Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 144 of 182
Found at i:44444577 original size:16 final size:16
Alignment explanation
Indices: 44444556--44444588 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
44444546 GGATATTGAC
44444556 TTTGAATGCTCAAAAA
1 TTTGAATGCTCAAAAA
44444572 TTTGAATGCTCAAAAA
1 TTTGAATGCTCAAAAA
44444588 T
1 T
44444589 CAGTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (16 bp):
TTTGAATGCTCAAAAA
Found at i:44446984 original size:52 final size:53
Alignment explanation
Indices: 44446904--44447039 Score: 184
Period size: 53 Copynumber: 2.6 Consensus size: 53
44446894 TAAATGACTA
* * * ** *
44446904 AGGTCAGATGACTATGTGTCATCTTGAGTATATGAATCC-TTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTTACAGAACAAG
* *
44446956 AGGTCCGATGACTATGTGTCATCGTGAGTGTATGATTCCTTTTACAGAACAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTTACAGAACAAG
*
44447009 AGGTCCAATGACTATGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
44447040 TAAATGAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
52 35 0.48
53 38 0.52
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.34
Consensus pattern (53 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTTACAGAACAAG
Found at i:44448195 original size:29 final size:29
Alignment explanation
Indices: 44448153--44448216 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
44448143 ATTTTGTTAC
*
44448153 GTGATAATGCTCTTTGTTGAGTTAATTAT
1 GTGATAATGCTCTTTGTTAAGTTAATTAT
44448182 GTGATAATGCTCTTTGTTAAGTTAATTAT
1 GTGATAATGCTCTTTGTTAAGTTAATTAT
*
44448211 ATGATA
1 GTGATA
44448217 TTGTTATGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.28, C:0.06, G:0.19, T:0.47
Consensus pattern (29 bp):
GTGATAATGCTCTTTGTTAAGTTAATTAT
Found at i:44448242 original size:29 final size:28
Alignment explanation
Indices: 44448210--44448264 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
44448200 AAGTTAATTA
44448210 TATGATATTGTTATGAGATGTGTTATCAG
1 TATGATATTGTT-TGAGATGTGTTATCAG
* * *
44448239 TATGATCTTGTTTGTGTTGTGTTATC
1 TATGATATTGTTTGAGATGTGTTATC
44448265 TCATGTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.20, C:0.05, G:0.24, T:0.51
Consensus pattern (28 bp):
TATGATATTGTTTGAGATGTGTTATCAG
Found at i:44453953 original size:13 final size:13
Alignment explanation
Indices: 44453931--44453968 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
44453921 TTTTTGGCAA
44453931 GGAAGGGGGAAG-G
1 GGAA-GGGGAAGAG
44453944 GGAAGAGGGAAGAG
1 GGAAG-GGGAAGAG
44453958 GGAAGGGGAAG
1 GGAAGGGGAAG
44453969 TTTGCTCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.04
13 16 0.70
14 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (13 bp):
GGAAGGGGAAGAG
Found at i:44453960 original size:20 final size:20
Alignment explanation
Indices: 44453931--44453968 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
44453921 TTTTTGGCAA
*
44453931 GGAAGGGGGAAGGGGAAGAG
1 GGAAGAGGGAAGGGGAAGAG
44453951 GGAAGAGGGAAGGGGAAG
1 GGAAGAGGGAAGGGGAAG
44453969 TTTGCTCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (20 bp):
GGAAGAGGGAAGGGGAAGAG
Found at i:44454115 original size:13 final size:13
Alignment explanation
Indices: 44454093--44454130 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
44454083 TTTTTGGCAA
44454093 GGAAGGGGGAAG-G
1 GGAA-GGGGAAGAG
44454106 GGAAGAGGGAAGAG
1 GGAAG-GGGAAGAG
44454120 GGAAGGGGAAG
1 GGAAGGGGAAG
44454131 TTTGCTCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.04
13 16 0.70
14 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (13 bp):
GGAAGGGGAAGAG
Found at i:44454122 original size:20 final size:20
Alignment explanation
Indices: 44454093--44454130 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
44454083 TTTTTGGCAA
*
44454093 GGAAGGGGGAAGGGGAAGAG
1 GGAAGAGGGAAGGGGAAGAG
44454113 GGAAGAGGGAAGGGGAAG
1 GGAAGAGGGAAGGGGAAG
44454131 TTTGCTCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (20 bp):
GGAAGAGGGAAGGGGAAGAG
Found at i:44454129 original size:162 final size:161
Alignment explanation
Indices: 44453862--44454187 Score: 634
Period size: 162 Copynumber: 2.0 Consensus size: 161
44453852 AAAGATCTAT
44453862 GGGATTCTAAAGATACACCATTGGGAGCCAACGGTGAGAGCTGAAATAAAGTTCAATTCTTTTTG
1 GGGATTCTAAAGATACACCATTGGGAGCCAACGGTGAGAGCTGAAATAAAGTTCAATTCTTTTTG
44453927 GCAAGGAAGGGGGAAGGGGAAGAGGGAAGAGGGAAGGGGAAGTTTGCTCTGGGATGTGTCTGGAA
66 GCAAGGAAGGGGGAAGGGGAAGAGGGAAGAGGGAAGGGGAAGTTTGCTCTGGGATGTGTCTGG-A
44453992 AAAAAATGGAAAATGTCTTACCGAATAAAAAA
130 AAAAAATGGAAAATGTCTTACCGAATAAAAAA
*
44454024 GGGATTCTAAAGATACACCATTGGGAGCCAATGGTGAGAGCTGAAATAAAGTTCAATTCTTTTTG
1 GGGATTCTAAAGATACACCATTGGGAGCCAACGGTGAGAGCTGAAATAAAGTTCAATTCTTTTTG
44454089 GCAAGGAAGGGGGAAGGGGAAGAGGGAAGAGGGAAGGGGAAGTTTGCTCTGGGATGTGTCTGGAA
66 GCAAGGAAGGGGGAAGGGGAAGAGGGAAGAGGGAAGGGGAAGTTTGCTCTGGGATGTGTCTGGAA
44454154 AAAAATGGAAAATGTCTTACCGAATAAAAAA
131 AAAAATGGAAAATGTCTTACCGAATAAAAAA
44454185 GGG
1 GGG
44454188 TAAGATGTTT
Statistics
Matches: 163, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
161 36 0.22
162 127 0.78
ACGTcount: A:0.36, C:0.10, G:0.33, T:0.21
Consensus pattern (161 bp):
GGGATTCTAAAGATACACCATTGGGAGCCAACGGTGAGAGCTGAAATAAAGTTCAATTCTTTTTG
GCAAGGAAGGGGGAAGGGGAAGAGGGAAGAGGGAAGGGGAAGTTTGCTCTGGGATGTGTCTGGAA
AAAAATGGAAAATGTCTTACCGAATAAAAAA
Found at i:44455277 original size:7 final size:7
Alignment explanation
Indices: 44455265--44455306 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
44455255 TGATTCAAAA
44455265 GCCCGTT
1 GCCCGTT
44455272 GCCCGTT
1 GCCCGTT
44455279 GCCCGTT
1 GCCCGTT
44455286 GCCCGTT
1 GCCCGTT
* *
44455293 ACCTGTT
1 GCCCGTT
*
44455300 ACCCGTT
1 GCCCGTT
44455307 ATTGCAGAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.05, C:0.40, G:0.24, T:0.31
Consensus pattern (7 bp):
GCCCGTT
Found at i:44462994 original size:4 final size:4
Alignment explanation
Indices: 44462987--44463017 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
44462977 CATACATACA
44462987 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
44463018 AGGAGTGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:44468704 original size:22 final size:22
Alignment explanation
Indices: 44468679--44468762 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 22
44468669 TAAACTTTTT
*
44468679 TTTTGCTATTATTTTGTTACTG
1 TTTTGCTATCATTTTGTTACTG
* *
44468701 TTTTGCTGTCATTTTGTTGCTG
1 TTTTGCTATCATTTTGTTACTG
* * * * *
44468723 TTTTGTTGTCATTTCGTTATTA
1 TTTTGCTATCATTTTGTTACTG
* *
44468745 TATTGCTATTATTTTGTT
1 TTTTGCTATCATTTTGTT
44468763 GTTATGATTG
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.12, C:0.10, G:0.15, T:0.63
Consensus pattern (22 bp):
TTTTGCTATCATTTTGTTACTG
Found at i:44471685 original size:94 final size:93
Alignment explanation
Indices: 44471517--44471709 Score: 314
Period size: 94 Copynumber: 2.1 Consensus size: 93
44471507 ACACTTCTTA
* * *
44471517 TTATTTCATAACATTTATGATGAAAAACGTTAAAAAAATTTATTTTTTCTTATTTTTAAAGTTAA
1 TTATTTCATAACATTTATGATGAAAAACGTTAAAAAAAATTATTTTATCATATTTTTAAAGTTAA
* *
44471582 AAGATTGAAATATCAACTCGATAATTGT
66 AAAATTGAAATATCAACTCGATAATTAT
44471610 TTATTTCATAACATTTATGATGAAAAACGTTAAAAAAAAATTATTTTATCATATTTTTAAAGTTA
1 TTATTTCATAACATTTATGATGAAAAACGTT-AAAAAAAATTATTTTATCATATTTTTAAAGTTA
* *
44471675 AAAAATTGAAATATTAATTCGATAATTAT
65 AAAAATTGAAATATCAACTCGATAATTAT
44471704 TTATTT
1 TTATTT
44471710 TAGAAAATGA
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
93 31 0.34
94 61 0.66
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (93 bp):
TTATTTCATAACATTTATGATGAAAAACGTTAAAAAAAATTATTTTATCATATTTTTAAAGTTAA
AAAATTGAAATATCAACTCGATAATTAT
Found at i:44485392 original size:21 final size:21
Alignment explanation
Indices: 44485368--44485421 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
44485358 CCTGTGCTAG
44485368 TTCTACCGATACAAGT-ATGAT
1 TTCTACCGATACAAGTCATG-T
* *
44485389 TTCTACTGCTACAAGTCATGT
1 TTCTACCGATACAAGTCATGT
**
44485410 AACTACCGATAC
1 TTCTACCGATAC
44485422 CAAAAACTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (21 bp):
TTCTACCGATACAAGTCATGT
Found at i:44487820 original size:149 final size:148
Alignment explanation
Indices: 44487547--44487840 Score: 407
Period size: 149 Copynumber: 2.0 Consensus size: 148
44487537 TAATTATAAG
*
44487547 ATTGAAGAGTGTTTTGGAAACTTTTGAAAAGGAATATCCGAGTTGCATGAATTACGAAAATCACA
1 ATTGAAGAGTGTTTCGGAAACTTTTGAAAAGGAATATCCGAGTTGCATGAATTACGAAAATCACA
* * *
44487612 CTTAACACGTTAAAGCGATTCCTCGAAGTTTTCACACGAAAGGACATTACCTCGTTTTAAAATTA
66 CTTAACACATTAAAGCGATTCCTCGAACTTTTCACACGAAAGGACATTACCTCGCTTTAAAATTA
*
44487677 TTTGTGATATAGATAAAA
131 TTTGTAATATAGATAAAA
* *
44487695 ATTGAAG-GATGTTTCGGAAACTTTTGAAGAGG-ATATCTGA-TTCGCATGAATTACGAAAATCA
1 ATTGAAGAG-TGTTTCGGAAACTTTTGAAAAGGAATATCCGAGTT-GCATGAATTACGAAAATCA
** * * *
44487757 CACTTAACACATTAAAGCGCGATTTTTTGGACTTTTCACAC-AATAGGACATTGCCTCGCTTTAA
64 CACTTAACACATTAAA--GCGATTCCTCGAACTTTTCACACGAA-AGGACATTACCTCGCTTTAA
44487821 AATTATTTGTAATATAGATA
126 AATTATTTGTAATATAGATA
44487841 TTGTTTTGAG
Statistics
Matches: 129, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
146 2 0.02
147 42 0.33
148 30 0.23
149 55 0.43
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (148 bp):
ATTGAAGAGTGTTTCGGAAACTTTTGAAAAGGAATATCCGAGTTGCATGAATTACGAAAATCACA
CTTAACACATTAAAGCGATTCCTCGAACTTTTCACACGAAAGGACATTACCTCGCTTTAAAATTA
TTTGTAATATAGATAAAA
Found at i:44488472 original size:60 final size:59
Alignment explanation
Indices: 44488384--44488660 Score: 233
Period size: 60 Copynumber: 4.6 Consensus size: 59
44488374 TTTTCTTGTA
* *
44488384 ATGAAATC-AGGGTTAAAAATGAAATTTTGGAAAGTTTGGGGTTAAAATGGTAATTTTTG
1 ATGAAATCGA-GGTCAAAAATGGAATTTTGGAAAGTTTGGGGTTAAAATGGTAATTTTTG
* * * * *
44488443 ATGAAATCGAGGTCAAAAAATGGGATTTTGGAAGGTTCGGGGGTAAAATAGTAATTTTTG
1 ATGAAATCGAGGTC-AAAAATGGAATTTTGGAAAGTTTGGGGTTAAAATGGTAATTTTTG
* * * * * * * *
44488503 ATAAAATTGGGGGT-AAAAATGGGATTTTGGAAAGTTCGAGGGGTAAAAACGATAATTTTTGG
1 ATGAAA-TCGAGGTCAAAAATGGAATTTTGGAAAGTT--TGGGGTTAAAATGGTAATTTTT-G
* * * *
44488565 GTGAAATCGAGGTTACAAAATGGAATTTTGGAAGGTTTGAGGG-TAAAATGGT-ATTTTGGG
1 ATGAAATCGAGGTCA-AAAATGGAATTTTGGAAAGTTTG-GGGTTAAAATGGTAATTTT-TG
* *
44488625 GTTAAATC-AGGGTCAAAAATGGAATTTT-GAAAGTTT
1 ATGAAATCGA-GGTCAAAAATGGAATTTTGGAAAGTTT
44488661 AGAGTAAGTA
Statistics
Matches: 176, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
58 7 0.04
59 46 0.26
60 62 0.35
61 33 0.19
62 9 0.05
63 19 0.11
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.32
Consensus pattern (59 bp):
ATGAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTTGGGGTTAAAATGGTAATTTTTG
Found at i:44488546 original size:30 final size:29
Alignment explanation
Indices: 44488458--44488551 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 29
44488448 ATCGAGGTCA
*
44488458 AAAAATGGGATTTTGGAAGGTTCGGGGGT
1 AAAAATGGGATTTTGGAAAGTTCGGGGGT
** * *
44488487 -AAAATAGTAATTTTTGATAAAATT-GGGGGT
1 AAAAAT-GGGA-TTTTG-GAAAGTTCGGGGGT
44488517 AAAAATGGGATTTTGGAAAGTTCGAGGGGT
1 AAAAATGGGATTTTGGAAAGTTCG-GGGGT
44488547 AAAAA
1 AAAAA
44488552 CGATAATTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
28 10 0.20
29 8 0.16
30 23 0.46
31 9 0.18
ACGTcount: A:0.37, C:0.02, G:0.32, T:0.29
Consensus pattern (29 bp):
AAAAATGGGATTTTGGAAAGTTCGGGGGT
Found at i:44488643 original size:122 final size:118
Alignment explanation
Indices: 44488387--44488659 Score: 307
Period size: 122 Copynumber: 2.3 Consensus size: 118
44488377 TCTTGTAATG
* * * * *
44488387 AAATCAGGGTTAAAAATGAAATTTTGGAAAGTTTGGGGTTAAAATGGTAATTTTTGATGAAATCG
1 AAATCAGGG-TAAAAATGGAATTTTGGAAAGTTAGGGGTAAAAACGATAATTTTTGATGAAATCG
* * *
44488452 AGGTCAAAAAATGGGATTTTGGAAGGTTCGGGGGTAAAATAGTAATTTTTGATA
65 AGGTCAAAAAATGGAATTTTGGAAGGTTCGAGGGTAAAATAGTAATTTTGGATA
** * *
44488506 AAATTGGGGGTAAAAATGGGATTTTGGAAAGTTCGAGGGGTAAAAACGATAATTTTTGGGTGAAA
1 AAA-TCAGGGTAAAAATGGAATTTTGGAAAGTT--AGGGGTAAAAACGATAATTTTT-GATGAAA
* * * * * *
44488571 TCGAGGTTACAAAATGGAATTTTGGAAGGTTTGAGGGTAAAATGGT-ATTTTGGGGTT
62 TCGAGGTCAAAAAATGGAATTTTGGAAGGTTCGAGGGTAAAATAGTAATTTT-GGATA
44488628 AAATCAGGGTCAAAAATGGAATTTT-GAAAGTT
1 AAATCAGGGT-AAAAATGGAATTTTGGAAAGTT
44488660 TAGAGTAAGT
Statistics
Matches: 127, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
119 24 0.19
120 4 0.03
121 35 0.28
122 64 0.50
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.32
Consensus pattern (118 bp):
AAATCAGGGTAAAAATGGAATTTTGGAAAGTTAGGGGTAAAAACGATAATTTTTGATGAAATCGA
GGTCAAAAAATGGAATTTTGGAAGGTTCGAGGGTAAAATAGTAATTTTGGATA
Found at i:44490700 original size:17 final size:17
Alignment explanation
Indices: 44490678--44490717 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
44490668 ATTTTTGAAC
* *
44490678 TTAAATTTAGAGCAAAT
1 TTAAATTTAAAACAAAT
