Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 112 of 345
Found at i:37182860 original size:45 final size:46
Alignment explanation
Indices: 37182808--37182897 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
37182798 CCTGAGCTGA
* *
37182808 TGAACAGTAAGCTC-TATTGAGCTGA-AATAGTAAGCTCTGACGAAC
1 TGAACAGTAAGCTCATA-CGAGCTAAGAATAGTAAGCTCTGACGAAC
* *
37182853 TGAACAGTAAGCTCATACGATCTAAGAATAGTAAGCTCTTACGAA
1 TGAACAGTAAGCTCATACGAGCTAAGAATAGTAAGCTCTGACGAA
37182898 TTGATATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
45 19 0.49
46 20 0.51
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (46 bp):
TGAACAGTAAGCTCATACGAGCTAAGAATAGTAAGCTCTGACGAAC
Found at i:37182888 original size:24 final size:21
Alignment explanation
Indices: 37182808--37182897 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 21
37182798 CCTGAGCTGA
* * *
37182808 TGAACAGTAAGCTCTATTGAGC
1 TGAATAGTAAGCTCTA-CGAAC
37182830 TGAAATAGTAAGCTCTGACGAAC
1 TG-AATAGTAAGCTCT-ACGAAC
* *
37182853 TGAACAGTAAGCTCATACGATC
1 TGAATAGTAAGCTC-TACGAAC
37182875 TAAGAATAGTAAGCTCTTACGAA
1 T--GAATAGTAAGCTC-TACGAA
37182898 TTGATATATC
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
22 19 0.35
23 18 0.33
24 18 0.33
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (21 bp):
TGAATAGTAAGCTCTACGAAC
Found at i:37182897 original size:46 final size:45
Alignment explanation
Indices: 37182808--37182897 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
37182798 CCTGAGCTGA
* *
37182808 TGAACAGTAAGCTCTATTGAGCTGAAATAGTAAGCTCTGACGAAC
1 TGAACAGTAAGCTCTATCGAGCTAAAATAGTAAGCTCTGACGAAC
* *
37182853 TGAACAGTAAGCTC-ATACGATCTAAGAATAGTAAGCTCTTACGAA
1 TGAACAGTAAGCTCTAT-CGAGCTAA-AATAGTAAGCTCTGACGAA
37182898 TTGATATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
44 2 0.05
45 19 0.49
46 18 0.46
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (45 bp):
TGAACAGTAAGCTCTATCGAGCTAAAATAGTAAGCTCTGACGAAC
Found at i:37182926 original size:50 final size:46
Alignment explanation
Indices: 37182833--37182926 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
37182823 ATTGAGCTGA
* *
37182833 AATAGTAAGCTCTGACGAACTGAACAGTAAGCTCATACGATCTAAG
1 AATAGTAAGCTCTGACGAACTGAACAGTAAACTCATACAATCTAAG
* *
37182879 AATAGTAAGCTCTTACGAATTGATATATCAGTAAACTCATACAATCTA
1 AATAGTAAGCTCTGACGAACTG--A-A-CAGTAAACTCATACAATCTA
37182927 TGGTGAGTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
46 20 0.50
48 1 0.03
49 1 0.03
50 18 0.45
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (46 bp):
AATAGTAAGCTCTGACGAACTGAACAGTAAACTCATACAATCTAAG
Found at i:37185550 original size:21 final size:21
Alignment explanation
Indices: 37185510--37185550 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37185500 GGTTTTTGGG
37185510 AAAAAGAATAAAAATGAAATT
1 AAAAAGAATAAAAATGAAATT
*
37185531 AAAAA-AATAAAGAATTAAAT
1 AAAAAGAATAAA-AATGAAAT
37185551 CATACAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (21 bp):
AAAAAGAATAAAAATGAAATT
Found at i:37194207 original size:14 final size:14
Alignment explanation
Indices: 37194188--37194214 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37194178 GATTGTCAGT
37194188 TACCAGATACCAGG
1 TACCAGATACCAGG
37194202 TACCAGATACCAG
1 TACCAGATACCAG
37194215 AATTATAATA
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:0.30, G:0.19, T:0.15
Consensus pattern (14 bp):
TACCAGATACCAGG
Found at i:37200128 original size:129 final size:129
Alignment explanation
Indices: 37199898--37200154 Score: 388
Period size: 129 Copynumber: 2.0 Consensus size: 129
37199888 TAATCCTTCA
*
37199898 ACATAGGCGGTCGGTACCACGAGAGCTCGATTACAACAAACTTGTTTCATTTGATTCATTTAAAT
1 ACATAGACGGTCGGTACCACGAGAGCTCGATTACAACAAACTTGTTTCATTTGATTCATTTAAAT
* * * * *
37199963 TTGGGTTTAAGCATTTTGTAATATTTGGATTGTTTTGGTTTTACGATTTTATTTTCTATTTTTT
66 TTAGGTTTAAGCATTTTGTAATATCTGAACTATTTTGGTTTTACGATTTTATTTTCTATTTTTT
* * * * * *
37200027 ACATAGACGGTCGGTACCACGGGAGCTCGGTTACAATAAATTTGTTTCGTTTGATTTATTTAAAT
1 ACATAGACGGTCGGTACCACGAGAGCTCGATTACAACAAACTTGTTTCATTTGATTCATTTAAAT
**
37200092 TTAGGTTTAAGCATTTTGTAATATCTGAACTATTTTGGTTTTGGGATTTTATTTTCTATTTTT
66 TTAGGTTTAAGCATTTTGTAATATCTGAACTATTTTGGTTTTACGATTTTATTTTCTATTTTT
37200155 GCATGATACT
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 114 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (129 bp):
ACATAGACGGTCGGTACCACGAGAGCTCGATTACAACAAACTTGTTTCATTTGATTCATTTAAAT
TTAGGTTTAAGCATTTTGTAATATCTGAACTATTTTGGTTTTACGATTTTATTTTCTATTTTTT
Found at i:37209444 original size:14 final size:14
Alignment explanation
Indices: 37209427--37209453 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37209417 TTTAGTGATG
37209427 TATATTTATAAAAC
1 TATATTTATAAAAC
37209441 TATATTTATAAAA
1 TATATTTATAAAA
37209454 GGAATTTTGA
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:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATTTATAAAAC
Found at i:37211243 original size:11 final size:11
Alignment explanation
Indices: 37211212--37211244 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
37211202 GACTTTTAAA
37211212 TTATTTTGGTT
1 TTATTTTGGTT
37211223 TT-TTTT-GTT
1 TTATTTTGGTT
37211232 TTATTTTGGTT
1 TTATTTTGGTT
37211243 TT
1 TT
37211245 GGTGTAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 5 0.25
10 8 0.40
11 7 0.35
ACGTcount: A:0.06, C:0.00, G:0.15, T:0.79
Consensus pattern (11 bp):
TTATTTTGGTT
Found at i:37219174 original size:3 final size:3
Alignment explanation
Indices: 37219166--37219486 Score: 119
Period size: 3 Copynumber: 107.3 Consensus size: 3
37219156 AACATATATA
* *
37219166 AAT AAT AAT AAT AAT AAT AA- AAT ACT AA- ATT AATT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* * * *** *
37219209 AAG AAT CAAT AA- AAA AAT AAT AAT AGT GGC AAT AAT AAT AGT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
37219254 AAT AAT AAGT AAA AAC ACA- AAA AAA AAT ATAT AAT -AT AAT AAT AGT
1 AAT AAT AA-T AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * * * * *
37219300 -AT AAA AATT AATT AGT -TT AAT ACT -AT GAT AAT AAT AAC AGT AAT
1 AAT AAT AA-T AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
37219344 AA- AAC AAC AAT AAT AAT AA- AGT ACAA AAT AAT AAT AAT -AT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* * * * *
37219387 AAT AAG GAT AAA AAT AAT -AT ATT AAT AAT AAT AAT AGAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * * *
37219432 AAT AAT AAT TAT ACATT AAT AAG GAT AAC AGT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
37219480 AAT AAT A
1 AAT AAT A
37219487 GGAACATTAA
Statistics
Matches: 236, Mismatches: 58, Indels: 48
0.69 0.17 0.14
Matches are distributed among these distances:
2 20 0.08
3 188 0.80
4 26 0.11
5 2 0.01
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:37219420 original size:23 final size:23
Alignment explanation
Indices: 37219370--37219440 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
37219360 TAAAGTACAA
* *
37219370 AATAATAATAATATATTAATAAG
1 AATAAAAATAATATATTAATAAT
*
37219393 GATAAAAATAATATATTAATAAT
1 AATAAAAATAATATATTAATAAT
37219416 AATAATAGAA-AATA-A-TAATAAT
1 AATAA-A-AATAATATATTAATAAT
37219438 AAT
1 AAT
37219441 TATACATTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 10 0.24
23 25 0.60
24 5 0.12
25 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.32
Consensus pattern (23 bp):
AATAAAAATAATATATTAATAAT
Found at i:37219459 original size:23 final size:23
Alignment explanation
Indices: 37219371--37219414 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
37219361 AAAGTACAAA
37219371 ATAATAATAATATATTAATAAGG
1 ATAATAATAATATATTAATAAGG
*
37219394 ATAAAAATAATATATTAATAA
1 ATAATAATAATATATTAATAA
37219415 TAATAATAGA
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:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (23 bp):
ATAATAATAATATATTAATAAGG
Found at i:37221128 original size:45 final size:45
Alignment explanation
Indices: 37221058--37221219 Score: 202
Period size: 45 Copynumber: 3.6 Consensus size: 45
37221048 AGCTTCAATA
* *
37221058 TGCTCCACTGCTACTTCA-GAGAGATAAGATTTGCTGTCTTCAGTC
1 TGCTCCGCTGCAACTTCAGGA-AGATAAGATTTGCTGTCTTCAGTC
* ** * * *
37221103 TGCTCCGCTGCAACTTTAGGAAGATAAG-GCTGGTGGCTTCAATC
1 TGCTCCGCTGCAACTTCAGGAAGATAAGATTTGCTGTCTTCAGTC
* * *
37221147 TGCTCCGCTGCTACTTCAGGGAGATGAGATTTGCTGTCTTCAGTC
1 TGCTCCGCTGCAACTTCAGGAAGATAAGATTTGCTGTCTTCAGTC
37221192 TGCTCCGCTGCAACTTCAGGAAGATAAG
1 TGCTCCGCTGCAACTTCAGGAAGATAAG
37221220 GCTGGTGTTT
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
44 35 0.37
45 58 0.61
46 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.30
Consensus pattern (45 bp):
TGCTCCGCTGCAACTTCAGGAAGATAAGATTTGCTGTCTTCAGTC
Found at i:37221152 original size:44 final size:44
Alignment explanation
Indices: 37221049--37221237 Score: 175
Period size: 45 Copynumber: 4.3 Consensus size: 44
37221039 GCAACTTGTA
* * * ** *
37221049 GCTTCAATATGCTCCACTGCTACTTCA-GAGAGATAAGATTTGCTG
1 GCTTCAATCTGCTCCGCTGCAACTTCAGGA-AGATAAG-GCTGGTG
* * *
37221094 TCTTCAGTCTGCTCCGCTGCAACTTTAGGAAGATAAGGCTGGTG
1 GCTTCAATCTGCTCCGCTGCAACTTCAGGAAGATAAGGCTGGTG
* * * ** *
37221138 GCTTCAATCTGCTCCGCTGCTACTTCAGGGAGATGAGATTTGCTG
1 GCTTCAATCTGCTCCGCTGCAACTTCAGGAAGATAAG-GCTGGTG
* *
37221183 TCTTCAGTCTGCTCCGCTGCAACTTCAGGAAGATAAGGCTGGT-
1 GCTTCAATCTGCTCCGCTGCAACTTCAGGAAGATAAGGCTGGTG
*
37221226 GTTTCAATCTGC
1 GCTTCAATCTGC
37221238 CCCCTACTAC
Statistics
Matches: 113, Mismatches: 29, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
43 9 0.08
44 38 0.34
45 64 0.57
46 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (44 bp):
GCTTCAATCTGCTCCGCTGCAACTTCAGGAAGATAAGGCTGGTG
Found at i:37221162 original size:89 final size:88
Alignment explanation
Indices: 37221049--37221237 Score: 315
Period size: 89 Copynumber: 2.1 Consensus size: 88
37221039 GCAACTTGTA
*
37221049 GCTTCAATATGCTCCACTGCTACTTCAGAGAGATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGC
1 GCTTCAATCTGCTCCACTGCTACTTCAGAGAGATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGC
*
37221114 AACTTTAGGAAGATAAGGCTGGT
66 AACTTCAGGAAGATAAGGCTGGT
* * *
37221137 GGCTTCAATCTGCTCCGCTGCTACTTCAGGGAGATGAGATTTGCTGTCTTCAGTCTGCTCCGCTG
1 -GCTTCAATCTGCTCCACTGCTACTTCAGAGAGATAAGATTTGCTGTCTTCAGTCTGCTCCGCTG
37221202 CAACTTCAGGAAGATAAGGCTGGT
65 CAACTTCAGGAAGATAAGGCTGGT
*
37221226 GTTTCAATCTGC
1 GCTTCAATCTGC
37221238 CCCCTACTAC
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
88 11 0.12
89 83 0.88
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (88 bp):
GCTTCAATCTGCTCCACTGCTACTTCAGAGAGATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGC
AACTTCAGGAAGATAAGGCTGGT
Found at i:37221330 original size:44 final size:44
Alignment explanation
Indices: 37221282--37221507 Score: 172
Period size: 44 Copynumber: 5.1 Consensus size: 44
37221272 TTTAATCTAC
37221282 TCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAGCCTGT
1 TCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAGCCTGT
* * * *
37221326 TCCACTGCTGCTCAGGGAGACAAGGTCTAAAATCTTCAGCCTGT
1 TCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAGCCTGT
* * * * **** * **
37221370 TCCACTGCTGCTCAGAGAGACAAG-GCTAGTGGCTTAAATCTGCT
1 TCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAGCCTG-T
* * ** *
37221414 TCC-CTACTACCTC-GGGAAGATAAGATTTACCGTCTTC-GATCTGT
1 TCCACTACT-GCTCAGGG-AGATAAGATCTACAATCTTCAG-CCTGT
* * * *
37221458 TCCACTACTCCTAAGGGAGATAAGATCTACAATCTTTAACCTGT
1 TCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAGCCTGT
37221502 TCCACT
1 TCCACT
37221508 GCTATTTAGG
Statistics
Matches: 143, Mismatches: 31, Indels: 16
0.75 0.16 0.08
Matches are distributed among these distances:
43 16 0.11
44 109 0.76
45 18 0.13
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (44 bp):
TCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAGCCTGT
Found at i:37221539 original size:132 final size:132
Alignment explanation
Indices: 37221322--37221572 Score: 367
Period size: 132 Copynumber: 1.9 Consensus size: 132
37221312 AATCTTCAGC
* * * * * *
37221322 CTGTTCCACTGCTGCTCAGGGAGACAAGGTCTAAAATCTTCAGCCTGTTCCACTGCTGCTCAGAG
1 CTGTTCCACTACTCCTAAGGGAGACAAGATCTAAAATCTTCAACCTGTTCCACTGCTACTCAGAG
*
37221387 AGACAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTTACCGTCTTCG
66 AGACAAGGCTAGTAGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTTACCGTCTTCG
37221452 AT
131 AT
* * * * * *
37221454 CTGTTCCACTACTCCTAAGGGAGATAAGATCTACAATCTTTAACCTGTTCCACTGCTATTTAGGG
1 CTGTTCCACTACTCCTAAGGGAGACAAGATCTAAAATCTTCAACCTGTTCCACTGCTACTCAGAG
* *
37221519 AGACAAGGCTAGTAGTTTAAATCTGCTTCCCTATTACCTCGGGAAGATAAGATT
66 AGACAAGGCTAGTAGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATT
37221573 CGCCGTATTC
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
132 104 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
CTGTTCCACTACTCCTAAGGGAGACAAGATCTAAAATCTTCAACCTGTTCCACTGCTACTCAGAG
AGACAAGGCTAGTAGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTTACCGTCTTCG
AT
Found at i:37221597 original size:132 final size:132
Alignment explanation
Indices: 37221339--37221653 Score: 353
Period size: 132 Copynumber: 2.4 Consensus size: 132
37221329 ACTGCTGCTC
* * * *
37221339 AGGGAGACAAGGTCTAAAATCTTCAGCCTGTTCCACTGCTGCTCAGAGAGACAAGGCTAGTGGCT
1 AGGGAGACAAGATCTAAAATCTTCAACCTGTTCCACTGCTACTCAGAGAGACAAGGCTAGTAGCT
* * * * *
37221404 TAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTTACCGTCTTCGATCTGTTCCACTACTCC
66 TAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCGTATTCAATCCGCTCCACTACTCC
37221469 TA
131 TA
* * * * * * *
37221471 AGGGAGATAAGATCTACAATCTTTAACCTGTTCCACTGCTATTTAGGGAGACAAGGCTAGTAGTT
1 AGGGAGACAAGATCTAAAATCTTCAACCTGTTCCACTGCTACTCAGAGAGACAAGGCTAGTAGCT
* * *
37221536 TAAATCTGCTTCCCTATTACCTCGGGAAGATAAGATTCGCCGTATTCAATCCGCTCTACTACTAC
66 TAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCGTATTCAATCCGCTCCACTACT-C
*
37221601 TTA
130 CTA
** * *** ** *
37221604 A-AAAGATAAGATCTGTGATCTTCAACCTACTCCACTGCTGCTCAGAGAGA
1 AGGGAGACAAGATCTAAAATCTTCAACCTGTTCCACTGCTACTCAGAGAGA
37221654 TAAGATTTTC
Statistics
Matches: 150, Mismatches: 32, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
132 146 0.97
133 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
AGGGAGACAAGATCTAAAATCTTCAACCTGTTCCACTGCTACTCAGAGAGACAAGGCTAGTAGCT
TAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCGTATTCAATCCGCTCCACTACTCC
TA
Found at i:37222068 original size:130 final size:130
Alignment explanation
Indices: 37221672--37222259 Score: 500
Period size: 130 Copynumber: 4.5 Consensus size: 130
37221662 TCCATCTTCG
* *
37221672 ATCTGCTCCACTACTGCTGAGGGAGACAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTCTACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAG
* * * * * * ** * *
37221737 GGAGACAACATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGACAAGATTTTTCATTTT
66 GAAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAAGGAGATAGGATGGTGC--CTT
*
37221802 CA
129 AA
** * * * * * * * * *
37221804 ATCTATTCTAGTACTGCTTAAGGAGACAAGGTCTACAATCTTC-AGCCTACTCCACTACTACTTA
1 ATCTGCTCTACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGA-TCTGCTCCACTACTGCTTA
* * * **** * * * * * * * ** *
37221868 GGGAGATAGGA--TAGTGGCTTAAATCTGCTCCACTACTTCTTAGGGAGACAAGATTTTCCATCT
65 GGAAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAAGGAGATAGGATGGTGC--CT
**
37221931 TTG
128 TAA
* * **
37221934 ATCTGCTCTACTACTGCTTAGGGAGAGAAGATCTGTTATCTTCGATAC-GCTCCACTACTGCTTA
1 ATCTGCTCTACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGAT-CTGCTCCACTACTGCTTA
* * * * *
37221998 TGAAGACAAGATCTACAATCTTGAGCCTACTCCACTACTGCTTATGGAGATAGGATGGTGGCTTA
65 GGAAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAAGGAGATAGGATGGTGCCTTA
37222063 A
130 A
* * * * *
37222064 ATCTGCTCTACTACTGCTTAGGGAGACAGGATTTACCATCTTCGATCTGTTCTACTACTTCTTAG
1 ATCTGCTCTACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAG
* *
37222129 GGAGACAAGATCTACAATTTTCAACCTACTCCACTACTGCTTAAGGAGATAGGATGGTGCCTTAA
66 GAAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAAGGAGATAGGATGGTGCCTTAA
* * * * * **
37222194 ATATGCTCCATTACTACTTAGGGAGATAAGATTTGCCATCTTCGATCTGCTCCACTGTTGCTTAG
1 ATCTGCTCTACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAG
37222259 G
66 G
37222260 GAGATAGGAT
Statistics
Matches: 359, Mismatches: 91, Indels: 14
0.77 0.20 0.03
Matches are distributed among these distances:
129 1 0.00
130 266 0.74
131 3 0.01
132 89 0.25
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (130 bp):
ATCTGCTCTACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAG
GAAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAAGGAGATAGGATGGTGCCTTAA
Found at i:37222163 original size:174 final size:172
Alignment explanation
Indices: 37221716--37222173 Score: 560
Period size: 174 Copynumber: 2.6 Consensus size: 172
37221706 GCCATCTTCG
* * * * * *
37221716 ATCTGCTCCACTACTGCTTAGGGAGACAACATCTACAATCTTC-AGCCTACTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTACCATCTTCGA-TCTGCTCTACTACTGCTTA
* * * * * * *
37221780 GGGAGACAAGATTTTTCATTTTCAATCTATTCTAGTACTGCTTAAGGAGACAAGGTCTACAATCT
65 GGGAGACAAGA-TCTACATTTTCAA-CTACTCCACTACTGCTTAAGAAGACAAGATCTACAATCT
37221845 TCAGCCTACTCCACTACTACTTAGGGAGATAGGATAGTGGCTTAA
128 TCAGCCTACTCCACTACTACTTAGGGAGATAGGATAGTGGCTTAA
* * *
37221890 ATCTGCTCCACTACTTCTTAGGGAGACAAGATTTTCCATCTTTGATCTGCTCTACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTACCATCTTCGATCTGCTCTACTACTGCTTAG
* ** * * *
37221955 GGAGAGAAGATCTGTTATCTTCGATAC-GCTCCACTACTGCTTATGAAGACAAGATCTACAATCT
66 GGAGACAAGATCT-ACATTTTC-A-ACTACTCCACTACTGCTTAAGAAGACAAGATCTACAATCT
* * * *
37222019 TGAGCCTACTCCACTACTGCTTATGGAGATAGGATGGTGGCTTAA
128 TCAGCCTACTCCACTACTACTTAGGGAGATAGGATAGTGGCTTAA
* * * *
37222064 ATCTGCTCTACTACTGCTTAGGGAGACAGGATTTACCATCTTCGATCTGTTCTACTACTTCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTACCATCTTCGATCTGCTCTACTACTGCTTAG
37222129 GGAGACAAGATCTACAATTTTCAACCTACTCCACTACTGCTTAAG
66 GGAGACAAGATCTAC-ATTTTCAA-CTACTCCACTACTGCTTAAG
37222174 GAGATAGGAT
Statistics
Matches: 240, Mismatches: 37, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
172 1 0.00
173 4 0.02
174 231 0.96
175 3 0.01
176 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (172 bp):
ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTACCATCTTCGATCTGCTCTACTACTGCTTAG
GGAGACAAGATCTACATTTTCAACTACTCCACTACTGCTTAAGAAGACAAGATCTACAATCTTCA
GCCTACTCCACTACTACTTAGGGAGATAGGATAGTGGCTTAA
Found at i:37222265 original size:44 final size:44
Alignment explanation
Indices: 37221633--37222263 Score: 379
Period size: 44 Copynumber: 14.5 Consensus size: 44
37221623 CTTCAACCTA
* * * * *
37221633 CTCCACTGCTGCTCAGAGAGATAAGATTTTCCATCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTG
*
37221677 CTCCACTACTGCTGAGGGAGACAAGATTTGCCATCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTG
* * * * * *
37221721 CTCCACTACTGCTTAGGGAGACAACATCTACAATCTTC-AGCCTA
1 CTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGA-TCTG
** * * *
37221765 CTCCACTACTGCTTAGGGAGACAAGATTTTTCATTTTCAATCTA
1 CTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTG
* * * * * * * * * *
37221809 TTCTAGTACTGCTTAAGGAGACAAGGTCTACAATCTTC-AGCCTA
1 CTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGA-TCTG
* * * * * **
37221853 CTCCACTACTACTTAGGGAGATAGGATAGTG---GCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGACAAGAT-TTGCCATCTTCGATCTG
* * *
37221895 CTCCACTACTTCTTAGGGAGACAAGATTTTCCATCTTTGATCTG
1 CTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTG
* * * **
37221939 CTCTACTACTGCTTAGGGAGAGAAGATCTGTTATCTTCGATAC-G
1 CTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGAT-CTG
* * * * * * *
37221983 CTCCACTACTGCTTATGAAGACAAGATCTACAATCTT-GAGCCTA
1 CTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGA-TCTG
* * * * * **
37222027 CTCCACTACTGCTTATGGAGATAGGATGGTG---GCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGACAAGAT-TTGCCATCTTCGATCTG
