Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 47 of 325
Found at i:14061878 original size:30 final size:30
Alignment explanation
Indices: 14061811--14061879 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
14061801 GTCTTCTCAA
*
14061811 TCCCAAGATCCTGAACGAGATATCGAGTCT
1 TCCCAAGCTCCTGAACGAGATATCGAGTCT
14061841 TCCCAAGCTCCTGAACGAGATATC-AGGTCT
1 TCCCAAGCTCCTGAACGAGATATCGA-GTCT
14061871 TCCCAAGCT
1 TCCCAAGCT
14061880 GCTAAACACC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (30 bp):
TCCCAAGCTCCTGAACGAGATATCGAGTCT
Found at i:14063513 original size:11 final size:11
Alignment explanation
Indices: 14063497--14063521 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14063487 CAAATTATAT
14063497 ATTGACTAAAA
1 ATTGACTAAAA
14063508 ATTGACTAAAA
1 ATTGACTAAAA
14063519 ATT
1 ATT
14063522 TATATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (11 bp):
ATTGACTAAAA
Found at i:14065298 original size:21 final size:22
Alignment explanation
Indices: 14065263--14065307 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
14065253 ATGAAATCAT
* *
14065263 AAATTATAAATTTCAAAACTAA
1 AAATTATAAAATTCAAAACCAA
14065285 AAATT-TAAAATTCAAAACCAA
1 AAATTATAAAATTCAAAACCAA
14065306 AA
1 AA
14065308 TCAAATTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATTATAAAATTCAAAACCAA
Found at i:14068371 original size:67 final size:64
Alignment explanation
Indices: 14068274--14068490 Score: 172
Period size: 68 Copynumber: 3.3 Consensus size: 64
14068264 CCACCCACGT
* * * * * *
14068274 GACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACACAT
1 GACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATAGTG---TACACATAGAACCACACAT
14068338 GC
63 GC
* * *
14068340 GACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATAGTGTACACATAGTATCACCCATGC
1 GACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATAGTGTACACATAGAACCACACATGC
** * * *
14068404 GACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTAC-ACAT-GATGTGCAC-TCAGCACCAT
1 GACCTAGCTACAT-AT-A--TCCCGTAGCTCTCTTGT-CTACATAG-TGTACACAT-AGAACCAC
*
14068466 ACATGT
59 ACATGC
14068472 GACCTAGCTACATACTATC
1 GACCTAGCTACATA-TATC
14068491 TGTATCATCC
Statistics
Matches: 125, Mismatches: 17, Indels: 19
0.78 0.11 0.12
Matches are distributed among these distances:
64 29 0.23
65 4 0.03
66 10 0.08
67 33 0.26
68 48 0.38
69 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (64 bp):
GACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATAGTGTACACATAGAACCACACATGC
Found at i:14069181 original size:30 final size:30
Alignment explanation
Indices: 14069147--14069207 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
14069137 TCCTTAACTC
14069147 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
14069177 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
14069207 A
1 A
14069208 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:14074256 original size:13 final size:13
Alignment explanation
Indices: 14074235--14074274 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
14074225 GCTCAACAGG
*
14074235 GACATGCCCATGT
1 GACACGCCCATGT
14074248 GACACGCCCATGT
1 GACACGCCCATGT
*
14074261 GACACGCCCGTGT
1 GACACGCCCATGT
14074274 G
1 G
14074275 TGATTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.20, C:0.35, G:0.28, T:0.17
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:14077084 original size:648 final size:648
Alignment explanation
Indices: 14075849--14077131 Score: 2548
Period size: 648 Copynumber: 2.0 Consensus size: 648
14075839 TTTAGTTTGT
14075849 AACCATGGAATCATGAAGGAAGGTAGTTCAATTACTTAACCTCCATCACTACTTAATTAAAAAAT
1 AACCATGGAATCATGAAGGAAGGTAGTTCAATTACTTAACCTCCATCACTACTTAATTAAAAAAT
14075914 CATGCATATTGAAAGGTTTGTATGAAAGCTTTTATCATGTCTAGTAATGAAGCTACTTGGGAACT
66 CATGCATATTGAAAGGTTTGTATGAAAGCTTTTATCATGTCTAGTAATGAAGCTACTTGGGAACT
14075979 TATTGAAGAAGGGTGGACTGAACCCATTATAACTATTGTTGATGGCACCACACGTCCCAAAGAAA
131 TATTGAAGAAGGGTGGACTGAACCCATTATAACTATTGTTGATGGCACCACACGTCCCAAAGAAA
14076044 GAAGCCAATACATTGTAAAAGAAATCATGGAAACTCAAAAGCTTTAAACGTCATATTCAGTGGAG
196 GAAGCCAATACATTGTAAAAGAAATCATGGAAACTCAAAAGCTTTAAACGTCATATTCAGTGGAG
14076109 TTGACTTGGATCAACTTCAATTCATTTCTACATATGAATCTACTGAGGAAGCATGAACTATTTTG
261 TTGACTTGGATCAACTTCAATTCATTTCTACATATGAATCTACTGAGGAAGCATGAACTATTTTG
14076174 CAAAAATAACATGAAGGAAATGCAACTATTTGAATGTTAAAATTACAAATCTTGACTACCAGGTT
326 CAAAAATAACATGAAGGAAATGCAACTATTTGAATGTTAAAATTACAAATCTTGACTACCAGGTT
14076239 TGAAAATATGAAAATGAATGAAGATGAAACTATTTCAAATTTCTATACTAGCTTACCCGACATAT
391 TGAAAATATGAAAATGAATGAAGATGAAACTATTTCAAATTTCTATACTAGCTTACCCGACATAT
14076304 CTAGTAAGACAATCTGTCTTGGTAAACATTTTTCTGAGGTGAAATAGGTGAGAAAAGTTCTGAGG
456 CTAGTAAGACAATCTGTCTTGGTAAACATTTTTCTGAGGTGAAATAGGTGAGAAAAGTTCTGAGG
14076369 TCATTTCCATAATGTTTTTCTATCAAGGTTACAACAATAGAAAAAGCCAAAGATATTACTACTCT
521 TCATTTCCATAATGTTTTTCTATCAAGGTTACAACAATAGAAAAAGCCAAAGATATTACTACTCT
14076434 TAGATTGGATGAGCTAATAGGTTCTCTTAAAACCATTGAGCTAAATCTAATAGGTTCTCTTAA
586 TAGATTGGATGAGCTAATAGGTTCTCTTAAAACCATTGAGCTAAATCTAATAGGTTCTCTTAA
14076497 AACCATGGAATCATGAAGGAAGGTAGTTCAATTACTTAACCTCCATCACTACTTAATTAAAAAAT
1 AACCATGGAATCATGAAGGAAGGTAGTTCAATTACTTAACCTCCATCACTACTTAATTAAAAAAT
14076562 CATGCATATTGAAAGGTTTGTATGAAAGCTTTTATCATGTCTAGTAATGAAGCTACTTGGGAACT
66 CATGCATATTGAAAGGTTTGTATGAAAGCTTTTATCATGTCTAGTAATGAAGCTACTTGGGAACT
14076627 TATTGAAGAAGGGTGGACTGAACCCATTATAACTATTGTTGATGGCACCACACGTCCCAAAGAAA
131 TATTGAAGAAGGGTGGACTGAACCCATTATAACTATTGTTGATGGCACCACACGTCCCAAAGAAA
14076692 GAAGCCAATACATTGTAAAAGAAATCATGGAAACTCAAAAGCTTTAAACGTCATATTCAGTGGAG
196 GAAGCCAATACATTGTAAAAGAAATCATGGAAACTCAAAAGCTTTAAACGTCATATTCAGTGGAG
14076757 TTGACTTGGATCAACTTCAATTCATTTCTACATATGAATCTACTGAGGAAGCATGAACTATTTTG
261 TTGACTTGGATCAACTTCAATTCATTTCTACATATGAATCTACTGAGGAAGCATGAACTATTTTG
*
14076822 CAAAAATAGCATGAAGGAAATGCAACTATTTGAATGTTAAAATTACAAATCTTGACTACCAGGTT
326 CAAAAATAACATGAAGGAAATGCAACTATTTGAATGTTAAAATTACAAATCTTGACTACCAGGTT
14076887 TGAAAATATGAAAATGAATGAAGATGAAACTATTTCAAATTTCTATACTAGCTTACCCGACATAT
391 TGAAAATATGAAAATGAATGAAGATGAAACTATTTCAAATTTCTATACTAGCTTACCCGACATAT
*
14076952 CTAGTAAGACAATCTGTCTTGGTGAACATTTTTCTGAGGTGAAATAGGTGAGAAAAGTTCTGAGG
456 CTAGTAAGACAATCTGTCTTGGTAAACATTTTTCTGAGGTGAAATAGGTGAGAAAAGTTCTGAGG
14077017 TCATTTCCATAATGTTTTTCTATCAAGGTTACAACAATAGAAAAAGCCAAAGATATTACTACTCT
521 TCATTTCCATAATGTTTTTCTATCAAGGTTACAACAATAGAAAAAGCCAAAGATATTACTACTCT
14077082 TAGATTGGATGAGCTAATAGGTTCTCTTAAAACCATTGAGCTAAATCTAA
586 TAGATTGGATGAGCTAATAGGTTCTCTTAAAACCATTGAGCTAAATCTAA
14077132 AAGAAGGAAA
Statistics
Matches: 633, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
648 633 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (648 bp):
AACCATGGAATCATGAAGGAAGGTAGTTCAATTACTTAACCTCCATCACTACTTAATTAAAAAAT
CATGCATATTGAAAGGTTTGTATGAAAGCTTTTATCATGTCTAGTAATGAAGCTACTTGGGAACT
TATTGAAGAAGGGTGGACTGAACCCATTATAACTATTGTTGATGGCACCACACGTCCCAAAGAAA
GAAGCCAATACATTGTAAAAGAAATCATGGAAACTCAAAAGCTTTAAACGTCATATTCAGTGGAG
TTGACTTGGATCAACTTCAATTCATTTCTACATATGAATCTACTGAGGAAGCATGAACTATTTTG
CAAAAATAACATGAAGGAAATGCAACTATTTGAATGTTAAAATTACAAATCTTGACTACCAGGTT
TGAAAATATGAAAATGAATGAAGATGAAACTATTTCAAATTTCTATACTAGCTTACCCGACATAT
CTAGTAAGACAATCTGTCTTGGTAAACATTTTTCTGAGGTGAAATAGGTGAGAAAAGTTCTGAGG
TCATTTCCATAATGTTTTTCTATCAAGGTTACAACAATAGAAAAAGCCAAAGATATTACTACTCT
TAGATTGGATGAGCTAATAGGTTCTCTTAAAACCATTGAGCTAAATCTAATAGGTTCTCTTAA
Found at i:14080115 original size:34 final size:35
Alignment explanation
Indices: 14080072--14080141 Score: 133
Period size: 34 Copynumber: 2.0 Consensus size: 35
14080062 TTGTGGGAAA
14080072 GAATGGCACATCAAACCTCA-TATTCTAGGATGAT
1 GAATGGCACATCAAACCTCACTATTCTAGGATGAT
14080106 GAATGGCACATCAAACCTCACTATTCTAGGATGAT
1 GAATGGCACATCAAACCTCACTATTCTAGGATGAT
14080141 G
1 G
14080142 CTAAATTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 20 0.57
35 15 0.43
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (35 bp):
GAATGGCACATCAAACCTCACTATTCTAGGATGAT
Found at i:14089282 original size:30 final size:30
Alignment explanation
Indices: 14089248--14089308 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
14089238 TCCTTAACTC
14089248 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
14089278 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
14089308 A
1 A
14089309 GGCTCGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:14093962 original size:9 final size:9
Alignment explanation
Indices: 14093950--14093974 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14093940 AAAATTATAA
14093950 AATTTTATT
1 AATTTTATT
14093959 AATTTTATT
1 AATTTTATT
14093968 AATTTTA
1 AATTTTA
14093975 GTGGATGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
AATTTTATT
Found at i:14096413 original size:7 final size:8
Alignment explanation
Indices: 14096394--14096442 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
14096384 AATAAAATTG
14096394 AATTATAA
1 AATTATAA
14096402 AATTAT-A
1 AATTATAA
14096409 AATTATAA
1 AATTATAA
14096417 AATTATAA
1 AATTATAA
*
14096425 AA-CA-AA
1 AATTATAA
14096431 AA-TATAA
1 AATTATAA
14096438 AATTA
1 AATTA
14096443 AAAGAAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 5 0.14
7 12 0.33
8 19 0.53
