Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 17 of 75
Found at i:4813161 original size:13 final size:13
Alignment explanation
Indices: 4813143--4813167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4813133 TTTTAAACCT
4813143 TTTTAAAAAATTC
1 TTTTAAAAAATTC
4813156 TTTTAAAAAATT
1 TTTTAAAAAATT
4813168 TATTGCATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTAAAAAATTC
Found at i:4814049 original size:23 final size:23
Alignment explanation
Indices: 4814010--4814065 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
4814000 AGTATTAAAA
*
4814010 TAATATAATCAAGTATTATTATAT
1 TAAT-TAATCAAATATTATTATAT
*
4814034 TAATTAATCAAATATTGTTATAT
1 TAATTAATCAAATATTATTATAT
4814057 TAATTAATC
1 TAATTAATC
4814066 TAAAACAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (23 bp):
TAATTAATCAAATATTATTATAT
Found at i:4817321 original size:17 final size:16
Alignment explanation
Indices: 4817301--4817334 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4817291 TTTATTAAAT
*
4817301 TAATTAATTAATTATTC
1 TAATTAAATAA-TATTC
4817318 TAATTAAATAATATTC
1 TAATTAAATAATATTC
4817334 T
1 T
4817335 CAACCCAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTAAATAATATTC
Found at i:4817380 original size:23 final size:23
Alignment explanation
Indices: 4817353--4817405 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
4817343 TTCTAATTTT
4817353 ATTAAAGTCATGACAACTTTACC
1 ATTAAAGTCATGACAACTTTACC
* *
4817376 GTTAAAGTTATGACAACTTTACC
1 ATTAAAGTCATGACAACTTTACC
4817399 ATTAAAG
1 ATTAAAG
4817406 AATATATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (23 bp):
ATTAAAGTCATGACAACTTTACC
Found at i:4819280 original size:23 final size:23
Alignment explanation
Indices: 4819254--4819312 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
4819244 CAGCTCGTAT
* *
4819254 GAGCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCTCAACA
*
4819277 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACCGTTTCAGCTCAACA
4819300 GAGCTTACCGTTT
1 GAGCTTACCGTTT
4819313 ATTTAGCTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.32
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCAACA
Found at i:4822004 original size:22 final size:25
Alignment explanation
Indices: 4821958--4822004 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 25
4821948 AAAGTGATAG
4821958 GTGAAATGTATAATAAGAATTATTA
1 GTGAAATGTATAATAAGAATTATTA
*
4821983 GTGAAAT-TATGA-AAG-ATTATTA
1 GTGAAATGTATAATAAGAATTATTA
4822005 AATATTGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 3 0.14
24 4 0.19
25 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (25 bp):
GTGAAATGTATAATAAGAATTATTA
Found at i:4829566 original size:2 final size:2
Alignment explanation
Indices: 4829559--4829584 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4829549 ATTAATTAGG
4829559 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4829585 TCACATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4838833 original size:6 final size:6
Alignment explanation
Indices: 4838815--4838850 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
4838805 GGTTTTCTCC
* *
4838815 AAAATG GAAATG AAGATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
4838851 GAGAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:4838912 original size:75 final size:76
Alignment explanation
Indices: 4838769--4838915 Score: 169
Period size: 75 Copynumber: 1.9 Consensus size: 76
4838759 AAAAATGATA
* * *
4838769 AAAATGAAGAAATGAGAAATATTTTGAAATGATTATGGTTTTCTCCAAAATGGAAATGAAGATGA
1 AAAATGAAGAAATGAGAAATATTTTGAAATGAATATCGTTTTCTCCAAAATGGAAATGAACATGA
4838834 AAATGAAAATG
66 AAATGAAAATG
* * *
4838845 AAAATGGAGAAAT-A-AAATCA-TTTGAAAATGAATATCGTTTTCTTCAAAA-GGAAAATG-ACC
1 AAAATGAAGAAATGAGAAAT-ATTTTG-AAATGAATATCGTTTTCTCCAAAATGG-AAATGAACA
4838905 TGAAAAATGAA
63 TG-AAAATGAA
4838916 TTTATGTTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
74 13 0.21
75 36 0.59
76 12 0.20
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.27
Consensus pattern (76 bp):
AAAATGAAGAAATGAGAAATATTTTGAAATGAATATCGTTTTCTCCAAAATGGAAATGAACATGA
AAATGAAAATG
Found at i:4845255 original size:22 final size:21
Alignment explanation
Indices: 4845217--4845258 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
4845207 TGAGTTTATA
*
4845217 ATAAAAAATACATTTTAATTC
1 ATAAAAAATACAATTTAATTC
*
4845238 ATAAAAAATTATAATTTAATT
1 ATAAAAAA-TACAATTTAATT
4845259 TTAACCCTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAAAAATACAATTTAATTC
Found at i:4846858 original size:3 final size:3
Alignment explanation
Indices: 4846850--4846884 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4846840 NNNNNNNNNN
4846850 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4846885 AGGTTGGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4848609 original size:26 final size:26
Alignment explanation
Indices: 4848580--4848637 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
4848570 TTGTAGTGGT
4848580 TGGTTTAACCAACTGATTCTACTAAC
1 TGGTTTAACCAACTGATTCTACTAAC
* * *
4848606 TGGTTTGACCAATTGATTCTATTAAC
1 TGGTTTAACCAACTGATTCTACTAAC
4848632 -GGTTTA
1 TGGTTTA
4848638 TTTAAAGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (26 bp):
TGGTTTAACCAACTGATTCTACTAAC
Found at i:4861716 original size:151 final size:151
Alignment explanation
Indices: 4861431--4861721 Score: 449
Period size: 151 Copynumber: 1.9 Consensus size: 151
4861421 TTTCACGGGT
* * *
4861431 CTGCTCACATAAGCTGTCAGGCTTTCGTTACTACTCAGTGTTGCTCACACAAGCTGTCAGGTATC
1 CTGCTCACACAAGCTGTCAGGCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGTCAGGTATC
* * *
4861496 CGCAACATATGCCGGTATACCTAGCCACTGGTAGAACTTAAGACTAGCACCCGAGTTCACATTAA
66 CGCAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACCAGCACCCGAGTCCACATTAA
4861561 TCACAATTTCGCATCATGGGC
131 TCACAATTTCGCATCATGGGC
*
4861582 CTGCTCACACAAGCTGTCAGTCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGTCAGGTATC
1 CTGCTCACACAAGCTGTCAGGCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGTCAGGTATC
* * * * *
4861647 CGCAGCATATGCTGGTATACCCAGCCACTGGTAGAACTTATGACCAGCACTCG-GATCCACTTTA
66 CGCAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACCAGCACCCGAG-TCCACATTA
*
4861711 TTCACAATTTC
130 ATCACAATTTC
4861722 ACATAGGTCT
Statistics
Matches: 126, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
150 1 0.01
151 125 0.99
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (151 bp):
CTGCTCACACAAGCTGTCAGGCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGTCAGGTATC
CGCAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACCAGCACCCGAGTCCACATTAA
TCACAATTTCGCATCATGGGC
Found at i:4864228 original size:117 final size:118
Alignment explanation
Indices: 4864087--4864321 Score: 463
Period size: 117 Copynumber: 2.0 Consensus size: 118
4864077 AAAAATAACA
4864087 AATAGCTTTATAAAGTAATAAATAACACTTATAAAATTTTATATTAAGAATTCTATACTTAATTT
1 AATAGCTTTATAAAGTAATAAATAACACTTATAAAATTTTATATTAAGAATTCTATACTTAATTT
4864152 TCAAATTTAGTCTTTCTGTTTTTATTTTCAATAATTTTTATTTTTCTTCTTTT
66 TCAAATTTAGTCTTTCTGTTTTTATTTTCAATAATTTTTATTTTTCTTCTTTT
4864205 AATAGCTTTA-AAAGTAATAAATAACACTTATAAAATTTTATATTAAGAATTCTATACTTAATTT
1 AATAGCTTTATAAAGTAATAAATAACACTTATAAAATTTTATATTAAGAATTCTATACTTAATTT
4864269 TCAAATTTAGTCTTTCTGTTTTTATTTTCAATAATTTTTATTTTTCTTCTTTT
66 TCAAATTTAGTCTTTCTGTTTTTATTTTCAATAATTTTTATTTTTCTTCTTTT
4864322 CAAATTTAAA
Statistics
Matches: 117, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
117 107 0.91
118 10 0.09
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.52
Consensus pattern (118 bp):
AATAGCTTTATAAAGTAATAAATAACACTTATAAAATTTTATATTAAGAATTCTATACTTAATTT
TCAAATTTAGTCTTTCTGTTTTTATTTTCAATAATTTTTATTTTTCTTCTTTT
Found at i:4864903 original size:25 final size:23
Alignment explanation
Indices: 4864870--4864915 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
4864860 AATTAATAAC
*
4864870 ATTATAAATTATAATATCTAAATAT
1 ATTAGAAATTA-AATATC-AAATAT
4864895 ATTAGAAATTAAATATCAAAT
1 ATTAGAAATTAAATATCAAAT
4864916 TTTAACATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 6 0.30
25 10 0.50
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTAGAAATTAAATATCAAATAT
Found at i:4866149 original size:14 final size:14
Alignment explanation
Indices: 4866126--4866165 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4866116 ACAGAAAAGT
*
4866126 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
4866140 AAATCATTTTACGG
1 AAAACATTTTACAG
4866154 AAAACATTTTAC
1 AAAACATTTTAC
4866166 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:4866150 original size:34 final size:35
Alignment explanation
Indices: 4866091--4866157 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
4866081 CAAACAGCAG
* * *
4866091 AAAATATTTTCTAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
4866126 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
4866158 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:4868123 original size:5 final size:5
Alignment explanation
Indices: 4868113--4868138 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4868103 AAAATACATT
