Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 79 of 187
Found at i:22880365 original size:50 final size:50
Alignment explanation
Indices: 22880249--22880441 Score: 233
Period size: 50 Copynumber: 3.8 Consensus size: 50
22880239 GATAATAACA
* ** ** *
22880249 TGCCAAAGCCATGTCCCAGACAAAGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * * ** *
22880300 TGCCCATGCCATGTCCCAGATATTGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
22880350 TGCCAACGCCGTGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
22880400 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22880442 TTACCCAAAT
Statistics
Matches: 119, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 89 0.75
51 30 0.25
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:22881750 original size:11 final size:11
Alignment explanation
Indices: 22881724--22881780 Score: 73
Period size: 11 Copynumber: 5.4 Consensus size: 11
22881714 CCCTTCTCTT
22881724 TTATTTATTT-
1 TTATTTATTTA
22881734 TTATTTATTTA
1 TTATTTATTTA
*
22881745 TTATTTGTTTA
1 TTATTTATTTA
*
22881756 TTATTTGTTTA
1 TTATTTATTTA
*
22881767 TTA-TTATTTG
1 TTATTTATTTA
22881777 TTAT
1 TTAT
22881781 CATTTTCTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
10 18 0.43
11 24 0.57
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:22881755 original size:25 final size:25
Alignment explanation
Indices: 22881727--22881778 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
22881717 TTCTCTTTTA
22881727 TTTATT-TTTATTTATTTATTATTTG
1 TTTATTATTTATTTA-TTATTATTTG
*
22881752 TTTATTATTTGTTTATTATTATTTG
1 TTTATTATTTATTTATTATTATTTG
22881777 TT
1 TT
22881779 ATCATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (25 bp):
TTTATTATTTATTTATTATTATTTG
Found at i:22881770 original size:14 final size:15
Alignment explanation
Indices: 22881723--22881778 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 15
22881713 GCCCTTCTCT
*
22881723 TTTATTTATT-TTTA
1 TTTATTTATTATTTG
22881737 TTTATTTATTATTTG
1 TTTATTTATTATTTG
22881752 ----TTTATTATTTG
1 TTTATTTATTATTTG
22881763 TTTA-TTATTATTTG
1 TTTATTTATTATTTG
22881777 TT
1 TT
22881779 ATCATTTTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
11 11 0.31
14 22 0.61
15 3 0.08
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (15 bp):
TTTATTTATTATTTG
Found at i:22883444 original size:6 final size:6
Alignment explanation
Indices: 22883433--22883529 Score: 65
Period size: 6 Copynumber: 16.7 Consensus size: 6
22883423 AGTTTATTTG
* * * * *
22883433 TTTTCT TTTTCT TTTTCT TTTTAT TTTTAT TTTTGT TTTTGT TTTTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * ** * * *
22883480 TTTTAT GTTTAT GTTTAT TGATAT TTTTA- -GTTGT TTTTAT TGTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
22883526 TTTT
1 TTTT
22883530 TTAGACTTAT
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
4 2 0.03
5 5 0.07
6 66 0.90
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:22883551 original size:26 final size:26
Alignment explanation
Indices: 22883513--22883577 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
22883503 TTTTTAGTTG
* * *
22883513 TTTTTATTGTTATTTTTTTAGACT-TA
1 TTTTTATTTTTATCTTTTGA-ACTATA
22883539 -TTTTATTTCTTATCTTTTGAACTATA
1 TTTTTATTT-TTATCTTTTGAACTATA
22883565 TTTTTATTTTTAT
1 TTTTTATTTTTAT
22883578 GGTTGTTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 10 0.30
26 15 0.45
27 8 0.24
ACGTcount: A:0.20, C:0.06, G:0.05, T:0.69
Consensus pattern (26 bp):
TTTTTATTTTTATCTTTTGAACTATA
Found at i:22887941 original size:20 final size:20
Alignment explanation
Indices: 22887905--22887966 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 20
22887895 TATTATGTAG
*
22887905 TATTATTCTATATTTTTAAA
1 TATTATTCTATAATTTTAAA
22887925 TATTATTACT-TAATTTTACAAA
1 TATTATT-CTATAATTTT--AAA
22887947 TATTTTATTCTATACATTTT
1 TA--TTATTCTATA-ATTTT
22887967 TATGTTAGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
20 13 0.38
21 2 0.06
22 5 0.15
23 2 0.06
24 7 0.21
25 5 0.15
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTATTCTATAATTTTAAA
Found at i:22888341 original size:12 final size:12
Alignment explanation
Indices: 22888324--22888349 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22888314 GTGTACTTCC
22888324 ATATATATGTAT
1 ATATATATGTAT
22888336 ATATATATGTAT
1 ATATATATGTAT
22888348 AT
1 AT
22888350 TATTGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:22891825 original size:25 final size:25
Alignment explanation
Indices: 22891773--22891838 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
22891763 ATAAAATACA
*
22891773 TCTTTACATTCATTTTTGAGTCAATAT
1 TCTTT-CATTC-TTTTTGAATCAATAT
22891800 TCTTTCATTCTTTTTGAAT-AATTAT
1 TCTTTCATTCTTTTTGAATCAA-TAT
22891825 TCTTTCATTCTTTT
1 TCTTTCATTCTTTT
22891839 GGATTTTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 2 0.05
25 25 0.68
26 5 0.14
27 5 0.14
ACGTcount: A:0.21, C:0.15, G:0.05, T:0.59
Consensus pattern (25 bp):
TCTTTCATTCTTTTTGAATCAATAT
Found at i:22892580 original size:20 final size:20
Alignment explanation
Indices: 22892557--22892595 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22892547 TCAAAAGAAA
22892557 AAAGAAAAAAAATCAAAATC
1 AAAGAAAAAAAATCAAAATC
** *
22892577 AAAGTCAAAAAATGAAAAT
1 AAAGAAAAAAAATCAAAAT
22892596 GAAAAATATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.72, C:0.08, G:0.08, T:0.13
Consensus pattern (20 bp):
AAAGAAAAAAAATCAAAATC
Found at i:22894765 original size:88 final size:88
Alignment explanation
Indices: 22894538--22894770 Score: 306
Period size: 88 Copynumber: 2.7 Consensus size: 88
22894528 AATTTGACTA
* * * *
22894538 AGTGGAG-AGGTTAAAGATAACAGATCTTGCCTTCCTGCATCGACAACAAAGCAGATCGAAGACA
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACA
*
22894602 CAAGCCTTACCTCCCTCGGTTGT
66 CAAGCCTTACCTCCCTCGGTTGC
* * * *
22894625 AATGGAGCAGGTTGAATATTGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCTGATCGAAGACA
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACA
* * *
22894690 CCAGCCTTGCCTCCCTCTGTTGC
66 CAAGCCTTACCTCCCTCGGTTGC
* * * * *
22894713 AGTGGAGCAAGTTGAAGATAGCAGATCTTGCCTTCTTGCATCAACGGTGAAGCAGATC
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
22894771 AAAAATGGCG
Statistics
Matches: 124, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
87 6 0.05
88 118 0.95
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (88 bp):
AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACA
CAAGCCTTACCTCCCTCGGTTGC
Found at i:22896413 original size:3 final size:3
Alignment explanation
Indices: 22896386--22896427 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
22896376 TTTTATTAAT
* *
22896386 TTA TTAA TTA TT- TTA TTA CTA TTA TTA TTA TTG TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22896428 GTATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:22896794 original size:12 final size:12
Alignment explanation
Indices: 22896777--22896802 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22896767 GTGTACTTCC
22896777 ATATATATGTAT
1 ATATATATGTAT
22896789 ATATATATGTAT
1 ATATATATGTAT
22896801 AT
1 AT
22896803 TATTGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:22900255 original size:48 final size:49
Alignment explanation
Indices: 22900170--22900272 Score: 154
Period size: 48 Copynumber: 2.1 Consensus size: 49
22900160 TCATGTGTTA
* * * * *
22900170 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTGAACTTATTTT
1 TAATTTTATAAAGTGTTCAGCCTTTGATTCATGATATTAAACTTAATTT
22900219 TAATTTTATAAAGTGTTCA-CCTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCAGCCTTTGATTCATGATATTAAACTTAATTT
22900267 TAATTT
1 TAATTT
22900273 GTTTTTTTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 32 0.65
49 17 0.35
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCAGCCTTTGATTCATGATATTAAACTTAATTT
Found at i:22901808 original size:120 final size:120
Alignment explanation
Indices: 22901670--22901893 Score: 403
Period size: 120 Copynumber: 1.9 Consensus size: 120
22901660 ATGCATTATT
* * * *
22901670 TTTATAGTATTATTTATTATGATTTTAGTAAATTCCTATAAGAATATTTAATATTAAGAATTTTA
1 TTTATAGCATTATATATTATGATTTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTA
22901735 TAAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATAA
66 TAAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATAA
22901790 TTTATAGCATTATATATTATGATTTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTA
1 TTTATAGCATTATATATTATGATTTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTA
*
22901855 TTAAATTATATATTTTTATTAAATTATATTTAATAATAA
66 TAAAATTATATATTTTTATTAAATTATATTTAATAATAA
22901894 CAATAACAAT
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 99 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (120 bp):
TTTATAGCATTATATATTATGATTTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTA
TAAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATAA
Found at i:22901863 original size:61 final size:61
Alignment explanation
Indices: 22901678--22901868 Score: 194
Period size: 61 Copynumber: 3.2 Consensus size: 61
22901668 TTTTTATAGT
* * * *
22901678 ATTATTTATTATGATTTTAGTAAATTCCTATAAGAATATTTAATATTAAGAATTTTATAAA
1 ATTATATATTATGATTTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAA
* * ** * * * * * *
22901739 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTATGTTAA-ATT-ATAA-TTTA-TAGC
1 ATTATATATTATGATTTTAGTAAATTCATATAACAA-TAT-TTAATATTAAGAATTTTATTA-A
22901798 ATTATATATTATGATTTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAA
22901859 ATTATATATT
1 ATTATATATT
22901869 TTTATTAAAT
Statistics
Matches: 99, Mismatches: 23, Indels: 16
0.72 0.17 0.12
Matches are distributed among these distances:
58 5 0.05
59 31 0.31
60 18 0.18
61 39 0.39
62 6 0.06
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (61 bp):
ATTATATATTATGATTTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAA
Found at i:22902067 original size:18 final size:17
Alignment explanation
Indices: 22902046--22902090 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
22902036 AAACAATTGA
*
22902046 ATTCCCTATTACGCCTCT
1 ATTCCC-ATTACACCTCT
22902064 ATT-CCATTACACCTCT
1 ATTCCCATTACACCTCT
22902080 ATT-CCATTACA
1 ATTCCCATTACA
22902091 GCGAACCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 21 0.81
17 2 0.08
18 3 0.12
ACGTcount: A:0.24, C:0.36, G:0.02, T:0.38
Consensus pattern (17 bp):
ATTCCCATTACACCTCT
Found at i:22902078 original size:16 final size:16
Alignment explanation
Indices: 22902053--22902090 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
22902043 TGAATTCCCT
*
22902053 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
22902069 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
22902085 ATTACA
1 ATTACA
22902091 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:22909188 original size:15 final size:15
Alignment explanation
Indices: 22909163--22909197 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
22909153 GACTTTATTT
*
22909163 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
22909177 TAATTAATATTAAGA
1 TAATTAATATTAAGA
22909192 TAATTA
1 TAATTA
22909198 TTAAAGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:22909241 original size:10 final size:10
Alignment explanation
Indices: 22909223--22909270 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
22909213 ATTTTAGGAT
22909223 TTTAT-TTTA
1 TTTATCTTTA
22909232 TTTATCTTTA
