Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005928.1 Hibiscus syriacus cultivar Beakdansim tig00013918_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 251293
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:6196 original size:26 final size:26
Alignment explanation
Indices: 6160--6212 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6150 CAAGACCCGT
6160 AACCTGCCATTAAAAGTCATCATGCA
1 AACCTGCCATTAAAAGTCATCATGCA
6186 AACCTGCCATTAAAAGTCATCATGCA
1 AACCTGCCATTAAAAGTCATCATGCA
6212 A
1 A
6213 CGGAAGTACG
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:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (26 bp):
AACCTGCCATTAAAAGTCATCATGCA
Found at i:12170 original size:39 final size:39
Alignment explanation
Indices: 12116--12194 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
12106 CATAAAAAAT
12116 ATGATAATTTTTAAAATTGATCATGATGGTAGAAAGGGG
1 ATGATAATTTTTAAAATTGATCATGATGGTAGAAAGGGG
12155 ATGATAATTTTTAAAATTGATCATGATGGTAGAAAGGGG
1 ATGATAATTTTTAAAATTGATCATGATGGTAGAAAGGGG
12194 A
1 A
12195 ATGTTTTCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (39 bp):
ATGATAATTTTTAAAATTGATCATGATGGTAGAAAGGGG
Found at i:13576 original size:426 final size:425
Alignment explanation
Indices: 12784--13629 Score: 1512
Period size: 426 Copynumber: 2.0 Consensus size: 425
12774 TTTCTGGAAA
*
12784 AGTAAACCAAAACATTATTTTAATCATTTTTAAAATTTAATTTAATTAAAATGACAACATTTTTT
1 AGTAAACCAAAACATTATTTTAATAATTTTTAAAATTTAATTTAATTAAAATGACAACATTTTTT
* * * *
12849 GGTGATTCAATCACACCCTAAACAAATATTGGTGGTGACTCTCTCGAACTATAATTTTATTTTAA
66 GGTGATCCAATCACACCCTAAACAAAGATTGGTGGTGACTCTCCCGAACCATAATTTTATTTTAA
* * *
12914 ACCCCAATTTTAGTCGAAACAAACCCCTAAAATTAATTTCTCGATTTTCGGGACGTTGTGAGAAC
131 AACCCAATTTTAGTCGAAACAAACCCCTAAAATTAATTTCTCGATTTTCGAGACGTTGCGAGAAC
* *
12979 TTGATGACTCTGCTAGGGACATTAGAGAGCCAAGTCGTTAGTTGATTAAATATTATATTTGCATT
196 TTGACGACTATGCTAGGGACATTAGAGAGCCAAGTCGTTAGTTGATTAAATATTATATTTGCATT
*
13044 GGAATTTACGGATTTAACTTAATTTAATTTTTGTTCCCTTAGTTGTGCTTGTTTGCTTGCATTCG
261 GGAATTTACGGATTTAACTTAATTTAATTTTTGATCCCTTAGTTGTGCTTGTTTGCTTGCATTCG
13109 TCTTTAAACCGTAATAACATGTGCATACTTGTGATTGTTCGTACTAATGTGTGTATTCATGATCT
326 TCTTTAAACCGTAATAACATGTGCATACTTGTGATTGTTCGTACTAATGTGTGTATTCATGATCT
13174 TTCAGATTTTAAGTTAAGTGGATTGGTTTTGGATT
391 TTCAGATTTTAAGTTAAGTGGATTGGTTTTGGATT
13209 AGTAAACCAAAACATTATTTTAATAATTTTTAAAATTTAATTTAATTAAAATGACAACATTTTTT
1 AGTAAACCAAAACATTATTTTAATAATTTTTAAAATTTAATTTAATTAAAATGACAACATTTTTT
* *
13274 GGTGATCCAATCACACCCTAAACAAAGATTGGTGGTGACTTTCCCGAACCATATTTTTATTTTAA
66 GGTGATCCAATCACACCCTAAACAAAGATTGGTGGTGACTCTCCCGAACCATAATTTTATTTTAA
* *
13339 AACCCAATTTTAGTCGAAACGAAATCCCTAAAATTAATTTCTCGATTTTCGAGACGTTGCGATAA
131 AACCCAATTTTAGTCGAAAC-AAACCCCTAAAATTAATTTCTCGATTTTCGAGACGTTGCGAGAA
* *
13404 CTTGACGACTATGCTAGGGACATTAGAGAGCCAAGTCGTTAGTTGATTAATTATTATCTTTGCAT
195 CTTGACGACTATGCTAGGGACATTAGAGAGCCAAGTCGTTAGTTGATTAAATATTATATTTGCAT
*
13469 TGGAATTTATGGATTTAACTTAATTTAATTTTTGATCCCTTAGTTGTGCTTGTTTGCTTGCATTC
260 TGGAATTTACGGATTTAACTTAATTTAATTTTTGATCCCTTAGTTGTGCTTGTTTGCTTGCATTC
*
13534 GTCTTTAAACCGTAATAACATGTGCATACTTGTGATTGTTCGTACTGATGTGTGTATTCATGATC
325 GTCTTTAAACCGTAATAACATGTGCATACTTGTGATTGTTCGTACTAATGTGTGTATTCATGATC
13599 TTTCAGATTTTAAGTTAAGTGGATTGGTTTT
390 TTTCAGATTTTAAGTTAAGTGGATTGGTTTT
13630 TGTTTAAGAA
Statistics
Matches: 401, Mismatches: 19, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
425 142 0.35
426 259 0.65
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (425 bp):
AGTAAACCAAAACATTATTTTAATAATTTTTAAAATTTAATTTAATTAAAATGACAACATTTTTT
GGTGATCCAATCACACCCTAAACAAAGATTGGTGGTGACTCTCCCGAACCATAATTTTATTTTAA
AACCCAATTTTAGTCGAAACAAACCCCTAAAATTAATTTCTCGATTTTCGAGACGTTGCGAGAAC
TTGACGACTATGCTAGGGACATTAGAGAGCCAAGTCGTTAGTTGATTAAATATTATATTTGCATT
GGAATTTACGGATTTAACTTAATTTAATTTTTGATCCCTTAGTTGTGCTTGTTTGCTTGCATTCG
TCTTTAAACCGTAATAACATGTGCATACTTGTGATTGTTCGTACTAATGTGTGTATTCATGATCT
TTCAGATTTTAAGTTAAGTGGATTGGTTTTGGATT
Found at i:18989 original size:21 final size:22
Alignment explanation
Indices: 18965--19008 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18955 TGTAGCAGTA
*
18965 CTGTAGTA-GGGTATCGATTCC
1 CTGTAGTACGGGAATCGATTCC
*
18986 CTGTAGTACGGGAATCGGTTCC
1 CTGTAGTACGGGAATCGATTCC
19008 C
1 C
19009 CTCTTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.30
Consensus pattern (22 bp):
CTGTAGTACGGGAATCGATTCC
Found at i:24988 original size:90 final size:89
Alignment explanation
Indices: 24872--25048 Score: 291
Period size: 90 Copynumber: 2.0 Consensus size: 89
24862 TAATACCAAA
* * *
24872 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTTAAAGAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTAAAAGAATAAAA-CCCTAATATGAT
24937 TAGGGTAAATTGGATATAAAAGGAT
65 TAGGGTAAATTGGATATAAAAGGAT
*
24962 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTAAAAGAATAAAACCCTAATATGATT
* *
25027 AGGGTAACTTGGCTATAAAAGG
66 AGGGTAAATTGGATATAAAAGG
25049 GTGTGTTAGG
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 33 0.41
90 48 0.59
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTAAAAGAATAAAACCCTAATATGATT
AGGGTAAATTGGATATAAAAGGAT
Found at i:26778 original size:25 final size:25
Alignment explanation
Indices: 26750--26797 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
26740 GGATTTAGAG
26750 AAATG-CCCTAAAGTGTAAATGACCA
1 AAATGCCCCTAAAGTGT-AATGACCA
26775 AAATGCCCCTAAAGTGTAATGAC
1 AAATGCCCCTAAAGTGTAATGAC
26798 TTAAAGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (25 bp):
AAATGCCCCTAAAGTGTAATGACCA
Found at i:28407 original size:15 final size:15
Alignment explanation
Indices: 28381--28428 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
28371 TTCAAACATC
*
28381 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
28397 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
28414 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
28429 ATTCAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:29697 original size:12 final size:12
Alignment explanation
Indices: 29682--29706 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29672 TCAGGAATAT
29682 GAGGAGGATTTG
1 GAGGAGGATTTG
29694 GAGGAGGATTTG
1 GAGGAGGATTTG
29706 G
1 G
29707 TTGACGGTGT
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:0.24, C:0.00, G:0.52, T:0.24
Consensus pattern (12 bp):
GAGGAGGATTTG
Found at i:30416 original size:21 final size:22
Alignment explanation
Indices: 30390--30447 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 22
30380 CAGAACCCCA
*
30390 GGGGGGTATCGATTCCCCT-GT
1 GGGGGGTATCGATTCCCCTCAT
* *
30411 GGGGGGAATCGGTT-CCCTCAT
1 GGGGGGTATCGATTCCCCTCAT
30432 -GGGGGTATCGATTCCC
1 GGGGGGTATCGATTCCC
30448 TCTGCACCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.12, C:0.24, G:0.38, T:0.26
Consensus pattern (22 bp):
GGGGGGTATCGATTCCCCTCAT
Found at i:34804 original size:22 final size:21
Alignment explanation
Indices: 34762--34801 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34752 GAGTTTATTT
*
34762 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
34783 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
34802 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:38281 original size:19 final size:19
Alignment explanation
Indices: 38245--38283 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
38235 TAATTAGATT
*
38245 AAATAATTAATTATATTAA
1 AAATAATTAATTAAATTAA
38264 AAATAA-TAATTGAAATTAA
1 AAATAATTAATT-AAATTAA
38283 A
1 A
38284 TTGTTTAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
AAATAATTAATTAAATTAA
Found at i:45898 original size:33 final size:33
Alignment explanation
Indices: 45856--45922 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
45846 CAGGCTAAAA
* * *
45856 TTTTGCTCCATGGGATTACCCGGTGTCTTTAGT
1 TTTTGCTCCATAGGATTACCCAGCGTCTTTAGT
45889 TTTTGCTCCATAGGATTACCCAGCGTCTTTAGT
1 TTTTGCTCCATAGGATTACCCAGCGTCTTTAGT
45922 T
1 T
45923 AAATTCTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.42
Consensus pattern (33 bp):
TTTTGCTCCATAGGATTACCCAGCGTCTTTAGT
Found at i:46883 original size:60 final size:60
Alignment explanation
Indices: 46810--46973 Score: 162
Period size: 60 Copynumber: 2.8 Consensus size: 60
46800 GCTCTGTTCA
*
46810 TGCATCA-TATTTTGAATTAAAAAAATTGAAGACG-GA-ATCTTGCATGGAGTCTACACTG
1 TGCATCATTTTTTTGAATTAAAAAAATTGAAGACGAGATA-CTTGCATGGAGTCTACACTG
* * * * *
46868 TTCA-CTATATTTTTTGAATTAAAAAAA-TAAAGACGAGATACTTGCATGGCGTCTTCATTG
1 TGCATC-AT-TTTTTTGAATTAAAAAAATTGAAGACGAGATACTTGCATGGAGTCTACACTG
* * * *
46928 TGCATCATTTTCTT-AATT-AAAAAATTGAAGACAACATACTTTCATG
1 TGCATCATTTTTTTGAATTAAAAAAATTGAAGACGAGATACTTGCATG
46974 ATTATTCACT
Statistics
Matches: 87, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
57 7 0.08
58 25 0.29
59 12 0.14
60 41 0.47
61 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (60 bp):
TGCATCATTTTTTTGAATTAAAAAAATTGAAGACGAGATACTTGCATGGAGTCTACACTG
Found at i:46967 original size:58 final size:57
Alignment explanation
Indices: 46810--46973 Score: 154
Period size: 58 Copynumber: 2.8 Consensus size: 57
46800 GCTCTGTTCA
*
46810 TGCATCATATTTTGAATTAAAAAAATTGAAGACGGAAT-CTTGCATGGAGTCTACACTG
1 TGCATCATATTTTTAATT-AAAAAATTGAAGAC-GAATACTTGCATGGAGTCTACACTG
* * * * * *
46868 TTCA-CTATATTTTTTGAATTAAAAAAATAAAGACGAGATACTTGCATGGCGTCTTCATTG
1 TGCATC-ATA-TTTTT-AATTAAAAAATTGAAGACGA-ATACTTGCATGGAGTCTACACTG
* *
46928 TGCATCAT-TTTCTTAATTAAAAAATTGAAGACAACATACTTTCATG
1 TGCATCATATTT-TTAATTAAAAAATTGAAGACGA-ATACTTGCATG
46974 ATTATTCACT
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
57 1 0.01
58 38 0.44
59 20 0.23
60 26 0.30
61 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (57 bp):
TGCATCATATTTTTAATTAAAAAATTGAAGACGAATACTTGCATGGAGTCTACACTG
Found at i:47654 original size:22 final size:20
Alignment explanation
Indices: 47598--47640 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
47588 GTAATAACTT
47598 CAAATTTACTCTTGTGATAA
1 CAAATTTACTCTTGTGATAA