4868113 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
4868139 GATATAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:4868666 original size:18 final size:19
Alignment explanation
Indices: 4868623--4868666 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
4868613 AAATTTTATT
*
4868623 TTTTTTTCCAAATTTTTAA
1 TTTTTTTCCAAATTTTCAA
*
4868642 TTTTTTT-CAACTTTTCAA
1 TTTTTTTCCAAATTTTCAA
4868660 TTTTTTT
1 TTTTTTT
4868667 AAAAAATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTTTCCAAATTTTCAA
Found at i:4871496 original size:16 final size:16
Alignment explanation
Indices: 4871453--4871515 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
4871443 AAACAAACGA
*
4871453 AAAATAAAATAAAATTT
1 AAAATAAAA-AAAAATT
* *
4871470 AGAAT-ATAAAAAATT
1 AAAATAAAAAAAAATT
* *
4871485 AAATTAAAAAAATATT
1 AAAATAAAAAAAAATT
4871501 AAAATAAAAATAAAA
1 AAAATAAAAA-AAAA
4871516 AATGGCAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
15 9 0.26
16 19 0.54
17 7 0.20
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAATAAAAAAAAATT
Found at i:4871504 original size:23 final size:22
Alignment explanation
Indices: 4871472--4871517 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
4871462 TAAAATTTAG
* *
4871472 AATATAAAAAATTAAATTAAAAA
1 AATAT-AAAAATAAAAATAAAAA
*
4871495 AATATTAAAATAAAAATAAAAA
1 AATATAAAAATAAAAATAAAAA
4871517 A
1 A
4871518 TGGCAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (22 bp):
AATATAAAAATAAAAATAAAAA
Found at i:4871509 original size:14 final size:15
Alignment explanation
Indices: 4871463--4871512 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
4871453 AAAATAAAAT
4871463 AAAAT-TTAGAATATA
1 AAAATATTA-AATATA
*
4871478 AAAA-ATTAAATTAAA
1 AAAATATTAAA-TATA
4871493 AAAATATTAAA-ATA
1 AAAATATTAAATATA
4871507 AAAATA
1 AAAATA
4871513 AAAAATGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 10 0.33
15 14 0.47
16 6 0.20
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
AAAATATTAAATATA
Found at i:4875928 original size:51 final size:50
Alignment explanation
Indices: 4875859--4876054 Score: 196
Period size: 51 Copynumber: 3.9 Consensus size: 50
4875849 CAATGATGTT
* *
4875859 CGGTTCACATAGTAGCCTGCACATAGTACCACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACCACACATGTGACCA-TACCATC
* * * * * * *
4875910 TGATACACGTAGTTGCCTGCACATAGTACCACACACGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACCACACATGTGA-CCATACCATC
* * * * * *
4875961 CGGTACGCATGGTAGCCTACACATAGTACTACACATGTGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACCACACATGTGACCATACCA-TC
* * *
4876011 CGGTACACGTAGTAGCCTGCACATAATACTACACAAGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACCACACATGTGACCAT
4876055 CACTTTCACT
Statistics
Matches: 114, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 71 0.62
52 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACCACACATGTGACCATACCATC
Found at i:4877382 original size:16 final size:15
Alignment explanation
Indices: 4877361--4877414 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 15
4877351 GTTTGGTTCA
4877361 CTGTAATGAAATAGAG
1 CTGTAATG-AATAGAG
4877377 CTGTAATTGAATAGAG
1 CTGTAA-TGAATAGAG
*
4877393 CTGTAATGGAATAAAG
1 CTGTAAT-GAATAGAG
4877409 CTGTAA
1 CTGTAA
4877415 ACAGTAATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
15 1 0.03
16 32 0.91
17 2 0.06
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (15 bp):
CTGTAATGAATAGAG
Found at i:4877958 original size:24 final size:24
Alignment explanation
Indices: 4877931--4877981 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
4877921 ATATCTAATA
4877931 ATTAT-ATATATATGCATTTCTTTT
1 ATTATCAT-TATATGCATTTCTTTT
* * *
4877955 ATTATCATTATATTCTTTTTTTTT
1 ATTATCATTATATGCATTTCTTTT
4877979 ATT
1 ATT
4877982 TTAGTGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (24 bp):
ATTATCATTATATGCATTTCTTTT
Found at i:4880280 original size:18 final size:17
Alignment explanation
Indices: 4880242--4880278 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4880232 GTTGAAATGG
4880242 AAATCATAAAGAAGGAA
1 AAATCATAAAGAAGGAA
4880259 AAATCATAAAGAAGGAA
1 AAATCATAAAGAAGGAA
4880276 AAA
1 AAA
4880279 ATAAATTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.68, C:0.05, G:0.16, T:0.11
Consensus pattern (17 bp):
AAATCATAAAGAAGGAA
Found at i:4892474 original size:3 final size:3
Alignment explanation
Indices: 4892459--4892495 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
4892449 GTAAAATAAA
4892459 AAG AAG -AG AAAG AAG -AG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
4892496 AAGCATAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.13
3 25 0.81
4 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4892481 original size:17 final size:17
Alignment explanation
Indices: 4892459--4892491 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4892449 GTAAAATAAA
4892459 AAGAAG-AGAAAGAAGAG
1 AAGAAGAAG-AAGAAGAG
4892476 AAGAAGAAGAAGAAGA
1 AAGAAGAAGAAGAAGA
4892492 AGAAAAGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAAGAAGAG
Found at i:4892537 original size:12 final size:13
Alignment explanation
Indices: 4892522--4892554 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
4892512 ATGTTGAGAG
4892522 AGAAAAAGAT-GA
1 AGAAAAAGATAGA
4892534 AGAAAAAGATAAGA
1 AGAAAAAGAT-AGA
4892548 AGAAAAA
1 AGAAAAA
4892555 AAAGGAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
14 9 0.47
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (13 bp):
AGAAAAAGATAGA
Found at i:4892551 original size:14 final size:14
Alignment explanation
Indices: 4892459--4892554 Score: 56
Period size: 14 Copynumber: 6.8 Consensus size: 14
4892449 GTAAAATAAA
*
4892459 AAGAAGAGAAAGA-
1 AAGAAGAAAAAGAT
* *
4892472 AGAGAAGAAGAAGAAG
1 A-AGAAGAAAAAG-AT
4892488 AAGAAG-AAAAGCAT
1 AAGAAGAAAAAG-AT
* * *
4892502 AAGGAGAAAGATGTT
1 AAGAAGAAA-AAGAT
*
4892517 GAGAGAGAAAAAGAT
1 AAGA-AGAAAAAGAT
4892532 --GAAGAAAAAGAT
1 AAGAAGAAAAAGAT
4892544 AAGAAGAAAAA
1 AAGAAGAAAAA
4892555 AAAGGAGAAG
Statistics
Matches: 63, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
12 10 0.16
13 3 0.05
14 28 0.44
15 14 0.22
16 8 0.13
ACGTcount: A:0.64, C:0.01, G:0.29, T:0.06
Consensus pattern (14 bp):
AAGAAGAAAAAGAT
Found at i:4899520 original size:13 final size:13
Alignment explanation
Indices: 4899502--4899534 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4899492 ATTTTTAAAA
4899502 TTATTGTAATTTT
1 TTATTGTAATTTT
4899515 TTATTGTAATTTT
1 TTATTGTAATTTT
*
4899528 TTGTTGT
1 TTATTGT
4899535 GAGAGAGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (13 bp):
TTATTGTAATTTT
Found at i:4906861 original size:169 final size:170
Alignment explanation
Indices: 4906662--4907000 Score: 671
Period size: 169 Copynumber: 2.0 Consensus size: 170
4906652 CGAATGAAAA
4906662 CTACTACTAATAAAATTATAAAAATAAAAAGAATAAAAATAAGAAAACAAATTCTAATAAAAACA
1 CTACTACTAATAAAATTATAAAAATAAAAAGAATAAAAATAAGAAAACAAATTCTAATAAAAACA
4906727 ACTAATATAAAAATAAAATAAAATAAAATATACACAAAAGGGAGACACAAACGATGTTGGTGGTC
66 ACTAATATAAAAATAAAATAAAATAAAATATACACAAAAGGGAGACACAAACGATGTTGGTGGTC
4906792 AACAGATGTAGAGGTGCACATTGTGGTGATTCGGTTTACG
131 AACAGATGTAGAGGTGCACATTGTGGTGATTCGGTTTACG
4906832 CTACTACTAA-AAAATTATAAAAATAAAAAGAATAAAAATAAGAAAACAAATTCTAATAAAAACA
1 CTACTACTAATAAAATTATAAAAATAAAAAGAATAAAAATAAGAAAACAAATTCTAATAAAAACA
4906896 ACTAATATAAAAATAAAATAAAATAAAATATACACAAAAGGGAGACACAAACGATGTTGGTGGTC
66 ACTAATATAAAAATAAAATAAAATAAAATATACACAAAAGGGAGACACAAACGATGTTGGTGGTC
4906961 AACAGATGTAGAGGTGCACATTGTGGTGATTCGGTTTACG
131 AACAGATGTAGAGGTGCACATTGTGGTGATTCGGTTTACG
4907001 ATGGAAAGAA
Statistics
Matches: 169, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
169 159 0.94
170 10 0.06
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.23
Consensus pattern (170 bp):
CTACTACTAATAAAATTATAAAAATAAAAAGAATAAAAATAAGAAAACAAATTCTAATAAAAACA
ACTAATATAAAAATAAAATAAAATAAAATATACACAAAAGGGAGACACAAACGATGTTGGTGGTC
AACAGATGTAGAGGTGCACATTGTGGTGATTCGGTTTACG
Found at i:4908952 original size:38 final size:38
Alignment explanation
Indices: 4908901--4908975 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
4908891 TCTAACTTCC
*
4908901 TTTTGCTTGTTAACAGCTTCTTTAAAAATTTTACATAA
1 TTTTGCTTGTTAACAACTTCTTTAAAAATTTTACATAA
*
4908939 TTTTGTTTGTTAACAACTTCTTTAAAAATTTTACATA
1 TTTTGCTTGTTAACAACTTCTTTAAAAATTTTACATA
4908976 CTTTGACATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (38 bp):
TTTTGCTTGTTAACAACTTCTTTAAAAATTTTACATAA
Found at i:4911273 original size:23 final size:23
Alignment explanation
Indices: 4911247--4911321 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
4911237 ATAAGTGCAA
*
4911247 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
4911270 CACTGAAATGTAGCCGAAGCTAA
1 CACTGAAATGTAGCCGAAGCTAC
*
4911293 CACTGAAACGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
4911316 CACTGA
1 CACTGA
4911322 TCAATAACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:4915532 original size:19 final size:18
Alignment explanation
Indices: 4915487--4915542 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