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (8 bp):
AATTATAA
Found at i:14096414 original size:15 final size:15
Alignment explanation
Indices: 14096394--14096425 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
14096384 AATAAAATTG
14096394 AATTATAAAATTATA
1 AATTATAAAATTATA
14096409 AATTATAAAATTATA
1 AATTATAAAATTATA
14096424 AA
1 AA
14096426 ACAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTATAAAATTATA
Found at i:14096527 original size:10 final size:10
Alignment explanation
Indices: 14096512--14096541 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
14096502 AAATTAAATA
14096512 TTATTTTTAT
1 TTATTTTTAT
14096522 TTA-TTTTAT
1 TTATTTTTAT
14096531 TTATTTTTAT
1 TTATTTTTAT
14096541 T
1 T
14096542 CAAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:14099316 original size:28 final size:28
Alignment explanation
Indices: 14099276--14099333 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
14099266 TTAACTAGAA
14099276 GATTATTTCTCAAACTTGACAGAAATAG
1 GATTATTTCTCAAACTTGACAGAAATAG
*
14099304 GATTATTTCTCAAACTTGACTGAAATAG
1 GATTATTTCTCAAACTTGACAGAAATAG
14099332 GA
1 GA
14099334 GTCACATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (28 bp):
GATTATTTCTCAAACTTGACAGAAATAG
Found at i:14112565 original size:128 final size:128
Alignment explanation
Indices: 14112331--14112580 Score: 437
Period size: 128 Copynumber: 2.0 Consensus size: 128
14112321 CTGCAATACC
* *
14112331 AGTCATTTTCCAACCTCAACACCAATCAAAATTAGGCATTGAGGGATATTTTGGTCACATAAATT
1 AGTCATTGTCCAACCTCAACACCAATCAAAATTAGACATTGAGGGATATTTTGGTCACATAAATT
* *
14112396 GGGTTGTAATAAGCTGAAAAGCTATCTTTTGGCCGAGAGAAATACATACTTTTACATAGCAGT
66 GGGTTGTAATAAGCTGAAAAGCTATCTTTTGGCCAAAAGAAATACATACTTTTACATAGCAGT
* *
14112459 AGTCATTGTCCAACCTCAATACCAATCAATATTAGACATTGAGGGATATTTTGGTCACATAAATT
1 AGTCATTGTCCAACCTCAACACCAATCAAAATTAGACATTGAGGGATATTTTGGTCACATAAATT
*
14112524 GGGTTGTAATAGGCTGAAAAGCTATCTTTTGGCCAAAAGAAATACATACTTTTACAT
66 GGGTTGTAATAAGCTGAAAAGCTATCTTTTGGCCAAAAGAAATACATACTTTTACAT
14112581 TCTTCAACTT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 115 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (128 bp):
AGTCATTGTCCAACCTCAACACCAATCAAAATTAGACATTGAGGGATATTTTGGTCACATAAATT
GGGTTGTAATAAGCTGAAAAGCTATCTTTTGGCCAAAAGAAATACATACTTTTACATAGCAGT
Found at i:14116979 original size:108 final size:109
Alignment explanation
Indices: 14116835--14117094 Score: 249
Period size: 113 Copynumber: 2.3 Consensus size: 109
14116825 CAGTAGAAGG
** *
14116835 TTATTTTGAAAGGTAA-TTTTTTTAATCATTATTTATTTGTTTAAGGCTT-TAGT-TTACTTATT
1 TTATTTT-AAAGGTAATTTTTTTTTGTAATTA-TTATTTGTTT-AGGCTTCT-GTGTTACTTATT
* * * ** ** *
14116897 A-GTGTTTTATTTTGTGGTTTTGGGTGGAGAGGATGCAACAACAAATT
62 ATGTGTTTGATTTAGTGATTTTGGAAGGAGACAAGGCAACAACAAATT
* * *
14116944 TTATTTTAAAGGTAATTTTTTTTTGTAATTGTTATTCACTTGTTTGGGGTTCTGTGTTACTTATT
1 TTATTTTAAAGGTAATTTTTTTTTGTAA---TTATT-ATTTGTTTAGGCTTCTGTGTTACTTATT
* *
14117009 ATTTGTTTGATTTAGTGATTTTGGAAGGAGACAAGGCAACAATAAATT
62 ATGTGTTTGATTTAGTGATTTTGGAAGGAGACAAGGCAACAACAAATT
* *
14117057 TTGTTTTGAAGGTAATTTTTTATTTGTAATTATTATTT
1 TTATTTTAAAGGTAATTTTTT-TTTGTAATTATTATTT
14117095 AGGGTTTAGG
Statistics
Matches: 123, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
108 8 0.07
109 16 0.13
110 3 0.02
111 13 0.11
112 21 0.17
113 55 0.45
114 7 0.06
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.51
Consensus pattern (109 bp):
TTATTTTAAAGGTAATTTTTTTTTGTAATTATTATTTGTTTAGGCTTCTGTGTTACTTATTATGT
GTTTGATTTAGTGATTTTGGAAGGAGACAAGGCAACAACAAATT
Found at i:14119573 original size:6 final size:6
Alignment explanation
Indices: 14119565--14119602 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
14119555 GCTCAAGCTT
*
14119565 GAGCCT GAGCCC GAGCCC GAGCCC GAGCCC GAGCCC GA
1 GAGCCC GAGCCC GAGCCC GAGCCC GAGCCC GAGCCC GA
14119603 AAGATCTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.18, C:0.45, G:0.34, T:0.03
Consensus pattern (6 bp):
GAGCCC
Found at i:14132854 original size:12 final size:12
Alignment explanation
Indices: 14132837--14132866 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14132827 TGCAAATGGA
14132837 TCATTTCCATTT
1 TCATTTCCATTT
14132849 TCATTTCCATTT
1 TCATTTCCATTT
*
14132861 CCATTT
1 TCATTT
14132867 TTGGAAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.57
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:14134939 original size:19 final size:19
Alignment explanation
Indices: 14134915--14134952 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14134905 AAGATACAAG
14134915 CATATCAATCCCACATTAA
1 CATATCAATCCCACATTAA
14134934 CATATCAATCCCACATTAA
1 CATATCAATCCCACATTAA
14134953 GGCAATGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CATATCAATCCCACATTAA
Found at i:14136321 original size:15 final size:16
Alignment explanation
Indices: 14136277--14136327 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
14136267 GAAAGATTGG
* *
14136277 TTTTATTTTCAATTAA
1 TTTTATTTTCATTTGA
14136293 TTTTA-TTTCATTTGA
1 TTTTATTTTCATTTGA
14136308 TTTTATTTTC-TTTGA
1 TTTTATTTTCATTTGA
*
14136323 ATTTA
1 TTTTA
14136328 CATATTTAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 22 0.71
16 9 0.29
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTTATTTTCATTTGA
Found at i:14141366 original size:10 final size:10
Alignment explanation
Indices: 14141339--14141388 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
14141329 TTAAATTCTA
14141339 AAAGATAAAT
1 AAAGATAAAT
*
14141349 ACAA-ATAATT
1 A-AAGATAAAT
*
14141359 AAAGATAATT
1 AAAGATAAAT
14141369 AAAGATAAAT
1 AAAGATAAAT
*
14141379 AAAAATAAAT
1 AAAGATAAAT
14141389 CCTAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:14141439 original size:14 final size:13
Alignment explanation
Indices: 14141403--14141440 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
14141393 AAATTTAAAT
14141403 CTAAATAATTATC
1 CTAAATAATTATC
*
14141416 CTTAATAATTATC
1 CTAAATAATTATC
14141429 CTAATATAATTA
1 CTAA-ATAATTA
14141441 AACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:14142514 original size:125 final size:124
Alignment explanation
Indices: 14142292--14142542 Score: 439
Period size: 125 Copynumber: 2.0 Consensus size: 124
14142282 CACACAACCT
* * *
14142292 TTTGACGCTAAATAGGATGACAACCCAAGCACCCTACCATGGTTACTCAGCTAGTCACGTCTTAA
1 TTTGACGCGAAATAGGATGACAACCCAAGCACCCTACCACGATTACTCAGCTAGTCACGTCTTAA
*
14142357 GCTGTACTCATAACCACGGAAACATTATTATTTTTAAATGAAATTTTAATTTTGGAGGAC
66 GCTGTACTCATAACCACGGAAACATTATTATTTTTAAACG-AATTTTAATTTTGGAGGAC
*
14142417 TTTGACGCGAAATAGGATGACAACCCAAGCACCCTACCCCGATTACTCAGCTAGTCACGTCTTAA
1 TTTGACGCGAAATAGGATGACAACCCAAGCACCCTACCACGATTACTCAGCTAGTCACGTCTTAA
*
14142482 GCTGTACTCATAACCACGGAAACATTATTATTTTTTAACGAATTTTAATTTTGGAGGAC
66 GCTGTACTCATAACCACGGAAACATTATTATTTTTAAACGAATTTTAATTTTGGAGGAC
14142541 TT
1 TT
14142543 AGGAGCAACA
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
124 21 0.17
125 99 0.82
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (124 bp):
TTTGACGCGAAATAGGATGACAACCCAAGCACCCTACCACGATTACTCAGCTAGTCACGTCTTAA
GCTGTACTCATAACCACGGAAACATTATTATTTTTAAACGAATTTTAATTTTGGAGGAC
Found at i:14144891 original size:75 final size:75
Alignment explanation
Indices: 14144783--14144925 Score: 223
Period size: 75 Copynumber: 1.9 Consensus size: 75
14144773 CTAGGGAATT
* *
14144783 CTAGGGTAAGAACGCACTATTCTAGGCTGGAATAGGGATATAACAAAGACTGTTTGGCTGTAGGT
1 CTAGGGTAAGAACGCACTATTCTAGGCTAGAATAGGGATAGAACAAAGACTGTTTGGCTGTAGGT
14144848 TTTAGATATG
66 TTTAGATATG
* * * **
14144858 CTAGGGTAGGAATGCACTATTCTTGGCTAGAATAGGGATAGATTAAAGACTGTTTGGCTGTAGGT
1 CTAGGGTAAGAACGCACTATTCTAGGCTAGAATAGGGATAGAACAAAGACTGTTTGGCTGTAGGT
14144923 TTT
66 TTT
14144926 TTTTCCTTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.31
Consensus pattern (75 bp):
CTAGGGTAAGAACGCACTATTCTAGGCTAGAATAGGGATAGAACAAAGACTGTTTGGCTGTAGGT
TTTAGATATG
Found at i:14145011 original size:5 final size:5
Alignment explanation
Indices: 14145001--14145054 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
14144991 TCAACATCCA
* *
14145001 AAAAT AAAAT AATAA- ATAAT AAAAT AAAGT AAAAT AAAAT -AAAT AAAAAT
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
14145051 AAAA
1 AAAA
14145055 ATTAAGTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 6 0.15
5 29 0.71
6 6 0.15
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:14145023 original size:15 final size:14
Alignment explanation
Indices: 14145000--14145054 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 14
14144990 ATCAACATCC
14145000 AAAAATAAAATAAT
1 AAAAATAAAATAAT
14145014 AAATAATAAAATAA-
1 AAA-AATAAAATAAT
14145028 AGTAAAATAAAATAAAT
1 A--AAAATAAAAT-AAT
14145045 AAAAATAAAA
1 AAAAATAAAA
14145055 ATTAAGTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
14 4 0.11
15 27 0.75
16 4 0.11
17 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
AAAAATAAAATAAT
Found at i:14151294 original size:20 final size:21
Alignment explanation
Indices: 14151271--14151316 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14151261 TTATTAATAG
14151271 ATATTTATT-ATTAAAAAAAT
1 ATATTTATTAATTAAAAAAAT
* *
14151291 ATATTTATTAATTAAATAATT
1 ATATTTATTAATTAAAAAAAT