47618 CAAATTTACTCTTGTGATAA
1 CAAATTTACTCTTGTGATAA
47638 CAA
1 CAA
47641 GTGTTTACGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (20 bp):
CAAATTTACTCTTGTGATAA
Found at i:47919 original size:22 final size:22
Alignment explanation
Indices: 47894--47936 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
47884 TTGTTTTAAG
47894 TTTGTTGGACATTGAAATTATA
1 TTTGTTGGACATTGAAATTATA
**
47916 TTTGTTGGATGTTGAAATTAT
1 TTTGTTGGACATTGAAATTAT
47937 TAATTTTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (22 bp):
TTTGTTGGACATTGAAATTATA
Found at i:47921 original size:33 final size:33
Alignment explanation
Indices: 47848--47917 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
47838 CTTATGTTGA
**
47848 ATATTGTTTTTTGTTTGTTAGACATTGAAATTG
1 ATATTGTTTTAAGTTTGTTAGACATTGAAATTG
*
47881 ATATTGTTTTAAGTTTGTTGGACATTGAAATT-
1 ATATTGTTTTAAGTTTGTTAGACATTGAAATTG
47913 ATATT
1 ATATT
47918 TGTTGGATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 5 0.15
33 29 0.85
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53
Consensus pattern (33 bp):
ATATTGTTTTAAGTTTGTTAGACATTGAAATTG
Found at i:49187 original size:25 final size:25
Alignment explanation
Indices: 49159--49217 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
49149 CTAACATTTA
49159 TTTCATTCCAATTTGGTACATAACG
1 TTTCATTCCAATTTGGTACATAACG
* *
49184 TTTCATTCCAATTTTGTGCATAACG
1 TTTCATTCCAATTTGGTACATAACG
49209 TTTCATTCC
1 TTTCATTCC
49218 GTGACTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (25 bp):
TTTCATTCCAATTTGGTACATAACG
Found at i:49375 original size:29 final size:28
Alignment explanation
Indices: 49332--49395 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
49322 AAATAAGAAA
* *
49332 TTATTTTGTTCCAGTTTGGTGCCTAACGT
1 TTATTTCGTTCCAGTTTGATGCCTAAC-T
* *
49361 TTATTTCGTTTCAGTTTGATGTCTAACT
1 TTATTTCGTTCCAGTTTGATGCCTAACT
*
49389 TTTTTTC
1 TTATTTC
49396 CCTCTCTTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.55
Consensus pattern (28 bp):
TTATTTCGTTCCAGTTTGATGCCTAACT
Found at i:49455 original size:3 final size:3
Alignment explanation
Indices: 49447--49472 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49437 AAGAACCCAC
49447 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
49473 CTTTGTTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:50514 original size:24 final size:24
Alignment explanation
Indices: 50468--50525 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
50458 ACTTTGACAA
* *
50468 TATTATTATTTCAATGTGATGTAT
1 TATTATTATTTCAATATGATGTAC
* * *
50492 TATTATTGTTTTAATATGGTGTAC
1 TATTATTATTTCAATATGATGTAC
50516 TATTAATTAT
1 TATT-ATTAT
50526 ATACTTTGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.55
Consensus pattern (24 bp):
TATTATTATTTCAATATGATGTAC
Found at i:50649 original size:15 final size:16
Alignment explanation
Indices: 50629--50661 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
50619 AAATTCAATT
*
50629 TTTTATAA-AATATAA
1 TTTTATAACAATAAAA
50644 TTTTATAACAATAAAA
1 TTTTATAACAATAAAA
50660 TT
1 TT
50662 AACTTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTTATAACAATAAAA
Found at i:51503 original size:15 final size:16
Alignment explanation
Indices: 51479--51513 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
51469 CATTTTAATT
51479 TTTTTAAATATTATAA
1 TTTTTAAATATTATAA
*
51495 TTTTT-AATATTTTAA
1 TTTTTAAATATTATAA
51510 TTTT
1 TTTT
51514 AATTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTAAATATTATAA
Found at i:56430 original size:26 final size:26
Alignment explanation
Indices: 56401--56455 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
56391 TAATTATCTC
56401 TTTAAAAATTTTAAATT-ATGATATAT
1 TTTAAAAATTTT-AATTAATGATATAT
* * *
56427 TTTAAATATTTTTATTAATTATATAT
1 TTTAAAAATTTTAATTAATGATATAT
56453 TTT
1 TTT
56456 TATCTTCCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTAAAAATTTTAATTAATGATATAT
Found at i:62494 original size:2 final size:2
Alignment explanation
Indices: 62487--62515 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
62477 ACAATAAACT
62487 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62516 CCACATAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62651 original size:34 final size:33
Alignment explanation
Indices: 62612--62676 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
62602 CAAATTTTGA
62612 AAAATTGGAT-TTTTTACCAAAATTTAGAAGAGAG
1 AAAATTGGATATTTTT--CAAAATTTAGAAGAGAG
* *
62646 AAAATTTGATATTTTTGAAAATTTAGAAGAG
1 AAAATTGGATATTTTTCAAAATTTAGAAGAG
62677 GGAAGAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.50
34 9 0.32
35 5 0.18
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (33 bp):
AAAATTGGATATTTTTCAAAATTTAGAAGAGAG
Found at i:63256 original size:2 final size:2
Alignment explanation
Indices: 63018--63248 Score: 174
Period size: 2 Copynumber: 115.5 Consensus size: 2
63008 TATATTAATG
63018 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
63060 AC AC AC AC AC ACT -T GT AT AT AT AT ACT -T AT AT AT AT TT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* * *
63102 AT AC CT AT AT AG AT ACT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
63144 AT AT AT AT AT AT AT AT AT AT AT AT AT AG GT AT A- AGT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* *
63186 AT GT AT A- AGT AT AT AT AT ACT -T AT A- AGT AT AGT GT AT AGT -T
1 AT AT AT AT A-T AT AT AT AT A-T AT AT AT A-T AT A-T AT AT A-T AT
*
63227 AT AT AT AT -T AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
63249 AGTATATACT
Statistics
Matches: 188, Mismatches: 23, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
1 9 0.05
2 171 0.91
3 8 0.04
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:63351 original size:23 final size:24
Alignment explanation
Indices: 63325--63381 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
63315 TATAGTGTAC
*
63325 ATTATATATACATGCATTAT-CAT
1 ATTATATATACATGCATCATACAT
* *
63348 ATTATCATA-ACATTCATCATACGT
1 ATTAT-ATATACATGCATCATACAT
63372 ATTATATATA
1 ATTATATATA
63382 TTAAAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 17 0.61
24 11 0.39
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.42
Consensus pattern (24 bp):
ATTATATATACATGCATCATACAT
Found at i:77828 original size:51 final size:51
Alignment explanation
Indices: 77766--77892 Score: 157
Period size: 51 Copynumber: 2.5 Consensus size: 51
77756 GTAGCAGTAA
* * * *
77766 AGCGCGTCCCCTGCCCCGCGCTATATGCTGA-TTTGGTGCCACGTGGGGTAT
1 AGCGCGCCCCCTGCCCCGCGCTATATGCTGACATGGGTGACACGT-GGGTAT
*
77817 AGCGCGCCCCCTGCCCCGCGCTATATGCTGACATGGGTTACACGTGGGTAT
1 AGCGCGCCCCCTGCCCCGCGCTATATGCTGACATGGGTGACACGTGGGTAT
* * **
77868 AGCGCGGCCCTTGATCCGCGCTATA
1 AGCGCGCCCCCTGCCCCGCGCTATA
77893 CACCACGTAG
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
51 57 0.86
52 9 0.14
ACGTcount: A:0.14, C:0.33, G:0.30, T:0.23
Consensus pattern (51 bp):
AGCGCGCCCCCTGCCCCGCGCTATATGCTGACATGGGTGACACGTGGGTAT
Found at i:79575 original size:41 final size:41
Alignment explanation
Indices: 79497--79580 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
79487 AATATAATTC
* ** *
79497 ACCCCTACGTGACGTATAGCGCGGCCCCTGATCCGCGCTAT
1 ACCCCTACGTGACGTATAGCGCGGACCAGGAGCCGCGCTAT
* * *
79538 ACCCCTACGTGACGTATAGCGCGGATCAGGGGGCGCGCTAT
1 ACCCCTACGTGACGTATAGCGCGGACCAGGAGCCGCGCTAT
79579 AC
1 AC
79581 ACGTGTGTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.19, C:0.35, G:0.29, T:0.18
Consensus pattern (41 bp):
ACCCCTACGTGACGTATAGCGCGGACCAGGAGCCGCGCTAT
Found at i:80726 original size:255 final size:255
Alignment explanation
Indices: 80275--80785 Score: 1013
Period size: 255 Copynumber: 2.0 Consensus size: 255
80265 AACTAAGATA
80275 TAATAGTCGCTTGAGATTATGATATCATATTATCATATCCCAGTCAGTTCGTTAACATTCAATTT
1 TAATAGTCGCTTGAGATTATGATATCATATTATCATATCCCAGTCAGTTCGTTAACATTCAATTT
80340 AGATCATCGTCAATTTTTAACGGAAAATGATGAGTTTAGAACATATAAATAGTCGAGTGATCATT
66 AGATCATCGTCAATTTTTAACGGAAAATGATGAGTTTAGAACATATAAATAGTCGAGTGATCATT
80405 TTATAACTTTTAATAATCGAGAGACTCAACAAAATAACACCTATAATCAAGAGACAATTTTATAA
131 TTATAACTTTTAATAATCGAGAGACTCAACAAAATAACACCTATAATCAAGAGACAATTTTATAA
*
80470 CTTTTAATAGTTGAAATATTTAATAGAGTAACATCCTATTGTCGGCAACATTTGTGTAAT
196 CTTTTAATAGTTAAAATATTTAATAGAGTAACATCCTATTGTCGGCAACATTTGTGTAAT
80530 TAATAGTCGCTTGAGATTATGATATCATATTATCATATCCCAGTCAGTTCGTTAACATTCAATTT
1 TAATAGTCGCTTGAGATTATGATATCATATTATCATATCCCAGTCAGTTCGTTAACATTCAATTT
80595 AGATCATCGTCAATTTTTAACGGAAAATGATGAGTTTAGAACATATAAATAGTCGAGTGATCATT
66 AGATCATCGTCAATTTTTAACGGAAAATGATGAGTTTAGAACATATAAATAGTCGAGTGATCATT
80660 TTATAACTTTTAATAATCGAGAGACTCAACAAAATAACACCTATAATCAAGAGACAATTTTATAA
131 TTATAACTTTTAATAATCGAGAGACTCAACAAAATAACACCTATAATCAAGAGACAATTTTATAA
80725 CTTTTAATAGTTAAAATATTTAATAGAGTAACATCCTATTGTCGGCAACATTTGTGTAAT
196 CTTTTAATAGTTAAAATATTTAATAGAGTAACATCCTATTGTCGGCAACATTTGTGTAAT
80785 T
1 T
80786 TAAAAAAAAC
Statistics
Matches: 255, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 255 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (255 bp):
TAATAGTCGCTTGAGATTATGATATCATATTATCATATCCCAGTCAGTTCGTTAACATTCAATTT
AGATCATCGTCAATTTTTAACGGAAAATGATGAGTTTAGAACATATAAATAGTCGAGTGATCATT
TTATAACTTTTAATAATCGAGAGACTCAACAAAATAACACCTATAATCAAGAGACAATTTTATAA
CTTTTAATAGTTAAAATATTTAATAGAGTAACATCCTATTGTCGGCAACATTTGTGTAAT
Found at i:80918 original size:13 final size:13
Alignment explanation
Indices: 80902--80930 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
80892 ATTATTTTAA
80902 AATATTTTTCTTT
1 AATATTTTTCTTT
80915 AATATTTTTCTTT
1 AATATTTTTCTTT
80928 AAT
1 AAT
80931 TTTAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (13 bp):
AATATTTTTCTTT
Found at i:83648 original size:2 final size:2
Alignment explanation
Indices: 83641--83675 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
83631 TAGTTTAGAC
83641 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
83676 AATTATTGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:87506 original size:23 final size:23