4915477 ATAATTTTCA
* *
4915487 AAAATTTAAAATAATTTTT
1 AAAATTTCAAAT-ATTTAT
*
4915506 AAATTTTCAAATATTTAT
1 AAAATTTCAAATATTTAT
4915524 ACAAATTTCAAA-ATTTAT
1 A-AAATTTCAAATATTTAT
4915542 A
1 A
4915543 TTTTTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 13 0.41
19 19 0.59
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATTTCAAATATTTAT
Found at i:4915537 original size:28 final size:28
Alignment explanation
Indices: 4915479--4915539 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
4915469 AAAATAAAAT
**
4915479 AATTTTCAAAAATTTAAAATAATTTTTA
1 AATTTTCAAAAATTTAAAATAATTTCAA
* *
4915507 AATTTTCAAATATTTATACA-AATTTCAA
1 AATTTTCAAAAATTTA-AAATAATTTCAA
4915535 AATTT
1 AATTT
4915540 ATATTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (28 bp):
AATTTTCAAAAATTTAAAATAATTTCAA
Found at i:4915736 original size:84 final size:85
Alignment explanation
Indices: 4915622--4915792 Score: 335
Period size: 84 Copynumber: 2.0 Consensus size: 85
4915612 CTAATAATTT
4915622 TGGGACCTAATTTATTATTATCATACTCAAGTATCTTTTTTTTATTGTTTTGCTTTGAAAAATTT
1 TGGGACCTAATTTATTATTATCATACTCAAGTATCTTTTTTTTATTGTTTTGCTTTGAAAAATTT
4915687 CAAATATATTCAAATTTGTG
66 CAAATATATTCAAATTTGTG
4915707 TGGGACCT-ATTTATTATTATCATACTCAAGTATCTTTTTTTTATTGTTTTGCTTTGAAAAATTT
1 TGGGACCTAATTTATTATTATCATACTCAAGTATCTTTTTTTTATTGTTTTGCTTTGAAAAATTT
4915771 CAAATATATTCAAATTTGTG
66 CAAATATATTCAAATTTGTG
4915791 TG
1 TG
4915793 CTCTAACATG
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 78 0.91
85 8 0.09
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (85 bp):
TGGGACCTAATTTATTATTATCATACTCAAGTATCTTTTTTTTATTGTTTTGCTTTGAAAAATTT
CAAATATATTCAAATTTGTG
Found at i:4918261 original size:43 final size:43
Alignment explanation
Indices: 4918213--4918336 Score: 167
Period size: 43 Copynumber: 2.9 Consensus size: 43
4918203 ATGCCGCTAT
*
4918213 AGAACATGACATGTAGCGGCGCTTTTATCACAAACGCCACTAA
1 AGAACATGACATTTAGCGGCGCTTTTATCACAAACGCCACTAA
* ** * * *
4918256 AGAACATGACATTTCGCAACACTTTTATCACAAACACCGCTAA
1 AGAACATGACATTTAGCGGCGCTTTTATCACAAACGCCACTAA
* *
4918299 AGAACATGACCTTTAGTGGCGCTTTTATCACAAACGCC
1 AGAACATGACATTTAGCGGCGCTTTTATCACAAACGCC
4918337 GTTAAAAGTA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (43 bp):
AGAACATGACATTTAGCGGCGCTTTTATCACAAACGCCACTAA
Found at i:4927973 original size:36 final size:37
Alignment explanation
Indices: 4927922--4927994 Score: 139
Period size: 36 Copynumber: 2.0 Consensus size: 37
4927912 GCTAAGCTCG
4927922 ACTTTTTTACAATTTTTATATTGAATTATTGTATCTT
1 ACTTTTTTACAATTTTTATATTGAATTATTGTATCTT
4927959 ACTTTTTTAC-ATTTTTATATTGAATTATTGTATCTT
1 ACTTTTTTACAATTTTTATATTGAATTATTGTATCTT
4927995 TCATATAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 26 0.72
37 10 0.28
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.60
Consensus pattern (37 bp):
ACTTTTTTACAATTTTTATATTGAATTATTGTATCTT
Found at i:4928622 original size:82 final size:84
Alignment explanation
Indices: 4928525--4928692 Score: 207
Period size: 89 Copynumber: 2.0 Consensus size: 84
4928515 TTAACCCCTA
*
4928525 ACCCCAAACCACTAA-CCT-CTAAACCTTATTAAATATAGAAATTAAAAAACACTAATTAATCTA
1 ACCCCAAACCACTAACCCTCCTAAACATTATTAAATATAGAAATTAAAAAACACTAATTAATCTA
*
4928588 AATCATAAACCCTAACCCG
66 AACCATAAACCCTAACCCG
* * *
4928607 ACCCCAAATCC-CTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATT
1 ACCCCAAA-CCACTAA-CCCT----CCTAAACATTATTAAATATAGAAATTAAAAAACACTAATT
*
4928671 AATCTAAACCCTAAACCCTAAC
60 AATCTAAACCATAAACCCTAAC
4928693 NNNNNNNNNN
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
82 12 0.17
83 2 0.03
84 3 0.04
89 55 0.76
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (84 bp):
ACCCCAAACCACTAACCCTCCTAAACATTATTAAATATAGAAATTAAAAAACACTAATTAATCTA
AACCATAAACCCTAACCCG
Found at i:4931398 original size:41 final size:40
Alignment explanation
Indices: 4931293--4931381 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 40
4931283 TAATTTTTTT
* *
4931293 GCGGCATTTTTCAAGAAGCG--GCTAATGGTCGACCTATA
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATA
*
4931331 GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATA
4931371 GCGGCATTTTT
1 GCGGCATTTTT
4931382 TATCCAAACG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 19 0.41
40 27 0.59
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (40 bp):
GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATA
Found at i:4933781 original size:20 final size:19
Alignment explanation
Indices: 4933738--4933806 Score: 65
Period size: 18 Copynumber: 3.7 Consensus size: 19
4933728 ATGAAATGAA
4933738 ATATTTAATATAAATAATAT
1 ATATTT-ATATAAATAATAT
4933758 ATATTTATAT-AATAATAT
1 ATATTTATATAAATAATAT
* * *
4933776 ACATATGTATAAA-AA-AT
1 ATATTTATATAAATAATAT
4933793 AT-TTTAGTATAAAT
1 ATATTTA-TATAAAT
4933807 TGTATATACA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 2 0.05
17 9 0.22
18 17 0.43
19 6 0.15
20 6 0.15
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (19 bp):
ATATTTATATAAATAATAT
Found at i:4937535 original size:17 final size:17
Alignment explanation
Indices: 4937510--4937542 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4937500 TGGGATCTTT
*
4937510 TTTTTAGGTTGTTTTGG
1 TTTTAAGGTTGTTTTGG
4937527 TTTTAAGGTTGTTTTG
1 TTTTAAGGTTGTTTTG
4937543 AATCTCAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.27, T:0.64
Consensus pattern (17 bp):
TTTTAAGGTTGTTTTGG
Found at i:4937761 original size:80 final size:80
Alignment explanation
Indices: 4937667--4937828 Score: 324
Period size: 80 Copynumber: 2.0 Consensus size: 80
4937657 AACTGGCTTA
4937667 CCTGAATTCAGCATTTGAGATGCCAATTTGCATCCCTAGATCTGGTTATGAGGTGCCAAGTGTCC
1 CCTGAATTCAGCATTTGAGATGCCAATTTGCATCCCTAGATCTGGTTATGAGGTGCCAAGTGTCC
4937732 CTCACATACCACACC
66 CTCACATACCACACC
4937747 CCTGAATTCAGCATTTGAGATGCCAATTTGCATCCCTAGATCTGGTTATGAGGTGCCAAGTGTCC
1 CCTGAATTCAGCATTTGAGATGCCAATTTGCATCCCTAGATCTGGTTATGAGGTGCCAAGTGTCC
4937812 CTCACATACCACACC
66 CTCACATACCACACC
4937827 CC
1 CC
4937829 CATATTATTT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (80 bp):
CCTGAATTCAGCATTTGAGATGCCAATTTGCATCCCTAGATCTGGTTATGAGGTGCCAAGTGTCC
CTCACATACCACACC
Found at i:4942023 original size:10 final size:10
Alignment explanation
Indices: 4942010--4942037 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4942000 TAAAGAACAA
4942010 AAAAGAAAGT
1 AAAAGAAAGT
4942020 AAAAGAAAGT
1 AAAAGAAAGT
4942030 AAAAGAAA
1 AAAAGAAA
4942038 AAAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (10 bp):
AAAAGAAAGT
Found at i:4942023 original size:24 final size:24
Alignment explanation
Indices: 4941981--4942028 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4941971 TAGAGGGATA
* * *
4941981 AACAGAAAAGAATGGAAAATAAAG
1 AACAAAAAAGAAAGGAAAAGAAAG
*
4942005 AACAAAAAAGAAAGTAAAAGAAAG
1 AACAAAAAAGAAAGGAAAAGAAAG
4942029 TAAAAGAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.71, C:0.04, G:0.19, T:0.06
Consensus pattern (24 bp):
AACAAAAAAGAAAGGAAAAGAAAG
Found at i:4946604 original size:72 final size:72
Alignment explanation
Indices: 4946504--4946679 Score: 208
Period size: 72 Copynumber: 2.4 Consensus size: 72
4946494 CATGTGTTGT
** *
4946504 GGATTCTTTGAAGCTTGTGTGAGCAGCATCAAATCATTATTTATCAATGGCTTGAGATCCAACAC
1 GGATTCTTTGAAGCTTGTGTGAGCAGCATCAAATCACCATTTACCAATGGCTTGAGATCCAACAC
4946569 GTGTTAC
66 GTGTTAC
* * * * * * * * *
4946576 GGATTCTTTGAAGCTTGTGTAAGTAGCATCGAATTACCCTTTACCGATGGCTTGAGGTTCAGCAC
1 GGATTCTTTGAAGCTTGTGTGAGCAGCATCAAATCACCATTTACCAATGGCTTGAGATCCAACAC
**
4946641 GTGTTGT
66 GTGTTAC
* *
4946648 GAATTCTTTGAAGCTTGTTTGAGCAGCATCAA
1 GGATTCTTTGAAGCTTGTGTGAGCAGCATCAA
4946680 GTAAAACTTG
Statistics
Matches: 85, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
72 85 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (72 bp):
GGATTCTTTGAAGCTTGTGTGAGCAGCATCAAATCACCATTTACCAATGGCTTGAGATCCAACAC
GTGTTAC
Found at i:4950759 original size:12 final size:12
Alignment explanation
Indices: 4950744--4950778 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
4950734 TATGGAGGAT
4950744 ATAGAGGTGGAA
1 ATAGAGGTGGAA
*
4950756 ATAGAGGTGTAA
1 ATAGAGGTGGAA
4950768 ATAGAGGTGGA
1 ATAGAGGTGGA
4950779 TGAGGAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (12 bp):
ATAGAGGTGGAA
Found at i:4956797 original size:12 final size:12
Alignment explanation
Indices: 4956778--4956812 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
4956768 CTGTTTTTGA
4956778 TAATTATTAATT
1 TAATTATTAATT
*
4956790 TCATTATTAATT
1 TAATTATTAATT
4956802 TAATTTATTAA
1 TAA-TTATTAA
4956813 ATTTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (12 bp):
TAATTATTAATT
Found at i:4958219 original size:17 final size:17
Alignment explanation
Indices: 4958197--4958230 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4958187 AAAATAATTT
4958197 TTAAAAATTAGAAAATA
1 TTAAAAATTAGAAAATA
*
4958214 TTAAAAATTTGAAAATA
1 TTAAAAATTAGAAAATA
4958231 AATTTCAAAA
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:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
TTAAAAATTAGAAAATA
Found at i:4958580 original size:44 final size:44
Alignment explanation
