Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 183 of 310
Found at i:59770599 original size:107 final size:108
Alignment explanation
Indices: 59770284--59770599 Score: 375
Period size: 107 Copynumber: 2.9 Consensus size: 108
59770274 TTACAATACA
* * * * * **
59770284 AGGGTATTTTGATAATTTTAAAAATCGGGGGTGTTTTGGTAATTTTACAAATCGAGGCTATTTTT
1 AGGGTATGTCGATAATTTTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCGAGGGTATTTCG
* * *
59770349 AGTAATTTTATAAATTAAGGGTATTTCGGTAATTTTACAAATCG
66 A-TAATTTTACAAATTAAGGGTATTTCAGTAATTTCACAAATCG
* * * *
59770393 ATGGTGTGTCGATAATTTTACAAATCGAGGGTGTTTTGGTAATTTCACAAATCGAGGGTGTTTCG
1 AGGGTATGTCGATAATTTTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCGAGGGTATTTCG
* * * * *
59770458 ATAATTTTGCAAATCAAAGGTATTTTAATAATTTCACAAA-CG
66 ATAATTTTACAAATTAAGGGTATTTCAGTAATTTCACAAATCG
* * *
59770500 AGGGTATTTC-AGTAATTTTACAAATCGAAGGTATTTTGGTAATTTTACAAATCGAGGGTATTTC
1 AGGGTATGTCGA-TAATTTTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCGAGGGTATTTC
** *
59770564 GATAATTTTACAAATTGGGGGTATTTCAGTTATTTC
65 GATAATTTTACAAATTAAGGGTATTTCAGTAATTTC
59770600 TCTTTATTAT
Statistics
Matches: 172, Mismatches: 34, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
106 1 0.01
107 85 0.49
108 31 0.18
109 55 0.32
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (108 bp):
AGGGTATGTCGATAATTTTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCGAGGGTATTTCG
ATAATTTTACAAATTAAGGGTATTTCAGTAATTTCACAAATCG
Found at i:59770959 original size:28 final size:28
Alignment explanation
Indices: 59770918--59771006 Score: 133
Period size: 28 Copynumber: 3.2 Consensus size: 28
59770908 CCCCTTTAGT
* * *
59770918 CCCAATCTCGTTCACATGGCCCATCAGG
1 CCCAATCACATTCATATGGCCCATCAGG
*
59770946 CCCAATTACATTCATATGGCCCATCAGG
1 CCCAATCACATTCATATGGCCCATCAGG
*
59770974 CCCAATCATATTCATATGGCCCATCAGG
1 CCCAATCACATTCATATGGCCCATCAGG
59771002 CCCAA
1 CCCAA
59771007 CTACTTCCCA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (28 bp):
CCCAATCACATTCATATGGCCCATCAGG
Found at i:59773410 original size:43 final size:43
Alignment explanation
Indices: 59773363--59773479 Score: 130
Period size: 42 Copynumber: 2.7 Consensus size: 43
59773353 CCTCGATTGA
*
59773363 GATTTACGTATAAGACCATGTCTGGGACATCGAAATCG-TATCT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGAAATCGATAT-T
* ** **
59773406 GATTT-CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGAAATCGATATT
* * *
59773448 GAATTACATGTAAGACCACGTCTGGGACATCG
1 GATTTACGTGTAAGACCATGTCTGGGACATCG
59773480 GCATTGTACT
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 31 0.52
43 29 0.48
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTGGGACATCGAAATCGATATT
Found at i:59773483 original size:43 final size:42
Alignment explanation
Indices: 59773373--59773483 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 42
59773363 GATTTACGTA
* ** * *
59773373 TAAGACCATGTCTGGGACATCGAAATCGTATCTGATTTCGTG
1 TAAGACCACGTCTGGGACATCGGCATCGTATCTGATTACATG
**
59773415 TAAGACC-CTGTCTGGGACAGAGGCATCGATAT-TGAATTACATG
1 TAAGACCAC-GTCTGGGACATCGGCATCG-TATCTG-ATTACATG
59773458 TAAGACCACGTCTGGGACATCGGCAT
1 TAAGACCACGTCTGGGACATCGGCAT
59773484 TGTACTTGAT
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
42 24 0.43
43 31 0.55
44 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (42 bp):
TAAGACCACGTCTGGGACATCGGCATCGTATCTGATTACATG
Found at i:59773682 original size:24 final size:24
Alignment explanation
Indices: 59773627--59773682 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
59773617 TCTATCTCTG
*
59773627 TGAAATATGTATGGAAATGAAGCG
1 TGAAATATGTATGGAAATGAAGCA
*
59773651 TGAAATATGTATGGAAATGATGCA
1 TGAAATATGTATGGAAATGAAGCA
*
59773675 TGACATAT
1 TGAAATAT
59773683 ATGCAAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (24 bp):
TGAAATATGTATGGAAATGAAGCA
Found at i:59776470 original size:78 final size:78
Alignment explanation
Indices: 59776341--59776492 Score: 207
Period size: 78 Copynumber: 1.9 Consensus size: 78
59776331 AGATTTACTC
* *
59776341 GATGGTTAAGATCCAACATAAATTGCAGATTCTCGACAGCTTGAGTGAGCAACATCGAA-TTATT
1 GATGGTTAAGATCCAACATAAATTGCAGATTCTCAACAGCTTGAGTGAGCAACATC-AACTCATT
59776405 AGTTAGCGATCTGT
65 AGTTAGCGATCTGT
* * * ** *
59776419 GATGGTTGAGATCTAACATAAGTTGTGGATTCTTAACAGCTTGAGTGAGCAACATCAACTCATTA
1 GATGGTTAAGATCCAACATAAATTGCAGATTCTCAACAGCTTGAGTGAGCAACATCAACTCATTA
*
59776484 TTTAGCGAT
66 GTTAGCGAT
59776493 GTTTGAGATC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 2 0.03
78 62 0.97
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (78 bp):
GATGGTTAAGATCCAACATAAATTGCAGATTCTCAACAGCTTGAGTGAGCAACATCAACTCATTA
GTTAGCGATCTGT
Found at i:59781264 original size:27 final size:28
Alignment explanation
Indices: 59781209--59781270 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
59781199 TATACAAGAC
*
59781209 ATAG-GGGTAAAATAGTCATCTTACTAT
1 ATAGAGGGAAAAATAGTCATCTTACTAT
*
59781236 ATA-AGGGAAAAATAGTCATTTTA-TCAT
1 ATAGAGGGAAAAATAGTCATCTTACT-AT
59781263 ATAGAGGG
1 ATAGAGGG
59781271 CCTAGTAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 1 0.03
27 25 0.83
28 4 0.13
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (28 bp):
ATAGAGGGAAAAATAGTCATCTTACTAT
Found at i:59794479 original size:30 final size:30
Alignment explanation
Indices: 59794445--59794554 Score: 150
Period size: 30 Copynumber: 3.7 Consensus size: 30
59794435 TAATCAAATT
*
59794445 TAGGAGTTAGTAGGGATATGGGTGGTTTAA
1 TAGGAGTTAGTGGGGATATGGGTGGTTTAA
59794475 TAGGAGTTAGTGGGGATATGGGTGGTTTAA
1 TAGGAGTTAGTGGGGATATGGGTGGTTTAA
* * **
59794505 TGGGAGTTAGTGGGGATATTGGTGGCGTAA
1 TAGGAGTTAGTGGGGATATGGGTGGTTTAA
*
59794535 T-GAAAGTTAGTGGGGATATG
1 TAG-GAGTTAGTGGGGATATG
59794555 AATGGCTTTA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
29 1 0.01
30 71 0.99
ACGTcount: A:0.25, C:0.01, G:0.43, T:0.32
Consensus pattern (30 bp):
TAGGAGTTAGTGGGGATATGGGTGGTTTAA
Found at i:59796280 original size:13 final size:13
Alignment explanation
Indices: 59796258--59796292 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
59796248 TATTAGTTTA
*
59796258 TTAATATTTTAAT
1 TTAATTTTTTAAT
59796271 TTAATTTTTTTAAT
1 TTAA-TTTTTTAAT
59796285 TTAATTTT
1 TTAATTTT
59796293 ATTATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTAATTTTTTAAT
Found at i:59796281 original size:14 final size:14
Alignment explanation
Indices: 59796264--59796292 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59796254 TTTATTAATA
59796264 TTTTAATTTAATTT
1 TTTTAATTTAATTT
59796278 TTTTAATTTAATTT
1 TTTTAATTTAATTT
59796292 T
1 T
59796293 ATTATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTAATTTAATTT
Found at i:59811349 original size:24 final size:24
Alignment explanation
Indices: 59811317--59811365 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
59811307 ATACCCATGA
59811317 AGATAACCAAAAAGGAGTATATTG
1 AGATAACCAAAAAGGAGTATATTG
59811341 AGATAACCAAAAAGGAGTATATTG
1 AGATAACCAAAAAGGAGTATATTG
59811365 A
1 A
59811366 CTCTTATGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.20, T:0.20
Consensus pattern (24 bp):
AGATAACCAAAAAGGAGTATATTG
Found at i:59815185 original size:30 final size:30
Alignment explanation
Indices: 59815133--59815194 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
59815123 CGGTAAAACT
59815133 TAAATTATTTTACTTTGAGCTAAACT-TTTG
1 TAAATTATTTTACTTTGAGCT-AACTATTTG
59815163 TAAATTATTGTATA-TTTG-GCTAACTATTTG
1 TAAATTATT-T-TACTTTGAGCTAACTATTTG
59815193 TA
1 TA
59815195 TAGATTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 4 0.14
30 18 0.62
31 5 0.17
32 2 0.07
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (30 bp):
TAAATTATTTTACTTTGAGCTAACTATTTG
Found at i:59828069 original size:23 final size:23
Alignment explanation
Indices: 59827989--59828106 Score: 80
Period size: 23 Copynumber: 5.0 Consensus size: 23
59827979 TGGACTCACC
*
59827989 TCAGCTTGTATGAGCTTA-TCGATAT
1 TCAGCTCGTATGAGCTTACT-G-T-T
** * *
59828014 ATCAGCTCGTAAAAGCTTACTACTC
1 -TCAGCTCGTATGAGCTTACT-GTT
59828039 TCAGCTCGTATGAGCTTACTGTT
1 TCAGCTCGTATGAGCTTACTGTT
* *
59828062 TCAGCTCGT-TAGAGCTTACCGCT
1 TCAGCTCGTAT-GAGCTTACTGTT
*
59828085 TCAGCTC-AATAGAGCTTACTGT
1 TCAGCTCGTAT-GAGCTTACTGT
59828107 CCATCAACTC
Statistics
Matches: 74, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
22 1 0.01
23 38 0.51
24 18 0.24
26 16 0.22
27 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (23 bp):
TCAGCTCGTATGAGCTTACTGTT
Found at i:59834423 original size:27 final size:27
Alignment explanation
Indices: 59834326--59834430 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
59834316 AGGAAGCGTC
*
59834326 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
59834353 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
59834380 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
59834407 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
59834431 GCAGCCTCGC
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 9 0.13
27 61 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:59839380 original size:26 final size:26
Alignment explanation
Indices: 59839351--59839510 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
59839341 TGGTACAAAT
59839351 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59839377 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59839403 TGATAATGGGTTAGGTAAATGTT-TA
1 TGATAATGGGTTAGGTAAATGTTCCA
59839428 CTGATAATGGGTTAGGTAAATGTTCCA
1 -TGATAATGGGTTAGGTAAATGTTCCA
*
59839455 TGATAATGGGTTAGGTAAATGTT-TA
1 TGATAATGGGTTAGGTAAATGTTCCA
59839480 CTGATAATGGGTTAGGTAAATGTTCCA
1 -TGATAATGGGTTAGGTAAATGTTCCA
59839507 TGAT
1 TGAT
59839511 GGGCATTTCA
Statistics
Matches: 126, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
25 2 0.02
26 122 0.97
27 2 0.02
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59841205 original size:27 final size:27
Alignment explanation
Indices: 59841108--59841212 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
59841098 AGGAAGCGTC
*
59841108 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