Alignment explanation
Indices: 87480--87543 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
87470 CAGCTCGTAT
87480 AATTGCACCGAAGTGCCACATAG
1 AATTGCACCGAAGTGCCACATAG
* * *
87503 AATTACACC-AGAGTGCCGCGTAG
1 AATTGCACCGA-AGTGCCACATAG
*
87526 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
87544 TATAATAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.03
23 32 0.97
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACATAG
Found at i:88186 original size:19 final size:20
Alignment explanation
Indices: 88149--88186 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88139 TTTTTTTTTA
*
88149 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
88169 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
88187 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:88238 original size:21 final size:21
Alignment explanation
Indices: 88214--88277 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
88204 TCATATTCGT
* *
88214 TTGAGGGGGGATCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
* *
88235 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
* * *
88256 TTGAATGAGTACCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
88277 T
1 T
88278 AGCCCAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.28
Consensus pattern (21 bp):
TTGAAGGGGGACCGATTCCCC
Found at i:95107 original size:23 final size:23
Alignment explanation
Indices: 95073--95133 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
95063 CTCATATAAA
* *
95073 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
*
95096 TGCACCGTAGTGCCGCATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
*
95119 TGTACCGTAGTGCCA
1 TGCACCGTAGTGCCA
95134 TATAATAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:100098 original size:23 final size:23
Alignment explanation
Indices: 100064--100124 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
100054 CTCATATAAA
* *
100064 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
*
100087 TGCACCGTAGTGCCGCATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
*
100110 TGTACCGTAGTGCCA
1 TGCACCGTAGTGCCA
100125 TATAATAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:100311 original size:103 final size:103
Alignment explanation
Indices: 100140--100347 Score: 371
Period size: 103 Copynumber: 2.0 Consensus size: 103
100130 TAATGTCTAT
* *
100140 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
100205 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* * *
100243 AAGGACCACATATCATTCCTTAAGAATCATATTCATATGCCAATGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
100308 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
100346 AA
1 AA
100348 AAACCGCGTA
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:101865 original size:22 final size:22
Alignment explanation
Indices: 101840--101899 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
101830 TTTCCTTTAG
*
101840 GGGGGAATCGGTTCCCTCCTGT
1 GGGGGTATCGGTTCCCTCCTGT
101862 GGGGGTATCGGTTCCCTCCTGT
1 GGGGGTATCGGTTCCCTCCTGT
101884 GGGGGTATCGGTTCCC
1 GGGGGTATCGGTTCCC
101900 CCTTGACATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.07, C:0.27, G:0.38, T:0.28
Consensus pattern (22 bp):
GGGGGTATCGGTTCCCTCCTGT
Found at i:103460 original size:2 final size:2
Alignment explanation
Indices: 103453--103482 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
103443 AGATCCTCCC
*
103453 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
103483 TCTCTTTCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:106995 original size:16 final size:16
Alignment explanation
Indices: 106976--107075 Score: 59
Period size: 16 Copynumber: 6.2 Consensus size: 16
106966 AAAAATGATG
106976 AAAAAAGAAAAAGAGA
1 AAAAAAGAAAAAGAGA
106992 AAAATAA-AAAAAG-GA
1 AAAA-AAGAAAAAGAGA
*
107007 AGAAAATGAAAAA-AGA
1 A-AAAAAGAAAAAGAGA
*
107023 ACAAAATG-AAAAGA-A
1 A-AAAAAGAAAAAGAGA
*
107038 AATAAAA-AAAATGAATGAA
1 AA-AAAAGAAAAAG-A-G-A
*
107057 AAAAAAGAAAAATAGA
1 AAAAAAGAAAAAGAGA
107073 AAA
1 AAA
107076 TGGGAAAATG
Statistics
Matches: 66, Mismatches: 6, Indels: 24
0.69 0.06 0.25
Matches are distributed among these distances:
14 1 0.02
15 17 0.26
16 33 0.50
17 3 0.05
18 5 0.08
19 7 0.11
ACGTcount: A:0.78, C:0.01, G:0.14, T:0.07
Consensus pattern (16 bp):
AAAAAAGAAAAAGAGA
Found at i:107012 original size:17 final size:16
Alignment explanation
Indices: 106983--107034 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
106973 ATGAAAAAAG
106983 AAAAAGAGA-AAAATAA
1 AAAAAGA-ACAAAATAA
* *
106999 AAAAAGGAAGAAAATGA
1 AAAAA-GAACAAAATAA
107016 AAAAAGAACAAAATGAA
1 AAAAAGAACAAAAT-AA
107033 AA
1 AA
107035 GAAAATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 14 0.47
17 16 0.53
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (16 bp):
AAAAAGAACAAAATAA
Found at i:107028 original size:26 final size:26
Alignment explanation
Indices: 106978--107141 Score: 74
Period size: 26 Copynumber: 6.3 Consensus size: 26
106968 AAATGATGAA
* *
106978 AAAAGAAAAAGAGAAAAATAAAAAAAG
1 AAAAGAAAATGA-AAAAAGAAAAAAAG
* *
107005 -GAAGAAAATGAAAAAAGAACAAAATG
1 AAAAGAAAATGAAAAAAGAA-AAAAAG
** *
107031 AAAAGAAAAT-AAAAAA-AATGAATG
1 AAAAGAAAATGAAAAAAGAAAAAAAG
***
107055 AAAA-AAAA-GAAAAATAGAAAATGGG
1 AAAAGAAAATGAAAAA-AGAAAAAAAG
* *
107080 AAAATGGGAAAATGGAAGAAA-AATAAAAG
1 AAAA---GAAAAT-GAAAAAAGAAAAAAAG
* *
107109 AAAA-AATGATGAAAAAAGAAAAAGA-
1 AAAAGAA-AATGAAAAAAGAAAAAAAG
107134 AAAAGAAA
1 AAAAGAAA
107142 TAAAAGGGGG
Statistics
Matches: 101, Mismatches: 22, Indels: 30
0.66 0.14 0.20
Matches are distributed among these distances:
23 9 0.09
24 9 0.09
25 28 0.28
26 29 0.29
27 8 0.08
29 12 0.12
30 1 0.01
31 5 0.05
ACGTcount: A:0.74, C:0.01, G:0.18, T:0.08
Consensus pattern (26 bp):
AAAAGAAAATGAAAAAAGAAAAAAAG
Found at i:107114 original size:23 final size:23
Alignment explanation
Indices: 107088--107137 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
107078 GGAAAATGGG
107088 AAAATG-GAAGAAAA-ATAAAAGAA
1 AAAATGAGAA-AAAAGA-AAAAGAA
107111 AAAATGATGAAAAAAGAAAAAGAA
1 AAAATGA-GAAAAAAGAAAAAGAA
107135 AAA
1 AAA
107138 GAAATAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.25
24 14 0.58
25 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (23 bp):
AAAATGAGAAAAAAGAAAAAGAA
Found at i:108608 original size:51 final size:51
Alignment explanation
Indices: 108507--108615 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 51
108497 ATTCATTTTA
* * * ** * *
108507 TGAAGATCGAGTTCTATACTCTCTGATGGAATAGAGAGTGAACTCGTTTGT
1 TGAAGATCAAGTTATATACTCTCTAATGGAATAGAGACCGAACCCATTTGT
*
108558 TGAAGATCAAGTTATATACTCTCTAATGGAATAGAGACCGGACCCATTTGT
1 TGAAGATCAAGTTATATACTCTCTAATGGAATAGAGACCGAACCCATTTGT
*
108609 TAAAGAT
1 TGAAGAT
108616 TGTTCGAGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (51 bp):
TGAAGATCAAGTTATATACTCTCTAATGGAATAGAGACCGAACCCATTTGT
Found at i:108701 original size:55 final size:55
Alignment explanation
Indices: 108657--108871 Score: 254
Period size: 55 Copynumber: 3.9 Consensus size: 55
108647 AGAGTGGACC
*
108657 CGTTTACTAAAGATTGTTCGAGTCTTATACTCCCTAAACAAATAGGGAGCAGACA
1 CGTTTACTGAAGATTGTTCGAGTCTTATACTCCCTAAACAAATAGGGAGCAGACA
* * ** * *
108712 CGTTTACTGAAGATTATTCGAGT-TCAATACTCCCTGAGGC-AATAGGGAGCAAACT
1 CGTTTACTGAAGATTGTTCGAGTCT-TATACTCCCT-AAACAAATAGGGAGCAGACA
* * * * *
108767 TGTTTATTGAAGATTGTTCGAGTCTTATACTCCCTGAACGAATAGGGAGCATACA
1 CGTTTACTGAAGATTGTTCGAGTCTTATACTCCCTAAACAAATAGGGAGCAGACA
* * * *
108822 CATTTACTGAAGATTGTTCGAGTCTTATACTTCCTGAAGAAATAGGGAGC
1 CGTTTACTGAAGATTGTTCGAGTCTTATACTCCCTAAACAAATAGGGAGC
108872 GGGATCGCCA
Statistics
Matches: 134, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
54 2 0.01
55 129 0.96
56 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (55 bp):
CGTTTACTGAAGATTGTTCGAGTCTTATACTCCCTAAACAAATAGGGAGCAGACA
Found at i:108742 original size:110 final size:110
Alignment explanation
Indices: 108611--108871 Score: 301
Period size: 110 Copynumber: 2.4 Consensus size: 110
108601 CCATTTGTTA
* ** ***
108611 AAGATTGTTCGAGTTCTATACTCTTTGAAAG-AATAGAGAGTGGACCCGTTTACTAAAGATTGTT
1 AAGATTGTTCGAGTTCAATACTCCCTG-AAGCAATAGAGAGCAAACCCGTTTACTAAAGATTGTT
*
108675 CGAGTCTTATACTCCCTAAACAAATAGGGAGCAGACACGTTTACTG
65 CGAGTCTTATACTCCCTAAACAAATAGGGAGCAGACACATTTACTG
* * * ** * *
108721 AAGATTATTCGAGTTCAATACTCCCTGAGGCAATAGGGAGCAAACTTGTTTATTGAAGATTGTTC
1 AAGATTGTTCGAGTTCAATACTCCCTGAAGCAATAGAGAGCAAACCCGTTTACTAAAGATTGTTC
* * *
108786 GAGTCTTATACTCCCTGAACGAATAGGGAGCATACACATTTACTG
66 GAGTCTTATACTCCCTAAACAAATAGGGAGCAGACACATTTACTG
* * * *
108831 AAGATTGTTCGAG-TCTTATACTTCCTGAAGAAATAGGGAGC
1 AAGATTGTTCGAGTTC-AATACTCCCTGAAGCAATAGAGAGC
108872 GGGATCGCCA
Statistics
Matches: 127, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
109 4 0.03
110 123 0.97
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (110 bp):
AAGATTGTTCGAGTTCAATACTCCCTGAAGCAATAGAGAGCAAACCCGTTTACTAAAGATTGTTC
GAGTCTTATACTCCCTAAACAAATAGGGAGCAGACACATTTACTG
Found at i:124978 original size:10 final size:10
Alignment explanation
Indices: 124963--125017 Score: 92
Period size: 10 Copynumber: 5.3 Consensus size: 10
124953 TTTTTTATTT
124963 AAATTAATTG
1 AAATTAATTG
124973 AAATTAATTGG
1 AAATTAATT-G
124984 AAATTAATTG
1 AAATTAATTG
124994 AAATTAATTGG
1 AAATTAATT-G
125005 AAATTAATTG
1 AAATTAATTG
125015 AAA
1 AAA
125018 ATGTTTTAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
10 23 0.53
11 20 0.47
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (10 bp):
AAATTAATTG
Found at i:124988 original size:11 final size:11
Alignment explanation
Indices: 124963--125019 Score: 91
Period size: 11 Copynumber: 5.4 Consensus size: 11
124953 TTTTTTATTT
124963 AAATTAATT-G
1 AAATTAATTGG
124973 AAATTAATTGG
1 AAATTAATTGG
124984 AAATTAATT-G
1 AAATTAATTGG
124994 AAATTAATTGG
1 AAATTAATTGG
*
125005 AAATTAATTGA
1 AAATTAATTGG
125016 AAAT
1 AAAT
125020 GTTTTAATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