1 TTTATCTTTA
22909242 TTTATCTTTA
1 TTTATCTTTA
* ** *
22909252 ATTAAATGTA
1 TTTATCTTTA
22909262 TTTATCTTT
1 TTTATCTTT
22909271 TGGGAGTTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:22912326 original size:9 final size:9
Alignment explanation
Indices: 22912302--22912344 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
22912292 ATATAATAAT
*
22912302 TAATTATATT
1 TAATT-TATG
22912312 TAATTTATG
1 TAATTTATG
22912321 TAATTTATG
1 TAATTTATG
22912330 TAATTTATG
1 TAATTTATG
22912339 TAATTT
1 TAATTT
22912345 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 27 0.84
10 5 0.16
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (9 bp):
TAATTTATG
Found at i:22913858 original size:36 final size:37
Alignment explanation
Indices: 22913811--22913902 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
22913801 GTCTCCAAAT
*
22913811 TCACAATTCAATTCAATTTCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAATTTCACTTTTCCACTTTCAAG
* *
22913847 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAAG
1 TCACAATTCAATTC-AATTTCACTTTTCCACTTTCAAG
*
22913885 TCA-ATATTCATTTCAATT
1 TCACA-ATTCAATTCAATT
22913903 CCACACATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
36 14 0.29
37 23 0.48
38 11 0.23
ACGTcount: A:0.33, C:0.23, G:0.01, T:0.43
Consensus pattern (37 bp):
TCACAATTCAATTCAATTTCACTTTTCCACTTTCAAG
Found at i:22913903 original size:36 final size:35
Alignment explanation
Indices: 22913811--22913903 Score: 107
Period size: 36 Copynumber: 2.5 Consensus size: 35
22913801 GTCTCCAAAT
*
22913811 TCACAATTCAATTCAATTTCACTTTTTCACTTTCAA
1 TCACAATTCAATTCAA-TTCACTTTTCCACTTTCAA
*
22913847 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAA
1 TCACAATTCAATTC--AATTCACTTTTCCACTTTCAA
*
22913884 GTCA-ATATTCATTTCAATTC
1 -TCACA-ATTCAATTCAATTC
22913904 CACACATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
36 19 0.38
37 18 0.36
38 13 0.26
ACGTcount: A:0.32, C:0.24, G:0.01, T:0.43
Consensus pattern (35 bp):
TCACAATTCAATTCAATTCACTTTTCCACTTTCAA
Found at i:22914612 original size:14 final size:14
Alignment explanation
Indices: 22914595--22914624 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22914585 TAGTTTTTAC
*
22914595 TTTTCTTTTTTTCT
1 TTTTCTTTTCTTCT
22914609 TTTTCTTTTCTTCT
1 TTTTCTTTTCTTCT
22914623 TT
1 TT
22914625 CCTTTCTCCC
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:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTTTCTTCT
Found at i:22914629 original size:19 final size:20
Alignment explanation
Indices: 22914588--22914629 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
22914578 TAAACCCTAG
* *
22914588 TTTTTACTTTTCTTTTTTTC
1 TTTTTACTTTTCTTCTTTCC
22914608 TTTTT-CTTTTCTTCTTTCC
1 TTTTTACTTTTCTTCTTTCC
22914627 TTT
1 TTT
22914630 CTCCCTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTACTTTTCTTCTTTCC
Found at i:22914707 original size:17 final size:18
Alignment explanation
Indices: 22914685--22914719 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22914675 TTCTTTTTTT
*
22914685 TTCTTTTA-GTTTCTTTA
1 TTCTTTTATGTTTATTTA
22914702 TTCTTTTATGTTTATTTA
1 TTCTTTTATGTTTATTTA
22914720 CTTTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.09, G:0.06, T:0.71
Consensus pattern (18 bp):
TTCTTTTATGTTTATTTA
Found at i:22914715 original size:23 final size:20
Alignment explanation
Indices: 22914674--22914731 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
22914664 CCTTCATTTC
*
22914674 TTTCTTT-TTTTTTCTTTTA
1 TTTCTTTATTTTTTATTTTA
22914693 GTTTCTTTATTCTTTTATGTTTA
1 -TTTCTTTATT-TTTTAT-TTTA
*
22914716 TTTACTTTATTATTTA
1 TTT-CTTTATTTTTTA
22914732 ATAATAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 7 0.22
21 2 0.06
22 12 0.38
23 11 0.34
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTCTTTATTTTTTATTTTA
Found at i:22915491 original size:25 final size:26
Alignment explanation
Indices: 22915440--22915499 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
22915430 ATTTGGAAAT
*
22915440 CACATTCAT--AATATGTATTTATGA
1 CACATTCATAAAATATGTATTTATAA
22915464 CACATTCATAAAATAT-TATTTATAA
1 CACATTCATAAAATATGTATTTATAA
22915489 CACATTCATAA
1 CACATTCATAA
22915500 TGCTTAACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 9 0.27
25 19 0.58
26 5 0.15
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.38
Consensus pattern (26 bp):
CACATTCATAAAATATGTATTTATAA
Found at i:22915620 original size:11 final size:11
Alignment explanation
Indices: 22915606--22915633 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
22915596 AATTTTTTTC
22915606 ATTTTAATAAT
1 ATTTTAATAAT
22915617 ATTTTAATAAT
1 ATTTTAATAAT
22915628 ATTTTA
1 ATTTTA
22915634 TTACTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTTAATAAT
Found at i:22927215 original size:38 final size:37
Alignment explanation
Indices: 22927165--22927330 Score: 144
Period size: 38 Copynumber: 4.7 Consensus size: 37
22927155 ATAGTATTAT
*
22927165 ATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
* *
22927202 ATATTAAGAATTTTATTAAATTATATTTAATAATAATT-
1 ATATTAAGAATTTTATTAAATTATA--TAAGAATATTTA
*
22927240 ATGTT-A-AA--TTA-T--ATTATAT-AG--TA-TTA
1 ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
*
22927266 TATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
22927304 ATATTAAGAATTTTATTAAATTATATA
1 ATATTAAGAATTTTATTAAATTATATA
22927331 TTTTTATTAA
Statistics
Matches: 103, Mismatches: 8, Indels: 36
0.70 0.05 0.24
Matches are distributed among these distances:
25 2 0.02
26 2 0.02
27 4 0.04
28 2 0.02
29 1 0.01
30 3 0.03
31 7 0.07
33 4 0.04
34 7 0.07
35 2 0.02
36 2 0.02
37 25 0.24
38 33 0.32
39 9 0.09
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
Found at i:22927502 original size:18 final size:17
Alignment explanation
Indices: 22927474--22927508 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22927464 ATTATTAAGA
*
22927474 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22927491 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22927509 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22927727 original size:44 final size:44
Alignment explanation
Indices: 22927664--22927760 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 44
22927654 CTATCACACC
*
22927664 TCCATTCCATTCAACCAAACACA-AAAATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAAAATACTATTACGCCTCTAT
* * *
22927708 TCCATTACATTCAACCAAACAATTGAATTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAA-TAAAATACTATTACGCCTCTAT
22927753 TCCATTAC
1 TCCATTAC
22927761 TCCTCTATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 20 0.43
45 26 0.55
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.31
Consensus pattern (44 bp):
TCCATTACATTCAACCAAACAATAAAATACTATTACGCCTCTAT
Found at i:22927765 original size:16 final size:16
Alignment explanation
Indices: 22927740--22927804 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
22927730 TTGAATTGCT
22927740 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
22927756 ATTACTCCTCTATTCC
1 ATTACGCCTCTATTCC
22927772 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
22927788 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
22927804 A
1 A
22927805 ATACAGCGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.20, C:0.37, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:22928084 original size:6 final size:6
Alignment explanation
Indices: 22928007--22928082 Score: 134
Period size: 6 Copynumber: 12.7 Consensus size: 6
22927997 TTTGTCTAAT
22928007 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* *
22928055 TATATG TACATG TATATG TATACG TATA
1 TATATG TATATG TATATG TATATG TATA
22928083 CGGCGCGATA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (6 bp):
TATATG
Found at i:22929483 original size:61 final size:61
Alignment explanation
Indices: 22929379--22929513 Score: 189
Period size: 61 Copynumber: 2.2 Consensus size: 61
22929369 ATTAGAATTA
* * * *
22929379 ATCACATTAATATTAAATTAATGAAATATTATCTAGATAAATATTATATTAAATTTAATAT
1 ATCATATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATAT
* * * *
22929440 ATCATATTAATGTTAAATTAATAAAATACTGTCTAGATCAATATTAAATTTAATTTAATAT
1 ATCATATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATAT
*
22929501 CTCATATTAATAT
1 ATCATATTAATAT
22929514 CTAGAAAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.43
Consensus pattern (61 bp):
ATCATATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATAT
Found at i:22929487 original size:31 final size:30
Alignment explanation
Indices: 22929387--22929489 Score: 91
Period size: 31 Copynumber: 3.4 Consensus size: 30
22929377 TAATCACATT
*
22929387 AATATTAAATTAATGAAATATTATCTAGATA
1 AATATTAAATTAATAAAATA-TATCTAGATA
* ** * *
22929418 AATATTATATTAAATTTAATATATC-ATATT
1 AATATTAAATT-AATAAAATATATCTAGATA
* * *
22929448 AATGTTAAATTAATAAAATACTGTCTAGATC
1 AATATTAAATTAATAAAATA-TATCTAGATA
22929479 AATATTAAATT
1 AATATTAAATT
22929490 TAATTTAATA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 7 0.12
30 15 0.27
31 27 0.48
32 7 0.12
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (30 bp):
AATATTAAATTAATAAAATATATCTAGATA
Found at i:22941449 original size:59 final size:58
Alignment explanation
Indices: 22941347--22941464 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 58
22941337 TTTTAGAAAA
22941347 CATTTAGATTGTATTTAAAATAATATTTTACTATTAAAATATTAAGAATTTTAGTTTT
1 CATTTAGATTGTATTTAAAATAATATTTTACTATTAAAATATTAAGAATTTTAGTTTT
*
22941405 CATTTAGATTGTATTTAAAAATAATATTTTAGTATTAAAATATTAAGAATTTTAGTTTT
1 CATTTAGATTGTATTT-AAAATAATATTTTACTATTAAAATATTAAGAATTTTAGTTTT
22941464 C
1 C
22941465 TCTATTTATT
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 16 0.28
59 42 0.72
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (58 bp):
CATTTAGATTGTATTTAAAATAATATTTTACTATTAAAATATTAAGAATTTTAGTTTT
Found at i:22942137 original size:112 final size:112
Alignment explanation
Indices: 22941838--22942102 Score: 386
Period size: 112 Copynumber: 2.4 Consensus size: 112
22941828 TTGATCCAGG
*
22941838 CAGCCTAATTTTTTTACACATGGTATACTCATTTTGTTGACATGTGACAATTATTTATACAACCA
1 CAGCCTAATTTTTTGACACATGGTATACTCATTTTGTTGACATGTGACAATTATTTATACAACCA
* * * *
22941903 ATTTATATATTATATATTACAAGGTCTCAGTCTCCAGCTAATTTGGG
66 ATTTATATATTATATATTACAAGGTCTCAGACTCCAGCTAATGTAGA
* * *** *
22941950 CAGCCTAAATTTTTGACAAATAACATACTCATTTTGTTGACATGTGTCAATTATTTATACAACCA
1 CAGCCTAATTTTTTGACACATGGTATACTCATTTTGTTGACATGTGACAATTATTTATACAACCA
* *
22942015 ATTTATATATTATATATTACAAGGTCTTAGACTCTTAGCTAATGTAGA
66 ATTTATATATTATATATTACAAGGTCTCAGACTC-CAGCTAATGTAGA
* *
22942063 CAGCCTAATTTTTTGACACGTGGTATATTCATTTTGTTGA
1 CAGCCTAATTTTTTGACACATGGTATACTCATTTTGTTGA
22942103 GATATAACAC
Statistics
Matches: 132, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
112 90 0.68
113 42 0.32
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.40
Consensus pattern (112 bp):
CAGCCTAATTTTTTGACACATGGTATACTCATTTTGTTGACATGTGACAATTATTTATACAACCA
ATTTATATATTATATATTACAAGGTCTCAGACTCCAGCTAATGTAGA
Found at i:22942150 original size:46 final size:46
Alignment explanation
Indices: 22942083--22942175 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
22942073 TTTTGACACG
22942083 TGGTATATTCATTTTGTTGAGATATAACACTTGTTTCTACAACTTA
1 TGGTATATTCATTTTGTTGAGATATAACACTTGTTTCTACAACTTA
22942129 TGGTATATTCATTTTGTTGAGATATAACACTTGTTTCTACAACTTA
1 TGGTATATTCATTTTGTTGAGATATAACACTTGTTTCTACAACTTA