Indices: 4958487--4958580 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
4958477 ATAGATGTGT
*
4958487 AATGGAATAGAGGCGTAATAGCAAATTAATTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAG-AAATTAATTGTTTGGTTGAATGG
* **
4958532 AATGGAATAGAGGCGTAATAG-TATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGAAATTAAT-TGTTTGGTTGAATGG
4958576 AATGG
1 AATGG
4958581 TGTAATAGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
43 4 0.09
44 19 0.43
45 21 0.48
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGAAATTAATTGTTTGGTTGAATGG
Found at i:4958756 original size:18 final size:17
Alignment explanation
Indices: 4958735--4958769 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4958725 TTATTATTAA
*
4958735 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4958753 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4958770 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4967344 original size:3 final size:3
Alignment explanation
Indices: 4967336--4967364 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4967326 CTCTCAAGGT
4967336 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
4967365 CAGGTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:4968850 original size:34 final size:35
Alignment explanation
Indices: 4968786--4968859 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 35
4968776 TAAAAAATAG
* *
4968786 TAAAAAAATATTCAAATTATGTATACTAGTAAAAA
1 TAAAAAAATATTCAAATTAAGAATACTAGTAAAAA
* *
4968821 TTAAAAAAA-A-TCAAATTAAGAATATTAGTAACAA
1 -TAAAAAAATATTCAAATTAAGAATACTAGTAAAAA
4968855 TAAAA
1 TAAAA
4968860 TATTTACACT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 5 0.15
34 20 0.59
35 1 0.03
36 8 0.24
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.28
Consensus pattern (35 bp):
TAAAAAAATATTCAAATTAAGAATACTAGTAAAAA
Found at i:4969257 original size:47 final size:47
Alignment explanation
Indices: 4969183--4969331 Score: 282
Period size: 47 Copynumber: 3.2 Consensus size: 47
4969173 CATTAGCAAG
4969183 CCAA-AAAGAGTCATATATATACATGATAAGCATGGAAAATAAATCAA
1 CCAATAAA-AGTCATATATATACATGATAAGCATGGAAAATAAATCAA
4969230 CCAATAAAAGTCATATATATACATGATAAGCATGGAAAATAAATCAA
1 CCAATAAAAGTCATATATATACATGATAAGCATGGAAAATAAATCAA
4969277 CCAATAAAAGTCATATATATACATGATAAGCATGGAAAATAAATCAA
1 CCAATAAAAGTCATATATATACATGATAAGCATGGAAAATAAATCAA
4969324 CCAATAAA
1 CCAATAAA
4969332 TCTATGTAAA
Statistics
Matches: 101, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
47 98 0.97
48 3 0.03
ACGTcount: A:0.54, C:0.13, G:0.11, T:0.22
Consensus pattern (47 bp):
CCAATAAAAGTCATATATATACATGATAAGCATGGAAAATAAATCAA
Found at i:4985783 original size:7 final size:7
Alignment explanation
Indices: 4985771--4985796 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4985761 CAATAAGTTT
4985771 AAAAATA
1 AAAAATA
4985778 AAAAATA
1 AAAAATA
4985785 AAAAATA
1 AAAAATA
4985792 AAAAA
1 AAAAA
4985797 CTATAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:4987638 original size:43 final size:43
Alignment explanation
Indices: 4987576--4987662 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
4987566 AGCTTTTATC
4987576 TCACATTTAATAACACATTAAATCTG-CATAACTTTCATGCATT
1 TCACATTTAATAACACATTAAATCTGAC-TAACTTTCATGCATT
* * *
4987619 TCACATTTAATAACTCATTACATCTGACTAACTTTCTTGCATT
1 TCACATTTAATAACACATTAAATCTGACTAACTTTCATGCATT
4987662 T
1 T
4987663 AATTATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 39 0.98
44 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (43 bp):
TCACATTTAATAACACATTAAATCTGACTAACTTTCATGCATT
Found at i:4988660 original size:36 final size:35
Alignment explanation
Indices: 4988614--4988687 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 35
4988604 AAAAGATACT
* ***
4988614 AAAAAATATTCAATTTATTTATACCAGTAACAATA
1 AAAAAATATTCAAATTAAGAATACCAGTAACAATA
*
4988649 AAAAAATTATTCAAATTAAGAATACTAGTAACAATA
1 AAAAAA-TATTCAAATTAAGAATACCAGTAACAATA
4988685 AAA
1 AAA
4988688 TATTTATACT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
35 6 0.18
36 27 0.82
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (35 bp):
AAAAAATATTCAAATTAAGAATACCAGTAACAATA
Found at i:4990901 original size:24 final size:24
Alignment explanation
Indices: 4990871--4990920 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
4990861 TAACATATAA
** *
4990871 AATTTTTAAAAATTAGAAAATTTT
1 AATTTTTAAAAACCAGAAAATATT
4990895 AATTTTTAAAAACCAGAAAATATT
1 AATTTTTAAAAACCAGAAAATATT
4990919 AA
1 AA
4990921 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (24 bp):
AATTTTTAAAAACCAGAAAATATT
Found at i:4992032 original size:12 final size:13
Alignment explanation
Indices: 4992015--4992061 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
4992005 TTTTGATAAG
*
4992015 TATTAATTTCA-T
1 TATTAATTTAATT
4992027 TATTAATTTAATT
1 TATTAATTTAATT
*
4992040 TATTAA-ATAATT
1 TATTAATTTAATT
4992052 TATTTAATTT
1 TA-TTAATTT
4992062 TTATTTAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 17 0.59
13 11 0.38
14 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTAATTTAATT
Found at i:4993726 original size:18 final size:17
Alignment explanation
Indices: 4993703--4993737 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
4993693 AAATTAATTT
4993703 TTAAAAAATTAGAAAATA
1 TTAAAAAATTA-AAAATA
4993721 TTAAAAAATTAAAAATA
1 TTAAAAAATTAAAAATA
4993738 AATTTAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
TTAAAAAATTAAAAATA
Found at i:5001418 original size:42 final size:43
Alignment explanation
Indices: 5001312--5001466 Score: 109
Period size: 43 Copynumber: 3.6 Consensus size: 43
5001302 CTCGTACAAT
* * * ** *
5001312 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAACGAT
1 GCCAATGTCCCAAACATGGTCTTACACATAATCAAATAACGAC
* * * * * *
5001355 GCCACTGTCCCATATAGGGTCTTACACATAATGATATAA-GAC
1 GCCAATGTCCCAAACATGGTCTTACACATAATCAAATAACGAC
* *
5001397 GCCAATGTCCCAAACATGGTCTTACACGTAAATCTCAAAT--CGAT
1 GCCAATGTCCCAAACATGGTCTTACACAT-AA--TCAAATAACGAC
* **
5001441 GCCAACGTCCCAAATGTGGTCTTACA
1 GCCAATGTCCCAAACATGGTCTTACA
5001467 TGATATAACA
Statistics
Matches: 86, Mismatches: 22, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
42 26 0.30
43 31 0.36
44 25 0.29
45 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
GCCAATGTCCCAAACATGGTCTTACACATAATCAAATAACGAC
Found at i:5002023 original size:18 final size:20
Alignment explanation
Indices: 5001986--5002024 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
5001976 TTTCATTTTC
*
5001986 AATTCAACCCAAAATACTCA
1 AATTCAACCAAAAATACTCA
5002006 AATTC-ACCAAAAAT-CTCA
1 AATTCAACCAAAAATACTCA
5002024 A
1 A
5002025 TAAAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (20 bp):
AATTCAACCAAAAATACTCA
Found at i:5005420 original size:22 final size:23
Alignment explanation
Indices: 5005392--5005436 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5005382 AGGCAATCTT
5005392 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
5005414 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
5005437 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:5007822 original size:19 final size:19
Alignment explanation
Indices: 5007798--5007842 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
5007788 CATTTCTTTT
*
5007798 TGCATT-CATTCCATGCATC
1 TGCATTACATTCCAT-CATA
*
5007817 TGCATTACATTGCATCATA
1 TGCATTACATTCCATCATA
5007836 TGCATTA
1 TGCATTA
5007843 GATTTTCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (19 bp):
TGCATTACATTCCATCATA
Found at i:5012504 original size:45 final size:45
Alignment explanation
Indices: 5012401--5012823 Score: 319
Period size: 45 Copynumber: 9.5 Consensus size: 45
5012391 CCACAAATCC
* * * **
5012401 TATCTCCTTGAAGTTGCAGTGGAGCGA-ATTAAAGTTA-CAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAG-GAGACTGAAGAAAGCAAGTCT
* *
5012445 TATCTCCATGAAGTTACAGTGGAGGAGACTGAAGAAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGGAGACTGAAGAAAGCAAGTCT
* * * ** *
5012490 TATCCCCCTAAAGTTACAGTGG-GGCAGACTGAAGATGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGG-AGACTGAAGAAAGCAAGTCT
* *
5012535 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGGAGACTGAAGAAAGCAAGTCT
* * * *
5012580 TATCCCCCTGAAGTTGCAGTGG-GGCAAACTGAA-AATGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGG-AGACTGAAGAA-AGCAAGTCT
* * * * * * *
5012625 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTCAA-TAATTC-
1 TATCTCCCTGAAGTTGCAGTGGAGGAGACTGAAG-AAAGCAAGTCT
* ** * **
5012669 TATCTCCCTAAAGTTGCAGTGGAGCG-GGTTAAAGTTA-CAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAG-GAGACTGAAGAAAGCAAGTCT
* ** *
5012713 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGGAGACTGAAGAAAGCAAGTCT
* * * * ** * *
5012758 TATCTCCCTGAAGTTTCAGTGGAGCAGATTAAAGTTA-CAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGGAGACTGAAGAAAGCAAGTCT
5012802 TATCT-CCTGAAGTTGCAGTGGA
1 TATCTCCCTGAAGTTGCAGTGGA
5012824 ATGGATTAAA
Statistics
Matches: 309, Mismatches: 57, Indels: 27
0.79 0.15 0.07
Matches are distributed among these distances:
43 23 0.07
44 104 0.34
45 179 0.58
46 2 0.01
47 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGTGGAGGAGACTGAAGAAAGCAAGTCT