10 19 0.43
11 25 0.57
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (11 bp):
AAATTAATTGG
Found at i:124989 original size:21 final size:21
Alignment explanation
Indices: 124963--125017 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
124953 TTTTTTATTT
124963 AAATTAATTGAAATTAATTGG
1 AAATTAATTGAAATTAATTGG
124984 AAATTAATTGAAATTAATTGG
1 AAATTAATTGAAATTAATTGG
125005 AAATTAATTGAAA
1 AAATTAATTGAAA
125018 ATGTTTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (21 bp):
AAATTAATTGAAATTAATTGG
Found at i:125406 original size:13 final size:13
Alignment explanation
Indices: 125388--125412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125378 TAGTACAAAT
125388 TCGCATTGCGATA
1 TCGCATTGCGATA
125401 TCGCATTGCGAT
1 TCGCATTGCGAT
125413 TTTCCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (13 bp):
TCGCATTGCGATA
Found at i:125481 original size:20 final size:20
Alignment explanation
Indices: 125419--125612 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
125409 CGATTTTCCA
* ** *
125419 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
125439 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
125459 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
125479 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
125499 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
125519 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
125539 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* ***
125559 AAATCGCAACG-ATAATAAAT
1 AAATCGCAACGCGT-ATCCGT
125579 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
125600 AAATCGCAACGCG
1 AAATCGCAACGCG
125613 ATATTTAAAC
Statistics
Matches: 144, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 125 0.87
21 16 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:125503 original size:60 final size:60
Alignment explanation
Indices: 125419--125612 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
125409 CGATTTTCCA
* ** * * *
125419 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATAAATAAATCGCAACGCGTATCCGT
* * *** *
125479 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATAAATAAATCGCAACGCGTATCCGT
* **
125539 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATAAATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATAAAT-AAATCGCAACGCGTATCCGT
125600 AAATCGCAACGCG
1 AAATCGCAACGCG
125613 ATATTTAAAC
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATAAATAAATCGCAACGCGTATCCGT
Found at i:126033 original size:33 final size:33
Alignment explanation
Indices: 125994--126064 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
125984 TTCACTTAGA
*
125994 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
126027 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
126060 TTTCA
1 TTTCA
126065 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:126201 original size:41 final size:41
Alignment explanation
Indices: 126143--126261 Score: 229
Period size: 41 Copynumber: 2.9 Consensus size: 41
126133 TTGCAGAAGA
*
126143 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
126184 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
126225 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
126262 CGCAACGCGA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 77 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:126258 original size:21 final size:21
Alignment explanation
Indices: 126144--126260 Score: 157
Period size: 21 Copynumber: 5.7 Consensus size: 21
126134 TGCAGAAGAG
*
126144 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
126165 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
126185 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
126206 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
126226 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
126247 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
126261 TCGCAACGCG
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
20 34 0.42
21 47 0.58
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:126302 original size:19 final size:19
Alignment explanation
Indices: 126280--126377 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
126270 GAAACCAAAA
*
126280 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
126299 TCGCGTTGC-A-ATTC---
1 TCGCGTTGCGATTTTCATT
*
126313 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
126332 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
126346 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
126365 TCGCGTTGCGATT
1 TCGCGTTGCGATT
126378 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 18 0.30
15 1 0.02
16 5 0.08
17 6 0.10
18 1 0.02
19 30 0.49
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:126327 original size:33 final size:33
Alignment explanation
Indices: 126285--126399 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
126275 CAAAATCGCA
*
126285 TTGCGATTTTCATTTCGCGTTGCAATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
126318 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
126351 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
126384 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
126400 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:126354 original size:14 final size:14
Alignment explanation
Indices: 126302--126391 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
126292 TTTCATTTCG
*
126302 CGTTGCAATTCTCT
1 CGTTGCGATTCTCT
*
126316 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
126335 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
126349 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
126368 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
126382 CGTTGCGATT
1 CGTTGCGATT
126392 TTCATTTCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
14 29 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.33
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:128255 original size:93 final size:93
Alignment explanation
Indices: 128096--128656 Score: 1090
Period size: 93 Copynumber: 6.1 Consensus size: 93
128086 TAGATTGCTT
* *
128096 AGTAAATTTATTCAGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
128161 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
128189 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
128254 TTTGTC-TTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
128281 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
128346 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
128374 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
128439 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
128467 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
128532 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
128560 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
128625 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
128652 AGTAA
1 AGTAA
128657 TGCAATCCAT
Statistics
Matches: 465, Mismatches: 2, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 98 0.21
93 367 0.79
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:128744 original size:19 final size:19
Alignment explanation
Indices: 128704--128832 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
128694 TAGTTTACTT
* *
128704 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
128724 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
128743 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
128762 TCGCAA--CG-AA--AGAA
1 TCGCAACGCGAAACCAAAA
128776 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
128795 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
128809 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
128828 TCGCA
1 TCGCA
128833 TTGCGATTTT
Statistics
Matches: 91, Mismatches: 8, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
14 19 0.21
15 1 0.01
16 6 0.07
17 6 0.07
18 1 0.01
19 45 0.49
20 13 0.14
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:128778 original size:33 final size:34
Alignment explanation
Indices: 128741--128832 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 34
128731 GCGAAACCAA
**
128741 AATCGCAACGCGAAATGAAAATCGCAACGA-AAG
1 AATCGCAACGCGAAACCAAAATCGCAACGACAAG
128774 AATCGCAACGCGAAACCAAAATCGCAACGACAAG
1 AATCGCAACGCGAAACCAAAATCGCAACGACAAG
128808 -ATCGCAACGCGAAACCAAAATCGCA
1 AATCGCAACGCGAAACCAAAATCGCA
128833 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 53 0.95
34 3 0.05
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.08
Consensus pattern (34 bp):
AATCGCAACGCGAAACCAAAATCGCAACGACAAG
Found at i:128830 original size:52 final size:52
Alignment explanation
Indices: 128704--128832 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
128694 TAGTTTACTT
**
128704 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACGAAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* *
128756 T-G-AAAATCGCAACGAAAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAACGAAA-AATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
* *
128809 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACGAAAAATCGCA
128833 TTGCGATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
50 3 0.05
51 8 0.13
52 39 0.62
53 5 0.08
54 6 0.10
55 2 0.03
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACGAAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:128850 original size:19 final size:18
Alignment explanation
Indices: 128828--128944 Score: 106
Period size: 19 Copynumber: 6.8 Consensus size: 18
128818 GAAACCAAAA
*
128828 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
128847 TCGCGTTGCGA-TTC-TT
1 TCGCGTTGCGATTTCATT
128863 T--CGTTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
* *
128879 TCGCATTGCGA-TTC-TG
1 TCGCGTTGCGATTTCATT
128895 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
**
128912 TCGCGTTGCGAATTTGGTT
1 TCGCGTTGCG-ATTTCATT
128931 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
