Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 208 of 276
Found at i:69034961 original size:28 final size:28
Alignment explanation
Indices: 69034923--69035188 Score: 435
Period size: 28 Copynumber: 9.5 Consensus size: 28
69034913 TAAATTGTAC
*
69034923 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69034951 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69034979 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69035007 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69035035 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69035063 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69035091 AGCACTAAGTGTGCAAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69035119 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69035147 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69035174 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69035189 GACTTATTAT
Statistics
Matches: 223, Mismatches: 15, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
27 24 0.11
28 199 0.89
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:69038319 original size:20 final size:20
Alignment explanation
Indices: 69038294--69038352 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
69038284 ACTTTGAAAC
69038294 AGGGCACACGCCCGTGTGGA
1 AGGGCACACGCCCGTGTGGA
* *
69038314 AGGGCAACACACCCATGTGGA
1 AGGGC-ACACGCCCGTGTGGA
* *
69038335 AGGGTGACATGCCCGTGT
1 AGGG-CACACGCCCGTGT
69038353 CCTCCACCCG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.24, C:0.27, G:0.36, T:0.14
Consensus pattern (20 bp):
AGGGCACACGCCCGTGTGGA
Found at i:69040188 original size:79 final size:81
Alignment explanation
Indices: 69040032--69040216 Score: 193
Period size: 79 Copynumber: 2.3 Consensus size: 81
69040022 TTGAATGATG
* *
69040032 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
*
69040096 TGTCCTAGATACTA-A
66 TGTCCGAGATACTATA
* * * *
69040111 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCAGG-TTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCC-GGACTAAGAT-CCGAAGGC
* *
69040172 AATTGTGCGAGTTACTATA
63 AATTGTCCGAGATACTATA
* * *
69040191 ACCGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
69040217 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
78 1 0.01
79 52 0.59
80 35 0.40
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTCCGAGATACTATA
Found at i:69040223 original size:40 final size:40
Alignment explanation
Indices: 69040036--69040216 Score: 167
Period size: 40 Copynumber: 4.5 Consensus size: 40
69040026 ATGATGTCCG
* * * *
69040036 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCA
* * * * *
69040075 GGACTAAGAT-CCGAAGGCATTTGTCCTAGATACTAATTCCG
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
69040116 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
* *
69040155 GGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA-CC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCA
*
69040194 GAGCTATGTCCCGAAGGCATTTG
1 G-GCTAAGTCCCGAAGGCATTTG
69040217 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
39 35 0.30
40 71 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
Found at i:69047505 original size:79 final size:81
Alignment explanation
Indices: 69047370--69047553 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 81
69047360 TGAATGATGT
* * *
69047370 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
*
69047434 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATA-A
* * * * **
69047450 TCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAAT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAAT
*
69047512 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
69047529 CCGGGCTATGCCCCGAAGGCATTTG
1 CCGGGCTAAGCCCCGAAGGCATTTG
69047554 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 31 0.35
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGCCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATAA
Found at i:69047560 original size:40 final size:39
Alignment explanation
Indices: 69047369--69047553 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
69047359 TTGAATGATG
* * * *
69047369 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
69047409 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
*
69047449 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69047488 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
*
69047529 -CCGGGCTATGCCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
69047554 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69047575 original size:79 final size:79
Alignment explanation
Indices: 69047422--69047586 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
69047412 GGACTAAGAT
* ** **
69047422 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
69047487 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
69047501 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGCCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
69047564 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
69047580 CCGAAGG
1 CCGAAGG
69047587 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:69050067 original size:46 final size:44
Alignment explanation
Indices: 69049978--69050146 Score: 146
Period size: 46 Copynumber: 3.7 Consensus size: 44
69049968 GCATATCTGT
*
69049978 GTCGATGCCATGTCCCAAACATGGTCTTACACTGACACCTCTCGTA-
