACCCGATGTGTTT
Found at i:21315950 original size:18 final size:18
Alignment explanation
Indices: 21315927--21315969 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
21315917 TGCCAGGTGC
*
21315927 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
21315945 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
21315963 GTTTCCT
1 GTATCCT
21315970 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:21319727 original size:126 final size:126
Alignment explanation
Indices: 21319455--21319959 Score: 711
Period size: 126 Copynumber: 4.0 Consensus size: 126
21319445 TTATAGCCTC
* *
21319455 ATTTTTCTACGAACTACTGTAGCAAAATAGCGTCCACGTCG-GAGCTTTTTCCAGAAATTTTGCT
1 ATTTTTCAACGAACTACTGTAGCAAAAGAGCGTCCACGT-GAGAGCTTTTTCCAGAAATTTTGCT
* *
21319519 GACAGTGCATCCTGCTTGAA--A-CTTCGGCACTATTTGTTCAGAAATGTCTACTCAGAATT
65 GACAGTGCATCCTGCTTGAAGCATTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
21319578 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTTCACGTGAGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCAACGAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTCCAGAAATTTTGCTG
* * *
21319643 ACAGTGCATCTTGCTTGAAGCATTTTCGGCGCTATTTGTTGAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
* * *
21319704 ATTTTTCAACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
1 ATTTTTCAACGAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTCCAGAAATTTTGCTG
* * *
21319769 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTTAGAAACGTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCATTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
*
21319830 ATTTTTCTAA-GAACTACTGTAGCAAAAGAGCGTCCACGT-AGGAGCTTTTTTC-GAAAATTTTG
1 ATTTTTC-AACGAACTACTGTAGCAAAAGAGCGTCCACGTGA-GAGCTTTTTCCAG-AAATTTTG
* * * * *
21319892 CTGACAGTGCATCCTGCTTGAAGCGTTTTCCGACACTATTT-TTCCAGAAATGTCTGCTTAGAAT
63 CTGACAGTGCATCCTGCTTGAAGCATTTT-CGGCACTATTTGTT-CAGAAACGTCTACTCAGAAT
21319956 T
126 T
21319957 ATT
1 ATT
21319960 CTTGCAAAAA
Statistics
Matches: 346, Mismatches: 27, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
122 1 0.00
123 79 0.23
125 2 0.01
126 233 0.67
127 31 0.09
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (126 bp):
ATTTTTCAACGAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTCCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCATTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:21320291 original size:20 final size:20
Alignment explanation
Indices: 21320266--21320338 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
21320256 TCTTGTATGT
21320266 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCCTAAATTTA
* *
21320286 ATCAATTAACCCTAAACCCTAA
1 ATCAATTAACCCTAAA--TTTA
*
21320308 ATCAA-T--CCAT-AATTTA
1 ATCAATTAACCCTAAATTTA
21320324 ATCAATTAACCCTAA
1 ATCAATTAACCCTAA
21320339 TACCCTAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
16 7 0.17
17 1 0.02
18 2 0.05
19 6 0.15
20 17 0.41
21 1 0.02
22 7 0.17
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (20 bp):
ATCAATTAACCCTAAATTTA
Found at i:21325669 original size:15 final size:15
Alignment explanation
Indices: 21325649--21325692 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
21325639 ATTAAAATGT
21325649 TAAATATATATTTCA
1 TAAATATATATTTCA
*
21325664 TAAATATATATTTAA
1 TAAATATATATTTCA
* *
21325679 TATATATATTTTTC
1 TAAATATATATTTC
21325693 TTGATAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (15 bp):
TAAATATATATTTCA
Found at i:21328349 original size:23 final size:24
Alignment explanation
Indices: 21328299--21328349 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 24
21328289 TATATAATTT
21328299 TTTTAAATAACTAACAAAAATGAC
1 TTTTAAATAACTAACAAAAATGAC
21328323 --TTAAATACACTAAC-AAAAT-AC
1 TTTTAAATA-ACTAACAAAAATGAC
21328344 TTTTAA
1 TTTTAA
21328350 CAGCAGTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 2 0.08
22 12 0.50
23 10 0.42
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (24 bp):
TTTTAAATAACTAACAAAAATGAC
Found at i:21329277 original size:6 final size:6
Alignment explanation
Indices: 21329266--21329305 Score: 71
Period size: 6 Copynumber: 6.5 Consensus size: 6
21329256 AGAAGGAAGT
21329266 TAATGG TAATGG TTAATGG TAATGG TAATGG TAATGG TAA
1 TAATGG TAATGG -TAATGG TAATGG TAATGG TAATGG TAA
21329306 ATGGGGTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (6 bp):
TAATGG
Found at i:21329282 original size:13 final size:13
Alignment explanation
Indices: 21329264--21329309 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
21329254 TTAGAAGGAA
21329264 GTTAATGGTAATG
1 GTTAATGGTAATG
21329277 GTTAATGGTAATG
1 GTTAATGGTAATG
21329290 G-TAATGGTAATG
1 GTTAATGGTAATG
*
21329302 GTAAATGG
1 GTTAATGG
21329310 GGTGTAGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 12 0.39
13 19 0.61
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (13 bp):
GTTAATGGTAATG
Found at i:21329309 original size:19 final size:19
Alignment explanation
Indices: 21329266--21329305 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
21329256 AGAAGGAAGT
21329266 TAATGGTAATGGTTAATGG
1 TAATGGTAATGGTTAATGG
21329285 TAATGGTAATGG-TAATGG
1 TAATGGTAATGGTTAATGG
21329303 TAA
1 TAA
21329306 ATGGGGTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (19 bp):
TAATGGTAATGGTTAATGG
Found at i:21334427 original size:43 final size:44
Alignment explanation
Indices: 21334345--21334459 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 44
21334335 TGAAATTACA
** * *
21334345 TGTAAGACCATGTCTGGGACATTGAAAT-TTTATCCTGATTAT-G
1 TGTAAGACCATGTCTGGGACATTGGCATCATTATCATGATT-TCG
*
21334388 TGTAAGACCATGTCTAGGACATTGGCATCATTAT-ATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCATTATCATGATTTCG
** *
21334431 TGTAAGACCACATCTGGGACGTTGGCATC
1 TGTAAGACCATGTCTGGGACATTGGCATC
21334460 GACATACGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 1 0.02
43 56 0.92
44 4 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACATTGGCATCATTATCATGATTTCG
Found at i:21337433 original size:13 final size:13
Alignment explanation
Indices: 21337417--21337449 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21337407 TTTAATTAAC
*
21337417 TTAGTTAATTAGT
1 TTAGATAATTAGT
21337430 TTAGATAATTAGT
1 TTAGATAATTAGT
21337443 TTA-ATAA
1 TTAGATAA
21337450 ACAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:21342826 original size:12 final size:11
Alignment explanation
Indices: 21342805--21342893 Score: 76
Period size: 12 Copynumber: 7.9 Consensus size: 11
21342795 TCCTCCTATT
21342805 TTTTTA-TTTA
1 TTTTTATTTTA
*
21342815 TTCTTATTTT-
1 TTTTTATTTTA