22942175 T
1 T
22942176 CTTTTAATCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (46 bp):
TGGTATATTCATTTTGTTGAGATATAACACTTGTTTCTACAACTTA
Found at i:22942551 original size:67 final size:67
Alignment explanation
Indices: 22942477--22942617 Score: 210
Period size: 67 Copynumber: 2.1 Consensus size: 67
22942467 CACATTATTG
* * *
22942477 GATAATACTTTCATAGCTCACTTTCAATATTTTCATTAAAAAAATAACTTTACTCTTACATTGAC
1 GATAATACTTTCATAGCTCACTTTCAATATTTTCATTAAAAAAATAACTTTAATCTCACATCGAC
22942542 TA
66 TA
* ** *
22942544 GATAATACTTTCATAGCTCACTTTCACTATTTTCATTAAAAATTTAATTTTAATCTCACATCGAC
1 GATAATACTTTCATAGCTCACTTTCAATATTTTCATTAAAAAAATAACTTTAATCTCACATCGAC
22942609 TA
66 TA
*
22942611 GAGAATA
1 GATAATA
22942618 AGTTCACTTC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.40
Consensus pattern (67 bp):
GATAATACTTTCATAGCTCACTTTCAATATTTTCATTAAAAAAATAACTTTAATCTCACATCGAC
TA
Found at i:22942833 original size:13 final size:14
Alignment explanation
Indices: 22942810--22942839 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
22942800 GACCCACTCG
22942810 TATTAATTTTTTTA
1 TATTAATTTTTTTA
22942824 TATT-ATTTTTTTA
1 TATTAATTTTTTTA
22942837 TAT
1 TAT
22942840 AAAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTAATTTTTTTA
Found at i:22944039 original size:20 final size:17
Alignment explanation
Indices: 22944002--22944051 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 17
22943992 TTTTGTAGGG
*
22944002 TTTTGAGTTTTTTATAT
1 TTTTTAGTTTTTTATAT
22944019 TTTTTAAGTTTATTATATAT
1 TTTTT-AGTTT-TT-TATAT
*
22944039 TCTTTAGTTTTTT
1 TTTTTAGTTTTTT
22944052 TATAACATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 5 0.18
18 7 0.25
19 7 0.25
20 9 0.32
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.70
Consensus pattern (17 bp):
TTTTTAGTTTTTTATAT
Found at i:22944055 original size:18 final size:19
Alignment explanation
Indices: 22944009--22944055 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
22943999 GGGTTTTGAG
*
22944009 TTTTTTATATTTTTTAAGT
1 TTTTTTATATTCTTTAAGT
*
22944028 TTATTATATATTCTTT-AGT
1 TT-TTTTATATTCTTTAAGT
22944047 TTTTTTATA
1 TTTTTTATA
22944056 ACATTTTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.25
19 7 0.29
20 11 0.46
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (19 bp):
TTTTTTATATTCTTTAAGT
Found at i:22944055 original size:20 final size:18
Alignment explanation
Indices: 22944002--22944051 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
22943992 TTTTGTAGGG
*
22944002 TTTTGAGTTTTTTATATT
1 TTTTAAGTTTTTTATATT
22944020 TTTTAAGTTTATTATATATT
1 TTTTAAGTTT-TT-TATATT
*
22944040 CTTT-AGTTTTTT
1 TTTTAAGTTTTTT
22944052 TATAACATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 1 0.04
18 11 0.39
19 7 0.25
20 9 0.32
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.70
Consensus pattern (18 bp):
TTTTAAGTTTTTTATATT
Found at i:22946330 original size:15 final size:15
Alignment explanation
Indices: 22946310--22946369 Score: 86
Period size: 15 Copynumber: 4.1 Consensus size: 15
22946300 CTTACTTAAG
22946310 TAGGGTTTGCACATA
1 TAGGGTTTGCACATA
*
22946325 TAGGGTTTGCTCATA
1 TAGGGTTTGCACATA
*
22946340 T-GGGTTTACACATA
1 TAGGGTTTGCACATA
*
22946354 CAGGGTTTGCACATA
1 TAGGGTTTGCACATA
22946369 T
1 T
22946370 GGTTCACACC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 11 0.29
15 27 0.71
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (15 bp):
TAGGGTTTGCACATA
Found at i:22946358 original size:29 final size:29
Alignment explanation
Indices: 22946312--22946371 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
22946302 TACTTAAGTA
* * *
22946312 GGGTTTGCACATATAGGGTTTGCTCATAT
1 GGGTTTACACATACAGGGTTTGCACATAT
22946341 GGGTTTACACATACAGGGTTTGCACATAT
1 GGGTTTACACATACAGGGTTTGCACATAT
22946370 GG
1 GG
22946372 TTCACACCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (29 bp):
GGGTTTACACATACAGGGTTTGCACATAT
Found at i:22946495 original size:68 final size:67
Alignment explanation
Indices: 22946416--22946560 Score: 175
Period size: 68 Copynumber: 2.1 Consensus size: 67
22946406 CAACAAATAA
* * * * * *
22946416 GGTTCACATATACCACATGTAGGGTTTGCATAAACAACATATAAAGTTTGCATTATTTAAATAGT
1 GGTTCGCATATACCACATATAAGGTTCGCATAAACAACATATAAAGTTCGCA-TATTTAAA-AAT
22946481 -TAG
64 ATAG
* **
22946484 GGTTCGCATATACCACATATAAGGTTCGCATAAACAATATATAGGGTTCGCATATTTAAAAATAT
1 GGTTCGCATATACCACATATAAGGTTCGCATAAACAACATATAAAGTTCGCATATTTAAAAATAT
22946549 AG
66 AG
*
22946551 GGTTTGCATA
1 GGTTCGCATA
22946561 AATAACCTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
66 2 0.03
67 20 0.30
68 44 0.67
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (67 bp):
GGTTCGCATATACCACATATAAGGTTCGCATAAACAACATATAAAGTTCGCATATTTAAAAATAT
AG
Found at i:22946509 original size:22 final size:22
Alignment explanation
Indices: 22946406--22946538 Score: 88
Period size: 22 Copynumber: 6.0 Consensus size: 22
22946396 TTTGTATAAT
* *
22946406 CAACAAATAAGGTTCACATATA
1 CAACATATAAGGTTCGCATATA
* * * * *
22946428 CCACATGTAGGGTTTGCATAAA
1 CAACATATAAGGTTCGCATATA
* * *
22946450 CAACATATAAAGTTTGCATTATT
1 CAACATATAAGGTTCGCA-TATA
* *
22946473 TAA-ATAGTTAGGGTTCGCATATA
1 CAACATA--TAAGGTTCGCATATA
* *
22946496 CCACATATAAGGTTCGCATAAA
1 CAACATATAAGGTTCGCATATA
* *
22946518 CAATATATAGGGTTCGCATAT
1 CAACATATAAGGTTCGCATAT
22946539 TTAAAAATAT
Statistics
Matches: 81, Mismatches: 26, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
22 62 0.77
23 8 0.10
24 11 0.14
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (22 bp):
CAACATATAAGGTTCGCATATA
Found at i:22946572 original size:67 final size:68
Alignment explanation
Indices: 22946438--22946578 Score: 151
Period size: 67 Copynumber: 2.1 Consensus size: 68
22946428 CCACATGTAG
* * * * *
22946438 GGTTTGCATAAACAACATATAAAGTTTGCATTATTTAAATAGTTAGGGTTCGCATATACCACATA
1 GGTTCGCATAAACAACATATAAAGTTCGCATTATTTAAATAATTAGGGTTCGCATAAACAACATA
22946503 TAA
66 TAA
* ** * * *
22946506 GGTTCGCATAAACAATATATAGGGTTCGCA-TATTTAAA-AATATAGGGTTTGCATAAATAACCT
1 GGTTCGCATAAACAACATATAAAGTTCGCATTATTTAAATAAT-TAGGGTTCGCATAAACAACAT
22946569 ATAA
65 ATAA
*
22946573 GATTCG
1 GGTTCG
22946579 TATGAATAAC
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
66 2 0.03
67 33 0.55
68 25 0.42
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (68 bp):
GGTTCGCATAAACAACATATAAAGTTCGCATTATTTAAATAATTAGGGTTCGCATAAACAACATA
TAA
Found at i:22951727 original size:19 final size:19
Alignment explanation
Indices: 22951702--22951751 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
22951692 TTTCAAGAGT
22951702 CACACGGGCTGGGCCATTC
1 CACACGGGCTGGGCCATTC
*
22951721 TACACGGGCTGGGCCATTC
1 CACACGGGCTGGGCCATTC
22951740 CACACGGGCTGG
1 CACACGGGCTGG
22951752 ACACACTGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (19 bp):
CACACGGGCTGGGCCATTC
Found at i:22960781 original size:21 final size:19
Alignment explanation
Indices: 22960725--22960785 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
22960715 TAATTATTTA
22960725 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
22960744 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
22960763 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
22960784 TT
1 TT
22960786 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:22962710 original size:72 final size:73
Alignment explanation
Indices: 22962620--22962794 Score: 196
Period size: 72 Copynumber: 2.4 Consensus size: 73
22962610 AAAATCACAT
* * * *
22962620 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATGA-AGAA
1 ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAAGTCAAT-ATACAA
*
22962683 AGACCAAAC
65 AAACCAAAC
* * * *
22962692 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAAAGTCAATATCCAA
1 ATAAACAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAACATAAAGTCAATATACAA
22962755 AAACCAAAC
65 AAACCAAAC
* * *
22962764 ATAAATAACTGTTGATAAAACTAGTTTAGCA
1 ATAAACAACTATTGATAAAACTAATTTAGCA
22962795 TTGTTGTTTA
Statistics
Matches: 85, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
71 2 0.02
72 80 0.94
73 3 0.04
ACGTcount: A:0.54, C:0.13, G:0.09, T:0.25
Consensus pattern (73 bp):
ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAAGTCAATATACAAA
AACCAAAC
Found at i:22963237 original size:18 final size:18
Alignment explanation
Indices: 22963216--22963281 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
22963206 TCCATCAATT
*
22963216 TGAACACCATTTGAAATG
1 TGAACATCATTTGAAATG
22963234 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
22963252 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
22963270 TGAACATCATTT
1 TGAACATCATTT
22963282 CTCATATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:22964376 original size:117 final size:117
Alignment explanation
Indices: 22964169--22964551 Score: 651
Period size: 117 Copynumber: 3.4 Consensus size: 117
22964159 TTATAAGCGC
22964169 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
*
22964234 TTACTACTGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACA
66 TTGCTACTGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACA
*
22964286 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAATATGATTATTAATTATTATTA
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
22964351 TTGCTACTGACAAAATTTT--A------T--ATTCTTTTCTGTAATTTTACA
66 TTGCTACTGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACA
*
22964393 AAGTTTTTAATTAATATTTATGTAATTAAAAATGGTCCCTTTAAGATGATTATTAATTATTATTA
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
*
22964458 TTGCTACTAACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACA
66 TTGCTACTGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACA
*
22964510 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGCCCCTTT
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTT
22964552 TTCTGTAAAG
Statistics
Matches: 249, Mismatches: 7, Indels: 20
0.90 0.03 0.07
Matches are distributed among these distances:
107 102 0.41
109 2 0.01
115 2 0.01
117 143 0.57
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.49
Consensus pattern (117 bp):
AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
TTGCTACTGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACA
Found at i:22966520 original size:25 final size:25
Alignment explanation
Indices: 22966492--22966581 Score: 135
Period size: 25 Copynumber: 3.6 Consensus size: 25
22966482 AGAGGAACAA
22966492 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
22966517 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* * *
22966542 AGCACCAGCAGAAGAACAAATAATC
1 AGCACCAGCAGAGGAACAAAGAACC
* *
22966567 AGAACCAGTAGAGGA
1 AGCACCAGCAGAGGA
22966582 TCAATGAAGC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.49, C:0.24, G:0.23, T:0.03
Consensus pattern (25 bp):
AGCACCAGCAGAGGAACAAAGAACC
Found at i:22966545 original size:19 final size:19
Alignment explanation
Indices: 22966482--22966520 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
22966472 GTGGTGGAGA
*
22966482 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
22966501 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
22966520 A
1 A
22966521 CCAGCAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.23, G:0.26, T:0.00
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:22966600 original size:19 final size:19
Alignment explanation
Indices: 22966576--22966613 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