128945 TAAGTTTCAT
Statistics
Matches: 81, Mismatches: 7, Indels: 21
0.74 0.06 0.19
Matches are distributed among these distances:
14 15 0.19
15 3 0.04
16 11 0.14
17 8 0.10
18 11 0.14
19 32 0.40
20 1 0.01
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:128869 original size:14 final size:14
Alignment explanation
Indices: 128850--128905 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
128840 TTTCATTTCG
128850 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
128864 CGTTGCGATTTCATTT
1 CGTTGCGA-TTC-TTT
*
128880 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
128896 CGTTGCGATT
1 CGTTGCGATT
128906 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 16 0.43
15 3 0.08
16 9 0.24
17 3 0.08
18 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:128914 original size:33 final size:33
Alignment explanation
Indices: 128833--128922 Score: 155
Period size: 32 Copynumber: 2.8 Consensus size: 33
128823 CAAAATCGCA
*
128833 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
128866 TTGCGA-TTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
128898 TTGCGATTTTCATTTCGCGTTGCGA
1 TTGCGATTTTCATTTCGCGTTGCGA
128923 ATTTGGTTTC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
32 30 0.57
33 23 0.43
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:130903 original size:14 final size:14
Alignment explanation
Indices: 130884--130919 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
130874 ATTGTTTAAT
130884 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
130898 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
130912 TGATTTGT
1 TGATTTGT
130920 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:131042 original size:19 final size:19
Alignment explanation
Indices: 131026--131123 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
131016 AAAAATGACT
131026 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
131045 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
131064 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
131078 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
131097 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
131117 ATCGCAA
1 ATCGCAA
131124 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:131155 original size:53 final size:53
Alignment explanation
Indices: 131026--131141 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
131016 AAAAATGACT
131026 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
131078 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
131131 ATCGCAATGCG
1 ATCGCAATGCG
131142 TTTATAATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:131194 original size:19 final size:19
Alignment explanation
Indices: 131170--131315 Score: 142
Period size: 19 Copynumber: 8.4 Consensus size: 19
131160 GATTCTCTCG
131170 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
131189 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
131208 TTGC-A-ATTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
131222 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
131241 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
131255 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
131275 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
131289 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
131308 TTGCGATT
1 TTGCGATT
131316 CTCTCGTTGC
Statistics
Matches: 103, Mismatches: 8, Indels: 32
0.72 0.06 0.22
Matches are distributed among these distances:
14 21 0.20
15 1 0.01
16 16 0.16
17 13 0.13
18 4 0.04
19 36 0.35
20 12 0.12
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:131205 original size:52 final size:52
Alignment explanation
Indices: 131148--131329 Score: 211
Period size: 52 Copynumber: 3.6 Consensus size: 52
131138 TGCGTTTATA
131148 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
131200 ATTTCGCATTGCAATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * * *
131254 GTTGCG-ATTTTC-ATT-TC-CGCATTGCGATTTTCA--T-G--TTGGGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
131300 ATTTCGCATTGCGATTCTCTCGTTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATT
131330 GTAATTTCCG
Statistics
Matches: 113, Mismatches: 8, Indels: 23
0.78 0.06 0.16
Matches are distributed among these distances:
46 9 0.08
47 13 0.12
48 9 0.08
49 2 0.02
50 1 0.01
51 3 0.03
52 50 0.44
53 17 0.15
54 9 0.08
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:131300 original size:67 final size:67
Alignment explanation
Indices: 131189--131348 Score: 234
Period size: 67 Copynumber: 2.4 Consensus size: 67
131179 TCATTTCGCA
*
131189 TTGCGATTTTCATTT-CGCATTGCAATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCT
131253 CG
66 CG
* *
131255 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCATTGCGATTCTC
1 TTGCGATTTTCATTTCCGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTGCGATTCTC
131319 TCG
65 TCG
* * **
131322 TTGCGATTGTAATTTCCGTGTTGCGAT
1 TTGCGATTTTCATTTCCGCATTGCGAT
131349 AGTCAAATGC
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
66 15 0.18
67 69 0.81
68 1 0.01
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (67 bp):
TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCT
CG
Found at i:131337 original size:33 final size:33
Alignment explanation
Indices: 131189--131329 Score: 230
Period size: 33 Copynumber: 4.2 Consensus size: 33
131179 TCATTTCGCA
*
131189 TTGCGATTTTCATTTCGCATTGCAATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
131222 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
131255 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
131289 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
131322 TTGCGATT
1 TTGCGATT
131330 GTAATTTCCG
Statistics
Matches: 100, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
32 1 0.01
33 69 0.69
34 29 0.29
35 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:133843 original size:24 final size:24
Alignment explanation
Indices: 133809--133855 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
133799 CTGAAACATC
133809 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
133833 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
133856 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:134564 original size:20 final size:20
Alignment explanation
Indices: 134536--134765 Score: 219
Period size: 20 Copynumber: 11.5 Consensus size: 20
134526 AAATTTCAGT
* * *
134536 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
134556 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
134576 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* **
134596 GTTGCGATTTACGAATTATC
1 GTTGCGATTTACGGATTCGC
*
134616 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
134636 GTTACGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
134656 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
134676 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
134696 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
134716 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
134736 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
134756 GTTGCGATTT
1 GTTGCGATTT
134766 TGGAAAATCG
Statistics
Matches: 178, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 177 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:134782 original size:21 final size:21
Alignment explanation
Indices: 134752--134834 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
134742 ATTTTCATAT
*
134752 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
134773 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
134794 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
134815 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
134835 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:134825 original size:42 final size:43
Alignment explanation
Indices: 134732--134830 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
134722 ATTTATGTGT
* *
134732 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
134773 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
134815 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
134831 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:134990 original size:26 final size:27
Alignment explanation
Indices: 134961--135017 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
134951 GTCACTGATG
* *
134961 CAATCCTTTATTCAACTAAAAAAA-TA
1 CAATCCTTTATCCAACCAAAAAAATTA
* *
134987 CAATTCTTTATCCACCCAAAAAAATTA
1 CAATCCTTTATCCAACCAAAAAAATTA
135014 CAAT
1 CAAT
135018 ACATATTCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (27 bp):
CAATCCTTTATCCAACCAAAAAAATTA
Found at i:141356 original size:5 final size:5
Alignment explanation
Indices: 141346--141383 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
141336 TGATCATAGG
* *
141346 TTTTA TTTTA TTTTA TTTTA TTTTA ATCTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
141384 GTGTTTCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:144918 original size:32 final size:32
Alignment explanation
Indices: 144882--144945 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
144872 TCATAGGAAA
144882 CAGAAAATTACTACAAAGAGTGTCAAAATTAT
1 CAGAAAATTACTACAAAGAGTGTCAAAATTAT
144914 CAGAAAATTACTACAAAGAGTGTCAAAATTAT
1 CAGAAAATTACTACAAAGAGTGTCAAAATTAT
144946 GATATTGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (32 bp):
CAGAAAATTACTACAAAGAGTGTCAAAATTAT
Found at i:148658 original size:23 final size:23
Alignment explanation
Indices: 148632--148709 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
148622 CACCACAGCT
148632 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
148655 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
148678 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
148701 TATAATAAT
1 CAT-ATAAT
148710 GTCCATAAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:148879 original size:103 final size:103