14151312 ATATT
1 ATATT
14151317 ATAAGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATTTATTAATTAAAAAAAT
Found at i:14152767 original size:17 final size:17
Alignment explanation
Indices: 14152724--14152770 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
14152714 CTGAATAGTG
*
14152724 GACTATTACTGAATTACT
1 GACTATTACTG-ATGACT
*
14152742 GATTATTACTGATGACT
1 GACTATTACTGATGACT
*
14152759 GACTGTTACTGA
1 GACTATTACTGA
14152771 AATGGATAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (17 bp):
GACTATTACTGATGACT
Found at i:14154669 original size:10 final size:10
Alignment explanation
Indices: 14154650--14154709 Score: 86
Period size: 10 Copynumber: 6.0 Consensus size: 10
14154640 TTAAATTCTA
14154650 AAAGATAAAT
1 AAAGATAAAT
14154660 ACAA-ATAAAT
1 A-AAGATAAAT
*
14154670 AAAGATAATT
1 AAAGATAAAT
14154680 AAAGATAAAT
1 AAAGATAAAT
14154690 AAAGATAAAT
1 AAAGATAAAT
*
14154700 AAAAATAAAT
1 AAAGATAAAT
14154710 CCTAAAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:14154760 original size:14 final size:13
Alignment explanation
Indices: 14154724--14154761 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
14154714 AAATTTAAAT
14154724 CTAAATAATTATC
1 CTAAATAATTATC
*
14154737 CTTAATAATTATC
1 CTAAATAATTATC
14154750 CTAATATAATTA
1 CTAA-ATAATTA
14154762 AACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:14156459 original size:71 final size:70
Alignment explanation
Indices: 14156281--14156467 Score: 207
Period size: 71 Copynumber: 2.7 Consensus size: 70
14156271 AGTTGGGCAG
* * *
14156281 CATCTATAATGACCAAGGTGGATT-ACTTACAAA-TTGCAACATCAACATGGAGAATAATGAAGT
1 CATCTATGATGACCAAGGTGGATTCA-TTACAAATTTGCAACATCAACATGGAGAACAACGAAGT
14156344 AGGTAA
65 AGGTAA
** * ** * * **
14156350 CATCCGTGATGACCAAAGTGGACCCATTATAAATTTTGCAAAATCAACATGGCTAACAACGAAGT
1 CATCTATGATGACCAAGGTGGATTCATTACAAA-TTTGCAACATCAACATGGAGAACAACGAAGT
*
14156415 AGGTGA
65 AGGTAA
*
14156421 CATCTATGATGACCAAGGTGGATTCATCACAAACTTTGCAACATCAA
1 CATCTATGATGACCAAGGTGGATTCATTACAAA-TTTGCAACATCAA
14156468 ATTGATAAGA
Statistics
Matches: 93, Mismatches: 22, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
69 24 0.26
70 1 0.01
71 68 0.73
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (70 bp):
CATCTATGATGACCAAGGTGGATTCATTACAAATTTGCAACATCAACATGGAGAACAACGAAGTA
GGTAA
Found at i:14156538 original size:41 final size:41
Alignment explanation
Indices: 14156493--14156681 Score: 120
Period size: 41 Copynumber: 4.6 Consensus size: 41
14156483 ACTAGTTTCG
* *
14156493 AACTTTGCAAAACCAACATGGAG-AGAGATAGATCACTTCCA
1 AACTTTGCAAAACCAACATGGAGAAGAGA-AGATCAATTCAA
* *
14156534 AACTTTG-AAATACCAACATGGCGAAGGGAAGATCAATTCAA
1 AACTTTGCAAA-ACCAACATGGAGAAGAGAAGATCAATTCAA
* * * * * **
14156575 AACTCTACAACACCAACAT-GAAAAGAGGAGGA-CTAATTCCG
1 AACTTTGCAAAACCAACATGGAGAAGA-GAAGATC-AATTCAA
* * * * *
14156616 AACTCTGTAATACCAACATGGAGAAG-GAAAAATGAACTTC-A
1 AACTTTGCAAAACCAACATGGAGAAGAG-AAGATCAA-TTCAA
* *
14156657 AACTCTGCAACACCAACATGGAGAA
1 AACTTTGCAAAACCAACATGGAGAA
14156682 AGATAGAAGT
Statistics
Matches: 116, Mismatches: 23, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
40 9 0.08
41 93 0.80
42 14 0.12
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.17
Consensus pattern (41 bp):
AACTTTGCAAAACCAACATGGAGAAGAGAAGATCAATTCAA
Found at i:14156590 original size:82 final size:82
Alignment explanation
Indices: 14156504--14156688 Score: 205
Period size: 82 Copynumber: 2.3 Consensus size: 82
14156494 ACTTTGCAAA
* * * * *
14156504 ACCAACATGGAGAGAGATAGA-TCACTTCCAAACTTTGAAATACCAACATGGCGAAGGGAAGATC
1 ACCAACATGGAGAGAGATAGACT-AATTCCAAACTCTGAAATACCAACATGGAGAAGGAAAAATC
14156568 AA-TTCAAAACTCTACAAC
65 AACTTC-AAACTCTACAAC
* * * * * *
14156586 ACCAACATGAAAAGAGGA-GGACTAATTCCGAACTCTGTAATACCAACATGGAGAAGGAAAAATG
1 ACCAACATGGAGAGA-GATAGACTAATTCCAAACTCTGAAATACCAACATGGAGAAGGAAAAATC
*
14156650 AACTTCAAACTCTGCAAC
65 AACTTCAAACTCTACAAC
*
14156668 ACCAACATGGAGAAAGATAGA
1 ACCAACATGGAGAGAGATAGA
14156689 AGTTGTAATG
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
81 2 0.02
82 75 0.90
83 6 0.07
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (82 bp):
ACCAACATGGAGAGAGATAGACTAATTCCAAACTCTGAAATACCAACATGGAGAAGGAAAAATCA
ACTTCAAACTCTACAAC
Found at i:14159152 original size:45 final size:44
Alignment explanation
Indices: 14159046--14159258 Score: 162
Period size: 45 Copynumber: 4.7 Consensus size: 44
14159036 AAACTATTAG
* * * *
14159046 GATGTCATAGCGTCTTTCAGCTATGGTCTTAGTCTTGTTTACTAT
1 GATGCCATAGCATCTTTCAGC-ATGGTCTTACTCTTGTTTACCAT
* * * * * *
14159091 GATACTATAACGTCTTTCAGTCATGGTCTTAGTCTTGTTTACCGT
1 GATGCCATAGCATCTTTCAG-CATGGTCTTACTCTTGTTTACCAT
* * * *
14159136 GATGCCATAGCATCTTTCAATCATAG-CTGTACTCATT-TATATCAT
1 GATGCCATAGCATCTTTC-AGCATGGTCT-TACTC-TTGTTTACCAT
* * * *
14159181 GATGTCATAGCATCTTTCAGCTATGGTCTTACTCATCTTTATCAT
1 GATGCCATAGCATCTTTCAGC-ATGGTCTTACTCTTGTTTACCAT
*
14159226 GATAG-TATAGCATCTTTCAGCCATGGTCTTACT
1 GAT-GCCATAGCATCTTTCAG-CATGGTCTTACT
14159259 TTTTTTATTT
Statistics
Matches: 137, Mismatches: 22, Indels: 18
0.77 0.12 0.10
Matches are distributed among these distances:
44 5 0.04
45 124 0.91
46 8 0.06
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.41
Consensus pattern (44 bp):
GATGCCATAGCATCTTTCAGCATGGTCTTACTCTTGTTTACCAT
Found at i:14161715 original size:14 final size:14
Alignment explanation
Indices: 14161683--14161709 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14161673 ATTTAATTAA
14161683 TGAAATGAAAAATG
1 TGAAATGAAAAATG
14161697 TGAAATGAAAAAT
1 TGAAATGAAAAAT
14161710 TAGAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (14 bp):
TGAAATGAAAAATG
Found at i:14162075 original size:6 final size:6
Alignment explanation
Indices: 14162059--14162113 Score: 58
Period size: 6 Copynumber: 8.7 Consensus size: 6
14162049 TTTTCCCTCA
*
14162059 TTCTCTT TTCTTT TTCTTCT TT-TTT CTCTTTT CTTCTTT TTCTTT TTCTTT
1 TTCT-TT TTCTTT TTCTT-T TTCTTT TTC-TTT -TTCTTT TTCTTT TTCTTT
14162110 TTCT
1 TTCT
14162114 AGGCCTGCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
5 2 0.05
6 25 0.60
7 13 0.31
8 2 0.05
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TTCTTT
Found at i:14162080 original size:9 final size:9
Alignment explanation
Indices: 14162066--14162102 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
14162056 TCATTCTCTT
14162066 TTCTTTTTC
1 TTCTTTTTC
14162075 TTC-TTTT-
1 TTCTTTTTC
14162082 TTCTCTTTTC
1 TTCT-TTTTC
14162092 TTCTTTTTC
1 TTCTTTTTC
14162101 TT
1 TT
14162103 TTTCTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 3 0.12
8 4 0.16
9 14 0.56
10 4 0.16
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:14162089 original size:23 final size:22
Alignment explanation
Indices: 14162060--14162113 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
14162050 TTTCCCTCAT
14162060 TCTCTTTTCTT-TTTCTTCTTTTT
1 TCTCTTTTCTTCTTT-TTC-TTTT
14162083 TCTCTTTTCTTCTTTTTCTTTT
1 TCTCTTTTCTTCTTTTTCTTTT
14162105 TCT-TTTTCT
1 TCTCTTTTCT
14162114 AGGCCTGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.20
22 7 0.23
23 14 0.47
24 3 0.10
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (22 bp):
TCTCTTTTCTTCTTTTTCTTTT
Found at i:14166734 original size:8 final size:9
Alignment explanation
Indices: 14166721--14166782 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
14166711 TTTTAGGGTT
14166721 AGAAAAA-A
1 AGAAAAAGA
14166729 AGAAAAAGA
1 AGAAAAAGA
*
14166738 AGAATAAGA
1 AGAAAAAGA
14166747 AGAGGAAAAGA
1 AGA--AAAAGA
*
14166758 AGAAGAAGA
1 AGAAAAAGA
* *
14166767 AGGAGAAGA
1 AGAAAAAGA
*
14166776 GGAAAAA
1 AGAAAAA
14166783 TGGAGATGCC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
8 7 0.16
9 29 0.66
11 8 0.18
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (9 bp):
AGAAAAAGA
Found at i:14166740 original size:3 final size:3
Alignment explanation
Indices: 14166728--14166775 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
14166718 GTTAGAAAAA
* * * *
14166728 AAG AAA AAG AAG AAT AAG AAG AGG AA- AAG AAG AAG AAG AAG GAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14166775 A
1 A
14166776 GGAAAAATGG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:14166755 original size:26 final size:26
Alignment explanation
Indices: 14166726--14166781 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
14166716 GGGTTAGAAA
*
14166726 AAAAGAAAAAGAAGAATAAGAAGAGG
1 AAAAGAAAAAGAAGAAGAAGAAGAGG
* *
14166752 AAAAGAAGAAGAAGAAGGAGAAGAGG
1 AAAAGAAAAAGAAGAAGAAGAAGAGG
14166778 AAAA
1 AAAA
14166782 ATGGAGATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (26 bp):
AAAAGAAAAAGAAGAAGAAGAAGAGG
Found at i:14170658 original size:21 final size:21
Alignment explanation
Indices: 14170609--14170659 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
14170599 GGCAGCCTGT
14170609 TGAGTTGGGGTACTCTCTTGC
1 TGAGTTGGGGTACTCTCTTGC
* * * *
14170630 TAATTTGGGGTAGTCTGTTGC
1 TGAGTTGGGGTACTCTCTTGC
14170651 TGAGTTGGG
1 TGAGTTGGG
14170660 ACACCAACTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.12, C:0.12, G:0.37, T:0.39
Consensus pattern (21 bp):
TGAGTTGGGGTACTCTCTTGC
Found at i:14173536 original size:89 final size:89
Alignment explanation