59841135 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
59841162 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
59841189 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
59841213 GCAGCCTCGC
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 9 0.13
27 61 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:59860258 original size:27 final size:27
Alignment explanation
Indices: 59860174--59860278 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
59860164 AGGAAGCGTC
* *
59860174 CTGGTGGCTATGCCATAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
59860201 CTGATGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
59860228 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
59860255 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
59860279 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.13
27 58 0.85
28 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:59863719 original size:43 final size:43
Alignment explanation
Indices: 59863549--59863704 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 43
59863539 ATATCATACA
* * * **
59863549 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAATCACATGTTA
1 ATGCCAACGTCCCAGACATGGTCTTAC-TCGAAATCACATATCG
* * * *
59863592 ATGCC-ACTGTACCAGACAGGGTCTTACACG-AATCATAATAAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACTCGAAATCA-CAT-ATCG
* *
59863635 ATGCCGATGTCCCAGACATGGTCTTACTCGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACTCGAAATCACATATCG
*
59863678 ATGCCAACGTCCCAGATATGGTCTTAC
1 ATGCCAACGTCCCAGACATGGTCTTAC
59863705 ATGAGAACAC
Statistics
Matches: 91, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
42 9 0.10
43 75 0.82
44 7 0.08
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACTCGAAATCACATATCG
Found at i:59868198 original size:199 final size:199
Alignment explanation
Indices: 59867853--59868244 Score: 739
Period size: 199 Copynumber: 2.0 Consensus size: 199
59867843 AAGCATGGTT
* * *
59867853 CAGGGAGTATTCGAAGCAACGATCTTAAAAACGTAAAAATTATCAAAAACTGAAAATAAAACATA
1 CAGGGAGTATTCGAAGAAACGATCTCAAAAACATAAAAATTATCAAAAACTGAAAATAAAACATA
59867918 CCTTGATTTAGCTTTCAAATGGCCGAATGTCTCAAACTCTTTTTATTTCTTTTTATTTGAAGTTT
66 CCTTGATTTAGCTTTCAAATGGCCGAATGTCTCAAACTCTTTTTATTTCTTTTTATTTGAAGTTT
59867983 CAGCACTTAAAGAAAAATGATGCATGGCTTTTGTATTTTATTTTATATTATAACATATATTAAAA
131 CAGCACTTAAAGAAAAATGATGCATGGCTTTTGTATTTTATTTTATATTATAACATATATTAAAA
59868048 GGGC
196 GGGC
* *
59868052 CAGGTAGTATTCGAAGAAACGATCTCAAAAACATAAAAATTATTAAAAACTGAAAATAAAACATA
1 CAGGGAGTATTCGAAGAAACGATCTCAAAAACATAAAAATTATCAAAAACTGAAAATAAAACATA
59868117 CCTTGATTTAGCTTTCAAATGGCCGAATGTCTCAAACTCTTTTTATTTCTTTTTATTTGAAGTTT
66 CCTTGATTTAGCTTTCAAATGGCCGAATGTCTCAAACTCTTTTTATTTCTTTTTATTTGAAGTTT
59868182 CAGCACTTAAAGAAAAATGATGCATGGCTTTTGTATTTTATTTTATATTATAACATATATTAA
131 CAGCACTTAAAGAAAAATGATGCATGGCTTTTGTATTTTATTTTATATTATAACATATATTAA
59868245 CATATTATTT
Statistics
Matches: 188, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
199 188 1.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.36
Consensus pattern (199 bp):
CAGGGAGTATTCGAAGAAACGATCTCAAAAACATAAAAATTATCAAAAACTGAAAATAAAACATA
CCTTGATTTAGCTTTCAAATGGCCGAATGTCTCAAACTCTTTTTATTTCTTTTTATTTGAAGTTT
CAGCACTTAAAGAAAAATGATGCATGGCTTTTGTATTTTATTTTATATTATAACATATATTAAAA
GGGC
Found at i:59868494 original size:14 final size:15
Alignment explanation
Indices: 59868468--59868496 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59868458 AAAATTAATT
59868468 CATGAAAATTTCACA
1 CATGAAAATTTCACA
59868483 CATGAAAA-TTCACA
1 CATGAAAATTTCACA
59868497 AAAAATAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
CATGAAAATTTCACA
Found at i:59868511 original size:13 final size:13
Alignment explanation
Indices: 59868493--59868517 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59868483 CATGAAAATT
59868493 CACAAAAAATAAA
1 CACAAAAAATAAA
59868506 CACAAAAAATAA
1 CACAAAAAATAA
59868518 TATTAAAATA
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:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (13 bp):
CACAAAAAATAAA
Found at i:59869297 original size:43 final size:42
Alignment explanation
Indices: 59869227--59869339 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 42
59869217 CAATGTCAAC
* * *
59869227 GTCCCAGAT-GTGGTCTTACATGTAATCAAATATCTATGTCAG-T
1 GTCCCAGATAG-GGTCTTACACGAAATCAAATA-CGATG-CAGAT
* *
59869270 GTCCCAGATAGGGTCTTACACGAAATCATATACGATGCCGAT
1 GTCCCAGATAGGGTCTTACACGAAATCAAATACGATGCAGAT
* *
59869312 GTCCCAGACATGGTCTTACACGTAAATC
1 GTCCCAGATAGGGTCTTACACG-AAATC
59869340 TCAAATCGAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.03
42 25 0.42
43 32 0.53
44 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (42 bp):
GTCCCAGATAGGGTCTTACACGAAATCAAATACGATGCAGAT
Found at i:59869327 original size:42 final size:43
Alignment explanation
Indices: 59869269--59869379 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 43
59869259 TCTATGTCAG
* * * *
59869269 TGTCCCAGATAGGGTCTTACACGAAA--TCATATACGATGCCGA
1 TGTCCCAGACATGGTCTTACACGAAATCTCAAAT-CGATGCCAA
59869311 TGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAA
1 TGTCCCAGACATGGTCTTACACG-AAATCTCAAATCGATGCCAA
** *
59869355 CATCCCAAACATGGTCTTACACGAA
1 TGTCCCAGACATGGTCTTACACGAA
59869380 GTCACATCTC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 21 0.36
43 5 0.08
44 28 0.47
45 5 0.08
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGAAATCTCAAATCGATGCCAA
Found at i:59874903 original size:32 final size:32
Alignment explanation
Indices: 59874862--59874926 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
59874852 TAATACACCA
59874862 ATTCGACCATATCACACAGACTAATTTCAGTT
1 ATTCGACCATATCACACAGACTAATTTCAGTT
* *
59874894 ATTCGACCATATCACATAGACTAATTTTAGTT
1 ATTCGACCATATCACACAGACTAATTTCAGTT
59874926 A
1 A
59874927 ACATAATAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (32 bp):
ATTCGACCATATCACACAGACTAATTTCAGTT
Found at i:59875898 original size:43 final size:43
Alignment explanation
Indices: 59875839--59875940 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 43
59875829 TCCCAGACCT
*
59875839 GGTCTTACA--TATAATCAAATATCGATCCCACTGTCCCAAACAG
1 GGTCTTACACGTA-AATCAAATA-CGATCCCAATGTCCCAAACAG
* * * * *
59875882 GGTTTTACACG-AAATCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAAATCAAATACGATCCCAATGTCCCAAACAG
59875924 GGTCTTACACGTAAATC
1 GGTCTTACACGTAAATC
59875941 TCAAATCGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
42 27 0.55
43 21 0.43
44 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAAATACGATCCCAATGTCCCAAACAG
Found at i:59875932 original size:42 final size:43
Alignment explanation
Indices: 59875820--59875982 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
59875810 AGGTCGTACA
* * *
59875820 ATGCCAACGTCCCAGACCTGGTCTTACA-TATAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGA-AATCATATATCG
* * * *
59875863 AT-CCCACTGTCCCAAACAGGGTTTTACACGAAATCATATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCATATATCG
* *
59875905 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC-TCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCAT-ATATCG
* * * *
59875949 ATGCCAACATCCCAGACGTGGCCTTACATGAAAT
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAAT
59875983 TACATCTCTG
Statistics
Matches: 96, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
42 28 0.29
43 40 0.42
44 28 0.29
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCATATATCG
Found at i:59895584 original size:24 final size:24
Alignment explanation
Indices: 59895546--59895619 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
59895536 CGTATGTTGA
* *
59895546 CATTCAAATCAGCACACATAGTGC
1 CATTCAACTCCGCACACATAGTGC
*
59895570 TATTCAACTCCGCACACATAGTGC
1 CATTCAACTCCGCACACATAGTGC
* * *
59895594 CATACTACACCGCACACATAGTGC
1 CATTCAACTCCGCACACATAGTGC
59895618 CA
1 CA
59895620 ATGTACACTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.20
Consensus pattern (24 bp):
CATTCAACTCCGCACACATAGTGC
Found at i:59903093 original size:24 final size:24
Alignment explanation
Indices: 59903066--59903112 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
59903056 ATATGTTGAC
59903066 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
59903090 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
59903113 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:59903146 original size:24 final size:24
Alignment explanation
Indices: 59903076--59903138 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
59903066 ATTCAAATCA
* * * *
59903076 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
59903100 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
59903124 GCACACATAGTGCCA
1 GCACACATAGTGCCA
59903139 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:59910988 original size:6 final size:6
Alignment explanation
Indices: 59910977--59911009 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
59910967 ATGTATTGTA
*
59910977 TTATTT TTATTT TTATTT TTATTA TTATTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTA
59911010 GAACAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:59923947 original size:27 final size:27
Alignment explanation
Indices: 59923917--59924056 Score: 148
Period size: 27 Copynumber: 5.2 Consensus size: 27
59923907 GTGACGAAGT
**
59923917 CACCAGATAAAGATAT-TGTGGTGGAGC
1 CACCAGAT-AAGATATATGTGGCAGAGC
59923944 CACCAGA-ATAGATATATGTGGCAGAGC
1 CACCAGATA-AGATATATGTGGCAGAGC
*
59923971 CACCAGAT-AGATA-ATCGTGGCATAGC
1 CACCAGATAAGATATAT-GTGGCAGAGC
59923997 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATA-AGATATATGTGGCAGAGC
* *
59924024 CACCAGATCAGATA-ATTATGGCAGAGC
1 CACCAGATAAGATATA-TGTGGCAGAGC
59924051 CACCAG
1 CACCAG
59924057 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
25 3 0.03
26 28 0.29
27 65 0.66
28 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
CACCAGATAAGATATATGTGGCAGAGC
Found at i:59923998 original size:53 final size:54
Alignment explanation
Indices: 59923940--59924056 Score: 191
Period size: 53 Copynumber: 2.2 Consensus size: 54
59923930 TATTGTGGTG