*
44490695 TTAAATTTAAAATAAAT
1 TTAAATTTAAAACAAAT
44490712 TTAAAT
1 TTAAAT
44490718 CCATTTTGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (17 bp):
TTAAATTTAAAACAAAT
Found at i:44496272 original size:22 final size:22
Alignment explanation
Indices: 44496246--44496294 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
44496236 TTTATTTAAA
*
44496246 TTTAAAATCTCCAACGATTACT
1 TTTAAAAGCTCCAACGATTACT
44496268 TTTAAAAGCTCCAACGATTACT
1 TTTAAAAGCTCCAACGATTACT
44496290 TTTAA
1 TTTAA
44496295 TATTATCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (22 bp):
TTTAAAAGCTCCAACGATTACT
Found at i:44496897 original size:54 final size:53
Alignment explanation
Indices: 44496832--44496991 Score: 245
Period size: 52 Copynumber: 3.0 Consensus size: 53
44496822 GTTTTAGTAT
* * *
44496832 TTTTATCTTCTTTTTATTCAAAGTTTAAATTTTCAAACGCTCTCCAACGGTTAC
1 TTTTATTTTCTTTTTATTCAAATTTTAAGTTTTCAAACGC-CTCCAACGGTTAC
*
44496886 TTTTATTTTCTTTTTATTAAAATTTTAAGTTTTCAAACG-CTCCAACGGTTAC
1 TTTTATTTTCTTTTTATTCAAATTTTAAGTTTTCAAACGCCTCCAACGGTTAC
44496938 TTTT-TTTTCCTTTTTATTCAAATTTTAAGTTTTCAAACGCC-CCAACGGTTAC
1 TTTTATTTT-CTTTTTATTCAAATTTTAAGTTTTCAAACGCCTCCAACGGTTAC
44496990 TT
1 TT
44496992 ACACTCCAAC
Statistics
Matches: 99, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
51 4 0.04
52 59 0.60
53 1 0.01
54 35 0.35
ACGTcount: A:0.25, C:0.19, G:0.07, T:0.49
Consensus pattern (53 bp):
TTTTATTTTCTTTTTATTCAAATTTTAAGTTTTCAAACGCCTCCAACGGTTAC
Found at i:44497031 original size:67 final size:69
Alignment explanation
Indices: 44496925--44497074 Score: 214
Period size: 67 Copynumber: 2.2 Consensus size: 69
44496915 TTTTCAAACG
* *
44496925 CTCCAACGGTTACTTTTTTTTCCTTTTTATTCAAATTTTAAGTTTTCAAACGCCCCAACGGTTAC
1 CTCCAACGGTTACTTTTTATT-CTTTTTATTCAAATTTTAAGTTTTCAAACGCCCCAACGATTAC
44496990 TTACA
65 TTACA
* **
44496995 CTCCAACGGTTAC-TTTTATT-TTTTTATTCAAATTTTAAGTTTTCAGACGTTCCAACGATTACT
1 CTCCAACGGTTACTTTTTATTCTTTTTATTCAAATTTTAAGTTTTCAAACGCCCCAACGATTACT
**
44497058 TATG
66 TACA
44497062 CTCCAACGGTTAC
1 CTCCAACGGTTAC
44497075 CTACACTCCA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
67 54 0.74
69 6 0.08
70 13 0.18
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.43
Consensus pattern (69 bp):
CTCCAACGGTTACTTTTTATTCTTTTTATTCAAATTTTAAGTTTTCAAACGCCCCAACGATTACT
TACA
Found at i:44497068 original size:18 final size:18
Alignment explanation
Indices: 44497045--44497094 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
44497035 TTTCAGACGT
* **
44497045 TCCAACGATTACTTATGC
1 TCCAACGGTTACTTACAC
*
44497063 TCCAACGGTTACCTACAC
1 TCCAACGGTTACTTACAC
44497081 TCCAACGGTTACTT
1 TCCAACGGTTACTT
44497095 TTATTTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (18 bp):
TCCAACGGTTACTTACAC
Found at i:44497122 original size:85 final size:85
Alignment explanation
Indices: 44496979--44497136 Score: 289
Period size: 85 Copynumber: 1.9 Consensus size: 85
44496969 TTCAAACGCC
* *
44496979 CCAACGGTTACTTACACTCCAACGGTTACTTTTATTTTTTTATTCAAATTTTAAGTTTTCAGACG
1 CCAACGGTTACCTACACTCCAACGGTTACTTTTATTTTTTTATTCAAATTTTAAGTTTTCAAACG
*
44497044 TTCCAACGATTACTTATGCT
66 CTCCAACGATTACTTATGCT
44497064 CCAACGGTTACCTACACTCCAACGGTTACTTTTATTTTTTTATTCAAATTTTAAGTTTTCAAACG
1 CCAACGGTTACCTACACTCCAACGGTTACTTTTATTTTTTTATTCAAATTTTAAGTTTTCAAACG
44497129 CTCCAACG
66 CTCCAACG
44497137 GTTATCTCCT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.41
Consensus pattern (85 bp):
CCAACGGTTACCTACACTCCAACGGTTACTTTTATTTTTTTATTCAAATTTTAAGTTTTCAAACG
CTCCAACGATTACTTATGCT
Found at i:44498068 original size:141 final size:134
Alignment explanation
Indices: 44497774--44498057 Score: 480
Period size: 141 Copynumber: 2.1 Consensus size: 134
44497764 AAAAAGTTAT
44497774 TAATAATTTTAGGTTTATTATTTCGTATAATATAATATAGTCATTGAGGCAATTGTCATTTATCT
1 TAATAATTTTAGGTTTATTATTTCGTATAATATAATATAGTCATTGAGGCAATTGTCATTTATCT
44497839 TTCAATTATATGATAATTAGTTTCTAACCCATGCGATATGAATGTTTTTAATTTGATTTGATATA
66 TTCAATTATATGATAATTAGTTTCTAACCCATGCGATATGAATGTTTTTAATTTGATTTGATATA
44497904 TAAA
131 TAAA
44497908 TAATAATTTTAGGTTTATTATTTCGTATAATATAATATAGTCATTGAAATTCTAGGCAATTGTCA
1 TAATAATTTTAGGTTTATTATTTCGTATAATATAATATAGTCATTG-------AGGCAATTGTCA
44497973 TTTATCTTTCAATTATATGATAATTAGTTTCTAACCCATGCGATATGAATG-TTTTAATTTGATT
59 TTTATCTTTCAATTATATGATAATTAGTTTCTAACCCATGCGATATGAATGTTTTTAATTTGATT
*
44498037 TGATATATAAC
124 TGATATATAAA
*
44498048 TGATAATTTT
1 TAATAATTTT
44498058 GTTTTTTATT
Statistics
Matches: 141, Mismatches: 2, Indels: 8
0.93 0.01 0.05
Matches are distributed among these distances:
134 46 0.33
140 32 0.23
141 63 0.45
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.46
Consensus pattern (134 bp):
TAATAATTTTAGGTTTATTATTTCGTATAATATAATATAGTCATTGAGGCAATTGTCATTTATCT
TTCAATTATATGATAATTAGTTTCTAACCCATGCGATATGAATGTTTTTAATTTGATTTGATATA
TAAA
Found at i:44499774 original size:50 final size:48
Alignment explanation
Indices: 44499678--44499786 Score: 173
Period size: 50 Copynumber: 2.2 Consensus size: 48
44499668 TCATCCTTAT
* *
44499678 AATGTTGTTTCTGTGGCTGAATTCTTTTTGATTTAGTAGTTAGCTTGC
1 AATGTTGTTTTTGTGGCTGAATTCTTTTTGATTAAGTAGTTAGCTTGC
*
44499726 AATGTTGTTTTTGTGGCTTGAATTCTTTTTTGATTAAGTAGTTTGCTTGC
1 AATGTTGTTTTTGTGGC-TGAATTC-TTTTTGATTAAGTAGTTAGCTTGC
44499776 AATGTTGTTTT
1 AATGTTGTTTT
44499787 ACATCGTTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 16 0.29
49 7 0.12
50 33 0.59
ACGTcount: A:0.17, C:0.08, G:0.22, T:0.53
Consensus pattern (48 bp):
AATGTTGTTTTTGTGGCTGAATTCTTTTTGATTAAGTAGTTAGCTTGC
Found at i:44500331 original size:49 final size:49
Alignment explanation
Indices: 44500259--44500367 Score: 191
Period size: 49 Copynumber: 2.2 Consensus size: 49
44500249 TCATCCTTAT
* *
44500259 AATGTTGTTTCTGTGGCTTGAATTCTTTTTGATTTAGTAGTTAGCTTGC
1 AATGTTGTTTTTGTGGCTTGAATTCTTTTTGATTAAGTAGTTAGCTTGC
*
44500308 AATGTTGTTTTTGTGGCTTGAATTCTTTTTGATTAAGTAGTTTGCTTGC
1 AATGTTGTTTTTGTGGCTTGAATTCTTTTTGATTAAGTAGTTAGCTTGC
44500357 AATGTTGTTTT
1 AATGTTGTTTT
44500368 ACATCGTCAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 57 1.00
ACGTcount: A:0.17, C:0.08, G:0.22, T:0.53
Consensus pattern (49 bp):
AATGTTGTTTTTGTGGCTTGAATTCTTTTTGATTAAGTAGTTAGCTTGC
Found at i:44500418 original size:590 final size:590
Alignment explanation
Indices: 44499131--44500755 Score: 2499
Period size: 590 Copynumber: 2.8 Consensus size: 590
44499121 TCATCCTTAT
* *
44499131 AATGTTGTTTTTGTGGCTTTAATTCTTTTTGATTAACTAGTTTGCTTGCAATGTTGTTTTACATC
1 AATGTTGTTTTTGTGGCTTGAATTCTTTTTGATTAAGTAGTTTGCTTGCAATGTTGTTTTACATC
*
44499196 GTTATTTTTGGTAGTTTATGATCATACT-C-TAAGATTATTCTTGTATGATTTTAGATATTTAAG
66 GTTATTTTTGGTAGTTTATGATCATACTCCTTAAGATTGTTCTTGTATGATTTTAGATATTTAAG
*
44499259 TTACCATTATTTATAATCTTAAGGGATAAGATTGTTTAGATTAAATTCCTTAAGACTAATCTTGT
131 TTACCATTATTTATAATCTTAAGGGATAAGATTGTTTAGATTAAATCCCTTAAGACTAATCTTGT
* * *
44499324 AAATAAGCTTTAATATCGATAGTCGATATCTCTTTGTGGTGGTTGATTATTTTGCCTAGTATGAT
196 AAATAGGCTTTAATATCGACAGTCGATATCTCTTTGTGGTGGTTGATTATTTTTCCTAGTATGA-
*
44499389 ACATTTTATTACCCTTTCTCATCCTTATAATGTTGTTTCTGTTGTTTGAATTCTTTTTGATTTAG
260 ACATTTTATTACCCTTTCTCATCCTTATAATGTTTTTTCTGTTGTTTGAATTCTTTTTGATTTAG
* * * *
44499454 TAGTTTCCTTGCAGTGTTGTTTTAAATCGTCATTTTTGGTAGTTTATGAACATACTCCTCTATGA
325 TAGTTTGCTTGCAGTGTTGTTTTAGATCGTCATTTTTGGTAGTTTATGAACATACTCCTATAAGA
* *
44499519 TTGTTCTGGTATGGTTTTAGGTATTTTAGTTACCATTATTTATAATCTTAAGGGATAAAATCTTG
390 TTGTTCTTGTATGATTTTAGGTATTTTAGTTACCATTATTTATAATCTTAAGGGAT--AATCTTG
* * *
44499584 TAAATAGGCTTTTAATATCGACTGTCGATCTCTCTTTTTGGTGGTTGATTATTTTTCCTAGTGTG
453 TAAATAGGCTTTTAATATAGACTGTCGATATCTCTTTGTGGTGGTTGATTATTTTTCC-A-TGT-
**
44499649 ATCATTTTATTACCCTTTCTCATCCTTATAATGTTGTTTCTGTGGCTGAATTCTTTTTGATTTAG
515 ATCA-TTTACCACCCTTTCTCATCCTTATAATGTTGTTTCTGTGGCTGAATTCTTTTTGATTTAG
44499714 TAGTTAGCTTGC
579 TAGTTAGCTTGC
44499726 AATGTTGTTTTTGTGGCTTGAATTCTTTTTTGATTAAGTAGTTTGCTTGCAATGTTGTTTTACAT
1 AATGTTGTTTTTGTGGCTTGAATTC-TTTTTGATTAAGTAGTTTGCTTGCAATGTTGTTTTACAT
* * *
44499791 CGTTATTTTTGGTAG--T-T-A-C-TCCT-C-TAAGCTTGTTCTTGTATGATTTTAGATATTTTA
65 CGTTATTTTTGGTAGTTTATGATCATACTCCTTAAGATTGTTCTTGTATGATTTTAGATATTTAA
*
44499848 GTTACCATTATTTATAATCTTAAGGGATAAGATTGTTTAGATTAAATCCCTTAAGATTAATCTTG
130 GTTACCATTATTTATAATCTTAAGGGATAAGATTGTTTAGATTAAATCCCTTAAGACTAATCTTG
44499913 TAAATAGGCTTTATTTAATATCGACAGTCGATATCTCTTTGTGGTGGTTGATTATTTTTCCTAGT
195 TAAATAGGC----TTTAATATCGACAGTCGATATCTCTTTGTGGTGGTTGATTATTTTTCCTAGT
44499978 ATGAGACATTTTATTACCCTTTCTCATCCTTATAATGTTTTTTCTGTTGTTTGAATTCTTTTT-A
256 ATGA-ACATTTTATTACCCTTTCTCATCCTTATAATGTTTTTTCTGTTGTTTGAATTCTTTTTGA
44500042 TTTAGTAGTTTGCTTGCAGTGTTGTTTTAGATCGTCATTTTTGGTAGTTTATGAACATACTCCTA
320 TTTAGTAGTTTGCTTGCAGTGTTGTTTTAGATCGTCATTTTTGGTAGTTTATGAACATACTCCTA
44500107 TAAGATTGTTCTTGTATGATTTTAGGTATTTTAGTTACCATTATTTATAATCTTAAGGGATAATC
385 TAAGATTGTTCTTGTATGATTTTAGGTATTTTAGTTACCATTATTTATAATCTTAAGGGATAATC
*
44500172 TTGTAAATAAGGC-TTTAATATAGACTGTTGATATCTCTTTGTGGTGGTTGATTA-TTTTCC-T-
450 TTGTAAAT-AGGCTTTTAATATAGACTGTCGATATCTCTTTGTGGTGGTTGATTATTTTTCCATG
44500233 T-T-A-TTACCACCCTTTCTCATCCTTATAATGTTGTTTCTGTGGCTTGAATTCTTTTTGATTTA
514 TATCATTTACCACCCTTTCTCATCCTTATAATGTTGTTTCTGTGGC-TGAATTCTTTTTGATTTA
44500295 GTAGTTAGCTTGC
578 GTAGTTAGCTTGC
44500308 AATGTTGTTTTTGTGGCTTGAATTCTTTTTGATTAAGTAGTTTGCTTGCAATGTTGTTTTACATC
1 AATGTTGTTTTTGTGGCTTGAATTCTTTTTGATTAAGTAGTTTGCTTGCAATGTTGTTTTACATC
* * * *
44500373 GTCATTTTTGGTAGTTTATGATCATACTCCTTTACGATTGTTCTTGTATGGTTTTAGACATTTGA
66 GTTATTTTTGGTAGTTTATGATCATACTCC-TTAAGATTGTTCTTGTATGATTTTAGATATTT-A
* * *
44500438 A-TTACTATTATTTATAATCTTAAGCGATAAGATTGTTTAGATTAAATCCCTTAAGACTAATATT
129 AGTTACCATTATTTATAATCTTAAGGGATAAGATTGTTTAGATTAAATCCCTTAAGACTAATCTT
* * *
44500502 GTAAATAGACTTTAATATCGACAGTCGATATCTCTTTGTGGTGGTTGATTAATTTTCCTAATATG
194 GTAAATAGGCTTTAATATCGACAGTCGATATCTCTTTGTGGTGGTTGATTATTTTTCCTAGTATG
* * * *
44500567 ATCATTTTATTACCCTTTCTCATCC----AATG-TTGTTCTTGTGGTTTAAATTCTTTTTGATTT
259 AACATTTTATTACCCTTTCTCATCCTTATAATGTTTTTTC-TGTTGTTTGAATTCTTTTTGATTT
* * *
44500627 AGTAGTTTGCTTGCAATGTTGTTTTAGATCGTTATTTTTGGTAGTTTATGATCATACTTCTCTA-
323 AGTAGTTTGCTTGCAGTGTTGTTTTAGATCGTCATTTTTGGTAGTTTATGAACATAC-TC-CTAT
44500691 AAGATTGTTCTTGTATGATTTTTAGGTATTTTAGTTACCATTATTTATATAATCTTAAGGGATAA
386 AAGATTGTTCTTGTATGA-TTTTAGGTATTTTAGTTACCATTA-TT-TATAATCTTAAGGGATAA
44500756 GATTATTTAG
Statistics
Matches: 960, Mismatches: 46, Indels: 57
0.90 0.04 0.05
Matches are distributed among these distances:
580 5 0.01
581 112 0.12
582 114 0.12
583 22 0.02
584 29 0.03
585 26 0.03
586 74 0.08
587 4 0.00
588 1 0.00
590 206 0.21
591 51 0.05
592 5 0.01
593 122 0.13
594 112 0.12
595 24 0.03
596 53 0.06
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.49
Consensus pattern (590 bp):
AATGTTGTTTTTGTGGCTTGAATTCTTTTTGATTAAGTAGTTTGCTTGCAATGTTGTTTTACATC
GTTATTTTTGGTAGTTTATGATCATACTCCTTAAGATTGTTCTTGTATGATTTTAGATATTTAAG
TTACCATTATTTATAATCTTAAGGGATAAGATTGTTTAGATTAAATCCCTTAAGACTAATCTTGT
AAATAGGCTTTAATATCGACAGTCGATATCTCTTTGTGGTGGTTGATTATTTTTCCTAGTATGAA
CATTTTATTACCCTTTCTCATCCTTATAATGTTTTTTCTGTTGTTTGAATTCTTTTTGATTTAGT
AGTTTGCTTGCAGTGTTGTTTTAGATCGTCATTTTTGGTAGTTTATGAACATACTCCTATAAGAT
TGTTCTTGTATGATTTTAGGTATTTTAGTTACCATTATTTATAATCTTAAGGGATAATCTTGTAA
ATAGGCTTTTAATATAGACTGTCGATATCTCTTTGTGGTGGTTGATTATTTTTCCATGTATCATT
TACCACCCTTTCTCATCCTTATAATGTTGTTTCTGTGGCTGAATTCTTTTTGATTTAGTAGTTAG
CTTGC
Found at i:44503117 original size:48 final size:49
Alignment explanation
Indices: 44503020--44503117 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 49
44503010 TCATCCTTAT
* * * **
44503020 AATGTTGTTTCTATGGCTTGAATTCTTTTTTATTTAGTAGTTTGTTTGC
1 AATGTTGTTTCTATGGCTTCAATTCTTTTTGATTAAGTAGTTTCCTTGC
* *
44503069 AATGTTGTTTGT-TTGCTTCAATTCTTTTTGATTAAGTAGTTTCCTTGC
1 AATGTTGTTTCTATGGCTTCAATTCTTTTTGATTAAGTAGTTTCCTTGC
44503117 A
1 A
44503118 TAGTTTGTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
48 31 0.74
49 11 0.26
ACGTcount: A:0.17, C:0.10, G:0.17, T:0.55
Consensus pattern (49 bp):
AATGTTGTTTCTATGGCTTCAATTCTTTTTGATTAAGTAGTTTCCTTGC
Found at i:44503451 original size:48 final size:49
Alignment explanation
Indices: 44503374--44503471 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 49
44503364 TCATCCTTAT
* * **
44503374 AATGTTGTTTCTGTGGCTTGAATTCTTTTTTATTTTGTAGCTTGCTTGC
1 AATGTTGTTTCTGTGGCTTCAATTCTTTTTGATTAAGTAGCTTGCTTGC
* * *
44503423 AATGTTGTTTGT-TTGCTTCAATTCTTTTTGATTAAGTAGTTTGCTTGC
1 AATGTTGTTTCTGTGGCTTCAATTCTTTTTGATTAAGTAGCTTGCTTGC
44503471 A
1 A
44503472 TAGTTTGTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
48 31 0.74
49 11 0.26
ACGTcount: A:0.15, C:0.11, G:0.19, T:0.54
Consensus pattern (49 bp):
AATGTTGTTTCTGTGGCTTCAATTCTTTTTGATTAAGTAGCTTGCTTGC
Found at i:44503584 original size:354 final size:355