Indices: 14173384--14173563 Score: 306
Period size: 89 Copynumber: 2.0 Consensus size: 89
14173374 AGGTAAATGA
* *
14173384 CAAATTTTGATTTTTCCACATACAATATAGCAGCTTGGATACAAACAATGGCAGATATACACAAC
1 CAAATTTTGATTTTGCCACATACAATATAGCAGCTTGGATACAAACAATGCCAGATATACACAAC
14173449 AAACATCAGTTTGATAATGGCATT
66 AAACATCAGTTTGATAATGGCATT
* *
14173473 CAAATTTTGATTTTGCCACATACAATATAGCAGCTTGGATACAAACAATGCCAGGTATGCACAAC
1 CAAATTTTGATTTTGCCACATACAATATAGCAGCTTGGATACAAACAATGCCAGATATACACAAC
* *
14173538 AAATATCATTTTGATAATGGCATT
66 AAACATCAGTTTGATAATGGCATT
14173562 CA
1 CA
14173564 TAAAATGGTA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 85 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.29
Consensus pattern (89 bp):
CAAATTTTGATTTTGCCACATACAATATAGCAGCTTGGATACAAACAATGCCAGATATACACAAC
AAACATCAGTTTGATAATGGCATT
Found at i:14173689 original size:48 final size:48
Alignment explanation
Indices: 14173517--14173673 Score: 242
Period size: 48 Copynumber: 3.3 Consensus size: 48
14173507 TTGGATACAA
* * * * *
14173517 ACAATGCCAGGTATGCACAACAAATATCATTTTGATAATGGCATTCAT
1 ACAATGGCAGATATACACAACAAACATCAGTTTGATAATGGCATTCAT
* * *
14173565 AAAATGGTAGATATACACAACAAACATCGGTTTGATAATGGCATTCAT
1 ACAATGGCAGATATACACAACAAACATCAGTTTGATAATGGCATTCAT
14173613 ACAATGGCAGATATACACAACAAACATCAGTTTGATAATGGCATTCAT
1 ACAATGGCAGATATACACAACAAACATCAGTTTGATAATGGCATTCAT
14173661 ACAATGGCAGATA
1 ACAATGGCAGATA
14173674 CAAATTATAA
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 98 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (48 bp):
ACAATGGCAGATATACACAACAAACATCAGTTTGATAATGGCATTCAT
Found at i:14173785 original size:6 final size:6
Alignment explanation
Indices: 14173771--14173822 Score: 70
Period size: 6 Copynumber: 8.7 Consensus size: 6
14173761 GAGTGTTTCA
* *
14173771 AAATTG AAATCG AAATCG AAATCG AAATCG AAATCA AAATC- AGAATCG
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG A-AATCG
14173819 AAAT
1 AAAT
14173823 AACCCTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 1 0.02
6 40 0.95
7 1 0.02
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.19
Consensus pattern (6 bp):
AAATCG
Found at i:14174292 original size:21 final size:21
Alignment explanation
Indices: 14174268--14174307 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14174258 AACATGGCAA
14174268 GTTAACTTGCCACATCAGCTC
1 GTTAACTTGCCACATCAGCTC
* *
14174289 GTTAACTTGCGACGTCAGC
1 GTTAACTTGCCACATCAGC
14174308 AGTCCCGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (21 bp):
GTTAACTTGCCACATCAGCTC
Found at i:14180277 original size:17 final size:18
Alignment explanation
Indices: 14180255--14180293 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
14180245 TTCAATAATG
*
14180255 TTAAATTT-AATTTTTTT
1 TTAAATTTAAATTGTTTT
14180272 TTAAATTTGAAATTGTTTT
1 TTAAATTT-AAATTGTTTT
14180291 TTA
1 TTA
14180294 TTGTGTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
19 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
TTAAATTTAAATTGTTTT
Found at i:14187398 original size:26 final size:27
Alignment explanation
Indices: 14187369--14187435 Score: 109
Period size: 26 Copynumber: 2.5 Consensus size: 27
14187359 AAGTGAGTCA
*
14187369 TATCGGGAAGCTCACGAAGAGCCA-AT
1 TATCGGGAAGCTCACAAAGAGCCATAT
14187395 TATCGGGAAGCTCACAAAGAGCCATAT
1 TATCGGGAAGCTCACAAAGAGCCATAT
*
14187422 AATCGGGAAGCTCA
1 TATCGGGAAGCTCA
14187436 TAAGAGCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 23 0.61
27 15 0.39
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.16
Consensus pattern (27 bp):
TATCGGGAAGCTCACAAAGAGCCATAT
Found at i:14187513 original size:23 final size:23
Alignment explanation
Indices: 14187487--14187557 Score: 54
Period size: 25 Copynumber: 3.0 Consensus size: 23
14187477 CTATCCAGAC
14187487 GCTCCGAAGAGCTATAACGGGAA
1 GCTCCGAAGAGCTATAACGGGAA
* *
14187510 GCT-CGCAAGAACCATTATACGGGAA
1 GCTCCG-AAGAGCTA-TA-ACGGGAA
* * *
14187535 GCTCAGGAGAGATAATAACGGGA
1 GCTCCGAAGAGCT-ATAACGGGA
14187558 CACTATTTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
22 2 0.06
23 9 0.25
24 8 0.22
25 15 0.42
26 2 0.06
ACGTcount: A:0.37, C:0.20, G:0.30, T:0.14
Consensus pattern (23 bp):
GCTCCGAAGAGCTATAACGGGAA
Found at i:14188199 original size:25 final size:25
Alignment explanation
Indices: 14188158--14188207 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
14188148 CCTTTACAAA
*
14188158 AGTTGTTTACCTTTCAAAAACCTTT
1 AGTTGTTTACCTATCAAAAACCTTT
* *
14188183 AGTTGTTTATCTATCAACAACCTTT
1 AGTTGTTTACCTATCAAAAACCTTT
14188208 CATTTTCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (25 bp):
AGTTGTTTACCTATCAAAAACCTTT
Found at i:14199191 original size:26 final size:26
Alignment explanation
Indices: 14199160--14199267 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
14199150 TGAAATGCCC
*
14199160 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
14199186 ATCATGGATCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14199212 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
14199238 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14199264 ATCA
1 ATCA
14199268 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:14200734 original size:284 final size:284
Alignment explanation
Indices: 14200219--14200775 Score: 1051
Period size: 284 Copynumber: 2.0 Consensus size: 284
14200209 CAGTAAAATC
*
14200219 CTTCCCAGACTCTGGCTAAATTAACACAGGTGCTTCAGTTAGAACTTTCTTCAACTTCTCAAAAG
1 CTTCCCAGACTCTGGCTAAATTAACACAGGTGCTTCAGTCAGAACTTTCTTCAACTTCTCAAAAG
14200284 CCTCCTGCTGGGTCTCAGTCCATACAAACGGTACTCCTTTCCTTATGTGTTTTGTTAGAGGTGCT
66 CCTCCTGCTGGGTCTCAGTCCATACAAACGGTACTCCTTTCCTTATGTGTTTTGTTAGAGGTGCT
14200349 GCCATCACAGAAAAGCCTTCCACAAACCTTCTGTAGTATCCTGCCAGTCCTAGAAAACTCCGTAT
131 GCCATCACAGAAAAGCCTTCCACAAACCTTCTGTAGTATCCTGCCAGTCCTAGAAAACTCCGTAT
* *
14200414 TTTTGACACTGTCCTAGGCGGATTCCACTCCAAAATCACTTCAATTTTCCAAGGGTCCACCTTAA
196 TTTTGACACTGACCTAGGCGGATTCCACTCCAAAATCACATCAATTTTCCAAGGGTCCACCTTAA
14200479 TCCCTTCGGCAGAACTTTCTTCAA
261 TCCCTTCGGCAGAACTTTCTTCAA
14200503 CTTCCCAGACTCTGGCTAAATTAACACAGGTGCTTCAGTCAGAACTTTCTTCAACTTCTCAAAAG
1 CTTCCCAGACTCTGGCTAAATTAACACAGGTGCTTCAGTCAGAACTTTCTTCAACTTCTCAAAAG
* *
14200568 CCTCCTGCTGGGTCTCATTCCATACAAACGGTACTCCTTTCCTTATGTGTTTTGTTAGAGGTGTT
66 CCTCCTGCTGGGTCTCAGTCCATACAAACGGTACTCCTTTCCTTATGTGTTTTGTTAGAGGTGCT
14200633 GCCATCACAGAAAAGCCTTCCACAAACCTTCTGTAGTATCCTGCCAGTCCTAGAAAACTCCGTAT
131 GCCATCACAGAAAAGCCTTCCACAAACCTTCTGTAGTATCCTGCCAGTCCTAGAAAACTCCGTAT
* *
14200698 TTTTGACACTGACCTAGGCGGATTCCACTGCAAAATCACATCAATTTTCCGAGGGTCCACCTTAA
196 TTTTGACACTGACCTAGGCGGATTCCACTCCAAAATCACATCAATTTTCCAAGGGTCCACCTTAA
14200763 TCCCTTCGGCAGA
261 TCCCTTCGGCAGA
14200776 GACCACATGT
Statistics
Matches: 266, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
284 266 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (284 bp):
CTTCCCAGACTCTGGCTAAATTAACACAGGTGCTTCAGTCAGAACTTTCTTCAACTTCTCAAAAG
CCTCCTGCTGGGTCTCAGTCCATACAAACGGTACTCCTTTCCTTATGTGTTTTGTTAGAGGTGCT
GCCATCACAGAAAAGCCTTCCACAAACCTTCTGTAGTATCCTGCCAGTCCTAGAAAACTCCGTAT
TTTTGACACTGACCTAGGCGGATTCCACTCCAAAATCACATCAATTTTCCAAGGGTCCACCTTAA
TCCCTTCGGCAGAACTTTCTTCAA
Found at i:14205285 original size:26 final size:26
Alignment explanation
Indices: 14205254--14205413 Score: 257
Period size: 26 Copynumber: 6.2 Consensus size: 26
14205244 TGAAATGCCC
*
14205254 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
14205280 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14205306 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
14205332 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14205358 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
14205384 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14205410 ATCA
1 ATCA
14205414 ATTTGTATCA
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 123 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:14205331 original size:52 final size:52
Alignment explanation
Indices: 14205254--14205413 Score: 284
Period size: 52 Copynumber: 3.1 Consensus size: 52
14205244 TGAAATGCCC
* * *
14205254 ATCATGGAACATTTACCTAAACCATTATCATGGAATATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
14205306 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
*
14205358 ATCATGGAATATTTACCTAATCCATTGTCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
14205410 ATCA
1 ATCA
14205414 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
Found at i:14208669 original size:40 final size:40
Alignment explanation
Indices: 14208632--14208857 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
14208622 GCTACTCGTT
* *
14208632 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
14208672 CAAATGCCTTCGGGACTTAACACGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
14208712 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** *
14208752 CAAATGCCTT-TGGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
14208792 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
14208833 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
14208858 CATCATTCAA
Statistics
Matches: 167, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 152 0.91
41 12 0.07