Found at i:5012564 original size:90 final size:89
Alignment explanation
Indices: 5012411--5012823 Score: 429
Period size: 90 Copynumber: 4.6 Consensus size: 89
5012401 TATCTCCTTG
* * * * * *
5012411 AAGTTGCAGTGGAGC-GAATTAAAGTTACAAGTCTTATCTCCATGAAGTTACAGTGGAGGAGACT
1 AAGTTGCAGTGGAGCAG-ACTAAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
5012475 GAAGAAAGCAAGTCTTATCCCCCTA
65 GAAGAAAGCAAGTCTTATCCCCCTA
* * * *
5012500 AAGTTACAGTGGGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
1 AAGTTGCAGTGGAGCAGACTAAAG-TGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* *
5012565 GAAGAAAACAAGTCTTATCCCCCTG
65 GAAGAAAGCAAGTCTTATCCCCCTA
* * * * * *
5012590 AAGTTGCAGTGGGGCAAACTGAAAATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT
1 AAGTTGCAGTGGAGCAGACT-AAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * * * *
5012655 AAAGTCAA-TAATTC-TATCTCCCTA
65 GAAG-AAAGCAAGTCTTATCCCCCTA
* ** * *
5012679 AAGTTGCAGTGGAGCGGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
1 AAGTTGCAGTGGAGCAGACTAAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
** * * *
5012744 AAGATGGCAAATCTTATCTCCCTG
66 AAGAAAGCAAGTCTTATCCCCCTA
* * * *
5012768 AAGTTTCAGTGGAGCAGATTAAAGTTACAAATCCTATCT-CCTGAAGTTGCAGTGGA
1 AAGTTGCAGTGGAGCAGACTAAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTGGA
5012824 ATGGATTAAA
Statistics
Matches: 271, Mismatches: 47, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
88 62 0.23
89 84 0.31
90 121 0.45
91 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (89 bp):
AAGTTGCAGTGGAGCAGACTAAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
AAGAAAGCAAGTCTTATCCCCCTA
Found at i:5013217 original size:132 final size:131
Alignment explanation
Indices: 5013044--5013457 Score: 548
Period size: 132 Copynumber: 3.1 Consensus size: 131
5013034 CTCTGAATTT
* *
5013044 GCAGTAGAGTAGGTTGAAGATTGTAGATCCTGTCTCTCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
** * *
5013109 AGTGAATCTTATCTTCCTAAGATAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCACTGAG
66 AGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTC-CTAAG
5013174 CA
130 CA
* * * *
5013176 GCAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATCGAACAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
*
5013241 -GATGAATCTTATCTTCCCGAGGTAGTA-GGAAGCAGATTTAAGCCACCAGTCCTATCTTCCTAA
66 AG-TGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATC-TCCTAA
5013304 GCA
129 GCA
* * * *
5013307 GTAGTGGAGTAGGTTGAAGATTGTATATCCTGTCTCCTTAA-CAAGTAGTGTAGCAGATCAAAGA
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGC-AGTAGTGGAGCAGATCAAAGA
* * *
5013371 -AGGCGAGTCTTATCTTCCCGAGGTAGTAGGGAAGCAAATTTAAGCCACCAGTCTTATCTCCCTA
65 CA-GTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCT-CCT-
**
5013435 AAGTT
127 AAGCA
*
5013440 GCAGTGGAGCAGGTTGAA
1 GCAGTGGAGTAGGTTGAA
5013458 ATTACCAATT
Statistics
Matches: 247, Mismatches: 27, Indels: 15
0.85 0.09 0.05
Matches are distributed among these distances:
130 1 0.00
131 113 0.46
132 114 0.46
133 19 0.08
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (131 bp):
GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
AGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCTAAGC
A
Found at i:5020126 original size:45 final size:45
Alignment explanation
Indices: 5020067--5020198 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
5020057 GCAGACAAGT
* * *
5020067 TGCTAGTACAGTGTGGATGAACCACTCATCGGTGCAGATAAAAGC
1 TGCTAATACGGTGTGGATAAACCACTCATCGGTGCAGATAAAAGC
*
5020112 TGCTAATACGGTGTGGATAAACCACTCATCGGTGCAGATAAAAGT
1 TGCTAATACGGTGTGGATAAACCACTCATCGGTGCAGATAAAAGC
* * * * *
5020157 TTCTAATAAGGTGTGGGTAAACCACTCAACGGTGTAGATAAA
1 TGCTAATACGGTGTGGATAAACCACTCATCGGTGCAGATAAA
5020199 TTGCTCATAC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (45 bp):
TGCTAATACGGTGTGGATAAACCACTCATCGGTGCAGATAAAAGC
Found at i:5020151 original size:21 final size:21
Alignment explanation
Indices: 5020086--5020153 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
5020076 AGTGTGGATG
5020086 AACCACTCATCGGTGCAGATAA
1 AACCACTCATCGGTGCAGAT-A
** * **
5020108 AAGCTGCTAATACGGTGTGGATA
1 AA-CCACTCAT-CGGTGCAGATA
5020131 AACCACTCATCGGTGCAGATA
1 AACCACTCATCGGTGCAGATA
5020152 AA
1 AA
5020154 AGTTTCTAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
21 11 0.32
22 7 0.21
23 8 0.24
24 8 0.24
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (21 bp):
AACCACTCATCGGTGCAGATA
Found at i:5022538 original size:20 final size:20
Alignment explanation
Indices: 5022493--5022539 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
5022483 CTTTCTTTTG
*
5022493 TATTTTATTTACTTAAATTT
1 TATTTTATTTACTTAAATTC
*
5022513 TCTTTTATTTAC-TAAATTAC
1 TATTTTATTTACTTAAATT-C
5022533 TATTTTA
1 TATTTTA
5022540 ACCTTATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTATTTACTTAAATTC
Found at i:5023520 original size:17 final size:17
Alignment explanation
Indices: 5023480--5023522 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
5023470 TCTAGCTTTC
5023480 ACAATTTAAGTTTTCAA
1 ACAATTTAAGTTTTCAA
*
5023497 ACTATTTAAGTTTTTCAA
1 ACAATTTAAG-TTTTCAA
5023515 A-AATTTAA
1 ACAATTTAA
5023523 ATTTAAAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (17 bp):
ACAATTTAAGTTTTCAA
Found at i:5025834 original size:30 final size:31
Alignment explanation
Indices: 5025780--5025839 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
5025770 TTGATCATTA
5025780 AACTATTAAAAAATTTTCATTTAAGTCACTG
1 AACTATTAAAAAATTTTCATTTAAGTCACTG
*
5025811 AACTATTCAAAAATTTT-ATTTAAGTCACT
1 AACTATTAAAAAATTTTCATTTAAGTCACT
5025840 AGGTTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (31 bp):
AACTATTAAAAAATTTTCATTTAAGTCACTG
Found at i:5026966 original size:123 final size:124
Alignment explanation
Indices: 5026698--5027002 Score: 375
Period size: 123 Copynumber: 2.4 Consensus size: 124
5026688 TTAAAATTTT
* *
5026698 AAAAGAAATACTCATTTGATTA-CAATGTAACATTCCTAAGTTAAGGTAGGTTCAGTGCCCCAAA
1 AAAAAAAATACTCACTTGA-TAGCAATGTAACATTCCTAAGTTAAGGTAGGTTCAGT----CAAA
** * * *
5026762 AGAGTCAATAGTTGTTAGACTAGCTTTGGCTTGATGGCAATGGTGTAGGTAGGGGGCTAGCAGG
61 AGAACCAATAGTTGTTAGACTAGCTTTGGCTTGATGGCAATGGCGTAAGTAGAGGGCTAGCAGG
* * *
5026826 AAAAAAAATACTTACTTGATAGCAATGTAACATTCCTAAGTTAAGGTAAGTTCAGT-ACAAGAAC
1 AAAAAAAATACTCACTTGATAGCAATGTAACATTCCTAAGTTAAGGTAGGTTCAGTCAAAAGAAC
* * * *
5026890 CGATAGTTGTTAGACTAGCTTTGGCTTGATGGC-ATAGGCGTAATTAGAAGGGTTGGCAGG
66 CAATAGTTGTTAGACTAGCTTTGGCTTGATGGCAAT-GGCGTAAGTAG-AGGGCTAGCAGG
* *
5026950 -GAAAAAATACTCACTTGATAGCAATGTAACATTCCTAAGTTAAGCTAGGTTCA
1 AAAAAAAATACTCACTTGATAGCAATGTAACATTCCTAAGTTAAGGTAGGTTCA
5027003 ATGTCTCAGA
Statistics
Matches: 156, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
122 2 0.01
123 94 0.60
124 9 0.06
127 2 0.01
128 49 0.31
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (124 bp):
AAAAAAAATACTCACTTGATAGCAATGTAACATTCCTAAGTTAAGGTAGGTTCAGTCAAAAGAAC
CAATAGTTGTTAGACTAGCTTTGGCTTGATGGCAATGGCGTAAGTAGAGGGCTAGCAGG
Found at i:5034593 original size:6 final size:6
Alignment explanation
Indices: 5034584--5034617 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
5034574 AATTATTTTG
5034584 TTATAT TTATAT TTATAT TTATAT TTATAT TTAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTAT
5034618 CATAATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATAT
Found at i:5034625 original size:18 final size:18
Alignment explanation
Indices: 5034586--5034626 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5034576 TTATTTTGTT
*
5034586 ATATTTATATTTATATTT
1 ATATTTATATTTATATTA
5034604 ATATTTATATTTATCA-TA
1 ATATTTATATTTAT-ATTA
5034622 ATATT
1 ATATT
5034627 ATTTTTAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTTATATTTATATTA
Found at i:5035376 original size:147 final size:148
Alignment explanation
Indices: 5035194--5035490 Score: 587
Period size: 147 Copynumber: 2.0 Consensus size: 148
5035184 ATTATTATAA
5035194 TATAAATAAATTAAAAATTGATATAATTTAGACTAAAATTAACAAACTGAACTAAAATTTAAAAC
1 TATAAATAAATTAAAAATTGATATAATTTAGACTAAAATTAACAAACTGAACTAAAATTTAAAAC
5035259 ACATTATAAAATTTTGAAACTTACGAATATAATTGTGCACGATCAATTTTAAACTTAAATACTAA
66 ACATTATAAAATTTTGAAACTTACGAATATAATTGTGCACGATCAATTTTAAACTTAAATACTAA
5035324 AAATCCATAAATATCATT
131 AAATCCATAAATATCATT
5035342 TATAAATAAA-TAAAAATTGATATAATTTAGACTAAAATTAACAAACTGAACTAAAATTTAAAAC
1 TATAAATAAATTAAAAATTGATATAATTTAGACTAAAATTAACAAACTGAACTAAAATTTAAAAC
5035406 ACATTATAAAATTTTGAAACTTACGAATATAATTGTGCACGATCAATTTTAAACTTAAATACTAA
66 ACATTATAAAATTTTGAAACTTACGAATATAATTGTGCACGATCAATTTTAAACTTAAATACTAA
5035471 AAATCCATAAATATCATT
131 AAATCCATAAATATCATT
5035489 TA
1 TA
5035491 AGAATTTACC
Statistics
Matches: 149, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
147 139 0.93
148 10 0.07
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (148 bp):
TATAAATAAATTAAAAATTGATATAATTTAGACTAAAATTAACAAACTGAACTAAAATTTAAAAC
ACATTATAAAATTTTGAAACTTACGAATATAATTGTGCACGATCAATTTTAAACTTAAATACTAA
AAATCCATAAATATCATT
Found at i:5037214 original size:16 final size:16
Alignment explanation