22966566 CAGAACCAGT
* *
22966576 AGAGGATCAATGAAGCAAC
1 AGAGGAACAAAGAAGCAAC
22966595 AGAGGAACAAAGAAGCAAC
1 AGAGGAACAAAGAAGCAAC
22966614 GATGAGAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.16, G:0.26, T:0.05
Consensus pattern (19 bp):
AGAGGAACAAAGAAGCAAC
Found at i:22967393 original size:18 final size:18
Alignment explanation
Indices: 22967372--22967411 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22967362 ATTCTGGAAT
*
22967372 TTTTATAAA-TATTTTGA
1 TTTTAAAAATTATTTTGA
22967389 GTTTTAAAAATTATTTTGA
1 -TTTTAAAAATTATTTTGA
22967408 TTTT
1 TTTT
22967412 TTTTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTTAAAAATTATTTTGA
Found at i:22967412 original size:19 final size:18
Alignment explanation
Indices: 22967370--22967412 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
22967360 AAATTCTGGA
*
22967370 ATTTTTATAAATATTTTG
1 ATTTTTAAAAATATTTTG
*
22967388 AGTTTTAAAAATTATTTTG
1 ATTTTTAAAAA-TATTTTG
22967407 ATTTTT
1 ATTTTT
22967413 TTTAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
ATTTTTAAAAATATTTTG
Found at i:22974006 original size:17 final size:17
Alignment explanation
Indices: 22973980--22974013 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22973970 GATTAAAAAT
*
22973980 CAAATCTTCTAAGATTA
1 CAAATATTCTAAGATTA
*
22973997 CAAATATTCTAATATTA
1 CAAATATTCTAAGATTA
22974014 GTTTCCATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (17 bp):
CAAATATTCTAAGATTA
Found at i:22978597 original size:19 final size:19
Alignment explanation
Indices: 22978573--22978615 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
22978563 TAATGAACTT
*
22978573 TTAAACCTATACCGACTAA
1 TTAAACCTATACCAACTAA
22978592 TTAAACCTATACCAACTAA
1 TTAAACCTATACCAACTAA
22978611 TTAAA
1 TTAAA
22978616 TTATGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (19 bp):
TTAAACCTATACCAACTAA
Found at i:22982865 original size:18 final size:17
Alignment explanation
Indices: 22982838--22982871 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
22982828 CTGGACCTTG
22982838 ACCTGCAGGAGGATAGTA
1 ACCTGCAGGAGG-TAGTA
*
22982856 ACCTGGAGGAGGTAGT
1 ACCTGCAGGAGGTAGT
22982872 GGATGCCCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.15, G:0.38, T:0.18
Consensus pattern (17 bp):
ACCTGCAGGAGGTAGTA
Found at i:22983022 original size:15 final size:15
Alignment explanation
Indices: 22983002--22983084 Score: 148
Period size: 15 Copynumber: 5.5 Consensus size: 15
22982992 TGCTGTTGTG
22983002 CAGGTGGATACTGCC
1 CAGGTGGATACTGCC
*
22983017 CAGGTGGATATTGCC
1 CAGGTGGATACTGCC
*
22983032 CAGGTGGATATTGCC
1 CAGGTGGATACTGCC
22983047 CAGGTGGATACTGCC
1 CAGGTGGATACTGCC
22983062 CAGGTGGATACTGCC
1 CAGGTGGATACTGCC
22983077 CAGGTGGA
1 CAGGTGGA
22983085 AGTAGCGGTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 66 1.00
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.22
Consensus pattern (15 bp):
CAGGTGGATACTGCC
Found at i:22983446 original size:11 final size:11
Alignment explanation
Indices: 22983419--22983453 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
22983409 AGACTCTGAA
22983419 AATCAAAACA-
1 AATCAAAACAC
*
22983429 AAACAAAACAC
1 AATCAAAACAC
22983440 AATCAAAACAC
1 AATCAAAACAC
22983451 AAT
1 AAT
22983454 TGATTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.09
Consensus pattern (11 bp):
AATCAAAACAC
Found at i:22984698 original size:8 final size:7
Alignment explanation
Indices: 22984674--22984719 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
22984664 AAAGTATTTT
22984674 AAAATTA
1 AAAATTA
22984681 AAAATTA
1 AAAATTA
22984688 AAAATTA
1 AAAATTA
*
22984695 AAAAATA
1 AAAATTA
22984702 AAAA-TA
1 AAAATTA
*
22984708 AAAATAA
1 AAAATTA
22984715 AAAAT
1 AAAAT
22984720 ATATATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 6 0.17
7 30 0.83
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (7 bp):
AAAATTA
Found at i:22984717 original size:6 final size:6
Alignment explanation
Indices: 22984673--22984717 Score: 54
Period size: 6 Copynumber: 7.0 Consensus size: 6
22984663 AAAAGTATTT
*
22984673 TAAAAT TAAAAA TTAAAAA TTAAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA -TAAAAA -T-AAAAA TAAAAA TAAAAA TAAAAA
22984718 ATATATATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 22 0.61
7 9 0.25
8 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
TAAAAA
Found at i:22986572 original size:21 final size:20
Alignment explanation
Indices: 22986534--22986573 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
22986524 AAGTTTGTGT
22986534 TATTATTTTTATTTATAAAA
1 TATTATTTTTATTTATAAAA
22986554 TATTATATATTTA-TTATAAA
1 TATTAT-T-TTTATTTATAAA
22986574 CTTAGAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTATTTTTATTTATAAAA
Found at i:22987225 original size:78 final size:78
Alignment explanation
Indices: 22987096--22987253 Score: 307
Period size: 78 Copynumber: 2.0 Consensus size: 78
22987086 TAAATTGTAA
*
22987096 AAGTTTAATCGCTATATATTTTTAATTAGGAAATGGCTTGGGGACTTAAATTGTAATTAGTCAAA
1 AAGTTTAATCGCTATATATTTTTAATTAGGAAATGACTTGGGGACTTAAATTGTAATTAGTCAAA
22987161 GCTATAAAATGAT
66 GCTATAAAATGAT
22987174 AAGTTTAATCGCTATATATTTTTAATTAGGAAATGACTTGGGGACTTAAATTGTAATTAGTCAAA
1 AAGTTTAATCGCTATATATTTTTAATTAGGAAATGACTTGGGGACTTAAATTGTAATTAGTCAAA
22987239 GCTATAAAATGAT
66 GCTATAAAATGAT
22987252 AA
1 AA
22987254 TTAGACCCTT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.37
Consensus pattern (78 bp):
AAGTTTAATCGCTATATATTTTTAATTAGGAAATGACTTGGGGACTTAAATTGTAATTAGTCAAA
GCTATAAAATGAT
Found at i:22991148 original size:14 final size:14
Alignment explanation
Indices: 22991129--22991160 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
22991119 ATGTTATCCC
22991129 AATTTTCATGATAG
1 AATTTTCATGATAG
22991143 AATTTTCATGATAG
1 AATTTTCATGATAG
22991157 AATT
1 AATT
22991161 AACTTTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (14 bp):
AATTTTCATGATAG
Found at i:22997796 original size:41 final size:41
Alignment explanation
Indices: 22997746--22997872 Score: 218
Period size: 41 Copynumber: 3.1 Consensus size: 41
22997736 ACCTTTAATA
*
22997746 AAAGTCCTAGTACAATGACTCATACAAACTTTAATAAAAGT
1 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
*
22997787 AAAGACCTAGTACAATGACTCATACAACCTTTAATAAAAGT
1 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
* *
22997828 AAAGTCTTAGTACAATTACTCATACAACCTTTAATAAAAGT
1 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
22997869 AAAG
1 AAAG
22997873 GATAATAATT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 81 1.00
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.27
Consensus pattern (41 bp):
AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
Found at i:23004547 original size:18 final size:17
Alignment explanation
Indices: 23004514--23004557 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
23004504 TATTAAAGCC
* *
23004514 AAAAAAGAAACAGAAAA
1 AAAAAAGCAGCAGAAAA
*
23004531 AAAAGAAGCAGCAGAAAG
1 AAAA-AAGCAGCAGAAAA
23004549 AAAAAAGCA
1 AAAAAAGCA
23004558 AAAGGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.73, C:0.09, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAAGCAGCAGAAAA
Found at i:23008891 original size:41 final size:41
Alignment explanation
Indices: 23008834--23009001 Score: 291
Period size: 41 Copynumber: 4.1 Consensus size: 41
23008824 GATTTTTATC
23008834 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
* *
23008875 CTTTACTTTTATTAAAGGTTGTATAAGTCATTGTACTAAGA
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
*
23008916 CTTTTCTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
* *
23008957 CTTTACTTTTATTAAAGTTTGTATGAGTCGTTGTACTAGGA
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
23008998 CTTT
1 CTTT
23009002 TATTAAAGGT
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 119 1.00
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (41 bp):
CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
Found at i:23020104 original size:41 final size:41
Alignment explanation
Indices: 23020047--23020163 Score: 216
Period size: 41 Copynumber: 2.9 Consensus size: 41
23020037 TTTATCCTTT
23020047 ACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGACTTC
1 ACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGACTTC
* *
23020088 ACTTTTATTAAAGGTTGTATAAGTCATTGTACTAGGACTTT
1 ACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGACTTC
23020129 ACTTTTATTAAAGGTTGTATGAGTCATTGTACTAG
1 ACTTTTATTAAAGGTTGTATGAGTCATTGTACTAG
23020164 TGTCACGGAC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (41 bp):
ACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGACTTC
Found at i:23020293 original size:48 final size:48
Alignment explanation
Indices: 23020221--23020316 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
23020211 TTTCTTTGCT
*
23020221 TAAAAACGCCTAAGTCAGCCTAACTTGCAATGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
*
23020269 TAAAAACGCCTAAGTCAGCTTAACTCGCAATGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
23020317 AATTCCCTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
Found at i:23025418 original size:48 final size:48
Alignment explanation
Indices: 23025346--23025441 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
23025336 TTTCTTTGCT
* * **
23025346 TAAAAATGCCTAAGTCAGCCTAACTTGCAGTGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGGATTCAACAG
*
23025394 TAAAAACGCCTAAGTCAGCTTAACTCGCAACGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGGATTCAACAG
23025442 AATTCCCTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGGATTCAACAG
Found at i:23028396 original size:21 final size:21
Alignment explanation
Indices: 23028372--23028412 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23028362 AGATAAAAAG
23028372 AAATACAAAACCTTAAGGAAC
1 AAATACAAAACCTTAAGGAAC
* * *
23028393 AAATTCGAATCCTTAAGGAA
1 AAATACAAAACCTTAAGGAA
23028413 ACAGGAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (21 bp):
AAATACAAAACCTTAAGGAAC
Found at i:23028729 original size:17 final size:16
Alignment explanation
Indices: 23028707--23028742 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
23028697 AAGACAGGTA
23028707 TCAAAATCGTTTTAGGG
1 TCAAAA-CGTTTTAGGG
*
23028724 TCAAAACTTTTTAGGG
1 TCAAAACGTTTTAGGG
23028740 TCA
1 TCA
23028743 CAAAAAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (16 bp):
TCAAAACGTTTTAGGG
Found at i:23031729 original size:31 final size:31
Alignment explanation
Indices: 23031691--23031763 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
23031681 TAACAAGATG
* * * *
23031691 TGAAACTAGTAGGATGCGAAGCTAGCGGAAT
1 TGAAACTAGCAGAAAGCGAAGCTAACGGAAT
*
23031722 TGAAACTAGCAGAAAGCGAAGCTAACGGGAT
1 TGAAACTAGCAGAAAGCGAAGCTAACGGAAT
*
23031753 TGAAGCTAGCA
1 TGAAACTAGCA
23031764 AGAAGCAAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.16
Consensus pattern (31 bp):
TGAAACTAGCAGAAAGCGAAGCTAACGGAAT
Found at i:23041473 original size:23 final size:23
Alignment explanation
Indices: 23041443--23041487 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
23041433 CTCTAAATCT
23041443 TAAAAAAATAAAAACCCTAACCA
1 TAAAAAAATAAAAACCCTAACCA
*
23041466 TAAAAAAATAAAAGCCCTAACC
1 TAAAAAAATAAAAACCCTAACC
23041488 TTAGAGAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.62, C:0.22, G:0.02, T:0.13
Consensus pattern (23 bp):
TAAAAAAATAAAAACCCTAACCA
Found at i:23041827 original size:19 final size:19