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:14216664 original size:40 final size:40
Alignment explanation
Indices: 14216627--14216852 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
14216617 GCTACTCGTT
* *
14216627 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
14216667 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
14216707 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
14216747 CAAATGCCTTC-GGATCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
14216787 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
14216828 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
14216853 CATCATTCAA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.91
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:14220550 original size:30 final size:30
Alignment explanation
Indices: 14220514--14220573 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
14220504 ATTTAATACG
* *
14220514 AACTTTTGCAAAATTACATTTTTGCCCCTA
1 AACTTTTACAAAATTACACTTTTGCCCCTA
*
14220544 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTTACAAAATTACACTTTTGCCCCTA
14220574 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACACTTTTGCCCCTA
Found at i:14234617 original size:27 final size:26
Alignment explanation
Indices: 14234558--14234619 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 26
14234548 CGAGTCATAT
14234558 CAGGAAGCTCACAAAGAGCCAATTAA
1 CAGGAAGCTCACAAAGAGCCAATTAA
*
14234584 CAGGAAGTTCACAAAGAGCCATATT-A
1 CAGGAAGCTCACAAAGAGCCA-ATTAA
14234610 CAGGGAAGCT
1 CA-GGAAGCT
14234620 TATAAGAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 23 0.72
27 9 0.28
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.15
Consensus pattern (26 bp):
CAGGAAGCTCACAAAGAGCCAATTAA
Found at i:14235555 original size:17 final size:17
Alignment explanation
Indices: 14235533--14235566 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14235523 ACCCAATTAA
14235533 GCTTGCTTGAATTTCTT
1 GCTTGCTTGAATTTCTT
14235550 GCTTGCTTGAATTTCTT
1 GCTTGCTTGAATTTCTT
14235567 TCTCTTAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.53
Consensus pattern (17 bp):
GCTTGCTTGAATTTCTT
Found at i:14240241 original size:30 final size:30
Alignment explanation
Indices: 14240205--14240261 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
14240195 CACGGATTGG
**
14240205 CACATGGGTGTGTGGCCAGCCCATGTGGAT
1 CACATGGGCATGTGGCCAGCCCATGTGGAT
* *
14240235 CACATGGGCATGTGGCCATCCCGTGTG
1 CACATGGGCATGTGGCCAGCCCATGTG
14240262 AAAATGCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.16, C:0.26, G:0.35, T:0.23
Consensus pattern (30 bp):
CACATGGGCATGTGGCCAGCCCATGTGGAT
Found at i:14242100 original size:5 final size:5
Alignment explanation
Indices: 14242090--14242162 Score: 51
Period size: 5 Copynumber: 14.2 Consensus size: 5
14242080 AAAATAAGTT
* * * *
14242090 AAATA AAATA AAATA AAATA AAA-C AACTA AAACA AAATTA AAAAA GAAGATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA-TA AAATA -AA-ATA
*
14242142 AAA-A TAATAA AAATA AAATA A
1 AAATA AAAT-A AAATA AAATA A
14242163 TAATCTCAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
4 5 0.10
5 33 0.63
6 12 0.23
7 2 0.04
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:14242257 original size:15 final size:14
Alignment explanation
Indices: 14242242--14242300 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 14
14242232 ATAGCAAAAT
14242242 AAAAATAAAAATAA
1 AAAAATAAAAATAA
* *
14242256 TAATATAAAAAATTAA
1 AAAAAT-AAAAA-TAA
14242272 AAAAATTAAAACATAA
1 AAAAA-TAAAA-ATAA
*
14242288 AAAATTAAAAATA
1 AAAAATAAAAATA
14242301 TAAGTATAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.19
15 10 0.28
16 17 0.47
17 2 0.06
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:14242267 original size:44 final size:43
Alignment explanation
Indices: 14242213--14242344 Score: 103
Period size: 44 Copynumber: 3.0 Consensus size: 43
14242203 AATAGTAAAA
*
14242213 AATATGAAAAAAAATATAAATAGCAAAATAAAAATAAAAATAAT
1 AATATAAAAAAAAATATAAATAG-AAAATAAAAATAAAAATAAT
14242257 AATATAAAAAATTAAA-A-AAATTA-AAACATAAAAAATTAAAAAT-AT
1 AATATAAAAAA--AAATATAAA-TAGAAA-AT-AAAAA-TAAAAATAAT
* * *
14242302 AAGTATAAGAATAAAT-TAATTAGTAAAATAAAAATAAATAATA
1 AA-TATAAAAAAAAATATAAATAG-AAAATAAAAATAAA-AATA
14242345 TAACAATTAA
Statistics
Matches: 71, Mismatches: 4, Indels: 25
0.71 0.04 0.25
Matches are distributed among these distances:
43 7 0.10
44 28 0.39
45 16 0.23
46 20 0.28
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (43 bp):
AATATAAAAAAAAATATAAATAGAAAATAAAAATAAAAATAAT
Found at i:14242274 original size:9 final size:8
Alignment explanation
Indices: 14242261--14242298 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
14242251 AATAATAATA
14242261 TAAAAAAT
1 TAAAAAAT
14242269 TAAAAAAAT
1 T-AAAAAAT
*
14242278 TAAAACA-
1 TAAAAAAT
14242285 TAAAAAAT
1 TAAAAAAT
14242293 TAAAAA
1 TAAAAA
14242299 TATAAGTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 6 0.23
8 12 0.46
9 8 0.31
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (8 bp):
TAAAAAAT
Found at i:14242275 original size:24 final size:23
Alignment explanation
Indices: 14242248--14242303 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
14242238 AAATAAAAAT
*
14242248 AAAAATAATAATATAAAAAATTAA
1 AAAAATAA-AACATAAAAAATTAA
14242272 AAAAATTAAAACATAAAAAATTAA
1 AAAAA-TAAAACATAAAAAATTAA
*
14242296 AAATATAA
1 AAAAATAA
14242304 GTATAAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.10
24 23 0.79
25 3 0.10
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAAATAAAACATAAAAAATTAA
Found at i:14242345 original size:44 final size:42
Alignment explanation
Indices: 14242237--14242347 Score: 109
Period size: 44 Copynumber: 2.5 Consensus size: 42
14242227 TATAAATAGC
14242237 AAAATAAAAATAAAAATAATAATATAAAAAATTAAAAAAATTA
1 AAAATAAAAATAAAAAT-ATAATATAAAAAATTAAAAAAATTA
* **
14242280 AAACATAAAAAATTAAAAATATAAGTAT-AAGAA-TAAATTAATTA
1 AAA-AT-AAAAA-TAAAAATATAA-TATAAAAAATTAAAAAAATTA
14242324 GTAAAATAAAAATAAATAATATAA
1 --AAAATAAAAATAAA-AATATAA
14242348 CAATTAATAA
Statistics
Matches: 58, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
43 7 0.12
44 23 0.40
45 15 0.26
46 13 0.22
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (42 bp):
AAAATAAAAATAAAAATATAATATAAAAAATTAAAAAAATTA
Found at i:14242347 original size:38 final size:36
Alignment explanation
Indices: 14242284--14242371 Score: 90
Period size: 37 Copynumber: 2.4 Consensus size: 36
14242274 AAATTAAAAC
* *
14242284 ATAAA-AAATTAAAAATATAAGTATAAGAATAAATTA
1 ATAAATAAAATAAAAATATAAGTATAACAATAAA-TA
* * *
14242320 ATTAGTAAAATAAAAATAAATAA-TATAACAATTAATA
1 ATAAATAAAATAAAAAT--ATAAGTATAACAATAAATA
14242357 ATAAATAAAATAAAA
1 ATAAATAAAATAAAA
14242372 TTGGGGTGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
36 3 0.07
37 25 0.60
38 10 0.24
39 4 0.10
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.27
Consensus pattern (36 bp):
ATAAATAAAATAAAAATATAAGTATAACAATAAATA
Found at i:14258281 original size:2 final size:2
Alignment explanation
Indices: 14258276--14258310 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14258266 GTAACATATA
14258276 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
14258311 TTGGTGTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:14262407 original size:11 final size:11
Alignment explanation
Indices: 14262391--14262449 Score: 73
Period size: 11 Copynumber: 5.2 Consensus size: 11
14262381 CTTTATATAC
14262391 TAATAAAATAA
1 TAATAAAATAA
14262402 TAATAAAATAA
1 TAATAAAATAA
*
14262413 TAATAAAATATCT
1 TAATAAAATA--A
* *
14262426 TATTAAAATAT
1 TAATAAAATAA
14262437 TAATAAAATAA
1 TAATAAAATAA
14262448 TA
1 TA
14262450 TTTATCTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
11 33 0.79
13 9 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:14265725 original size:46 final size:46
Alignment explanation
Indices: 14265452--14265725 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
14265442 TTTGACATGA
* * * * ** *
14265452 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGCCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** *
14265498 TGCCATGGTATCTTTCAACCATGGTATTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* ** * *
14265544 TCCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
14265590 TGCCATGGTATCTTTCAACCATGGTCTTACAAATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
14265636 TGCCATGGTATATTTCAACCATGGTCTTAAACAATTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
14265682 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
14265726 AGAGCACACT
Statistics
Matches: 203, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.02
46 199 0.98
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:14267858 original size:27 final size:27
Alignment explanation
Indices: 14267792--14267869 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
14267782 TCTTTATATA
14267792 CTAATAAAATAATAAAAAAATATCTTAT
1 CTAAT-AAATAATAAAAAAATATCTTAT
*
14267820 -TAA-AATATTAATAAAATAATAT-TTAT
1 CTAATAA-A-TAATAAAAAAATATCTTAT
* *
14267846 CTAATTAAATAATTATAAAATATC
1 CTAA-TAAATAATAAAAAAATATC
14267870 AAAATATCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
25 2 0.05
26 5 0.12