* *
59923940 GAGCCACCAGAATAGATATATGTGGCAGAGCCACCAGAT-AGATAATCGTGGCA
1 GAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCA
* *
59923993 TAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTATGGCA
1 GAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCA
59924047 GAGCCACCAG
1 GAGCCACCAG
59924057 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
53 37 0.64
54 21 0.36
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (54 bp):
GAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCA
Found at i:59925709 original size:26 final size:26
Alignment explanation
Indices: 59925678--59925811 Score: 259
Period size: 26 Copynumber: 5.2 Consensus size: 26
59925668 TGAAATGCCC
*
59925678 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
59925704 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
59925730 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
59925756 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
59925782 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
59925808 ATCA
1 ATCA
59925812 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:59930078 original size:5 final size:5
Alignment explanation
Indices: 59930058--59930092 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
59930048 AATAATCATA
59930058 AAAAT AAAACT AAAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT AAA
59930093 TAGACTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 22 0.79
6 2 0.07
7 4 0.14
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:59931816 original size:21 final size:21
Alignment explanation
Indices: 59931757--59931817 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
59931747 ATACACTAAG
*
59931757 AATAATAA-ATAATAAAGCAAT
1 AATAATAATATAATAAA-TAAT
*
59931778 AA-AATATTATAACT-AATAAT
1 AATAATAATATAA-TAAATAAT
59931798 AATAATAATATAATAAATAA
1 AATAATAATATAATAAATAA
59931818 ATAAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
20 10 0.30
21 22 0.67
22 1 0.03
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (21 bp):
AATAATAATATAATAAATAAT
Found at i:59935729 original size:14 final size:14
Alignment explanation
Indices: 59935712--59935738 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59935702 AAAAACAAAC
59935712 AAAACAAAAATTAG
1 AAAACAAAAATTAG
59935726 AAAACAAAAATTA
1 AAAACAAAAATTA
59935739 AACTAAAAAA
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:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (14 bp):
AAAACAAAAATTAG
Found at i:59940509 original size:13 final size:12
Alignment explanation
Indices: 59940491--59940549 Score: 57
Period size: 13 Copynumber: 4.7 Consensus size: 12
59940481 CATAAAATAA
59940491 AAAAATATTTCTT
1 AAAAATATTT-TT
59940504 AAAAATAATTTTT
1 AAAAAT-ATTTTT
*
59940517 AAAAACACTTTTT
1 AAAAATA-TTTTT
59940530 AAAAACT-TTTTT
1 AAAAA-TATTTTT
*
59940542 AGAAATAT
1 AAAAATAT
59940550 CGCTAAGCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 1 0.03
12 11 0.28
13 23 0.59
14 4 0.10
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (12 bp):
AAAAATATTTTT
Found at i:59944985 original size:23 final size:23
Alignment explanation
Indices: 59944958--59945008 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
59944948 TTCGATGCAT
* *
59944958 TAACAAAT-AGGTTTCTCATGTAG
1 TAACAAATAAGG-TTCGCATGTAA
*
59944981 TAACAGATAAGGTTCGCATGTAA
1 TAACAAATAAGGTTCGCATGTAA
59945004 TAACA
1 TAACA
59945009 GTTTGGGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (23 bp):
TAACAAATAAGGTTCGCATGTAA
Found at i:59945045 original size:21 final size:21
Alignment explanation
Indices: 59945016--59945079 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
59945006 ACAGTTTGGG
59945016 GCTCACATGTCATAACCTAGA
1 GCTCACATGTCATAACCTAGA
* * * *
59945037 GCTCGCATGTAATAACATAGGGG
1 GCTCACATGTCATAACCTA--GA
*
59945060 GTTCACATGTCATAACCTAG
1 GCTCACATGTCATAACCTAG
59945080 GGTTCACGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 17 0.52
23 16 0.48
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
GCTCACATGTCATAACCTAGA
Found at i:59945076 original size:44 final size:44
Alignment explanation
Indices: 59944991--59945156 Score: 217
Period size: 44 Copynumber: 3.8 Consensus size: 44
59944981 TAACAGATAA
** *
59944991 GGTTCGCATGTAATAACAGTTTGGGGCTCACATGTCATAACCTAG
1 GGTTCGCATGTAATAACA-TAGGGGGTTCACATGTCATAACCTAG
* *
59945036 AGCTCGCATGTAATAACATAGGGGGTTCACATGTCATAACCTAG
1 GGTTCGCATGTAATAACATAGGGGGTTCACATGTCATAACCTAG
* * *
59945080 GGTTCACGTGTAATAACATAGGGGGTTCGCATGTCATAACCTAG
1 GGTTCGCATGTAATAACATAGGGGGTTCACATGTCATAACCTAG
**
59945124 GGTTCAG-ATGTAATAACATAAAGGGTTCACATG
1 GGTTC-GCATGTAATAACATAGGGGGTTCACATG
59945157 ATTAAACAAA
Statistics
Matches: 105, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
44 89 0.85
45 16 0.15
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
GGTTCGCATGTAATAACATAGGGGGTTCACATGTCATAACCTAG
Found at i:59945084 original size:21 final size:21
Alignment explanation
Indices: 59944964--59945156 Score: 116
Period size: 23 Copynumber: 8.7 Consensus size: 21
59944954 GCATTAACAA
* * *
59944964 ATAGGTTTCTCATGTAGTAAC
1 ATAGGGTTCACATGTAATAAC
* *
59944985 AGATAAGGTTCGCATGTAATAAC
1 --ATAGGGTTCACATGTAATAAC
* * *
59945008 AGTTTGGGGCTCACATGTCATAAC
1 A---TAGGGTTCACATGTAATAAC
* * * *
59945032 CTAGAGCTCGCATGTAATAAC
1 ATAGGGTTCACATGTAATAAC
*
59945053 ATAGGGGGTTCACATGTCATAAC
1 ATA--GGGTTCACATGTAATAAC
* *
59945076 CTAGGGTTCACGTGTAATAAC
1 ATAGGGTTCACATGTAATAAC
* *
59945097 ATAGGGGGTTCGCATGTCATAAC
1 ATA--GGGTTCACATGTAATAAC
* *
59945120 CTAGGGTTCAGATGTAATAAC
1 ATAGGGTTCACATGTAATAAC
59945141 ATAAAGGGTTCACATG
1 AT--AGGGTTCACATG
59945157 ATTAAACAAA
Statistics
Matches: 129, Mismatches: 32, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
21 53 0.41
23 61 0.47
24 15 0.12
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (21 bp):
ATAGGGTTCACATGTAATAAC
Found at i:59945164 original size:23 final size:23
Alignment explanation
Indices: 59945138--59945201 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
59945128 CAGATGTAAT
* *
59945138 AACATAAAGGGTTCACATGATTA
1 AACATAAAGGGTTCACATAAATA
*
59945161 AACA-AATAGGGTTCGCATAAATA
1 AACATAA-AGGGTTCACATAAATA
*
59945184 TAC-TAAA-GGTTCACATAA
1 AACATAAAGGGTTCACATAA
59945202 TGAATCCTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 10 0.29
22 3 0.09
23 21 0.62
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (23 bp):
AACATAAAGGGTTCACATAAATA
Found at i:59958279 original size:22 final size:22
Alignment explanation
Indices: 59958226--59958288 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
59958216 TCAAATTGAT
*
59958226 CACACGGGCATGTTGCCCCTTC
1 CACACGGGCGTGTTGCCCCTTC
**
59958248 CACACGGGCGTGTTGCCTTTTC
1 CACACGGGCGTGTTGCCCCTTC
*
59958270 CACACGGGCGT-ATGCCCCT
1 CACACGGGCGTGTTGCCCCT
59958289 GTGTCAAGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 5 0.14
22 30 0.86
ACGTcount: A:0.13, C:0.38, G:0.25, T:0.24
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTTC
Found at i:59961363 original size:82 final size:82
Alignment explanation
Indices: 59961226--59961388 Score: 299
Period size: 82 Copynumber: 2.0 Consensus size: 82
59961216 TCTGCTTGGG
*
59961226 ACAGCAACAGTAACGTGATTTTGGAAAATCACCATAAATTGTGGGAGATGAATTAGAAGCTGAAT
1 ACAGCAACAGTAACGTGACTTTGGAAAATCACCATAAATTGTGGGAGATGAATTAGAAGCTGAAT
59961291 AAATTATGTAATTAAAA
66 AAATTATGTAATTAAAA
* *
59961308 ACAGCAGCAGTAATGTGACTTTGGAAAATCACCATAAATTGTGGGAGATGAATTAGAAGCTGAAT
1 ACAGCAACAGTAACGTGACTTTGGAAAATCACCATAAATTGTGGGAGATGAATTAGAAGCTGAAT
59961373 AAATTATGTAATTAAA
66 AAATTATGTAATTAAA
59961389 GCCTATTGAG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (82 bp):
ACAGCAACAGTAACGTGACTTTGGAAAATCACCATAAATTGTGGGAGATGAATTAGAAGCTGAAT
AAATTATGTAATTAAAA
Found at i:59962385 original size:27 final size:27
Alignment explanation
Indices: 59962343--59962429 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
59962333 AGGAAGCGTC
*
59962343 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
59962370 CTGGTGGCTCTACCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
59962397 CTGGTGGCTCTGCCATAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
59962424 CTGGTG
1 CTGGTG
59962430 ACTTCGTCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
26 8 0.16
27 42 0.82
28 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:59962443 original size:27 final size:26
Alignment explanation
Indices: 59962343--59962447 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 26
59962333 AGGAAGCGTC
* * *
59962343 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
* *
59962370 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
* *
59962397 CTGGTGGCTCTGCCATAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
59962424 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
59962448 GCAGCCTCGC
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 9 0.13
27 57 0.85
28 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:59969415 original size:32 final size:27
Alignment explanation
Indices: 59969333--59969419 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
59969323 AGGAAGCATC
*
59969333 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
* *
59969360 CTGGTGGGTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
59969387 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
59969414 CTGGTG
1 CTGGTG
59969420 ACTTCGTCAC
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
26 7 0.13
27 45 0.85
28 1 0.02
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:59969430 original size:27 final size:26
Alignment explanation
Indices: 59969333--59969437 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 26
59969323 AGGAAGCATC
* * *
59969333 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
**
59969360 CTGGTGGGTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
59969387 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
59969414 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
59969438 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.13