Alignment explanation
Indices: 23041793--23041856 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
23041783 TTCTTAGTAT
*
23041793 TTTTAATATTTTTTTATAAA
1 TTTTAAT-TATTTTTATAAA
*
23041813 TTTTAATTATTTTTATAAT
1 TTTTAATTATTTTTATAAA
* * *
23041832 TTTTATTTATGTTTAGAAA
1 TTTTAATTATTTTTATAAA
23041851 TTTTAA
1 TTTTAA
23041857 AAGTTTTTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 30 0.81
20 7 0.19
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTAATTATTTTTATAAA
Found at i:23042366 original size:28 final size:28
Alignment explanation
Indices: 23042326--23042392 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
23042316 ATTTAGTTGA
*
23042326 TACTTAAAATTTTTTTTGATGTATTTGG
1 TACTTAAATTTTTTTTTGATGTATTTGG
*
23042354 TACTTTAATTTTTTTTTGATGTATTTGG
1 TACTTAAATTTTTTTTTGATGTATTTGG
*
23042382 TACTTGAATTT
1 TACTTAAATTT
23042393 GTATTCCATC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.22, C:0.04, G:0.13, T:0.60
Consensus pattern (28 bp):
TACTTAAATTTTTTTTTGATGTATTTGG
Found at i:23052117 original size:25 final size:25
Alignment explanation
Indices: 23052062--23052122 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
23052052 TTTTAAGTGT
* * *
23052062 TTTCAGTATAGTCTATCTATAATAG
1 TTTCAGTATATTCTACCTATAACAG
* *
23052087 TCTCAGTATATTCTACCTATAGCAG
1 TTTCAGTATATTCTACCTATAACAG
*
23052112 TTTCAGGATAT
1 TTTCAGTATAT
23052123 ACTATCAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (25 bp):
TTTCAGTATATTCTACCTATAACAG
Found at i:23055010 original size:21 final size:21
Alignment explanation
Indices: 23054990--23055028 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23054980 ATTAATTAAT
*
23054990 TAATTTGA-ATTAAATAATAA
1 TAATTTGAGAATAAATAATAA
*
23055010 TATTTTGAGAATAAATAAT
1 TAATTTGAGAATAAATAAT
23055029 TGGTTATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (21 bp):
TAATTTGAGAATAAATAATAA
Found at i:23057366 original size:6 final size:6
Alignment explanation
Indices: 23057355--23057402 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
23057345 GGTTTTCTCC
*
23057355 AAAATG AAAATG AAAATG AAAATG AAAATT AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
23057403 GAGAAATAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.19
Consensus pattern (6 bp):
AAAATG
Found at i:23062439 original size:24 final size:24
Alignment explanation
Indices: 23062391--23062437 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
23062381 ATTGGTCATA
* *
23062391 GAGATATTTGAGGAGGGATATTTG
1 GAGAGATTTGAGGAGGAATATTTG
23062415 GAGAGATTTGAGGAGAGAATATT
1 GAGAGATTTGAGGAG-GAATATT
23062438 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.30
Consensus pattern (24 bp):
GAGAGATTTGAGGAGGAATATTTG
Found at i:23063970 original size:14 final size:14
Alignment explanation
Indices: 23063923--23063973 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
23063913 ACAGTGTGAT
*
23063923 TGAAAAAGAATGAA
1 TGAAAAACAATGAA
23063937 TGAAAAAC-ATGCCATGA
1 TGAAAAACAATG--A--A
23063954 TGAAAAACAATGAA
1 TGAAAAACAATGAA
23063968 TGAAAA
1 TGAAAA
23063974 GGGGAAATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
13 3 0.10
14 14 0.45
15 1 0.03
16 1 0.03
17 9 0.29
18 3 0.10
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.16
Consensus pattern (14 bp):
TGAAAAACAATGAA
Found at i:23067004 original size:44 final size:44
Alignment explanation
Indices: 23066956--23067275 Score: 139
Period size: 44 Copynumber: 7.4 Consensus size: 44
23066946 GTTCCACTAA
*
23066956 AACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGC
1 AACTTCAAGGAGATAAGATTGGTTTCTTCTGTCTGCTCCACTGC
* * * * *
23067000 AACTT-TAGGAAGATAAGACTGG---ATGC-GATCTGCTCTACTGC
1 AACTTCAAGG-AGATAAGATTGGTTTCTTCTG-TCTGCTCCACTGC
* * ** * *
23067041 AACTT-TAGAGAGATAAGATCTGTGGTT-TT-AATCCGCTCCACTGG
1 AACTTCAAG-GAGATAAGAT-TG-GTTTCTTCTGTCTGCTCCACTGC
* * *
23067085 AACTTC-AGGCGGATAAGATTGATTTCTTCTGTCTGATCCACTGC
1 AACTTCAAGG-AGATAAGATTGGTTTCTTCTGTCTGCTCCACTGC
* * * * *
23067129 AACTTCAGGGAGATAAGACTGG---ATGC-GATCTGCTCTACTGC
1 AACTTCAAGGAGATAAGATTGGTTTCTTCTG-TCTGCTCCACTGC
* * ** * * **
23067170 AACTTCAAAGAGATAAGATCTGTGGTT-TT-AATCCGCTCCATTAT
1 AACTTCAAGGAGATAAGAT-TG-GTTTCTTCTGTCTGCTCCACTGC
* * * * * *
23067214 AACTTTAGGGAGATAGGATTGATTTCTTTTGTCTGCTCCATTGC
1 AACTTCAAGGAGATAAGATTGGTTTCTTCTGTCTGCTCCACTGC
*
23067258 AACTTCAGGGAGATAAGA
1 AACTTCAAGGAGATAAGA
23067276 CTGGATGTGA
Statistics
Matches: 202, Mismatches: 51, Indels: 46
0.68 0.17 0.15
Matches are distributed among these distances:
40 2 0.01
41 59 0.29
42 9 0.04
43 14 0.07
44 114 0.56
45 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (44 bp):
AACTTCAAGGAGATAAGATTGGTTTCTTCTGTCTGCTCCACTGC
Found at i:23067056 original size:129 final size:129
Alignment explanation
Indices: 23066881--23067362 Score: 691
Period size: 129 Copynumber: 3.7 Consensus size: 129
23066871 TGCAACTTTA
* * *
23066881 AAGATAAGTCT-GATACGATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATC
1 AAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
* * * *
23066945 CGTTCCACTAAAACTTCAAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTAGG
66 CGCTCCACTATAACTTCAAGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGG
*
23067009 AAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATC
1 AAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
** * * *
23067074 CGCTCCACTGGAACTTC-AGGCGGATAAGATTGATTTCTTCTGTCTGATCCACTGCAACTTCAGG
66 CGCTCCACTATAACTTCAAGG-AGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGG
* *
23067138 GAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGGTTTTAATC
1 AAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
* * * * *
23067203 CGCTCCATTATAACTTTAGGGAGATAGGATTGATTTCTTTTGTCTGCTCCATTGCAACTTCAGG
66 CGCTCCACTATAACTTCAAGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGG
* * *
23067267 GAGATAAGACTGGATGTGATCTGCCCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
1 AAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
* * *
23067332 CGTTCCACTGTAACTT-TAGAGAGATAGGATT
66 CGCTCCACTATAACTTCAAG-GAGATAGGATT
23067363 TGTGGTTTCA
Statistics
Matches: 317, Mismatches: 33, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
128 14 0.04
129 301 0.95
130 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (129 bp):
AAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATC
CGCTCCACTATAACTTCAAGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGG
Found at i:23079634 original size:15 final size:14
Alignment explanation
Indices: 23079614--23079671 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
23079604 TATTAATTTA
23079614 ATATAAGTAATACAT
1 ATATAA-TAATACAT
*
23079629 ATATAATAAAAACAT
1 ATATAAT-AATACAT
23079644 AATAGTAATAATACAT
1 -ATA-TAATAATACAT
23079660 ATTATAA-AATAC
1 A-TATAATAATAC
23079672 CAAAACAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 6 0.16
15 16 0.43
16 11 0.30
17 4 0.11
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (14 bp):
ATATAATAATACAT
Found at i:23079878 original size:15 final size:16
Alignment explanation
Indices: 23079858--23079890 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
23079848 AAATAATACT
23079858 AATGATG-AAATTTAA
1 AATGATGTAAATTTAA
23079873 AATGATGTTAAATTTAA
1 AATGATG-TAAATTTAA
23079890 A
1 A
23079891 TATTAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (16 bp):
AATGATGTAAATTTAA
Found at i:23081266 original size:27 final size:26
Alignment explanation
Indices: 23081213--23081291 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
23081203 GTATTATAGC
* **
23081213 CCCCATAGGATAAAATGACCGAAATA
1 CCCCATAGGATAAAATGACTGTTATA
23081239 CCCCAATAGGATAAAATGACTGTTATA
1 CCCC-ATAGGATAAAATGACTGTTATA
*
23081266 CCCC-TAGGAGATGAAATGACTGTTAT
1 CCCCATA-G-GATAAAATGACTGTTAT
23081292 GGCCATAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 2 0.04
26 5 0.11
27 39 0.85
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (26 bp):
CCCCATAGGATAAAATGACTGTTATA
Found at i:23083142 original size:23 final size:22
Alignment explanation
Indices: 23083111--23083155 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
23083101 ATAAAAGAAA
*
23083111 GAAATTAATAAATAAAATAAAAC
1 GAAAGTAATAAA-AAAATAAAAC
*
23083134 GAAAGTAATAAAAAAATGAAAC
1 GAAAGTAATAAAAAAATAAAAC
23083156 AAAATTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.69, C:0.04, G:0.09, T:0.18
Consensus pattern (22 bp):
GAAAGTAATAAAAAAATAAAAC
Found at i:23083150 original size:27 final size:26
Alignment explanation
Indices: 23083101--23083159 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
23083091 GAAATGTTAT
* *
23083101 ATAAAAGAAAGAAATTAATAAATAAA
1 ATAAAAGAAAGAAATAAAAAAATAAA
* *
23083127 ATAAAACGAAAGTAATAAAAAAATGAA
1 ATAAAA-GAAAGAAATAAAAAAATAAA
*
23083154 ACAAAA
1 ATAAAA
23083160 TTTAGAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.15
Consensus pattern (26 bp):
ATAAAAGAAAGAAATAAAAAAATAAA
Found at i:23091314 original size:33 final size:32
Alignment explanation
Indices: 23091277--23091393 Score: 98
Period size: 33 Copynumber: 3.6 Consensus size: 32
23091267 TAGTAAGGTG
23091277 AAAAATAAAAATAAAATAAAACATATAAATCTA
1 AAAAATAAAAATAAAATAAAACATA-AAATCTA
* **
23091310 AAAAAT-AAAATAAAAACAAATAACA-AGAAAAAT-
1 AAAAATAAAAAT-AAAA-TAA-AACATA-AAATCTA
23091343 AAAAATAAAAAT-AAATAAAACATAAAATCTA
1 AAAAATAAAAATAAAATAAAACATAAAATCTA
* * *
23091374 AATAATTCAAAAGAAAATAA
1 AA-AAATAAAAATAAAATAA
23091394 CAAAAAATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
30 8 0.12
31 5 0.08
32 15 0.23
33 22 0.33
34 12 0.18
35 4 0.06
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.18
Consensus pattern (32 bp):
AAAAATAAAAATAAAATAAAACATAAAATCTA
Found at i:23091334 original size:7 final size:6
Alignment explanation
Indices: 23091277--23091369 Score: 63
Period size: 6 Copynumber: 15.7 Consensus size: 6
23091267 TAGTAAGGTG
*
23091277 AAAAAT AAAAAT -AAAAT AAAACAT ATAAATCT AAAAA- ATAAAAT -AAAA-
1 AAAAAT AAAAAT AAAAAT AAAA-AT A-AAA-AT AAAAAT A-AAAAT AAAAAT
* * *
23091325 ACAAAT AACAAG AAAAAT AAAAAT AAAAAT --AAAT AAAACAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA-AT AAAA
23091370 TCTAAATAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
4 4 0.06
5 13 0.19
6 34 0.50
7 12 0.18
8 5 0.07
ACGTcount: A:0.77, C:0.05, G:0.01, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:23091340 original size:27 final size:27
Alignment explanation
Indices: 23091283--23091360 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 27
23091273 GGTGAAAAAT
* *
23091283 AAAAATAAAAT-AAAACATATAAATCTA
1 AAAAATAAAATAAAAACAAAT-AATCAA
23091310 AAAAATAAAATAAAAACAAATAA-CAA
1 AAAAATAAAATAAAAACAAATAATCAA
*
23091336 GAAAAATAAAAATAAAAATAAATAA
1 -AAAAAT-AAAATAAAAACAAATAA
23091361 AACATAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
26 2 0.04
27 19 0.42
28 24 0.53
ACGTcount: A:0.77, C:0.05, G:0.01, T:0.17
Consensus pattern (27 bp):
AAAAATAAAATAAAAACAAATAATCAA
Found at i:23091369 original size:28 final size:28
Alignment explanation
Indices: 23091278--23091370 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 28
23091268 AGTAAGGTGA
23091278 AAAATAAAAATAAAATAAAACATATAAATC-T
1 AAAATAAAAATAAAA-AAAA-ATA-AAA-CAT
* * *
23091309 AAAAAATAAAATAAAAACAAATAACAAGA-
1 AAAATA-AAAATAAAAAAAAATAA-AACAT
*
23091338 AAAATAAAAATAAAAATAAATAAAACAT
1 AAAATAAAAATAAAAAAAAATAAAACAT
23091366 AAAAT
1 AAAAT