Indices: 5037189--5037228 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
5037179 AATATTAAAA
* **
5037189 ATTTTCTTAAATTTTT
1 ATTTTATTAAATAATT
5037205 ATTTTATTAAATAATT
1 ATTTTATTAAATAATT
5037221 ATTTTATT
1 ATTTTATT
5037229 TAAAACGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTATTAAATAATT
Found at i:5038951 original size:28 final size:28
Alignment explanation
Indices: 5038920--5039010 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 28
5038910 GAGCTAACGA
* *
5038920 AAAAAAGGAGTTAGCCTGATGAGTTGCT
1 AAAAAAGGAGTTAGCCAGAAGAGTTGCT
*
5038948 -AAAAAGGAGTTAGCCAGAAGAGTTTGCC
1 AAAAAAGGAGTTAGCCAGAAGAG-TTGCT
5038976 AAAAAAGG-GTTAGCCAGAAGAGTTAGACT
1 AAAAAAGGAGTTAGCCAGAAGAGTT-G-CT
5039005 AAAAAA
1 AAAAAA
5039011 AAGGCTAGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
27 22 0.40
28 19 0.35
29 14 0.25
ACGTcount: A:0.44, C:0.11, G:0.26, T:0.19
Consensus pattern (28 bp):
AAAAAAGGAGTTAGCCAGAAGAGTTGCT
Found at i:5038955 original size:27 final size:28
Alignment explanation
Indices: 5038921--5039009 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
5038911 AGCTAACGAA
* *
5038921 AAAAAGGAGTTAGCCTGATGAGTTG-CT
1 AAAAAGGAGTTAGCCAGAAGAGTTGACT
* *
5038948 AAAAAGGAGTTAGCCAGAAGAGTTTGCCA
1 AAAAAGGAGTTAGCCAGAAGAG-TTGACT
5038977 AAAAAGG-GTTAGCCAGAAGAGTTAGACT
1 AAAAAGGAGTTAGCCAGAAGAGTT-GACT
5039005 AAAAA
1 AAAAA
5039010 AAAGGCTAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.41
28 24 0.44
29 8 0.15
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.19
Consensus pattern (28 bp):
AAAAAGGAGTTAGCCAGAAGAGTTGACT
Found at i:5038976 original size:13 final size:13
Alignment explanation
Indices: 5038954--5039001 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
5038944 TGCTAAAAAG
5038954 GAGTTAGCCAGAA
1 GAGTTAGCCAGAA
* *
5038967 GAGTTTGCCAAAAAA
1 GAGTTAGCC--AGAA
*
5038982 GGGTTAGCCAGAA
1 GAGTTAGCCAGAA
5038995 GAGTTAG
1 GAGTTAG
5039002 ACTAAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 17 0.63
15 10 0.37
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (13 bp):
GAGTTAGCCAGAA
Found at i:5039036 original size:28 final size:28
Alignment explanation
Indices: 5038958--5039037 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 28
5038948 AAAAAGGAGT
* * *
5038958 TAGCCAGAAGAGTTTGCCAAAAAAGGGT
1 TAGCCAGAAGAGTTTGCAAAAAAAAGGC
*
5038986 TAGCCAGAAGAGTTAGACTAAAAAAAAGGC
1 TAGCCAGAAGAGTTTG-C-AAAAAAAAGGC
*
5039016 TAGCTAGAAGAGTTTGCAAAAA
1 TAGCCAGAAGAGTTTGCAAAAA
5039038 TGGGAGTTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 20 0.45
29 2 0.05
30 22 0.50
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.17
Consensus pattern (28 bp):
TAGCCAGAAGAGTTTGCAAAAAAAAGGC
Found at i:5039067 original size:58 final size:58
Alignment explanation
Indices: 5038958--5039067 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
5038948 AAAAAGGAGT
*
5038958 TAGCCAGAAGAGTTTGCCAAAAAAGGGTTAGCCAGAAGAGTTAGACTAAAAAAAAGGC
1 TAGCCAGAAGAGTTTGCCAAAAAAGGGTTAGCAAGAAGAGTTAGACTAAAAAAAAGGC
* * * *
5039016 TAGCTAGAAGAGTTTG-CAAAAATGGGAGTTAGTAAGAATAGTTAGAC-AAAAA
1 TAGCCAGAAGAGTTTGCCAAAAA-AGG-GTTAGCAAGAAGAGTTAGACTAAAAA
5039068 GGAGGTAACA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
57 6 0.13
58 22 0.49
59 17 0.38
ACGTcount: A:0.45, C:0.10, G:0.25, T:0.19
Consensus pattern (58 bp):
TAGCCAGAAGAGTTTGCCAAAAAAGGGTTAGCAAGAAGAGTTAGACTAAAAAAAAGGC
Found at i:5040729 original size:52 final size:52
Alignment explanation
Indices: 5040661--5040760 Score: 200
Period size: 52 Copynumber: 1.9 Consensus size: 52
5040651 TTTTTTTACA
5040661 ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTAGAATATTTTTTTGTT
1 ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTAGAATATTTTTTTGTT
5040713 ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTAGAATATTTTTT
1 ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTAGAATATTTTTT
5040761 GTCCAAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.55
Consensus pattern (52 bp):
ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTAGAATATTTTTTTGTT
Found at i:5041773 original size:21 final size:21
Alignment explanation
Indices: 5041749--5041867 Score: 76
Period size: 21 Copynumber: 5.7 Consensus size: 21
5041739 ATAAGTGCTA
*
5041749 AACAAAAACCCGTAAGGGTTG
1 AACAAAAACCCATAAGGGTTG
* * * *
5041770 AACAAAAGCTCATAAGAGCTG
1 AACAAAAACCCATAAGGGTTG
* *
5041791 AACGAAAACCCATAAGGGTTA
1 AACAAAAACCCATAAGGGTTG
* * * * * *
5041812 AACACAAGCTCAAAAGAGCTG
1 AACAAAAACCCATAAGGGTTG
* * *
5041833 AACAGAAACCCATTAGAGTTG
1 AACAAAAACCCATAAGGGTTG
* *
5041854 AACAGAAACTCATA
1 AACAAAAACCCATA
5041868 TAAGTTAAAC
Statistics
Matches: 71, Mismatches: 27, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.14
Consensus pattern (21 bp):
AACAAAAACCCATAAGGGTTG
Found at i:5041800 original size:42 final size:41
Alignment explanation
Indices: 5041739--5041867 Score: 143
Period size: 42 Copynumber: 3.1 Consensus size: 41
5041729 AAATAAGTAT
* * *
5041739 ATAAGTGCTAAACAAAAACCCGTAAGGGTTGAACAAAAGCTC
1 ATAAGAGCTGAAC-AAAACCCATAAGGGTTGAACAAAAGCTC
* *
5041781 ATAAGAGCTGAACGAAAACCCATAAGGGTTAAACACAAGCTC
1 ATAAGAGCTGAAC-AAAACCCATAAGGGTTGAACAAAAGCTC
* * *
5041823 AAAAGAGCTGAACAGAAACCCATTAGAGTTGAACAGAAA-CTC
1 ATAAGAGCTGAACA-AAACCCATAAGGGTTGAACA-AAAGCTC
5041865 ATA
1 ATA
5041868 TAAGTTAAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
41 1 0.01
42 70 0.96
43 2 0.03
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.16
Consensus pattern (41 bp):
ATAAGAGCTGAACAAAACCCATAAGGGTTGAACAAAAGCTC
Found at i:5041873 original size:21 final size:21
Alignment explanation
Indices: 5041826--5041881 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
5041816 CAAGCTCAAA
*
5041826 AGAGCTGAACAGAAACCCATT
1 AGAGTTGAACAGAAACCCATT
*
5041847 AGAGTTGAACAGAAACTCATAT
1 AGAGTTGAACAGAAACCCAT-T
*
5041869 A-AGTTAAACAGAA
1 AGAGTTGAACAGAA
5041882 GCTCGTGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (21 bp):
AGAGTTGAACAGAAACCCATT
Found at i:5047015 original size:2 final size:2
Alignment explanation
Indices: 5047008--5047034 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5046998 CATTACCAGT
5047008 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
5047035 CTTAATCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5047872 original size:43 final size:42
Alignment explanation
Indices: 5047820--5047951 Score: 160
Period size: 43 Copynumber: 3.1 Consensus size: 42
5047810 ACATGTATTT
* *
5047820 ACAAATCGATGCCACTGTCCTAGACAGGGTCTTACACGTAAAC
1 ACAAGTCGATGCCAC-GTCCCAGACAGGGTCTTACACGTAAAC
* *
5047863 ACAAGTCGATGCTAACGTCCCAGACATGGTCTTACACGTAAAC
1 ACAAGTCGATGC-CACGTCCCAGACAGGGTCTTACACGTAAAC
*
5047906 ACAAGTCGATGCCAACGTCCCAGGC-GTGGTCTTACACG-AAATC
1 ACAAGTCGATGCC-ACGTCCCAGACAG-GGTCTTACACGTAAA-C
5047949 ACA
1 ACA
5047952 TATCAGAAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
42 3 0.04
43 73 0.94
44 2 0.03
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.20
Consensus pattern (42 bp):
ACAAGTCGATGCCACGTCCCAGACAGGGTCTTACACGTAAAC
Found at i:5048892 original size:47 final size:48
Alignment explanation
Indices: 5048838--5048938 Score: 161
Period size: 49 Copynumber: 2.1 Consensus size: 48
5048828 ATAATTGGTT
*
5048838 TACTTTAT-TAACCTTTATATAAATATAT-ACACATATATATAAGGCTA
1 TACTTTATATAA-ATTTATATAAATATATAACACATATATATAAGGCTA
5048885 TACTTTATATAAATTTATATAAATATATACACACATATATATAAGGCTA
1 TACTTTATATAAATTTATATAAATATATA-ACACATATATATAAGGCTA
5048934 TACTT
1 TACTT
5048939 GTACTTTGCC
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
47 23 0.46
48 3 0.06
49 24 0.48
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.41
Consensus pattern (48 bp):
TACTTTATATAAATTTATATAAATATATAACACATATATATAAGGCTA
Found at i:5050876 original size:42 final size:42
Alignment explanation
Indices: 5050829--5050929 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
5050819 AGTGCGAAAT
* * * * *
5050829 AGAAACCCGTAAGGGTTGAAC-GAAAGCTCATAAGAGCTGAAC
1 AGAAACCCATAAAGGTTAAACAGAAA-CTCAAAAGAGATGAAC
*
5050871 GGAAACCCATAAAGGTTAAACAGAAACTCAAAAGAGATGAAC
1 AGAAACCCATAAAGGTTAAACAGAAACTCAAAAGAGATGAAC
*
5050913 AGAAACCCATTAAGGTT
1 AGAAACCCATAAAGGTT
5050930 GAATGGAAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
42 46 0.92
43 4 0.08
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (42 bp):
AGAAACCCATAAAGGTTAAACAGAAACTCAAAAGAGATGAAC
Found at i:5050881 original size:21 final size:21
Alignment explanation
Indices: 5050829--5050958 Score: 86
Period size: 21 Copynumber: 6.2 Consensus size: 21
5050819 AGTGCGAAAT
* *
5050829 AGAAACCCGTAAGGGTTGAAC
1 AGAAACCCATAAGAGTTGAAC
* *
5050850 -GAAAGCTCATAAGAGCTGAAC
1 AGAAA-CCCATAAGAGTTGAAC
* *
5050871 GGAAACCCATAA-AGGTTAAAC
1 AGAAACCCATAAGA-GTTGAAC
* * *
5050892 AGAAACTCAAAAGAGATGAAC
1 AGAAACCCATAAGAGTTGAAC
*
5050913 AGAAACCCATTAAG-GTTGAAT
1 AGAAACCCA-TAAGAGTTGAAC
* * * *
5050934 GGAAACTCATATGAGTTAAAC
1 AGAAACCCATAAGAGTTGAAC
5050955 AGAA
1 AGAA
5050959 GCTTGTGAGA
Statistics
Matches: 81, Mismatches: 22, Indels: 12
0.70 0.19 0.10
Matches are distributed among these distances:
20 8 0.10
21 65 0.80