27 59 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:59973361 original size:6 final size:6
Alignment explanation
Indices: 59973352--59973402 Score: 66
Period size: 6 Copynumber: 8.0 Consensus size: 6
59973342 ATAGTTATAG
*
59973352 TTTTAT TTTTAT CTTTAT TTTTAT TTTTAT TTTTAGTT GTTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA--T -TTTTAT TTTTAT
59973403 GTTCTTAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
6 33 0.82
7 1 0.03
8 1 0.03
9 5 0.12
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:59973373 original size:42 final size:39
Alignment explanation
Indices: 59973321--59973402 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 39
59973311 TGAGTTTATT
* *
59973321 TCTTTTTTTTTCTTTTTAGTTATAGTTATAGTTTTATTTTTA
1 TCTTTATTTTTATTTTTAGTTATAG-T-T-GTTTTATTTTTA
* *
59973363 TCTTTATTTTTATTTTTATTTTTAGTTGTTTTATTTTTA
1 TCTTTATTTTTATTTTTAGTTATAGTTGTTTTATTTTTA
59973402 T
1 T
59973403 GTTCTTAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 13 0.36
40 1 0.03
41 1 0.03
42 21 0.58
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (39 bp):
TCTTTATTTTTATTTTTAGTTATAGTTGTTTTATTTTTA
Found at i:59981382 original size:6 final size:6
Alignment explanation
Indices: 59981355--59981411 Score: 69
Period size: 6 Copynumber: 9.0 Consensus size: 6
59981345 GTTTAAGAAC
*
59981355 ATAAAA ATTAAATA ACTAAAA ATAAAA ATAAAG ATAAAA ATAAAA ATAAAA
1 ATAAAA A-TAAA-A A-TAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
*
59981406 CTAAAA
1 ATAAAA
59981412 TGAAAAGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
6 33 0.73
7 6 0.13
8 6 0.13
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:59982305 original size:23 final size:23
Alignment explanation
Indices: 59982273--59982316 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
59982263 TAGTGCCCGG
59982273 CTTGTCATGGGTCGACATCACGT
1 CTTGTCATGGGTCGACATCACGT
*
59982296 CTTGTTATGGGTCGACATCAC
1 CTTGTCATGGGTCGACATCAC
59982317 TTGCTGTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (23 bp):
CTTGTCATGGGTCGACATCACGT
Found at i:59983174 original size:5 final size:5
Alignment explanation
Indices: 59983164--59983238 Score: 55
Period size: 5 Copynumber: 14.2 Consensus size: 5
59983154 AAAATACAGG
* * *
59983164 AATAA AATAA AATAA ATTAA TATAACA AATAA GCATAA TAA-ATA AAT-A
1 AATAA AATAA AATAA AATAA AAT-A-A AATAA -AATAA -AATA-A AATAA
59983212 AATAA AGATAA AATAA AATAA AATAA A
1 AATAA A-ATAA AATAA AATAA AATAA A
59983239 GAAAGAAAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
4 4 0.07
5 36 0.64
6 13 0.23
7 3 0.05
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:59983222 original size:21 final size:21
Alignment explanation
Indices: 59983168--59983240 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 21
59983158 TACAGGAATA
* *
59983168 AAATAAA-ATAAATTAATATAAC
1 AAATAAAGAT-AATAAATA-AAT
59983190 AAAT-AAGCATAATAAATAAAT
1 AAATAAAG-ATAATAAATAAAT
59983211 AAATAAAGAT-A-AAATAAAAT
1 AAATAAAGATAATAAAT-AAAT
59983231 AAAATAAAGA
1 -AAATAAAGA
59983241 AAGAAAAGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
19 4 0.09
20 5 0.11
21 19 0.43
22 14 0.32
23 2 0.05
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (21 bp):
AAATAAAGATAATAAATAAAT
Found at i:59988853 original size:59 final size:59
Alignment explanation
Indices: 59988762--59988879 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 59
59988752 ACATCGAAGT
*
59988762 AACTCCTAATTTATTAAATGAAACAATATAAAAATAATTTGCACAAACATATTCAAAAA
1 AACTCCTAATTTATTAAATGAAACAATATAAAAATAATTTGCACAAAAATATTCAAAAA
* * * * * *
59988821 AACTTCTATTTTATTAGATGAAGCAATTTAAAAATAATTTGTACAAAAATATTCAAAAA
1 AACTCCTAATTTATTAAATGAAACAATATAAAAATAATTTGCACAAAAATATTCAAAAA
59988880 TAAATCAATG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (59 bp):
AACTCCTAATTTATTAAATGAAACAATATAAAAATAATTTGCACAAAAATATTCAAAAA
Found at i:59993824 original size:221 final size:221
Alignment explanation
Indices: 59993441--59993883 Score: 877
Period size: 221 Copynumber: 2.0 Consensus size: 221
59993431 TAACCCCAAT
59993441 TGTAACTGCACGTCCTCCAAAGTGATGGTACACTTCCCAAATGGAAGATGGAATGTGCGCATCTT
1 TGTAACTGCACGTCCTCCAAAGTGATGGTACACTTCCCAAATGGAAGATGGAATGTGCGCATCTT
59993506 GGGTCTTCACCTCTCCACAAACGCGTTGATGAGTTTCAGGTCCAACTTACACCACCGGCTACATT
66 GGGTCTTCACCTCTCCACAAACGCGTTGATGAGTTTCAGGTCCAACTTACACCACCGGCTACATT
59993571 GGCCATGTGCCAAAAACCCACTTCCCCTCAAGTGATTTTCAATCAACAGTGATGGATGATTAGGT
131 GGCCATGTGCCAAAAACCCACTTCCCCTCAAGTGATTTTCAATCAACAGTGATGGATGATTAGGT
59993636 ATATTACGAATAAAACATTGTAACAC
196 ATATTACGAATAAAACATTGTAACAC
*
59993662 TGTAACTGCCCGTCCTCCAAAGTGATGGTACACTTCCCAAATGGAAGATGGAATGTGCGCATCTT
1 TGTAACTGCACGTCCTCCAAAGTGATGGTACACTTCCCAAATGGAAGATGGAATGTGCGCATCTT
59993727 GGGTCTTCACCTCTCCACAAACGCGTTGATGAGTTTCAGGTCCAACTTACACCACCGGCTACATT
66 GGGTCTTCACCTCTCCACAAACGCGTTGATGAGTTTCAGGTCCAACTTACACCACCGGCTACATT
59993792 GGCCATGTGCCAAAAACCCACTTCCCCTCAAGTGATTTTCAATCAACAGTGATGGATGATTAGGT
131 GGCCATGTGCCAAAAACCCACTTCCCCTCAAGTGATTTTCAATCAACAGTGATGGATGATTAGGT
59993857 ATATTACGAATAAAACATTGTAACAC
196 ATATTACGAATAAAACATTGTAACAC
59993883 T
1 T
59993884 CGCTCTACCA
Statistics
Matches: 221, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
221 221 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (221 bp):
TGTAACTGCACGTCCTCCAAAGTGATGGTACACTTCCCAAATGGAAGATGGAATGTGCGCATCTT
GGGTCTTCACCTCTCCACAAACGCGTTGATGAGTTTCAGGTCCAACTTACACCACCGGCTACATT
GGCCATGTGCCAAAAACCCACTTCCCCTCAAGTGATTTTCAATCAACAGTGATGGATGATTAGGT
ATATTACGAATAAAACATTGTAACAC
Found at i:59997544 original size:15 final size:15
Alignment explanation
Indices: 59997524--59997555 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
59997514 AACTGAGTAC
59997524 TTAATCCTTGTACAT
1 TTAATCCTTGTACAT
59997539 TTAATCCTTGTACAT
1 TTAATCCTTGTACAT
59997554 TT
1 TT
59997556 TATTAATAAA
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:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (15 bp):
TTAATCCTTGTACAT
Found at i:60011681 original size:40 final size:40
Alignment explanation
Indices: 60011607--60011826 Score: 282
Period size: 40 Copynumber: 5.5 Consensus size: 40
60011597 AAGTATCTTT
* ** *
60011607 GGGATTTAG-CCGGATATAGAAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
* **
60011646 GGGTCTTAGCCCGGATATAGTCACTAGCATGAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
60011686 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
* * *
60011726 AGGACTTAGCCCGGGTATAG-CAACTACTCACACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGCCTTC
* *
60011769 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
60011809 GGGACTTAGCCCGGATAT
1 GGGACTTAGCCCGGATAT
60011827 CATCCGAATA
Statistics
Matches: 157, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 8 0.05
40 115 0.73
43 34 0.22
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
Found at i:60011788 original size:83 final size:80
Alignment explanation
Indices: 60011607--60011826 Score: 291
Period size: 83 Copynumber: 2.7 Consensus size: 80
60011597 AAGTATCTTT
* * * *
60011607 GGGATTTAG-CCGGATATAGAAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACT
1 GGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACT
* **
60011671 AGCATGAATGCCTTC
66 AACACAAATGCCTTC
* * *
60011686 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGGGTATAG-CAAC
1 GGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC-AC
60011750 TACTCACACAAATGCCTTC
65 TA---ACACAAATGCCTTC
*
60011769 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 GGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
60011827 CATCCGAATA
Statistics
Matches: 122, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 9 0.07
80 48 0.39
83 65 0.53
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (80 bp):
GGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACT
AACACAAATGCCTTC
Found at i:60013174 original size:22 final size:23
Alignment explanation
Indices: 60013142--60013187 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
60013132 ATCACCCCTC
60013142 CCTTTTCATTTCT-TTATTACTAA
1 CCTTTTCATTT-TATTATTACTAA
*
60013165 CCTTTT-ATTTTATTATTTCTAA
1 CCTTTTCATTTTATTATTACTAA
60013187 C
1 C
60013188 ATAAGACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 14 0.67
23 6 0.29
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.59
Consensus pattern (23 bp):
CCTTTTCATTTTATTATTACTAA
Found at i:60014938 original size:21 final size:21
Alignment explanation
Indices: 60014914--60014953 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
60014904 CCAGTCTCAT
60014914 GCAT-CAGATAATAATAACATG
1 GCATGCAGA-AATAATAACATG
*
60014935 GCATGCAGAAATAGTAACA
1 GCATGCAGAAATAATAACA
60014954 GTCAAACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (21 bp):
GCATGCAGAAATAATAACATG
Found at i:60015035 original size:65 final size:64
Alignment explanation
Indices: 60014916--60015045 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 64
60014906 AGTCTCATGC
60014916 ATCAGATAATAATAACATGGCATGCAGAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
*
60014980 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAATAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAG-AAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
60015045 A
1 A
60015046 ACCCTAGGGG
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 27 0.42
65 37 0.58
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (64 bp):
ATCAGATAATAATAACATGGCATGCAGAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
Found at i:60015104 original size:27 final size:26
Alignment explanation
Indices: 60015048--60015104 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
60015038 CAACCTTAAC
* * *
60015048 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
60015074 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
60015101 CCTA
1 CCTA
60015105 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:60018281 original size:13 final size:13
Alignment explanation
Indices: 60018263--60018288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60018253 CTCGATAGGT
60018263 ACACGCCCGTGTG