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGACACCTCTCG-AG
* *
69050024 GTCGATGCATGT-CCAGGACATGTCTTACACTGGCTTACGTCTCGAG
1 GTCGATGCATGTCCCA-GACATGTCTTACACTGAC--ACCTCTCGAG
* * * * *
69050070 GCCAAAGCATGTCCCAGACATGTCTTACACT-AGCACTCATCTCAAT
1 GTCGATGCATGTCCCAGACATGTCTTACACTGA-CAC-C-TCTCGAG
69050116 GTCGATGCCATGTCCCAGACATGGTCTTACA
1 GTCGATG-CATGTCCCAGACAT-GTCTTACA
69050147 GTGGCTCTTA
Statistics
Matches: 100, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
44 17 0.17
45 10 0.10
46 48 0.48
47 17 0.17
48 8 0.08
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (44 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTGACACCTCTCGAG
Found at i:69063300 original size:15 final size:15
Alignment explanation
Indices: 69063280--69063310 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
69063270 ATTTAGGGTC
69063280 TATTTGAGTAATGTA
1 TATTTGAGTAATGTA
69063295 TATTTGAGTAATGTA
1 TATTTGAGTAATGTA
69063310 T
1 T
69063311 GAAGTTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (15 bp):
TATTTGAGTAATGTA
Found at i:69073832 original size:27 final size:26
Alignment explanation
Indices: 69073784--69073835 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
69073774 GCGAGCCTGC
*
69073784 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
69073810 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
69073836 CTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:69077364 original size:47 final size:47
Alignment explanation
Indices: 69077307--69077563 Score: 347
Period size: 47 Copynumber: 5.4 Consensus size: 47
69077297 ATTGATGTAC
* * *
69077307 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
69077354 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
69077403 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
69077450 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGAGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
69077497 AAGTGTATATATGTGATAAGGCCGAATGGCAAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
69077544 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
69077564 TCCCGAAGGG
Statistics
Matches: 189, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
46 1 0.01
47 147 0.78
49 40 0.21
50 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.26
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:69077535 original size:22 final size:22
Alignment explanation
Indices: 69077414--69077535 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
69077404 CATGTGTATG
*
69077414 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCAAA
* *
69077436 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGCA-A-A
* *
69077461 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCAAA
* * * *
69077483 TGTGATGAATG-AGAAAGTGTATATA
1 TGTGAT-AAGGCCGAATG-GCA-A-A
69077508 TGTGATAAGGCCGAATGGCAAA
1 TGTGATAAGGCCGAATGGCAAA
69077530 TGTGAT
1 TGTGAT
69077536 GGATGTGGAA
Statistics
Matches: 71, Mismatches: 17, Indels: 24
0.63 0.15 0.21
Matches are distributed among these distances:
22 24 0.34
23 14 0.20
24 15 0.21
25 18 0.25
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCAAA
Found at i:69085659 original size:33 final size:32
Alignment explanation
Indices: 69085608--69085669 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
69085598 ACGAAGTCAC
* *
69085608 CAGATACAGATATTGTGGCTAGGCCACCATAA
1 CAGATACAGATATTGTGGCAAAGCCACCATAA
* *
69085640 CAGATATATATATGTGTGGCAAAGCCACCA
1 CAGATACAGATAT-TGTGGCAAAGCCACCA
69085670 GATTGCAGCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 11 0.44
33 14 0.56
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCAAAGCCACCATAA
Found at i:69089500 original size:48 final size:48
Alignment explanation
Indices: 69089444--69089575 Score: 183
Period size: 48 Copynumber: 2.8 Consensus size: 48
69089434 GTGTGAATTA
* * * *
69089444 TACCTTGATTTGGCTTCGAGCCATGGTATAGGTATTTCAGAGATGAGT
1 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCAGAGATAAGT
* * * *
69089492 TACCTTGATTTGGCTACGGGCCATAGTATAGGTACTCCGGGGATAAGT
1 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCAGAGATAAGT
*
69089540 TACTTTGATTTGGCTTCGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACT
69089576 TATTGATTGA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (48 bp):
TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCAGAGATAAGT
Found at i:69094665 original size:42 final size:41
Alignment explanation
Indices: 69094614--69094733 Score: 150
Period size: 42 Copynumber: 2.9 Consensus size: 41
69094604 ATTGAGATTA
*
69094614 CGTGTAAGACCATATCTGGGATATGGCATTGATATGAGACTT
1 CGTGTAAGACCATATCTGGGATATGGCATTGATATGAGA-TC
* * * * *
69094656 TGTGTAAGACCATAGCTAGGCTATTGGCATCGATATGAGATC
1 CGTGTAAGACCATATCTGGGATA-TGGCATTGATATGAGATC
* *
69094698 CATGTAAGACCATATCTGGGATATGGCATTGGTATG
1 CGTGTAAGACCATATCTGGGATATGGCATTGATATG
69094734 GTGCTATGAG
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 11 0.17
42 38 0.59
43 15 0.23
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (41 bp):
CGTGTAAGACCATATCTGGGATATGGCATTGATATGAGATC
Found at i:69102176 original size:12 final size:12
Alignment explanation
Indices: 69102159--69102183 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69102149 ATAGGTTTCA
69102159 AAAATGGAAATG
1 AAAATGGAAATG
69102171 AAAATGGAAATG
1 AAAATGGAAATG
69102183 A
1 A
69102184 TTCATTTGCA