21342825 TATTTTATTTTA
1 T-TTTTATTTTA
*
21342837 TTTAT-TTTTA
1 TTTTTATTTTA
21342847 TTTTTATTTTGA
1 TTTTTATTTT-A
21342859 TTTTTATTTTCA
1 TTTTTATTTT-A
**
21342871 TTTCAATTTTA
1 TTTTTATTTTA
21342882 TTATTTTATTTT
1 -T-TTTTATTTT
21342894 GAAAGACATA
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
10 15 0.24
11 19 0.30
12 22 0.35
13 7 0.11
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:21342826 original size:16 final size:15
Alignment explanation
Indices: 21342805--21342861 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 15
21342795 TCCTCCTATT
21342805 TTTTTATTTATTCTTA
1 TTTTTATTTATT-TTA
21342821 TTTTTATTTTATTTTA
1 TTTTTA-TTTATTTTA
21342837 TTTATT-TTTATTTTTA
1 TTT-TTATTTA-TTTTA
*
21342853 TTTTGATTT
1 TTTTTATTT
21342862 TTATTTTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
15 5 0.14
16 23 0.64
17 8 0.22
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTTATTTATTTTA
Found at i:21342827 original size:6 final size:6
Alignment explanation
Indices: 21342801--21342873 Score: 76
Period size: 6 Copynumber: 11.8 Consensus size: 6
21342791 TGAATCCTCC
* *
21342801 TATTTT T-TTATT TATTCT TATTTT TATTTT ATTTTATT TATTTT TATTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT -TATT-TT TATTTT TATTTT
* *
21342851 TATTTT GATTTT TATTTT CATTT
1 TATTTT TATTTT TATTTT TATTT
21342874 CAATTTTATT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
5 2 0.04
6 44 0.79
7 8 0.14
8 2 0.04
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:21342832 original size:5 final size:5
Alignment explanation
Indices: 21342806--21342893 Score: 67
Period size: 5 Copynumber: 16.8 Consensus size: 5
21342796 CCTCCTATTT
21342806 TTTTA -TTTA TTCTTA TTTTTA TTTTA TTTTA -TTTA TTTTTA TTTTTA
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA
*
21342853 TTTTGA TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 TTTT-A -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
21342894 GAAAGACATA
Statistics
Matches: 70, Mismatches: 2, Indels: 22
0.74 0.02 0.23
Matches are distributed among these distances:
3 3 0.04
4 8 0.11
5 27 0.39
6 26 0.37
7 6 0.09
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:21342837 original size:26 final size:28
Alignment explanation
Indices: 21342805--21342867 Score: 103
Period size: 26 Copynumber: 2.3 Consensus size: 28
21342795 TCCTCCTATT
21342805 TTTTTATTTATTCTTATTTTTATTTT-A
1 TTTTTATTTATTCTTATTTTTATTTTGA
*
21342832 -TTTTATTTATTTTTATTTTTATTTTGA
1 TTTTTATTTATTCTTATTTTTATTTTGA
21342859 TTTTTATTT
1 TTTTTATTT
21342868 TCATTTCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 24 0.73
27 1 0.03
28 8 0.24
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (28 bp):
TTTTTATTTATTCTTATTTTTATTTTGA
Found at i:21345761 original size:13 final size:13
Alignment explanation
Indices: 21345745--21345777 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21345735 TTTAATTAAA
*
21345745 TTAGTTAATTAGT
1 TTAGATAATTAGT
21345758 TTAGATAATTAGT
1 TTAGATAATTAGT
21345771 TTA-ATAA
1 TTAGATAA
21345778 ACAAATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:21348881 original size:30 final size:30
Alignment explanation
Indices: 21348845--21348933 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
21348835 GACACGGCCT
** *
21348845 AGACACACGGGTTTGTCTACTGGTCATGTG
1 AGACACACGGGCGTGTCTACTGGGCATGTG
* *
21348875 AGACACACAGGCGTGTCTACTGGGCGTGTG
1 AGACACACGGGCGTGTCTACTGGGCATGTG
*
21348905 AGACACACGGGC-TGGC-ACATGGGCATGTG
1 AGACACACGGGCGTGTCTAC-TGGGCATGTG
21348934 GTCGGCCGTG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.04
29 12 0.24
30 36 0.72
ACGTcount: A:0.21, C:0.22, G:0.35, T:0.21
Consensus pattern (30 bp):
AGACACACGGGCGTGTCTACTGGGCATGTG
Found at i:21355265 original size:33 final size:33
Alignment explanation
Indices: 21355224--21355291 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
21355214 GATGGAAAAG
* * *
21355224 AGAAGAAGTTAGCCTAAAGCTTATTAAGTTACA
1 AGAAGAAGTAAGCATAAAGCTTAGTAAGTTACA
21355257 AGAAGAAGTAAGCATAAAGCTTAGTAAGTTACA
1 AGAAGAAGTAAGCATAAAGCTTAGTAAGTTACA
21355290 AG
1 AG
21355292 TAAATAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.24
Consensus pattern (33 bp):
AGAAGAAGTAAGCATAAAGCTTAGTAAGTTACA
Found at i:21355684 original size:48 final size:48
Alignment explanation
Indices: 21355566--21355851 Score: 277
Period size: 48 Copynumber: 5.9 Consensus size: 48
21355556 AAAAAGCAAG
* * * * *
21355566 ATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCACTCATATATCT
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAG--CTCACATATCA
* * * * *
21355616 GTGCTGATTCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
* * * * *
21355664 AGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGTTCTCGTATAA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
* * * **
21355712 ATGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGTATATCA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
* * * * * *
21355760 AGGTCGATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCGTATAA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
* * * *
21355808 ATGTCGATGCCATGTTCCAAACATGATC-TACACTGGCTCACATA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
21355852 CCCTTAGTAT
Statistics
Matches: 193, Mismatches: 43, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
47 12 0.06
48 151 0.78
50 30 0.16
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
Found at i:21355758 original size:96 final size:96
Alignment explanation
Indices: 21355568--21355851 Score: 399
Period size: 96 Copynumber: 2.9 Consensus size: 96
21355558 AAAGCAAGAT
* * * * * ** *
21355568 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCACTCATATATCTGTGCTGATTCCATGTTC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTATAAATGT-C-GATGCCATGTTC
* *
21355633 CAAACATGGTCTTACACTAGCTCACATATCGAG
64 CAAACATGGTCTTACACTGGCTCACATATCAAG
*
21355666 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGTTCTCGTATAAATGTCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTATAAATGTCGATGCCATGTTCCA
**
21355731 AACATGGTCTTACACTGGCTCGTATATCAAG
66 AACATGGTCTTACACTGGCTCACATATCAAG
* *
21355762 GTCGATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCGTATAAATGTCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTATAAATGTCGATGCCATGTTCCA
*
21355827 AACATGATC-TACACTGGCTCACATA
66 AACATGGTCTTACACTGGCTCACATA
21355852 CCCTTAGTAT
Statistics
Matches: 167, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
95 14 0.08
96 110 0.66
97 1 0.01
98 42 0.25