* * *
37222069 CTCTACTACTGCTTAGGGAGACAGGATTTACCATCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTG
* * * * * * * * * *
37222113 TTCTACTACTTCTTAGGGAGACAAGATCTACAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTG
* * * * ** *
37222157 CTCCACTACTGCTTAAGGAGATAGGATGGTG-C--CTTAAATATG
1 CTCCACTACTGCTTAGGGAGACAAGAT-TTGCCATCTTCGATCTG
* * *
37222199 CTCCATTACTACTTAGGGAGATAAGATTTGCCATCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTG
**
37222243 CTCCACTGTTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGA
37222264 TAGGATCTGT
Statistics
Matches: 446, Mismatches: 121, Indels: 40
0.73 0.20 0.07
Matches are distributed among these distances:
41 4 0.01
42 87 0.20
43 7 0.02
44 343 0.77
45 5 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTG
Found at i:37222723 original size:45 final size:46
Alignment explanation
Indices: 37222636--37222734 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 46
37222626 ATTTGCTTCA
** * * * * *
37222636 TCTTCAATCCATCCCGCTACAGTTCAGGGGTATAGGATTTGTATCT
1 TCTTCAATCCATCCCGCTACAAATCAAGGGAATAGAACTTGTAGCT
* *
37222682 T-TTCAATCCGTCCCGCTGCAAATCAAGGGAATAGAACTTGTAGCT
1 TCTTCAATCCATCCCGCTACAAATCAAGGGAATAGAACTTGTAGCT
37222727 TCTTCAAT
1 TCTTCAAT
37222735 TGATCTGTCA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
45 36 0.84
46 7 0.16
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (46 bp):
TCTTCAATCCATCCCGCTACAAATCAAGGGAATAGAACTTGTAGCT
Found at i:37228272 original size:76 final size:76
Alignment explanation
Indices: 37228146--37228296 Score: 275
Period size: 76 Copynumber: 2.0 Consensus size: 76
37228136 AGTTACATAT
*
37228146 GAGGAAGGATTAGCACCCTAGTAATGCCCAAAATTGGTACCTAGTTCATTAATTAGTGTCTTAAT
1 GAGGAAGGATTAGCACCCTAGTAACGCCCAAAATTGGTACCTAGTTCATTAATTAGTGTCTTAAT
*
37228211 GTCGAAAGTTC
66 GTCAAAAGTTC
*
37228222 GAGGAAGGATTAGCACCCTAGTAACGCCTAAAATTGGTACCTAGTTCATTAATTAGTGTCTTAAT
1 GAGGAAGGATTAGCACCCTAGTAACGCCCAAAATTGGTACCTAGTTCATTAATTAGTGTCTTAAT
37228287 GTCAAAAGTT
66 GTCAAAAGTT
37228297 GAAATTTTGA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (76 bp):
GAGGAAGGATTAGCACCCTAGTAACGCCCAAAATTGGTACCTAGTTCATTAATTAGTGTCTTAAT
GTCAAAAGTTC
Found at i:37229004 original size:3 final size:3
Alignment explanation
Indices: 37228996--37229337 Score: 83
Period size: 3 Copynumber: 115.7 Consensus size: 3
37228986 TAATAAAACA
* * * * * *
37228996 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAC AAC AAC AAC AAC AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
37229043 AAT ACT AA- ATT AATT AAT AAT AA- AAT AAT CAAT AA- AA- AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* *** * * * * *
37229086 AAT AGT GGC AAT AAT AAT AAT AGT AAT AAT AGT AAGT AAA AAC ACAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT A-AT
* * *
37229133 AAA AAT AA- AA- AAT AA- AA- AAA AAT -AT AAT -AT AAT AAT AAT AGCAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT
* * * * * * *
37229177 AAA AATT AATT AGT -TT AAT ACT -AT GAT AAT AAT AAC AGT AAT AA-
1 AAT AA-T AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
37229221 AAC AAC AAC AAT AAT AA- AGT ACAA AAT AAT AAT AAT AAT -AT ATT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* *
37229265 AAT -AT GGAT AAT AAT AAT -AT ATT AAT AAT AAT CGAA- AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT --AAT AAT AAT AAT
* * *
37229310 TAT ACATT AAT AAG GAT AAT AAT AAT AA
1 AAT A-A-T AAT AAT AAT AAT AAT AAT AA
37229338 CAACAACAAC
Statistics
Matches: 261, Mismatches: 49, Indels: 58
0.71 0.13 0.16
Matches are distributed among these distances:
2 34 0.13
3 200 0.77
4 21 0.08
5 6 0.02
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:37229286 original size:17 final size:20
Alignment explanation
Indices: 37229251--37229291 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
37229241 ACAAAATAAT
37229251 AATAATAATATATTAATATGG
1 AATAATAATATATTAATAT-G
37229272 ATAATAATAATATATTAATA
1 --AATAATAATATATTAATA
37229292 ATAATCGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
AATAATAATATATTAATATG
Found at i:37229342 original size:3 final size:3
Alignment explanation
Indices: 37229336--37229373 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
37229326 TAATAATAAT
37229336 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
37229374 TAATAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:37232321 original size:15 final size:17
Alignment explanation
Indices: 37232301--37232333 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
37232291 TAATGTTATA
37232301 ATAATTT-T-TTATTTG
1 ATAATTTATGTTATTTG
37232316 ATAATTTATGTTATTTG
1 ATAATTTATGTTATTTG
37232333 A
1 A
37232334 ATGAATAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (17 bp):
ATAATTTATGTTATTTG
Found at i:37234225 original size:24 final size:25
Alignment explanation
Indices: 37234180--37234228 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
37234170 TCATTTGGTT
37234180 CAATGGGTAAATAAAACTTTAAAGG
1 CAATGGGTAAATAAAACTTTAAAGG
37234205 CAATGGGTAAAT-AAACTTTAAAGG
1 CAATGGGTAAATAAAACTTTAAAGG
37234229 GTACGTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.47, C:0.08, G:0.20, T:0.24
Consensus pattern (25 bp):
CAATGGGTAAATAAAACTTTAAAGG
Found at i:37235464 original size:30 final size:30
Alignment explanation
Indices: 37235430--37235495 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
37235420 GTCACATGGT
37235430 CGTGTGCCACACATGGTCACACTACACGGC
1 CGTGTGCCACACATGGTCACACTACACGGC
37235460 CGTGTGCCACACATGGTCACACTACACGGC
1 CGTGTGCCACACATGGTCACACTACACGGC
*
37235490 TGTGTG
1 CGTGTG
37235496 TCATTATTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.20
Consensus pattern (30 bp):
CGTGTGCCACACATGGTCACACTACACGGC
Found at i:37251926 original size:47 final size:47
Alignment explanation
Indices: 37251704--37252202 Score: 683
Period size: 47 Copynumber: 10.4 Consensus size: 47
37251694 CAGCTAAGAG
**
37251704 AGTGTATATGCGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
37251751 AGTGTATGTATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
37251800 AGTGTATGTATATATGTGATAAGGCCTAATAGCCGAGGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
37251851 AGTGTATGTATATGTGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTG--ATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
37251902 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* **
37251949 AGTGTATATGTGTGATAAGGCCTAATAGCCGACATGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
37251996 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
37252043 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * *
37252090 AGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * * *
37252137 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
37252184 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
37252203 TCCCGAAAGG
Statistics
Matches: 415, Mismatches: 27, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
47 275 0.66
49 56 0.13
51 80 0.19
53 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:37252377 original size:37 final size:37
Alignment explanation
Indices: 37252321--37252399 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
37252311 CCGAGCTCTA
* * *
37252321 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGAT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
* *
37252358 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
37252395 AAGAC
1 AAGAC
37252400 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
Found at i:37254290 original size:41 final size:43
Alignment explanation
Indices: 37254245--37254324 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
37254235 TTGGTTTTCA
37254245 GCACTAAGTGTGC-GG-AATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
37254286 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAG
37254325 GCATAAGGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 13 0.35
42 2 0.05
43 22 0.59
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.28
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:37254336 original size:22 final size:23
Alignment explanation
Indices: 37254304--37254356 Score: 83
Period size: 22 Copynumber: 2.3 Consensus size: 23
37254294 TGTGCGGGCA
37254304 ATAAGTGTTCACGGTTGTGAGGC
1 ATAAGTGTTCACGGTTGTGAGGC
37254327 ATAAG-GTTCACGGTTGTGA-GC
1 ATAAGTGTTCACGGTTGTGAGGC
37254348 ACTAAGTGT
1 A-TAAGTGT
37254357 GCGGGCAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 3 0.11
22 18 0.64
23 7 0.25
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.30
Consensus pattern (23 bp):
ATAAGTGTTCACGGTTGTGAGGC
Found at i:37254422 original size:29 final size:29
Alignment explanation
Indices: 37254387--37254460 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
37254377 GTTGTGAGAT
* *
37254387 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
37254416 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
37254445 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
37254461 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:37254935 original size:40 final size:40
Alignment explanation
Indices: 37254848--37255081 Score: 312
Period size: 40 Copynumber: 5.9 Consensus size: 40
37254838 CGAGTTACTA
37254848 ATCC-GGCTAAGTCCCGAAGAGCATTCATGCTA-TGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
37254886 ATTCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
37254926 ATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
37254965 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* ** * * * *
37255005 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
37255045 GTCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
37255082 CGTGTATTCG
Statistics
Matches: 175, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
38 3 0.02
39 67 0.38
40 105 0.60
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:37254983 original size:79 final size:79