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:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:69103025 original size:10 final size:10
Alignment explanation
Indices: 69103012--69103036 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
69103002 GTTTAATTGT
69103012 ATTTAGTTAC
1 ATTTAGTTAC
69103022 ATTTAGTTAC
1 ATTTAGTTAC
69103032 ATTTA
1 ATTTA
69103037 TTTAAACCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (10 bp):
ATTTAGTTAC
Found at i:69103863 original size:15 final size:16
Alignment explanation
Indices: 69103843--69103880 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
69103833 ATTTTGAATG
69103843 TTTATTATGTGTG-AA
1 TTTATTATGTGTGAAA
69103858 TTTATT-TGTGTGAAA
1 TTTATTATGTGTGAAA
69103873 TTT-TTATG
1 TTTATTATG
69103881 CTTTAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (16 bp):
TTTATTATGTGTGAAA
Found at i:69106263 original size:46 final size:46
Alignment explanation
Indices: 69106213--69106341 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
69106203 TGGTTGAGCA
*
69106213 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
69106259 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
69106305 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69106342 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:69107879 original size:56 final size:56
Alignment explanation
Indices: 69107763--69107890 Score: 179
Period size: 56 Copynumber: 2.3 Consensus size: 56
69107753 AGTAAGACCA
* * *
69107763 TGGCATCGATATATGACTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTCTAAGACGT
**
69107819 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACC-CTGTCTGGGACAG-
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCAC-GTCTAAGAC-GT
69107875 TGGCATCGATATGTGA
1 TGGCATCGATATGTGA
69107891 TTACATGTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
55 1 0.02
56 63 0.97
57 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTCTAAGACGT
Found at i:69112627 original size:43 final size:44
Alignment explanation
Indices: 69112578--69112728 Score: 159
Period size: 43 Copynumber: 3.5 Consensus size: 44
69112568 GGTTATCGAG
* *
69112578 ATGTGATTACATGTAAGACCATGTCTAGGACATTGTCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATAGTAT
* *
69112622 -TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATAGTTAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATAG-TAT
* * * * *
69112666 ATGT--TTTCAAGTAAGAACC-TTTCTAGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAG-ACCATGTCTAGGACATTGGCATAGTAT
*
69112707 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
69112729 ATCTGGGATA
Statistics
Matches: 87, Mismatches: 14, Indels: 13
0.76 0.12 0.11
Matches are distributed among these distances:
41 6 0.07
42 3 0.03
43 69 0.79
44 6 0.07
45 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATAGTAT
Found at i:69115909 original size:48 final size:46
Alignment explanation
Indices: 69115849--69115956 Score: 121
Period size: 46 Copynumber: 2.3 Consensus size: 46
69115839 CCTAGAAAGA
69115849 TCTTACACTAGCTCGTATATCTT-AA-GTCCGATGCATGTCCCAGACATG
1 TCTTACACTAGCTC-T-TAT-TTCAATG-CCGATGCATGTCCCAGACATG
* * * *
69115897 TCTTACATTAGCTCTTGTTTCAATGCCGTTGCATGTTCCAGACATG
1 TCTTACACTAGCTCTTATTTCAATGCCGATGCATGTCCCAGACATG
*
69115943 TCTTACACTGGCTC
1 TCTTACACTAGCTC
69115957 ACATACCACC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
45 2 0.04
46 35 0.67
47 2 0.04
48 13 0.25
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (46 bp):
TCTTACACTAGCTCTTATTTCAATGCCGATGCATGTCCCAGACATG
Found at i:69119043 original size:37 final size:37
Alignment explanation
Indices: 69118994--69119092 Score: 132
Period size: 37 Copynumber: 2.7 Consensus size: 37
69118984 CGACAACGGT
69118994 TATATATAGGTCTTTCAGGGTGACACCGTGTAAA-TG
1 TATATATAGGTCTTTCAGGGTGACACCGTGTAAACTG
* * *
69119030 ATATATAGAGGTCTTTCAAGGAGACACCGTGTAAACTG
1 -TATATATAGGTCTTTCAGGGTGACACCGTGTAAACTG
*
69119068 T-T-TATAGGTCCTTCAGGGTGACACC
1 TATATATAGGTCTTTCAGGGTGACACC
69119093 TTGGAAGAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
35 19 0.35
36 1 0.02
37 32 0.59
38 2 0.04
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (37 bp):
TATATATAGGTCTTTCAGGGTGACACCGTGTAAACTG
Found at i:69121866 original size:39 final size:40
Alignment explanation
Indices: 69121762--69121942 Score: 183
Period size: 40 Copynumber: 4.5 Consensus size: 40
69121752 ATGATGTCCG
* * * *
69121762 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCA
* * *
69121801 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTTCG
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
* *
69121842 GGCTAAG-CCCGAAGGTATTGGTGCGAGTTACTAAATCCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
* *
69121881 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCA
*
69121921 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
69121943 AACAAGTAGC
Statistics
Matches: 118, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
39 34 0.29
40 72 0.61
41 12 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
Found at i:69121964 original size:79 final size:78
Alignment explanation
Indices: 69121759--69121975 Score: 210
Period size: 79 Copynumber: 2.7 Consensus size: 78
69121749 CGAATGATGT
* *
69121759 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACCATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
69121822 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* * * * *