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTATAAATGTCGATGCCATGTTCCA
AACATGGTCTTACACTGGCTCACATATCAAG
Found at i:21355832 original size:144 final size:144
Alignment explanation
Indices: 21355570--21355841 Score: 343
Period size: 144 Copynumber: 1.9 Consensus size: 144
21355560 AGCAAGATGC
* * * *
21355570 CGATGCCATATCCCAGACATGGTCTTACACTGGCACTCATATATCTGTGCTGATTCCATGTTCCA
1 CGATGCCATATCCCAAACATGGTCTTACACTGG-ACTCATATATCGGTGCTGATGCCATGTCCCA
** *
21355635 AACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTA
65 AACATGGTCTTACACTAGCTCACATATAAAGGCCGATGCCATGTCCCAAACATGATC-TACACTA
21355700 GTTCTCGTATAAATGT
129 GTTCTCGTATAAATGT
* * *
21355716 CGATGCCATGTTCCAAACATGGTCTTACACTGG-CTCGTATATCAAGGT-C-GATGCCATGTCCC
1 CGATGCCATATCCCAAACATGGTCTTACACTGGACTCATATATC--GGTGCTGATGCCATGTCCC
* * * * * *
21355778 AAACATGGTCTTACATTAGCTCTCGTATAAATGTCGATGCCATGTTCCAAACATGATCTACACT
64 AAACATGGTCTTACACTAGCTCACATATAAAGGCCGATGCCATGTCCCAAACATGATCTACACT
21355842 GGCTCACATA
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
143 6 0.06
144 69 0.64
145 1 0.01
146 32 0.30
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (144 bp):
CGATGCCATATCCCAAACATGGTCTTACACTGGACTCATATATCGGTGCTGATGCCATGTCCCAA
ACATGGTCTTACACTAGCTCACATATAAAGGCCGATGCCATGTCCCAAACATGATCTACACTAGT
TCTCGTATAAATGT
Found at i:21358126 original size:42 final size:43
Alignment explanation
Indices: 21358097--21358177 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
21358087 GTTGTGTTTC
21358097 GAAATAGCTTTGGCTATATATATAGCACTT-AGTGTGCGAATT
1 GAAATAGCTTTGGCTATATATATAGCACTTAAGTGTGCGAATT
* * * *
21358139 GGAATAGCTTTGGCTATATGTGTAGCAC-TAAGTATGCGA
1 GAAATAGCTTTGGCTATATATATAGCACTTAAGTGTGCGA
21358178 TACCGAGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 33 0.97
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (43 bp):
GAAATAGCTTTGGCTATATATATAGCACTTAAGTGTGCGAATT
Found at i:21360652 original size:20 final size:20
Alignment explanation
Indices: 21360627--21360668 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
21360617 AGGGTAAGTG
21360627 ATAAACATTCTATTTGGACT
1 ATAAACATTCTATTTGGACT
21360647 ATAAACATTCTATTTGGACT
1 ATAAACATTCTATTTGGACT
21360667 AT
1 AT
21360669 TTTTGTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
ATAAACATTCTATTTGGACT
Found at i:21363514 original size:42 final size:42
Alignment explanation
Indices: 21363403--21363514 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
21363393 AACCCTAATG
* * ** **
21363403 GGTTTCCGGTTTAGCTCTTTTGAGCTTCAGTTTAACCCTTATG
1 GGTTTCC-GTTTAGCACTTATGAGCTTCAGTCCAACCCTTACA
* * *
21363446 GGTTTCCATTCAGCACCTATGAGCTTCAGTCCAACCCTTACA
1 GGTTTCCGTTTAGCACTTATGAGCTTCAGTCCAACCCTTACA
* *
21363488 GGTTTCTGTTTAGCACTTATGTGCTTC
1 GGTTTCCGTTTAGCACTTATGAGCTTC
21363515 TGTACAGCCT
Statistics
Matches: 55, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
42 48 0.87
43 7 0.13
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (42 bp):
GGTTTCCGTTTAGCACTTATGAGCTTCAGTCCAACCCTTACA
Found at i:21364933 original size:27 final size:27
Alignment explanation
Indices: 21364903--21364993 Score: 101
Period size: 27 Copynumber: 3.4 Consensus size: 27
21364893 ATCAAAGTGC
*
21364903 GCCACAAAGGCGATCCATACAAAGTAT
1 GCCACAAAGGCGATCCATACAGAGTAT
* * * * *
21364930 GCCACAAAGGCTATCTATAGAGGGTAC
1 GCCACAAAGGCGATCCATACAGAGTAT
* * *
21364957 GCCACAAAGGTGATTCATTCAGAGTAT
1 GCCACAAAGGCGATCCATACAGAGTAT
21364984 GCCACAAAGG
1 GCCACAAAGG
21364994 TTGACAGGAT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
GCCACAAAGGCGATCCATACAGAGTAT
Found at i:21367611 original size:30 final size:30
Alignment explanation
Indices: 21367575--21367631 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
21367565 ATGGGCAGAG
* *
21367575 ACACGGGCGTGTGTCTCAGTCGTGTGTGAC
1 ACACGGGCATGTGTCACAGTCGTGTGTGAC
* *
21367605 ACACGGGCATGTTTCACGGTCGTGTGT
1 ACACGGGCATGTGTCACAGTCGTGTGT
21367632 CCCCTGGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.14, C:0.23, G:0.35, T:0.28
Consensus pattern (30 bp):
ACACGGGCATGTGTCACAGTCGTGTGTGAC
Found at i:21371351 original size:25 final size:25
Alignment explanation
Indices: 21371317--21371365 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
21371307 AGTACTTCGG
21371317 ATTGAGTCATCTCTAATTTTTTCAA
1 ATTGAGTCATCTCTAATTTTTTCAA
21371342 ATTGAGTCATCTCTAATTTTTTCA
1 ATTGAGTCATCTCTAATTTTTTCA
21371366 TATTTCCAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.49
Consensus pattern (25 bp):
ATTGAGTCATCTCTAATTTTTTCAA
Found at i:21372751 original size:21 final size:21
Alignment explanation
Indices: 21372713--21372752 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21372703 TTAGGGATTT
* *
21372713 TTTAAGGGTTAAGTAAATTGC
1 TTTAAGGGATAAGAAAATTGC
*
21372734 TTTAAGGGATATGAAAATT
1 TTTAAGGGATAAGAAAATT
21372753 AGTAGAATGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.38
Consensus pattern (21 bp):
TTTAAGGGATAAGAAAATTGC
Found at i:21374434 original size:7 final size:7
Alignment explanation
Indices: 21374415--21374445 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
21374405 TCCTTTGTTA
21374415 GTTTAGG
1 GTTTAGG
21374422 GTTTTAGG
1 G-TTTAGG
21374430 GTTTAGG
1 GTTTAGG
21374437 GTTTAGG
1 GTTTAGG
21374444 GT
1 GT
21374446 ATCGAGATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.13, C:0.00, G:0.42, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:21377278 original size:39 final size:39
Alignment explanation
Indices: 21377222--21377398 Score: 291
Period size: 39 Copynumber: 4.5 Consensus size: 39
21377212 ACAAAGCATG
*
21377222 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
21377263 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
21377302 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
21377341 CAGGACTTAGCCCGAATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
21377380 CGGGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
21377399 TTTTCCAATA
Statistics
Matches: 127, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 119 0.94
40 2 0.02
41 6 0.05
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:21378814 original size:3 final size:3
Alignment explanation
Indices: 21378806--21378839 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
21378796 TAAAAGATAC
21378806 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
21378840 ATTGAGACAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:21378989 original size:21 final size:21
Alignment explanation
Indices: 21378950--21378991 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21378940 ATTAGTTAAG
*