27 30 0.75
28 1 0.03
29 2 0.05
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (27 bp):
CTAATAAATAATAAAAAAATATCTTAT
Found at i:14269897 original size:2 final size:2
Alignment explanation
Indices: 14269890--14269916 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14269880 ATGCTAGCTT
14269890 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
14269917 TAAGTGATTG
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:14278853 original size:41 final size:42
Alignment explanation
Indices: 14278775--14278853 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
14278765 AATACTCGAT
**
14278775 ATCTCGCACACTAAGTGCCAATACATAGTTGAAGCTATTATA
1 ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTATTATA
*
14278817 ATCTCGCACACTAAGTGCC-TTACATAGCCGAAGCTAT
1 ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTAT
14278854 CTCGGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 15 0.44
42 19 0.56
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (42 bp):
ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTATTATA
Found at i:14279183 original size:20 final size:20
Alignment explanation
Indices: 14279153--14279191 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
14279143 TGCTTTAAAA
14279153 CACATTTTCAC-TTTTTCCC
1 CACATTTTCACATTTTTCCC
14279172 CACATATTTCACATTTTTCC
1 CACAT-TTTCACATTTTTCC
14279192 TAATTTAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.21, C:0.33, G:0.00, T:0.46
Consensus pattern (20 bp):
CACATTTTCACATTTTTCCC
Found at i:14280078 original size:2 final size:2
Alignment explanation
Indices: 14280071--14280095 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14280061 ATGCTAGCTT
14280071 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 T
14280096 TAATTTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14283449 original size:18 final size:19
Alignment explanation
Indices: 14283426--14283462 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
14283416 CATTCAAACA
14283426 CCAGAAAAGT-AATCATTT
1 CCAGAAAAGTAAATCATTT
14283444 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
14283463 TTCAGAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:14285025 original size:3 final size:3
Alignment explanation
Indices: 14285017--14285049 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
14285007 TTGCATGGAA
14285017 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14285050 CCAATCCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14287538 original size:24 final size:21
Alignment explanation
Indices: 14287503--14287549 Score: 51
Period size: 24 Copynumber: 2.1 Consensus size: 21
14287493 AAGGATAAAG
14287503 AAACAAACAAGATCATAAAACAAA
1 AAACAAACAAGA-CA-AAAA-AAA
14287527 AAACATAA-AAGACAAAAAAAA
1 AAACA-AACAAGACAAAAAAAA
14287548 AA
1 AA
14287550 CCGACAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 5 0.23
22 4 0.18
23 2 0.09
24 9 0.41
25 2 0.09
ACGTcount: A:0.77, C:0.13, G:0.04, T:0.06
Consensus pattern (21 bp):
AAACAAACAAGACAAAAAAAA
Found at i:14288353 original size:19 final size:18
Alignment explanation
Indices: 14288326--14288361 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
14288316 GGTTTAAGTA
14288326 TTAAATTAAATATTAAAG
1 TTAAATTAAATATTAAAG
14288344 TTAAATTTAAATATTAAA
1 TTAAA-TTAAATATTAAA
14288362 TACTATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TTAAATTAAATATTAAAG
Found at i:14289920 original size:299 final size:299
Alignment explanation
Indices: 14289531--14290173 Score: 785
Period size: 299 Copynumber: 2.1 Consensus size: 299
14289521 CTTTATTTTA
* * * ** *
14289531 ATATTTTAATATATTTTAATTTTATTATTCACATTTTATTA-CTTACATCAATTGTATATCAATA
1 ATATTTTAACAT-TTTT-ATTTTAATATGCACAAGTTAATATCTT-CATCAATTGTATATCAATA
14289595 CTTACTATTTATTAAGTGTTTTATTGAGTTGGTGGC-TCCCTCAACCAAGTCACCAACTCGGCTA
63 CTTACTATTTATTAAGTGTTTTATTGAGTTGGTGGCAT-CCTCAACCAAGTCACCAACTCGGCTA
* * * * *
14289659 GGAAATTACGAAAATGTCATTCCATAATTAAAATAAGTTATATTATTTGAGGGTAGTTTAATCTT
127 GGAAATTACGAAAATATCATTCCATAATTAAAA-AAGCTATACTATTCGAAGGTAGTTTAATCTT
* *
14289724 TTCATTTTAAGAAAAAAC-AATTAAAATATGCAGATGGTAGGATTTAAATCCGCGCCAATTAGA-
191 TTCATTTTAA-AAAAAACTAATTAAAATATGAAGATGGTAGGATTTAAATCCGCGCAAATTAGAT
* * * *
14289787 A-AAAAATCCTTAAATTTACCATTCAACCAAAGCTTCA-TTTTAAT
255 AGAAAAAT-ATTAAATTTACCACTAAACCAAAGCTTCATTTTTAAC
*
14289831 ATATTTTAGACATTTTTATTTTAATATGCGCAAGTTAATATCTTCATCAATTGTATATCAATACT
1 ATATTTTA-ACATTTTTATTTTAATATGCACAAGTTAATATCTTCATCAATTGTATATCAATACT
* * * * *
14289896 TACTATTTATTAAGTGTTTTATTGAGTTGGTGTCATCCTCAATCGAGTGACCAACTCGGTTAGGA
65 TACTATTTATTAAGTGTTTTATTGAGTTGGTGGCATCCTCAACCAAGTCACCAACTCGGCTAGGA
* * * * * * *
14289961 AATTATGGAAATATCCTTCCCTCATTAAAAAAGCTATACTATTCGAAGGTATTTTAGTCTTTTCA
130 AATTACGAAAATATCATTCCATAATTAAAAAAGCTATACTATTCGAAGGTAGTTTAATCTTTTCA
* * * * *
14290026 TTTTAACAAAAACTAATTAAAATATGAATATGGTGGGATTTGAATCCGCGCAAATTAGATTAGTA
195 TTTTAAAAAAAACTAATTAAAATATGAAGATGGTAGGATTTAAATCCGCGCAAATTAGA-TAGAA
* ** * *
14290091 AAATATTAAATTTATCACTAAACCAAATTTTTATTTTTGAC
259 AAATATTAAATTTACCACTAAACCAAAGCTTCATTTTTAAC
* *
14290132 ATATTTTATCATTTTTATTTTAATATGCACAAGTTATTATCT
1 ATATTTTAACATTTTTATTTTAATATGCACAAGTTAATATCT
14290174 CTATTAGTTG
Statistics
Matches: 292, Mismatches: 43, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
297 6 0.02
298 75 0.26
299 120 0.41
300 70 0.24
301 21 0.07
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (299 bp):
ATATTTTAACATTTTTATTTTAATATGCACAAGTTAATATCTTCATCAATTGTATATCAATACTT
ACTATTTATTAAGTGTTTTATTGAGTTGGTGGCATCCTCAACCAAGTCACCAACTCGGCTAGGAA
ATTACGAAAATATCATTCCATAATTAAAAAAGCTATACTATTCGAAGGTAGTTTAATCTTTTCAT
TTTAAAAAAAACTAATTAAAATATGAAGATGGTAGGATTTAAATCCGCGCAAATTAGATAGAAAA
ATATTAAATTTACCACTAAACCAAAGCTTCATTTTTAAC
Found at i:14290389 original size:19 final size:19
Alignment explanation
Indices: 14290365--14290405 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
14290355 GTTTCAGGAG
14290365 CCATACGGGCTGGGCCATT
1 CCATACGGGCTGGGCCATT
14290384 CCATACGGGCTGGGCCATT
1 CCATACGGGCTGGGCCATT
14290403 CCA
1 CCA
14290406 CACAGGCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.34, G:0.29, T:0.20
Consensus pattern (19 bp):
CCATACGGGCTGGGCCATT
Found at i:14290413 original size:19 final size:19
Alignment explanation
Indices: 14290372--14290413 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
14290362 GAGCCATACG
* *
14290372 GGCTGGGCCATTCCATACG
1 GGCTGGGCCATTCCACACA
14290391 GGCTGGGCCATTCCACACA
1 GGCTGGGCCATTCCACACA
14290410 GGCT
1 GGCT
14290414 AGACACACGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.33, G:0.31, T:0.19
Consensus pattern (19 bp):
GGCTGGGCCATTCCACACA
Found at i:14290459 original size:29 final size:30
Alignment explanation
Indices: 14290403--14290459 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
14290393 CTGGGCCATT
* * *
14290403 CCACACAGGCTAGACACACGGCCGTGTGAG
1 CCACACAAGCTAGACACACGACCATGTGAG
*
14290433 CCACACAAGCTA-CCACACGACCATGTG
1 CCACACAAGCTAGACACACGACCATGTG
14290460 CCAAACCATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 12 0.52
30 11 0.48
ACGTcount: A:0.30, C:0.37, G:0.23, T:0.11
Consensus pattern (30 bp):
CCACACAAGCTAGACACACGACCATGTGAG
Found at i:14291569 original size:20 final size:19
Alignment explanation
Indices: 14291521--14291581 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
14291511 AGGAAAACTT
14291521 TATTTTTA--TTAATTTAA
1 TATTTTTATTTTAATTTAA
* *
14291538 TATTTTTATTTTATTTTAG
1 TATTTTTATTTTAATTTAA
*
14291557 TATTTTTGTTTTTAATTTAA
1 TATTTTT-ATTTTAATTTAA
14291577 T-TTTT
1 TATTTT
14291582 ACATTCTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 8 0.22
19 18 0.50
20 10 0.28
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TATTTTTATTTTAATTTAA
Found at i:14292060 original size:22 final size:23
Alignment explanation
Indices: 14292035--14292080 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
14292025 CAACCAAACC
14292035 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
14292057 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
14292080 A
1 A
14292081 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:14292086 original size:23 final size:23
Alignment explanation
Indices: 14292042--14292086 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14292032 ACCAATTCAA
*
14292042 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
14292065 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
14292087 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:14293607 original size:106 final size:106
Alignment explanation
Indices: 14293421--14293616 Score: 383
Period size: 106 Copynumber: 1.8 Consensus size: 106
14293411 TCTTCACTAA
14293421 AAATTAATTATCTCTTCATAAAAAATTCGAATGATGTTTTCGTTTGTTTCTATTGAAAATAGACT
1 AAATTAATTATCTCTTCATAAAAAATTCGAATGATGTTTTCGTTTGTTTCTATTGAAAATAGACT
14293486 CATTCAAGATCCTATGCATATAAATAATAATGAAATTATAG
66 CATTCAAGATCCTATGCATATAAATAATAATGAAATTATAG
14293527 AAATTAATTATCTCTTCATAAAAAATTCGAATGATGTTTTCGTTTGTTTCTATTGAAAATAGACT
1 AAATTAATTATCTCTTCATAAAAAATTCGAATGATGTTTTCGTTTGTTTCTATTGAAAATAGACT
*
14293592 CATTCAAGATTCTATGCATATAAAT
66 CATTCAAGATCCTATGCATATAAAT