69121839 TCGGGCTAAG-CCCGAAGGTATTGGTGCGAGTTA-CTAAATCCAGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
69121902 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
69121918 CCGGGCTATGTCCCGAAGGCATTTGAACAAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGTT-AAGTCCGAAGG
69121976 TACGTGATTC
Statistics
Matches: 111, Mismatches: 17, Indels: 19
0.76 0.12 0.13
Matches are distributed among these distances:
78 3 0.03
79 65 0.59
80 43 0.39
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:69133769 original size:183 final size:183
Alignment explanation
Indices: 69133454--69133818 Score: 667
Period size: 183 Copynumber: 2.0 Consensus size: 183
69133444 AAACCTTATG
*
69133454 GCTTAGTGGCAAGTGGCGTGTGGAGCATTTGAGGGGAGGCATGGGTTCGAATCCCATGGCAAGCA
1 GCTTAGTGGCAAGTGGCGTGTAGAGCATTTGAGGGGAGGCATGGGTTCGAATCCCATGGCAAGCA
*
69133519 AAAAGCATTTATTTTGCTAACATGGGGCGGCAAGAGTTGGTGTTGAATTTAAACTCTGAAATTGG
66 AAAAGCATTTATTTTGCTAACAGGGGGCGGCAAGAGTTGGTGTTGAATTTAAACTCTGAAATTGG
69133584 AGGGATCCCACATCGGGAAGCTAACATAAGAGTGGATGGGAAGCTGGCTTTAC
131 AGGGATCCCACATCGGGAAGCTAACATAAGAGTGGATGGGAAGCTGGCTTTAC
*
69133637 GCTTAGTGGCAAGTGGCGTGTAGAGCATTTGAGGGGAGGCATGGGTTCGAATCCCATGGCATGCA
1 GCTTAGTGGCAAGTGGCGTGTAGAGCATTTGAGGGGAGGCATGGGTTCGAATCCCATGGCAAGCA
* * *
69133702 AAGAGCATTTCTTTTGCTAACAGGGGGCGGCAAGAGTTGGTGTTGAATTTAAACTCTGAAGTTGG
66 AAAAGCATTTATTTTGCTAACAGGGGGCGGCAAGAGTTGGTGTTGAATTTAAACTCTGAAATTGG
*
69133767 AGGGATCCCACATCGGGAAGCTAACTTAAGAGTGGATGGGAAGCTGGCTTTA
131 AGGGATCCCACATCGGGAAGCTAACATAAGAGTGGATGGGAAGCTGGCTTTA
69133819 AATAGAGAGA
Statistics
Matches: 175, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 175 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.25
Consensus pattern (183 bp):
GCTTAGTGGCAAGTGGCGTGTAGAGCATTTGAGGGGAGGCATGGGTTCGAATCCCATGGCAAGCA
AAAAGCATTTATTTTGCTAACAGGGGGCGGCAAGAGTTGGTGTTGAATTTAAACTCTGAAATTGG
AGGGATCCCACATCGGGAAGCTAACATAAGAGTGGATGGGAAGCTGGCTTTAC
Found at i:69134384 original size:245 final size:245
Alignment explanation
Indices: 69133990--69134442 Score: 852
Period size: 245 Copynumber: 1.8 Consensus size: 245
69133980 TGGCTACTTC
69133990 GGGCCGAAAGGGGCCAGTGGGCCCAATAGGCCTACAGGCCCAATTGGATAAATTGTTTGATTGTG
1 GGGCCGAAAGGGGCCAGTGGGCCCAATAGGCCTACAGGCCCAATTGGATAAATTGTTTGATTGTG
69134055 TAGTAAATATTGGACTAGGCTAGGTGAATCGCATATCTGTGGCTAGGTTTGGGCTAAAAGGGCCA
66 TAGTAAATATTGGACTAGGCTAGGTGAATCGCATATCTGTGGCTAGGTTTGGGCTAAAAGGGCCA
69134120 CACGAGCGTGTGGGCCCATTTCGGCCGAGAATAGGCTTTAGGCCCATTCGTATTGTTATCCATGT
131 CACGAGCGTGTGGGCCCATTTCGGCCGAGAATAGGCTTTAGGCCCATTCGTATTGTTATCCATGT
69134185 TTAGAATACTTTATTACTCTTGTTGTTGGATGGCTACTTCGGGCCGCGAT
196 TTAGAATACTTTATTACTCTTGTTGTTGGATGGCTACTTCGGGCCGCGAT
* * *
69134235 GGGCCGAAAGGGGCCGGTGGGCCCAATGGGCCTACGGGCCCAATTGGATAAATTGTTTGATTGTG
1 GGGCCGAAAGGGGCCAGTGGGCCCAATAGGCCTACAGGCCCAATTGGATAAATTGTTTGATTGTG
* *
69134300 TAGTAAGTATTGGACTAGGCTAGGTGAATTGCATATCTGTGGCTAGGTTTGGGCTAAAAGGGCCA
66 TAGTAAATATTGGACTAGGCTAGGTGAATCGCATATCTGTGGCTAGGTTTGGGCTAAAAGGGCCA
*
69134365 CACGAGCGTGTGGGCCCATTTGGGCCGAGAATAGGCTTTAGGCCCATTCGTATTGTTATCCATGT
131 CACGAGCGTGTGGGCCCATTTCGGCCGAGAATAGGCTTTAGGCCCATTCGTATTGTTATCCATGT
69134430 TTAGAATACTTTA
196 TTAGAATACTTTA
69134443 GTTTACCAAT
Statistics
Matches: 202, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
245 202 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (245 bp):
GGGCCGAAAGGGGCCAGTGGGCCCAATAGGCCTACAGGCCCAATTGGATAAATTGTTTGATTGTG
TAGTAAATATTGGACTAGGCTAGGTGAATCGCATATCTGTGGCTAGGTTTGGGCTAAAAGGGCCA
CACGAGCGTGTGGGCCCATTTCGGCCGAGAATAGGCTTTAGGCCCATTCGTATTGTTATCCATGT
TTAGAATACTTTATTACTCTTGTTGTTGGATGGCTACTTCGGGCCGCGAT
Found at i:69134524 original size:27 final size:27
Alignment explanation
Indices: 69134494--69135212 Score: 763
Period size: 27 Copynumber: 27.0 Consensus size: 27
69134484 AAAGTACTCC
69134494 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
69134521 CGATTTATAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
69134548 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
69134575 CGATTTAGAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
69134602 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* ** *
69134629 CAATTTGTAAAATTACCG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
69134655 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
69134682 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
69134709 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
69134736 CAATTTGTAAAATTACCG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
69134762 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
69134789 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
69134816 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
69134843 CAATTTGTAAAATTACCG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
69134869 TGATTTAC------A-CGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
69134889 CGATTTACATAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
69134916 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
69134943 CGATTTACAGAATTACCGTTTTACGCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
69134970 CGATTTATAGAATAATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
69134997 CAATTTTTA-ATATTACCGTTTTACCCT
1 CGATTTACAGA-ATTACCGTTTTACCCT
* *
69135024 CGATTTAGAGAATTACCGTCTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