1 ACACGCCCGTGTG
60018276 ACACGCCCGTGTG
1 ACACGCCCGTGTG
60018289 CAAATGCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGCCCGTGTG
Found at i:60028206 original size:12 final size:12
Alignment explanation
Indices: 60028189--60028213 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60028179 GTGTGTCTCC
60028189 TACACCTTAATT
1 TACACCTTAATT
60028201 TACACCTTAATT
1 TACACCTTAATT
60028213 T
1 T
60028214 TGATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (12 bp):
TACACCTTAATT
Found at i:60030167 original size:39 final size:38
Alignment explanation
Indices: 60030100--60030189 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
60030090 GTCTAACCCA
60030100 ACACACCAAGTGGGGATAAAATCAACCCACCCAGCCCT
1 ACACACCAAGTGGGGATAAAATCAACCCACCCAGCCCT
* * *
60030138 ACACACCAAGATGGGGATAATATCGACCCATCCAGCCCT
1 ACACACCAAG-TGGGGATAAAATCAACCCACCCAGCCCT
60030177 ACACACCAAGTGG
1 ACACACCAAGTGG
60030190 TATTGTAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
38 13 0.27
39 35 0.73
ACGTcount: A:0.36, C:0.34, G:0.18, T:0.12
Consensus pattern (38 bp):
ACACACCAAGTGGGGATAAAATCAACCCACCCAGCCCT
Found at i:60038168 original size:23 final size:22
Alignment explanation
Indices: 60038128--60038209 Score: 119
Period size: 23 Copynumber: 3.6 Consensus size: 22
60038118 TAGCTCGTAT
*
60038128 GAGCCTACTGTTCAGCTCAATA
1 GAGCTTACTGTTCAGCTCAATA
*
60038150 GAGCTGACTGATTCAGCTCAATA
1 GAGCTTACTG-TTCAGCTCAATA
*
60038173 GAACTTACTGATTCAGCTCAATA
1 GAGCTTACTG-TTCAGCTCAATA
60038196 GAGCTTACTGTTCA
1 GAGCTTACTGTTCA
60038210 TCAACTCAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 12 0.22
23 42 0.78
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAATA
Found at i:60047375 original size:31 final size:31
Alignment explanation
Indices: 60047339--60047415 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
60047329 TTTGGAGAGT
* *
60047339 CACATGCCTGTGTGGGTAAGCCTTGTGGTCA
1 CACATGCCTGTGTGGGTAAGCCATGTGATCA
*
60047370 CACATGCCCT-TGTGGGTAGGCCATGTGATCA
1 CACATG-CCTGTGTGGGTAAGCCATGTGATCA
*
60047401 CACATGCCCGTGTGG
1 CACATGCCTGTGTGG
60047416 CTTGGGACAC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 2 0.05
31 35 0.88
32 3 0.08
ACGTcount: A:0.17, C:0.26, G:0.31, T:0.26
Consensus pattern (31 bp):
CACATGCCTGTGTGGGTAAGCCATGTGATCA
Found at i:60061658 original size:13 final size:13
Alignment explanation
Indices: 60061642--60061669 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
60061632 TTTTCTTTGA
60061642 GTAATTACTTTTC
1 GTAATTACTTTTC
60061655 GTAATTACTTTTC
1 GTAATTACTTTTC
60061668 GT
1 GT
60061670 TTTGAGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.11, T:0.54
Consensus pattern (13 bp):
GTAATTACTTTTC
Found at i:60063321 original size:6 final size:6
Alignment explanation
Indices: 60063310--60063348 Score: 69
Period size: 6 Copynumber: 6.3 Consensus size: 6
60063300 AACTATTTTA
60063310 GTATGG GTATGG GTATGG GTATGG GTATGG GTATTGG GT
1 GTATGG GTATGG GTATGG GTATGG GTATGG GTA-TGG GT
60063349 TTAAGGTGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.15, C:0.00, G:0.49, T:0.36
Consensus pattern (6 bp):
GTATGG
Found at i:60065125 original size:2 final size:2
Alignment explanation
Indices: 60065120--60065146 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
60065110 ATATATATAT
60065120 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
60065147 AGAAGAACCC
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:60069451 original size:11 final size:11
Alignment explanation
Indices: 60069435--60069466 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
60069425 ATTCATTCTC
60069435 TTTTCTTTTTT
1 TTTTCTTTTTT
60069446 TTTTC-TTTTT
1 TTTTCTTTTTT
60069456 TTTTCTTTTTT
1 TTTTCTTTTTT
60069467 GGTTTTTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:60070591 original size:26 final size:26
Alignment explanation
Indices: 60070554--60070606 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
60070544 TAAATATATA
*
60070554 TATATAATGAGAAAATAACATTTATT
1 TATATAAAGAGAAAATAACATTTATT
*
60070580 TATATAAAGAGAAAATAATATTTATT
1 TATATAAAGAGAAAATAACATTTATT
60070606 T
1 T
60070607 TTCTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (26 bp):
TATATAAAGAGAAAATAACATTTATT
Found at i:60075664 original size:20 final size:20
Alignment explanation
Indices: 60075639--60075678 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
60075629 TTCAAAGTCT
60075639 GAATCTGAACATGAGCAACA
1 GAATCTGAACATGAGCAACA
60075659 GAATCTGAACATGAGCAACA
1 GAATCTGAACATGAGCAACA
60075679 TCTTCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (20 bp):
GAATCTGAACATGAGCAACA
Found at i:60079308 original size:18 final size:18
Alignment explanation
Indices: 60079285--60079351 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
60079275 TAAACTACTG
60079285 TACTGAATAATTGATAGT
1 TACTGAATAATTGATAGT
** *
60079303 TACTGAATAACTAAATTACT
1 TACTGAATAA-TTGA-TAGT
*
60079323 GTATTGAATAATTGATAGT
1 -TACTGAATAATTGATAGT
*
60079342 TATTGAATAA
1 TACTGAATAA
60079352 CTAAACTACT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 20 0.51
19 5 0.13
20 5 0.13
21 9 0.23
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (18 bp):
TACTGAATAATTGATAGT
Found at i:60079323 original size:39 final size:39
Alignment explanation
Indices: 60079275--60079421 Score: 213
Period size: 39 Copynumber: 3.8 Consensus size: 39
60079265 TTAATAGGGG
*
60079275 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
1 TAAACTACTGTATTGAATAATTGATAGTTACTGAATAAC
* *
60079314 TAAATTACTGTATTGAATAATTGATAGTTATTGAATAAC
1 TAAACTACTGTATTGAATAATTGATAGTTACTGAATAAC
* * *
60079353 TAAACTACTGCAATGAATATTTGATAGTTACTGAATAAC
1 TAAACTACTGTATTGAATAATTGATAGTTACTGAATAAC
* * *
60079392 TAAATTACTGTATTGAATAACTGATTGTTA
1 TAAACTACTGTATTGAATAATTGATAGTTA
60079422 TTGATTAAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (39 bp):
TAAACTACTGTATTGAATAATTGATAGTTACTGAATAAC
Found at i:60079401 original size:78 final size:78
Alignment explanation
Indices: 60079275--60079425 Score: 257
Period size: 78 Copynumber: 1.9 Consensus size: 78
60079265 TTAATAGGGG
* * *
60079275 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTATTGAATAATTGATA
1 TAAACTACTGCAATGAATAATTGATAGTTACTGAATAACTAAATTACTGTATTGAATAACTGATA
60079340 GTTATTGAATAAC
66 GTTATTGAATAAC
* *
60079353 TAAACTACTGCAATGAATATTTGATAGTTACTGAATAACTAAATTACTGTATTGAATAACTGATT
1 TAAACTACTGCAATGAATAATTGATAGTTACTGAATAACTAAATTACTGTATTGAATAACTGATA
60079418 GTTATTGA
66 GTTATTGA
60079426 TTAAATATGA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (78 bp):
TAAACTACTGCAATGAATAATTGATAGTTACTGAATAACTAAATTACTGTATTGAATAACTGATA
GTTATTGAATAAC
Found at i:60090015 original size:4 final size:4
Alignment explanation
Indices: 60090006--60090057 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
60089996 ATATTACAAA
60090006 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
60090054 TATG
1 TATG
60090058 AGTGTGTGTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:60092996 original size:15 final size:16
Alignment explanation
Indices: 60092971--60093004 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
60092961 ACGAGAATAA
60092971 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
60092987 TATT-TTTAAAATTAT
1 TATTATTTAAAATTAT
60093002 TAT
1 TAT
60093005 ATTAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:60093014 original size:15 final size:13
Alignment explanation
Indices: 60092971--60093014 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 13
60092961 ACGAGAATAA
60092971 TATTATTTAAAAT
1 TATTATTTAAAAT
60092984 TATTATTTTTAAAAT
1 TATTA--TTTAAAAT
60092999 TATTATATTAATAAT
1 TATTAT-TTAA-AAT
60093014 T
1 T
60093015 TATGAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 6 0.22
14 4 0.15
15 17 0.63
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:60097744 original size:33 final size:34
Alignment explanation
Indices: 60097661--60097812 Score: 141
Period size: 33 Copynumber: 4.5 Consensus size: 34
60097651 TATTATAATT
* *
60097661 ATCTATTATAATGCATGTTAATTGCTACTGTATCG
1 ATCTATTATAA-GCATGTTAATTGCTACCGTATTG
* *
60097696 A-CTTGTTATAAGCATGTTTATTGCT-CCGTATTG
1 ATC-TATTATAAGCATGTTAATTGCTACCGTATTG
* * ** *
60097729 ATCTATTATAGGCATGATAATTGCTACTATATCG
1 ATCTATTATAAGCATGTTAATTGCTACCGTATTG
*
60097763 A-CTTATTATAAGCATATT-ATTGCTACCGTATTG
1 ATC-TATTATAAGCATGTTAATTGCTACCGTATTG
* *
60097796 ATTTGTTATAAGCATGT
1 ATCTATTATAAGCATGT
60097813 CATATTGCAT
Statistics
Matches: 92, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
33 51 0.55
34 33 0.36
35 8 0.09
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (34 bp):
ATCTATTATAAGCATGTTAATTGCTACCGTATTG
Found at i:60097744 original size:67 final size:67
Alignment explanation
Indices: 60097661--60097812 Score: 216
Period size: 67 Copynumber: 2.3 Consensus size: 67
60097651 TATTATAATT
* * *
60097661 ATCTATTATAATGCATGTTAATTGCTACTGTATCGACTTGTTATAAGCATGTTTATTGCT-CCGT
1 ATCTATTATAA-GCATGTTAATTGCTACTATATCGACTTATTATAAGCAT-ATTATTGCTACCGT
60097725 ATTG
64 ATTG
* *
60097729 ATCTATTATAGGCATGATAATTGCTACTATATCGACTTATTATAAGCATATTATTGCTACCGTAT
1 ATCTATTATAAGCATGTTAATTGCTACTATATCGACTTATTATAAGCATATTATTGCTACCGTAT
60097794 TG
66 TG
* *
60097796 ATTTGTTATAAGCATGT
1 ATCTATTATAAGCATGT
60097813 CATATTGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
66 8 0.11
67 56 0.76
68 10 0.14
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (67 bp):
ATCTATTATAAGCATGTTAATTGCTACTATATCGACTTATTATAAGCATATTATTGCTACCGTAT
TG
Found at i:60101651 original size:34 final size:34
Alignment explanation
Indices: 60101541--60101720 Score: 139
Period size: 35 Copynumber: 5.3 Consensus size: 34
60101531 AAATACGTGT
* * *
60101541 TAAGCAAGTTTATTGCTACTGTAATGATCTGTTA
1 TAAGCATGTTTATTGCTACTGTATTGATCTATTA
* * * ** * *
60101575 TAAAACATGTTAATTGCTACTATATCAACCCTGTTA
1 T-AAGCATGTTTATTGCTACTGTATTGA-TCTATTA
**
60101611 TAAGCATGTTTATTGCTACCATATTGATCTATTA
1 TAAGCATGTTTATTGCTACTGTATTGATCTATTA
* * * * * *
60101645 TAAGCATGATAATTACTATTGCATCGA-CTTATTA
1 TAAGCATGTTTATTGCTACTGTATTGATC-TATTA