Alignment explanation
Indices: 44502879--44504249 Score: 2033
Period size: 354 Copynumber: 4.0 Consensus size: 355
44502869 TTATTTATAT
* *
44502879 AATCTTAAGGGATAAGATTGTTTAGATTTAAATCCCTTAAGA-T--TATTTTAAATAGACTTTAA
1 AATCTTAAGGGATAAGATTGTTTAGATTTAAATCCCTTAAGACTAATCTTTTAAATAGGCTTTAA
* *
44502941 CATCGACTGTTGATATCTCCTTGTGGTGGTTGATTATTTTTCCTAGTAAGATCATTTTATTACCC
66 CATCGACTGTCGATATCTCCTTGTGATGGTTGATTATTTTTCCTAGTAAGATCATTTTATTACCC
* * *
44503006 TTTCTCATCCTTATAATGTTGTTTCTATGGCTTGAATTCTTTTTTATTTAGTAGTTTGTTTGCAA
131 TTTCTCATCCTTATAATGTTGTTTCTGTGGCTTGAATTCTTTTTTATTTAGTAGTTTGCTTGAAA
*
44503071 TGTTGTTTGTTTGCTTCAATTCTTTTTGATTAAGTAGTTTCCTTGCATAGTTTGTTTGAATCCAT
196 TGTTGTTTGTTTGCTTCAATTCTTTTTGATTAAGTAGTTTGCTTGCATAGTTTGTTTGAATCCAT
* *
44503136 TGTTACTGACCAAGATGTTATTTACTAATAACTTTTGAAAGGAACTCTTTCGTATTTGTTAAACA
261 TGTTACTGACCAAGATGTTATTTACTAATAACTTTTGGAAGGAACTCTTTCGTATTTGTTGAACA
*
44503201 AAGCTAGCCTTTTCCTTTGCCTGCCACCCC
326 AAGCTAGCCTTTTCCTTTGCCTACCACCCC
44503231 AATCTTAAGGGATAAGATTGTTTAGATTTAAAT-CCTTAAGACTAATCTTTTAAATAGGCTTT-A
1 AATCTTAAGGGATAAGATTGTTTAGATTTAAATCCCTTAAGACTAATCTTTTAAATAGGCTTTAA
* *
44503294 CTATCGACTGTCGATATCGCTTTGTGATGGTTGATTATTTTTCCTAGTAAGATCATTTTATTACC
66 C-ATCGACTGTCGATATCTCCTTGTGATGGTTGATTATTTTTCCTAGTAAGATCATTTTATTACC
* * *
44503359 CTTTCTCATCCTTATAATGTTGTTTCTGTGGCTTGAATTCTTTTTTATTTTGTAGCTTGCTTGCA
130 CTTTCTCATCCTTATAATGTTGTTTCTGTGGCTTGAATTCTTTTTTATTTAGTAGTTTGCTTGAA
44503424 ATGTTGTTTGTTTGCTTCAATTCTTTTTGATTAAGTAGTTTGCTTGCATAGTTTGTTTGAATCCA
195 ATGTTGTTTGTTTGCTTCAATTCTTTTTGATTAAGTAGTTTGCTTGCATAGTTTGTTTGAATCCA
* *
44503489 TTGTTACTGACCAAGATGTTATTTACTAAT-ACTTTTGGAAGGAACTCGTTCATATTTGTTGAAC
260 TTGTTACTGACCAAGATGTTATTTACTAATAACTTTTGGAAGGAACTCTTTCGTATTTGTTGAAC
44503553 AAAGCTAGCCTTTTCCTTTGCCTAACCACCCC
325 AAAGCTAGCCTTTTCCTTTGCCT-ACCACCCC
* *
44503585 AATCTTAAGGAATAAGATTGTTTAGATTTAAATCCCTTAAGATTAA---TTTAAATAGGCTTTAA
1 AATCTTAAGGGATAAGATTGTTTAGATTTAAATCCCTTAAGACTAATCTTTTAAATAGGCTTTAA
* * * *
44503647 CATCGACGGTTGATATCTCCTTGTGGTGGTTGATCATTTTTCCTAGTAAGATCATTTTATTACCC
66 CATCGACTGTCGATATCTCCTTGTGATGGTTGATTATTTTTCCTAGTAAGATCATTTTATTACCC
* *
44503712 TTTCTCATCCTTATAATGTTGTTTTTGTTGCTTGAATTCTTTTTTATTTAGTAGTTTGCTTGAAA
131 TTTCTCATCCTTATAATGTTGTTTCTGTGGCTTGAATTCTTTTTTATTTAGTAGTTTGCTTGAAA
* **
44503777 TGTTGTTTGTTTGCTTCAATTGTTTTCAATTAAGTAGTTTGCTTGCATAGTTTGTTTGAATCCAT
196 TGTTGTTTGTTTGCTTCAATTCTTTTTGATTAAGTAGTTTGCTTGCATAGTTTGTTTGAATCCAT
* *
44503842 TGTTATTGACCAAGATTGTTATTTACTAATAACTTTTGTAAGGAACTCTTTCGTATTTGTTGAAC
261 TGTTACTGACCAAGA-TGTTATTTACTAATAACTTTTGGAAGGAACTCTTTCGTATTTGTTGAAC
*
44503907 AAAGTTAGCCTTTTCCTTTGCCTACCACCCC
325 AAAGCTAGCCTTTTCCTTTGCCTACCACCCC
* * *
44503938 AATCTTAAGGGATAATATT-TTTAGATTTAAATCCCTTAAGACTGATCTTTTAAATATGCTTTAA
1 AATCTTAAGGGATAAGATTGTTTAGATTTAAATCCCTTAAGACTAATCTTTTAAATAGGCTTTAA
* * * * * *
44504002 TATCGACTGTCGATATCTCTTTGTGATGGTTGATTATTTTTCCTAGTATGATTTATTTTATTGCT
66 CATCGACTGTCGATATCTCCTTGTGATGGTTGATTATTTTTCCTAGTAAGA-TCATTTTATTACC
*
44504067 CTTTCTCATCTTTATAA---TG----T-T-G--T---TTC-TTTTTATTTAGTAGTTTGCTTGAA
130 CTTTCTCATCCTTATAATGTTGTTTCTGTGGCTTGAATTCTTTTTTATTTAGTAGTTTGCTTGAA
*
44504117 ATGTTGTTTGTTTGCTTCAATTC--TTT--TTAAGTTGTTTGCTTGCATAGTTTG-TT---T---
195 ATGTTGTTTGTTTGCTTCAATTCTTTTTGATTAAGTAGTTTGCTTGCATAGTTTGTTTGAATCCA
* *
44504171 TTGTTACTGACCAAGATGTTATTTACTGTATAACTTTTGGAAGGAACTC-TTCGTATATGTTGAA
260 TTGTTACTGACCAAGATGTTATTTACT-AATAACTTTTGGAAGGAACTCTTTCGTATTTGTTGAA
44504235 CAAAGCTAGCCTTTT
324 CAAAGCTAGCCTTTT
44504250 TGCCTACCAC
Statistics
Matches: 944, Mismatches: 61, Indels: 51
0.89 0.06 0.05
Matches are distributed among these distances:
329 39 0.04
330 34 0.04
333 1 0.00
336 2 0.00
337 24 0.03
339 2 0.00
341 46 0.05
342 3 0.00
345 1 0.00
347 1 0.00
348 1 0.00
349 1 0.00
351 8 0.01
352 266 0.28
353 98 0.10
354 321 0.34
355 70 0.07
356 26 0.03
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (355 bp):
AATCTTAAGGGATAAGATTGTTTAGATTTAAATCCCTTAAGACTAATCTTTTAAATAGGCTTTAA
CATCGACTGTCGATATCTCCTTGTGATGGTTGATTATTTTTCCTAGTAAGATCATTTTATTACCC
TTTCTCATCCTTATAATGTTGTTTCTGTGGCTTGAATTCTTTTTTATTTAGTAGTTTGCTTGAAA
TGTTGTTTGTTTGCTTCAATTCTTTTTGATTAAGTAGTTTGCTTGCATAGTTTGTTTGAATCCAT
TGTTACTGACCAAGATGTTATTTACTAATAACTTTTGGAAGGAACTCTTTCGTATTTGTTGAACA
AAGCTAGCCTTTTCCTTTGCCTACCACCCC
Found at i:44503813 original size:48 final size:49
Alignment explanation
Indices: 44503726--44503821 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 49
44503716 TCATCCTTAT
* * ** *
44503726 AATGTTGTTTTTGTTGCTTGAATTCTTTTTTATTTAGTAGTTTGCTTGA
1 AATGTTGTTTGTGTTGCTTCAATTCTTTTCAATTAAGTAGTTTGCTTGA
*
44503775 AATGTTGTTTGT-TTGCTTCAATTGTTTTCAATTAAGTAGTTTGCTTG
1 AATGTTGTTTGTGTTGCTTCAATTCTTTTCAATTAAGTAGTTTGCTTG
44503822 CATAGTTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
48 30 0.73
49 11 0.27
ACGTcount: A:0.18, C:0.07, G:0.19, T:0.56
Consensus pattern (49 bp):
AATGTTGTTTGTGTTGCTTCAATTCTTTTCAATTAAGTAGTTTGCTTGA
Found at i:44503963 original size:706 final size:683
Alignment explanation
Indices: 44502879--44504249 Score: 2131
Period size: 706 Copynumber: 2.0 Consensus size: 683
44502869 TTATTTATAT
* *
44502879 AATCTTAAGGGATAAGATTGTTTAGATTTAAATCCCTTAAGATTATTTTAAATAGACTTTAACAT
1 AATCTTAAGGAATAAGATTGTTTAGATTTAAATCCCTTAAGATTAATTTAAATAGACTTTAACAT
* *
44502944 CGACTGTTGATATCTCCTTGTGGTGGTTGATTATTTTTCCTAGTAAGATCATTTTATTACCCTTT
66 CGACGGTTGATATCTCCTTGTGGTGGTTGATCATTTTTCCTAGTAAGATCATTTTATTACCCTTT
* *
44503009 CTCATCCTTATAATGTTGTTTCTATGGCTTGAATTCTTTTTTATTTAGTAGTTTGTTTGCAATGT
131 CTCATCCTTATAATGTTGTTTCTATGGCTTGAATTCTTTTTTATTTAGTAGTTTGCTTGAAATGT
**
44503074 TGTTTGTTTGCTTCAATTCTTTTTGATTAAGTAGTTTCCTTGCATAGTTTGTTTGAATCCATTGT
196 TGTTTGTTTGCTTCAATTCTTTTCAATTAAGTAGTTTCCTTGCATAGTTTGTTTGAATCCATTGT
44503139 TACTGACCAAGATGTTATTTACTAATAACTTTTGAAAGGAACTCTTTCGTATTTGTTAAACAAAG
261 TACTGACCAAGATGTTATTTACTAATAACTTTTGAAAGGAACTCTTTCGTATTTGTTAAACAAAG
*
44503204 CTAGCCTTTTCCTTTGCCTGCCACCCCAATCTTAAGGGATAAGATTGTTTAGATTTAAAT-CCTT
326 CTAGCCTTTTCCTTTGCCTACCACCCCAATCTTAAGGGATAAGATTGTTTAGATTTAAATCCCTT
*
44503268 AAGACTAATCTTTTAAATAGGCTTTACTATCGACTGTCGATATCGCTTTGTGATGGTTGATTATT
391 AAGACTAATCTTTTAAATAGGCTTTAATATCGACTGTCGATATCGCTTTGTGATGGTTGATTATT
44503333 TTTCCTAGTAAGA-TCATTTTATTACCCTTTCTCATCCTTATAATGTTGTTTCTGTGGCTTGAAT
456 TTTCCTAGTAAGATTCATTTTATTACCCTTTCTCATCCTTATAA---TG----T-T-G--T---T
* *
44503397 TCTTTTTTATTTTGTAGCTTGCTTGCAATGTTGTTTGTTTGCTTCAATTCTTTTTGATTAAGTAG
507 TC-TTTTTATTTAGTAGCTTGCTTGAAATGTTGTTTGTTTGCTTCAATTC--TTT--TTAAGTAG
44503462 TTTGCTTGCATAGTTTGTTTGAATCCATTGTTACTGACCAAGATGTTATTTACT-AAT-ACTTTT
567 TTTGCTTGCATAGTTTG-TT---T---TTGTTACTGACCAAGATGTTATTTACTGAATAACTTTT
*
44503525 GGAAGGAACTCGTTCATATTTGTTGAACAAAGCTAGCCTTTTCCTTTGCCTAACCACCCC
625 GGAAGGAACTC-TTCATATATGTTGAACAAAGCTAGCCTTTTCCTTTGCCTAACCACCCC
*
44503585 AATCTTAAGGAATAAGATTGTTTAGATTTAAATCCCTTAAGATTAATTTAAATAGGCTTTAACAT
1 AATCTTAAGGAATAAGATTGTTTAGATTTAAATCCCTTAAGATTAATTTAAATAGACTTTAACAT
44503650 CGACGGTTGATATCTCCTTGTGGTGGTTGATCATTTTTCCTAGTAAGATCATTTTATTACCCTTT
66 CGACGGTTGATATCTCCTTGTGGTGGTTGATCATTTTTCCTAGTAAGATCATTTTATTACCCTTT
* * *
44503715 CTCATCCTTATAATGTTGTTTTTGTTGCTTGAATTCTTTTTTATTTAGTAGTTTGCTTGAAATGT
131 CTCATCCTTATAATGTTGTTTCTATGGCTTGAATTCTTTTTTATTTAGTAGTTTGCTTGAAATGT
* *
44503780 TGTTTGTTTGCTTCAATTGTTTTCAATTAAGTAGTTTGCTTGCATAGTTTGTTTGAATCCATTGT
196 TGTTTGTTTGCTTCAATTCTTTTCAATTAAGTAGTTTCCTTGCATAGTTTGTTTGAATCCATTGT
* * *
44503845 TATTGACCAAGATTGTTATTTACTAATAACTTTTGTAAGGAACTCTTTCGTATTTGTTGAACAAA
261 TACTGACCAAGA-TGTTATTTACTAATAACTTTTGAAAGGAACTCTTTCGTATTTGTTAAACAAA
* *
44503910 GTTAGCCTTTTCCTTTGCCTACCACCCCAATCTTAAGGGATAATATT-TTTAGATTTAAATCCCT
325 GCTAGCCTTTTCCTTTGCCTACCACCCCAATCTTAAGGGATAAGATTGTTTAGATTTAAATCCCT
* * *
44503974 TAAGACTGATCTTTTAAATATGCTTTAATATCGACTGTCGATATCTCTTTGTGATGGTTGATTAT
390 TAAGACTAATCTTTTAAATAGGCTTTAATATCGACTGTCGATATCGCTTTGTGATGGTTGATTAT
* * * * *
44504039 TTTTCCTAGTATGATTTATTTTATTGCTCTTTCTCATCTTTATAATGTTGTTTCTTTTTATTTAG
455 TTTTCCTAGTAAGATTCATTTTATTACCCTTTCTCATCCTTATAATGTTGTTTCTTTTTATTTAG
* *
44504104 TAGTTTGCTTGAAATGTTGTTTGTTTGCTTCAATTCTTTTTAAGTTGTTTGCTTGCATAGTTTGT
520 TAGCTTGCTTGAAATGTTGTTTGTTTGCTTCAATTCTTTTTAAGTAGTTTGCTTGCATAGTTTGT
* *
44504169 TTTTGTTACTGACCAAGATGTTATTTACTGTATAACTTTTGGAAGGAACTCTTCGTATATGTTGA
585 TTTTGTTACTGACCAAGATGTTATTTACTGAATAACTTTTGGAAGGAACTCTTCATATATGTTGA
44504234 ACAAAGCTAGCCTTTT
650 ACAAAGCTAGCCTTTT
44504250 TGCCTACCAC
Statistics
Matches: 624, Mismatches: 36, Indels: 33
0.90 0.05 0.05
Matches are distributed among these distances:
682 27 0.04
683 30 0.05
684 17 0.03
685 1 0.00
688 2 0.00
689 24 0.04
691 3 0.00
693 44 0.07
694 3 0.00
697 1 0.00
699 1 0.00
700 1 0.00
701 1 0.00
705 2 0.00
706 270 0.43
707 171 0.27
708 26 0.04
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (683 bp):
AATCTTAAGGAATAAGATTGTTTAGATTTAAATCCCTTAAGATTAATTTAAATAGACTTTAACAT
CGACGGTTGATATCTCCTTGTGGTGGTTGATCATTTTTCCTAGTAAGATCATTTTATTACCCTTT
CTCATCCTTATAATGTTGTTTCTATGGCTTGAATTCTTTTTTATTTAGTAGTTTGCTTGAAATGT
TGTTTGTTTGCTTCAATTCTTTTCAATTAAGTAGTTTCCTTGCATAGTTTGTTTGAATCCATTGT
TACTGACCAAGATGTTATTTACTAATAACTTTTGAAAGGAACTCTTTCGTATTTGTTAAACAAAG
CTAGCCTTTTCCTTTGCCTACCACCCCAATCTTAAGGGATAAGATTGTTTAGATTTAAATCCCTT
AAGACTAATCTTTTAAATAGGCTTTAATATCGACTGTCGATATCGCTTTGTGATGGTTGATTATT
TTTCCTAGTAAGATTCATTTTATTACCCTTTCTCATCCTTATAATGTTGTTTCTTTTTATTTAGT
AGCTTGCTTGAAATGTTGTTTGTTTGCTTCAATTCTTTTTAAGTAGTTTGCTTGCATAGTTTGTT
TTTGTTACTGACCAAGATGTTATTTACTGAATAACTTTTGGAAGGAACTCTTCATATATGTTGAA
CAAAGCTAGCCTTTTCCTTTGCCTAACCACCCC
Found at i:44504558 original size:17 final size:18
Alignment explanation
Indices: 44504523--44504559 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
44504513 TACTAAAACA
*
44504523 TTTTGTGTTCTATTATTG
1 TTTTGTGTGCTATTATTG
44504541 TTTTGTGTGCTA-TATTG
1 TTTTGTGTGCTATTATTG
44504558 TT
1 TT
44504560 GTCTTGTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.11, C:0.05, G:0.19, T:0.65
Consensus pattern (18 bp):
TTTTGTGTGCTATTATTG
Found at i:44506865 original size:21 final size:21
Alignment explanation
Indices: 44506839--44506885 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
44506829 AACCACAACC
44506839 AAGAAGAACAGTAGAAAGAAG
1 AAGAAGAACAGTAGAAAGAAG
44506860 AAGAAGAACAGTAGAAAGAAG
1 AAGAAGAACAGTAGAAAGAAG
44506881 AAGAA
1 AAGAA
44506886 CAAAGGGGTG
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:0.64, C:0.04, G:0.28, T:0.04
Consensus pattern (21 bp):
AAGAAGAACAGTAGAAAGAAG
Found at i:44507073 original size:17 final size:17
Alignment explanation
Indices: 44507048--44507117 Score: 79
Period size: 17 Copynumber: 4.2 Consensus size: 17
44507038 AATAAGTTTG
*
44507048 AATTTATTTTAAATTCA
1 AATTTATTTTAAATTTA
* * *
44507065 AATTCATTTTGAATTTG
1 AATTTATTTTAAATTTA
*
44507082 AATTTACTTTAAATTTA
1 AATTTATTTTAAATTTA
*
44507099 AATTTA-TTTAAATTAA
1 AATTTATTTTAAATTTA
44507115 AAT
1 AAT
44507118 AAAATTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
16 12 0.27
17 32 0.73
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.51
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:44507759 original size:9 final size:9
Alignment explanation
Indices: 44507705--44507775 Score: 52
Period size: 9 Copynumber: 7.2 Consensus size: 9
44507695 TTTCAAAACG
44507705 TATTAATAAA
1 TATTAAT-AA
* *
44507715 TATCATTAA
1 TATTAATAA
*
44507724 TATTAATAT
1 TATTAATAA
44507733 TAATTATTATAA
1 T-ATTA--ATAA
44507745 TATTAATAA
1 TATTAATAA
44507754 TATTAATTTAA
1 TATTAA--TAA
*
44507765 TAATAATAA
1 TATTAATAA
44507774 TA
1 TA
44507776 AATAGGTTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
9 24 0.49
10 9 0.18
11 12 0.24
12 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (9 bp):
TATTAATAA
Found at i:44507812 original size:26 final size:25
Alignment explanation
Indices: 44507744--44507815 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 25
44507734 AATTATTATA
*
44507744 ATATTAAT-AATATTAATTTAATAAT
1 ATATTAATAAATATT-ATTAAATAAT
*
44507769 A-A-TAATAAATAGGT-TTAAATAAT
1 ATATTAATAAATA-TTATTAAATAAT
44507792 GATATTAATAAATATTATTAAATA
1 -ATATTAATAAATATTATTAAATA
44507816 GTAAAAAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
23 12 0.32
24 6 0.16
25 4 0.11
26 16 0.42
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
ATATTAATAAATATTATTAAATAAT
Found at i:44509055 original size:60 final size:58
Alignment explanation
Indices: 44508861--44509114 Score: 212
Period size: 61 Copynumber: 4.2 Consensus size: 58
44508851 CGAACTTCTC
* * * *
44508861 AAAAATTACA-TTTTGACCCTTAAAC-TCTTCAAAAATTACATTTTGACCCTTAAACACTTT
1 AAAAATTACATTTTTAACCCTCAAACTTC-T-AAAAATTACATTTT-AACCTTAAAC-TTTT
* *
44508921 ACAAATTACATTTTTAACCCTCAAACTTTCTAAAAATTACATTTTAACCCTCAAACTTTTT