Alignment explanation
Indices: 148716--148933 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
148706 TAATGTCCAT
* *
148716 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
148781 GACTTCACACATGTTCCAAAGAATATATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* * *
148819 AATGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCACGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
148884 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
148922 AAGGACCACATA
1 AAGGACCACATA
148934 GACCCTTGAC
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:154269 original size:23 final size:23
Alignment explanation
Indices: 154215--154283 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
154205 CACCACAACT
*
154215 CATATAATTGCACCGAAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
* * * *
154238 CATATAATTGCACCGGAGTGTCG
1 CATAGAATTGCACCGAAGTGCCA
* * *
154261 CGTAGAATTCCACCGTAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
154284 TATAATAATG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (23 bp):
CATAGAATTGCACCGAAGTGCCA
Found at i:154453 original size:103 final size:101
Alignment explanation
Indices: 154299--154514 Score: 351
Period size: 103 Copynumber: 2.1 Consensus size: 101
154289 TAATGTCCAT
* *
154299 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
154364 GACATCACACATGTTCCAAAGAATACATATATATCCTG
66 GACATCACACATGTTCCAAAGAAT--ATATATATCCCG
*
154402 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
154467 GACTTCACACATGTTCCAAAGAATATATATGTCCCG
66 GACATCACACATGTTCCAAAGAATATATATATCCCG
*
154503 AATGACCACATA
1 AAGGACCACATA
154515 GACCATCGAC
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
101 21 0.20
103 85 0.80
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (101 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACATCACACATGTTCCAAAGAATATATATATCCCG
Found at i:159849 original size:23 final size:23
Alignment explanation
Indices: 159795--159863 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
159785 CACCACAGCT
*
159795 CATATAATTGCACCGAAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
* * * *
159818 CATATAATTGCACCGGAGTGTCG
1 CATAGAATTGCACCGAAGTGCCA
* * *
159841 CGTAGAATTCCACCGTAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
159864 TATAATAATG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (23 bp):
CATAGAATTGCACCGAAGTGCCA
Found at i:160033 original size:103 final size:103
Alignment explanation
Indices: 159879--160096 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
159869 TAATGTCCAT
* *
159879 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
159944 GACTTCACACATGTTCCAAAGAATACATATATATCCTG
66 GACGTCACACATGTTCCAAAGAATACATATATATCCCG
*
159982 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
160047 GACGTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACGTCACACATGTTCCAAAGAATACATATATATCCCG
*
160085 AATGACCACATA
1 AAGGACCACATA
160097 GACCCTCGAC
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACGTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:178878 original size:20 final size:21
Alignment explanation
Indices: 178849--178888 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
178839 CTCTCCAGCA
178849 TCTTCATTTTGTT-TTCCCAT
1 TCTTCATTTTGTTCTTCCCAT
*
178869 TCTTCTTTTTGTTCTTCCCA
1 TCTTCATTTTGTTCTTCCCA
178889 CCCTCTAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.07, C:0.28, G:0.05, T:0.60
Consensus pattern (21 bp):
TCTTCATTTTGTTCTTCCCAT
Found at i:191107 original size:23 final size:23
Alignment explanation
Indices: 191076--191141 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
191066 CTGAATGATT
* *
191076 CAGTGCTGACTGATTCAGCAAAA
1 CAGTTCTGAATGATTCAGCAAAA
* *
191099 CAGTTCTGAATAATTCATCAAAA
1 CAGTTCTGAATGATTCAGCAAAA
191122 CAGTTCTGAATGATTCAGCA
1 CAGTTCTGAATGATTCAGCA
191142 CATAAATACA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (23 bp):
CAGTTCTGAATGATTCAGCAAAA
Found at i:191235 original size:16 final size:16
Alignment explanation
Indices: 191214--191276 Score: 99
Period size: 16 Copynumber: 3.9 Consensus size: 16
191204 TCATACAGAG
191214 CATCTGAATCATTCAA
1 CATCTGAATCATTCAA
191230 CATCTGAATCATTCAA
1 CATCTGAATCATTCAA
*
191246 CATTTGAATCATTCAA
1 CATCTGAATCATTCAA
* *
191262 TATTTGAATCATTCA
1 CATCTGAATCATTCA
191277 GCGCTTAATC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.37
Consensus pattern (16 bp):
CATCTGAATCATTCAA
Found at i:192058 original size:18 final size:19
Alignment explanation
Indices: 192013--192068 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 19
192003 CCTTAATTAT
*
192013 AAAATATAAAAATAAATAGA
1 AAAATTTAAAAATAAATA-A
192033 AATTAATTTAAAAATAAAT-A
1 AA--AATTTAAAAATAAATAA
*
192053 AAAATTTAAAATTAAA
1 AAAATTTAAAAATAAA
192069 ATGAATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 13 0.41
20 5 0.16
22 14 0.44
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAATTTAAAAATAAATAA
Found at i:192061 original size:23 final size:23
Alignment explanation
Indices: 192012--192078 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
192002 TCCTTAATTA
*
192012 TAAAATATAAAAATAAATAGAAAT
1 TAAAAT-TAAAAATAAATAAAAAT
*
192036 T-AATTTAAAAATAAATAAAAATT
1 TAAAATTAAAAATAAATAAAAA-T
*
192059 TAAAATT-AAAATGAATAAAA
1 TAAAATTAAAAATAAATAAAA
192079 TCTAAAAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 15 0.41
23 17 0.46
24 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (23 bp):
TAAAATTAAAAATAAATAAAAAT
Found at i:192431 original size:84 final size:84
Alignment explanation
Indices: 192284--192461 Score: 329
Period size: 84 Copynumber: 2.1 Consensus size: 84
192274 GGGAAAGGTG
* *
192284 CATTAAGCTTAATTATTATTGCCCATGTTTTGCAATTCTTCTTATTTCATATTCAACATTTATGC
1 CATTGAGCTTAATTATTATTGCCCATGTTTTGCAATTATTCTTATTTCATATTCAACATTTATGC
192349 ATGTTAAAAGTAAATAGGC
66 ATGTTAAAAGTAAATAGGC
*
192368 CATTGCGCTTAATTATTATTGCCCATGTTTTGCAATTATTCTTATTTCATATTCAACATTTATGC
1 CATTGAGCTTAATTATTATTGCCCATGTTTTGCAATTATTCTTATTTCATATTCAACATTTATGC
192433 ATGTTAAAAGTAAATAGGC
66 ATGTTAAAAGTAAATAGGC
192452 CATTGAGCTT
1 CATTGAGCTT
192462 TGTTATGCCA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.43
Consensus pattern (84 bp):
CATTGAGCTTAATTATTATTGCCCATGTTTTGCAATTATTCTTATTTCATATTCAACATTTATGC
ATGTTAAAAGTAAATAGGC
Found at i:195609 original size:21 final size:21
Alignment explanation
Indices: 195583--195624 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
195573 AGTTTTTAAA
195583 ATTTTA-AATTAAAAAAATAAT
1 ATTTTATAA-TAAAAAAATAAT
195604 ATTTTATTAATAAAAAAATAA
1 ATTTTA-TAATAAAAAAATAA
195625 CAGTAAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 11 0.58
23 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTTTATAATAAAAAAATAAT
Found at i:197525 original size:22 final size:22
Alignment explanation
Indices: 197497--197540 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
197487 ACGATAGATA
*
197497 CAATGCTTTACCAAACAATGTT
1 CAATGCTTAACCAAACAATGTT
197519 CAATGCTTAACCAAACAATGTT
1 CAATGCTTAACCAAACAATGTT
197541 TCATCGAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (22 bp):
CAATGCTTAACCAAACAATGTT
Found at i:201051 original size:37 final size:37
Alignment explanation
Indices: 200961--201053 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 37
200951 TTTGTCCTAT
* *
200961 TAGGATTTAAATTCTTAAAAATAAGATAAAATTTTGC
1 TAGGATTTAAATTCCTAAAAATAAGATAAAATTCTGC
* * * * *
200998 TAGGATTCAAACTCCTAAAAATATGATAGAGTTCTGC
1 TAGGATTTAAATTCCTAAAAATAAGATAAAATTCTGC
**
201035 TATTATTTAAATTCCTAAA
1 TAGGATTTAAATTCCTAAA
201054 GATAGGATCC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (37 bp):
TAGGATTTAAATTCCTAAAAATAAGATAAAATTCTGC
Found at i:201456 original size:18 final size:17
Alignment explanation
Indices: 201425--201459 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
201415 GATATTTTAC
*
201425 TCATTTATTTTTATTAT
1 TCATTTATTATTATTAT
201442 TCATGTTATTATTATTAT
1 TCAT-TTATTATTATTAT
201460 ATCTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.66
Consensus pattern (17 bp):
TCATTTATTATTATTAT
Found at i:203070 original size:201 final size:196
Alignment explanation
Indices: 202458--203156 Score: 796
Period size: 198 Copynumber: 3.5 Consensus size: 196
202448 TAGTTAGCGC
* ** *
202458 TTATATTGACCTATTTTCGAAGT-AAACCGGTATATTTATACCGGTATCATTGTAAATTTACATA
1 TTATGTTGACCTATTTTCTCA-TAAAACCGGTATATTTATACCGGTA-CATTGTAAATTTACCTA
* * *
202522 TTATATTATAATTATTGGTTTCGATGTTTTTTGGATCGATACAATTTTAAATGTATCGACACTTT
64 TTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTT
* * * * * *
202587 ATGCTTGCACCTCGTTGGACATTCATATTTCATTCTGAAAAAAAAAGTATTGACACAAACTAAAA
129 ATGCTTGCACCTCGTTGG----GC--A-TTCATTCTG--GACAAAAGTATCGACACAAATTAACA
*
202652 ACGTGTCGATGCA
185 A-GTGTCGATACA
*
202665 TTAT-TTAGACCTATTTTCTCATAAAACCGGTATATTTATATCGAGTACATTGTAAATTTACCTA
1 TTATGTT-GACCTATTTTCTCATAAAACCGGTATATTTATACCG-GTACATTGTAAATTTACCTA
* * * *
202729 TCACATTGTAATTTTC-GTTTCGATGTTTTTGGGATTGATACAATTTTAAATGTATCGACACTTT
64 TTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTT
* * * *
202793 ATTCTTGCACGTCATTGGGCATTCATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTCG
129 ATGCTTGCACCTCGTTGGGCATTCATTCTGGACAAAA-GTATCGACACAAA-TTAACAAGTGTCG
*
202858 ATACT
192 ATACA
** * *
202863 TTATGTTGACCTATTTTCTCATAAAACAAGTATATTTATATCGGTTACGTTGTAAATTTACCTAT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGG-TACATTGTAAATTTACCTAT
* *
202928 TACATTATAATTATCGGTTTCGATATTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTT
65 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTT--TAAATGTATCGACACTT
* *
202992 TATGCGTGCACCTCGTTTGGGCATTCATTCTGGACAATAAGTATCGACACAAATTCCACAAGTGT
128 TATGCTTGCACCTCG-TTGGGCATTCATTCTGGACAA-AAGTATCGACACAAATT-AACAAGTGT
203057 CGATACA
190 CGATACA
* * * * * *
203064 TTATGTTGACTTGTTTTCTAAT-TAACCGGTATATTTATACCGATTACATTGTTAATTTACCTAT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCG-GTACATTGTAAATTTACCTAT