23091371 CTAAATAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
27 3 0.06
28 21 0.40
29 6 0.12
30 5 0.10
31 8 0.15
32 9 0.17
ACGTcount: A:0.76, C:0.05, G:0.01, T:0.17
Consensus pattern (28 bp):
AAAATAAAAATAAAAAAAAATAAAACAT
Found at i:23091376 original size:22 final size:22
Alignment explanation
Indices: 23091285--23091378 Score: 72
Period size: 22 Copynumber: 4.3 Consensus size: 22
23091275 TGAAAAATAA
23091285 AAATAAAATAAAACATATAAATCT
1 AAAT-AAATAAAACATA-AAATCT
*
23091309 AAA-AAAT-AAA-ATAAAAAC-
1 AAATAAATAAAACATAAAATCT
* **
23091327 AAATAACA-AGAAAAATAAAAATAA
1 AAATAA-ATA-AAACAT-AAAATCT
23091351 AAATAAATAAAACATAAAATCT
1 AAATAAATAAAACATAAAATCT
23091373 AAATAA
1 AAATAA
23091379 TTCAAAAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
18 3 0.05
19 6 0.11
20 4 0.07
21 6 0.11
22 17 0.30
23 10 0.18
24 10 0.18
ACGTcount: A:0.74, C:0.06, G:0.01, T:0.18
Consensus pattern (22 bp):
AAATAAATAAAACATAAAATCT
Found at i:23097135 original size:624 final size:624
Alignment explanation
Indices: 23096102--23099775 Score: 6179
Period size: 624 Copynumber: 5.9 Consensus size: 624
23096092 TTTAATGTTT
* *
23096102 AAATAATTAATTAAGTAAAAATAACTAAATTGAAAAATGTGCAAAAATAGATTTCTATTAGGTAA
1 AAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAA
* *
23096167 A-GGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCGCCAAATGAACTT
66 AGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGCTAAATGCACCAAATGAACTT
*
23096231 AGAGTGGAAGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATT
131 AGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATT
*
23096296 TGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGCTATCATCTCCTCTAATTTGCTA
196 TGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTGCTA
* * *
23096361 TTTTGCAAATCGAATAACAGAGAGGAACAAGCTTTCGGTCATGGAGTTTTTAGATGCATGATCAA
261 TTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGGAGTTTTTACATGCATGATCAA
*
23096426 GAAACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGACTGCTTCATT
326 GAAACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTCATT
*
23096491 TTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGTTTGTTTCCATATGATT
391 TTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGTTTGTTTCCTTATGATT
23096556 ATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTAT
456 ATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTAT
* ** *
23096621 TAAATGTTGGAATTAAGTACAAATGGAAAATGAATACTTCATCGTGGAAAATCTTGTGGTTTCAC
521 TAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTTCAC
* *
23096686 AATTCTGAAATGAATGTAACAGATTTATATTATGTGTAC
586 AATTTTGAAATGAATGTAACAGATTTATATTATTTGTAC
* * *
23096725 AGATAATTAATTAAGTAAAAATCACTTAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGCAA
1 AAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAA
* *
23096790 AGGCGTCAATTTATTATGGATTATCAAAGTAATGGACTTAAATGCTAAATGCACCAAATGAACTT
66 AGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGCTAAATGCACCAAATGAACTT
23096855 AGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATT
131 AGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATT
* *
23096920 TGTATTTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCTTCTAATTTGCTA
196 TGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTGCTA
*
23096985 TTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTACATGCATGATCAA
261 TTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGGAGTTTTTACATGCATGATCAA
* *
23097050 GAAACGAACCAAGCGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTCCTT
326 GAAACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTCATT
*
23097115 TTTACAACTATATTTGTCGAGGCT-AGTTTGTAGTATATAATATATATGTTTGTTTCCATATGAT
391 TTTACAACTATATTTGTCGAGG-TAAGTTTGTAGTATATAATATATATGTTTGTTTCCTTATGAT
* ** * *
23097179 TATGTATATCAATTGTTAGTTAAATTATAATTAATCTGAATTTTTCATTGTTTTCTTGTAAATTT
455 TATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTA
* *
23097244 TTATATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAACTCTTGTGGTTTCA
520 TTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTTCA
**
23097309 CAATTTTGAAATGAATGTAACAGATTTATATTAGGTGTAC
585 CAATTTTGAAATGAATGTAACAGATTTATATTATTTGTAC
* *
23097349 AGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAATTAGATTTCTATTAGGTAA
1 AAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAA
* * *
23097414 AGGGGTCAATTTATTATGGATTATCAAAGTAATGGACTAAAATGGTAAATGCACCAAATGAACTT
66 AGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGCTAAATGCACCAAATGAACTT
*
23097479 AGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTTTAAATT
131 AGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATT
*
23097544 TGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTGGTA
196 TGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTGCTA
* * *
23097609 TTTCGTAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTACATGCATGATCAA
261 TTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGGAGTTTTTACATGCATGATCAA
* * * *
23097674 GAAACGAACCAACCGGATCTAAATCGAGGAAAAGCTAATGTGTAAGATTAGTCAGCTGCTTCATT
326 GAAACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTCATT
* *
23097739 TTTACAACTATATTTGTCGAGGTAAGTTTGTATTATATAATATATATATTTGTTTCCTTATGATT
391 TTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGTTTGTTTCCTTATGATT
*
23097804 ATGTATTTCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTAT
456 ATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTAT
*
23097869 TAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCATGGCAAATCTTGTGGTTTCAC
521 TAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTTCAC
* *
23097934 AATTTTGAAATGAATGTAACAAATTTATATTATTTGTGC
586 AATTTTGAAATGAATGTAACAGATTTATATTATTTGTAC
* * *
23097973 AAATAATTAATTAAGTAAAAATAACTAAAATGAAAAATGTGCAAAAATAGATTTCTATTAGGTAA
1 AAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAA
* * *
23098038 AAGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGGTAAATGCGCCAAATGAACTT
66 AGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGCTAAATGCACCAAATGAACTT
* * *
23098103 AGAGTGGATGGTTTTGGGTGATTAAACGCATGAAATTTGAATTTTTAAGGGAAAAATTTTAAATT
131 AGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATT
* * * * * *
23098168 TGTAATTAAAAGAAAATTAAAA-AAACAAAAAGACAAAAATGTTATCATCTCCTTTAATTTTCTG
196 TGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTGCTA
* *
23098232 TTTTGCAAACCGATTAACAGAGAGGAACAAGCTTTCGGTCATGGAGTTTTTACATGCATGATCAA
261 TTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGGAGTTTTTACATGCATGATCAA
23098297 GAAACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTCATT
326 GAAACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTCATT
* *
23098362 TTTACAACTATATTTGTCGAGGTAAGTTTGTATTATATAATATATAAGTTTGTTTCCTTATGATT
391 TTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGTTTGTTTCCTTATGATT
*
23098427 ATGTATTTCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTAT
456 ATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTAT
*
23098492 TAAATGTTGGAATTAAGTACAAATGGACAATGAATATTTGGTCGTGGCAAATCTTGTGGTTTCAC
521 TAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTTCAC
*
23098557 AATTTTGAAATGAATGTAACAAATTTATATTATTTGTAC
586 AATTTTGAAATGAATGTAACAGATTTATATTATTTGTAC
* *
23098596 AAAGAATTAATTAAGTAAAAATCACTAAATTGAAAAATGTGCAAAAATAGATTTCTATTAGGTAA
1 AAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAA
23098661 AGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGCTAAATGCACCAAATGAACTT
66 AGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGCTAAATGCACCAAATGAACTT
* * *
23098726 AGAGTGGATGGTTTTGGGTGA-TAAGTGCATGAAATTTGATTTTTTATGGGAAAAATTGTAAACT
131 AGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATT
*
23098790 TGTAATTAAATGGAAATTCAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTGCTA
196 TGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTGCTA
* *
23098855 TTTTGCAAACCGAATAACAGAGAGGAAGAAGCATTCGGTCATGTAGTTTTTACATGCATGATCAA
261 TTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGGAGTTTTTACATGCATGATCAA
* * * *
23098920 CAAACGAACCAAACGGATCTAAACTGAGGAAAAGCTAATGTGTGAGATTAGTCGACTGCTTCATT
326 GAAACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTCATT
* * *
23098985 ATTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATAAATATATTTGTTTCCTTATGATT
391 TTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGTTTGTTTCCTTATGATT
* * *
23099050 ATGTATATCAATTGTTAGTTAAATTAAAATTAATATGAAAATTTCATTGTTTGCTTGTTAATTAT
456 ATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTAT
* * * * ** * *
23099115 TAAATGTTGGAATTAAGTACAAATGGAAAATAAATATTCGGCCGTGGTAAAT-TCCTGGCTTCAA
521 TAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTTCAC
23099179 AATTTTGAAATGAATGTAACAGATTTATATTATTTGTAC
586 AATTTTGAAATGAATGTAACAGATTTATATTATTTGTAC
*
23099218 AAAGAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAA
1 AAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAA
* * *
23099283 AGGGGTCAGTTTATTATGGATTATCAAACTAATGGACATAAACGCTAAATGCACCAAATGAACTT
66 AGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGCTAAATGCACCAAATGAACTT
23099348 AGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATT
131 AGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATT
* *
23099413 TGTAATTAAATGGAAACTAAAACAAACTAAAAGACAAAAATGTTAGCATCTCCTCTAATTTGCTA
196 TGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTGCTA
* * *
23099478 TTTCGTAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGGAGTTTTTTCATGCATGATCAA
261 TTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGGAGTTTTTACATGCATGATCAA
* * * *
23099543 GAAACAAACCAACCGGATCTAAACCGAGGAAAAGATAATGTGTCAGATTAGTCGGCTACTTCATT
326 GAAACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTCATT
*
23099608 TTTACAACTATATTTGTCGAGGTAAGTTTGTATTATATAATATATATGTTTGTTTCCTTATGATT
391 TTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGTTTGTTTCCTTATGATT
* *
23099673 ATGTGTATCAATTGTTTGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTAT
456 ATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTAT
* * * *
23099738 TACATGTTGGAATTAAATACGAATGGAAAGTGAATATT
521 TAAATGTTGGAATTAAGTACAAATGGAAAATGAATATT
23099776 ATGTGTACAG
Statistics
Matches: 2865, Mismatches: 181, Indels: 10
0.94 0.06 0.00
Matches are distributed among these distances:
622 249 0.09
623 1295 0.45
624 1320 0.46
625 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (624 bp):
AAATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGATTTCTATTAGGTAA
AGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGCTAAATGCACCAAATGAACTT
AGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGAAAAATTGTAAATT
TGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTCCTCTAATTTGCTA
TTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTTCGGTCATGGAGTTTTTACATGCATGATCAA
GAAACGAACCAAACGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGTCGGCTGCTTCATT
TTTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATATATATGTTTGTTTCCTTATGATT
ATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTTGCTTGTAAATTAT
TAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAATCTTGTGGTTTCAC
AATTTTGAAATGAATGTAACAGATTTATATTATTTGTAC
Found at i:23105203 original size:566 final size:566
Alignment explanation
Indices: 23104128--23105264 Score: 1952
Period size: 566 Copynumber: 2.0 Consensus size: 566
23104118 TAACAGATTT
23104128 ATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGAT
1 ATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGAT
* *
23104193 TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAAGTAATGGACTTAAATGGTAAATGC
66 TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGCTAAATGC
23104258 ACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
131 ACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
*
23104323 AAAATTGTAAATTTGTAATTAAATGGAAACTAAAACAAACTAAAAGACAAAAATGTTAGCATCTC
196 AAAATTGTAAACTTGTAATTAAATGGAAACTAAAACAAACTAAAAGACAAAAATGTTAGCATCTC
* *
23104388 CTCTAATTTGCTATTTCGTAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTT
261 CTCTAATTTGCTATTTCGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTA
* *
23104453 CATGCATGATCAAGAAACAAACCAACCGGATCTAAACCGAGGAAAAGATAATGTGTCAGATTAGT
326 CATGCATGATCAACAAACAAACCAAACGGATCTAAACCGAGGAAAAGATAATGTGTCAGATTAGT
* * * *
23104518 CGGCTACTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTATTATATAATATATATGTTTG
391 CGACTACTTCATTATTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATAAATATGTTTG
* * * *
23104583 TTTCCTTATGATTATGTGTATCAATTGTTTGTTAAATTATAATTAATGTGAAAATTTCATTGTTT
456 TTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTAAAATTAATATGAAAATTTCATTGTTT
* * * *
23104648 GCTTGTAAATTATTACATGTTGGAATTAAATACGAATGGAAAGTGA
521 GCTTGTAAATTATTAAATGTTGGAATTAAATACAAATGGAAAATAA
* *
23104694 ATATTATGTGTACAGATAATTAATTAAGTAAAAATTACTAAATTGAAAAAGGTGCAAAATTAGAT
1 ATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGAT
23104759 TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGCTAAATGC
66 TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGCTAAATGC
*
23104824 ACCAAATGAACTTAGAGTGTATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
131 ACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
* *
23104889 AAAATTGTAAACTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTC
196 AAAATTGTAAACTTGTAATTAAATGGAAACTAAAACAAACTAAAAGACAAAAATGTTAGCATCTC
* *
23104954 CTCTAATTTGCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCATT-CGGTCATGTAGTTTTT
261 CTCTAATTTGCTATTTCGCAAACCGAATAACAGAGAGGAAGAAGC-TTCCGGTCATGGAGTTTTT
* * * * *
23105018 ACATGCATGATCAACAAACGAACCAAACTGATCTAAACTGAGGAAAAGCTAATGTGTGAGATTAG
325 ACATGCATGATCAACAAACAAACCAAACGGATCTAAACCGAGGAAAAGATAATGTGTCAGATTAG
*
23105083 TCGACTGCTTCATTATTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATAAATATGTTT
390 TCGACTACTTCATTATTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATAAATATGTTT
23105148 GTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTAAAATTAATATGAAAATTTCATTGTT
455 GTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTAAAATTAATATGAAAATTTCATTGTT
* *
23105213 TGCTTGTTAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATAA
520 TGCTTGTAAATTATTAAATGTTGGAATTAAATACAAATGGAAAATAA
23105260 ATATT
1 ATATT
23105265 CGGCCGTGGT
Statistics
Matches: 536, Mismatches: 34, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
566 534 1.00
567 2 0.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (566 bp):
ATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGAT
TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGCTAAATGC
ACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
AAAATTGTAAACTTGTAATTAAATGGAAACTAAAACAAACTAAAAGACAAAAATGTTAGCATCTC
CTCTAATTTGCTATTTCGCAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTA
CATGCATGATCAACAAACAAACCAAACGGATCTAAACCGAGGAAAAGATAATGTGTCAGATTAGT
CGACTACTTCATTATTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATAAATATGTTTG
TTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTAAAATTAATATGAAAATTTCATTGTTT
GCTTGTAAATTATTAAATGTTGGAATTAAATACAAATGGAAAATAA
Found at i:23105880 original size:623 final size:624
Alignment explanation
Indices: 23104694--23108169 Score: 4961
Period size: 623 Copynumber: 5.5 Consensus size: 624
23104684 TGGAAAGTGA
23104694 ATATTATGTGTACAGATAATTAATTAAGTAAAAATTACTAAATTGAAAAAGGTGCAAAATTAGAT
1 ATATTATGTGTACAGATAATTAATTAAGTAAAAATTACTAAATTGAAAAAGGTGCAAAATTAGAT
* *
23104759 TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAACTAATGGACTTAAATGCTAAATGC
66 TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAAGTAATGGACTTAAATGGTAAATGC
*
23104824 ACCAAATGAACTTAGAGTGTATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
131 ACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
*
23104889 AAAATTGTAAACTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTC
196 AAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTC
* *
23104954 CTCTAATTTGCTATTTTGCAAACCGAATAACAGAGAGGAAGAAGCATT-CGGTCATGTAGTTTTT
261 CTCTAATTTGCTATTTTGTAAACCGAATAACAGAGAGGAAGAAGC-TTCCGGTCATGGAGTTTTT
* * * *
23105018 ACATGCATGATCAACAAACGAACCAAACTGATCTAAACTGAGGAAAAGCTAATGTGTGAGATTAG
325 ACATGCATGATCAACAAACGAACCAACCAGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAG
* * * *
23105083 TCGACTGCTTCATTATTACAACTATATTTGTCGAGGTAAGTTTGTAGTATATAATAAATATGTTT
390 TCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTATTATATAATATATATGTTT
* * *
23105148 GTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTAAAATTAATATGAAAATTTCATTGTT
455 GTTTCCTTATGATTATGTATTTCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTT
* * * * *
23105213 TGCTTGTTAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATAAATATTCGGCCGTGGTAAA
520 TGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAA
**
23105278 T-TCCTGGCTTCACAATTTTGAAATGAATGTAACAGATTT
585 TCTTGTGGCTTCACAATTTTGAAATGAATGTAACAGATTT
* *
23105317 ATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCCCAAA-TAGA
1 ATATTATGTGTACAGATAATTAATTAAGTAAAAATTACTAAATTGAAAAAGGTG-CAAAATTAGA
* * * * *
23105381 TTTCTATTAGGTAAAGGGGTCAGTTTATTATGGATTATCAAACTAATGGACGTAAACGCTAAATG
65 TTTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAAGTAATGGACTTAAATGGTAAATG
*
23105446 CACCAAACGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGG
130 CACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGG
*
23105511 AAAAATTGTAAATTTGTAATTAAATGGAAATTAATACAAACTAAAAGACAAAAATGTTATCATCT
195 AAAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCT
* *
23105576 CCTCTAATTTGCTATTTTGGAAACCGAATAACAGAGAGGAAGAAGCTTCCAGTCATGGAGTTTTT
260 CCTCTAATTTGCTATTTTGTAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTT
* * *
23105641 ACATGCATGATCAAGAAAAGAACCAACCGGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAG
325 ACATGCATGATCAACAAACGAACCAACCAGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAG
*
23105706 TCGGCTGCTTCATTTTTACAACTATATTTGTTGAGGTAAGTTTGTATTATATAATATATATGTTT
390 TCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTATTATATAATATATATGTTT
*
23105771 GTTTCCTTATGATTATGTATATCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTT
455 GTTTCCTTATGATTATGTATTTCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTT
* *
23105836 TGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCGAC
520 TGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAA
*
23105901 TCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTT
585 TCTTGTGGCTTCACAATTTTGAAATGAATGTAACAGATTT
* *
23105941 ATATTATGTGTACAGATAATTAATTAAGTAAAAATCACTAAATTGAAAAAGGTGCAAAAATAGAT
1 ATATTATGTGTACAGATAATTAATTAAGTAAAAATTACTAAATTGAAAAAGGTGCAAAATTAGAT
*
23106006 TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAAGTAATGGACTTAAATGGTAAATAC
66 TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAAGTAATGGACTTAAATGGTAAATGC
*
23106071 ACCAAATGAACATAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
131 ACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
* * *
23106136 AAAATTGTAAATTTGTAATTCAATGGAAATTAAAACAAACTAAACGACAAAAATGTTACCATCTC
196 AAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTC
* *
23106201 CTCTAATTTTG-TATTTTGCAAACCGAATAACAGAGAGGAAGAAGCTTCCAGTCATGGAGTTTTT
261 CTCTAA-TTTGCTATTTTGTAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTT
*
23106265 ACATGCATGATCAACAAACGAACCAAACAGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAG
325 ACATGCATGATCAACAAACGAACCAACCAGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAG
*
23106330 TCGACTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTATTATATAATATATATGTTT
390 TCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTATTATATAATATATATGTTT
* *
23106395 GTTTCCTTATGATTATGTATTTCAGTTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTCTT
455 GTTTCCTTATGATTATGTATTTCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTT
*
23106460 TGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGTAAA
520 TGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAA
* *
23106525 GCTTGTGGTTTCACAATTTTGAAATGAATGTAACAGATTT
585 TCTTGTGGCTTCACAATTTTGAAATGAATGTAACAGATTT
23106565 ATATTATGTGTACAGATAATTAATTAAGTAAAAATTACTAAATTGAAAAAGGTGCAAAATTAGAT
1 ATATTATGTGTACAGATAATTAATTAAGTAAAAATTACTAAATTGAAAAAGGTGCAAAATTAGAT
* *
23106630 TTCTATTAGGTAAAGGGGGCAATTTATTATCGATTATCAAAGTAATGGACTTAAATGGTAAATGC
66 TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAAGTAATGGACTTAAATGGTAAATGC
*
23106695 ACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATACATGAAATTTGATTTTTTAAGGGA
131 ACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
*
23106760 AAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGAAAAAAAAT-TTATCATCT
196 AAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAG-ACAAAAATGTTATCATCT
*
23106824 CCTCTAATTTGCTATTTTGTAAACGGAATAACAGAGAGG-AGAAGCTTCCGGTCATGGAGTTTTT
260 CCTCTAATTTGCTATTTTGTAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTT
* * *
23106888 ACATGCATGATCAAGAAACGAACCAACCGGATCTAAACCGAGGAAAAGCTAATATGTCAGATTAG
325 ACATGCATGATCAACAAACGAACCAACCAGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAG
*
23106953 TCGGCTGCTTCATTTTTACAGCTATATTTGTCGAGGTAAGTTTGTATTATATAATATATATGTTT
390 TCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTATTATATAATATATATGTTT
23107018 GTTTCCTTATGATTATGTATTTCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTT
455 GTTTCCTTATGATTATGTATTTCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTT
23107083 TGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAA
520 TGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAA
23107148 TCTTGTGGCTTCACAATTTTGAAATGAATGTAACAGATTT
585 TCTTGTGGCTTCACAATTTTGAAATGAATGTAACAGATTT
* *
23107188 ATATTATGTGCACAAATAATTAATTAAGTAAAAATTACTAAATTGAAAAAGGTGCAAAATTAGAT
1 ATATTATGTGTACAGATAATTAATTAAGTAAAAATTACTAAATTGAAAAAGGTGCAAAATTAGAT
*
23107253 TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAAATAATGGACTTAAATGNNNNNNNN
66 TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAAGTAATGGACTTAAATG--------
************************************************************
23107318 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
123 -----GTAAATGCACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTG
*************************** * ** *
23107383 NNNNNNNNNNNNNNNNNNNNNNNNNNNGTAATTAAATGGGAGATT-AAACACTCTAAAAACACAA
183 ATTTTTTAAGGGAAAAATTGTAAATTTGTAATTAAAT-GGAAATTAAAACAAACT-AAAAGACAA
**
23107447 AAAAATTATCATCTCCTCTAATTTGCTATTTTGTAAACCGAATAACAGAGAGGAAGAAGCTTCCG
246 AAATGTTATCATCTCCTCTAATTTGCTATTTTGTAAACCGAATAACAGAGAGGAAGAAGCTTCCG
* * * * * * * *
23107512 CTCATGGACTTCTTACATGCACGATCAACAAACGAGCC-ACACAGATATAAGCCGCGGAAAAGCT
311 GTCATGGAGTTTTTACATGCATGATCAACAAACGAACCAAC-CAGATCTAAACCGAGGAAAAGCT
* * * * *
23107576 AATCTGTCTGATTAGTCGGTTGCTTCACTTTTACACCTATATTTGTCGAGGTAAGTTTGTATTAT
375 AATGTGTCAGATTAGTCGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTATTAT
*
23107641 ATAATATATATATGTTTGTTTCCTTATGATTATCTATTTCAATTGTTAGTTAAATTATAATTAAT