Alignment explanation
Indices: 37254848--37255081 Score: 301
Period size: 79 Copynumber: 3.0 Consensus size: 79
37254838 CGAGTTACTA
*
37254848 ATCC-GGCTAAGTCCCGAAGAGCATTCATGCTA-TGATGTATTCGGGCTAAGTCCCGAAGAGCAT
1 ATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
*
37254911 TCATGCTAGTGATGT
65 TCATGCTAGTGATAT
*
37254926 ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
*
37254991 CGTGCTAGTGATAT
66 CATGCTAGTGATAT
* ** * * * * * * *
37255005 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATGTCCGGGCTAGGTCCCGAAGAGCAA
1 ATCCGGGCT-AAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
*
37255070 TCATGCTGGTGA
65 TCATGCTAGTGA
37255082 CGTGTATTCG
Statistics
Matches: 136, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
78 23 0.17
79 58 0.43
80 55 0.40
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
CATGCTAGTGATAT
Found at i:37258491 original size:47 final size:47
Alignment explanation
Indices: 37258269--37258665 Score: 605
Period size: 47 Copynumber: 8.2 Consensus size: 47
37258259 CAGCTAAGAG
37258269 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
37258316 AGTGTATGTATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTA--TATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
37258365 AGTGTATGTATATATGTGATAAGGCCTAATAGCCGAGGTGATGAATGTGAA
1 A--G--TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
37258416 AGTGTATGTATATGTGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 A--G--TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
37258467 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
37258514 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
37258561 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * *
37258608 AGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAT
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
37258655 AGTGTATATGT
1 AGTGTATATGT
37258666 ACAGGGCCGA
Statistics
Matches: 331, Mismatches: 13, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
47 195 0.59
49 42 0.13
51 90 0.27
53 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:37258890 original size:36 final size:37
Alignment explanation
Indices: 37258835--37258912 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
37258825 CCGAGCTCTA
* *
37258835 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
37258871 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37258908 AAGAC
1 AAGAC
37258913 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37262558 original size:34 final size:34
Alignment explanation
Indices: 37262520--37262600 Score: 153
Period size: 34 Copynumber: 2.4 Consensus size: 34
37262510 TGCATTATGG
37262520 ATTTAGCCTGGACGATAATCCGATTAGGGTCTGA
1 ATTTAGCCTGGACGATAATCCGATTAGGGTCTGA
*
37262554 ATTTAGCCTGGACGGTAATCCGATTAGGGTCTGA
1 ATTTAGCCTGGACGATAATCCGATTAGGGTCTGA
37262588 ATTTAGCCTGGAC
1 ATTTAGCCTGGAC
37262601 TGGTAATTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (34 bp):
ATTTAGCCTGGACGATAATCCGATTAGGGTCTGA
Found at i:37265349 original size:6 final size:6
Alignment explanation
Indices: 37265321--37265377 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
37265311 AATTAAACAG
*
37265321 AAAAAT AAGAAA- ACAAAACT AAAAAT AAAAAT -AAAAG AAAAAT -AAAAT
1 AAAAAT AA-AAAT A-AAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
37265369 -AAAAT AAAA
1 AAAAAT AAAA
37265378 TAAGTGGACT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
5 14 0.33
6 20 0.47
7 8 0.19
8 1 0.02
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:37265350 original size:5 final size:5
Alignment explanation
Indices: 37265342--37265380 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
37265332 AACAAAACTA
*
37265342 AAAAT AAAAAT AAAAGA AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT -AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AA
37265381 GTGGACTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
5 21 0.70
6 9 0.30
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:37265356 original size:11 final size:11
Alignment explanation
Indices: 37265342--37265380 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
37265332 AACAAAACTA
37265342 AAAATAAAAAT
1 AAAATAAAAAT
*
37265353 AAAAGAAAAAT
1 AAAATAAAAAT
37265364 AAAAT-AAAAT
1 AAAATAAAAAT
37265374 AAAATAA
1 AAAATAA
37265381 GTGGACTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:37267000 original size:11 final size:11
Alignment explanation
Indices: 37266984--37267010 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
37266974 AAACTAATAA
37266984 AATAAAGAAAT
1 AATAAAGAAAT
37266995 AATAAAGAAAT
1 AATAAAGAAAT
37267006 AATAA
1 AATAA
37267011 TAATAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (11 bp):
AATAAAGAAAT
Found at i:37267009 original size:3 final size:3
Alignment explanation
Indices: 37267003--37267030 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
37266993 ATAATAAAGA
37267003 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
37267031 CAAGGGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:37268109 original size:29 final size:29
Alignment explanation
Indices: 37268067--37268123 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
37268057 CCAGGCCGTG
37268067 TGTGTCACACGGCCAAGGACACGCCCATA
1 TGTGTCACACGGCCAAGGACACGCCCATA
* *
37268096 TGTGTCAGACGGCCAAGTACACGCCCAT
1 TGTGTCACACGGCCAAGGACACGCCCAT
37268124 GTGTCCAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.33, G:0.25, T:0.16
Consensus pattern (29 bp):
TGTGTCACACGGCCAAGGACACGCCCATA
Found at i:37292327 original size:42 final size:42
Alignment explanation
Indices: 37292267--37292417 Score: 171
Period size: 42 Copynumber: 3.6 Consensus size: 42
37292257 GATTATGTGC
* * *
37292267 AAGACCATATCTGGGATATGGCATCTATATAAGACTTCGTGT
1 AAGACCATATCTGAGATATGGCATCGATATGAGACTTCGTGT
*
37292309 AAGACCATATCTGAGATATGGCATCGATATGAGACTTCGCGT
1 AAGACCATATCTGAGATATGGCATCGATATGAGACTTCGTGT
* * * * *
37292351 AAGACCATAGCT-AGGCTATTGGAATCGATACGAGA-TTACATGT
1 AAGACCATATCTGA-GATA-TGGCATCGATATGAGACTT-CGTGT
*
37292394 AAGACCATATCTGGGATATGGCAT
1 AAGACCATATCTGAGATATGGCAT
37292418 TGGTTTGGTA
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 59 0.65
43 31 0.34
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (42 bp):
AAGACCATATCTGAGATATGGCATCGATATGAGACTTCGTGT
Found at i:37296435 original size:45 final size:45
Alignment explanation
Indices: 37296371--37296461 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
37296361 CCAAAACATG
* *
37296371 TGTCATATACATCATGAACTCATACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
*
37296416 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
37296461 T
1 T
37296462 TTCATAGTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.26
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
Found at i:37300098 original size:25 final size:24
Alignment explanation
Indices: 37300070--37300120 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
37300060 AAAAACTTGA
37300070 AAAAAATTGAG-ATATAAAAAGTCTC
1 AAAAAATTGAGCA-A-AAAAAGTCTC
*
37300095 AAAATATTGAGCAAAAAAAGTCTC
1 AAAAAATTGAGCAAAAAAAGTCTC
37300119 AA
1 AA
37300121 TCCAACATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 12 0.50
25 11 0.46
26 1 0.04
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.22
Consensus pattern (24 bp):
AAAAAATTGAGCAAAAAAAGTCTC
Found at i:37304057 original size:28 final size:25
Alignment explanation
Indices: 37304019--37304075 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 25
37304009 AAAAACAGAA
*
37304019 TTTTCCTCGAATTGTTTTCTCATGAATT
1 TTTTCCACGAATT-TTTT-TCA-GAATT
*
37304047 TTTTCCACGAATTTTTTTTAGAATT
1 TTTTCCACGAATTTTTTTCAGAATT
37304072 TTTT
1 TTTT
37304076 TAGAATCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 9 0.33
26 2 0.07
27 4 0.15
28 12 0.44
ACGTcount: A:0.19, C:0.14, G:0.09, T:0.58
Consensus pattern (25 bp):
TTTTCCACGAATTTTTTTCAGAATT
Found at i:37304058 original size:13 final size:13
Alignment explanation
Indices: 37304019--37304063 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
37304009 AAAAACAGAA
*
37304019 TTTTCCTCGAATT
1 TTTTCCACGAATT
*
37304032 GTTTTCTCATGAATT
1 -TTTTC-CACGAATT
37304047 TTTTCCACGAATT
1 TTTTCCACGAATT
37304060 TTTT
1 TTTT
37304064 TTAGAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 11 0.41
14 10 0.37
15 6 0.22
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.56
Consensus pattern (13 bp):
TTTTCCACGAATT
Found at i:37309301 original size:12 final size:12
Alignment explanation
Indices: 37309284--37309310 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37309274 TTTATCAAGA
37309284 TAAATATTATAT
1 TAAATATTATAT
37309296 TAAATATTATAT
1 TAAATATTATAT
37309308 TAA
1 TAA
37309311 TCAATCTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TAAATATTATAT
Found at i:37312331 original size:13 final size:13
Alignment explanation
Indices: 37312307--37312345 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
37312297 ATCAAACTTC
37312307 ACATTAATTTTTCA
1 ACATTAA-TTTTCA
37312321 ACATTAATTTTCCA
1 ACATTAATTTT-CA
37312335 A-ATTAATTTTC
1 ACATTAATTTTC
37312346 CAAGAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.04
13 13 0.54
14 10 0.42
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (13 bp):
ACATTAATTTTCA
Found at i:37312346 original size:13 final size:14
Alignment explanation
Indices: 37312307--37312348 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
37312297 ATCAAACTTC
*
37312307 ACATTAATTTTTCA
1 ACATTAATTTTCCA
37312321 ACATTAATTTTCCA
1 ACATTAATTTTCCA
37312335 A-ATTAATTTTCCA
1 ACATTAATTTTCCA
37312348 A
1 A
37312349 GAAAATTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 13 0.48
14 14 0.52
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (14 bp):
ACATTAATTTTCCA
Found at i:37327856 original size:9 final size:9
Alignment explanation
Indices: 37327838--37327957 Score: 75