14293617 TTAAGCCCCT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 89 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (106 bp):
AAATTAATTATCTCTTCATAAAAAATTCGAATGATGTTTTCGTTTGTTTCTATTGAAAATAGACT
CATTCAAGATCCTATGCATATAAATAATAATGAAATTATAG
Found at i:14299116 original size:25 final size:25
Alignment explanation
Indices: 14299045--14299105 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
14299035 ACGAGAGACA
14299045 AACGGTAAGCTCATCCGAGCTGAAT
1 AACGGTAAGCTCATCCGAGCTGAAT
* * *
14299070 ATCGGTAAGCTCCTCCGAGCTGGAT
1 AACGGTAAGCTCATCCGAGCTGAAT
14299095 AACGGTAAGCT
1 AACGGTAAGCT
14299106 TATGCAAGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (25 bp):
AACGGTAAGCTCATCCGAGCTGAAT
Found at i:14301589 original size:169 final size:169
Alignment explanation
Indices: 14301310--14301650 Score: 673
Period size: 169 Copynumber: 2.0 Consensus size: 169
14301300 ATCTGGATAC
14301310 AGAGTCGGAAATATGATGTTTCATTACGGGTCATTGATACATCTGTTTCCATTTATTGTACAATT
1 AGAGTCGGAAATATGATGTTTCATTACGGGTCATTGATACATCTGTTTCCATTTATTGTACAATT
14301375 AATTACTTCTGAAATGAACAAACATAATACCATTTTGAGCTTCGTGCAAAATTTTTTGTATCAGC
66 AATTACTTCTGAAATGAACAAACATAATACCATTTTGAGCTTCGTGCAAAATTTTTTGTATCAGC
*
14301440 TCTGGACTTTTGAGTACACTAAATATATTTCTGAATAAT
131 TCTGGACTTTTCAGTACACTAAATATATTTCTGAATAAT
14301479 AGAGTCGGAAATATGATGTTTCATTACGGGTCATTGATACATCTGTTTCCATTTATTGTACAATT
1 AGAGTCGGAAATATGATGTTTCATTACGGGTCATTGATACATCTGTTTCCATTTATTGTACAATT
14301544 AATTACTTCTGAAATGAACAAACATAATACCATTTTGAGCTTCGTGCAAAATTTTTTGTATCAGC
66 AATTACTTCTGAAATGAACAAACATAATACCATTTTGAGCTTCGTGCAAAATTTTTTGTATCAGC
14301609 TCTGGACTTTTCAGTACACTAAATATATTTCTGAATAAT
131 TCTGGACTTTTCAGTACACTAAATATATTTCTGAATAAT
14301648 AGA
1 AGA
14301651 CAATCATTGT
Statistics
Matches: 171, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 171 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (169 bp):
AGAGTCGGAAATATGATGTTTCATTACGGGTCATTGATACATCTGTTTCCATTTATTGTACAATT
AATTACTTCTGAAATGAACAAACATAATACCATTTTGAGCTTCGTGCAAAATTTTTTGTATCAGC
TCTGGACTTTTCAGTACACTAAATATATTTCTGAATAAT
Found at i:14302544 original size:34 final size:34
Alignment explanation
Indices: 14302495--14302562 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
14302485 TGAAGCAGAA
*
14302495 GTATCGTCCACCGTATACACTTTTAGTAATGTCT
1 GTATCGTCCACCGTATACACTTTTACTAATGTCT
* *
14302529 GTATCTTCCATCGTATACACTTTTACTAATGTCT
1 GTATCGTCCACCGTATACACTTTTACTAATGTCT
14302563 ATCCTTTCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (34 bp):
GTATCGTCCACCGTATACACTTTTACTAATGTCT
Found at i:14305626 original size:25 final size:25
Alignment explanation
Indices: 14305592--14305650 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
14305582 AGCGATAAAC
*
14305592 GGTAAGCTCATTCGAGCTGAATATT
1 GGTAAGCTCATCCGAGCTGAATATT
*
14305617 GGTAAGCTCATCCGATCTGAATATT
1 GGTAAGCTCATCCGAGCTGAATATT
14305642 GGTAAGCTC
1 GGTAAGCTC
14305651 TTCCAAATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (25 bp):
GGTAAGCTCATCCGAGCTGAATATT
Found at i:14307757 original size:46 final size:44
Alignment explanation
Indices: 14307655--14307759 Score: 115
Period size: 46 Copynumber: 2.3 Consensus size: 44
14307645 TATTTTTATA
*
14307655 TTATTTTTTTCTTTTTTGTTTCTATTTTATTATGCACTGTTCTT
1 TTATTTTTTTCTTTGTTGTTTCTATTTTATTATGCACTGTTCTT
* *
14307699 TTATTGTTTTTTCGTTTGTT-TTTCTATTTTATTAT-CGCTTTATCTT
1 TTA-T-TTTTTTC-TTTGTTGTTTCTATTTTATTATGCACTGT-TCTT
14307745 CTTATTTATTTTCTT
1 -TTATTT-TTTTCTT
14307760 ATTAGTTTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
44 3 0.06
45 9 0.17
46 32 0.62
47 8 0.15
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.70
Consensus pattern (44 bp):
TTATTTTTTTCTTTGTTGTTTCTATTTTATTATGCACTGTTCTT
Found at i:14308643 original size:21 final size:20
Alignment explanation
Indices: 14308615--14308672 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
14308605 TTTTTGTTCT
14308615 AAAA-AAAGAATAAAAAATCG
1 AAAAGAAAGAATAAAAAA-CG
*
14308635 AAAAGAAAGAA-AAAAAAGG
1 AAAAGAAAGAATAAAAAACG
14308654 AAAAGGAAA-ACATAAAAAA
1 AAAA-GAAAGA-ATAAAAAA
14308673 GAGAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 6 0.18
20 15 0.45
21 12 0.36
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.05
Consensus pattern (20 bp):
AAAAGAAAGAATAAAAAACG
Found at i:14311497 original size:25 final size:25
Alignment explanation
Indices: 14311469--14311518 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
14311459 CGAAAAGTGT
14311469 GATTTTTGGATTTCGATTCTGTAAA
1 GATTTTTGGATTTCGATTCTGTAAA
14311494 GATTTTTGGATTTCGATTCTGTAAA
1 GATTTTTGGATTTCGATTCTGTAAA
14311519 CTAGACTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (25 bp):
GATTTTTGGATTTCGATTCTGTAAA
Found at i:14313548 original size:13 final size:13
Alignment explanation
Indices: 14313530--14313556 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14313520 GCTTTTAATT
14313530 TGGATTTGGCATC
1 TGGATTTGGCATC
14313543 TGGATTTGGCATC
1 TGGATTTGGCATC
14313556 T
1 T
14313557 ACCTAGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.41
Consensus pattern (13 bp):
TGGATTTGGCATC
Found at i:14317942 original size:26 final size:26
Alignment explanation
Indices: 14317911--14318018 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
14317901 TGAAATGCCC
*
14317911 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
14317937 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
14317963 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
14317989 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14318015 ATCA
1 ATCA
14318019 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:14324321 original size:14 final size:14
Alignment explanation
Indices: 14324304--14324330 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14324294 GTGTCTATAA
14324304 TTTAAAATTTAGGG
1 TTTAAAATTTAGGG
14324318 TTTAAAATTTAGG
1 TTTAAAATTTAGG
14324331 ATTCATGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (14 bp):
TTTAAAATTTAGGG
Found at i:14324368 original size:15 final size:15
Alignment explanation
Indices: 14324337--14324371 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14324327 TAGGATTCAT
**
14324337 GATTTCAAGATTTAA
1 GATTTCAAGATACAA
14324352 GATTTCAAGATACAA
1 GATTTCAAGATACAA
14324367 GATTT
1 GATTT
14324372 AGAGCTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (15 bp):
GATTTCAAGATACAA
Found at i:14325972 original size:23 final size:23
Alignment explanation
Indices: 14325928--14325972 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14325918 TTGTATTAAA
**
14325928 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAAAATAAATATG
*
14325951 ATTAAAAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
14325973 TTAGTATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:14327068 original size:27 final size:26
Alignment explanation
Indices: 14327049--14327104 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
14327039 TTTTATTATT
14327049 TTTAAGAATAAAACTAATTTTACGAC
1 TTTAAGAATAAAACTAATTTTACGAC
**
14327075 TTTATTAATAAAACTAATTTTACGAC
1 TTTAAGAATAAAACTAATTTTACGAC
14327101 TTTA
1 TTTA
14327105 TTCATAGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (26 bp):
TTTAAGAATAAAACTAATTTTACGAC
Found at i:14327084 original size:26 final size:26
Alignment explanation
Indices: 14327055--14327106 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14327045 TATTTTTAAG
14327055 AATAAAACTAATTTTACGACTTTATT
1 AATAAAACTAATTTTACGACTTTATT
14327081 AATAAAACTAATTTTACGACTTTATT
1 AATAAAACTAATTTTACGACTTTATT
14327107 CATAGGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (26 bp):
AATAAAACTAATTTTACGACTTTATT
Found at i:14329464 original size:2 final size:2
Alignment explanation
Indices: 14329457--14329481 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14329447 ATTGCTCCAT
14329457 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
14329482 TTTGTTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:14330594 original size:9 final size:9
Alignment explanation
Indices: 14330580--14330627 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
14330570 AATCGAATCG
14330580 AGTTATTCA
1 AGTTATTCA
14330589 AGTTATTCGA
1 AGTTATTC-A
14330599 A-TTATTCA
1 AGTTATTCA
*
14330607 ACTTATTCGA
1 AGTTATTC-A
14330617 A-TTATTCA
1 AGTTATTCA
14330625 AGT
1 AGT
14330628 CAACTCGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 4 0.11
9 27 0.77
10 4 0.11
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (9 bp):
AGTTATTCA
Found at i:14330603 original size:18 final size:18
Alignment explanation
Indices: 14330577--14330627 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
14330567 GTTAATCGAA
*
14330577 TCGAGTTATTCAAGTTAT
1 TCGAATTATTCAAGTTAT
*
14330595 TCGAATTATTCAACTTAT
1 TCGAATTATTCAAGTTAT
14330613 TCGAATTATTCAAGT
1 TCGAATTATTCAAGT
14330628 CAACTCGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (18 bp):
TCGAATTATTCAAGTTAT
Found at i:14332829 original size:27 final size:30
Alignment explanation
Indices: 14332753--14332829 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 30
14332743 TTTAAAAGTT
* *
14332753 AATTT-TTTTAGATCCCTTAAAAGTTGATA
1 AATTTCTTTTTGACCCCTTAAAAGTTGATA
* *
14332782 AATTTCTTTTTTACCCTTTAAAAGTT-A-A
1 AATTTCTTTTTGACCCCTTAAAAGTTGATA