1 AAAAATTACATTTTTAACCCTCAAAC-TTCTAAAAATTACATTTTAA-CCTTAAAC-TTTT
* * *
44508982 AAAAATCATATTTTTTACCCTCAAACTTCTAAAAATT-CTACTTTTAACCTTAAACTTTCT
1 AAAAATTACATTTTTAACCCTCAAACTTCTAAAAATTAC-A-TTTTAACCTTAAACTTT-T
* * * * **
44509042 AAAAATTACA-TTTTCACCCCCGAA-TATCTAAAAATTCCATTTTTAACCCAAAACTTTT
1 AAAAATTACATTTTTAACCCTCAAACT-TCTAAAAATTACA-TTTTAACCTTAAACTTTT
*
44509100 GAAAATTACCATTTT
1 AAAAATTA-CATTTT
44509115 ATCCTCGAAT
Statistics
Matches: 162, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
58 9 0.06
59 43 0.27
60 42 0.26
61 65 0.40
62 1 0.01
63 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.38
Consensus pattern (58 bp):
AAAAATTACATTTTTAACCCTCAAACTTCTAAAAATTACATTTTAACCTTAAACTTTT
Found at i:44509089 original size:59 final size:59
Alignment explanation
Indices: 44508952--44509349 Score: 364
Period size: 59 Copynumber: 6.8 Consensus size: 59
44508942 CAAACTTTCT
* * ** * *
44508952 AAAAATTACA-TTTTAACCCTCAAACTTTTTAAAAATCATA-TTTTTTACCCTCAAACT-TCT
1 AAAAATTCCATTTTTAA-CCTCAAACTTTCTAAAAAT--TACCATTTTACCCTCGAA-TGTCC
* * * * * *
44509012 AAAAATTCTACTTTTAACCTTAAACTTTCTAAAAATTA-CATTTTCACCCCCGAATATCT
1 AAAAATTCCATTTTTAACCTCAAACTTTCTAAAAATTACCATTTT-ACCCTCGAATGTCC
* *
44509071 AAAAATTCCATTTTTAACC-CAAAACTTT-TGAAAATTACCATTTTATCCTCGAATGTCC
1 AAAAATTCCATTTTTAACCTC-AAACTTTCTAAAAATTACCATTTTACCCTCGAATGTCC
* * * * *
44509129 -AAAATACCATTTTTGACCTCGAACTTTC-AAAAATTATCATTTTACCCCCGAATGTCC
1 AAAAATTCCATTTTTAACCTCAAACTTTCTAAAAATTACCATTTTACCCTCGAATGTCC
* * ** *
44509186 AAAAATACCATTGTTAACCTTGAACTTT-TCAAAAATTACCATTTTACCCCCGAATGTCC
1 AAAAATTCCATTTTTAACCTCAAACTTTCT-AAAAATTACCATTTTACCCTCGAATGTCC
** * * * * *
44509245 AAAAAAGCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCTTGGATGTCC
1 AAAAATTCCATTTTTAACCTCAAACTTTCTAAAAATTACCATTTTACCCTCGAATGTCC
* * *
44509304 AAAAATTCTATTTTTAACCTCAAAATTTCCAAAAATTACCATTTTA
1 AAAAATTCCATTTTTAACCTCAAACTTTCTAAAAATTACCATTTTA
44509350 GTGTCCAATT
Statistics
Matches: 283, Mismatches: 44, Indels: 23
0.81 0.13 0.07
Matches are distributed among these distances:
57 47 0.17
58 50 0.18
59 155 0.55
60 25 0.09
61 6 0.02
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (59 bp):
AAAAATTCCATTTTTAACCTCAAACTTTCTAAAAATTACCATTTTACCCTCGAATGTCC
Found at i:44509171 original size:29 final size:29
Alignment explanation
Indices: 44508847--44509231 Score: 195
Period size: 30 Copynumber: 13.0 Consensus size: 29
44508837 CATATTTTGG
* *
44508847 CCCTCGAACTTCTCAAAAATTACATTTTGA
1 CCCTCAAACTT-TCAAAAATTACATTTTAA
* *
44508877 CCCTTAAACTCTTCAAAAATTACATTTTGA
1 CCCTCAAACT-TTCAAAAATTACATTTTAA
* *
44508907 CCCTTAAACACTTT-ACAAATTACATTTTTAA
1 CCC-TCAA-ACTTTCAAAAATTACA-TTTTAA
44508938 CCCTCAAACTTTCTAAAAATTACATTTTAA
1 CCCTCAAACTTTC-AAAAATTACATTTTAA
* * * *
44508968 CCCTCAAACTTTTTAAAAATCATATTTTTTA
1 CCCTCAAAC-TTTCAAAAATTACA-TTTTAA
44508999 CCCTCAAAC-TTCTAAAAATT-CTACTTTTAA
1 CCCTCAAACTTTC-AAAAATTAC-A-TTTTAA
* *
44509029 -CCTTAAACTTTCTAAAAATTACATTTTCA
1 CCCTCAAACTTTC-AAAAATTACATTTTAA
* * * *
44509058 CCCCCGAA-TATCTAAAAATTCCATTTTTAA
1 CCCTCAAACTTTC-AAAAATTACA-TTTTAA
* **
44509088 CCC-AAAACTTTTGAAAATTACCATTTT-A
1 CCCTCAAACTTTCAAAAATTA-CATTTTAA
* * * * *
44509116 TCCTCGAA-TGTCCAAAA-TACCATTTTTGA
1 CCCTCAAACTTTCAAAAATTA-CA-TTTTAA
*
44509145 -CCTCGAACTTTCAAAAATTATCATTTT-A
1 CCCTCAAACTTTCAAAAATTA-CATTTTAA
* * *
44509173 CCCCCGAA-TGTCCAAAAA-TACCATTGTTAA
1 CCCTCAAACT-TTCAAAAATTA-CATT-TTAA
**
44509203 -CCTTGAACTTTTCAAAAATTACCATTTTA
1 CCCTCAAAC-TTTCAAAAATTA-CATTTTA
44509232 CCCCCGAATG
Statistics
Matches: 282, Mismatches: 45, Indels: 56
0.74 0.12 0.15
Matches are distributed among these distances:
27 5 0.02
28 28 0.10
29 78 0.28
30 119 0.42
31 49 0.17
32 3 0.01
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (29 bp):
CCCTCAAACTTTCAAAAATTACATTTTAA
Found at i:44509220 original size:30 final size:30
Alignment explanation
Indices: 44508848--44509349 Score: 158
Period size: 30 Copynumber: 17.0 Consensus size: 30
44508838 ATATTTTGGC
* *
44508848 CCTCGAACTTCTCAAAAATTA-CATTTTGAC
1 CCTCGAACTTTTCAAAAATTACCATTTT-AA
** * *
44508878 CCTTAAACTCTTCAAAAATTA-CATTTTGAC
1 CCTCGAACTTTTCAAAAATTACCATTTT-AA
** * *
44508908 CCTTAAACACTTT-ACAAATTA-CATTTTTAA
1 CCTCGAAC-TTTTCAAAAATTACCA-TTTTAA
*
44508938 CCCTCAAAC-TTTCTAAAAATTA-CATTTTAA
1 -CCTCGAACTTTTC-AAAAATTACCATTTTAA
* * ** *
44508968 CCCTCAAACTTTTTAAAAATCATA-TTTTTTAC
1 -CCTCGAACTTTTCAAAAAT--TACCATTTTAA
* * *
44509000 CCTCAAACTTCT-AAAAATT-CTACTTTTAA
1 CCTCGAACTTTTCAAAAATTACCA-TTTTAA
** *
44509029 CCTTAAAC-TTTCTAAAAATTA-CATTTTCAC
1 CCTCGAACTTTTC-AAAAATTACCATTTT-AA
* *
44509059 CCCCGAA--TATCTAAAAATT-CCATTTTTAA
1 CCTCGAACTTTTC-AAAAATTACCA-TTTTAA
* * *
44509088 CC-CAAAACTTTT-GAAAATTACCATTTTAT
1 CCTC-GAACTTTTCAAAAATTACCATTTTAA
* * *
44509117 CCTCGAA--TGTCCAAAA-TACCATTTTTGA
1 CCTCGAACTTTTCAAAAATTACCA-TTTTAA
* *
44509145 CCTCGAAC-TTTCAAAAATTATCATTTTAC
1 CCTCGAACTTTTCAAAAATTACCATTTTAA
* * *
44509174 CCCCGAA-TGTCCAAAAA-TACCATTGTTAA
1 CCTCGAACTTTTCAAAAATTACCATT-TTAA
* *
44509203 CCTTGAACTTTTCAAAAATTACCATTTTAC
1 CCTCGAACTTTTCAAAAATTACCATTTTAA
* * * *
44509233 CCCCGAA-TGTCCAAAAA--AGCCATTTTTGA
1 CCTCGAACTTTTCAAAAATTA-CCA-TTTTAA
* * * *
44509262 CCCCAAACTTTCCAAAAATTACCATTTTAC
1 CCTCGAACTTTTCAAAAATTACCATTTTAA
* * * * *
44509292 CCTTGGA-TGTCCAAAAATT-CTATTTTTAA
1 CCTCGAACTTTTCAAAAATTACCA-TTTTAA
* * *
44509321 CCTCAAAATTTCCAAAAATTACCATTTTA
1 CCTCGAACTTTTCAAAAATTACCATTTTA
44509350 GTGTCCAATT
Statistics
Matches: 363, Mismatches: 72, Indels: 74
0.71 0.14 0.15
Matches are distributed among these distances:
27 8 0.02
28 31 0.09
29 122 0.34
30 144 0.40
31 50 0.14
32 8 0.02
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (30 bp):
CCTCGAACTTTTCAAAAATTACCATTTTAA
Found at i:44509247 original size:29 final size:29
Alignment explanation
Indices: 44509101--44509349 Score: 156
Period size: 29 Copynumber: 8.5 Consensus size: 29
44509091 AAAACTTTTG
* *
44509101 AAAATTACCATTTTATCCTCGAATGTCC-
1 AAAATTACCATTTTACCCCCGAATGTCCA
* *
44509129 AAAA-TACCATTTTTGA-CCTCGAACT-TTCA
1 AAAATTACCA-TTTT-ACCCCCGAA-TGTCCA
*
44509158 AAAATTATCATTTTACCCCCGAATGTCCA
1 AAAATTACCATTTTACCCCCGAATGTCCA
* ** * *
44509187 AAAA-TACCATTGTTAACCTTGAACTTTTCA
1 AAAATTACCATT-TTACCCCCGAA-TGTCCA
44509217 AAAATTACCATTTTACCCCCGAATGTCCA
1 AAAATTACCATTTTACCCCCGAATGTCCA
* *
44509246 AAAA--AGCCATTTTTGA-CCCCAAACTTTCCA
1 AAAATTA-CCA-TTTT-ACCCCCGAA-TGTCCA
** *
44509276 AAAATTACCATTTTACCCTTGGATGTCCA
1 AAAATTACCATTTTACCCCCGAATGTCCA
* * ** *
44509305 AAAATT-CTATTTTTAACCTCAAAATTTCCA
1 AAAATTACCA-TTTT-ACCCCCGAATGTCCA
44509335 AAAATTACCATTTTA
1 AAAATTACCATTTTA
44509350 GTGTCCAATT
Statistics
Matches: 171, Mismatches: 30, Indels: 39
0.71 0.12 0.16
Matches are distributed among these distances:
27 6 0.04
28 30 0.18
29 66 0.39
30 56 0.33
31 12 0.07
32 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAATGTCCA
Found at i:44509544 original size:12 final size:13
Alignment explanation
Indices: 44509516--44509541 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44509506 TATCTTTTCG
44509516 TGTTATTAATTTT
1 TGTTATTAATTTT
44509529 TGTTATTAATTTT
1 TGTTATTAATTTT
44509542 GTTCATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (13 bp):
TGTTATTAATTTT
Found at i:44515149 original size:15 final size:15
Alignment explanation
Indices: 44515110--44515143 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44515100 ACCATTAGGC
*
44515110 CCAAACTCAATTAAA
1 CCAAACCCAATTAAA
*
44515125 CCAAACCCAATTGAA
1 CCAAACCCAATTAAA
44515140 CCAA
1 CCAA
44515144 GTCCAAATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.32, G:0.03, T:0.15
Consensus pattern (15 bp):
CCAAACCCAATTAAA
Found at i:44515195 original size:11 final size:11
Alignment explanation
Indices: 44515165--44515230 Score: 51
Period size: 11 Copynumber: 6.0 Consensus size: 11
44515155 AACCAAGTCA
44515165 AACCGTTGACC
1 AACCGTTGACC
** *
44515176 AGTCATTGACC
1 AACCGTTGACC
44515187 AACCGTTGACC
1 AACCGTTGACC
* * *
44515198 TACTGTTGATC
1 AACCGTTGACC
* *
44515209 GACCGTTGACT
1 AACCGTTGACC
*
44515220 AATCGTTGACC
1 AACCGTTGACC
44515231 GTTTACCATT
Statistics
Matches: 39, Mismatches: 16, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (11 bp):
AACCGTTGACC
Found at i:44515327 original size:21 final size:21
Alignment explanation
Indices: 44515280--44515336 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
44515270 AATCGTTAAT
* * *
44515280 CGTTGACAGTTAACCGTTTAC
1 CGTTGACAGTTGACTGTTGAC
*
44515301 CATTGACAGTTGACTGTTGAC
1 CGTTGACAGTTGACTGTTGAC
44515322 CGTTGACCA-TTGACT
1 CGTTGA-CAGTTGACT
44515337 TTTTCGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (21 bp):
CGTTGACAGTTGACTGTTGAC
Found at i:44515334 original size:14 final size:14
Alignment explanation
Indices: 44515292--44515335 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
44515282 TTGACAGTTA
*
44515292 ACCGTTTACCATTG
1 ACCGTTGACCATTG
* **
44515306 ACAGTTGACTGTTG
1 ACCGTTGACCATTG
44515320 ACCGTTGACCATTG
1 ACCGTTGACCATTG
44515334 AC
1 AC
44515336 TTTTTCGAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (14 bp):
ACCGTTGACCATTG
Found at i:44516379 original size:3 final size:3
Alignment explanation
Indices: 44516371--44516413 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
44516361 TTATATCATT
* *
44516371 TTA TTA TTA TTA TTA TTA CTA TTA TTA TT- TTG TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
44516414 TTGGTTTTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:44517040 original size:17 final size:17
Alignment explanation
Indices: 44517018--44517050 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44517008 GCCCCAAACC
44517018 TTTTTCTTTCTTTTTCT
1 TTTTTCTTTCTTTTTCT
44517035 TTTTTCTTTCTTTTTC
1 TTTTTCTTTCTTTTTC
44517051 CCTTGCCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCTTTCTTTTTCT
Found at i:44517631 original size:13 final size:13
Alignment explanation
Indices: 44517629--44517719 Score: 87
Period size: 13 Copynumber: 6.9 Consensus size: 13
44517619 ACTTTGACCG
44517629 TTGACCGTTGACT
1 TTGACCGTTGACT
* *
44517642 CTGACCATTGACT
1 TTGACCGTTGACT
*
44517655 TTGACCATTGATCT
1 TTGACCGTTGA-CT
* *
44517669 TTGA-CTTTGACCA
1 TTGACCGTTGA-CT
*
44517682 TTGA-CTTTGACT
1 TTGACCGTTGACT
44517694 GTTGACCGTTGACT
1 -TTGACCGTTGACT
44517708 TTGACCGTTGAC
1 TTGACCGTTGAC
44517720 CGTTGACTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
12 1 0.01
13 53 0.79
14 13 0.19
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (13 bp):
TTGACCGTTGACT
Found at i:44517638 original size:20 final size:20
Alignment explanation
Indices: 44517613--44517729 Score: 119
Period size: 20 Copynumber: 5.5 Consensus size: 20
44517603 CGTTGACTGG
44517613 CCGTTGACTTTGACCGTTGA
1 CCGTTGACTTTGACCGTTGA
*
44517633 CCGTTGACTCTGACCATTGACTTTGA
1 CCGTTGACTTTGACC---G---TTGA
* *
44517659 CCATTGATCTTTGA-CTTTGA
1 CCGTTGA-CTTTGACCGTTGA
* *
44517679 CCATTGACTTTGACTGTTGA
1 CCGTTGACTTTGACCGTTGA
44517699 CCGTTGACTTTGACCGTTGA
1 CCGTTGACTTTGACCGTTGA
44517719 CCGTTGACTTT
1 CCGTTGACTTT
44517730 TTAAAAAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
19 6 0.07
20 58 0.72
23 1 0.01
26 11 0.14
27 5 0.06
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (20 bp):
CCGTTGACTTTGACCGTTGA
Found at i:44517657 original size:33 final size:33
Alignment explanation
Indices: 44517616--44517719 Score: 154
Period size: 33 Copynumber: 3.2 Consensus size: 33
44517606 TGACTGGCCG
*
44517616 TTGACTTTGACCGTTGACCGTTGACTCTGACCA
1 TTGACTTTGACCGTTGACCGTTGACTTTGACCA
* * *
44517649 TTGACTTTGACCATTGATCTTTGACTTTGACCA
1 TTGACTTTGACCGTTGACCGTTGACTTTGACCA
* *
44517682 TTGACTTTGACTGTTGACCGTTGACTTTGACCG
1 TTGACTTTGACCGTTGACCGTTGACTTTGACCA
44517715 TTGAC
1 TTGAC
44517720 CGTTGACTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.38
Consensus pattern (33 bp):
TTGACTTTGACCGTTGACCGTTGACTTTGACCA
Found at i:44518788 original size:3 final size:3
Alignment explanation
Indices: 44518776--44518821 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
44518766 TATTCTATTC
44518776 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
44518821 T
1 T
44518822 TTGGGATGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:44519599 original size:3 final size:3
Alignment explanation
Indices: 44519587--44519617 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
44519577 AAATGAAGAA
*
44519587 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
44519618 GCGATGAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:44519672 original size:27 final size:27
Alignment explanation
Indices: 44519649--44519747 Score: 128
Period size: 31 Copynumber: 3.5 Consensus size: 27
44519639 ATTAAAATTA
44519649 TTTAATAATTTTATTATTTCAAAAAAATAAT
1 TTTAATAATTTTA-TATTT---AAAAATAAT