Period size: 9 Copynumber: 13.0 Consensus size: 9
37327828 AAAAATATAA
*
37327838 TTTATTATT
1 TTTATAATT
37327847 TTTATAA-T
1 TTTATAATT
*
37327855 TTTATTATT
1 TTTATAATT
37327864 TATTATGACATT
1 T-TTAT-A-ATT
** *
37327876 AAT-TAACT
1 TTTATAATT
37327884 TTTAT-ATT
1 TTTATAATT
*
37327892 TTTATAAAT
1 TTTATAATT
37327901 TTTATAATT
1 TTTATAATT
*
37327910 TTAATTAATT
1 TTTA-TAATT
*
37327920 TTTAATGATT
1 TTT-ATAATT
37327930 TTTATAATT
1 TTTATAATT
* *
37327939 TTTTTATGTT
1 TTTATA-ATT
37327949 TTTATAATT
1 TTTATAATT
37327958 CTAGGATGAA
Statistics
Matches: 83, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
8 17 0.20
9 35 0.42
10 26 0.31
11 2 0.02
12 3 0.04
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:37327858 original size:17 final size:17
Alignment explanation
Indices: 37327833--37327923 Score: 69
Period size: 17 Copynumber: 5.1 Consensus size: 17
37327823 TAGAAAAAAA
37327833 TATAA-TTTATTATTTT
1 TATAATTTTATTATTTT
37327849 TATAATTTTATTATTTAT
1 TATAATTTTATTATTT-T
* *
37327867 TATGACA-TTAATTAACTTT
1 TAT-A-ATTTTATT-ATTTT
* * *
37327886 TATATTTTTATAAATTT
1 TATAATTTTATTATTTT
37327903 TATAATTTTAATTAATTTT
1 TATAATTTT-ATT-ATTTT
37327922 TA
1 TA
37327924 ATGATTTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
16 5 0.09
17 22 0.38
18 11 0.19
19 16 0.28
20 4 0.07
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (17 bp):
TATAATTTTATTATTTT
Found at i:37327937 original size:19 final size:18
Alignment explanation
Indices: 37327838--37327957 Score: 75
Period size: 19 Copynumber: 6.5 Consensus size: 18
37327828 AAAAATATAA
* *
37327838 TTTATTATTTTTAT-AAT
1 TTTATAATTTTTATGATT
* **
37327855 TTTATTATTTATTATGACA
1 TTTATAATTT-TTATGATT
* *
37327874 TTAATTAACTTTTAT-ATT
1 TTTA-TAATTTTTATGATT
* *
37327892 TTTATAAATTTTATAATT
1 TTTATAATTTTTATGATT
*
37327910 TTAATTAATTTTTAATGATT
1 TTTA-TAATTTTT-ATGATT
37327930 TTTATAATTTTTTTATG-TT
1 TTTATAA--TTTTTATGATT
37327949 TTTATAATT
1 TTTATAATT
37327958 CTAGGATGAA
Statistics
Matches: 82, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
17 21 0.26
18 14 0.17
19 27 0.33
20 15 0.18
21 5 0.06
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTATAATTTTTATGATT
Found at i:37327950 original size:29 final size:29
Alignment explanation
Indices: 37327883--37327952 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
37327873 ATTAATTAAC
37327883 TTTTATATTTTT-ATAAATTTTATAATTT
1 TTTTATATTTTTAATAAATTTTATAATTT
* * *
37327911 TAATTA-ATTTTTAATGATTTTTATAATTT
1 T-TTTATATTTTTAATAAATTTTATAATTT
*
37327940 TTTTATGTTTTTA
1 TTTTATATTTTTA
37327953 TAATTCTAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (29 bp):
TTTTATATTTTTAATAAATTTTATAATTT
Found at i:37328023 original size:12 final size:12
Alignment explanation
Indices: 37328006--37328033 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
37327996 CTAGACTTGC
37328006 TTTTAAAATTAA
1 TTTTAAAATTAA
37328018 TTTTAAAATTAA
1 TTTTAAAATTAA
37328030 TTTT
1 TTTT
37328034 TTGAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTTAAAATTAA
Found at i:37331461 original size:6 final size:6
Alignment explanation
Indices: 37331450--37331475 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
37331440 CCTAACTATG
37331450 ACTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT AC
37331476 CCTACGGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
ACTGTT
Found at i:37334685 original size:19 final size:17
Alignment explanation
Indices: 37334631--37334720 Score: 56
Period size: 19 Copynumber: 5.1 Consensus size: 17
37334621 GAAAAAAAAC
*
37334631 ATAATTT-ATTATTTTT
1 ATAATTTAATAATTTTT
* *
37334647 ATAATTTTATTATTTATT
1 ATAATTTAATAATTT-TT
37334665 ATGAATTTAATCAATTTTT
1 AT-AATTTAAT-AATTTTT
* * * *
37334684 ATATTTTTATAAATGTT
1 ATAATTTAATAATTTTT
*
37334701 ATCATTTTAATTAATTTTT
1 AT-AATTTAA-TAATTTTT
37334720 A
1 A
37334721 AAGATTTTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
16 7 0.12
17 14 0.24
18 16 0.27
19 18 0.31
20 4 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
ATAATTTAATAATTTTT
Found at i:37334704 original size:27 final size:28
Alignment explanation
Indices: 37334651--37334713 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
37334641 ATTTTTATAA
*
37334651 TTTTATTATTTATTATGAATTTAATCAAT
1 TTTTATTATTTATTATAAATTTAATC-AT
37334680 TTTTA-TATTT-TTATAAATGTT-ATCAT
1 TTTTATTATTTATTATAAAT-TTAATCAT
*
37334706 TTTAATTA
1 TTTTATTA
37334714 ATTTTTAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 6 0.20
27 12 0.40
28 7 0.23
29 5 0.17
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTTATTATTTATTATAAATTTAATCAT
Found at i:37337709 original size:21 final size:21
Alignment explanation
Indices: 37337671--37337710 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
37337661 CCCCTTTTTG
*
37337671 TTATTTTTGCTATTTTATTAA
1 TTATTTTAGCTATTTTATTAA
37337692 TTATTTTAG-TATTATTATT
1 TTATTTTAGCTATT-TTATT
37337711 GCTCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (21 bp):
TTATTTTAGCTATTTTATTAA
Found at i:37337745 original size:3 final size:3
Alignment explanation
Indices: 37337737--37337770 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
37337727 CTTTTTATGT
37337737 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
37337771 ATTTTTAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:37337819 original size:15 final size:15
Alignment explanation
Indices: 37337799--37337829 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37337789 ACTCAAATAC
*
37337799 TTTTATTTATCTATT
1 TTTTATCTATCTATT
37337814 TTTTATCTATCTATT
1 TTTTATCTATCTATT
37337829 T
1 T
37337830 ATATTTCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATCTATCTATT
Found at i:37337898 original size:26 final size:27
Alignment explanation
Indices: 37337839--37337901 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
37337829 TATATTTCTG
37337839 TCATTA-TTATATTTTAATGTATTATA
1 TCATTATTTATATTTTAATGTATTATA
*
37337865 T-TTCTATTTATA-TTT-ATGTATTAATA
1 TCAT-TATTTATATTTTAATGTATT-ATA
37337891 TCATTATTTAT
1 TCATTATTTAT
37337902 TATTGTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
25 8 0.26
26 17 0.55
27 6 0.19
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (27 bp):
TCATTATTTATATTTTAATGTATTATA
Found at i:37337999 original size:13 final size:13
Alignment explanation
Indices: 37337981--37338005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37337971 ATTGTTATTG
37337981 TTATTATTATTTT
1 TTATTATTATTTT
37337994 TTATTATTATTT
1 TTATTATTATTT
37338006 CTTCTTCTTC
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:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:37338141 original size:30 final size:30
Alignment explanation
Indices: 37338105--37338177 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
37338095 ATGTTTTTTA
* *
37338105 TATTATTATTATTCCTTACATTATTGTTAT
1 TATTATTATTATTACTTACATTATTGGTAT
* * *
37338135 TATTATTTTTATTATTTTCATTATTGGTAT
1 TATTATTATTATTACTTACATTATTGGTAT
*
37338165 T-TTTTTATTATTA
1 TATTATTATTATTA
37338178 TTTCATTTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.66
Consensus pattern (30 bp):
TATTATTATTATTACTTACATTATTGGTAT
Found at i:37338200 original size:29 final size:29
Alignment explanation
Indices: 37338103--37338201 Score: 78
Period size: 29 Copynumber: 3.3 Consensus size: 29
37338093 CAATGTTTTT
*
37338103 TATA-TTATTATTATTCCTTACATTATTGTTA
1 TATATTTATTATTATT--TT-CATTATTGATA
*
37338134 TTATTATTT-TTATTATTTTCATTATTGGTA
1 -TA-TATTTATTATTATTTTCATTATTGATA
* * *
37338164 TTTTTTTATTATTA-TTTCATTTATTTATA
1 TATATTTATTATTATTTTCA-TTATTGATA
37338193 TATATTTAT
1 TATATTTAT
37338202 CCCAAATTGC
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
28 9 0.16
29 21 0.38
30 10 0.18
31 2 0.04
32 2 0.04
33 10 0.18
34 2 0.04
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (29 bp):
TATATTTATTATTATTTTCATTATTGATA
Found at i:37350196 original size:23 final size:23
Alignment explanation
Indices: 37350162--37350217 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
37350152 TGGAGCAGGT
*
37350162 TGAAGTTACAAGTCTTATCCCCC
1 TGAAGTTGCAAGTCTTATCCCCC
37350185 TGAAGTTGCAAGTCTTATCCCCC
1 TGAAGTTGCAAGTCTTATCCCCC
37350208 TGAAGTTGCA
1 TGAAGTTGCA
37350218 GTGGAGCAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (23 bp):
TGAAGTTGCAAGTCTTATCCCCC
Found at i:37351920 original size:3 final size:3
Alignment explanation
Indices: 37351908--37351954 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
37351898 TTATTTTTGC
37351908 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
37351955 ATTTTCAGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:37352003 original size:15 final size:15
Alignment explanation
Indices: 37351983--37352013 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37351973 ACTGAAATAC
*
37351983 TTTTATTTATCTATT
1 TTTTATCTATCTATT
37351998 TTTTATCTATCTATT
1 TTTTATCTATCTATT
37352013 T
1 T
37352014 ATATTTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATCTATCTATT
Found at i:37352184 original size:25 final size:25
Alignment explanation
Indices: 37352138--37352185 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
37352128 CCTTTTTTAC
*
37352138 TATTATTATTTTGTACCGTTATTGT
1 TATTATTATTTTGTACCATTATTGT
*
37352163 TATTATTATTCTT-TACTATTATT
1 TATTATTATT-TTGTACCATTATT
37352186 TCTTCTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.62
Consensus pattern (25 bp):
TATTATTATTTTGTACCATTATTGT
Found at i:37352293 original size:3 final size:3
Alignment explanation
Indices: 37352259--37352346 Score: 56
Period size: 3 Copynumber: 29.7 Consensus size: 3
37352249 ACATTTTAAT
* * * *
37352259 TTA TTA TT- TTA TTT TTA ATA TTT TTA -TA TTA TTA TTA TTCC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
* ** * *
37352303 -CA TTA TTA TTA TTA TTA TCG TTA TTG GTA TTTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
37352347 TCATTTATTT
Statistics
Matches: 62, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