440 AT-A-ATATATATGTTTGTTTCCTTATGATTATGTATTTCAATTGTTAGTTAAATTATAATTAAT
* *
23107706 GTGAAAATTTCATTGTTTGCTTGTTAATTATTAAATGTTGGAATTAAGTACAAATGGAAACTGAA
503 GTGAAAATTTCATTGTTTGCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAA
*
23107771 TATTTGGTCGTGGCAAATCTTGTGGCTTCACAATTTTGAAATGAATGTAACAAATTT
568 TATTTGGTCGTGGCAAATCTTGTGGCTTCACAATTTTGAAATGAATGTAACAGATTT
* * *
23107828 ATATTATGTGCACAGATAATTAATTAATTAAAAATTACTAAATTGAAAAAGGTGCAAAAATAGAT
1 ATATTATGTGTACAGATAATTAATTAAGTAAAAATTACTAAATTGAAAAAGGTGCAAAATTAGAT
23107893 TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAAGTAATGGACTTAAATGGTAAATGC
66 TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAAGTAATGGACTTAAATGGTAAATGC
* **
23107958 ACCAAATCAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAAGTTTTTTTTTTTTAAGG
131 ACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAA--TTTGATTTTTTAAGG
*
23108023 GAAAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCGTC
194 GAAAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATC
* * *
23108088 CCCTCTAATTTGCTATTTTGTTAACCGAATAACAGAGACGAAGAAGCTTCCGGTCATGGAGTTTT
259 TCCTCTAATTTGCTATTTTGTAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTT
23108153 TACATGCATGATCAACA
324 TACATGCATGATCAACA
23108170 NNNNNNNNNN
Statistics
Matches: 2513, Mismatches: 310, Indels: 55
0.87 0.11 0.02
Matches are distributed among these distances:
622 2 0.00
623 983 0.39
624 898 0.36
625 11 0.00
628 99 0.04
629 17 0.01
636 23 0.01
637 59 0.02
638 124 0.05
639 1 0.00
640 296 0.12
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.34
Consensus pattern (624 bp):
ATATTATGTGTACAGATAATTAATTAAGTAAAAATTACTAAATTGAAAAAGGTGCAAAATTAGAT
TTCTATTAGGTAAAGGGGTCAATTTATTATGGATTATCAAAGTAATGGACTTAAATGGTAAATGC
ACCAAATGAACTTAGAGTGGATGGTTTTGGGTGATTAAATGCATGAAATTTGATTTTTTAAGGGA
AAAATTGTAAATTTGTAATTAAATGGAAATTAAAACAAACTAAAAGACAAAAATGTTATCATCTC
CTCTAATTTGCTATTTTGTAAACCGAATAACAGAGAGGAAGAAGCTTCCGGTCATGGAGTTTTTA
CATGCATGATCAACAAACGAACCAACCAGATCTAAACCGAGGAAAAGCTAATGTGTCAGATTAGT
CGGCTGCTTCATTTTTACAACTATATTTGTCGAGGTAAGTTTGTATTATATAATATATATGTTTG
TTTCCTTATGATTATGTATTTCAATTGTTAGTTAAATTATAATTAATGTGAAAATTTCATTGTTT
GCTTGTAAATTATTAAATGTTGGAATTAAGTACAAATGGAAAATGAATATTTGGTCGTGGCAAAT
CTTGTGGCTTCACAATTTTGAAATGAATGTAACAGATTT
Found at i:23126048 original size:12 final size:12
Alignment explanation
Indices: 23126031--23126055 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23126021 ATCTAAAGCT
23126031 TTCACACAATAA
1 TTCACACAATAA
23126043 TTCACACAATAA
1 TTCACACAATAA
23126055 T
1 T
23126056 ACAATCAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (12 bp):
TTCACACAATAA
Found at i:23127017 original size:20 final size:21
Alignment explanation
Indices: 23126992--23127049 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 21
23126982 TATAGGATCA
23126992 CACTTTGGTGCCTCTG-TTTG
1 CACTTTGGTGCCTCTGATTTG
*
23127012 CACTTTAGTGCCTCTGTATTTG
1 CACTTTGGTGCCTCTG-ATTTG
**
23127034 CACTACGGTGCCTCTG
1 CACTTTGGTGCCTCTG
23127050 CTAGCATTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 15 0.47
22 17 0.53
ACGTcount: A:0.10, C:0.28, G:0.22, T:0.40
Consensus pattern (21 bp):
CACTTTGGTGCCTCTGATTTG
Found at i:23141006 original size:27 final size:27
Alignment explanation
Indices: 23140967--23141216 Score: 329
Period size: 27 Copynumber: 9.3 Consensus size: 27
23140957 AGAGGTCAAT
**
23140967 AAATGACCGAAATACCTTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** ** *
23140994 AAATTACTAAAATACCTTCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
23141021 AAATAACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
23141048 GAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
23141075 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * **
23141102 GAATGACCAAAATACCCCCATAATGTA
1 AAATGACCGAAATACCCCCATAGGGTA
**
23141129 AAATGATTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
23141156 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
23141183 GAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
23141210 AAATGAC
1 AAATGAC
23141217 TGTTATACCC
Statistics
Matches: 194, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 194 1.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:23192364 original size:15 final size:15
Alignment explanation
Indices: 23192344--23192400 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
23192334 TTGGCCAAAA
23192344 ACCGCTGGTTCTGCT
1 ACCGCTGGTTCTGCT
*
23192359 ACCGCTGGTTTTGCT
1 ACCGCTGGTTCTGCT
*
23192374 ATCGCTGGTT-TAGCT
1 ACCGCTGGTTCT-GCT
23192389 ACCGCTGGTTCT
1 ACCGCTGGTTCT
23192401 TCTAATGACC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.09, C:0.28, G:0.26, T:0.37
Consensus pattern (15 bp):
ACCGCTGGTTCTGCT
Found at i:23263456 original size:16 final size:17
Alignment explanation
Indices: 23263424--23263469 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
23263414 CATCCCTTGG
23263424 GGTTAGTTCATTCTCTT
1 GGTTAGTTCATTCTCTT
*
23263441 GGTTAGTTGA-TCTCTT
1 GGTTAGTTCATTCTCTT
* *
23263457 GCTTAGTTTATTC
1 GGTTAGTTCATTC
23263470 CATTTACTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.13, C:0.15, G:0.20, T:0.52
Consensus pattern (17 bp):
GGTTAGTTCATTCTCTT
Found at i:23278755 original size:22 final size:23
Alignment explanation
Indices: 23278711--23278763 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
23278701 GGCGATCAAG
23278711 GAATTTGCCTCTGATTTTGAA-TT
1 GAATTTGCCTCT-ATTTTGAATTT
*
23278734 GAAATTTGCCTCT-TTTTTAATTT
1 G-AATTTGCCTCTATTTTGAATTT
23278757 GAATTTG
1 GAATTTG
23278764 TCTATGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 12 0.44
23 4 0.15
24 11 0.41
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (23 bp):
GAATTTGCCTCTATTTTGAATTT
Found at i:23290110 original size:26 final size:26
Alignment explanation
Indices: 23290074--23290126 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
23290064 GGGACAAAGG
23290074 CCTCGAATCCTGTCTTTGACGGCGAT
1 CCTCGAATCCTGTCTTTGACGGCGAT
23290100 CCTCGAATCCTGTCTTTGACGGCGAT
1 CCTCGAATCCTGTCTTTGACGGCGAT
23290126 C
1 C
23290127 ATAGCGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.32, G:0.23, T:0.30
Consensus pattern (26 bp):
CCTCGAATCCTGTCTTTGACGGCGAT
Found at i:23298647 original size:14 final size:14
Alignment explanation
Indices: 23298628--23298658 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
23298618 TTTGAATTAT
23298628 AATGCCACTAATCC
1 AATGCCACTAATCC
*
23298642 AATGCCGCTAATCC
1 AATGCCACTAATCC
23298656 AAT
1 AAT
23298659 AGTTTAGATA
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:0.35, C:0.32, G:0.10, T:0.23
Consensus pattern (14 bp):
AATGCCACTAATCC
Found at i:23307889 original size:2 final size:2
Alignment explanation
Indices: 23307882--23307920 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
23307872 ACCTTTTTAG
*
23307882 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA GTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
23307921 CTTTTCTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:23410961 original size:19 final size:19
Alignment explanation
Indices: 23410925--23410961 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23410915 ATGCTATAGA
*
23410925 CATGCTATAGAGTAGTCAG
1 CATGCTATAGAGCAGTCAG
*
23410944 CATGCTATAGAGCGGTCA
1 CATGCTATAGAGCAGTCA
23410962 AAATCCCCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (19 bp):
CATGCTATAGAGCAGTCAG
Found at i:23443551 original size:26 final size:26
Alignment explanation
Indices: 23443507--23443564 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
23443497 AAAAGGCAGT
* *
23443507 TTTCT-TCTTTTCTTGACTTAAAATC
1 TTTCTCTCTTCTCTTAACTTAAAATC
23443532 TTTCTCTCTTCTCTTAACTTAAAATC
1 TTTCTCTCTTCTCTTAACTTAAAATC
23443558 TTTCTCT
1 TTTCTCT
23443565 AAGTATGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.19, C:0.24, G:0.02, T:0.55
Consensus pattern (26 bp):
TTTCTCTCTTCTCTTAACTTAAAATC
Found at i:23460923 original size:24 final size:24
Alignment explanation
Indices: 23460891--23460939 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
23460881 CAACGGATTC
* *
23460891 CTCACCCTCAGGAGCCCGAAGTAA
1 CTCACCCTCAGCAGCCCCAAGTAA
* *
23460915 CTCATCCTCATCAGCCCCAAGTAA
1 CTCACCCTCAGCAGCCCCAAGTAA
23460939 C
1 C
23460940 GAATCCGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.41, G:0.14, T:0.16
Consensus pattern (24 bp):
CTCACCCTCAGCAGCCCCAAGTAA
Found at i:23482470 original size:18 final size:17
Alignment explanation
Indices: 23482437--23482470 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23482427 TGAGTGAATC
*
23482437 TCGTAGGCTTTTTTCTT
1 TCGTAGGCTATTTTCTT
23482454 TCGTAGGCCTATTTTCT
1 TCGTAGG-CTATTTTCT
23482471 GTAAGCGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.21, G:0.18, T:0.53
Consensus pattern (17 bp):
TCGTAGGCTATTTTCTT
Found at i:23537445 original size:36 final size:36
Alignment explanation
Indices: 23537405--23537477 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
23537395 TACCAAGAAA
23537405 ATCTTTCCTAAGTCCTTCATGGCATTTGTTTTTCCG
1 ATCTTTCCTAAGTCCTTCATGGCATTTGTTTTTCCG
23537441 ATCTTTCCTAAGTCCTTCATGGCATTTGTTTTTCCG
1 ATCTTTCCTAAGTCCTTCATGGCATTTGTTTTTCCG
23537477 A
1 A
23537478 AAGACATAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.15, C:0.25, G:0.14, T:0.47
Consensus pattern (36 bp):
ATCTTTCCTAAGTCCTTCATGGCATTTGTTTTTCCG
Found at i:23586478 original size:17 final size:17
Alignment explanation
Indices: 23586458--23586493 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23586448 ATATCCTTAG
23586458 CTTTCCTGTATCTCTTT
1 CTTTCCTGTATCTCTTT
* *
23586475 CTTTCTTGTCTCTCTTT
1 CTTTCCTGTATCTCTTT
23586492 CT
1 CT
23586494 CTATCTTCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.31, G:0.06, T:0.61
Consensus pattern (17 bp):
CTTTCCTGTATCTCTTT
Found at i:23625486 original size:21 final size:21
Alignment explanation
Indices: 23625460--23625506 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
23625450 GTCCATCGAT
23625460 TGTTAGTTCTCTTGAAACTTC
1 TGTTAGTTCTCTTGAAACTTC
23625481 TGTTAGTTCTCTTGAAACTTC
1 TGTTAGTTCTCTTGAAACTTC
23625502 TGTTA
1 TGTTA
23625507 CATCCCTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (21 bp):
TGTTAGTTCTCTTGAAACTTC
Found at i:23652928 original size:11 final size:11
Alignment explanation
Indices: 23652910--23652951 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
23652900 TATTTATGAA
23652910 ATAT-TTATTT
1 ATATATTATTT
*
23652920 ATATATTATTA
1 ATATATTATTT
*
23652931 ATATATTATAT
1 ATATATTATTT
23652942 ATATA-TATTT
1 ATATATTATTT
23652952 TTTAATAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATATATTATTT
Found at i:23678688 original size:15 final size:15
Alignment explanation
Indices: 23678668--23678697 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23678658 CCAGTATATT
23678668 ATTTTATTTCACTTA
1 ATTTTATTTCACTTA
23678683 ATTTTATTTCACTTA
1 ATTTTATTTCACTTA
23678698 GCCTGCCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTTATTTCACTTA
Found at i:23691568 original size:19 final size:19
Alignment explanation
Indices: 23691544--23691585 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
23691534 CTTCAGATAT
23691544 TTTTATTTCTTTTA-TTTTA
1 TTTTATTT-TTTTACTTTTA
*
23691563 TTTTATTTTTTTACTTTTC
1 TTTTATTTTTTTACTTTTA
23691582 TTTT
1 TTTT
23691586 GGTGCTGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTATTTTTTTACTTTTA
Done.