22 8 0.10
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (21 bp):
AGAAACCCATAAGAGTTGAAC
Found at i:5050956 original size:42 final size:41
Alignment explanation
Indices: 5050829--5050958 Score: 118
Period size: 42 Copynumber: 3.1 Consensus size: 41
5050819 AGTGCGAAAT
* * *
5050829 AGAAACCC-GTAAGGGTTGAACGAAAGCTCATAAGAGCTGAAC
1 AGAAACCCATTAA-GGTTGAAAGAAA-CTCATAAGAGATGAAC
* * * *
5050871 GGAAACCCATAAAGGTTAAACAGAAACTCAAAAGAGATGAAC
1 AGAAACCCATTAAGGTTGAA-AGAAACTCATAAGAGATGAAC
* * * *
5050913 AGAAACCCATTAAGGTTGAATGGAAACTCATATGAGTTAAAC
1 AGAAACCCATTAAGGTTGAA-AGAAACTCATAAGAGATGAAC
5050955 AGAA
1 AGAA
5050959 GCTTGTGAGA
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
42 64 0.91
43 6 0.09
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (41 bp):
AGAAACCCATTAAGGTTGAAAGAAACTCATAAGAGATGAAC
Found at i:5051975 original size:307 final size:308
Alignment explanation
Indices: 5051411--5052030 Score: 1224
Period size: 307 Copynumber: 2.0 Consensus size: 308
5051401 ACAACTTTTA
5051411 CAATTTAGTCCCTTACTAATTAGTCTATCAAATGAACTAAATTTTCTCAATTGATAATTTATCTA
1 CAATTTAGTCCCTTACTAATTAGTCTATCAAATGAACTAAATTTTCTCAATTGATAATTTATCTA
5051476 AATATTCTAGAATATTATACAGCTCTTGCTATTCAGAATTTCAATACCAAACCCTAATATTTAAC
66 AATATTCTAGAATATTATACAGCTCTTGCTATTCAGAATTTCAATACCAAACCCTAATATTTAAC
5051541 CTTTTCATAATTTGGTCCCAAAGTCAATATCTATCAAAATCACTTTATAAAATCATCATACAAAA
131 CTTTTCATAATTTGGTCCCAAAGTCAATATCTATCAAAATCACTTTATAAAATCATCATACAAAA
5051606 ATATATTAAAGCTCTAAGTCCATGTTAATTCATCAAAAAAATTTAGTATTCATCAATGGTAACTT
196 ATATATTAAAGCTCTAAGTCCATGTTAATTCATCAAAAAAATTTAGTATTCATCAATGGTAACTT
5051671 TCAAAATTACCAATAAAATAAAAAACTAATGAAATAGCTAGTTGGACC
261 TCAAAATTACCAATAAAATAAAAAACTAATGAAATAGCTAGTTGGACC
5051719 CAATTTAGT-CCTTACTAATTAGTCTATCAAATGAACTAAATTTTCTCAATTGATAATTTATCTA
1 CAATTTAGTCCCTTACTAATTAGTCTATCAAATGAACTAAATTTTCTCAATTGATAATTTATCTA
5051783 AATATTCTAGAATATTATACAGCTCTTGCTATTCAGAATTTCAATACCAAACCCTAATATTTAAC
66 AATATTCTAGAATATTATACAGCTCTTGCTATTCAGAATTTCAATACCAAACCCTAATATTTAAC
5051848 CTTTTCATAATTTGGTCCCAAAGTCAATATCTATCAAAATCACTTTATAAAATCATCATACAAAA
131 CTTTTCATAATTTGGTCCCAAAGTCAATATCTATCAAAATCACTTTATAAAATCATCATACAAAA
5051913 ATATATTAAAGCTCTAAGTCCATGTTAATTCATCAAAAAAATTTAGTATTCATCAATGGTAACTT
196 ATATATTAAAGCTCTAAGTCCATGTTAATTCATCAAAAAAATTTAGTATTCATCAATGGTAACTT
5051978 TCAAAATTACCAATAAAATAAAAAACTAATGAAATAGCTAGTTGGACC
261 TCAAAATTACCAATAAAATAAAAAACTAATGAAATAGCTAGTTGGACC
*
5052026 TAATT
1 CAATT
5052031 GTAAAAGTCT
Statistics
Matches: 311, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
307 302 0.97
308 9 0.03
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (308 bp):
CAATTTAGTCCCTTACTAATTAGTCTATCAAATGAACTAAATTTTCTCAATTGATAATTTATCTA
AATATTCTAGAATATTATACAGCTCTTGCTATTCAGAATTTCAATACCAAACCCTAATATTTAAC
CTTTTCATAATTTGGTCCCAAAGTCAATATCTATCAAAATCACTTTATAAAATCATCATACAAAA
ATATATTAAAGCTCTAAGTCCATGTTAATTCATCAAAAAAATTTAGTATTCATCAATGGTAACTT
TCAAAATTACCAATAAAATAAAAAACTAATGAAATAGCTAGTTGGACC
Found at i:5062025 original size:24 final size:24
Alignment explanation
Indices: 5061956--5062048 Score: 66
Period size: 24 Copynumber: 3.9 Consensus size: 24
5061946 CATTCATTCT
* *
5061956 TCAGAGGATAAGATTTCACATCCT
1 TCAGGGGATAAGATTTCACATCCA
* *
5061980 TTATGGGAT---ATTATCATTCATCCA
1 TCAGGGGATAAGATT-TCA--CATCCA
*
5062004 TCAGGGGATAAGATTTCACATCCC
1 TCAGGGGATAAGATTTCACATCCA
* * *
5062028 TCAAGGGATCATATTTCACAT
1 TCAGGGGATAAGATTTCACAT
5062049 TCTTAAGGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
21 3 0.06
22 3 0.06
24 41 0.77
26 3 0.06
27 3 0.06
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (24 bp):
TCAGGGGATAAGATTTCACATCCA
Found at i:5062036 original size:48 final size:48
Alignment explanation
Indices: 5061945--5062036 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
5061935 ATTGAACCCT
* * * * *
5061945 TCATTCATTCTTCAGAGGATAAGATTTCACATCCTTTATGGGATATTA
1 TCATTCATCCATCAGAGGATAAGATTTCACATCCCTCAAGGGATATTA
*
5061993 TCATTCATCCATCAGGGGATAAGATTTCACATCCCTCAAGGGAT
1 TCATTCATCCATCAGAGGATAAGATTTCACATCCCTCAAGGGAT
5062037 CATATTTCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (48 bp):
TCATTCATCCATCAGAGGATAAGATTTCACATCCCTCAAGGGATATTA
Found at i:5062747 original size:31 final size:31
Alignment explanation
Indices: 5062709--5062771 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
5062699 GCCTAAGAAG
5062709 TAAGTAAATATATTTCAGAATTTATTAGAGC
1 TAAGTAAATATATTTCAGAATTTATTAGAGC
5062740 TAAGTAAATATATTTCAGAATTTATTAGAGC
1 TAAGTAAATATATTTCAGAATTTATTAGAGC
5062771 T
1 T
5062772 TGATAGACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (31 bp):
TAAGTAAATATATTTCAGAATTTATTAGAGC
Found at i:5066841 original size:22 final size:20
Alignment explanation
Indices: 5066816--5066855 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5066806 CCAACCCAAT
5066816 TTTTAATAAACACAAAAAATTA
1 TTTTAA-AAACA-AAAAAATTA
*
5066838 TTTTAAAAATAAAAAAAT
1 TTTTAAAAACAAAAAAAT
5066856 AAAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 4 0.24
22 6 0.35
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
TTTTAAAAACAAAAAAATTA
Found at i:5067932 original size:2 final size:2
Alignment explanation
Indices: 5067925--5067950 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5067915 CTACCTTAGA
5067925 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
5067951 GAATCTAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:5069707 original size:22 final size:22
Alignment explanation
Indices: 5069676--5069718 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5069666 TGAATATATA
*
5069676 TAATATAAT-AATAAAGTAAATT
1 TAATAAAATAAAT-AAGTAAATT
5069698 TAATAAAATAAATAAGTAAAT
1 TAATAAAATAAATAAGTAAAT
5069719 GAAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
TAATAAAATAAATAAGTAAATT
Found at i:5069724 original size:22 final size:21
Alignment explanation
Indices: 5069689--5069730 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
5069679 TATAATAATA
**
5069689 AAGTAAATTTAATAAAATAAAT
1 AAGTAAATGAAAT-AAATAAAT
5069711 AAGTAAATGAAATAAATAAA
1 AAGTAAATGAAATAAATAAA
5069731 GAATAGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (21 bp):
AAGTAAATGAAATAAATAAAT
Found at i:5070502 original size:9 final size:9
Alignment explanation
Indices: 5070486--5070532 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
5070476 TTTATGGAAT
5070486 TTATATTGA
1 TTATATTGA
*
5070495 TTAAATTGGTA
1 TTATATT-G-A
5070506 TATATATTGA
1 T-TATATTGA
5070516 TTATATTGA
1 TTATATTGA
5070525 TTAT-TTGA
1 TTATATTGA
5070533 ATTGAAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
8 4 0.12
9 18 0.55
10 3 0.09
11 3 0.09
12 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (9 bp):
TTATATTGA
Found at i:5070778 original size:40 final size:40
Alignment explanation
Indices: 5070655--5070794 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
5070645 GACTTCGAGT
* * *
5070655 CGATGAGACACTAGGTGTC-AATTTATTATTTCGGATATATT
1 CGATGAGACACTGGGTGTCAAATTT-TTACTTCGGAT-TATC
* * * * *
5070696 CAATGAGGCACTGGGTG-CCAA--TTTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTTTTACTTCGGATTATC
* *
5070733 TGATGAGACACTGGGTGTCAAATTTTTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTTTTACTTCGGATTATC
* * *
5070773 CGATGAGGCATTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
5070795 CTGGTGTGTT
Statistics
Matches: 77, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
37 16 0.21
38 12 0.16
39 1 0.01
40 32 0.42
41 16 0.21
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTTTTACTTCGGATTATC
Found at i:5075948 original size:43 final size:43
Alignment explanation
Indices: 5075849--5075976 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 43
5075839 AGCTTGTACA
* *
5075849 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAAACACATATCG
*
5075892 ATGCC-ACTATCCCAAACAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-ATCCCAGAC-GTGGTCTTACACGTAAACACATA-TCG
*
5075935 ATGCCAACGTCCCAGACGTGGTCTTACACG-ACAACACATATC
1 ATGCCAACATCCCAGACGTGGTCTTACACGTA-AACACATATC
5075977 AGAAGTCCTA
Statistics
Matches: 73, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
42 5 0.07
43 64 0.88
44 4 0.05
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.21
Consensus pattern (43 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGTAAACACATATCG
Found at i:5080168 original size:25 final size:27
Alignment explanation
Indices: 5080117--5080170 Score: 85
Period size: 25 Copynumber: 2.1 Consensus size: 27
5080107 CGAGCACATA
*
5080117 AACGGGAAGCTCTCTCTCGAGCTATAT
1 AACGGGAAGCTCTATCTCGAGCTATAT
5080144 AACGGGAAGCT-TATC-CGAGCTATAT
1 AACGGGAAGCTCTATCTCGAGCTATAT
5080169 AA
1 AA
5080171 TGGAAAACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 12 0.46
26 3 0.12
27 11 0.42
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (27 bp):
AACGGGAAGCTCTATCTCGAGCTATAT
Found at i:5080187 original size:25 final size:25
Alignment explanation
Indices: 5080134--5080188 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
5080124 AGCTCTCTCT
* * * *
5080134 CGAGCTATATAACGGGAAGCTTATC
1 CGAGCTATATAACGGAAAACTCATA
*