2 5 0.08
3 53 0.85
4 4 0.06
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:37353651 original size:28 final size:28
Alignment explanation
Indices: 37353619--37353675 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
37353609 TTCCCATGCC
37353619 ATCAATTTATTTATTAACAGCGACTCTT
1 ATCAATTTATTTATTAACAGCGACTCTT
37353647 ATCAATTTATTTATTAACAGCGACTCTT
1 ATCAATTTATTTATTAACAGCGACTCTT
37353675 A
1 A
37353676 ACCACCAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (28 bp):
ATCAATTTATTTATTAACAGCGACTCTT
Found at i:37358790 original size:25 final size:25
Alignment explanation
Indices: 37358756--37358858 Score: 68
Period size: 25 Copynumber: 4.0 Consensus size: 25
37358746 TGATAATACG
* *
37358756 AAAAACGAAAAGAAG-AAGAAGGAGA
1 AAAAAAGAAAAGAAGAAAGAA-AAGA
37358781 AAAAAAGAAAAG-AGAAAGAAAAGA
1 AAAAAAGAAAAGAAGAAAGAAAAGA
* * *
37358805 GAAAAATAAAAGAAAAAAATGAAAA-A
1 AAAAAAGAAAAG-AAGAAA-GAAAAGA
** *
37358831 AAGTAAGAAAGGAAGAAAGGAAGAAGA
1 AAAAAAGAAAAGAAGAAA-GAA-AAGA
37358858 A
1 A
37358859 CGTAAATTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
24 15 0.25
25 24 0.40
26 14 0.23
27 7 0.12
ACGTcount: A:0.73, C:0.01, G:0.23, T:0.03
Consensus pattern (25 bp):
AAAAAAGAAAAGAAGAAAGAAAAGA
Found at i:37358800 original size:11 final size:11
Alignment explanation
Indices: 37358784--37358808 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37358774 AAGGAGAAAA
37358784 AAAGAAAAGAG
1 AAAGAAAAGAG
37358795 AAAGAAAAGAG
1 AAAGAAAAGAG
37358806 AAA
1 AAA
37358809 AATAAAAGAA
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAGAAAAGAG
Found at i:37358802 original size:18 final size:18
Alignment explanation
Indices: 37358781--37358822 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
37358771 AAGAAGGAGA
*
37358781 AAAAAAGAAAAGA-GAAAG
1 AAAAAAGAAAA-ATAAAAG
*
37358799 AAAAGAGAAAAATAAAAG
1 AAAAAAGAAAAATAAAAG
37358817 AAAAAA
1 AAAAAA
37358823 ATGAAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (18 bp):
AAAAAAGAAAAATAAAAG
Found at i:37358804 original size:16 final size:16
Alignment explanation
Indices: 37358764--37358804 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
37358754 CGAAAAACGA
*
37358764 AAAGAAGAAG-AAGGAG
1 AAAGAA-AAGAAAAGAG
37358780 AAA-AAAAGAAAAGAG
1 AAAGAAAAGAAAAGAG
37358795 AAAGAAAAGA
1 AAAGAAAAGA
37358805 GAAAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 3 0.14
15 10 0.45
16 9 0.41
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AAAGAAAAGAAAAGAG
Found at i:37358817 original size:13 final size:13
Alignment explanation
Indices: 37358782--37358829 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
37358772 AGAAGGAGAA
37358782 AAAAAGAAAAGAG
1 AAAAAGAAAAGAG
37358795 --AAAGAAAAGAG
1 AAAAAGAAAAGAG
* *
37358806 AAAAATAAAAGAA
1 AAAAAGAAAAGAG
37358819 AAAAATGAAAA
1 AAAAA-GAAAA
37358830 AAAGTAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 11 0.38
13 14 0.48
14 4 0.14
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (13 bp):
AAAAAGAAAAGAG
Found at i:37362076 original size:29 final size:28
Alignment explanation
Indices: 37362042--37362108 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
37362032 ATAATACGAC
* * *
37362042 AAATGAAAAGAAGTAGAAGAAGAAA-AAAT
1 AAATGAAAAGAA-AAG-AGAAAAAAGAAAA
37362071 AAATGAGAAAGAAAAGAGAAAAAAGAAAA
1 AAATGA-AAAGAAAAGAGAAAAAAGAAAA
37362100 AAATGAAAA
1 AAATGAAAA
37362109 AGAGTGAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 10 0.30
29 17 0.52
30 6 0.18
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.07
Consensus pattern (28 bp):
AAATGAAAAGAAAAGAGAAAAAAGAAAA
Found at i:37362757 original size:12 final size:12
Alignment explanation
Indices: 37362740--37362764 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37362730 TTTTCTATTG
37362740 TTTGGCAAATTT
1 TTTGGCAAATTT
37362752 TTTGGCAAATTT
1 TTTGGCAAATTT
37362764 T
1 T
37362765 CTGAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (12 bp):
TTTGGCAAATTT
Found at i:37365357 original size:35 final size:35
Alignment explanation
Indices: 37365305--37365431 Score: 157
Period size: 35 Copynumber: 3.6 Consensus size: 35
37365295 AATATATACA
* *
37365305 GGTTTGCATGACTTATAGGCTTCGCATGTACCTAG
1 GGTTTGCATGGCATATAGGCTTCGCATGTACCTAG
* *
37365340 GGTTTGCATGGCATATAGGCTTCACATGTACCTAT
1 GGTTTGCATGGCATATAGGCTTCGCATGTACCTAG
* * * *
37365375 GGTTCGCATGGCATATAGGCTT-GTAGGTACTTAG
1 GGTTTGCATGGCATATAGGCTTCGCATGTACCTAG
*
37365409 GGTTTGCATGGTCATGTAGGCTT
1 GGTTTGCATGG-CATATAGGCTT
37365432 ACATTCCTAA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
34 17 0.22
35 62 0.78
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (35 bp):
GGTTTGCATGGCATATAGGCTTCGCATGTACCTAG
Found at i:37365367 original size:18 final size:18
Alignment explanation
Indices: 37365346--37365396 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
37365336 CTAGGGTTTG
37365346 CATGGCATATAGGCTTCA
1 CATGGCATATAGGCTTCA
* * *
37365364 CATGTACCTAT-GG-TTCG
1 CATG-GCATATAGGCTTCA
37365381 CATGGCATATAGGCTT
1 CATGGCATATAGGCTT
37365397 GTAGGTACTT
Statistics
Matches: 25, Mismatches: 5, Indels: 6
0.69 0.14 0.17
Matches are distributed among these distances:
16 4 0.16
17 9 0.36
18 8 0.32
19 4 0.16
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (18 bp):
CATGGCATATAGGCTTCA
Found at i:37367019 original size:21 final size:21
Alignment explanation
Indices: 37366971--37367013 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
37366961 TTTCAACCCT
37366971 AAATTTAGTAAGATTTATCCA
1 AAATTTAGTAAGATTTATCCA
*
37366992 AAATTTAGTAAGGTTTATCCA
1 AAATTTAGTAAGATTTATCCA
37367013 A
1 A
37367014 GTTTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (21 bp):
AAATTTAGTAAGATTTATCCA
Found at i:37367791 original size:16 final size:16
Alignment explanation
Indices: 37367743--37367794 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
37367733 TTTGGTTCGC
37367743 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
37367759 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
37367775 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
37367791 TGTA
1 TGTA
37367795 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.02, G:0.37, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:37367859 original size:44 final size:45
Alignment explanation
Indices: 37367775--37367865 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
37367765 GGATTAGAGG
* * *
37367775 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
37367820 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
37367864 TG
1 TG
37367866 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:37368051 original size:18 final size:17
Alignment explanation
Indices: 37368030--37368064 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37368020 TTATTATTAA
*
37368030 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
37368048 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
37368065 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:37368171 original size:18 final size:17
Alignment explanation
Indices: 37368150--37368184 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37368140 TTATTATTAA
*
37368150 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
37368168 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
37368185 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:37368226 original size:120 final size:120
Alignment explanation
Indices: 37368013--37369136 Score: 2149
Period size: 120 Copynumber: 9.4 Consensus size: 120
37368003 ATCATATTTA
37368013 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
37368078 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
37368133 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
37368198 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
37368253 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
37368318 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
37368373 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
37368438 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
37368493 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
37368558 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
37368613 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
37368678 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
37368733 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
37368798 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
37368853 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
37368918 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
37368973 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
37369038 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
37369093 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTT
37369137 GAACATCAAA
Statistics
Matches: 987, Mismatches: 17, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 987 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:37368771 original size:18 final size:17
Alignment explanation
Indices: 37368750--37368784 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37368740 TTATTATTAA
*
37368750 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
37368768 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
37368785 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:37374908 original size:13 final size:13
Alignment explanation
Indices: 37374890--37374915 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37374880 CAGCTAAACT
37374890 GAAACAGAAGGAA
1 GAAACAGAAGGAA
37374903 GAAACAGAAGGAA
1 GAAACAGAAGGAA
37374916 CAGCTAAACT
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:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAACAGAAGGAA
Found at i:37374921 original size:36 final size:36
Alignment explanation
Indices: 37374880--37374958 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
37374870 GGTTGTGAAG
*