* *
60101679 TAAGGATG-TTATTGCTTCTGTATTGATCTATTA
1 TAAGCATGTTTATTGCTACTGTATTGATCTATTA
60101712 TAAGCATGT
1 TAAGCATGT
60101721 CATGTTGCAT
Statistics
Matches: 110, Mismatches: 31, Indels: 10
0.73 0.21 0.07
Matches are distributed among these distances:
33 25 0.23
34 38 0.35
35 40 0.36
36 7 0.06
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (34 bp):
TAAGCATGTTTATTGCTACTGTATTGATCTATTA
Found at i:60101715 original size:33 final size:34
Alignment explanation
Indices: 60101608--60101719 Score: 104
Period size: 34 Copynumber: 3.3 Consensus size: 34
60101598 ATCAACCCTG
* * **
60101608 TTATAAGCATGTTTATTGCTACCATATTGATCTA
1 TTATAAGCATGATTATTGCTTCTGTATTGATCTA
* * * *
60101642 TTATAAGCATGATAATTACTAT-TGCATCGA-CTTA
1 TTATAAGCATGATTATTGCT-TCTGTATTGATC-TA
*
60101676 TTATAAGGATG-TTATTGCTTCTGTATTGATCTA
1 TTATAAGCATGATTATTGCTTCTGTATTGATCTA
60101709 TTATAAGCATG
1 TTATAAGCATG
60101720 TCATGTTGCA
Statistics
Matches: 60, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
32 1 0.02
33 25 0.42
34 34 0.57
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.43
Consensus pattern (34 bp):
TTATAAGCATGATTATTGCTTCTGTATTGATCTA
Found at i:60104925 original size:15 final size:16
Alignment explanation
Indices: 60104905--60104940 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
60104895 AATTATTTAA
60104905 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
60104920 AAATTATAAAAATAAT
1 AAATTATAAAAATAAT
60104936 AAATT
1 AAATT
60104941 GATATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:60115016 original size:28 final size:28
Alignment explanation
Indices: 60114974--60115089 Score: 126
Period size: 28 Copynumber: 4.2 Consensus size: 28
60114964 AATGCAGTTG
* *
60114974 CATACTCGATGTCTCGCACACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
*
60115002 CATACTCAATATCTCGCACACTAAGTTC
1 CATACTCAATATCTCGCACACTAAGTGC
* * * *
60115030 CATTCTCAATGTTTCCCACACTAAGTG-
1 CATACTCAATATCTCGCACACTAAGTGC
* ** *
60115057 CATTCTTGATATCTCGCAAACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
60115085 CATAC
1 CATAC
60115090 ATAGCCGAAG
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 21 0.29
28 51 0.71
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.29
Consensus pattern (28 bp):
CATACTCAATATCTCGCACACTAAGTGC
Found at i:60115172 original size:40 final size:40
Alignment explanation
Indices: 60115070--60115173 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
60115060 TCTTGATATC
* **
60115070 TCGCAAACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATTTAGCCGAAGCTATCTCAAA
* * **
60115110 TCGCACACTAAGTGCCAAATTTAGCCGAAGCTATATTGAA
1 TCGCACACTAAGTGCCATATTTAGCCGAAGCTATCTCAAA
60115150 -CTGCACACTAAGTGCCATATTTAG
1 TC-GCACACTAAGTGCCATATTTAG
60115174 TCGATATGTC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.02
40 54 0.98
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATTTAGCCGAAGCTATCTCAAA
Found at i:60117796 original size:38 final size:37
Alignment explanation
Indices: 60117752--60117829 Score: 93
Period size: 38 Copynumber: 2.1 Consensus size: 37
60117742 AAAGTGTATA
* * * *
60117752 TATATGTGATAAGGCCTAATGGCCAATTATGAGATATG
1 TATATGTGATAAAGCCGAATGGCCAA-CATGAAATATG
* *
60117790 TATATGTGGTAAAGCCGAATGGCTAACATGAAATATG
1 TATATGTGATAAAGCCGAATGGCCAACATGAAATATG
60117827 TAT
1 TAT
60117830 GAGATATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 12 0.35
38 22 0.65
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (37 bp):
TATATGTGATAAAGCCGAATGGCCAACATGAAATATG
Found at i:60117850 original size:48 final size:48
Alignment explanation
Indices: 60117779--60117930 Score: 232
Period size: 48 Copynumber: 3.2 Consensus size: 48
60117769 AATGGCCAAT
**
60117779 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* * *
60117827 TATGAGATATATATATGTGGTAAATCCGAATGCCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* *
60117875 TGTGAGATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
*
60117923 TAGGAGAT
1 TATGAGAT
60117931 GTGTGTATAT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (48 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:60118121 original size:37 final size:37
Alignment explanation
Indices: 60118071--60118143 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
60118061 GGAAATATAT
60118071 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
60118108 TCCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
60118144 TCGAGCTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:60124044 original size:157 final size:157
Alignment explanation
Indices: 60123758--60124071 Score: 628
Period size: 157 Copynumber: 2.0 Consensus size: 157
60123748 AAAACCAAAC
60123758 CTCCTTATTAGATAATAAAAAGACAGTCATTACTAGTACTTTTAGTTCCTTTGGGTTCGAAAACT
1 CTCCTTATTAGATAATAAAAAGACAGTCATTACTAGTACTTTTAGTTCCTTTGGGTTCGAAAACT
60123823 CGGTCTTCCTAAAACTATACTGCTGTTCGATAGGTACGCTTGCCTGCATCGCGATAATAGTTAGT
66 CGGTCTTCCTAAAACTATACTGCTGTTCGATAGGTACGCTTGCCTGCATCGCGATAATAGTTAGT
60123888 TTCAAGAACAATTAATTATAAATATTT
131 TTCAAGAACAATTAATTATAAATATTT
60123915 CTCCTTATTAGATAATAAAAAGACAGTCATTACTAGTACTTTTAGTTCCTTTGGGTTCGAAAACT
1 CTCCTTATTAGATAATAAAAAGACAGTCATTACTAGTACTTTTAGTTCCTTTGGGTTCGAAAACT
60123980 CGGTCTTCCTAAAACTATACTGCTGTTCGATAGGTACGCTTGCCTGCATCGCGATAATAGTTAGT
66 CGGTCTTCCTAAAACTATACTGCTGTTCGATAGGTACGCTTGCCTGCATCGCGATAATAGTTAGT
60124045 TTCAAGAACAATTAATTATAAATATTT
131 TTCAAGAACAATTAATTATAAATATTT
60124072 AAAAACTTAC
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (157 bp):
CTCCTTATTAGATAATAAAAAGACAGTCATTACTAGTACTTTTAGTTCCTTTGGGTTCGAAAACT
CGGTCTTCCTAAAACTATACTGCTGTTCGATAGGTACGCTTGCCTGCATCGCGATAATAGTTAGT
TTCAAGAACAATTAATTATAAATATTT
Found at i:60124573 original size:146 final size:146
Alignment explanation
Indices: 60124309--60124600 Score: 584
Period size: 146 Copynumber: 2.0 Consensus size: 146
60124299 CGATCGCACA
60124309 ATTAGCAGAAACCAAAGAGAAATAAGGCGAAGCTTAAGATACACAGAGAACGAGCAAGAGAACGA
1 ATTAGCAGAAACCAAAGAGAAATAAGGCGAAGCTTAAGATACACAGAGAACGAGCAAGAGAACGA
60124374 TACACAACCCCCAATCAAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGTAATTGCGG
66 TACACAACCCCCAATCAAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGTAATTGCGG
60124439 TTAATCAAAATCCTGC
131 TTAATCAAAATCCTGC
60124455 ATTAGCAGAAACCAAAGAGAAATAAGGCGAAGCTTAAGATACACAGAGAACGAGCAAGAGAACGA
1 ATTAGCAGAAACCAAAGAGAAATAAGGCGAAGCTTAAGATACACAGAGAACGAGCAAGAGAACGA
60124520 TACACAACCCCCAATCAAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGTAATTGCGG
66 TACACAACCCCCAATCAAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGTAATTGCGG
60124585 TTAATCAAAATCCTGC
131 TTAATCAAAATCCTGC
60124601 TCCACGCACT
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 146 1.00
ACGTcount: A:0.43, C:0.23, G:0.19, T:0.15
Consensus pattern (146 bp):
ATTAGCAGAAACCAAAGAGAAATAAGGCGAAGCTTAAGATACACAGAGAACGAGCAAGAGAACGA
TACACAACCCCCAATCAAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGTAATTGCGG
TTAATCAAAATCCTGC
Found at i:60142288 original size:21 final size:20
Alignment explanation
Indices: 60142264--60142302 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
60142254 GAGTATTTTT
*
60142264 ATGTTTGATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
60142285 ATGTTTAATGATAGTTAT
1 ATGTTTAATGATAGTTAT
60142303 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:60157533 original size:13 final size:13
Alignment explanation
Indices: 60157515--60157539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60157505 AAGTAATCGC
60157515 ACACGGGCGTGTT
1 ACACGGGCGTGTT
60157528 ACACGGGCGTGT
1 ACACGGGCGTGT
60157540 CCCTACCTAG
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:60163744 original size:117 final size:117
Alignment explanation
Indices: 60163538--60163770 Score: 457
Period size: 117 Copynumber: 2.0 Consensus size: 117
60163528 TCTCACTAGA
60163538 TTCGAGCAACAGTATTTTCAACAATTTGACAACATTGATGCTACTCTACAGCAGATTTGTCAGCA
1 TTCGAGCAACAGTATTTTCAACAATTTGACAACATTGATGCTACTCTACAGCAGATTTGTCAGCA
*
60163603 CCTCCACATCTCATCACCAGACCCACCTCGCGAATCATCCAGCGATGAAGAG
66 CCTCCACATCTCATCACCAGACCCACCTCGCGAATCATCCAGCGATAAAGAG
60163655 TTCGAGCAACAGTATTTTCAACAATTTGACAACATTGATGCTACTCTACAGCAGATTTGTCAGCA
1 TTCGAGCAACAGTATTTTCAACAATTTGACAACATTGATGCTACTCTACAGCAGATTTGTCAGCA
60163720 CCTCCACATCTCATCACCAGACCCACCTCGCGAATCATCCAGCGATAAAGA
66 CCTCCACATCTCATCACCAGACCCACCTCGCGAATCATCCAGCGATAAAGA
60163771 TGTTTAAAAA
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 115 1.00
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (117 bp):
TTCGAGCAACAGTATTTTCAACAATTTGACAACATTGATGCTACTCTACAGCAGATTTGTCAGCA
CCTCCACATCTCATCACCAGACCCACCTCGCGAATCATCCAGCGATAAAGAG
Found at i:60165806 original size:13 final size:13
Alignment explanation
Indices: 60165788--60165812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60165778 AAGTAATCAC
60165788 ACACGGGCATGTT
1 ACACGGGCATGTT
60165801 ACACGGGCATGT
1 ACACGGGCATGT
60165813 CCCTGCCGAG
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:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (13 bp):
ACACGGGCATGTT
Found at i:60171305 original size:184 final size:184
Alignment explanation
Indices: 60170993--60171360 Score: 709
Period size: 184 Copynumber: 2.0 Consensus size: 184
60170983 AAGGTATAAG
60170993 GTATAATATCTAAAATAGTCTCAAACAATTATTTAACCAAAACATACTCAAGCATAGAGATTAAG
1 GTATAATATCTAAAATAGTCTCAAACAATTATTTAACCAAAACATACTCAAGCATAGAGATTAAG
*
60171058 CCATTTTTGCATGGCCTTTATACATAAACCAAAATACAGCATTCCAAAACGCATTCTAGCCTATA
66 CCATTTTTGCATGGCCTTTATACATAAACCAAAATACAGCATTCCAAAACGCATTCCAGCCTATA
*
60171123 CATGCCATAGTTTCAAAATGTAACTTATAAAATACCGAAGACGGTTGATAGTGT
131 CATGCCATAGTTCCAAAATGTAACTTATAAAATACCGAAGACGGTTGATAGTGT
60171177 GTATAATATCTAAAATAGTCTCAAACAATTATTTAACCAAAACATACTCAAGCATAGAGATTAAG
1 GTATAATATCTAAAATAGTCTCAAACAATTATTTAACCAAAACATACTCAAGCATAGAGATTAAG
*
60171242 CCATTTTTGCATGGCCTTTATACATAAACCAAAATACAGCATTCCAAAATGCATTCCAGCCTATA
66 CCATTTTTGCATGGCCTTTATACATAAACCAAAATACAGCATTCCAAAACGCATTCCAGCCTATA
60171307 CATGCCATAGTTCCAAAATGTAACTTATAAAATACCGAAGACGGTTGATAGTGT