5080159 CGAGCTATATAATGGAAAACTCATA
1 CGAGCTATATAACGGAAAACTCATA
5080184 CGAGC
1 CGAGC
5080189 CATAATTAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (25 bp):
CGAGCTATATAACGGAAAACTCATA
Found at i:5080875 original size:5 final size:5
Alignment explanation
Indices: 5080858--5080889 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
5080848 AATTTAATAA
5080858 AATTC ATATTC AATTC AATTC AATTC AATTC A
1 AATTC A-ATTC AATTC AATTC AATTC AATTC A
5080890 CATCTTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
AATTC
Found at i:5091439 original size:15 final size:16
Alignment explanation
Indices: 5091405--5091441 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
5091395 TGGGTGAAAG
*
5091405 AAAATATTTTATGTTA
1 AAAATATTTGATGTTA
*
5091421 AAAATATTTGATTTTA
1 AAAATATTTGATGTTA
5091437 AAAAT
1 AAAAT
5091442 GATTCAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (16 bp):
AAAATATTTGATGTTA
Found at i:5101403 original size:17 final size:17
Alignment explanation
Indices: 5101381--5101413 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
5101371 ATATTTAATA
5101381 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
5101398 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
5101414 TAAAAATATA
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:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:5102551 original size:45 final size:46
Alignment explanation
Indices: 5102487--5102582 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 46
5102477 TACTTAATCA
5102487 AGTATAAATAATAAATAATAAATACCATGTAATTTAGTTAA-ATTT
1 AGTATAAATAATAAATAATAAATACCATGTAATTTAGTTAATATTT
** * *
5102532 AGTATAAATAATTTATAATAAATACTATTTAATTTAGTTAATTATTT
1 AGTATAAATAATAAATAATAAATACCATGTAATTTAGTTAA-TATTT
5102579 AGTA
1 AGTA
5102583 AGTCAAAATG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 37 0.82
47 8 0.18
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (46 bp):
AGTATAAATAATAAATAATAAATACCATGTAATTTAGTTAATATTT
Found at i:5107080 original size:15 final size:15
Alignment explanation
Indices: 5107055--5107089 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
5107045 AACTCTATTT
*
5107055 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
5107069 TAATTAATATTAAGA
1 TAATTAATATTAAGA
5107084 TAATTA
1 TAATTA
5107090 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:5108783 original size:4 final size:4
Alignment explanation
Indices: 5108774--5108836 Score: 60
Period size: 4 Copynumber: 15.5 Consensus size: 4
5108764 CAACCCAATT
*
5108774 TTTA TTTA TTTA -TT- TTTA TTTTA TTTTA TTTA CTTTA TTTA TTAA TTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA TTTA -TTTA TTTA TTTA TTTA
5108823 TTT- TATTA TTTA TT
1 TTTA T-TTA TTTA TT
5108837 ACTTACTTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
3 5 0.10
4 32 0.63
5 14 0.27
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:5108835 original size:33 final size:29
Alignment explanation
Indices: 5108774--5108840 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
5108764 CAACCCAATT
*
5108774 TTTA-TTTATTTATTTTTATTTTATTTTA
1 TTTACTTTATTTATTTTTATTTTATTATA
*
5108802 TTTACTTTATTTATTAATTTATTTTATTATT
1 TTTACTTTATTTATT--TTTATTTTATTATA
5108833 TATTACTT
1 T-TTACTT
5108841 ACTTGGATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 4 0.12
29 10 0.30
31 13 0.39
32 6 0.18
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (29 bp):
TTTACTTTATTTATTTTTATTTTATTATA
Found at i:5110075 original size:20 final size:20
Alignment explanation
Indices: 5110042--5110089 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 20
5110032 CTAAAGCATA
* *
5110042 AAAAATATAAAAAATAAATAAAT
1 AAAAAT-TAAAAGA-AAA-AAAG
5110065 AAAAATTAAAAGAAAAAAAG
1 AAAAATTAAAAGAAAAAAAG
5110085 AAAAA
1 AAAAA
5110090 AATATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 3 0.13
22 6 0.26
23 6 0.26
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (20 bp):
AAAAATTAAAAGAAAAAAAG
Found at i:5110680 original size:15 final size:15
Alignment explanation
Indices: 5110655--5110689 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
5110645 AACTCTATTT
*
5110655 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
5110669 TAATTAATATTAAGA
1 TAATTAATATTAAGA
5110684 TAATTA
1 TAATTA
5110690 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:5111880 original size:41 final size:42
Alignment explanation
Indices: 5111835--5111951 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 42
5111825 GGCGTTTGGA
*
5111835 CAAAAAACGCCACTAAAAATC-GAGCATTAGCGGCGCTTACT
1 CAAAAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTACT
** **
5111876 C-AAAAACGCGGCTAAAGGCCAGAGCATTAGCGGCGCTTACT
1 CAAAAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTACT
** **
5111917 C-AAAAACGCGGCTAAAGGCCAGAGCATTAGCGGCG
1 CAAAAAACGCCACTAAAAACCAGAGCATTAGCGGCG
5111952 TTTTCTGAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 14 0.20
41 56 0.80
ACGTcount: A:0.35, C:0.26, G:0.25, T:0.14
Consensus pattern (42 bp):
CAAAAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTACT
Found at i:5112070 original size:41 final size:41
Alignment explanation
Indices: 5112011--5112249 Score: 252
Period size: 41 Copynumber: 5.8 Consensus size: 41
5112001 GAGTTTTTAG
* *
5112011 GGCCTTTAGCGGCATTTTTGAATAAACGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAACGCCGCTAATGCTCT
* *
5112052 GGCCTTTAGCCGCGTTTTTG-AGTAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAG-AAACGCCGCTAATGCTCT
5112093 GGCCTTTAGCGGCGTTTTTGAA-AAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAA-CGCCGCTAATGCTCT
** * * * *
5112134 ATCTTTTAGCGGCGTTTTTGAAGAAGCGCCGCTGATGCTCA
1 GGCCTTTAGCGGCGTTTTTGAAGAAACGCCGCTAATGCTCT
** * * * *
5112175 GATCTTTAGCGGCGTTTTTAAAGAAGCGCCGGTATTGCTGC-
1 GGCCTTTAGCGGCGTTTTTGAAGAAACGCCGCTAATGCT-CT
* *
5112216 AGCCTTTAGCGGCGTTTTT-AAAAAAGCGCCGCTA
1 GGCCTTTAGCGGCGTTTTTGAAGAAA-CGCCGCTA
5112250 GTAATAATAA
Statistics
Matches: 166, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
40 7 0.04
41 155 0.93
42 4 0.02
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAGAAACGCCGCTAATGCTCT
Found at i:5112149 original size:82 final size:81
Alignment explanation
Indices: 5112011--5112249 Score: 286
Period size: 82 Copynumber: 2.9 Consensus size: 81
5112001 GAGTTTTTAG
* * *
5112011 GGCCTTTAGCGGCATTTTTGAATAAA-CGCCGCTAATGCTCTGGCCTTTAGCCGCGTTTTTGAGT
1 GGCCTTTAGCGGCGTTTTTGAA-AAAGCGCCGCTAATGCTCTAGCCTTTAGCGGCGTTTTTGAG-
*
5112075 AAGCGCCGCTAATGCTCT
64 AAGCGCCGCTAATGCTCA
* *
5112093 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTATCTTTTAGCGGCGTTTTTGAAGA
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTAGCCTTTAGCGGCGTTTTTG-AGA
*
5112158 AGCGCCGCTGATGCTCA
65 AGCGCCGCTAATGCTCA
** * * *
5112175 GATCTTTAGCGGCGTTTTT-AAAGAAGCGCCGGTATTGCTGC-AGCCTTTAGCGGCGTTTTTAAA
1 GGCCTTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCT-CTAGCCTTTAGCGGCGTTTTT-GA
*
5112238 AAAGCGCCGCTA
63 GAAGCGCCGCTA
5112250 GTAATAATAA
Statistics
Matches: 136, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
81 6 0.04
82 127 0.93
83 3 0.02
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (81 bp):
GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTAGCCTTTAGCGGCGTTTTTGAGAA
GCGCCGCTAATGCTCA
Found at i:5112234 original size:123 final size:123
Alignment explanation
Indices: 5112015--5112249 Score: 321
Period size: 123 Copynumber: 1.9 Consensus size: 123
5112005 TTTTAGGGCC
* * * *
5112015 TTTAGCGGCATTTTTGAATAAACGCCGCTAATGCTCTGGCCTTTAGCCGCGTTTTTGAGTAAGCG
1 TTTAGCGGCATTTTTGAAGAAACGCCGCTAATGCTCAGACCTTTAGCCGCGTTTTTAAGTAAGCG
* *
5112080 CCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTATCT
66 CCGCTAATGCTCTAGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCTATCT
* * * * *
5112138 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTGATGCTCAGATCTTTAGCGGCGTTTTTAAAG-AAGC
1 TTTAGCGGCATTTTTGAAGAAACGCCGCTAATGCTCAGACCTTTAGCCGCGTTTTT-AAGTAAGC
* *
5112202 GCCGGTATTGCTGC-AGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTA
65 GCCGCTAATGCT-CTAGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTA
5112250 GTAATAATAA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
123 94 0.97
124 3 0.03
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (123 bp):
TTTAGCGGCATTTTTGAAGAAACGCCGCTAATGCTCAGACCTTTAGCCGCGTTTTTAAGTAAGCG
CCGCTAATGCTCTAGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCTATCT
Found at i:5113451 original size:43 final size:43
Alignment explanation
Indices: 5113396--5113497 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 43
5113386 GAAAATTACA
* *
5113396 AATCTTGTCTCCCTAAGCAACAGTGGAGCAGATCGAAGCTAG-
1 AATCTTATCTCCCTAAGCAACAGCGGAGCAGATCGAAGCTAGT
* ** *
5113438 AATTCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCTAGT
1 AA-TCTTATCTCCCT-AAGCAACAGCGGAGCAGATCGAAGCTAGT
*
5113483 AATCCTATCTCCCTA
1 AATCTTATCTCCCTA
5113498 GGATTACAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 2 0.04
43 12 0.24
44 34 0.68
45 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (43 bp):
AATCTTATCTCCCTAAGCAACAGCGGAGCAGATCGAAGCTAGT
Done.