37374880 CAGCTAAACTGAAACAGAAGGAAGAAACAGAAGGAA
1 CAGCTAAACTGAAACAGAAAGAAGAAACAGAAGGAA
*
37374916 CAGCTAAACTGAAACAGAAAGAAGAAATAGAAGGAA
1 CAGCTAAACTGAAACAGAAAGAAGAAACAGAAGGAA
*
37374952 CGGCTAA
1 CAGCTAA
37374959 GTTGTGAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.54, C:0.14, G:0.24, T:0.08
Consensus pattern (36 bp):
CAGCTAAACTGAAACAGAAAGAAGAAACAGAAGGAA
Found at i:37376171 original size:23 final size:25
Alignment explanation
Indices: 37376145--37376192 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
37376135 TTTATAAATT
37376145 TATATTTCAT-TTTTA-ATTTTTAG
1 TATATTTCATATTTTATATTTTTAG
*
37376168 TATATTTTATATTTTATTATTTTTA
1 TATATTTCATATTTTA-TATTTTTA
37376193 TAAATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 5 0.24
26 7 0.33
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (25 bp):
TATATTTCATATTTTATATTTTTAG
Found at i:37376193 original size:16 final size:17
Alignment explanation
Indices: 37376153--37376194 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
37376143 TTTATATTTC
37376153 ATTTTTA-ATTTTTAGT
1 ATTTTTATATTTTTAGT
*
37376169 ATATTTTATA-TTTTATT
1 AT-TTTTATATTTTTAGT
37376186 ATTTTTATA
1 ATTTTTATA
37376195 AATTATTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 13 0.57
18 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
ATTTTTATATTTTTAGT
Found at i:37376276 original size:19 final size:19
Alignment explanation
Indices: 37376187--37376281 Score: 75
Period size: 19 Copynumber: 4.8 Consensus size: 19
37376177 TATTTTATTA
*
37376187 TTTTTATAAATTATTTGTAA-
1 TTTTTAT-AATT-TTTATAAG
* * *
37376207 TTTATTAAAAATTTTATATG
1 TTT-TTATAATTTTTATAAG
* *
37376227 TTTTTATAATATTTATTAG
1 TTTTTATAATTTTTATAAG
*
37376246 TTTTTGTGAATTTTTATAAG
1 TTTTTAT-AATTTTTATAAG
*
37376266 TTTTTATAATTCTTAT
1 TTTTTATAATTTTTAT
37376282 GATTTCTTGA
Statistics
Matches: 58, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
19 30 0.52
20 25 0.43
21 3 0.05
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAG
Found at i:37376281 original size:9 final size:9
Alignment explanation
Indices: 37376072--37376286 Score: 69
Period size: 10 Copynumber: 22.3 Consensus size: 9
37376062 ATATATGATT
37376072 TTTTTATAA
1 TTTTTATAA
*
37376081 CTTTTATAAAA
1 -TTTT-TATAA
* *
37376092 TTTTAATAG
1 TTTTTATAA
*
37376101 TTTATTAGAA
1 TTT-TTATAA
*
37376111 TTTTTTACAA
1 -TTTTTATAA
*
37376121 GTATTTATAA
1 -TTTTTATAA
37376131 TTTTTTTATAA
1 --TTTTTATAA
* *
37376142 -ATTTATAT
1 TTTTTATAA
*
37376150 TTCATTTTTAA
1 TT--TTTATAA
37376161 TTTTTAGT-A
1 TTTTTA-TAA
37376170 TATTTTAT-A
1 T-TTTTATAA
*
37376179 -TTTTATTA
1 TTTTTATAA
37376187 TTTTTATAAA
1 TTTTTAT-AA
*
37376197 TTATTTGTAA
1 TT-TTTATAA
*
37376207 TTTATTAAAA
1 TTT-TTATAA
* *
37376217 ATTTTATATG
1 TTTTTATA-A
37376227 TTTTTATAA
1 TTTTTATAA
* *
37376236 TATTTATTAG
1 TTTTTA-TAA
*
37376246 TTTTTGTGAA
1 TTTTTAT-AA
37376256 TTTTTATAA
1 TTTTTATAA
37376265 GTTTTTATAA
1 -TTTTTATAA
* *
37376275 TTCTTATGA
1 TTTTTATAA
37376284 TTT
1 TTT
37376287 CTTGATTTTT
Statistics
Matches: 150, Mismatches: 37, Indels: 37
0.67 0.17 0.17
Matches are distributed among these distances:
7 6 0.04
8 7 0.05
9 40 0.27
10 71 0.47
11 26 0.17
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:37378652 original size:153 final size:153
Alignment explanation
Indices: 37378369--37378672 Score: 581
Period size: 153 Copynumber: 2.0 Consensus size: 153
37378359 AAGCTTAGAA
* *
37378369 CATCGAATTCGTCTCCAGGTAAGCATCAATTTTCATAGATAAGATTCAAGCTTTTTGAAAACTAA
1 CATCAAATTCGTCTCCAGGTAAGCATCAATTTTCATAGATAAGATTCAAGCTTCTTGAAAACTAA
37378434 ACAATATAGGTCTTGAGTTTGATTTGAGTTTTTGAGTTTCTTTTTTCCTTAAACTGTTCAAGAAC
66 ACAATATAGGTCTTGAGTTTGATTTGAGTTTTTGAGTTTCTTTTTTCCTTAAACTGTTCAAGAAC
37378499 TTGAAAATTGAAAATTATCAGAG
131 TTGAAAATTGAAAATTATCAGAG
*
37378522 CATCAAATTCGTCTCCAGGTAAGCATCAATTTTCATAGGTAAGATTCAAGCTTCTTGAAAACTAA
1 CATCAAATTCGTCTCCAGGTAAGCATCAATTTTCATAGATAAGATTCAAGCTTCTTGAAAACTAA
37378587 ACAATATAGGTCTTGAGTTTGATTTGAGTTTTTGAGTTTCTTTTTTCCTTAAACTGTTCAAGAAC
66 ACAATATAGGTCTTGAGTTTGATTTGAGTTTTTGAGTTTCTTTTTTCCTTAAACTGTTCAAGAAC
37378652 TTGAAAATTGAAAATTATCAG
131 TTGAAAATTGAAAATTATCAG
37378673 TCTTTGATGC
Statistics
Matches: 148, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
153 148 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (153 bp):
CATCAAATTCGTCTCCAGGTAAGCATCAATTTTCATAGATAAGATTCAAGCTTCTTGAAAACTAA
ACAATATAGGTCTTGAGTTTGATTTGAGTTTTTGAGTTTCTTTTTTCCTTAAACTGTTCAAGAAC
TTGAAAATTGAAAATTATCAGAG
Found at i:37380102 original size:84 final size:84
Alignment explanation
Indices: 37380006--37380174 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
37379996 TTGAAAATTG
37380006 TTGCAAGTATCTTTATTTCTTTATTTTAGGCAATATTCCTAACAGATACTCCATTAAACATCCAT
1 TTGCAAGTATCTTTATTTCTTTATTTTAGGCAATATTCCTAACAGATACTCCATTAAACATCCAT
37380071 GAAACTTGAAAAAAATTCA
66 GAAACTTGAAAAAAATTCA
37380090 TTGCAAGTATCTTTATTTCTTTATTTTAGGCAATATTCCTAACAGATACTCCATTAAACATCCAT
1 TTGCAAGTATCTTTATTTCTTTATTTTAGGCAATATTCCTAACAGATACTCCATTAAACATCCAT
37380155 GAAACTTGAAAAAAATTCA
66 GAAACTTGAAAAAAATTCA
37380174 T
1 T
37380175 GCTCATGGTT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (84 bp):
TTGCAAGTATCTTTATTTCTTTATTTTAGGCAATATTCCTAACAGATACTCCATTAAACATCCAT
GAAACTTGAAAAAAATTCA
Found at i:37391573 original size:7 final size:8
Alignment explanation
Indices: 37391548--37391573 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
37391538 TTTTAATTTA
37391548 TTTCAATT
1 TTTCAATT
37391556 TTTCAATT
1 TTTCAATT
37391564 TTTCAATT
1 TTTCAATT
37391572 TT
1 TT
37391574 AATATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTCAATT
Found at i:37394643 original size:103 final size:104
Alignment explanation
Indices: 37394399--37394664 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
37394389 GTTGTACATA
** *
37394399 AAGGGGTTGCTGCGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
37394464 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
37394503 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
37394568 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
37394606 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
37394665 AATAACGGTC
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:37396724 original size:56 final size:56
Alignment explanation
Indices: 37396657--37396769 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
37396647 GTTAACCCAT
37396657 GTTTAAATTTTGAAAATTGTTGTGTTGTGAGCATTCGGTCATGAATTGAATTGAAG
1 GTTTAAATTTTGAAAATTGTTGTGTTGTGAGCATTCGGTCATGAATTGAATTGAAG
37396713 GTTTAAATTTTGAAAATTGTTGTGTTGTGAGCATTCGGTCATGAATTGAATTGAAG
1 GTTTAAATTTTGAAAATTGTTGTGTTGTGAGCATTCGGTCATGAATTGAATTGAAG
37396769 G
1 G
37396770 AAATGGTTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41
Consensus pattern (56 bp):
GTTTAAATTTTGAAAATTGTTGTGTTGTGAGCATTCGGTCATGAATTGAATTGAAG
Found at i:37397573 original size:43 final size:43
Alignment explanation
Indices: 37397511--37397662 Score: 241
Period size: 43 Copynumber: 3.5 Consensus size: 43
37397501 ACGGTACTAT
* *
37397511 TCGGGCCTTCGAGCCTAGCATGCTATAATGCCGGTGAGTTAATA
1 TCGGG-CTTCAAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
37397555 TCGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
1 TCGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
*
37397598 TCGGGCTTCAAACCTAGCAGGCTATAATGCCGGTGAGTTAATA
1 TCGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
* * *
37397641 TCAGGCTTCGAGCCTAGTAGGC
1 TCGGGCTTCAAGCCTAGCAGGC
37397663 GTAATTTCGG
Statistics
Matches: 101, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
43 96 0.95
44 5 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (43 bp):
TCGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
Found at i:37398965 original size:58 final size:60
Alignment explanation
Indices: 37398897--37399027 Score: 162
Period size: 61 Copynumber: 2.2 Consensus size: 60
37398887 TAATTCAGAT
* *
37398897 TTTAATAATAATTATGTTAAGA-ATG-TT-ATTAATTTATATATTA-TTTTAATAAATTTTA
1 TTTAATAATAATTATGTTAAAATATGATTAATT-ATTTAT-TATTATTTTTAATAAATTATA
* * *
37398955 TTTATTAATAATTATGTTAAAATATGATTAAATTATTTATTTTTATTTTTATTAAATTATA
1 TTTAATAATAATTATGTTAAAATATGATT-AATTATTTATTATTATTTTTAATAAATTATA
37399016 TTTAATAATAAT
1 TTTAATAATAAT
37399028 CTTATTAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
58 20 0.32
59 3 0.05
60 6 0.10
61 30 0.48
62 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (60 bp):
TTTAATAATAATTATGTTAAAATATGATTAATTATTTATTATTATTTTTAATAAATTATA
Found at i:37398968 original size:29 final size:28
Alignment explanation
Indices: 37398897--37398976 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 28
37398887 TAATTCAGAT
* *
37398897 TTTAATAATAATTATGTTAAGAATGTTA
1 TTTATTAATAATTATGTTAAAAATGTTA
* * * *
37398925 TTAATTTATATATTATTTTAATAAATTTTA
1 TTTATTAATA-ATTATGTTAA-AAATGTTA
37398955 TTTATTAATAATTATGTTAAAA
1 TTTATTAATAATTATGTTAAAA
37398977 TATGATTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
28 9 0.22
29 18 0.44
30 14 0.34
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (28 bp):
TTTATTAATAATTATGTTAAAAATGTTA
Found at i:37401347 original size:22 final size:23
Alignment explanation
Indices: 37401321--37401377 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
37401311 ACCAAAACAT
* *
37401321 CACCAAAACAGCAT-CAAGATAG
1 CACCAAAACAGCATAAAAAATAG
37401343 CACCAAAACAGCATAAAAAATAG
1 CACCAAAACAGCATAAAAAATAG
37401366 CACC-AAACAGCA
1 CACCAAAACAGCA
37401378 GCAGTGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.54, C:0.28, G:0.11, T:0.07
Consensus pattern (23 bp):
CACCAAAACAGCATAAAAAATAG
Found at i:37401355 original size:11 final size:11
Alignment explanation
Indices: 37401310--37401377 Score: 57
Period size: 11 Copynumber: 6.2 Consensus size: 11
37401300 CAAAAAGTAA
*
37401310 CACCAAAACAT
1 CACCAAAACAG
37401321 CACCAAAACAG
1 CACCAAAACAG
* * *
37401332 CATCAAGATAG
1 CACCAAAACAG
37401343 CACCAAAACAG
1 CACCAAAACAG
** *
37401354 CATAAAAAATAG