21378950 TAAATAAAATGAAATAAAGAA
1 TAAATAAAATGAAAGAAAGAA
21378971 TAAATAAAA-GAAAAGAAAGAA
1 TAAATAAAATG-AAAGAAAGAA
21378992 AAACAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (21 bp):
TAAATAAAATGAAAGAAAGAA
Found at i:21387207 original size:57 final size:57
Alignment explanation
Indices: 21387119--21387233 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
21387109 TTTATAAAGG
21387119 TGTTTGATTGTTGTATTCAAGGCAAACCTCTACCAATCATCATTGCAAAATGACCTA
1 TGTTTGATTGTTGTATTCAAGGCAAACCTCTACCAATCATCATTGCAAAATGACCTA
*
21387176 TGTTTGATTGTTGTATTCAGGGCAAACCTCTACCAATCATCATTGCAAAATGACCTA
1 TGTTTGATTGTTGTATTCAAGGCAAACCTCTACCAATCATCATTGCAAAATGACCTA
21387233 T
1 T
21387234 CAAGTCTATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (57 bp):
TGTTTGATTGTTGTATTCAAGGCAAACCTCTACCAATCATCATTGCAAAATGACCTA
Found at i:21399700 original size:348 final size:348
Alignment explanation
Indices: 21399055--21399747 Score: 1181
Period size: 348 Copynumber: 2.0 Consensus size: 348
21399045 GGATGAAACA
* *
21399055 CTCATTTTTAAATGATTCATATACATACGGTTTGCCTAAAGAATTTAGCAAAAAGGAGACAGTTA
1 CTCATTTTTAAATGATTCACAGACATACGGTTTGCCTAAAGAATTTAGCAAAAAGGAGACAGTTA
* * * *
21399120 CAAATCCAATTTTTAGTTAAAGGGCGGATAAGTTATTCTGTGCTGGACATGAGTGAAGCTTAAAA
66 CAAATCCAACTTTTAATTAAAGGGCAGATAAGTTATTCTGCGCTGGACATGAGTGAAGCTTAAAA
* **
21399185 CCTCATGGTCTGATTCCTACTTATTCCTTTTATATTGGAGGTTTCTGAAGCTTTGACCCATGGTC
131 CCTCATGGTCTGATTCCTACTTATTCCTTTTACATTGGAGGTTTCCAAAGCTTTGACCCATGGTC
21399250 ACTACTCACTAGAACTAAGAGTTCAGCACTCTACCAAAAAACAACAAGGCCATTGGAAAATGCCT
196 ACTACTCACTAGAACTAAGAGTTCAGCACTCTACCAAAAAACAACAAGGCCATTGGAAAATGCCT
*
21399315 AACTTCTATGGTGACAACAGACAGCATTTTGCACTTGGAAGCTTTTAGAATCCCAACTAAGGCCT
261 AACTTCTATGGTGACAACAGACAGCATTTTCCACTTGGAAGCTTTTAGAATCCCAACTAAGGCCT
21399380 ATCCTTCAGGATCTCTCCTAGTT
326 ATCCTTCAGGATCTCTCCTAGTT
21399403 CTCATTTTTAAATGATTCACAGACATA-GGATTTGCCTAAAGAATTTAGCAAAAAGGAGACAGTT
1 CTCATTTTTAAATGATTCACAGACATACGG-TTTGCCTAAAGAATTTAGCAAAAAGGAGACAGTT
* *
21399467 ACAAATCCAACTTTTAATTGAAGGGCAGATAAGTTATTCTGCGGTGGACATGAGTGAAGCTTAAA
65 ACAAATCCAACTTTTAATTAAAGGGCAGATAAGTTATTCTGCGCTGGACATGAGTGAAGCTTAAA
* *
21399532 ACCTCATGGTCTGTTTCCTACTTATTCCTTTTACATTGGAGGTTTCCAAAGCTTTGATCCATGGT
130 ACCTCATGGTCTGATTCCTACTTATTCCTTTTACATTGGAGGTTTCCAAAGCTTTGACCCATGGT
* * * * *
21399597 CAGTACTCGCTAGAACTAAGAGTTCAGCACTCTACCAAAAAACAATAAGGCTATTGGCAAATGCC
195 CACTACTCACTAGAACTAAGAGTTCAGCACTCTACCAAAAAACAACAAGGCCATTGGAAAATGCC
* *
21399662 TAACTTCTATGGTGACAACAGACAGCCTTTTCCACTTGGAAGCTTTTAGAATCCCAACTGAGGCC
260 TAACTTCTATGGTGACAACAGACAGCATTTTCCACTTGGAAGCTTTTAGAATCCCAACTAAGGCC
21399727 TATCCTTCAGGATCTCTCCTA
325 TATCCTTCAGGATCTCTCCTA
21399748 ATTATAATTT
Statistics
Matches: 323, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
347 2 0.01
348 321 0.99
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (348 bp):
CTCATTTTTAAATGATTCACAGACATACGGTTTGCCTAAAGAATTTAGCAAAAAGGAGACAGTTA
CAAATCCAACTTTTAATTAAAGGGCAGATAAGTTATTCTGCGCTGGACATGAGTGAAGCTTAAAA
CCTCATGGTCTGATTCCTACTTATTCCTTTTACATTGGAGGTTTCCAAAGCTTTGACCCATGGTC
ACTACTCACTAGAACTAAGAGTTCAGCACTCTACCAAAAAACAACAAGGCCATTGGAAAATGCCT
AACTTCTATGGTGACAACAGACAGCATTTTCCACTTGGAAGCTTTTAGAATCCCAACTAAGGCCT
ATCCTTCAGGATCTCTCCTAGTT
Found at i:21401491 original size:43 final size:43
Alignment explanation
Indices: 21401430--21401517 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
21401420 TCAGCATAGG
*
21401430 TTAGTTTAATAGTTGTGCAGCAGACTAAGCATTTAGTAATCAA
1 TTAGTTTAACAGTTGTGCAGCAGACTAAGCATTTAGTAATCAA
*
21401473 TTAGTTTAACATTTGTGCAGCAGACTAAGCATTTAGTAATCAA
1 TTAGTTTAACAGTTGTGCAGCAGACTAAGCATTTAGTAATCAA
21401516 TT
1 TT
21401518 CCTTTTCTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (43 bp):
TTAGTTTAACAGTTGTGCAGCAGACTAAGCATTTAGTAATCAA
Found at i:21401551 original size:1 final size:1
Alignment explanation
Indices: 21401520--21401584 Score: 85
Period size: 1 Copynumber: 65.0 Consensus size: 1
21401510 AATCAATTCC
* * * * *
21401520 TTTTCTTTTCTTTTCTTTTCTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
21401585 GCTGCTGCAA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (1 bp):
T
Found at i:21402756 original size:33 final size:33
Alignment explanation
Indices: 21402714--21402779 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
21402704 AGGCGCAAGA
21402714 TGCAAAAAAAGCGCTCA-CCCGAGTAAACCGAGG
1 TGCAAAAAAAGCGCT-AGCCCGAGTAAACCGAGG
* *
21402747 TGCAAAAAAAGCGCTAGCCCTAGTAAACTGAGG
1 TGCAAAAAAAGCGCTAGCCCGAGTAAACCGAGG
21402780 CCCAAGCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.12
Consensus pattern (33 bp):
TGCAAAAAAAGCGCTAGCCCGAGTAAACCGAGG
Found at i:21408522 original size:25 final size:23
Alignment explanation
Indices: 21408465--21408522 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
21408455 ATTTATTGAT
*
21408465 ATATTTTTGTCTGAATGGCTTAA
1 ATATTTTTGTATGAATGGCTTAA
*
21408488 ATATTATTTTGTATGAATGTCTTAA
1 ATA-T-TTTTGTATGAATGGCTTAA
21408513 CACTATTTTT
1 -A-TATTTTT
21408523 AACCTTACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 3 0.10
24 1 0.03
25 21 0.72
26 2 0.07
27 2 0.07
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.52
Consensus pattern (23 bp):
ATATTTTTGTATGAATGGCTTAA
Found at i:21411519 original size:17 final size:17
Alignment explanation
Indices: 21411497--21411529 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21411487 TAATGCAAAG
21411497 ATAGAACATAAATACCC
1 ATAGAACATAAATACCC
21411514 ATAGAACATAAATACC
1 ATAGAACATAAATACC
21411530 TATTCTACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.21, G:0.06, T:0.18
Consensus pattern (17 bp):
ATAGAACATAAATACCC
Found at i:21417954 original size:3 final size:3
Alignment explanation
Indices: 21417946--21417983 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
21417936 TCCAGGTAAG
21417946 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
21417984 CATTCTTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:21421466 original size:15 final size:15
Alignment explanation
Indices: 21421446--21421474 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21421436 ATGTATAAGT
21421446 GTAACTTTAGTCATG
1 GTAACTTTAGTCATG
21421461 GTAACTTTAGTCAT
1 GTAACTTTAGTCAT
21421475 TACTTGAGAA
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:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (15 bp):
GTAACTTTAGTCATG
Found at i:21422054 original size:22 final size:22
Alignment explanation
Indices: 21421986--21422074 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
21421976 GATACTTTTA
21421986 ATGTGGTGTAATATTAGTTATGC