* *
203128 TACATTATAATTATTGGTTTTGATGTTTT
65 TACATTATAATTATCGGTTTCGATGTTTT
203157 AGGTAGTTAT
Statistics
Matches: 426, Mismatches: 52, Indels: 35
0.83 0.10 0.07
Matches are distributed among these distances:
197 6 0.01
198 93 0.22
199 38 0.09
200 91 0.21
201 66 0.15
202 3 0.01
206 64 0.15
207 62 0.15
208 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (196 bp):
TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTACATTGTAAATTTACCTATT
ACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTAT
GCTTGCACCTCGTTGGGCATTCATTCTGGACAAAAGTATCGACACAAATTAACAAGTGTCGATAC
A
Found at i:206789 original size:201 final size:200
Alignment explanation
Indices: 206335--207095 Score: 1114
Period size: 200 Copynumber: 3.8 Consensus size: 200
206325 CTCATTATTT
* * * * *
206335 AAAAGTATCAACATAATATTAAAAAAGTATCGATATATGTTGTAGACCTATTATCTCATAAAATC
1 AAAAGTATCAACACAATATT-AAAAAGTATCGATACATATTGTAGACCTATTCTCTCATAAAACC
* *
206400 GGTATATTTATATCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
65 GGTATATTTATATCGGTTATATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATATTT
* * * *
206465 TTGGGATCGACACGTTTT-AAAATGTATCGACACTTTATTCGTTCACCCTTTTTGGCATCCATTT
130 TTGGAATCGACACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTT
206529 TGGACA
195 TGGACA
** *
206535 AAAAGTATTGACACAATATTAAAAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAACCG
1 AAAAGTATCAACACAATATTAAAAAGTATCGATACATATTGTAGACCTATTCTCTCATAAAACCG
206600 GTATATTTATA-CTGGTTATATTACAAAATTACCTATTACATTATAATTATCGGTTAT-GATATT
66 GTATATTTATATC-GGTTATATTACAAAATTACCTATTACATTATAATTATCGGTT-TCGATATT
*
206663 TTTGGAATCGACACTTTTTGAAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCTAT
129 TTTGGAATCGACACTTTTTG-AAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCAT
206728 TTTGGACA
193 TTTGGACA
* * * * * * * *
206736 AAAAATATCAACACATTATTAAAAAGAATAGATACATGTTGTAGACATATTCTCCCATAAAACTG
1 AAAAGTATCAACACAATATTAAAAAGTATCGATACATATTGTAGACCTATTCTCTCATAAAACCG
* * * *
206801 GTATATTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATCGGTTACGATATTTT
66 GTATATTTATATCGGTTATATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATATTTT
* * *
206866 TGGAATCGATACTTTTTGAAAATGTATCGACACTTTGTGCGTTAACCCTTTTTGGCATCCATTCT
131 TGGAATCGACACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTTT
206931 GGACA
196 GGACA
* * * *
206936 AAAAGTATCGACACAATATTAAAACGTGTCGATACATATTGTAGACTTATTCTCTCATAAAACCG
1 AAAAGTATCAACACAATATTAAAAAGTATCGATACATATTGTAGACCTATTCTCTCATAAAACCG
* * *
207001 GTATATTTATATCGGTTATATTACAAAATTATCTATTACATTATAATTATCGATTTCGATGTTTT
66 GTATATTTATATCGGTTATATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATATTTT
* *
207066 TGGGATCAACACTTTTTGAAAATGTATCGA
131 TGGAATCGACACTTTTTGAAAATGTATCGA
207096 TACATGTTAT
Statistics
Matches: 503, Mismatches: 52, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
198 1 0.00
199 114 0.23
200 208 0.41
201 179 0.36
202 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (200 bp):
AAAAGTATCAACACAATATTAAAAAGTATCGATACATATTGTAGACCTATTCTCTCATAAAACCG
GTATATTTATATCGGTTATATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATATTTT
TGGAATCGACACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCCATTTT
GGACA
Found at i:207083 original size:401 final size:400
Alignment explanation
Indices: 206335--207095 Score: 1179
Period size: 401 Copynumber: 1.9 Consensus size: 400
206325 CTCATTATTT
* * * * * * *
206335 AAAAGTATCAACATAATATTAAAAAAGTATCGATATATGTTGTAGACCTATTATCTCATAAAATC
1 AAAAATATCAACACAATATTAAAAAAGAATAGATACATGTTGTAGACATATTATCCCATAAAATC
* * * * *
206400 GGTATATTTATATCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
66 GGTATATTTATACCGATTATATTACAAAATTACCTATTACATTATAATTATCGGTTACGATATTT
* * * *
206465 TTGGGATCGACACGTTTTAAAATGTATCGACACTTTATTCGTTCACCCTTTTTGGCATCCATTTT
131 TTGGAATCGACACGTTTTAAAATGTATCGACACTTTATGCGTTAACCCTTTTTGGCATCCATTCT
*
206530 GGACAAAAAGTATTGACACAATATTAAAAAGTGTCGATACATATTGTAGACCTATTCTCTCATAA
196 GGACAAAAAGTATCGACACAATATTAAAAAGTGTCGATACATATTGTAGACCTATTCTCTCATAA
*
206595 AACCGGTATATTTATACTGGTTATATTACAAAATTACCTATTACATTATAATTATCGGTTATGAT
261 AACCGGTATATTTATACTGGTTATATTACAAAATTACCTATTACATTATAATTATCGATTATGAT
*
206660 ATTTTTGGAATCGACACTTTTTGAAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATC
326 ATTTTTGGAATCAACACTTTTTG-AAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATC
206725 TATTTTGGACA
390 TATTTTGGACA
* *
206736 AAAAATATCAACACATTATT-AAAAAGAATAGATACATGTTGTAGACATATTCTCCCATAAAA-C
1 AAAAATATCAACACAATATTAAAAAAGAATAGATACATGTTGTAGACATATTATCCCATAAAATC
*
206799 TGGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATCGGTTACGATATT
66 -GGTATATTTATACCGATTATATTACAAAATTACCTATTACATTATAATTATCGGTTACGATATT
* * *
206864 TTTGGAATCGATACTTTTTGAAAATGTATCGACACTTTGTGCGTTAACCCTTTTTGGCATCCATT
130 TTTGGAATCGACACGTTTT-AAAATGTATCGACACTTTATGCGTTAACCCTTTTTGGCATCCATT
* *
206929 CTGGACAAAAAGTATCGACACAATATTAAAACGTGTCGATACATATTGTAGACTTATTCTCTCAT
194 CTGGACAAAAAGTATCGACACAATATTAAAAAGTGTCGATACATATTGTAGACCTATTCTCTCAT
*
206994 AAAACCGGTATATTTATA-TCGGTTATATTACAAAATTATCTATTACATTATAATTATCGATT-T
259 AAAACCGGTATATTTATACT-GGTTATATTACAAAATTACCTATTACATTATAATTATCGATTAT
* *
207057 CGATGTTTTTGGGATCAACACTTTTTGAAAATGTATCGA
323 -GATATTTTTGGAATCAACACTTTTTGAAAATGTATCGA
207096 TACATGTTAT
Statistics
Matches: 326, Mismatches: 30, Indels: 9
0.89 0.08 0.02
Matches are distributed among these distances:
399 1 0.00
400 124 0.38
401 201 0.62
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (400 bp):
AAAAATATCAACACAATATTAAAAAAGAATAGATACATGTTGTAGACATATTATCCCATAAAATC
GGTATATTTATACCGATTATATTACAAAATTACCTATTACATTATAATTATCGGTTACGATATTT
TTGGAATCGACACGTTTTAAAATGTATCGACACTTTATGCGTTAACCCTTTTTGGCATCCATTCT
GGACAAAAAGTATCGACACAATATTAAAAAGTGTCGATACATATTGTAGACCTATTCTCTCATAA
AACCGGTATATTTATACTGGTTATATTACAAAATTACCTATTACATTATAATTATCGATTATGAT
ATTTTTGGAATCAACACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCCTTTTTGGCATCT
ATTTTGGACA
Found at i:207191 original size:127 final size:128
Alignment explanation
Indices: 206964--207196 Score: 360
Period size: 127 Copynumber: 1.8 Consensus size: 128
206954 TTAAAACGTG
* * *
206964 TCGATACATATTGTAGACTTATTCTCTCATAAAACCGGTATATTTATATCGGTTATATTACAAAA
1 TCGATACATATTATAGACTTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTACAAAA
*
207029 TTATCTATTACATTATAATTATCGATTTCGATGTTTTTGGGATCAACACTTTTTGAAAATGTA
66 TTACCTATTACATTATAATTATCGATTTCGATGTTTTTGGGATCAACACTTTTTGAAAATGTA
* * ** *
207092 TCGATACATGTTATAGACTTATT-TTTCATAAAACCGGTATATTTATACCGGTTACATTGTAAAT
1 TCGATACATATTATAGACTTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTACAAAA
* *
207156 TTACCTATTACATTATAATTATCGGTTTTGATGTTTTTGGG
66 TTACCTATTACATTATAATTATCGATTTCGATGTTTTTGGG
207197 GTTGTTACTT
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
127 73 0.78
128 21 0.22
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (128 bp):
TCGATACATATTATAGACTTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTACAAAA
TTACCTATTACATTATAATTATCGATTTCGATGTTTTTGGGATCAACACTTTTTGAAAATGTA
Found at i:207207 original size:127 final size:128
Alignment explanation
Indices: 206964--207222 Score: 358
Period size: 127 Copynumber: 2.0 Consensus size: 128
206954 TTAAAACGTG
* * *
206964 TCGATACATATTGTAGACTTATTCTCTCATAAAACCGGTATATTTATATCGGTTATATTACAAAA
1 TCGATACATATTATAGACTTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTACAAAA
* *
207029 TTATCTATTACATTATAATTATCGATTTCGATGTTTTTGGGATCAACACTTTTTGAAAATGTA
66 TTACCTATTACATTATAATTATCGATTTCGATGTTTTTGGGATCAACACTTTTTAAAAATGTA
* * ** *
207092 TCGATACATGTTATAGACTTATT-TTTCATAAAACCGGTATATTTATACCGGTTACATTGTAAAT
1 TCGATACATATTATAGACTTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTACAAAA
* * * ****
207156 TTACCTATTACATTATAATTATCGGTTTTGATGTTTTTGGGGTTGTTACTTTTTAAAAATGTA
66 TTACCTATTACATTATAATTATCGATTTCGATGTTTTTGGGATCAACACTTTTTAAAAATGTA
207219 TCGA
1 TCGA
207223 CACTTTATGG
Statistics
Matches: 114, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
127 93 0.82
128 21 0.18
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (128 bp):
TCGATACATATTATAGACTTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTACAAAA
TTACCTATTACATTATAATTATCGATTTCGATGTTTTTGGGATCAACACTTTTTAAAAATGTA
Found at i:208441 original size:3 final size:3
Alignment explanation
Indices: 208433--208476 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
208423 AATTGTTTGG
* * * *
208433 ATC ATC ATC ATC ATC ATC ATC TTC ATT ATC ATC TTC ATC GTC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
208477 TTTCATCTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.27, C:0.30, G:0.02, T:0.41
Consensus pattern (3 bp):
ATC
Found at i:208450 original size:12 final size:12
Alignment explanation
Indices: 208433--208483 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
208423 AATTGTTTGG
*
208433 ATCATCATCATC
1 ATCATCATCTTC
208445 ATCATCATCTTC
1 ATCATCATCTTC
*
208457 ATTATCATCTTC
1 ATCATCATCTTC
* *
208469 ATCGTCATTTTC
1 ATCATCATCTTC
208481 ATC
1 ATC
208484 TTTATTGACC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.43
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:208484 original size:18 final size:18
Alignment explanation
Indices: 208437--208485 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
208427 GTTTGGATCA
* * *
208437 TCATCATCATCATCATCT
1 TCATTATCATCTTCATCG
208455 TCATTATCATCTTCATCG
1 TCATTATCATCTTCATCG
*
208473 TCATTTTCATCTT
1 TCATTATCATCTT
208486 TATTGACCGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.22, C:0.29, G:0.02, T:0.47
Consensus pattern (18 bp):
TCATTATCATCTTCATCG
Found at i:210760 original size:200 final size:201
Alignment explanation
Indices: 210122--210761 Score: 928
Period size: 200 Copynumber: 3.2 Consensus size: 201
210112 CTTGGGATAT
* * *
210122 ACACTTTATGGGTGCACCCTTTTTTGGATTTGATTCTGTTCCAAAAGTATCGACACGATCTCCAC
1 ACACTATATGGGTGCACCCTTTTTGGGATTTGATTCTGTTCCAAAAGTATCGACACAATCTCCAC
* * *