1 CA-CCAAAACAG
37401366 CACC-AAACAG
1 CACCAAAACAG
37401376 CA
1 CA
37401378 GCAGTGAAAA
Statistics
Matches: 43, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
10 7 0.16
11 28 0.65
12 8 0.19
ACGTcount: A:0.54, C:0.29, G:0.09, T:0.07
Consensus pattern (11 bp):
CACCAAAACAG
Found at i:37404720 original size:22 final size:22
Alignment explanation
Indices: 37404695--37404738 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
37404685 TTTGGGGAGC
*
37404695 ACCGAGATTGCAAATGAAGAAG
1 ACCGAGACTGCAAATGAAGAAG
37404717 ACCGAGACTGCAAATGAAGAAG
1 ACCGAGACTGCAAATGAAGAAG
37404739 CAAAAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.16, G:0.27, T:0.11
Consensus pattern (22 bp):
ACCGAGACTGCAAATGAAGAAG
Found at i:37405381 original size:57 final size:57
Alignment explanation
Indices: 37405293--37405411 Score: 157
Period size: 57 Copynumber: 2.1 Consensus size: 57
37405283 ATGTTGTCTT
* * * *
37405293 AATGTAATTTATAGTTGGTGTCAAAATGTCTCCTAATGTGCATATCTATGCTATCCA
1 AATGTAATTTACAGCTGCTGTCAAAATGTCTCCTAATGTGCATATCTATGCTATCAA
* * * * *
37405350 AATGTAATTTACAGCTGCTGTCATAATGTCTCTTCATGTGCATATTTATGTTATCAA
1 AATGTAATTTACAGCTGCTGTCAAAATGTCTCCTAATGTGCATATCTATGCTATCAA
37405407 AATGT
1 AATGT
37405412 GAATAATTGC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (57 bp):
AATGTAATTTACAGCTGCTGTCAAAATGTCTCCTAATGTGCATATCTATGCTATCAA
Found at i:37407488 original size:16 final size:15
Alignment explanation
Indices: 37407464--37407493 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37407454 AACTATTTTA
37407464 TTACAAATTTCACTC
1 TTACAAATTTCACTC
37407479 TTACATAATTTCACT
1 TTACA-AATTTCACT
37407494 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:37407962 original size:151 final size:149
Alignment explanation
Indices: 37407691--37408039 Score: 515
Period size: 151 Copynumber: 2.3 Consensus size: 149
37407681 GTAACCGAAG
* * * ** *
37407691 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACA-TGCGACC-AACAATCTGGTACATG
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACT-TGACCTAACAATCTGACACACG
* *
37407754 TAGTAGCCTGCACTTAGTACTACACGTGATTGAAGTTGTCGGGTACGCGTAGTAGCTTGCACTTA
65 TAGTAGCCTGCACTTAGTACTACACGTGATTGAAGTTGTCAGGTACGCATAGTAGCTTGCACTTA
*
37407819 GTACTACACATGCGACCTAT
130 GTACTACACATGCGACCTAA
* *
37407839 CTATCTGGTACACGTTGTAGCCTGCACTTAGTACTACACACTTGACCTAACCAGT-TGACACACG
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACTTGACCTAA-CAATCTGACACACG
37407903 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTCAGGTACGCATAGTAGCTTGCACT
65 TAGTAGCCTGCACTTAGTACT--ACACGTGATTGAAGTTGTCAGGTACGCATAGTAGCTTGCACT
37407968 TAGTACTACACATGCGACCTAA
128 TAGTACTACACATGCGACCTAA
* * *
37407990 CTATCTGGTACACGTAGTAGCCTACACTTAGTACTACAGACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACTTGACCTAA
37408040 AACCATCTTA
Statistics
Matches: 181, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
148 41 0.23
149 30 0.17
150 3 0.02
151 107 0.59
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (149 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACTTGACCTAACAATCTGACACACGT
AGTAGCCTGCACTTAGTACTACACGTGATTGAAGTTGTCAGGTACGCATAGTAGCTTGCACTTAG
TACTACACATGCGACCTAA
Found at i:37408037 original size:50 final size:50
Alignment explanation
Indices: 37407691--37408039 Score: 332
Period size: 50 Copynumber: 7.0 Consensus size: 50
37407681 GTAACCGAAG
* * * *
37407691 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * *
37407740 CAATCTGGTACATGTAGTAGCCTGCACTTAGTACT--ACACGTGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * * * * * *
37407788 GTTGTCGGGTACGCGTAGTAGCTTGCACTTAGTACTACACATGCGACCTAT
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
37407839 CTATCTGGTACACGTTGTAGCCTGCACTTAGTACTACACACTTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* ** *
37407889 CCAGT-TGACACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA
1 CTA-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * * * * * *
37407939 GTTGTCAGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
37407990 CTATCTGGTACACGTAGTAGCCTACACTTAGTACTACAGACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
37408040 AACCATCTTA
Statistics
Matches: 233, Mismatches: 56, Indels: 21
0.75 0.18 0.07
Matches are distributed among these distances:
47 6 0.03
48 2 0.01
49 60 0.26
50 121 0.52
51 42 0.18
52 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:37420283 original size:10 final size:10
Alignment explanation
Indices: 37420268--37420299 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
37420258 TAAATACATT
37420268 TAATTAAAGA
1 TAATTAAAGA
37420278 TAATTAAAGA
1 TAATTAAAGA
37420288 TAATTAAA-A
1 TAATTAAAGA
37420297 TAA
1 TAA
37420300 AATTCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:37420987 original size:15 final size:14
Alignment explanation
Indices: 37420962--37420997 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
37420952 CCTTTTTTGA
*
37420962 TTTT-TTTAATTTT
1 TTTTATTTAAATTT
37420975 TTTTATTTAAATTT
1 TTTTATTTAAATTT
37420989 TTTTATTTA
1 TTTTATTTA
37420998 TTTACTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTAAATTT
Found at i:37421260 original size:118 final size:118
Alignment explanation
Indices: 37421105--37421334 Score: 345
Period size: 118 Copynumber: 1.9 Consensus size: 118
37421095 TATTTCCGGT
*
37421105 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGTGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* * *
37421170 CCTACCCC-AGTTACTCAGTCAGACACGATTTGAGCTATGCTCATAACCTCGGC
66 CCTACCCCGA-TTACTCAGTCAGACACGATCTAAGCTATACTCATAACCTCGGC
**** *
37421223 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCTAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
37421288 CCTACCCCGATTACTCAGTCAGTCACGATCTAAGCTGTACTCATAAC
66 CCTACCCCGATTACTCAGTCAGACACGATCTAAGCTATACTCATAAC
37421335 AATGGAAAAC
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
118 99 0.99
119 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGATTACTCAGTCAGACACGATCTAAGCTATACTCATAACCTCGGC
Found at i:37422256 original size:5 final size:5
Alignment explanation
Indices: 37422246--37422296 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
37422236 AATATTTAAC
*
37422246 TAAAA TAAAA TAAAA TAAAAA TAAAA TAATAA -ATAA T-AAA TAAAAA
1 TAAAA TAAAA TAAAA T-AAAA TAAAA TAA-AA TAAAA TAAAA T-AAAA
37422292 TAAAA
1 TAAAA
37422297 AGAAAGATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 5 0.13
5 23 0.59
6 11 0.28
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:37422268 original size:11 final size:11
Alignment explanation
Indices: 37422246--37422296 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
37422236 AATATTTAAC
37422246 TAAAAT-AAAA
1 TAAAATAAAAA
37422256 TAAAATAAAAA
1 TAAAATAAAAA
37422267 TAAAATAATAAA
1 TAAAATAA-AAA
37422279 TAATAAATAAAAA
1 T-A-AAATAAAAA
37422292 TAAAA
1 TAAAA
37422297 AGAAAGATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.16
11 15 0.41
12 5 0.14
13 5 0.14
14 6 0.16
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:37422278 original size:19 final size:19
Alignment explanation
Indices: 37422248--37422290 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 19
37422238 TATTTAACTA
37422248 AAATAAAAT-A-AAATAA-
1 AAATAAAATAATAAATAAT
37422264 AAATAAAATAATAAATAAT
1 AAATAAAATAATAAATAAT
37422283 AAATAAAA
1 AAATAAAA
37422291 ATAAAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.38
17 1 0.04
18 6 0.25
19 8 0.33
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATAAAATAATAAATAAT
Found at i:37428684 original size:20 final size:20
Alignment explanation
Indices: 37428646--37428693 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
37428636 TAAATTCTAG
* **
37428646 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
37428666 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
37428686 AAA-ATAAA
1 AAAGATAAA
37428694 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:37430080 original size:49 final size:49
Alignment explanation
Indices: 37430018--37430192 Score: 207
Period size: 49 Copynumber: 3.6 Consensus size: 49
37430008 TGTGCATGCT
*
37430018 AGTGTAAGACCTGTCAGGGACATGGCATCGGCACCAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCAATAGATGAGAGCC
*
37430067 AGTGTAAGACCTGTCTGGGACATGGCATCGACA-CAGATA-AGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCA-ATAGA-TGAGAGCC
* * * * *
37430116 AGTGTAAGACCTATCTGGGACACGACATCGGC-CTCGAT-GTAT-AGAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCAC-CAATAG-ATGAG-AGCC
37430165 AGTGTAAGACCTGTCTGGGACATGGCAT
1 AGTGTAAGACCTGTCTGGGACATGGCAT
37430193 TGGCTTAGAT
Statistics
Matches: 108, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
48 5 0.05
49 101 0.94
50 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.20
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCAATAGATGAGAGCC
Found at i:37430204 original size:49 final size:49
Alignment explanation
Indices: 37430018--37430242 Score: 203
Period size: 49 Copynumber: 4.6 Consensus size: 49
37430008 TGTGCATGCT
*
37430018 AGTGTAAGACCTGTCAGGGACATGGCATCGGCACCA-ATAG-ATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CCAGAT-GTATGAGAGCC
* * *
37430067 AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGAT-AAGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCCAGATGTA-TGAGAGCC
* * * *
37430116 AGTGTAAGACCTATCTGGGACACGACATCGGCCTC-GATGTAT-AGAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCC-CAGATGTATGAG-AGCC
* **
37430165 AGTGTAAGACCTGTCTGGGACATGGCATTGGCTTAGATG--TGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCCAGATGTATGAGAGCC
* * * * *
37430212 ACTATAAGACCATGTTTGGAACATGGTATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCG
37430243 ACATCGTACC
Statistics
Matches: 144, Mismatches: 23, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
47 13 0.09
48 22 0.15
49 107 0.74
50 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCCCAGATGTATGAGAGCC
Done.