1 ATGTGGTGTAATATTAGTTAT-C
** *
21422009 ACT-TGG-ACAATATTGTTGTTATC
1 A-TGTGGTGTAATA-T-TAGTTATC
21422032 ATGTGGTGTAATATTAGTTATC
1 ATGTGGTGTAATATTAGTTATC
*
21422054 ATATGGTGTAATATTAGTTAT
1 ATGTGGTGTAATATTAGTTAT
21422075 GCACTTGGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
22 32 0.59
23 11 0.20
24 11 0.20
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (22 bp):
ATGTGGTGTAATATTAGTTATC
Found at i:21422134 original size:68 final size:68
Alignment explanation
Indices: 21421989--21422137 Score: 210
Period size: 68 Copynumber: 2.2 Consensus size: 68
21421979 ACTTTTAATG
* * *
21421989 TGGTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATATTAGTTATC
1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATC
21422054 ATA
66 ATA
* * *
21422057 TGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTATG
1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTAT-
* *
21422122 TATT
65 CATA
21422126 TGG-ATAATATTA
1 TGGTATAATATTA
21422138 TTAATTTCTA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
68 68 0.93
69 5 0.07
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (68 bp):
TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATC
ATA
Found at i:21422549 original size:14 final size:14
Alignment explanation
Indices: 21422531--21422597 Score: 80
Period size: 14 Copynumber: 4.7 Consensus size: 14
21422521 CCAGAAAAGT
*
21422531 AAATCATTTTCCAT
1 AAATCATTTTCCAG
* *
21422545 AAATCATTTTTCAAA
1 AAATCA-TTTTCCAG
*
21422560 AAATTATTTTCCAG
1 AAATCATTTTCCAG
21422574 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
21422588 AAAACATTTT
1 AAATCATTTT
21422598 ACCTGCAAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 34 0.76
15 11 0.24
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.40
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:21422591 original size:29 final size:29
Alignment explanation
Indices: 21422531--21422597 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
21422521 CCAGAAAAGT
* *
21422531 AAATCATTTTCCATAAATCATTTTTCAAA
1 AAATCATTTTCCAGAAATCATTTTCCAAA
* *
21422560 AAATTATTTTCCAGAAATCATTTTCCAGA
1 AAATCATTTTCCAGAAATCATTTTCCAAA
21422589 AAA-CATTTT
1 AAATCATTTT
21422598 ACCTGCAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.40
Consensus pattern (29 bp):
AAATCATTTTCCAGAAATCATTTTCCAAA
Found at i:21425262 original size:94 final size:93
Alignment explanation
Indices: 21425143--21425322 Score: 290
Period size: 94 Copynumber: 1.9 Consensus size: 93
21425133 CTTTTCTTAG
* *
21425143 CCTTTATTTACTTTTGTTAGGATTGAGCCCTGATTAGAGATTTTGTTTTGGGTTTAATTGTTGAT
1 CCTTTATTTACTTTTATTAGGATTGAACCCTGATTAGAGATTTTGTTTTGGGTTTAATTGTTGAT
21425208 TCATCTTTTTTTTCTATTATTTCTTCTTCA
66 TCATC--TTTTTTCTATTATTTCTTCTTCA
* * *
21425238 CCTTTATTTAC-TTTATTAGGATTGAACTCTGATTAGGGATTTTGTTTTGGGTTTAATTGTTTAT
1 CCTTTATTTACTTTTATTAGGATTGAACCCTGATTAGAGATTTTGTTTTGGGTTTAATTGTTGAT
21425302 TCATCTTTTTTCTATTATTTC
66 TCATCTTTTTTCTATTATTTC
21425323 CTGGCAACTC
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
92 16 0.20
94 53 0.66
95 11 0.14
ACGTcount: A:0.18, C:0.12, G:0.14, T:0.56
Consensus pattern (93 bp):
CCTTTATTTACTTTTATTAGGATTGAACCCTGATTAGAGATTTTGTTTTGGGTTTAATTGTTGAT
TCATCTTTTTTCTATTATTTCTTCTTCA
Found at i:21426742 original size:16 final size:17
Alignment explanation
Indices: 21426716--21426762 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 17
21426706 ATGTAAAAAA
*
21426716 ATTTAAAATATAAATTT
1 ATTTAATATATAAATTT
21426733 ATTAATATATATATAAATTT
1 ATT--TA-ATATATAAATTT
21426753 A-TTAATATAT
1 ATTTAATATAT
21426763 GTAAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 6 0.23
17 5 0.19
19 3 0.12
20 12 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTAATATATAAATTT
Found at i:21426748 original size:20 final size:20
Alignment explanation
Indices: 21426723--21426762 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
21426713 AAAATTTAAA
21426723 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
21426743 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
21426763 GTAAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATAAATTTATTAATATAT
Found at i:21426770 original size:20 final size:20
Alignment explanation
Indices: 21426727--21426770 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
21426717 TTTAAAATAT
*
21426727 AAATTTATTAATATATATAT
1 AAATTTATTAATATATATAA
*
21426747 AAATTTATTAATATATGTAA
1 AAATTTATTAATATATATAA
21426767 AAAT
1 AAAT
21426771 AACTTTTCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATTTATTAATATATATAA
Found at i:21441239 original size:22 final size:22
Alignment explanation
Indices: 21441214--21441268 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
21441204 TACGGCCTTT
* *
21441214 AGTCGTCTTGTCTACGATGTTG
1 AGTCGTCCTGTCTACGACGTTG
*
21441236 AGTCGTCCTGTCTACGGCGTTG
1 AGTCGTCCTGTCTACGACGTTG
21441258 AGTCGTCCTGT
1 AGTCGTCCTGT
21441269 TGACTTGGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.11, C:0.24, G:0.29, T:0.36
Consensus pattern (22 bp):
AGTCGTCCTGTCTACGACGTTG
Found at i:21442067 original size:17 final size:18
Alignment explanation
Indices: 21442045--21442078 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21442035 CACATTGAAA
21442045 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
21442062 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
21442079 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:21445766 original size:14 final size:14
Alignment explanation
Indices: 21445747--21445776 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21445737 TATCTTATAA
21445747 ATATGTGTGAATCT
1 ATATGTGTGAATCT
*
21445761 ATATGTGTTAATCT
1 ATATGTGTGAATCT
21445775 AT
1 AT
21445777 CTTGAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.47
Consensus pattern (14 bp):
ATATGTGTGAATCT
Found at i:21448193 original size:27 final size:27
Alignment explanation
Indices: 21448130--21448195 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
21448120 ACCCTAATAT
*
21448130 TGGTAAAATCACCGAAATACCCTTGTA
1 TGGTAAAATGACCGAAATACCCTTGTA
* *
21448157 -GTGCAAAATGACCGTAATACCCTTGTA
1 TG-GTAAAATGACCGAAATACCCTTGTA
*
21448184 TGGTAGAATGAC
1 TGGTAAAATGAC
21448196 GATTATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.03
27 30 0.94
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
TGGTAAAATGACCGAAATACCCTTGTA
Found at i:21448464 original size:22 final size:22
Alignment explanation
Indices: 21448439--21448497 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
21448429 TACGGCCTTT
* *