14332810 AA-TTC-TTTTGAGCCCCTTAA
1 AATTTCTTTTTGA-CCCCTTAA
14332830 CAACTGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
26 5 0.12
27 10 0.25
28 3 0.08
29 6 0.15
30 16 0.40
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (30 bp):
AATTTCTTTTTGACCCCTTAAAAGTTGATA
Found at i:14334728 original size:27 final size:27
Alignment explanation
Indices: 14334670--14334730 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
14334660 CATTTTATTG
* *
14334670 GTTTTTTTAATATAATTTAGTTTTAGAT
1 GTTTTTTAAATATAATTTA-TTTTAAAT
14334698 -TTTTTTAAATATAATTT-TTTTAAATT
1 GTTTTTTAAATATAATTTATTTTAAA-T
14334724 GTTTTTT
1 GTTTTTT
14334731 TTCCTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 6 0.21
26 1 0.03
27 22 0.76
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (27 bp):
GTTTTTTAAATATAATTTATTTTAAAT
Found at i:14337416 original size:21 final size:19
Alignment explanation
Indices: 14337392--14337432 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
14337382 GCAGGGGAAG
14337392 GAAAGAAAGAAAAAGAGAAAA
1 GAAAG-AAGAAAAA-AGAAAA
*
14337413 GAAAGAAGAAAGAAGAAAA
1 GAAAGAAGAAAAAAGAAAA
14337432 G
1 G
14337433 GAAAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
GAAAGAAGAAAAAAGAAAA
Found at i:14339946 original size:46 final size:46
Alignment explanation
Indices: 14339879--14340199 Score: 437
Period size: 46 Copynumber: 7.0 Consensus size: 46
14339869 GCTCTCTGAA
* *
14339879 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
14339925 ATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
14339971 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
14340017 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
14340063 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* ** *
14340109 AGGAAAATGAATAAGACCATGGTTGAAAGATACTATGGCAACATGAC
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * * * *
14340156 A-GAAAACGAGTAAAACTATAGTTGAAAGATACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
14340200 TCGAAGATAA
Statistics
Matches: 258, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 215 0.83
47 43 0.17
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:14341438 original size:10 final size:10
Alignment explanation
Indices: 14341419--14341468 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
14341409 TCAAATTCTA
14341419 AAAGATAAAT
1 AAAGATAAAT
14341429 ACAA-ATAAAT
1 A-AAGATAAAT
*
14341439 AAAGATAATT
1 AAAGATAAAT
14341449 AAAGATAAAT
1 AAAGATAAAT
*
14341459 AAATATAAAT
1 AAAGATAAAT
14341469 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:14343860 original size:6 final size:6
Alignment explanation
Indices: 14343849--14343878 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
14343839 TTTCTTCTAG
14343849 CACCTC CACCTC CACCTC CACCTC CACCTC
1 CACCTC CACCTC CACCTC CACCTC CACCTC
14343879 TAGACGCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.67, G:0.00, T:0.17
Consensus pattern (6 bp):
CACCTC
Found at i:14345488 original size:20 final size:20
Alignment explanation
Indices: 14345456--14345493 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14345446 TGTTTCACAT
14345456 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
14345476 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
14345494 ACTTAATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:14350717 original size:33 final size:32
Alignment explanation
Indices: 14350679--14350762 Score: 80
Period size: 33 Copynumber: 2.6 Consensus size: 32
14350669 CCATGTCAAT
* *
14350679 ATTTAAATGTAAGACCATAGCTA-ATCTATGGC
1 ATTTTAATGTAAGACCATAACTAGAT-TATGGC
* *
14350711 ATTTTAATGAAAAGACCATAACTAGGTTATGGC
1 ATTTTAATG-TAAGACCATAACTAGATTATGGC
* *
14350744 ATCTTGAACGTAAGACCAT
1 AT-TTTAATGTAAGACCAT
14350763 GGTTGGACCA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
32 8 0.19
33 28 0.67
34 6 0.14
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (32 bp):
ATTTTAATGTAAGACCATAACTAGATTATGGC
Found at i:14350834 original size:103 final size:101
Alignment explanation
Indices: 14350657--14350867 Score: 255
Period size: 103 Copynumber: 2.1 Consensus size: 101
14350647 GACAGATAAA
* * **
14350657 ACCATGGTTGGACCATGTCAATATTTAAATGTAAGACCATAGCTAATCTATGGCATTTTAATGAA
1 ACCATGGTTGGACCATGTCAATATTTAAATGTAAGACCATAGCTAAGCTATGACATCCTAATGAA
*
14350722 AAGACCATAACTAGGTTATGGCATCT-TGAACGTAAG
66 AAGACCATAACTAGGTTATGGCA-CTACGAACGTAAG
** ** *
14350758 ACCATGGTTGGACCATGGT-AGTATATTTATGTGTAAGACCATAGCTGGGCTATGACATCCTGAT
1 ACCATGGTTGGACCAT-GTCA--ATATTTAAATGTAAGACCATAGCTAAGCTATGACATCCTAAT
** *
14350822 GGTAAGACCATAACTAGGTTATGGCACTACGAATGTAAG
63 GAAAAGACCATAACTAGGTTATGGCACTACGAACGTAAG
14350861 ACCATGG
1 ACCATGG
14350868 AAAGGCCATC
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
101 17 0.18
102 4 0.04
103 72 0.77
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (101 bp):
ACCATGGTTGGACCATGTCAATATTTAAATGTAAGACCATAGCTAAGCTATGACATCCTAATGAA
AAGACCATAACTAGGTTATGGCACTACGAACGTAAG
Found at i:14352295 original size:44 final size:44
Alignment explanation
Indices: 14352232--14352319 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
14352222 TATGTTGAGA
14352232 AAATATAACTGATGAGGACTTGTTAAAGAAAACATTTTCAACCT
1 AAATATAACTGATGAGGACTTGTTAAAGAAAACATTTTCAACCT
14352276 AAATATAACTGATGAGGACTTGTTAAAGAAAACATTTTCAACCT
1 AAATATAACTGATGAGGACTTGTTAAAGAAAACATTTTCAACCT
14352320 TTCATGCTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (44 bp):
AAATATAACTGATGAGGACTTGTTAAAGAAAACATTTTCAACCT
Found at i:14355111 original size:24 final size:25
Alignment explanation
Indices: 14354996--14355113 Score: 87
Period size: 25 Copynumber: 4.7 Consensus size: 25
14354986 TTCATATTCA
* *
14354996 GGAATGCTCATACGA-CCACATAAATG
1 GGAA-GCTCATACGAGCCATAT-AACG
* ** *
14355022 GGAAGCTCTTTTGAGCCATATAATG
1 GGAAGCTCATACGAGCCATATAACG
* ** *
14355047 GGAAACTCATGTGAGCCATGTAACG
1 GGAAGCTCATACGAGCCATATAACG
** *
14355072 GGAAGCTCCGAAGAGCCAT-TAACG
1 GGAAGCTCATACGAGCCATATAACG
14355096 GGAAGCTCATACGAGCCA
1 GGAAGCTCATACGAGCCA
14355114 ATATTGAGAA
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
24 20 0.27
25 45 0.61
26 9 0.12
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (25 bp):
GGAAGCTCATACGAGCCATATAACG
Found at i:14355124 original size:24 final size:24
Alignment explanation
Indices: 14355097--14355151 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
14355087 CCATTAACGG
*
14355097 GAAGCTCATA-CGAGCCAATATTGA
1 GAAGCTCA-AGCGACCCAATATTGA
* *
14355121 GAAGTTCAAGCGACCCAATATTGG
1 GAAGCTCAAGCGACCCAATATTGA
14355145 GAAGCTC
1 GAAGCTC
14355152 CGAAGAGCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (24 bp):
GAAGCTCAAGCGACCCAATATTGA
Found at i:14374452 original size:21 final size:20
Alignment explanation
Indices: 14374418--14374456 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14374408 CTAAGATGTC
*
14374418 AATTGGATTGAATTGAATGCG
1 AATTGGATTAAATT-AATGCG
*
14374439 AATTGTATTAAATTAATG
1 AATTGGATTAAATTAATG
14374457 TTAAATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (20 bp):
AATTGGATTAAATTAATGCG
Found at i:14374845 original size:24 final size:24
Alignment explanation
Indices: 14374818--14374872 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
14374808 TGGTTCTTGC
*
14374818 GAGCTTCCCATTAATAGCTCTTCA
1 GAGCATCCCATTAATAGCTCTTCA
** *
14374842 GAGCATCCTGTTAATAGCTCTTCG
1 GAGCATCCCATTAATAGCTCTTCA
14374866 GAGCATC
1 GAGCATC
14374873 TCGTTTGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (24 bp):
GAGCATCCCATTAATAGCTCTTCA
Found at i:14375119 original size:74 final size:73
Alignment explanation
Indices: 14375041--14375217 Score: 191
Period size: 74 Copynumber: 2.4 Consensus size: 73
14375031 TCTGATATTA
* *
14375041 GCTCATATGAGCTTCCTTTTAATGGTTCTC-TGGAGCTTTCCGTTACATGGCTCACATAAGCTTT
1 GCTCATATGAGCTTCCTTTTAATGGTTCTCAT-GAG-TTTCCATTACATGGCTCACATAAGCTTC
14375105 CCATTACATG
64 CCATTACATG
** * * *
14375115 GCTCATATGAGCTTCCCATTACATGGCTCACATGAGTTTCCATTACATGGCTCACATGAGCTTCC
1 GCTCATATGAGCTTCCTTTTA-ATGGTTCTCATGAGTTTCCATTACATGGCTCACATAAGCTTCC
* *
14375180 CGTTATATG
65 CATTACATG
*
14375189 GCTCGA-AAGAGCTTCCTGTTT-AT-GTTCTC
1 GCTC-ATATGAGCTTCCT-TTTAATGGTTCTC
14375218 GTAAGAGCAT
Statistics
Matches: 85, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
72 4 0.05
73 2 0.02
74 65 0.76
75 13 0.15
76 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (73 bp):
GCTCATATGAGCTTCCTTTTAATGGTTCTCATGAGTTTCCATTACATGGCTCACATAAGCTTCCC
ATTACATG
Found at i:14375162 original size:24 final size:25
Alignment explanation
Indices: 14375073--14375192 Score: 170
Period size: 25 Copynumber: 4.8 Consensus size: 25
14375063 TGGTTCTCTG
*
14375073 GAGCTTTCCGTTACATGGCTCACAT
1 GAGCTTTCCATTACATGGCTCACAT
* *
14375098 AAGCTTTCCATTACATGGCTCATAT
1 GAGCTTTCCATTACATGGCTCACAT
*
14375123 GAGCTTCCCATTACATGGCTCACAT
1 GAGCTTTCCATTACATGGCTCACAT
14375148 GAG-TTTCCATTACATGGCTCACAT
1 GAGCTTTCCATTACATGGCTCACAT
* * *
14375172 GAGCTTCCCGTTATATGGCTC
1 GAGCTTTCCATTACATGGCTC
14375193 GAAAGAGCTT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
24 23 0.27
25 61 0.73
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.33
Consensus pattern (25 bp):
GAGCTTTCCATTACATGGCTCACAT
Done.