69135051 C-AGTTTACAGAATTACTGCTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
69135078 CGATTTACAGAATTACCGTTTAACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
69135105 TGATTTGCAAAATTACCG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
69135131 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
69135158 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
69135185 CGATTTAGAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
69135212 C
1 C
69135213 AGNNNNNNNN
Statistics
Matches: 574, Mismatches: 93, Indels: 50
0.80 0.13 0.07
Matches are distributed among these distances:
19 2 0.00
20 16 0.03
26 82 0.14
27 467 0.81
28 7 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:69134704 original size:107 final size:109
Alignment explanation
Indices: 69134494--69135214 Score: 816
Period size: 107 Copynumber: 6.8 Consensus size: 109
69134484 AAAGTACTCC
* * * * ** *
69134494 CGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCAATTTTTAAA
1 CGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAGA
* * *
69134559 ATTACCGTTTTACCCTC-GATTTAGAGAATTACCGTTTTACCCT
66 ATTACTGTTTTACCCTCAGATTTACAAAATTACCGTTTTACCCT
* *
69134602 C-AGTTTACAGAATTACCGTTTTACCCTCAATTTGTAAAATTACCG-TTTACCCTTGATTTACAG
1 CGA-TTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAG
* *
69134665 AATTACTGGTTTACCCTCAG-TTTACAAAATTATCGTTTTACCCT
65 AATTACTGTTTTACCCTCAGATTTACAAAATTACCGTTTTACCCT
* *
69134709 CGATTTACAGAATTACCGTTTTACCCTCAATTTGTAAAATTACCG-TTTACCCTTGATTTACAGA
1 CGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAGA
* *
69134773 ATTACTGGTTTACCCTCAG-TTTACAAAATTATCGTTTTACCCT
66 ATTACTGTTTTACCCTCAGATTTACAAAATTACCGTTTTACCCT
* *
69134816 CGATTTACAGAATTACCGTTTTACCCTCAATTTGTAAAATTACCG-TTTACCCTTGATTTAC---
1 CGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAGA
* **
69134877 ---AC-GTTTTACCCTC-GATTTACATAATTACTATTTTACCCT
66 ATTACTGTTTTACCCTCAGATTTACAAAATTACCGTTTTACCCT
* * * * *
69134916 C-AGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACGCTCGATTTATAG
1 CGA-TTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAG
* ** *
69134980 AA-TAATCGTTTTACCCTCA-ATTTTTAATATTACCGTTTTACCCT
65 AATTACT-GTTTTACCCTCAGATTTACAAAATTACCGTTTTACCCT
* * * * * * *
69135024 CGATTTAGAGAATTACCGTCTTACCCTCAGTTTACAGAATTACTGCTTTACCCTCGATTTACAGA
1 CGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAGA
* * * *
69135089 ATTACCGTTTAACCCT-TGATTTGCAAAATTACCG-TTTACCCT
66 ATTACTGTTTTACCCTCAGATTTACAAAATTACCGTTTTACCCT
* * * * * * *
69135131 TGATTTACAGAATTACTGGTTTACCCTCAGTTTACAAAATTATCGTTTTACCCTCGATTTAGAGA
1 CGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAGA
*
69135196 ATTACCGTTTTACCCTCAG
66 ATTACTGTTTTACCCTCAG
69135215 NNNNNNNNNN
Statistics
Matches: 535, Mismatches: 60, Indels: 36
0.85 0.10 0.06
Matches are distributed among these distances:
99 2 0.00
100 69 0.13
101 15 0.03
106 1 0.00
107 295 0.55
108 150 0.28
109 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (109 bp):
CGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAGA
ATTACTGTTTTACCCTCAGATTTACAAAATTACCGTTTTACCCT
Found at i:69135353 original size:6 final size:6
Alignment explanation
Indices: 69135344--69135508 Score: 144
Period size: 6 Copynumber: 27.3 Consensus size: 6
69135334 TTACATTCAC
* *
69135344 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
69135392 ATTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
* *
69135441 ATTCTG ATTCTG ATTCTA ATTCTG -TTACTG ATTCTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
69135489 ATTTTG GTTCTA ATTCTG AT
1 ATTCTG ATTCTG ATTCTG AT
69135509 AATGTTTCTT
Statistics
Matches: 129, Mismatches: 17, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
5 10 0.08
6 109 0.84
7 7 0.05
8 3 0.02
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:69135407 original size:30 final size:29
Alignment explanation
Indices: 69135344--69135508 Score: 174
Period size: 30 Copynumber: 5.5 Consensus size: 29
69135334 TTACATTCAC
* *
69135344 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTATTA-CTAATT-TG
69135375 ATTCTGATTCTGATTCTATTACTAATATTG
1 ATTCTGATTCTGATTCTATTACTAAT-TTG
*
69135405 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTATTACTAAT-TTG
69135435 ATTCTGATTCTGATTCTGATT-CTAATTCTG
1 ATTCTGATTCTGATTCT-ATTACTAATT-TG
*
69135465 -TTACTGATTCTGATTCTGATT-CTCATTTTG
1 ATT-CTGATTCTGATTCT-ATTACT-AATTTG
* *
69135495 GTTCTAATTCTGAT
1 ATTCTGATTCTGAT
69135509 AATGTTTCTT
Statistics
Matches: 122, Mismatches: 6, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
29 3 0.02
30 92 0.75
31 27 0.22
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (29 bp):
ATTCTGATTCTGATTCTATTACTAATTTG
Found at i:69135517 original size:18 final size:17
Alignment explanation
Indices: 69135496--69135529 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
69135486 CTCATTTTGG
69135496 TTCTAATTCTGATAATGT
1 TTCTAATTCTG-TAATGT
*
69135514 TTCTTATTCTGTAATG
1 TTCTAATTCTGTAATG
69135530 GGCTAAGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:69137532 original size:27 final size:27
Alignment explanation
Indices: 69137502--69138258 Score: 938
Period size: 27 Copynumber: 28.0 Consensus size: 27
69137492 AAAGTACTCC
*
69137502 CGATTTACAGAATTACCTTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
69137529 CGATTTATAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