21448439 AGTCGTCCTATCTACGACGTTG
1 AGTCGTCCTGTCTACGACATTG
*
21448461 AGTCATCCTGTCTACGACATTG
1 AGTCGTCCTGTCTACGACATTG
*
21448483 AGTAGTCCTGTCTAC
1 AGTCGTCCTGTCTAC
21448498 AGTGTTGAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.32
Consensus pattern (22 bp):
AGTCGTCCTGTCTACGACATTG
Found at i:21449723 original size:33 final size:32
Alignment explanation
Indices: 21449686--21449769 Score: 87
Period size: 33 Copynumber: 2.6 Consensus size: 32
21449676 TGGTCCAACC
* *
21449686 ATGGTCTTACATTCACAGTGCCATAACCCAGTT
1 ATGGTCTTACATTCA-AATGCCATAACCCAGCT
* * * *
21449719 ATGGTCTTGTCACTGAAATGCCATAGCCCAGCT
1 ATGGTCTT-ACATTCAAATGCCATAACCCAGCT
*
21449752 ATGGTCTTACATTTAAAT
1 ATGGTCTTACATTCAAAT
21449770 TTTGTCATGC
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
32 7 0.17
33 30 0.73
34 4 0.10
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (32 bp):
ATGGTCTTACATTCAAATGCCATAACCCAGCT
Found at i:21469966 original size:6 final size:6
Alignment explanation
Indices: 21469955--21469994 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
21469945 ATCTGCTGCT
* *
21469955 CAGCAA CCGCAA CAACAA CAGCAA CAGCAA CAGCAA CAGC
1 CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGC
21469995 CGCCTTGGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.47, C:0.38, G:0.15, T:0.00
Consensus pattern (6 bp):
CAGCAA
Found at i:21471639 original size:16 final size:16
Alignment explanation
Indices: 21471618--21471649 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21471608 TGGAAAAATA
21471618 AAGAAAAAATTTATTC
1 AAGAAAAAATTTATTC
21471634 AAGAAAAAATTTATTC
1 AAGAAAAAATTTATTC
21471650 TCCTCCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (16 bp):
AAGAAAAAATTTATTC
Found at i:21482473 original size:41 final size:41
Alignment explanation
Indices: 21482404--21482558 Score: 138
Period size: 41 Copynumber: 3.8 Consensus size: 41
21482394 GATATCTCAT
* * * * *
21482404 ACACTAAGTGCCAAAGCATAGCTGAAGCTATTATAATCTCGC
1 ACACTAAATGCCATATCATAGCCGAAGCTATT-CAATCTCGC
* *
21482446 ACACTAAATGCC-TTTCATAGCCGAAGCTATCTCAGTCTCGC
1 ACACTAAATGCCATATCATAGCCGAAGCTAT-TCAATCTCGC
* * *
21482487 ACACTAAGTGCCATAT-ATAGCCGAAGCTATTCCGAT-TCAC
1 ACACTAAATGCCATATCATAGCCGAAGCTATT-CAATCTCGC
* * *
21482527 GCACTAAGTTCCATAT-ATAGCCGAAGCTATTC
1 ACACTAAATGCCATATCATAGCCGAAGCTATTC
21482559 CGATTCAGAC
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
39 1 0.01
40 33 0.34
41 48 0.50
42 14 0.15
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (41 bp):
ACACTAAATGCCATATCATAGCCGAAGCTATTCAATCTCGC
Found at i:21482542 original size:40 final size:40
Alignment explanation
Indices: 21482462--21482592 Score: 167
Period size: 40 Copynumber: 3.2 Consensus size: 40
21482452 AATGCCTTTC
* * *
21482462 ATAGCCGAAGCTATCTCAG-TCTCGCACACTAAGTGCCATAT
1 ATAGCCGAAGCTAT-TCCGAT-TCACGCACTAAGTGCCATAT
*
21482503 ATAGCCGAAGCTATTCCGATTCACGCACTAAGTTCCATAT
1 ATAGCCGAAGCTATTCCGATTCACGCACTAAGTGCCATAT
**
21482543 ATAGCCGAAGCTATTCCGATTCA-GACACTAAGTGCTTTAT
1 ATAGCCGAAGCTATTCCGATTCACG-CACTAAGTGCCATAT
21482583 ATAGCCGAAG
1 ATAGCCGAAG
21482593 TTATATCGAT
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 65 0.80
41 15 0.19
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (40 bp):
ATAGCCGAAGCTATTCCGATTCACGCACTAAGTGCCATAT
Found at i:21488289 original size:23 final size:24
Alignment explanation
Indices: 21488261--21488307 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
21488251 TTTCATCTCG
* * *
21488261 TGAATATATCAAAATATC-ATCTA
1 TGAATACAACAAAAAATCGATCTA
21488284 TGAATACAACAAAAAATCGATCTA
1 TGAATACAACAAAAAATCGATCTA
21488308 GGTACAGTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (24 bp):
TGAATACAACAAAAAATCGATCTA
Found at i:21492546 original size:39 final size:39
Alignment explanation
Indices: 21492503--21492591 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
21492493 TTCCAGTATG
* * *
21492503 TAGCCTGCGGACCTTAAGTCCGGATATAATTCCTGCACA
1 TAGCCTGCGGACCCTAAGTCCGGACATAATTCCAGCACA
21492542 TAGCCTGCGGACCCTAAGTCCGGACATAATTCCAGCACA
1 TAGCCTGCGGACCCTAAGTCCGGACATAATTCCAGCACA
21492581 TAGCCTGCGGA
1 TAGCCTGCGGA
21492592 TACATCACTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.21
Consensus pattern (39 bp):
TAGCCTGCGGACCCTAAGTCCGGACATAATTCCAGCACA
Found at i:21495154 original size:24 final size:27
Alignment explanation
Indices: 21495127--21495179 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 27
21495117 TTACATAACT
*
21495127 TATAATTA-TCCAAAAAAG-CAAC-CA
1 TATAATCATTCCAAAAAAGCCAACACA
*
21495151 TATAATCATTCCAAAGAAGCCAACACA
1 TATAATCATTCCAAAAAAGCCAACACA
21495178 TA
1 TA
21495180 AAGCATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 9 0.38
26 4 0.17
27 4 0.17
ACGTcount: A:0.51, C:0.23, G:0.06, T:0.21
Consensus pattern (27 bp):
TATAATCATTCCAAAAAAGCCAACACA
Found at i:21495186 original size:26 final size:25
Alignment explanation
Indices: 21495135--21495186 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
21495125 CTTATAATTA
*
21495135 TCCAAAAAAGCAACCATATAATCAT
1 TCCAAAAAAGCAACCATATAAGCAT
*
21495160 TCCAAAGAAGCCAACACATA-AAGCAT
1 TCCAAAAAAG-CAAC-CATATAAGCAT
21495186 T
1 T
21495187 ATATACATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 9 0.39
26 10 0.43
27 4 0.17
ACGTcount: A:0.50, C:0.25, G:0.08, T:0.17
Consensus pattern (25 bp):
TCCAAAAAAGCAACCATATAAGCAT
Found at i:21495835 original size:40 final size:40
Alignment explanation
Indices: 21495692--21495951 Score: 231
Period size: 40 Copynumber: 6.4 Consensus size: 40
21495682 ACTCGATATC
* * ** ***
21495692 TCGCACACTAAGTGCTAAAGCATAGTTGAAGCTATTATAAT
1 TCGCACACTAAGTGCTATA-TATAGCCGAAGCTATTCCGAT
*
21495733 CTCGCACACTAAGTGCCT-T-TCATAGCCGAAGCTATCTCAG-T
1 -TCGCACACTAAGTG-CTATAT-ATAGCCGAAGCTAT-TCCGAT
*
21495774 CTCGCACACTAAGTGCCATATATAGCCGAAGCTATTCCGAT
1 -TCGCACACTAAGTGCTATATATAGCCGAAGCTATTCCGAT
* * * *
21495815 TCGCACACTAAGTTCTATATATAACTGAAGCTATTCTGAT
1 TCGCACACTAAGTGCTATATATAGCCGAAGCTATTCCGAT
* * * *
21495855 TCACACAGTAAGTGCTTTATATAGTCGAAGCTATTCCGAT
1 TCGCACACTAAGTGCTATATATAGCCGAAGCTATTCCGAT
* * *
21495895 TTGCACACTAAGTGCTTTATATAGCCGAAGCTA-TCTCAAT
1 TCGCACACTAAGTGCTATATATAGCCGAAGCTATTC-CGAT
* *
21495935 ACGCACACTAAATGCTA
1 TCGCACACTAAGTGCTA
21495952 AACATAATCA
Statistics
Matches: 180, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
39 2 0.01
40 116 0.64
41 44 0.24
42 16 0.09
43 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (40 bp):
TCGCACACTAAGTGCTATATATAGCCGAAGCTATTCCGAT
Found at i:21506333 original size:40 final size:40
Alignment explanation