131 CATGCCATAGTTCCAAAATGTAACTTATAAAATACCGAAGACGGTTGATAGTGT
60171361 AATAGAATTT
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 181 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (184 bp):
GTATAATATCTAAAATAGTCTCAAACAATTATTTAACCAAAACATACTCAAGCATAGAGATTAAG
CCATTTTTGCATGGCCTTTATACATAAACCAAAATACAGCATTCCAAAACGCATTCCAGCCTATA
CATGCCATAGTTCCAAAATGTAACTTATAAAATACCGAAGACGGTTGATAGTGT
Found at i:60173923 original size:18 final size:19
Alignment explanation
Indices: 60173902--60173942 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
60173892 AATGAAATGA
60173902 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
60173920 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
60173939 GAAA
1 GAAA
60173943 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:60175920 original size:17 final size:17
Alignment explanation
Indices: 60175898--60175932 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
60175888 GACTCGGATT
60175898 CGTGGTCCCAAAACCAC
1 CGTGGTCCCAAAACCAC
60175915 CGTGGTCCCAAAACCAC
1 CGTGGTCCCAAAACCAC
60175932 C
1 C
60175933 ATTTTGACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.43, G:0.17, T:0.11
Consensus pattern (17 bp):
CGTGGTCCCAAAACCAC
Found at i:60178596 original size:13 final size:13
Alignment explanation
Indices: 60178578--60178602 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60178568 CTGTGTACAC
60178578 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
60178591 GCCCGTGTCCTT
1 GCCCGTGTCCTT
60178603 CACACAGCCA
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:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:60182662 original size:27 final size:27
Alignment explanation
Indices: 60182632--60182809 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
60182622 ATATTGAGTC
* * * *
60182632 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
60182659 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
60182686 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
60182714 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
60182741 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
60182768 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
60182795 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60182810 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:60182771 original size:82 final size:81
Alignment explanation
Indices: 60182653--60182808 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60182643 TGCTATATAA
* *
60182653 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
60182718 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
60182735 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
60182799 CACTTAGTGC
65 CACTTAGTGC
60182809 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:60190425 original size:85 final size:86
Alignment explanation
Indices: 60190302--60190491 Score: 238
Period size: 85 Copynumber: 2.2 Consensus size: 86
60190292 ACTTCATTCC
* * *
60190302 TGATTGAACCAAACTATTTATAGTTACTACCACCTGTTGTGAGTGCACAATATATTAGCAGATTA
1 TGATTGAACCACACTATTTACAGTTACTACCACCTGTTGTGAGTGCACAATACATTAGCAGATTA
*
60190367 AACAAACTACCACTTGGTTCA
66 AACAAACTACCACTCGGTTCA
* * *** *
60190388 TGATTGAACCACA-TATTTACAGTTACTGCCACTTGTTGTGAGTGCATTTTACATTTGCAGATTA
1 TGATTGAACCACACTATTTACAGTTACTACCACCTGTTGTGAGTGCACAATACATTAGCAGATTA
* *** *
60190452 AACAAATTGTTACTCGGTTCG
66 AACAAACTACCACTCGGTTCA
60190473 TGATTGAACCACACTATTT
1 TGATTGAACCACACTATTT
60190492 GTAGATTAAA
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 71 0.81
86 17 0.19
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (86 bp):
TGATTGAACCACACTATTTACAGTTACTACCACCTGTTGTGAGTGCACAATACATTAGCAGATTA
AACAAACTACCACTCGGTTCA
Found at i:60190640 original size:46 final size:46
Alignment explanation
Indices: 60190573--60190674 Score: 170
Period size: 46 Copynumber: 2.2 Consensus size: 46
60190563 TCAATTTAGT
60190573 TATGCTTATAACTATGCTTTTAACAGAACAATACAGTAGCATTAAA
1 TATGCTTATAACTATGCTTTTAACAGAACAATACAGTAGCATTAAA
* * *
60190619 TATGCTTATAACTATGCTTTTAATAGAACAATACGGTAGCATTAAC
1 TATGCTTATAACTATGCTTTTAACAGAACAATACAGTAGCATTAAA
60190665 TATGC-TATAA
1 TATGCTTATAA
60190675 TAATTCAATT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 5 0.09
46 48 0.91
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (46 bp):
TATGCTTATAACTATGCTTTTAACAGAACAATACAGTAGCATTAAA
Found at i:60192157 original size:23 final size:23
Alignment explanation
Indices: 60192131--60192184 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
60192121 ATTTGCATCA
*
60192131 CATATCATATACCAA-AATCAAAC
1 CATATCATA-ACCAATAACCAAAC
*
60192154 CATAATCATAACCAATAACCAAGC
1 CAT-ATCATAACCAATAACCAAAC
60192178 CATATCA
1 CATATCA
60192185 CATGGCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.50, C:0.28, G:0.02, T:0.20
Consensus pattern (23 bp):
CATATCATAACCAATAACCAAAC
Found at i:60192808 original size:42 final size:42
Alignment explanation
Indices: 60192703--60192868 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 42
60192693 CGGAAAACTC
* * * *
60192703 ATACAATGCCAATGTCTCA-AACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGAA-GTGGTCTTACACGAAATCAA
*
60192745 ATATCGATGCCACTGTCCCAGATAG-GGTCTTACACGAAATCAA
1 ATA-CGATGCCAATGTCCCAGA-AGTGGTCTTACACGAAATCAA
* * *
60192788 ATACGATGCCAATGTCCCAGACGTCGTCTTCCACGTAAATCATA
1 ATACGATGCCAATGTCCCAGAAGTGGTCTTACACG-AAATCA-A
**
60192832 AGT-CGATGCCAACATCCCA-AAGTGGTCTTACACGAAA
1 A-TACGATGCCAATGTCCCAGAAGTGGTCTTACACGAAA
60192869 ACACATATCG
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 32 0.31
43 50 0.49
44 18 0.17
45 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGAAGTGGTCTTACACGAAATCAA
Found at i:60193511 original size:327 final size:327
Alignment explanation
Indices: 60192917--60193570 Score: 1299
Period size: 327 Copynumber: 2.0 Consensus size: 327
60192907 AACTATTCCT
60192917 TAAGTTCATACGAGGCTTTTTGGACGTCAGAACTTTGTCGATACTTTCTCGGATGTCTCATTTTT
1 TAAGTTCATACGAGGCTTTTTGGACGTCAGAACTTTGTCGATACTTTCTCGGATGTCTCATTTTT
*
60192982 CTCAACTCATATATTCATTCATCAAAGCTCAATATCATATAATTGATAATAATTCAATTCATAAC
66 CTCAACTCATATATTCATTCATCAAAGCTCAATATCACATAATTGATAATAATTCAATTCATAAC
60193047 ACATTTATTTGTATATAGACTTACCTCGTACGGATTCGGATAAACAGGATAGGCTACTCGACGAC
131 ACATTTATTTGTATATAGACTTACCTCGTACGGATTCGGATAAACAGGATAGGCTACTCGACGAC
60193112 TTTCGACTTTCCATGATCTAATTCTGTTTTCCTTTAGTTCTTGATCCATATAAATTCAAATTTAA
196 TTTCGACTTTCCATGATCTAATTCTGTTTTCCTTTAGTTCTTGATCCATATAAATTCAAATTTAA
60193177 CTTATTCAAACTCACATTCATTCAAAACAATCCAAAAATGCATATTTAGGGCATTTTACAAATTA
261 CTTATTCAAACTCACATTCATTCAAAACAATCCAAAAATGCATATTTAGGGCATTTTACAAATTA
60193242 GC
326 GC
60193244 TAAGTTCATACGAGGCTTTTTGGACGTCAGAACTTTGTCGATACTTTCTCGGATGTCTCATTTTT
1 TAAGTTCATACGAGGCTTTTTGGACGTCAGAACTTTGTCGATACTTTCTCGGATGTCTCATTTTT
60193309 CTCAACTCATATATTCATTCATCAAAGCTCAATATCACATAATTGATAATAATTCAATTCATAAC
66 CTCAACTCATATATTCATTCATCAAAGCTCAATATCACATAATTGATAATAATTCAATTCATAAC
60193374 ACATTTATTTGTATATAGACTTACCTCGTACGGATTCGGATAAACAGGATAGGCTACTCGACGAC
131 ACATTTATTTGTATATAGACTTACCTCGTACGGATTCGGATAAACAGGATAGGCTACTCGACGAC
60193439 TTTCGACTTTCCATGATCTAATTCTGTTTTCCTTTAGTTCTTGATCCATATAAATTCAAATTTAA
196 TTTCGACTTTCCATGATCTAATTCTGTTTTCCTTTAGTTCTTGATCCATATAAATTCAAATTTAA
60193504 CTTATTCAAACTCACATTCATTCAAAACAATCCAAAAATGCATATTTAGGGCATTTTACAAATTA
261 CTTATTCAAACTCACATTCATTCAAAACAATCCAAAAATGCATATTTAGGGCATTTTACAAATTA
60193569 GC
326 GC
60193571 CCTCACATTT
Statistics
Matches: 326, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
327 326 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (327 bp):
TAAGTTCATACGAGGCTTTTTGGACGTCAGAACTTTGTCGATACTTTCTCGGATGTCTCATTTTT
CTCAACTCATATATTCATTCATCAAAGCTCAATATCACATAATTGATAATAATTCAATTCATAAC
ACATTTATTTGTATATAGACTTACCTCGTACGGATTCGGATAAACAGGATAGGCTACTCGACGAC
TTTCGACTTTCCATGATCTAATTCTGTTTTCCTTTAGTTCTTGATCCATATAAATTCAAATTTAA
CTTATTCAAACTCACATTCATTCAAAACAATCCAAAAATGCATATTTAGGGCATTTTACAAATTA
GC
Found at i:60197112 original size:41 final size:42
Alignment explanation
Indices: 60197000--60197148 Score: 115
Period size: 43 Copynumber: 3.5 Consensus size: 42
60196990 TGTGTTCTCA
* * *
60197000 TGTAAGACCACGACTGGGACGTTGGCATCAATATGTGATTACG
1 TGTAAGACCATGTCTGGGAC-ATGGCATCAATATGTGATTACG
* *
60197043 TGTAAGACCATGTCTGGGACATCAGCATC-ATATTTGATT-CG
1 TGTAAGACCATGTCTGGGACAT-GGCATCAATATGTGATTACG
* * * * * *
60197084 TGTAAGGCCCTGTTTGGGATAGTGGCATCGATATGTGA-TAGCA
1 TGTAAGACCATGTCTGGGACA-TGGCATCAATATGTGATTA-CG
* **
60197127 TGTGAGACCACATCTGGGACAT
1 TGTAAGACCATGTCTGGGACAT
60197149 TGGAATTGTA
Statistics
Matches: 82, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
41 25 0.30
42 19 0.23
43 38 0.46
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCAATATGTGATTACG
Found at i:60202533 original size:16 final size:15
Alignment explanation
Indices: 60202489--60202533 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
60202479 AATCTAAGAA
*
60202489 AAATAAATAAAAATC
1 AAATAAAAAAAAATC
*
60202504 AAATAAACCAAAAATC
1 AAATAAA-AAAAAATC
60202520 AAATAAAAATAAAA
1 AAATAAAAA-AAAA
60202534 ATTTGTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.16
Consensus pattern (15 bp):
AAATAAAAAAAAATC
Found at i:60206187 original size:7 final size:6
Alignment explanation
Indices: 60206166--60206215 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
60206156 CTTTAGAACT
* **
60206166 AAAATA AAAATA AAAATG AAAATA AAACGA AAAATA AAAGAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA
60206214 AA
1 AA
60206216 TGGGCTCAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 2 0.06
6 32 0.89
7 2 0.06
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:60207779 original size:22 final size:22
Alignment explanation
Indices: 60207754--60207811 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
60207744 AATCATAATA
60207754 AATAAAAAATATAATGAAGAAT
1 AATAAAAAATATAATGAAGAAT
** *
60207776 AAT-AGTAATAATAATGAAGACT
1 AATAAAAAAT-ATAATGAAGAAT
*
60207798 AATAAAAAAAATAA
1 AATAAAAAATATAA
60207812 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
21 4 0.14
22 21 0.75