44519680 TTTAATAATTTTATATTTTAAAAAATAA-
1 TTTAATAATTTTATA-TTT-AAAAATAAT
*
44519708 TTTAAAAATTTTATATTTAAAAATAAT
1 TTTAATAATTTTATATTTAAAAATAAT
44519735 TTTAATAATTTTA
1 TTTAATAATTTTA
44519748 AAATCATTTG
Statistics
Matches: 64, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
26 8 0.12
27 15 0.23
28 14 0.22
29 9 0.14
30 2 0.03
31 16 0.25
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTAATAATTTTATATTTAAAAATAAT
Found at i:44519685 original size:28 final size:26
Alignment explanation
Indices: 44519654--44519740 Score: 72
Period size: 29 Copynumber: 3.2 Consensus size: 26
44519644 AATTATTTAA
44519654 TAATTTTATTATTTCAAAAAAATAATTT
1 TAATTTTATTATTT--AAAAAATAATTT
44519682 TAATAATTT-TATATTTTAAAAAATAATTT
1 TAAT--TTTAT-TA-TTTAAAAAATAATTT
*
44519711 AAAAATTTTA-TATTT-AAAAATAATTT
1 --TAATTTTATTATTTAAAAAATAATTT
44519737 TAAT
1 TAAT
44519741 AATTTTAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
24 3 0.06
26 11 0.22
27 3 0.06
28 6 0.12
29 16 0.32
30 5 0.10
31 6 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (26 bp):
TAATTTTATTATTTAAAAAATAATTT
Found at i:44522707 original size:3 final size:3
Alignment explanation
Indices: 44522699--44522729 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
44522689 AACACAACTT
44522699 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
44522730 CTTTTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:44524785 original size:26 final size:26
Alignment explanation
Indices: 44524756--44524805 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
44524746 ATTTTAATAG
* *
44524756 TAAATTTTTGAAGAAGGAAAGGAAGC
1 TAAAGTTTTGAAGAAGAAAAGGAAGC
44524782 TAAAGTTTTGAAGAAGAAAAGGAA
1 TAAAGTTTTGAAGAAGAAAAGGAA
44524806 ACAAAAGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.26, T:0.22
Consensus pattern (26 bp):
TAAAGTTTTGAAGAAGAAAAGGAAGC
Found at i:44524812 original size:26 final size:26
Alignment explanation
Indices: 44524761--44524812 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
44524751 AATAGTAAAT
* * *
44524761 TTTTGAAGAAGGAAAGGAAGCTAAAG
1 TTTTGAAGAAGAAAAGGAAACAAAAG
44524787 TTTTGAAGAAGAAAAGGAAACAAAAG
1 TTTTGAAGAAGAAAAGGAAACAAAAG
44524813 GTTAGCGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.27, T:0.17
Consensus pattern (26 bp):
TTTTGAAGAAGAAAAGGAAACAAAAG
Found at i:44527368 original size:26 final size:26
Alignment explanation
Indices: 44527319--44527368 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
44527309 TCTGTTTAAA
**
44527319 TTTGAATTTATTTAATAATTTTTATG
1 TTTGAATTTATTTAATAAGGTTTATG
*
44527345 TTTGAATTTATTTAATGAGGTTTA
1 TTTGAATTTATTTAATAAGGTTTA
44527369 GCATATGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (26 bp):
TTTGAATTTATTTAATAAGGTTTATG
Found at i:44530250 original size:17 final size:17
Alignment explanation
Indices: 44530228--44530261 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44530218 CTTACAATAA
*
44530228 TTAAATAACATTTAAAT
1 TTAAATAAAATTTAAAT
44530245 TTAAATAAAATTTAAAT
1 TTAAATAAAATTTAAAT
44530262 AAATATTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAATAAAATTTAAAT
Found at i:44533946 original size:15 final size:16
Alignment explanation
Indices: 44533920--44533950 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
44533910 TTAAAATTAA
44533920 AAAAATATAATATTTT
1 AAAAATATAATATTTT
44533936 AAAAATA-AATATTTT
1 AAAAATATAATATTTT
44533951 CTTTTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAAATATAATATTTT
Found at i:44534257 original size:18 final size:18
Alignment explanation
Indices: 44534234--44534268 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44534224 ATTATACATA
* *
44534234 TTTAAACAATCCAATATT
1 TTTAAAAAATACAATATT
44534252 TTTAAAAAATACAATAT
1 TTTAAAAAATACAATAT
44534269 CTAGTAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
TTTAAAAAATACAATATT
Found at i:44535825 original size:3 final size:3
Alignment explanation
Indices: 44535817--44535850 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
44535807 CGGATGAAGT
*
44535817 ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
44535851 CTCGAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:44536151 original size:15 final size:14
Alignment explanation
Indices: 44536125--44536166 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
44536115 TCGTTTCACT
*
44536125 AAAAATAATTTTTG
1 AAAAATAATTTTTA
44536139 AAAAATAATTTTTA
1 AAAAATAATTTTTA
44536153 AAAAATTAATTTTT
1 AAAAA-TAATTTTT
44536167 TTATATTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
AAAAATAATTTTTA
Found at i:44536388 original size:21 final size:19
Alignment explanation
Indices: 44536336--44536390 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
44536326 GACAATATTT
44536336 TATATAA-TAATTAATAAAA
1 TATATAATTAA-TAATAAAA
44536355 TATATAAACTTAATAATAAACAA
1 TATAT-AA-TTAATAAT-AA-AA
44536378 TATATAATTAATA
1 TATATAATTAATA
44536391 TAATATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.16
20 2 0.06
21 10 0.32
22 7 0.23
23 7 0.23
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
TATATAATTAATAATAAAA
Found at i:44543523 original size:21 final size:21
Alignment explanation
Indices: 44543477--44543523 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
44543467 TTTTAAAAAT
* * *
44543477 ATTTTTTACATATTTTTTATA
1 ATTTTTTAAATAATTTTTAAA
*
44543498 CTTTTTTAAATAATTTTTAAA
1 ATTTTTTAAATAATTTTTAAA
44543519 ATTTT
1 ATTTT
44543524 AACATATATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTTTAAATAATTTTTAAA
Found at i:44546933 original size:20 final size:20
Alignment explanation
Indices: 44546910--44546948 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44546900 CAAAATAATC
*
44546910 AAAATAATTTTCAAAAATTG
1 AAAACAATTTTCAAAAATTG
*
44546930 AAAACAATTTTTAAAAATT
1 AAAACAATTTTCAAAAATT
44546949 CCAGAATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAACAATTTTCAAAAATTG
Found at i:44549094 original size:28 final size:28
Alignment explanation
Indices: 44549049--44549118 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
44549039 AAAAAATATA
44549049 ATTTTTTAA-TTTTAAAATAA-TTTTAT
1 ATTTTTTAATTTTTAAAATAATTTTTAT
44549075 GA-TTTTTAATTTTTAAAAATAATTTTTAT
1 -ATTTTTTAATTTTT-AAAATAATTTTTAT
44549104 ATTTTTTGAATTTTT
1 ATTTTTT-AATTTTT
44549119 TGAAATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
26 7 0.18
27 5 0.13
28 8 0.21
29 11 0.29
30 7 0.18
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (28 bp):
ATTTTTTAATTTTTAAAATAATTTTTAT
Found at i:44561640 original size:17 final size:17
Alignment explanation
Indices: 44561620--44561656 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
44561610 CTCCCTTGAC
*
44561620 CTTTAATCTTTCATCTT
1 CTTTAATCTTTCATATT
44561637 CTTTAATCTTTCATATT
1 CTTTAATCTTTCATATT
44561654 CTT
1 CTT
44561657 GTAACTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (17 bp):
CTTTAATCTTTCATATT
Found at i:44566790 original size:17 final size:17
Alignment explanation
Indices: 44566770--44566812 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
44566760 CTCCCTTGAC
*
44566770 CTTTAACTTTTCATCTT
1 CTTTAACTTTTCATATT
*
44566787 CTTTAACCTTTCATATT
1 CTTTAACTTTTCATATT
44566804 CTTGTAACT
1 CTT-TAACT
44566813 ACTTTTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.21, C:0.23, G:0.02, T:0.53
Consensus pattern (17 bp):
CTTTAACTTTTCATATT
Found at i:44567015 original size:3 final size:3
Alignment explanation
Indices: 44567007--44567041 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
44566997 CAATTTCATG
*
44567007 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
44567042 GAATAGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:44569151 original size:57 final size:57
Alignment explanation
Indices: 44569060--44569203 Score: 179
Period size: 60 Copynumber: 2.5 Consensus size: 57
44569050 TATTTAACAT
*
44569060 TTTTTTTTAATTTGATACTT-AA-TTTTTTGGTCCAATTTAGTTA-TTAAATTTGATA
1 TTTTTTTTAATTTGATACTTAAACTTTTTTGGTCCAATTT-GATACTTAAATTTGATA
* * *
44569115 -TTTTTTTAATTTGATATTTAAACTTTTTTGGATCCAATTTGATACTTTAATTTGGTA
1 TTTTTTTTAATTTGATACTTAAACTTTTTTGG-TCCAATTTGATACTTAAATTTGATA
*
44569172 TTTTTTTCCTAATTTGGTACTTAAACTTTTTT
1 TTTTTTT--TAATTTGATACTTAAACTTTTTT
44569204 TTAAATTTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
54 18 0.24
55 2 0.03
56 11 0.14
57 18 0.24
58 6 0.08
60 21 0.28
ACGTcount: A:0.25, C:0.08, G:0.09, T:0.58
Consensus pattern (57 bp):
TTTTTTTTAATTTGATACTTAAACTTTTTTGGTCCAATTTGATACTTAAATTTGATA
Found at i:44569478 original size:32 final size:31
Alignment explanation
Indices: 44569423--44569502 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
44569413 AGATCCCAAA
* * * *
44569423 AAATTTAAATACCAACTTAA-AAAAAGTGTC
1 AAATTTAAGTACTAAATTAAGAAAAAATGTC
*
44569453 AAGTTTAAGTACTAAATTAAGAAAAAATGTC
1 AAATTTAAGTACTAAATTAAGAAAAAATGTC
*
44569484 AAATTTGAGTACTAAATTA
1 AAATTTAAGTACTAAATTA
44569503 GACCCAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 16 0.38
31 26 0.62
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (31 bp):
AAATTTAAGTACTAAATTAAGAAAAAATGTC
Found at i:44572286 original size:22 final size:22
Alignment explanation
Indices: 44572243--44572287 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
44572233 TAACAACAAT
* *
44572243 ATGACAGCAAAACAACATTAAA
1 ATGACAACAAAACAACAGTAAA
*
44572265 ATGACAACAAAACAATAGTAAA
1 ATGACAACAAAACAACAGTAAA
44572287 A
1 A
44572288 CAACAGTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.62, C:0.16, G:0.09, T:0.13
Consensus pattern (22 bp):
ATGACAACAAAACAACAGTAAA
Found at i:44574782 original size:18 final size:17
Alignment explanation
Indices: 44574761--44574794 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44574751 AACAGAACAC
44574761 TTTAAGCAAAGCTAATGT
1 TTTAAGCAAAGC-AATGT
*
44574779 TTTAGGCAAAGCAATG
1 TTTAAGCAAAGCAATG
44574795 AATAAGACCA
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:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (17 bp):
TTTAAGCAAAGCAATGT
Found at i:44603952 original size:172 final size:172
Alignment explanation
Indices: 44603609--44603986 Score: 415
Period size: 172 Copynumber: 2.2 Consensus size: 172
44603599 AGCTGTGTGT
* *
44603609 AGTTTATGGATCATAGTGATGGTTATCATTATTGATGATGTGGTATACTGCTTAGATATTCCGTG
1 AGTTTATGGATCATAGTGATGGTTATCATTATTGATGATATGGTATACTGCTTAGATATGCCGTG
* * * * * * *
44603674 TTAATTTATGTTACCTGGACTTGAGGATGACCGCATATCCATGTCTGGGTATGTGTCGTACATTG
66 TTAATCTATGTTACCCGGACTTGAGGATGACCGCATATCCATATCTAGATATGTGTCGCACATAG
*
44603739 GTGTTAGACACAGGTTTAGGAAAAATGAAGAATCTATGTCAC-
131 GTGTTAGACACAGGGTTAGGAAAAA-GAAGAATCTATGTCACA
* * * ** * *
44603781 AGTTTATGGATCATGGTGATGTTTATCGTTATTGATGATATGGTATGTTGCTTAGATATGCTGTT
1 AGTTTATGGATCATAGTGATGGTTATCATTATTGATGATATGGTATACTGCTTAGATATGCCGTG
* *** *
44603846 TTGATCTATGTTACCCGGACTTGAGGATGAGTTCATATCCATATCTAGATATGTGTTGCACATAG
66 TTAATCTATGTTACCCGGACTTGAGGATGACCGCATATCCATATCTAGATATGTGTCGCACATAG
* * *
44603911 GTGTTAG-C-CATGGGTTCGAGAAAAA-CAGAGTCTGGATGTCACA
131 GTGTTAGACACA-GGGTTAG-GAAAAAGAAGAATCT--ATGTCACA
* * * *
44603954 AG-TTCTGGATCATACTGAGGGTTGTCATTATTG
1 AGTTTATGGATCATAGTGATGGTTATCATTATTG
44603987 CTTGGATATG
Statistics
Matches: 169, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
170 8 0.05
171 6 0.04
172 153 0.91
173 2 0.01
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.37
Consensus pattern (172 bp):
AGTTTATGGATCATAGTGATGGTTATCATTATTGATGATATGGTATACTGCTTAGATATGCCGTG
TTAATCTATGTTACCCGGACTTGAGGATGACCGCATATCCATATCTAGATATGTGTCGCACATAG
GTGTTAGACACAGGGTTAGGAAAAAGAAGAATCTATGTCACA
Found at i:44608459 original size:172 final size:171
Alignment explanation
Indices: 44608127--44608464 Score: 380
Period size: 172 Copynumber: 2.0 Consensus size: 171
44608117 CTTTTAGCTG
* * *
44608127 TGTCACAGTTTATGGATGATAGTGATGGTTATCAATATTGATGATGTGATATACTGCTTAGATAT
1 TGTCACAGTTTATGGATCATAGTCATGGTTATCAATATTGATGATCTGATATACTGCTTAGATAT
* * * * *
44608192 TCCAGTTAGTTTATGTTACCCGGACTTGAGGATGACCGCATATCATTGTCCCGATATGTGTCTTA
66 TCCAGTTAATATATGTTACCCGGACTTGAGGATGACCGCATATCATTATCCAGATATGTGTCTCA
* *
44608257 CATAGGTGTTGGACACAGGTTTAGGAAAAACAAAGAATCTA
131 CATAGGTGTTAGACACAGGGTTAGGAAAAACAAAGAATCTA
* ** **
44608298 TGTCACAGTTTATGGATCATGGTCATGGTTATCGTTATTGATGATCTGATATGTTGCTTAGATA-
1 TGTCACAGTTTATGGATCATAGTCATGGTTATCAATATTGATGATCTGATATACTGCTTAGATAT
* * * *** *
44608362 TGCTGTTTTAATATATGTTACTCGGACTTGAGGATGAGTTCATATCCA-TATCTAGATATGTGT-
66 TCCAG--TTAATATATGTTACCCGGACTTGAGGATGACCGCATAT-CATTATCCAGATATGTGTC
*
44608425 TGCACATAGGTGTTAG-C-CATGGGTTCGAGAAAAACAAAGA
128 T-CACATAGGTGTTAGACACA-GGGTTAG-GAAAAACAAAGA
44608465 GTCTGGATGG
Statistics
Matches: 138, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
170 5 0.04
171 63 0.46
172 68 0.49