210187 AAGTGTCGATACATCTTGTAGACCTATTCTATCATAAAACTGGTATATTTATATCGGTTACATTG
66 AAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATATCGGTTACATTG
* * **
210252 AAAAATTACCTATTACATTATAATTATGGGTTTCGATGGATT-TGGGATCGATACTTTTTGCAAA
131 AAAAATTACCTATTACATTATACTTATGGGTTTCGAT-GTTTCTGGGATCGATACTTTTTAAAAA
*
210316 TGTAGCG
195 TGTATCG
* ** * *** ** * ** ** *
210323 ACACTTTATTTGTTCACCCTTTTTTACATTT-ATTCTGGACAAAAAGTATCGACACAAAATTAAA
1 ACACTATATGGGTGCACCCTTTTTGGGATTTGATTCTGTTCCAAAAGTATCGACACAATCTCCAC
* *
210387 AAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATATCGGTTACATTA
66 AAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATATCGGTTACATTG
*
210452 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTAAAAAT
131 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTAAAAAT
210517 GTATCG
196 GTATCG
* * *
210523 ACATTATATGGGTGTA-CCTTTTTGGGATTTGATTCTGTTCCAAGAGTATCGACACAATCTCCAC
1 ACACTATATGGGTGCACCCTTTTTGGGATTTGATTCTGTTCCAAAAGTATCGACACAATCTCCAC
* *
210587 AAGTGTCGATACATGTTGTAGACCTATTCTCTTATAAAACCGGTATATTTATACCGGTTACATTG
66 AAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATATCGGTTACATTG
*
210652 AAAAATTACCTATTACATTATACTTATGAGTTTCGATGTTTCTGGGATCGATACTTTTTAAAAAT
131 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTAAAAAT
210717 GTATCG
196 GTATCG
210723 ACACTATATGGGTGCA-CCTTTTTGGGATTTGATTCTGTT
1 ACACTATATGGGTGCACCCTTTTTGGGATTTGATTCTGTT
210762 GAAAATATTT
Statistics
Matches: 386, Mismatches: 51, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
199 14 0.04
200 346 0.90
201 26 0.07
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (201 bp):
ACACTATATGGGTGCACCCTTTTTGGGATTTGATTCTGTTCCAAAAGTATCGACACAATCTCCAC
AAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTATATCGGTTACATTG
AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTAAAAAT
GTATCG
Found at i:211045 original size:21 final size:21
Alignment explanation
Indices: 211001--211045 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
210991 CAGATTGCCT
* *
211001 AGGGGGTACAGATTCCCCCCC
1 AGGGGGAACAGATTCCCCCAC
*
211022 AGGGGGAACAGATTCCCTCAC
1 AGGGGGAACAGATTCCCCCAC
211043 AGG
1 AGG
211046 ATTTACCGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.31, G:0.31, T:0.13
Consensus pattern (21 bp):
AGGGGGAACAGATTCCCCCAC
Found at i:213755 original size:20 final size:21
Alignment explanation
Indices: 213725--213764 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
213715 AAGGGGTACA
213725 GATTCCCCCCCAGGAGGAACC
1 GATTCCCCCCCAGGAGGAACC
*
213746 GATT-CCCCCCAGGGGGAAC
1 GATTCCCCCCCAGGAGGAAC
213765 ATATTTCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.23, C:0.40, G:0.28, T:0.10
Consensus pattern (21 bp):
GATTCCCCCCCAGGAGGAACC
Found at i:213772 original size:21 final size:21
Alignment explanation
Indices: 213712--213778 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
213702 AATCAGATTG
* * *
213712 CCCAAGGGGTACAGATTCCCC
1 CCCAGGGGGAACAGATTTCCC
* *
213733 CCCAGGAGGAACCGA-TTCCC
1 CCCAGGGGGAACAGATTTCCC
* *
213753 CCCAGGGGGAACATATTTCCT
1 CCCAGGGGGAACAGATTTCCC
213774 CCCAG
1 CCCAG
213779 TGGGTACCGA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.24, C:0.37, G:0.24, T:0.15
Consensus pattern (21 bp):
CCCAGGGGGAACAGATTTCCC
Found at i:216740 original size:33 final size:33
Alignment explanation
Indices: 216703--216768 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
216693 CATCTTAAGA
*
216703 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
216736 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
216769 CCATCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:216793 original size:15 final size:15
Alignment explanation
Indices: 216768--216804 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
216758 CTTTCACCAC
216768 TCCATCTATTTTTCCA
1 TCCA-CTATTTTTCCA
*
216784 TCCACTATTTTTCCT
1 TCCACTATTTTTCCA
216799 TCCACT
1 TCCACT
216805 TCCCCTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.16, C:0.35, G:0.00, T:0.49
Consensus pattern (15 bp):
TCCACTATTTTTCCA
Found at i:216842 original size:21 final size:21
Alignment explanation
Indices: 216817--216881 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
216807 CCCTTTATTC
*
216817 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
216838 CTCTCAAGTTTCTCTTTGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
216859 TTCTCAAGTTTCTCTTCAACT
1 CTCTCAAGTTTCTCTTCGACT
216880 CT
1 CT
216882 TGATTGTCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.15, C:0.31, G:0.09, T:0.45
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:219573 original size:182 final size:183
Alignment explanation
Indices: 219081--219561 Score: 743
Period size: 182 Copynumber: 2.6 Consensus size: 183
219071 TACACGTACT
* * * *
219081 TATTAAAGTATCGACACTATAAATATATCCGGTAGTGATTTACCGATTTTATCATTTCGATATCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCGGTTTTATCATTTCGATATCG
* * * *
219146 GTTTTGTTATAGTTTTACCTGTTATATCGTTGTGGAACGATATATTTTTT-TAAAGTATCGACAC
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTATAAAGTATCGACAC
*
219210 TTTATAGGCGTTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* *
219263 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCAATTTACCGGTTTTATCATTTCGATACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCGGTTTTATCATTTCGATATCG
*
219328 GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACA-TTTTTATAAAGTATCGACAC
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTATAAAGTATCGACAC
219392 TTTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * *
219445 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTATTGTCTTTTCG-TGATC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCGGTTTTATCATTTCGAT-ATC
* * * * *
219509 GGTTTTGTCATATTTTTACCTGTTATATTGATATAGATTGATACATTTTTTAT
65 GGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTAT
219562 TTGGATCGAC
Statistics
Matches: 272, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
181 6 0.02
182 259 0.95
183 7 0.03
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (183 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCGGTTTTATCATTTCGATATCG
GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTATAAAGTATCGACAC
TTTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:220753 original size:21 final size:21
Alignment explanation
Indices: 220729--220772 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
220719 CCAACCCGAC
*
220729 CCATTGACTC-TTGACTGTTAA
1 CCATTGA-TCGTTGACCGTTAA
220750 CCATTGATCGTTGACCGTTAA
1 CCATTGATCGTTGACCGTTAA
220771 CC
1 CC
220773 GTTAACTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (21 bp):
CCATTGATCGTTGACCGTTAA
Found at i:225701 original size:22 final size:19
Alignment explanation
Indices: 225676--225721 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
225666 AAAAAATATC
225676 TAAAATATATTATAATTATTAA
1 TAAAATATA--ATAATT-TTAA
225698 TAAAATATAATAATTTTAA
1 TAAAATATAATAATTTTAA
225717 -AAAAT
1 TAAAAT
225722 TTAAACAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.21
19 4 0.17
20 6 0.25
22 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAAATATAATAATTTTAA
Found at i:248047 original size:24 final size:24
Alignment explanation
Indices: 248020--248092 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
248010 CGTTCATTTA
248020 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* * * *
248044 CGTTTGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
* * * *
248068 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
248092 C
1 C
248093 ATTCATTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 40 0.95
25 2 0.05
ACGTcount: A:0.11, C:0.14, G:0.25, T:0.51
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:248052 original size:14 final size:14
Alignment explanation
Indices: 248030--248086 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
248020 CGTTCGTGAA
*
248030 CGTTCGGTTATGTT
1 CGTTTGGTTATGTT
248044 CGTTTGGTTATGTT
1 CGTTTGGTTATGTT
248058 CG--T--TTATGTT
1 CGTTTGGTTATGTT
* *
248068 CGTTCGATTATGTT
1 CGTTTGGTTATGTT
248082 CGTTT
1 CGTTT
248087 ATGTTCATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 9 0.25
12 1 0.03
14 26 0.72
ACGTcount: A:0.09, C:0.12, G:0.25, T:0.54
Consensus pattern (14 bp):
CGTTTGGTTATGTT
Found at i:248102 original size:24 final size:24
Alignment explanation
Indices: 248031--248105 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
248021 GTTCGTGAAC
* * * *
248031 GTTCGGTTATGTTCGTTTGGTTAT
1 GTTCGTTTATGTTCATTCGATTAT
*
248055 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCATTCGATTAT
248079 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCATTCGA-TTAT
248103 GTT
1 GTT
248106 TAATACAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 45 0.98
ACGTcount: A:0.12, C:0.11, G:0.21, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCGATTAT
Found at i:248843 original size:10 final size:10
Alignment explanation
Indices: 248828--248902 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
248818 GGGCCTCCAA
248828 CGTTTATGTT
1 CGTTTATGTT
248838 CGTTTATGTT
1 CGTTTATGTT
248848 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
248859 ATGTTCGTGTT
1 -CGTTTATGTT
248870 CGTTTATGTT
1 CGTTTATGTT
248880 CG----TGTT
1 CGTTTATGTT
248886 CGTTTATGTT
1 CGTTTATGTT
248896 CGTTTAT
1 CGTTTAT
248903 TTAAAATGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:248859 original size:16 final size:16
Alignment explanation
Indices: 248834--248898 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
248824 CCAACGTTTA
248834 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
248850 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
248866 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
248882 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
248898 T
1 T
248899 TTATTTAAAA
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:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Done.