23 3 0.11
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (22 bp):
AATAAAAAATATAATGAAGAAT
Found at i:60207838 original size:17 final size:19
Alignment explanation
Indices: 60207818--60207857 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
60207808 ATAAATAAAT
*
60207818 AAATTGAATAAA-ATTAA-
1 AAATGGAATAAAGATTAAG
60207835 AAATGGAATAAAGATTAAG
1 AAATGGAATAAAGATTAAG
60207854 AAAT
1 AAAT
60207858 AAAGAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 5 0.25
19 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (19 bp):
AAATGGAATAAAGATTAAG
Found at i:60215799 original size:25 final size:25
Alignment explanation
Indices: 60215757--60215805 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
60215747 CTTTATTATT
* *
60215757 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
60215782 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
60215806 GGTCCTCTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:60216210 original size:20 final size:20
Alignment explanation
Indices: 60216170--60216207 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
60216160 TAGGTGCGAG
*
60216170 ATTCCAATGTGTTCGATGGT
1 ATTCCAATGTGTTCAATGGT
60216190 ATTCCAA-GTGTTCAATGG
1 ATTCCAATGTGTTCAATGG
60216208 GTAAATTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.37
Consensus pattern (20 bp):
ATTCCAATGTGTTCAATGGT
Found at i:60216828 original size:13 final size:13
Alignment explanation
Indices: 60216810--60216834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60216800 ATGAGAGTAG
60216810 TTTTAGGAAACCC
1 TTTTAGGAAACCC
60216823 TTTTAGGAAACC
1 TTTTAGGAAACC
60216835 TTATCAAGTG
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTTTAGGAAACCC
Found at i:60218318 original size:20 final size:20
Alignment explanation
Indices: 60218278--60218315 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
60218268 TAGGTGCGAG
*
60218278 ATTCCAATGTGTTCGATGGT
1 ATTCCAATGTGTTCAATGGT
60218298 ATTCCAA-GTGTTCAATGG
1 ATTCCAATGTGTTCAATGG
60218316 GTAAATTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.37
Consensus pattern (20 bp):
ATTCCAATGTGTTCAATGGT
Found at i:60218936 original size:13 final size:13
Alignment explanation
Indices: 60218918--60218942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60218908 ATGAGAGTAG
60218918 TTTTAGGAAACCC
1 TTTTAGGAAACCC
60218931 TTTTAGGAAACC
1 TTTTAGGAAACC
60218943 TTATCAAGTG
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTTTAGGAAACCC
Found at i:60226760 original size:773 final size:773
Alignment explanation
Indices: 60225213--60227551 Score: 4192
Period size: 773 Copynumber: 3.0 Consensus size: 773
60225203 ACCGTCAGCC
*
60225213 ACCACTGATACGCTTCATCGCGACACAACGAAACAGCCCCCTTGAGCTTTTGCTCAGTAGTGAAA
1 ACCACTAATACGCTTCATCGCGACACAACGAAACAGCCCCCTTGAGCTTTTGCTCAGTAGTGAAA
60225278 TCCAAATAATCCATAATACACTCTGTGGCCTCCATCTAGTACTCAGCTACATTAGGAGCAACTCC
66 TCCAAATAATCCATAATACACTCTGTGGCCTCCATCTAGTACTCAGCTACATTAGGAGCAACTCC
*
60225343 AGCTATGCCCCTGAATACTTCAGCCCCATTGGACCAGAGTCGTTTCGTAATCGACCCATGGCCTC
131 AGCTATGCCCCTGAATACCTCAGCCCCATTGGACCAGAGTCGTTTCGTAATCGACCCATGGCCTC
60225408 CAGATCCAGCATTAGCCTCAGTGACCCTCTCCAGGATATGCAGCATGGCCTGGGACAGTGTGTCA
196 CAGATCCAGCATTAGCCTCAGTGACCCTCTCCAGGATATGCAGCATGGCCTGGGACAGTGTGTCA
*
60225473 TCCCTAGCTGGACGGTCCTAGGACTCAGCACCAGTCTCAGTAACAGGTGACATCAGCGTCTCGCT
261 TCCCTAGCTGGACGGTCCTAGGACTCAGCACCAGTCTCAGTAACAGGTGACATCGGCGTCTCGCT
60225538 AGTGTCCAGATTAGAGATCGTATCAGATGCGAAGGACTCAGCTCAAATCCCTCTACGGCCTCTAT
326 AGTGTCCAGATTAGAGATCGTATCAGATGCGAAGGACTCAGCTCAAA------T-C--CCTCTA-
60225603 CTCGGCCTCTAGTACCCCGTCCACGAGTACCACTTGTGCTCATCGTAATTATCGAATTAATCTAT
381 -T-GGCCTCTAGTACCCCGTCCACGAGTACCACTTGTGCTCATCGTAATTATCGAATTAATCTAT
* **
60225668 ATTTAAAAGTTTTATATACATTAGTTTACAGTTTTGATAATTATTAGCAAATATTTTATGCAAAA
444 ATTTAGAAGTTTTATGCACATTAGTTTACAGTTTTGATAATTATTAGCAAATATTTTATGCAAAA
* *
60225733 CAATATCAGAGTTTTAGAGTCAGCTATCGCGAGTAGCACGCTAACTATGGTTTTCAGTTTACACT
509 CAATATCAGAGTTTTAGAGTCAGCTATCGCGAGTAGCAAGCTAACTACGGTTTTCAGTTTACACT
* * *
60225798 ACTTAAAGTGATTCATAACACATACACAATATTTTAGAAAAATACAAAAAAAAATTCAGTATAAG
574 ACTTAAAGTGTTTCATAACACATACACAATATTTCAGACAAATACAAAAAAAAATTCAGTATAAG
60225863 CATGCTCTCAAACGGTACATATCAGAGTTTCAAAGAACTTATAGGATCAGTGCTGGAGGCTTGGT
639 CATGCTCTCAAACGGTACATATCAGAGTTTCAAAGAACTTATAGGATCAGTGCTGGAGGCTTGGT
*
60225928 GTACCACATACTTACTATAAAAATATTTTAAACCGTTTCACAAATCATTTTCTTTAAACCTGGCT
704 GTACCACATACTTACTATAAAAATATTTTAAATCGTTTCACAAATCATTTTCTTTAAACCTGGCT
60225993 CTGAT
769 CTGAT
*
60225998 ACCACTAATATGCTTCATCGCGACACAACGAAACAGCCCCCTTGAGCTTTTGCTCAGTAGTGAAA
1 ACCACTAATACGCTTCATCGCGACACAACGAAACAGCCCCCTTGAGCTTTTGCTCAGTAGTGAAA
* *
60226063 TCCAAATAATCTATAATACACTCTGTGGCCTCCATCTAGTACTCAACTACATTAGGAGCAACTCC
66 TCCAAATAATCCATAATACACTCTGTGGCCTCCATCTAGTACTCAGCTACATTAGGAGCAACTCC
* * *
60226128 AGCTATGCCCCTAAATACCTCAGCCCCATTGGACCAAAGTCGTTTCGTAATCGACCCTTGGCCTC
131 AGCTATGCCCCTGAATACCTCAGCCCCATTGGACCAGAGTCGTTTCGTAATCGACCCATGGCCTC
* * *
60226193 CAGATCCAGTATTAGCCTCAGCGACCCTCTCCAAGATATGCAGCATGGCCTGGGACAGTGTGTCA
196 CAGATCCAGCATTAGCCTCAGTGACCCTCTCCAGGATATGCAGCATGGCCTGGGACAGTGTGTCA
*
60226258 TCCCTAGCTGGACGGTCCTAGGACTCAGCACCAGTCTCAGTAACAGGTGACATCGGCGTCTTGCT
261 TCCCTAGCTGGACGGTCCTAGGACTCAGCACCAGTCTCAGTAACAGGTGACATCGGCGTCTCGCT
*
60226323 AGTGTCCAGATTAGAGATCGTATCAGATGCGAAGGACTCAGCTCGAATCCCTCTATGGCCTCTAG
326 AGTGTCCAGATTAGAGATCGTATCAGATGCGAAGGACTCAGCTCAAATCCCTCTATGGCCTCTAG
* *
60226388 TACCCCGTCCACGAGCACTACTTGTGCTCATCGTAATTATCGAATTAATCTATATTTAGAAGTTT
391 TACCCCGTCCACGAGTACCACTTGTGCTCATCGTAATTATCGAATTAATCTATATTTAGAAGTTT
*
60226453 TATGCACTTTAGTTTACAGTTTTGATAATTATTAGCAAATATTTTATGCAAAACAATATCAGAGT
456 TATGCACATTAGTTTACAGTTTTGATAATTATTAGCAAATATTTTATGCAAAACAATATCAGAGT
*
60226518 TTTAGAGTCAGCTATCGCGGGTAGCAAGCTAACTACGGTTTTCAGTTTACACTACTTAAAGTGTT
521 TTTAGAGTCAGCTATCGCGAGTAGCAAGCTAACTACGGTTTTCAGTTTACACTACTTAAAGTGTT
*
60226583 TCATAACACATACACAATATTTCAGACAAATACAAAAAAAATTTCAGTATAAGCATGCTCTCAAA
586 TCATAACACATACACAATATTTCAGACAAATACAAAAAAAAATTCAGTATAAGCATGCTCTCAAA
*
60226648 CGGTACATATCAGAGTTTCAAAGAACTTATAGGATCAGTGCTGGAGGCTTCGTGTACCACATACT
651 CGGTACATATCAGAGTTTCAAAGAACTTATAGGATCAGTGCTGGAGGCTTGGTGTACCACATACT
60226713 TACTATAAAAATATTTTAAATCGTTTCACAAATCATTTTCTTTAAACCTGGCTCTGAT
716 TACTATAAAAATATTTTAAATCGTTTCACAAATCATTTTCTTTAAACCTGGCTCTGAT
* * *
60226771 ACCACTGATACGCTTCATCGCGACACAACGAAACAGCCCCCTGGAGCTTTTGCTCAGTAGTAAAA
1 ACCACTAATACGCTTCATCGCGACACAACGAAACAGCCCCCTTGAGCTTTTGCTCAGTAGTGAAA
*
60226836 TCCAAATAATCCATAATACACTCTGTGGCCTCCATCTAGTACTCAGCTACATTAGGAGCAACTCT
66 TCCAAATAATCCATAATACACTCTGTGGCCTCCATCTAGTACTCAGCTACATTAGGAGCAACTCC
* *
60226901 AGCTATACCCCTGAATACCTCAGCCCCATTGGACCAGAGTCATTTCGTAATCGACCCATGGCCTC
131 AGCTATGCCCCTGAATACCTCAGCCCCATTGGACCAGAGTCGTTTCGTAATCGACCCATGGCCTC
60226966 CAGATCCAGCATTAGCCTCAGTGACCCTCTCCAGGATATGCAGCATGGCCTGGGACAGTGTGTCA
196 CAGATCCAGCATTAGCCTCAGTGACCCTCTCCAGGATATGCAGCATGGCCTGGGACAGTGTGTCA
*
60227031 TCCCTAGCTGGACGGTCCTGGGACTCAGCACCAGTCTCAGTAACAGGTGACATCGGCGTCTCGCT
261 TCCCTAGCTGGACGGTCCTAGGACTCAGCACCAGTCTCAGTAACAGGTGACATCGGCGTCTCGCT
*
60227096 AGTGTCCAGATTAGAGATCGTATCAGATGCGAAGGACTCAGCTCAAATCCCTCTACGGCCTCTAG
326 AGTGTCCAGATTAGAGATCGTATCAGATGCGAAGGACTCAGCTCAAATCCCTCTATGGCCTCTAG
60227161 TACCCCGTCCACGAGTACCACTTGTGCTCATCGTAATTATCGAATTAATCTATATTTAGAAGTTT
391 TACCCCGTCCACGAGTACCACTTGTGCTCATCGTAATTATCGAATTAATCTATATTTAGAAGTTT
60227226 TATGCACATTAGTTTACAGTTTTGATAATTATTAGCAAATATTTTATGCAAAACAATATCAGAGT
456 TATGCACATTAGTTTACAGTTTTGATAATTATTAGCAAATATTTTATGCAAAACAATATCAGAGT
* *
60227291 TTTAGAGTTAGCTATCGCGAGTAGCAAGCTAACTACGGTTTTTAGTTTACACTACTTAAAGTGTT
521 TTTAGAGTCAGCTATCGCGAGTAGCAAGCTAACTACGGTTTTCAGTTTACACTACTTAAAGTGTT
60227356 TCATAACACATACACAATATTTCAGACAAATACAAAAAAAAATTCAGTATAAGCATGCTCTCAAA
586 TCATAACACATACACAATATTTCAGACAAATACAAAAAAAAATTCAGTATAAGCATGCTCTCAAA
*
60227421 CAGTACATATCAGAGTTTCAAAGAACTTATAGGATCAGTGCTGGAGGCTTGGTGTACCACATACT
651 CGGTACATATCAGAGTTTCAAAGAACTTATAGGATCAGTGCTGGAGGCTTGGTGTACCACATACT
* *
60227486 TACTATAAAAAGATTTTAAATCATTTCACAAATCATTTTCTTTAAACCTGGCTCTGAT
716 TACTATAAAAATATTTTAAATCGTTTCACAAATCATTTTCTTTAAACCTGGCTCTGAT
60227544 ACCACTAA
1 ACCACTAA
60227552 ATGTAACACC
Statistics
Matches: 1494, Mismatches: 60, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
773 1127 0.75
774 1 0.00
776 6 0.00
778 1 0.00
779 1 0.00
785 358 0.24
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (773 bp):
ACCACTAATACGCTTCATCGCGACACAACGAAACAGCCCCCTTGAGCTTTTGCTCAGTAGTGAAA
TCCAAATAATCCATAATACACTCTGTGGCCTCCATCTAGTACTCAGCTACATTAGGAGCAACTCC
AGCTATGCCCCTGAATACCTCAGCCCCATTGGACCAGAGTCGTTTCGTAATCGACCCATGGCCTC
CAGATCCAGCATTAGCCTCAGTGACCCTCTCCAGGATATGCAGCATGGCCTGGGACAGTGTGTCA
TCCCTAGCTGGACGGTCCTAGGACTCAGCACCAGTCTCAGTAACAGGTGACATCGGCGTCTCGCT
AGTGTCCAGATTAGAGATCGTATCAGATGCGAAGGACTCAGCTCAAATCCCTCTATGGCCTCTAG
TACCCCGTCCACGAGTACCACTTGTGCTCATCGTAATTATCGAATTAATCTATATTTAGAAGTTT
TATGCACATTAGTTTACAGTTTTGATAATTATTAGCAAATATTTTATGCAAAACAATATCAGAGT
TTTAGAGTCAGCTATCGCGAGTAGCAAGCTAACTACGGTTTTCAGTTTACACTACTTAAAGTGTT
TCATAACACATACACAATATTTCAGACAAATACAAAAAAAAATTCAGTATAAGCATGCTCTCAAA
CGGTACATATCAGAGTTTCAAAGAACTTATAGGATCAGTGCTGGAGGCTTGGTGTACCACATACT
TACTATAAAAATATTTTAAATCGTTTCACAAATCATTTTCTTTAAACCTGGCTCTGAT
Found at i:60227632 original size:13 final size:13
Alignment explanation
Indices: 60227614--60227639 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60227604 CATGAGAGTA
60227614 CTTTTAGGAAACC
1 CTTTTAGGAAACC
60227627 CTTTTAGGAAACC
1 CTTTTAGGAAACC
60227640 TTATCAAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
CTTTTAGGAAACC
Found at i:60228628 original size:18 final size:18
Alignment explanation
Indices: 60228591--60228629 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
60228581 GTGTGCCCTA
*
60228591 CCCGTGTGGGCCCACAAG
1 CCCGTGTGGGCACACAAG
60228609 CCCGTGTGGGTCACAC-AG
1 CCCGTGTGGG-CACACAAG
60228627 CCC
1 CCC
60228630 AAATTAGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.15, C:0.41, G:0.31, T:0.13
Consensus pattern (18 bp):
CCCGTGTGGGCACACAAG
Done.