69137556 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
69137583 CGATTTAGAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
69137610 CTAATTTTTAAAATTACCATTTTACCCT
1 C-GATTTACAGAATTACCGTTTTACCCT
*
69137638 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
69137665 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
69137692 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
69137719 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
69137746 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
69137773 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
69137800 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
69137827 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
69137854 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
69137881 CGATTTGTAAAATTACCGTTTTACTCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
69137908 TAATTTACAAAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
69137935 C-AGTTTATATAATTATCGTTTTATCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
69137962 CGATTTACAGAATTACCGTTTTA-CCT
1 CGATTTACAGAATTACCGTTTTACCCT
69137988 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
69138015 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
69138042 AGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
69138069 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
69138096 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
69138123 CGATTGATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
69138150 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
**
69138177 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
69138204 C-AGTTTACAGAATTACCGTTTTACCTT
1 CGA-TTTACAGAATTACCGTTTTACCCT
69138231 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
69138258 C
1 C
69138259 TAGGGTAGAA
Statistics
Matches: 633, Mismatches: 79, Indels: 36
0.85 0.11 0.05
Matches are distributed among these distances:
25 1 0.00
26 31 0.05
27 571 0.90
28 30 0.05
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:69138318 original size:27 final size:27
Alignment explanation
Indices: 69138254--69138327 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
69138244 TACCGTTTTA
* *
69138254 CCCTCTAGGGTAGAAATACCGAAATAC
1 CCCTGTAGGGTAGAATTACCGAAATAC
*
69138281 CCCTGTAGGGTAGAATTACCGAGATAC
1 CCCTGTAGGGTAGAATTACCGAAATAC
** * *
69138308 CTTTGTGGGGTAAAATTACC
1 CCCTGTAGGGTAGAATTACC
69138328 ATTTTGCCCC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (27 bp):
CCCTGTAGGGTAGAATTACCGAAATAC
Found at i:69138564 original size:27 final size:26
Alignment explanation
Indices: 69138526--69138608 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
69138516 CGGAGGAAGC
*
69138526 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
69138553 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
69138579 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
69138606 GTT
1 GTT
69138609 GACCGATCGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:69138729 original size:22 final size:22
Alignment explanation
Indices: 69138696--69138754 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
69138686 CCAGTTATTA
*
69138696 ATGGCTCCGTGCCAACCTAAAT
1 ATGGCTTCGTGCCAACCTAAAT
* * * * *
69138718 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
69138740 ATGGCTTCGTGCCAA
1 ATGGCTTCGTGCCAA
69138755 ACGTATTTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:69138948 original size:27 final size:27
Alignment explanation
Indices: 69138918--69138986 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
69138908 TAGGTGGGTT
* * *
69138918 TGCCACATTATCTG-ATTCTGTTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGACTC
69138945 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
*
69138972 TGTCACAATATCTGT
1 TGCCACAATATCTGT
69138987 TGACCGATCG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:69139108 original size:22 final size:22
Alignment explanation
Indices: 69139075--69139133 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
69139065 CCAGTTATTA
*
69139075 ATGGCTCCGTGCCAACCTAAAT
1 ATGGCTTCGTGCCAACCTAAAT
* * * * *
69139097 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
69139119 ATGGCTTCGTGCCAA
1 ATGGCTTCGTGCCAA
69139134 ACGTATTTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:69139238 original size:379 final size:379
Alignment explanation
Indices: 69138539--69139745 Score: 2353
Period size: 379 Copynumber: 3.2 Consensus size: 379
69138529 CTGGTGGCTA
*
69138539 TGCCACAAATATCTG-TTCTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATA
1 TGCCAC-ATTATCTGATTCTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATA
69138603 TCTGTTGACCGATCGATGGCTGAGTGCCAATCACGTTACCGAAGGCTGTGTGCCGTTGTTGTGGG
65 TCTGTTGACCGATCGATGGCTGAGTGCCAATCACGTTACCGAAGGCTGTGTGCCGTTGTTGTGGG
69138668 CTTCGTGCCGATTATAGACCAGTTATTAATGGCTCCGTGCCAACCTAAATATGGCTTTGTGCCAT
130 CTTCGTGCCGATTATAGACCAGTTATTAATGGCTCCGTGCCAACCTAAATATGGCTTTGTGCCAT
69138733 CTTGACTATGGCTTCGTGCCAAACGTATTTACCTGTAGCTATGTGCCTAACATATTTGTTGACGA
195 CTTGACTATGGCTTCGTGCCAAACGTATTTACCTGTAGCTATGTGCCTAACATATTTGTTGACGA
69138798 CTCTGTGTCGATTATATTACCGAAGGCTGTGCGCCAGTTATATTACCGTCACTGATGGCTATGTG
260 CTCTGTGTCGATTATATTACCGAAGGCTGTGCGCCAGTTATATTACCGTCACTGATGGCTATGTG
69138863 CTGAAGTTATTACAGTTATCTATGGCTTTGTGCCACGTATTCTGTTAGGTGGGTT
325 CTGAAGTTATTACAGTTATCTATGGCTTTGTGCCACGTATTCTGTTAGGTGGGTT
*