173 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (171 bp):
TGTCACAGTTTATGGATCATAGTCATGGTTATCAATATTGATGATCTGATATACTGCTTAGATAT
TCCAGTTAATATATGTTACCCGGACTTGAGGATGACCGCATATCATTATCCAGATATGTGTCTCA
CATAGGTGTTAGACACAGGGTTAGGAAAAACAAAGAATCTA
Found at i:44609005 original size:21 final size:21
Alignment explanation
Indices: 44608979--44609020 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
44608969 TGTTTACTTG
44608979 AAATGATTGAAACAGTTCCAA
1 AAATGATTGAAACAGTTCCAA
44609000 AAATGATTGAAACAGTTCCAA
1 AAATGATTGAAACAGTTCCAA
44609021 TCCCTGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (21 bp):
AAATGATTGAAACAGTTCCAA
Found at i:44613118 original size:14 final size:14
Alignment explanation
Indices: 44613099--44613128 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
44613089 TATTCAAACA
44613099 TGAGTTGATTGACT
1 TGAGTTGATTGACT
44613113 TGAGTTGATTGACT
1 TGAGTTGATTGACT
44613127 TG
1 TG
44613129 CTTAGAGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.30, T:0.43
Consensus pattern (14 bp):
TGAGTTGATTGACT
Found at i:44621175 original size:21 final size:21
Alignment explanation
Indices: 44621144--44621200 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
44621134 ACAGTGCAGA
* **
44621144 CTTCTATCGATACCTGTGACAG
1 CTTCTACCGATACAAGTGA-AG
44621166 C-TCTACCGATACAAGTGAAG
1 CTTCTACCGATACAAGTGAAG
*
44621186 CTTCTACCGAAACAA
1 CTTCTACCGATACAA
44621201 ATCATGCATC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.87
22 1 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (21 bp):
CTTCTACCGATACAAGTGAAG
Found at i:44624346 original size:21 final size:22
Alignment explanation
Indices: 44624322--44624363 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
44624312 CATATATATA
44624322 TACTTGATTTTTAA-TTACTTC
1 TACTTGATTTTTAATTTACTTC
44624343 TACTTGATTTTTAATTTACTT
1 TACTTGATTTTTAATTTACTT
44624364 ACTTACTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.60
Consensus pattern (22 bp):
TACTTGATTTTTAATTTACTTC
Found at i:44652033 original size:112 final size:112
Alignment explanation
Indices: 44651836--44652052 Score: 326
Period size: 112 Copynumber: 1.9 Consensus size: 112
44651826 GATGTTTGCC
* * * **
44651836 ATTTTTAATCTTTTTATTCACGCAAGCTTTGCCTCCAATAAAATTCAATTTTGTCCACCTTACAA
1 ATTTTTAATCTTTTCAATCACGCAAGCTTTGCCTCAAATAAAATTCAATTTCATCCACCTTACAA
* * *
44651901 CCCTGTTCAAGCATTCTTGCATTGAAATGATGGTTAGTGGACTAATG
66 CCCTGTTCAAGCATTCTTGCATTAAAATAACGGTTAGTGGACTAATG
* * *
44651948 ATTTTTAATCTTTTCAATCATGCGAGCTTTGCCTCAAATCAAATTCAATTTCATCCACCTTACAA
1 ATTTTTAATCTTTTCAATCACGCAAGCTTTGCCTCAAATAAAATTCAATTTCATCCACCTTACAA
*
44652013 CCCTGTTCAAGCATTTTTGCATTAAAATAACGGTTAGTGG
66 CCCTGTTCAAGCATTCTTGCATTAAAATAACGGTTAGTGG
44652053 TTTAACGATA
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 93 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (112 bp):
ATTTTTAATCTTTTCAATCACGCAAGCTTTGCCTCAAATAAAATTCAATTTCATCCACCTTACAA
CCCTGTTCAAGCATTCTTGCATTAAAATAACGGTTAGTGGACTAATG
Found at i:44652705 original size:50 final size:50
Alignment explanation
Indices: 44652631--44652972 Score: 233
Period size: 50 Copynumber: 6.9 Consensus size: 50
44652621 GTGAACCTTG
* * * *
44652631 TACCTTAGAAGATGTGATGGAAAGGATTGAGGCCGCAACGGCGAATGCGA
1 TACCATAGAAGATATGAAGGAAAGGATTGAGGCCGCAACGGCGAATCCGA
* *
44652681 TACCATA-AAGATATGAAGGAAAAGG-TTGAGGCCGCAACGGCGAACCCTA
1 TACCATAGAAGATATGAAGG-AAAGGATTGAGGCCGCAACGGCGAATCCGA
* * * * **
44652730 TACC-TCAGAAGACAT-AATGGGAAA-GATCGAGGCCGCAACGACGGATCTAA
1 TACCAT-AGAAGATATGAA--GGAAAGGATTGAGGCCGCAACGGCGAATCCGA
* * * * * *
44652780 CACCATGGAA-ATA-AAAGGAAAGG-TTGAGGACACAACGGCGAACCCTG-
1 TACCATAGAAGATATGAAGGAAAGGATTGAGGCCGCAACGGCGAATCC-GA
* * * * * *
44652827 TACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACAGCAAATCCGA
1 TACCATAGAAGATATGAAGGAAAGGATTGAGGCCGCAACGGCGAATCCGA
* * * * *
44652877 TACCAT-GAAGATTTAAAGGGAAAGG-TTGAGGCCACAACGGCGAACCCTA
1 TACCATAGAAGATATGAA-GGAAAGGATTGAGGCCGCAACGGCGAATCCGA
* * *
44652926 TACCATAGAAG--ATGCAATGGGAAGGATTGAGGTCGCAATGGCGAATC
1 TACCATAGAAGATATG-AA-GGAAAGGATTGAGGCCGCAACGGCGAATC
44652973 TGGTACTTTA
Statistics
Matches: 220, Mismatches: 54, Indels: 36
0.71 0.17 0.12
Matches are distributed among these distances:
47 27 0.12
48 5 0.02
49 92 0.42
50 93 0.42
51 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.29, T:0.16
Consensus pattern (50 bp):
TACCATAGAAGATATGAAGGAAAGGATTGAGGCCGCAACGGCGAATCCGA
Found at i:44652726 original size:99 final size:98
Alignment explanation
Indices: 44652594--44652972 Score: 424
Period size: 99 Copynumber: 3.9 Consensus size: 98
44652584 TACCATGGCA
* * * * *
44652594 ATAAAGGGAAAGGTTGATGCCACAACGGTGAACCTTGTACCTTAGAAGATGTGATGGAAAGGATT
1 ATAAAGGGAAAGGTTGAGGCCACAACGGCGAACCCTATACCTTAGAAGATGTAATGGAAAGGATT
*
44652659 GAGGCCGCAACGGCGAATGCGATACCATAAAGAT
66 GAGGCCGCAACGGCGAAT-CGATACCATGAAGAT
* * * * **
44652693 ATGAAGGAAAAGGTTGAGGCCGCAACGGCGAACCCTATACCTCAGAAGACATAATGGGAAA-GAT
1 ATAAAGGGAAAGGTTGAGGCCACAACGGCGAACCCTATACCTTAGAAGATGTAAT-GGAAAGGAT
* * * * *
44652757 CGAGGCCGCAACGACGGATCTAACACCATGGAA-AT
65 TGAGGCCGCAACGGCGAATC-GATACCAT-GAAGAT
* * * *
44652792 A-AAA-GGAAAGGTTGAGGACACAACGGCGAACCCTGTACCTTAGAAGATGTGATGGGAAGGATT
1 ATAAAGGGAAAGGTTGAGGCCACAACGGCGAACCCTATACCTTAGAAGATGTAATGGAAAGGATT
* *
44652855 GAGGCCGCAACAGCAAATCCGATACCATGAAGAT
66 GAGGCCGCAACGGCGAAT-CGATACCATGAAGAT
* * * *
44652889 TTAAAGGGAAAGGTTGAGGCCACAACGGCGAACCCTATACCATAGAAGATGCAATGGGAAGGATT
1 ATAAAGGGAAAGGTTGAGGCCACAACGGCGAACCCTATACCTTAGAAGATGTAATGGAAAGGATT
* *
44652954 GAGGTCGCAATGGCGAATC
66 GAGGCCGCAACGGCGAATC
44652973 TGGTACTTTA
Statistics
Matches: 228, Mismatches: 44, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
96 7 0.03
97 66 0.29
98 8 0.04
99 140 0.61
100 7 0.03
ACGTcount: A:0.36, C:0.19, G:0.29, T:0.16
Consensus pattern (98 bp):
ATAAAGGGAAAGGTTGAGGCCACAACGGCGAACCCTATACCTTAGAAGATGTAATGGAAAGGATT
GAGGCCGCAACGGCGAATCGATACCATGAAGAT
Found at i:44652831 original size:196 final size:196
Alignment explanation
Indices: 44652585--44652937 Score: 555
Period size: 196 Copynumber: 1.8 Consensus size: 196
44652575 TGAATCTAGT
* * * * * *
44652585 ACCATGGCAATAAAGGGAAAGGTTGATGCCACAACGGTGAACCTTGTACCTTAGAAGATGTGATG
1 ACCATGGAAATAAAAGGAAAGGTTGAGGACACAACGGCGAACCCTGTACCTTAGAAGATGTGATG
* * * * *
44652650 GAAAGGATTGAGGCCGCAACGGCGAATGCGATACCATAAAGATATGAAGGAAAAGGTTGAGGCCG
66 GAAAGGATTGAGGCCGCAACAGCAAATCCGATACCATAAAGATATAAAGGAAAAGGTTGAGGCCA
44652715 CAACGGCGAACCCTATACC-TCAGAAGACATAATGGGAAAGATCGAGGCCGCAACGACGGATCTA
131 CAACGGCGAACCCTATACCAT-AGAAGACATAATGGGAAAGATCGAGGCCGCAACGACGGATCTA
44652779 AC
195 AC
44652781 ACCATGGAAATAAAAGGAAAGGTTGAGGACACAACGGCGAACCCTGTACCTTAGAAGATGTGATG
1 ACCATGGAAATAAAAGGAAAGGTTGAGGACACAACGGCGAACCCTGTACCTTAGAAGATGTGATG
* * * *
44652846 GGAAGGATTGAGGCCGCAACAGCAAATCCGATACCATGAAGATTTAAAGGGAAAGGTTGAGGCCA
66 GAAAGGATTGAGGCCGCAACAGCAAATCCGATACCATAAAGATATAAAGGAAAAGGTTGAGGCCA
44652911 CAACGGCGAACCCTATACCATAGAAGA
131 CAACGGCGAACCCTATACCATAGAAGA
44652938 TGCAATGGGA
Statistics
Matches: 141, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
196 140 0.99
197 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.28, T:0.16
Consensus pattern (196 bp):
ACCATGGAAATAAAAGGAAAGGTTGAGGACACAACGGCGAACCCTGTACCTTAGAAGATGTGATG
GAAAGGATTGAGGCCGCAACAGCAAATCCGATACCATAAAGATATAAAGGAAAAGGTTGAGGCCA
CAACGGCGAACCCTATACCATAGAAGACATAATGGGAAAGATCGAGGCCGCAACGACGGATCTAA
C
Found at i:44653148 original size:21 final size:20
Alignment explanation
Indices: 44653097--44653159 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
44653087 GAGGAAAAGC
44653097 AGATTGAAGCTGTAAAGGCG
1 AGATTGAAGCTGTAAAGGCG
* *
44653117 A-ATCTCAAAGCTGTAAAAGGCT
1 AGAT-T-GAAGCTGT-AAAGGCG
*
44653139 AGATTGAAGCTGCAAAGGCG
1 AGATTGAAGCTGTAAAGGCG
44653159 A
1 A
44653160 ATATTACGTC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 2 0.06
20 9 0.26
21 13 0.38
22 8 0.24
23 2 0.06
ACGTcount: A:0.38, C:0.14, G:0.29, T:0.19
Consensus pattern (20 bp):
AGATTGAAGCTGTAAAGGCG
Found at i:44653347 original size:42 final size:42
Alignment explanation
Indices: 44653295--44653884 Score: 670
Period size: 42 Copynumber: 14.6 Consensus size: 42
44653285 AGAGCAAAGC
*
44653295 GAAGATATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
*
44653337 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGTAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
*
44653379 AAAG-C--CATCC-ATCTCTTACCCCGATCATGGGGCAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * * *
44653417 GAAGACATCATCCAATCTCTTACCCCGATTATGAGGTATATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
* *
44653459 GAAG---TCATCCAATCTCTTACCCCGATAATAGGGCAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * * *
44653498 GAAGACAT-ATCTAATC-CTTACCTCGATCATAGGACAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
** *
44653538 GAAG---TCATCCAATCTCTTACCCTAATCATGGGGTAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * * * *
44653577 AAAGACATTATCTAATCTCCTACCCCGATCATGAGGCAGA-T
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * * *
44653618 GAA-A-GTCATCCAATCTCTTACCTCGATCATGAGG-TGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * *
44653657 GAAGACATCATCTAATCTTTTACCCCGATCATGGGGTAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
* *
44653699 GAAG-C--CATCCAATCTCATACCCCGATCATGGGGTAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * *
44653738 GAAGACATCATCCAATCTCTTACCTCGATTATGGGGCAAATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
*
44653780 GAAG-C--CATCCAATCTCTTACCCCGATCATGAGGCAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * * *
44653819 GAAGATATCATCCAATCTTTTACCCTGATCATGAGGCAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
44653861 GAAGACA-CA-CCAATCTCTTACCCC
1 GAAGACATCATCCAATCTCTTACCCC
44653885 TAAAATCAAG
Statistics
Matches: 462, Mismatches: 64, Indels: 46
0.81 0.11 0.08
Matches are distributed among these distances:
37 1 0.00
38 39 0.08
39 159 0.34
40 41 0.09
41 45 0.10
42 177 0.38
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
Found at i:44653638 original size:81 final size:81
Alignment explanation
Indices: 44653302--44653884 Score: 746
Period size: 81 Copynumber: 7.2 Consensus size: 81
44653292 AGCGAAGATA
44653302 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
* * *
44653367 ATGGGGTAGATTAAAG
66 ATGAGGCAGATTGAAG
* *
44653383 CCATCC-ATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATT
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
* *
44653447 ATGAGGTATATTGAAG
66 ATGAGGCAGATTGAAG
* * * *
44653463 TCATCCAATCTCTTACCCCGATAATAGGGCAGATTGAAGACAT-ATCTAATC-CTTACCTCGATC
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
44653526 AT-AGGACAGATTGAAG
66 ATGAGG-CAGATTGAAG
** * * * * *
44653542 TCATCCAATCTCTTACCCTAATCATGGGGTAGATTAAAGACATTATCTAATCTCCTACCCCGATC
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
44653607 ATGAGGCAGA-TGAAAG
66 ATGAGGCAGATTG-AAG
* * * * *
44653623 TCATCCAATCTCTTACCTCGATCATGAGG-TGATTGAAGACATCATCTAATCTTTTACCCCGATC
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
* *
44653687 ATGGGGTAGATTGAAG
66 ATGAGGCAGATTGAAG
* * * * *
44653703 CCATCCAATCTCATACCCCGATCATGGGGTAGATTGAAGACATCATCCAATCTCTTACCTCGATT
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
* *
44653768 ATGGGGCAAATTGAAG
66 ATGAGGCAGATTGAAG
* * * * *
44653784 CCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGATATCATCCAATCTTTTACCCTGATC
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
44653849 ATGAGGCAGATTGAAG
66 ATGAGGCAGATTGAAG
* *
44653865 ACACACCAATCTCTTACCCC
1 TCA-TCCAATCTCTTACCCC
44653885 TAAAATCAAG
Statistics
Matches: 438, Mismatches: 55, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
78 3 0.01
79 57 0.13
80 158 0.36
81 202 0.46
82 18 0.04
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (81 bp):
TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
ATGAGGCAGATTGAAG
Found at i:44660069 original size:25 final size:26
Alignment explanation
Indices: 44660017--44660070 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
44660007 TTTTAAAATT
*
44660017 AAAGAATGAGTTTTGTCTTTTAATGG
1 AAAGAATGAGTTTTGTCTTTTAAAGG
*
44660043 AAAGAATGTGTTATT-T-TTTTAAAGG
1 AAAGAATGAGTT-TTGTCTTTTAAAGG
44660068 AAA
1 AAA
44660071 TAATCAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.44
26 12 0.48
27 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (26 bp):
AAAGAATGAGTTTTGTCTTTTAAAGG
Found at i:44660436 original size:31 final size:30
Alignment explanation
Indices: 44660378--44660518 Score: 167
Period size: 30 Copynumber: 4.6 Consensus size: 30
44660368 CAAAGTTTTT
* *
44660378 AAAAATTCAAATTTAACCCCCTGAATTTTCC
1 AAAAATTCAAATTTAACCCTC-AAATTTTCC
*
44660409 AAAAAATTCAAATTTCACCCTCAAATTTTCC