Indices: 21506272--21506349 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
21506262 TGCGGTACTT
* * *
21506272 TATGGTGTGTAGGGTTAGATGGGTTGATTTTATCCCCATA
1 TATGGTGTGCAGGGATAGATGGGTCGATTTTATCCCCATA
*
21506312 TATGGTGTGCAGGGATGGATGGGTCGATTTTATCCCCA
1 TATGGTGTGCAGGGATAGATGGGTCGATTTTATCCCCA
21506350 CATGGTTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.19, C:0.13, G:0.32, T:0.36
Consensus pattern (40 bp):
TATGGTGTGCAGGGATAGATGGGTCGATTTTATCCCCATA
Found at i:21507248 original size:58 final size:57
Alignment explanation
Indices: 21507178--21507332 Score: 195
Period size: 58 Copynumber: 2.7 Consensus size: 57
21507168 GTCTTTGGGC
* *
21507178 TTAGCATCTTAGTGCTTTTTGGTGTGTTTTAGAGGGATGTGATCTATTGTCTTCAAGT
1 TTAGCAT-TTAGTGCTCTTTGGTGTGTTTTAGAGGGATGTGATCTATTATCTTCAAGT
* * * * *
21507236 TTAGCACTTTAGTGCTCTTCGATGTGTTTTGGAGGGATTTGATCTATTATTTTCAAGT
1 TTAGCA-TTTAGTGCTCTTTGGTGTGTTTTAGAGGGATGTGATCTATTATCTTCAAGT
* *
21507294 TTAGCATTTTAGTGCTCTCTAGTGTG-TTTAGAGGGATGT
1 TTAGCA-TTTAGTGCTCTTTGGTGTGTTTTAGAGGGATGT
21507333 AATTTGTGGC
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
57 11 0.13
58 70 0.85
59 1 0.01
ACGTcount: A:0.18, C:0.11, G:0.25, T:0.46
Consensus pattern (57 bp):
TTAGCATTTAGTGCTCTTTGGTGTGTTTTAGAGGGATGTGATCTATTATCTTCAAGT
Found at i:21514146 original size:55 final size:54
Alignment explanation
Indices: 21514059--21514313 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
21514049 ATTAGGGTTT
* *
21514059 AAGGATACCATGTAAGGCCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * *
21514114 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
21514169 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* * *
21514222 AAGGGTACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTCT-A---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
21514271 AAGGATACCACGTAAGCCCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
21514314 GTACCCATGT
Statistics
Matches: 171, Mismatches: 22, Indels: 20
0.80 0.10 0.09
Matches are distributed among these distances:
49 37 0.22
52 6 0.04
53 41 0.24
54 12 0.07
55 71 0.42
56 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:21514265 original size:108 final size:109
Alignment explanation
Indices: 21514066--21514274 Score: 316
Period size: 108 Copynumber: 1.9 Consensus size: 109
21514056 TTTAAGGATA
*
21514066 CCATGTAAGGCCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
21514131 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTA-AAGGCAAAGGTC
* *
21514176 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGGTACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* * *
21514238 ACCATGTCGAGACATGGCAATGGTAAGTTTCTAAAGG
65 ACCATGTCAAGACATGGCAATGATAAGTTACTAAAGG
21514275 ATACCACGTA
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
107 7 0.08
108 51 0.56
109 7 0.08
110 26 0.29
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTAAAGGCAAAGGTC
Found at i:21517098 original size:12 final size:12
Alignment explanation
Indices: 21517083--21517120 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
21517073 CATAGAAATT
21517083 AAAATAAACATA
1 AAAATAAACATA
21517095 AAAATAAACATA
1 AAAATAAACATA
* *
21517107 AAAACAAAAATA
1 AAAATAAACATA
21517119 AA
1 AA
21517121 TGCACATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAATAAACATA
Found at i:21517099 original size:18 final size:18
Alignment explanation
Indices: 21517082--21517120 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21517072 GCATAGAAAT
21517082 TAAA-ATAAACATAAAAA
1 TAAACATAAACATAAAAA
* *
21517099 TAAACATAAAAACAAAAA
1 TAAACATAAACATAAAAA
21517117 TAAA
1 TAAA
21517121 TGCACATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (18 bp):
TAAACATAAACATAAAAA
Found at i:21520928 original size:20 final size:22
Alignment explanation
Indices: 21520898--21520945 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
21520888 GGATATGCTG
*
21520898 TAAATTGAAAG-TTTTTGATAGA
1 TAAA-TGAAAGATTATTGATAGA
21520920 -AAATGAAAGATTATTGATAGA
1 TAAATGAAAGATTATTGATAGA
21520941 TAAAT
1 TAAAT
21520946 CACTTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (22 bp):
TAAATGAAAGATTATTGATAGA
Found at i:21521666 original size:33 final size:33
Alignment explanation
Indices: 21521629--21521838 Score: 174
Period size: 33 Copynumber: 6.4 Consensus size: 33
21521619 TACCCAAATG
* ** *
21521629 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACCACTTGAAAAGGAAAGGTACACTTTGTGT
*
21521662 GTA-CACTTGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACTTGAAAAGGAAAGGTACACTTTGTGT
* * *
21521694 ATACCA-TATGAAAATGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAAGGAAAGGTACACTTTGTGT
* * *
21521727 ATACCACTTGAAAAGGAAAGGTACACTATATGT
1 GTACCACTTGAAAAGGAAAGGTACACTTTGTGT
* ** ** * *
21521760 ATA-CACTTGAAAAGGTTATATGCACTTTGAGT
1 GTACCACTTGAAAAGGAAAGGTACACTTTGTGT
* * ** * *
21521792 GTACAAATTGAAAAGGGTATGTACACTTCGTGT
1 GTACCACTTGAAAAGGAAAGGTACACTTTGTGT
21521825 GTACCACTTGAAAA
1 GTACCACTTGAAAA
21521839 AGGGAATGTG
Statistics
Matches: 144, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
32 50 0.35
33 93 0.65
34 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (33 bp):
GTACCACTTGAAAAGGAAAGGTACACTTTGTGT
Found at i:21521861 original size:34 final size:34
Alignment explanation
Indices: 21521788--21521872 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
21521778 TATGCACTTT
* * *
21521788 GAGTGTACAAATTG-AAAAGGGTATGTACACTTC
1 GAGTGTACAACTTGAAAAAGGGAATGTACACCTC
* * **
21521821 GTGTGTACCACTTGAAAAAGGGAATGTGTACCTC
1 GAGTGTACAACTTGAAAAAGGGAATGTACACCTC
*
21521855 GAGTGTACAACTAGAAAA
1 GAGTGTACAACTTGAAAA
21521873 GGAAAAGTCC
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
33 11 0.27
34 30 0.73
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (34 bp):
GAGTGTACAACTTGAAAAAGGGAATGTACACCTC
Found at i:21528476 original size:20 final size:22
Alignment explanation
Indices: 21528446--21528493 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
21528436 GAATATGCTG
*
21528446 TAAATTGAAAG-TTTTTGATAGA
1 TAAA-TGAAAGATTGTTGATAGA
21528468 -AAATGAAAGATTGTTGATAGA
1 TAAATGAAAGATTGTTGATAGA
21528489 TAAAT
1 TAAAT
21528494 CACTTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (22 bp):
TAAATGAAAGATTGTTGATAGA
Found at i:21529213 original size:33 final size:33
Alignment explanation
Indices: 21529176--21529425 Score: 191
Period size: 33 Copynumber: 7.6 Consensus size: 33
21529166 TACCCAAATG
**
21529176 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
* *