69138918 TGCCACATTATCTGATTCTGTTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATAT
1 TGCCACATTATCTGATTCTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATAT
69138983 CTGTTGACCGATCGATGGCTGAGTGCCAATCACGTTACCGAAGGCTGTGTGCCGTTGTTGTGGGC
66 CTGTTGACCGATCGATGGCTGAGTGCCAATCACGTTACCGAAGGCTGTGTGCCGTTGTTGTGGGC
69139048 TTCGTGCCGATTATAGACCAGTTATTAATGGCTCCGTGCCAACCTAAATATGGCTTTGTGCCATC
131 TTCGTGCCGATTATAGACCAGTTATTAATGGCTCCGTGCCAACCTAAATATGGCTTTGTGCCATC
69139113 TTGACTATGGCTTCGTGCCAAACGTATTTACCTGTAGCTATGTGCCTAACATATTTGTTGACGAC
196 TTGACTATGGCTTCGTGCCAAACGTATTTACCTGTAGCTATGTGCCTAACATATTTGTTGACGAC
69139178 TCTGTGTCGATTATATTACCGAAGGCTGTGCGCCAGTTATATTACCGTCACTGATGGCTATGTGC
261 TCTGTGTCGATTATATTACCGAAGGCTGTGCGCCAGTTATATTACCGTCACTGATGGCTATGTGC
69139243 TGAAGTTATTACAGTTATCTATGGCTTTGTGCCACGTATTCTGTTAGGTGGGTT
326 TGAAGTTATTACAGTTATCTATGGCTTTGTGCCACGTATTCTGTTAGGTGGGTT
*
69139297 TGCCACATTATCTGATTCTGTTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATAT
1 TGCCACATTATCTGATTCTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATAT
69139362 CTGTTGACCGATCGATGGCTGAGTGCCAATCACGTTACCGAAGGCTGTGTGCCGTTGTTGTGGGC
66 CTGTTGACCGATCGATGGCTGAGTGCCAATCACGTTACCGAAGGCTGTGTGCCGTTGTTGTGGGC
69139427 TTCGTGCCGATTATAGACCAGTTATTAATGGCTCCGTGCCAACCTAAATATGGCTTTGTGCCATC
131 TTCGTGCCGATTATAGACCAGTTATTAATGGCTCCGTGCCAACCTAAATATGGCTTTGTGCCATC
*
69139492 TTGACTATGGCTTCGTGCCAAACGTATTTACCTATAGCTATGTGCCTAACATATTTGTTGACGAC
196 TTGACTATGGCTTCGTGCCAAACGTATTTACCTGTAGCTATGTGCCTAACATATTTGTTGACGAC
69139557 TCTGTGTCGATTATATTACCGAAGGCTGTGCGCCAGTTATATTACCGTCACTGATGGCTATGTGC
261 TCTGTGTCGATTATATTACCGAAGGCTGTGCGCCAGTTATATTACCGTCACTGATGGCTATGTGC
69139622 TGAAGTTATTACAGTTATCTATGGCTTTGTGCCACGTATTCTGTTAGGTGGGTT
326 TGAAGTTATTACAGTTATCTATGGCTTTGTGCCACGTATTCTGTTAGGTGGGTT
*
69139676 TGCCACATTATCTGATTCTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACGATAT
1 TGCCACATTATCTGATTCTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATAT
69139741 CTGTT
66 CTGTT
69139746 CTGGCAGCCA
Statistics
Matches: 822, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
378 7 0.01
379 815 0.99
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (379 bp):
TGCCACATTATCTGATTCTGGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATAT
CTGTTGACCGATCGATGGCTGAGTGCCAATCACGTTACCGAAGGCTGTGTGCCGTTGTTGTGGGC
TTCGTGCCGATTATAGACCAGTTATTAATGGCTCCGTGCCAACCTAAATATGGCTTTGTGCCATC
TTGACTATGGCTTCGTGCCAAACGTATTTACCTGTAGCTATGTGCCTAACATATTTGTTGACGAC
TCTGTGTCGATTATATTACCGAAGGCTGTGCGCCAGTTATATTACCGTCACTGATGGCTATGTGC
TGAAGTTATTACAGTTATCTATGGCTTTGTGCCACGTATTCTGTTAGGTGGGTT
Found at i:69139327 original size:27 final size:27
Alignment explanation
Indices: 69139297--69139365 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
69139287 TAGGTGGGTT
* * *
69139297 TGCCACATTATCTG-ATTCTGTTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGACTC
69139324 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
*
69139351 TGTCACAATATCTGT
1 TGCCACAATATCTGT
69139366 TGACCGATCG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:69139487 original size:22 final size:22
Alignment explanation
Indices: 69139454--69139512 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
69139444 CCAGTTATTA
*
69139454 ATGGCTCCGTGCCAACCTAAAT
1 ATGGCTTCGTGCCAACCTAAAT
* * * * *
69139476 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
69139498 ATGGCTTCGTGCCAA
1 ATGGCTTCGTGCCAA
69139513 ACGTATTTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:69139698 original size:27 final size:27
Alignment explanation
Indices: 69139676--69139749 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
69139666 TAGGTGGGTT
*
69139676 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
69139703 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
69139730 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
69139750 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:69141250 original size:28 final size:27
Alignment explanation
Indices: 69141173--69141269 Score: 131
Period size: 27 Copynumber: 3.6 Consensus size: 27
69141163 NNNNNNNNNN
*
69141173 TAGGGTAGAATTATCGAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCTTG
* *
69141200 TAGGGTAGAAATACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCTTG
*
69141227 TAGGGTAGAATTACCGAAGATACCATTG
1 TAGGGTAGAATTACCGAA-ATACCCTTG
* *
69141255 TGGGGTAAAATTACC
1 TAGGGTAGAATTACC
69141270 ATTTTGCCCC
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
27 41 0.67
28 20 0.33
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (27 bp):
TAGGGTAGAATTACCGAAATACCCTTG
Found at i:69141506 original size:27 final size:26
Alignment explanation
Indices: 69141468--69141550 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
69141458 CGGAGGAAGC
*
69141468 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
69141495 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
69141521 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
69141548 GTT
1 GTT
69141551 GACCGATCGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:69141910 original size:27 final size:26
Alignment explanation
Indices: 69141861--69141934 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 26
69141851 TAGGTGGGTT
* * *
69141861 TGCCACATTATCTGATTCGGGTGGCTC
1 TGCCACAATATCTG-TTCTGGTGACTC
*
69141888 TGCCATAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