1 -AAAAATTCAAATTTAACCCTCAAATTTTCC
* * *
44660440 AAAAATTCAAATATAACCCTTAAAATTTCC
1 AAAAATTCAAATTTAACCCTCAAATTTTCC
*
44660470 AAAAATTCAAATTTAACCCTTAAAGTTTT-C
1 AAAAATTCAAATTTAACCCTCAAA-TTTTCC
* *
44660500 AAAAATTAAAATTTGACCC
1 AAAAATTCAAATTTAACCC
44660519 CATTTTAATG
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
30 67 0.69
31 11 0.11
32 19 0.20
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (30 bp):
AAAAATTCAAATTTAACCCTCAAATTTTCC
Found at i:44660503 original size:60 final size:62
Alignment explanation
Indices: 44660363--44660511 Score: 189
Period size: 60 Copynumber: 2.5 Consensus size: 62
44660353 TCATTTTTTA
* * * *
44660363 AACCC-CAAAGTTTTTAAAAATTCAAATTTAACCCCCTGAATTTTCCAAAAAATTCAAATTT
1 AACCCTCAAAGTTTTCAAAAATTCAAATATAACCCCCTAAAATTTCCAAAAAATTCAAATTT
* *
44660424 CACCCTCAAA-TTTTCCAAAAATTCAAATATAA-CCCTTAAAATTTCC-AAAAATTCAAATTT
1 AACCCTCAAAGTTTT-CAAAAATTCAAATATAACCCCCTAAAATTTCCAAAAAATTCAAATTT
* *
44660484 AACCCTTAAAGTTTTCAAAAATTAAAAT
1 AACCCTCAAAGTTTTCAAAAATTCAAAT
44660512 TTGACCCCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
60 34 0.45
61 23 0.30
62 19 0.25
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (62 bp):
AACCCTCAAAGTTTTCAAAAATTCAAATATAACCCCCTAAAATTTCCAAAAAATTCAAATTT
Found at i:44670826 original size:43 final size:41
Alignment explanation
Indices: 44670761--44670840 Score: 106
Period size: 43 Copynumber: 1.9 Consensus size: 41
44670751 ACTTTGCCTT
* * * *
44670761 AAAAAAAAGGAGTTGAGTTGAAAACTCGTAAAGGGCGGCTC
1 AAAAAAAAGGAGTCGAGATGAAAACCCGCAAAGGGCGGCTC
44670802 AAAAAAAAGTGAGGTCGAGATGAAAACCCGCAAAGGGCG
1 AAAAAAAAG-GA-GTCGAGATGAAAACCCGCAAAGGGCG
44670841 TCTCGAAGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 9 0.27
42 2 0.06
43 22 0.67
ACGTcount: A:0.44, C:0.14, G:0.30, T:0.12
Consensus pattern (41 bp):
AAAAAAAAGGAGTCGAGATGAAAACCCGCAAAGGGCGGCTC
Found at i:44671797 original size:50 final size:50
Alignment explanation
Indices: 44671732--44671842 Score: 186
Period size: 50 Copynumber: 2.2 Consensus size: 50
44671722 CTATGGAAGT
*
44671732 GCAGATTGAAACCGCAATGGCAAATCTCATACACCTAAAGCTGTAGAGGG
1 GCAGATTGAAGCCGCAATGGCAAATCTCATACACCTAAAGCTGTAGAGGG
* * *
44671782 GCAGAATGAAGCCGCAATGGTAAATCTCATTCACCTAAAGCTGTAGAGGG
1 GCAGATTGAAGCCGCAATGGCAAATCTCATACACCTAAAGCTGTAGAGGG
44671832 GCAGATTGAAG
1 GCAGATTGAAG
44671843 TCATAAGGAC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (50 bp):
GCAGATTGAAGCCGCAATGGCAAATCTCATACACCTAAAGCTGTAGAGGG
Found at i:44671996 original size:39 final size:39
Alignment explanation
Indices: 44671897--44672111 Score: 288
Period size: 39 Copynumber: 5.5 Consensus size: 39
44671887 AGTTACAACC
*
44671897 TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAA
1 TCCAATCTTTTACCCTAACCAGAGGGCAGATTGAA-ACAA
* * *
44671937 TCCAATCTCTTACCCCAACCATG-GGGCAGATTGAAACAT
1 TCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAACAA
* * *
44671976 TTCAATCTTTTACCCTAACCAGAGGGCAAATTGAAGCAA
1 TCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAACAA
* * *
44672015 TCCAGTCTTTTACCCTAACCAGAGGGTAGATTGAAGCAA
1 TCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAACAA
* *
44672054 TCCAATCTTTTACCCTAACTAGAGGGTAGATTGAAACAA
1 TCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAACAA
44672093 TCCAATCTTTTACCTCTAA
1 TCCAATCTTTTACC-CTAA
44672112 AGTTATAGAG
Statistics
Matches: 155, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.01
39 119 0.77
40 34 0.22
41 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (39 bp):
TCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAACAA
Found at i:44673873 original size:30 final size:30
Alignment explanation
Indices: 44673834--44673978 Score: 197
Period size: 30 Copynumber: 4.9 Consensus size: 30
44673824 ACTCCCAAAG
44673834 TTTTT-AAAAATTCAAATTTAACCCCTAAA
1 TTTTTCAAAAATTCAAATTTAACCCCTAAA
* *
44673863 TTTTTCAAAAATTCAAATTTCA-CCATCAAA
1 TTTTTCAAAAATTCAAATTTAACCCCT-AAA
44673893 -TTTTCTAAAAATTCAAATTTAACCCCTAAA
1 TTTTTC-AAAAATTCAAATTTAACCCCTAAA
*
44673923 ATTTTCAAAAATTCAAATTTAACCCCTAAA
1 TTTTTCAAAAATTCAAATTTAACCCCTAAA
* * *
44673953 GTTTTCAAAAATTAAAATTTGACCCC
1 TTTTTCAAAAATTCAAATTTAACCCC
44673979 GTTTTAATAT
Statistics
Matches: 104, Mismatches: 7, Indels: 9
0.87 0.06 0.08
Matches are distributed among these distances:
29 13 0.12
30 83 0.80
31 8 0.08
ACGTcount: A:0.43, C:0.19, G:0.01, T:0.36
Consensus pattern (30 bp):
TTTTTCAAAAATTCAAATTTAACCCCTAAA
Found at i:44676957 original size:37 final size:37
Alignment explanation
Indices: 44676916--44676986 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
44676906 TGGTAGTGAG
*
44676916 AATATATTGAGCATACTTCCCATAGGTT-TCTATTGGC
1 AATATATCGAGCATACTTCCCATA-GTTATCTATTGGC
* *
44676953 AATATATCGAGTATGCTTCCCATAGTTATCTATT
1 AATATATCGAGCATACTTCCCATAGTTATCTATT
44676987 TGCTAGCCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 3 0.10
37 27 0.90
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (37 bp):
AATATATCGAGCATACTTCCCATAGTTATCTATTGGC
Found at i:44692896 original size:16 final size:17
Alignment explanation
Indices: 44692875--44692909 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
44692865 ATCATAAATT
*
44692875 AATTAATTAA-TTTCTC
1 AATTAAATAAGTTTCTC
44692891 AATTAAATAAGTTTCTC
1 AATTAAATAAGTTTCTC
44692908 AA
1 AA
44692910 CTTTGATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (17 bp):
AATTAAATAAGTTTCTC
Found at i:44693082 original size:22 final size:22
Alignment explanation
Indices: 44693055--44693104 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
44693045 AATTAATCAA
44693055 TTAAATAATAATTTAAAAAGCT
1 TTAAATAATAATTTAAAAAGCT
44693077 TTAAATAATAATTTAAAAAGCT
1 TTAAATAATAATTTAAAAAGCT
*
44693099 ATAAAT
1 TTAAAT
44693105 TAATTTTCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (22 bp):
TTAAATAATAATTTAAAAAGCT
Found at i:44699722 original size:32 final size:32
Alignment explanation
Indices: 44699642--44699708 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
44699632 TTGAAAATAT
44699642 TAAATTAAATCCTAAAAACAAAAGATAATTTC
1 TAAATTAAATCCTAAAAACAAAAGATAATTTC
*
44699674 TAAATTAAATCCTAAAACCAAAAGATAATTTC
1 TAAATTAAATCCTAAAAACAAAAGATAATTTC
44699706 TAA
1 TAA
44699709 TTTTGAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.28
Consensus pattern (32 bp):
TAAATTAAATCCTAAAAACAAAAGATAATTTC
Found at i:44699802 original size:23 final size:23
Alignment explanation
Indices: 44699750--44699804 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
44699740 TCCATCTTTG
* *
44699750 CTGACTAGACCTTCTAGAAGCTG
1 CTGACTGGACCTTCTAGAAGCTA
44699773 CTGACTGGACCTTCTAGAAGCTA
1 CTGACTGGACCTTCTAGAAGCTA
44699796 CTGACTGGA
1 CTGACTGGA
44699805 TGCCACGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (23 bp):
CTGACTGGACCTTCTAGAAGCTA
Found at i:44701386 original size:15 final size:16
Alignment explanation
Indices: 44701360--44701394 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
44701350 GTTGGGAATA
44701360 GGGGAGTAAAAAGGTG
1 GGGGAGTAAAAAGGTG
44701376 GGGGAGTAAAAAGGTG
1 GGGGAGTAAAAAGGTG
44701392 GGG
1 GGG
44701395 TCGGTTTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.54, T:0.11
Consensus pattern (16 bp):
GGGGAGTAAAAAGGTG
Found at i:44701532 original size:15 final size:17
Alignment explanation
Indices: 44701506--44701542 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
44701496 CTAAAATACC
44701506 AAAAATAAAAATAAG-T
1 AAAAATAAAAATAAGAT
*
44701522 AAAAAT-AAAATGAGAT
1 AAAAATAAAAATAAGAT
44701538 AAAAA
1 AAAAA
44701543 ATGAGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (17 bp):
AAAAATAAAAATAAGAT
Found at i:44701545 original size:12 final size:12
Alignment explanation
Indices: 44701528--44701552 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44701518 AAGTAAAAAT
44701528 AAAATGAGATAA
1 AAAATGAGATAA
44701540 AAAATGAGATAA
1 AAAATGAGATAA
44701552 A
1 A
44701553 TTAATAACAA
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:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AAAATGAGATAA
Found at i:44701574 original size:23 final size:23
Alignment explanation
Indices: 44701538--44701585 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
44701528 AAAATGAGAT
* * *
44701538 AAAAAATGAGATAAATTAATAAC
1 AAAAAATAAAATAAATTAAAAAC
44701561 AAAAAATAAAATAAATTAAAAAC
1 AAAAAATAAAATAAATTAAAAAC
44701584 AA
1 AA
44701586 TGGGTTGTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (23 bp):
AAAAAATAAAATAAATTAAAAAC
Found at i:44704776 original size:17 final size:17
Alignment explanation
Indices: 44704754--44704787 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44704744 CTAAGAATTT
44704754 AAAGAAAATAAATTTAA
1 AAAGAAAATAAATTTAA
* *
44704771 AAAGAAACTCAATTTAA
1 AAAGAAAATAAATTTAA
44704788 GTATTGTCGA
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:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAGAAAATAAATTTAA
Found at i:44705862 original size:30 final size:30
Alignment explanation
Indices: 44705798--44706064 Score: 349
Period size: 30 Copynumber: 8.9 Consensus size: 30
44705788 GGATTTAGGG
* *
44705798 AAGTTTGGGGGT-AAAATGGTAATTTTTG-A
1 AAGTTTTGGGGTCAAAAT-GTAATTTTGGAA
* * *
44705827 AAGTTTCGGGGTCAAAATATAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
44705857 GAGTTTTGGGGTCAAGATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
44705887 AAGTTTTAGGGTTAAAATGTAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
44705917 AAGTTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAG-TTTTGGGGTCAAAATGTAATTTTGGAA
44705948 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
44705978 AAGTTTTAGGGTCAAACTATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
44706008 AAGTTTTAGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
44706038 AAGTTTTAGGGTCTAAAATGTAATTTT
1 AAGTTTTGGGGTC-AAAATGTAATTTT
44706065 TGGACAATTT
Statistics
Matches: 213, Mismatches: 21, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
29 19 0.09
30 155 0.73
31 39 0.18
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:44705945 original size:19 final size:19
Alignment explanation
Indices: 44705921--44705975 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
44705911 TTAGAAAAGT
44705921 TTTTGGGGTCAAAATGTAA
1 TTTTGGGGTCAAAATGTAA
44705940 TTTT--GG--AAAA-G---
1 TTTTGGGGTCAAAATGTAA
44705951 TTTTGGGGTCAAAATGTAA
1 TTTTGGGGTCAAAATGTAA
44705970 TTTTGG
1 TTTTGG
44705976 AAAAGTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 4 0.14
13 2 0.07
14 1 0.04
15 8 0.29
16 1 0.04
17 2 0.07
19 10 0.36
ACGTcount: A:0.29, C:0.04, G:0.27, T:0.40
Consensus pattern (19 bp):
TTTTGGGGTCAAAATGTAA
Found at i:44705953 original size:91 final size:90
Alignment explanation
Indices: 44705809--44706064 Score: 370
Period size: 91 Copynumber: 2.8 Consensus size: 90
44705799 AGTTTGGGGG
* * * * *
44705809 TAAAATGGTAATTTTTG-AAAGTTTCGGGGTCAAAATATAATTTTAGAAGAGTTTTGGGGTCAAG
1 TAAAAT-GTAATTTTAGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAA
44705873 ATGTAATTTTGGAAAAGTTTTAGGGT
65 ATGTAATTTTGGAAAAGTTTTAGGGT
*
44705899 TAAAATGTAATTTTAGAAAAGTTTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAA
1 TAAAATGTAATTTTAGAAAAG-TTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAA
44705964 ATGTAATTTTGGAAAAGTTTTAGGGT
65 ATGTAATTTTGGAAAAGTTTTAGGGT
* * * * * *
44705990 CAAACTATAATTTTGGAAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCTAAA
1 TAAAATGTAATTTTAGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTC-AAA
44706055 ATGTAATTTT
65 ATGTAATTTT
44706065 TGGACAATTT
Statistics
Matches: 150, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
89 9 0.06
90 47 0.31
91 94 0.63
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.38
Consensus pattern (90 bp):
TAAAATGTAATTTTAGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAA
TGTAATTTTGGAAAAGTTTTAGGGT
Found at i:44706921 original size:20 final size:19
Alignment explanation
Indices: 44706887--44706927 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
44706877 TTAAGAACTC
*
44706887 ATCCCTTTTTCTTTTGAAA
1 ATCCCTTTTTATTTTGAAA
*
44706906 ATCCCTTTTTTATTTTTAAA
1 ATCCC-TTTTTATTTTGAAA
44706926 AT
1 AT
44706928 TAAAACCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.24, C:0.17, G:0.02, T:0.56
Consensus pattern (19 bp):
ATCCCTTTTTATTTTGAAA
Found at i:44708099 original size:6 final size:6
Alignment explanation
Indices: 44708090--44708213 Score: 91
Period size: 6 Copynumber: 21.2 Consensus size: 6
44708080 TTTTTTTATG
** * *
44708090 TTAAAT TTAATAT CTT-AAT TTTTAT TTAAAT TTAAAT TCAAA- GTAAAT
1 TTAAAT TTAA-AT -TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
44708138 TTAAAT AATTAAAT TTAAAT TTAAA- ATAAAT TTAAAT TT-AAT TTAAA-
1 TTAAAT --TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