21529209 GTAC-ACTTGAAAAGGAAAGGTATACTTTGTGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
* * * *
21529241 ATACCA-TATGAAAAGGAAAGGGGTATACTTTGTGT
1 GTACAACT-TGAAAAGGAAA--TGTACACTTTGTGT
* * * * *
21529276 ATACCACTTGAAAAGGAAAGGTACACTATATGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
* ** * * *
21529309 GTAC-ACTTGAAAATGTTATATGCACTTTGAGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
* ** *
21529341 GTACAAATTGAAAAGGGTATGTACACTTCGTGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
* * * * *
21529374 GTACCACTTGAAAAGGGAATGTACACCTCGAGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
*
21529407 GTACAACTAGAAAAGGAAA
1 GTACAACTTGAAAAGGAAA
21529426 AGTCCATCGG
Statistics
Matches: 178, Mismatches: 33, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
32 51 0.29
33 95 0.53
35 31 0.17
36 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (33 bp):
GTACAACTTGAAAAGGAAATGTACACTTTGTGT
Found at i:21529273 original size:35 final size:35
Alignment explanation
Indices: 21529200--21529296 Score: 148
Period size: 35 Copynumber: 2.9 Consensus size: 35
21529190 GGTTATGTAC
*
21529200 ACTTTGTGTGTA-CACTTGAAAAGGAAA--GGTAT
1 ACTTTGTGTATACCACTTGAAAAGGAAAGGGGTAT
21529232 ACTTTGTGTATACCA-TATGAAAAGGAAAGGGGTAT
1 ACTTTGTGTATACCACT-TGAAAAGGAAAGGGGTAT
21529267 ACTTTGTGTATACCACTTGAAAAGGAAAGG
1 ACTTTGTGTATACCACTTGAAAAGGAAAGG
21529297 TACACTATAT
Statistics
Matches: 59, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
32 12 0.20
33 13 0.22
35 33 0.56
36 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (35 bp):
ACTTTGTGTATACCACTTGAAAAGGAAAGGGGTAT
Found at i:21533199 original size:22 final size:22
Alignment explanation
Indices: 21533174--21533231 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
21533164 TTTTCTTGTT
*
21533174 ATTTTCTTCTTATTTTGCTACC
1 ATTTTCTTATTATTTTGCTACC
* *
21533196 ATTTTAC-TATTATATTGCTACT
1 ATTTT-CTTATTATTTTGCTACC
*
21533218 ATTTTGTTATTATT
1 ATTTTCTTATTATT
21533232 GTTTGGATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.21, C:0.14, G:0.05, T:0.60
Consensus pattern (22 bp):
ATTTTCTTATTATTTTGCTACC
Found at i:21533296 original size:30 final size:30
Alignment explanation
Indices: 21533260--21533322 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
21533250 ACTTATTTTA
21533260 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
21533290 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
21533320 TTG
1 TTG
21533323 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:21533452 original size:12 final size:12
Alignment explanation
Indices: 21533431--21533464 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
21533421 TATATATTTT
*
21533431 AAAATTATATAA
1 AAAATAATATAA
21533443 AAAATAATATAA
1 AAAATAATATAA
*
21533455 AAATTAATAT
1 AAAATAATAT
21533465 GGTCAGATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:21534330 original size:20 final size:19
Alignment explanation
Indices: 21534298--21534378 Score: 92
Period size: 20 Copynumber: 4.2 Consensus size: 19
21534288 ATTTTGGAGT
*
21534298 TTTTATAAA-TATTTTAAA
1 TTTTAAAAATTATTTTAAA
21534316 TTTTAAAAATTTATTTTAAA
1 TTTTAAAAA-TTATTTTAAA
* *
21534336 TTTTTAAGAATTATTTTGAAT
1 -TTTTAAAAATTATTTT-AAA
*
21534357 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTAAA
21534376 TTT
1 TTT
21534379 CTTTTTTGTA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
18 8 0.15
19 4 0.08
20 31 0.58
21 10 0.19
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
TTTTAAAAATTATTTTAAA
Found at i:21536024 original size:379 final size:379
Alignment explanation
Indices: 21535325--21536085 Score: 1513
Period size: 379 Copynumber: 2.0 Consensus size: 379
21535315 ACATGTCAAA
21535325 TATTCTCGATACAGGTCTTGATCGGCATACTCTTTCGGTCCTTATTGCTCTCTGTGATTTGGGTT
1 TATTCTCGATACAGGTCTTGATCGGCATACTCTTTCGGTCCTTATTGCTCTCTGTGATTTGGGTT
21535390 TAAACCCTGAGGCTTTGGCTGCTGTTGTCAAGGAACTTCAAAGAGAACCTCCACCATCAACCCCG
66 TAAACCCTGAGGCTTTGGCTGCTGTTGTCAAGGAACTTCAAAGAGAACCTCCACCATCAACCCCG
*
21535455 TTGTCATCTTCTTCATCACAAGTACCTTAACTTCGGAGTTCGGTATTTTCTAGTAAACTTTCCAG
131 ATGTCATCTTCTTCATCACAAGTACCTTAACTTCGGAGTTCGGTATTTTCTAGTAAACTTTCCAG
21535520 TAATGCCTTTGAGTTTTAATTTGTTTTGATTGATGTCTTTCAGTAGAAACTTTCTTAGGTTTTCT
196 TAATGCCTTTGAGTTTTAATTTGTTTTGATTGATGTCTTTCAGTAGAAACTTTCTTAGGTTTTCT
21535585 CATCTCGAACACGATTGTGCTTAGTGTTCACCTTGTGCTTAGTCTCTGTATCTAATTCGATCTTA
261 CATCTCGAACACGATTGTGCTTAGTGTTCACCTTGTGCTTAGTCTCTGTATCTAATTCGATCTTA
21535650 CATACTATGTTTGATCAATTATATATTCACTCTGGTGAACTGTCTTTTCTTCTT
326 CATACTATGTTTGATCAATTATATATTCACTCTGGTGAACTGTCTTTTCTTCTT
21535704 TATTCTCGATACAGGTCTTGATCGGCATACTCTTTCGGTCCTTATTGCTCTCTGTGATTTGGGTT
1 TATTCTCGATACAGGTCTTGATCGGCATACTCTTTCGGTCCTTATTGCTCTCTGTGATTTGGGTT
21535769 TAAACCCTGAGGCTTTGGCTGCTGTTGTCAAGGAACTTCAAAGAGAACCTCCACCATCAACCCCG
66 TAAACCCTGAGGCTTTGGCTGCTGTTGTCAAGGAACTTCAAAGAGAACCTCCACCATCAACCCCG
21535834 ATGTCATCTTCTTCATCACAAGTACCTTAACTTCGGAGTTCGGTATTTTCTAGTAAACTTTCCAG
131 ATGTCATCTTCTTCATCACAAGTACCTTAACTTCGGAGTTCGGTATTTTCTAGTAAACTTTCCAG
21535899 TAATGCCTTTGAGTTTTAATTTGTTTTGATTGATGTCTTTCAGTAGAAACTTTCTTAGGTTTTCT
196 TAATGCCTTTGAGTTTTAATTTGTTTTGATTGATGTCTTTCAGTAGAAACTTTCTTAGGTTTTCT
21535964 CATCTCGAACACGATTGTGCTTAGTGTTCACCTTGTGCTTAGTCTCTGTATCTAATTCGATCTTA
261 CATCTCGAACACGATTGTGCTTAGTGTTCACCTTGTGCTTAGTCTCTGTATCTAATTCGATCTTA
21536029 CATACTATGTTTGATCAATTATATATTCACTCTGGTGAACTGTCTTTTCTTCTT
326 CATACTATGTTTGATCAATTATATATTCACTCTGGTGAACTGTCTTTTCTTCTT
21536083 TAT
1 TAT
21536086 CTTGGAGCTT
Statistics
Matches: 381, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
379 381 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (379 bp):
TATTCTCGATACAGGTCTTGATCGGCATACTCTTTCGGTCCTTATTGCTCTCTGTGATTTGGGTT
TAAACCCTGAGGCTTTGGCTGCTGTTGTCAAGGAACTTCAAAGAGAACCTCCACCATCAACCCCG
ATGTCATCTTCTTCATCACAAGTACCTTAACTTCGGAGTTCGGTATTTTCTAGTAAACTTTCCAG
TAATGCCTTTGAGTTTTAATTTGTTTTGATTGATGTCTTTCAGTAGAAACTTTCTTAGGTTTTCT
CATCTCGAACACGATTGTGCTTAGTGTTCACCTTGTGCTTAGTCTCTGTATCTAATTCGATCTTA
CATACTATGTTTGATCAATTATATATTCACTCTGGTGAACTGTCTTTTCTTCTT
Found at i:21538028 original size:23 final size:23
Alignment explanation
Indices: 21538002--21538055 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
21537992 AACATTTATT
*
21538002 ATTAT-TTAAATATTTTACATATC
1 ATTATATTAAAT-TTTTAAATATC
*
21538025 ATTATATTAAATTTTTAAATATT
1 ATTATATTAAATTTTTAAATATC
21538048 ATTA-ATTA
1 ATTATATTA
21538056 TTATATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 4 0.14
23 18 0.64
24 6 0.21
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTATATTAAATTTTTAAATATC
Done.