44708185 -TAAAT TTAAA- ATCAAT TTAACT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T
44708214 AAACGAAAAG
Statistics
Matches: 92, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
4 4 0.04
5 17 0.18
6 60 0.65
7 3 0.03
8 8 0.09
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:44708167 original size:11 final size:11
Alignment explanation
Indices: 44708122--44708204 Score: 75
Period size: 11 Copynumber: 7.8 Consensus size: 11
44708112 TATTTAAATT
* *
44708122 TAAATTCAAAG
1 TAAATTTAAAA
44708133 TAAATTT-AAA
1 TAAATTTAAAA
*
44708143 T-AA-TTAAATT
1 TAAATTTAAA-A
44708153 TAAATTTAAAA
1 TAAATTTAAAA
*
44708164 TAAATTTAAAT
1 TAAATTTAAAA
*
44708175 TTAATTT-AAA
1 TAAATTTAAAA
44708185 TAAATTTAAAA
1 TAAATTTAAAA
*
44708196 TCAATTTAA
1 TAAATTTAA
44708205 CTTTAAATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
8 2 0.03
9 4 0.07
10 12 0.21
11 35 0.60
12 5 0.09
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:44708176 original size:17 final size:17
Alignment explanation
Indices: 44708115--44708216 Score: 106
Period size: 17 Copynumber: 6.3 Consensus size: 17
44708105 TAATTTTTAT
*
44708115 TTAAATTTAAATTCAAA
1 TTAAATTTAAATTTAAA
*
44708132 GTAAATTTAAA--T-AA
1 TTAAATTTAAATTTAAA
44708146 TTAAATTTAAATTTAAA
1 TTAAATTTAAATTTAAA
* *
44708163 ATAAATTTAAATTTAAT
1 TTAAATTTAAATTTAAA
44708180 TTAAA--TAAATTTAAA
1 TTAAATTTAAATTTAAA
* * *
44708195 ATCAATTTAACTTTAAA
1 TTAAATTTAAATTTAAA
44708212 TTAAA
1 TTAAA
44708217 CGAAAAGTCC
Statistics
Matches: 68, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
14 12 0.18
15 12 0.18
16 1 0.01
17 43 0.63
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (17 bp):
TTAAATTTAAATTTAAA
Found at i:44708185 original size:21 final size:21
Alignment explanation
Indices: 44708135--44708204 Score: 90
Period size: 21 Copynumber: 3.3 Consensus size: 21
44708125 ATTCAAAGTA
44708135 AATTTAAAT-AA-TTAAATTT
1 AATTTAAATAAATTTAAATTT
44708154 AAATTTAAAATAAATTTAAATTT
1 -AATTT-AAATAAATTTAAATTT
* *
44708177 AATTTAAATAAATTTAAAATC
1 AATTTAAATAAATTTAAATTT
44708198 AATTTAA
1 AATTTAA
44708205 CTTTAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
20 5 0.11
21 25 0.56
22 7 0.16
23 8 0.18
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTTAAATAAATTTAAATTT
Found at i:44708597 original size:38 final size:36
Alignment explanation
Indices: 44708553--44709093 Score: 198
Period size: 37 Copynumber: 15.4 Consensus size: 36
44708543 TGATCTTGCT
*
44708553 CTTACTTCAATTTCAGAGATAAAGGCGTGTTATCCAA
1 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-A
** * * *
44708590 CTCTACTTCAATTTCA-AGAGGATGAC--G-T-TGCT
1 CT-TACTTCAATTTCAGAGATAAAGACGTGTTATCCA
* * *
44708622 CTTACTTCAATTCCAGAGATAAAGACTTGATATCCA
1 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA
* *
44708658 GTTTTACTTCAATTTCAAGAGGATAGGAA-ACGATGTTA--CT
1 --CTTACTTCAATTTC-AGA-GATA--AAGACG-TGTTATCCA
* *
44708698 CTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAA
1 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-A
** * * *
44708735 CTCTACTTCAATTTCA-AGAGGATGAC--G-T-TGCT
1 CT-TACTTCAATTTCAGAGATAAAGACGTGTTATCCA
44708767 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA
1 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA
*****
44708803 CTCTACTTCAATTTCA-AGGGGGGTGACGTCG-T-T---
1 CT-TACTTCAATTTCAGA-GATAAAGACGT-GTTATCCA
* *
44708836 CTTACTTCAATTTCAGAGATGAAGACGTGTTATCCT
1 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA
*** * * * *
44708872 CTTTACTTCAATTTCA-AGGGGATGAC---AT-TGCT
1 C-TTACTTCAATTTCAGAGATAAAGACGTGTTATCCA
* * *
44708904 CTTACTTCAATTTCGGAGATGAAGACTTGTTATCCAA
1 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-A
* * * *
44708941 CTCTACTTCAATTTCA-AG---AGGA--TGATATTGCT
1 CT-TACTTCAATTTCAGAGATAAAGACGTGTTA-TCCA
* **
44708973 CTTACTTCAATTTCAGAGATGAAGATTTGTTATCCAA
1 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-A
** * * *
44709010 CTCTACTTCAATTTCA-AGAGGATGAC--G-T-TGCT
1 CT-TACTTCAATTTCAGAGATAAAGACGTGTTATCCA
* *
44709042 CTTACTTCAATTTCAGAGATGAAGACGTGTTATCTA
1 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA
*
44709078 CTCTAATTCAATTTCA
1 CT-TACTTCAATTTCA
44709094 AGCGGATTGG
Statistics
Matches: 378, Mismatches: 71, Indels: 110
0.68 0.13 0.20
Matches are distributed among these distances:
31 65 0.17
32 68 0.18
33 13 0.03
34 16 0.04
35 12 0.03
36 27 0.07
37 84 0.22
38 77 0.20
39 3 0.01
40 5 0.01
41 2 0.01
42 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (36 bp):
CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA
Found at i:44708666 original size:69 final size:69
Alignment explanation
Indices: 44708548--44709100 Score: 752
Period size: 69 Copynumber: 7.9 Consensus size: 69
44708538 GGAAATGATC
* * *
44708548 TTGCTCTTACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
44708613 GACG
66 GACG
* * * ** *
44708617 TTGCTCTTACTTCAATTCCAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
44708682 AGGAAACGATG
66 --G--AC---G
*
44708693 TTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
44708758 GACG
66 GACG
* * * *
44708762 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGGG
1 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAA-GAGGA
44708826 TGACG
65 TGACG
* * * * * *
44708831 TCGTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCC-TCTTTACTTCAATTTCAAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
*
44708895 GACA
66 GACG
*
44708899 TTGCTCTTACTTCAATTTCGGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
**
44708964 GATA
66 GACG
*
44708968 TTGCTCTTACTTCAATTTCAGAGATGAAGATTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
44709033 GACG
66 GACG
* * * *
44709037 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTAT-CTACTCTAATTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
44709101 TGGAAATGAT
Statistics
Matches: 432, Mismatches: 43, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
68 85 0.20
69 282 0.65
71 1 0.00
72 2 0.00
73 2 0.00
74 1 0.00
76 59 0.14
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (69 bp):
TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
GACG
Found at i:44708770 original size:145 final size:145
Alignment explanation
Indices: 44708491--44709106 Score: 791
Period size: 145 Copynumber: 4.4 Consensus size: 145
44708481 GCTCTTCAGG
* * * *
44708491 GAGATAAAGACTTTGCTATCCAACTTTACTTCAATTTCTAA-AGGATAGGAAATGATCTTGCTCT
1 GAGATAAAGAC-TTGTTATCCAACTCTACTTCAATTTC-AAGAGGATAGGAAACGATGTTGCTCT
* *
44708555 TACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
64 TACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
*
44708620 CTCTTACTTCAATTCCA
129 CTCTTACTTCAATTTCA
* ** * *
44708637 GAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTA
1 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATGTTGCTCTTA
*
44708702 CTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCT
66 CTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCT
44708767 CTTACTTCAATTTCA
131 CTTACTTCAATTTCA
* * **
44708782 GAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAG-GG--GGGTGACG-TCG-T--TCTT
1 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGAT-GTTGCTCTT
* * * *
44708839 ACTTCAATTTCAGAGATGAAGACGTGTTATCC-TCTTTACTTCAATTTCAAGGGGATGACATTGC
65 ACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGC
*
44708903 TCTTACTTCAATTTCG
130 TCTTACTTCAATTTCA
* *
44708919 GAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT-------GATATTGCTCTTA
1 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATGTTGCTCTTA
**
44708977 CTTCAATTTCAGAGATGAAGATTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCT
66 CTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCT
44709042 CTTACTTCAATTTCA
131 CTTACTTCAATTTCA
* * * * * *
44709057 GAGATGAAGACGTGTTAT-CTACTCTAATTCAATTTCAAGCGGATTGGAAA
1 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA
44709107 TGATCTTGTT
Statistics
Matches: 415, Mismatches: 38, Indels: 37
0.85 0.08 0.08
Matches are distributed among these distances:
134 1 0.00
135 2 0.00
137 118 0.28
138 114 0.27
139 2 0.00
140 2 0.00
141 6 0.01
143 2 0.00
144 18 0.04
145 139 0.33
146 11 0.03
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (145 bp):
GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATGTTGCTCTTA
CTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCT
CTTACTTCAATTTCA
Found at i:44708962 original size:206 final size:209
Alignment explanation
Indices: 44708490--44709100 Score: 813
Period size: 206 Copynumber: 2.9 Consensus size: 209
44708480 TGCTCTTCAG
* * *
44708490 GGAGATAAAGACTTTGCTATCCAACTTTACTTCAATTTCTAAAGGATAGGAAATGATCTTGCTCT
1 GGAGATGAAGAC-TTGTTATCCAACTCTACTTCAATTTC--AA-G--AGG--ATGA-CTTGCTCT
*
44708555 TACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
57 TACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
* * * *
44708620 CTCTTACTTCAATTCCAGAGATAAAGACTTGATATCCAGT-TTTACTTCAATTTCAAGAGGATAG
122 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCC--TCTTTACTTCAATTTCAAGAGGATA-
44708684 GAAACGATGTTACTCTTACTTCAATTTC
184 G-AACGA-GTTACTCTTACTTCAATTTC
*
44708712 AGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
1 GGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAC-TTGCTCTTACTTCAA
* * * *
44708777 TTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGGGTGACGTCGTTCTTAC
65 TTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAA-GAGGATGACGTTGCTCTTAC
* *
44708841 TTCAATTTCAGAGATGAAGACGTGTTATCCTCTTTACTTCAATTTCAAGGGGAT-G-AC-A-TTG
129 TTCAATTTCAGAGATGAAGACGTGTTATCCTCTTTACTTCAATTTCAAGAGGATAGAACGAGTTA
44708902 CTCTTACTTCAATTTC
194 CTCTTACTTCAATTTC
*
44708918 GGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGATATTGCTCTTACTTCAA
1 GGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGA-CTTGCTCTTACTTCAA
* **
44708983 TTTCAGAGATGAAGATTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACT
65 TTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACT
* * *
44709048 TCAATTTCAGAGATGAAGACGTGTTAT-CTACTCTAATTCAATTTCAAGCGGAT
130 TCAATTTCAGAGATGAAGACGTGTTATCCT-CTTTACTTCAATTTCAAGAGGAT
44709101 TGGAAATGAT
Statistics
Matches: 356, Mismatches: 27, Indels: 28
0.87 0.07 0.07
Matches are distributed among these distances:
205 2 0.01
206 166 0.47
207 18 0.05
208 1 0.00
209 2 0.01
211 1 0.00
212 1 0.00
213 40 0.11
214 85 0.24
216 3 0.01
218 1 0.00
219 2 0.01
221 24 0.07
222 10 0.03
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (209 bp):
GGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACTTGCTCTTACTTCAAT
TTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTT
CAATTTCAGAGATGAAGACGTGTTATCCTCTTTACTTCAATTTCAAGAGGATAGAACGAGTTACT
CTTACTTCAATTTC
Found at i:44709038 original size:275 final size:277
Alignment explanation
Indices: 44708552--44709095 Score: 849
Period size: 275 Copynumber: 1.9 Consensus size: 277
44708542 ATGATCTTGC
* *
44708552 TCTTACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACG
1 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACA
** *
44708617 TTGCTCTTACTTCAATTCCAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGAT
66 TTGCTCTTACTTCAATTCCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
*
44708682 AGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAAT
131 -----A-GATATTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAAT
*
44708747 TTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTC
190 TTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTAATTC
44708812 AATTTCAAGGGGGGTGACGTCGT
255 AATTTCAAGGGGGGTGACGTCGT
* * * *
44708835 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCC-TCTTTACTTCAATTTCAAGGGGATGACA
1 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACA
* * * *
44708899 TTGCTCTTACTTCAATTTCGGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
66 TTGCTCTTACTTCAATTCCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
* *
44708964 -GATATTGCTCTTACTTCAATTTCAGAGATGAAGATTTGTTATCCAACTCTACTTCAATTTCAAG
131 AGATATTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAG
* *
44709028 AGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCTACTCTAATTCAATTTC
196 AGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTAATTCAATTTC
44709093 AAG
261 AAG
44709096 CGGATTGGAA
Statistics
Matches: 242, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
275 126 0.52
282 82 0.34
283 34 0.14
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (277 bp):
TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACA
TTGCTCTTACTTCAATTCCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
AGATATTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAG
AGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTAATTCAATTTC
AAGGGGGGTGACGTCGT
Done.