* *
69141915 TGTCACGATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
69141935 CAGCCATGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 6 0.15
27 33 0.85
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:69142061 original size:6 final size:6
Alignment explanation
Indices: 69142052--69142198 Score: 108
Period size: 6 Copynumber: 24.3 Consensus size: 6
69142042 TTGCATTCAC
* *
69142052 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
69142101 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
* * * * *
69142149 ATTCTA ATTCTG -TTACTG ATTCTG ATTCTC ATTTTG GTTCTA ATTCTG
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
69142197 AT
1 AT
69142199 AATGTTTCTT
Statistics
Matches: 110, Mismatches: 18, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
5 9 0.08
6 92 0.84
7 6 0.05
8 3 0.03
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:69142177 original size:30 final size:30
Alignment explanation
Indices: 69142052--69142165 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
69142042 TTGCATTCAC
*
69142052 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATAT-TG
69142083 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATATTG
69142113 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATATTG
*
69142143 ATTCTGATTCTAATTCTGTTACT
1 ATTCTGATTCTGATTCTGTTACT
69142166 GATTCTGATT
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
30 59 0.74
31 21 0.26
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATATTG
Found at i:69142207 original size:18 final size:17
Alignment explanation
Indices: 69142186--69142219 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
69142176 CTCATTTTGG
69142186 TTCTAATTCTGATAATGT
1 TTCTAATTCTG-TAATGT
*
69142204 TTCTTATTCTGTAATG
1 TTCTAATTCTGTAATG
69142220 GGCTAAGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:69144206 original size:27 final size:27
Alignment explanation
Indices: 69144176--69144263 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
69144166 CGACTTGTAA
69144176 AATTACCAAAGTACTCCTGATTTATAG
1 AATTACCAAAGTACTCCTGATTTATAG
**** * * *
69144203 AATTACCGTTTTAC-CCTCAGTTTGTAA
1 AATTACCAAAGTACTCCTGA-TTTATAG
*
69144230 AATTACCAAAGTACT-CTCGATTTACAG
1 AATTACCAAAGTACTCCT-GATTTATAG
69144257 AATTACC
1 AATTACC
69144264 GTTTTACGCT
Statistics
Matches: 43, Mismatches: 15, Indels: 6
0.67 0.23 0.09
Matches are distributed among these distances:
26 4 0.09
27 38 0.88
28 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (27 bp):
AATTACCAAAGTACTCCTGATTTATAG
Found at i:69144275 original size:27 final size:27
Alignment explanation
Indices: 69144194--69144764 Score: 548
Period size: 27 Copynumber: 21.1 Consensus size: 27
69144184 AAGTACTCCT
*
69144194 GATTTATAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* **** *
69144221 AGTTTGTA-A-AATTACCAAAGTACTCTC
1 -GATT-TACAGAATTACCGTTTTACCCTC
*
69144248 GATTTACAGAATTACCGTTTTACGCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* *
69144275 GATTTATAGAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* **
69144302 AATTTTTA-ATATTACCGTTTTACCCTC
1 GATTTACAGA-ATTACCGTTTTACCCTC
69144329 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* **
69144356 -AGTTTACAAAATTACTATTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
**
69144383 GATTTACAGAATTACTATTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
*
69144410 -AGTTTACAGAATTACCGTTGTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
* * **
69144437 -AGCTTATAGAATTATTGTTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
* *
69144464 TATTTATAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
** * * *
69144491 GATTTGTAAAATTACCATTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTC
* *
69144518 GATTTACAGAATTACTGGTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* * * *
69144545 -AGTTTACAAAATTATCATTTTACCCTT
1 GA-TTTACAGAATTACCGTTTTACCCTC
*
69144572 GATTTATAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
*
69144599 -AGTTTATAGAATTACCGTTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
*
69144626 GATTTACAAAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
** * *
69144653 GATTTGTAAAATTACCGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTC
* * * *
69144680 AATTTACAAAATTACTGGTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* *
69144707 -AGTTTACAAAATTATCGTTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
*
69144734 GATTTACAGAATTACCGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTC
69144761 GATT
1 GATT
69144765 GTTAAATTAC
Statistics
Matches: 452, Mismatches: 76, Indels: 31
0.81 0.14 0.06
Matches are distributed among these distances:
25 2 0.00
26 10 0.02
27 428 0.95
28 10 0.02
29 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
GATTTACAGAATTACCGTTTTACCCTC
Found at i:69144786 original size:27 final size:28
Alignment explanation
Indices: 69144769--69144945 Score: 188
Period size: 27 Copynumber: 6.5 Consensus size: 28
69144759 TTGATTGTTA
69144769 AATTACTGAAATACCCCTT-TAGGGTAG
1 AATTACTGAAATACCCCTTATAGGGTAG
*
69144796 AATTACCGAAATACCCC-TATAGGGTAG
1 AATTACTGAAATACCCCTTATAGGGTAG
* *
69144823 AATTACTAAAATA-CCCTTATAGGTTAG
1 AATTACTGAAATACCCCTTATAGGGTAG
**
69144850 AATTACTGAAATACCCC-CGTAGGGTAG
1 AATTACTGAAATACCCCTTATAGGGTAG
*
69144877 AATTA-TCGAAATA-CCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTTATAGGGTAG
* * * *
69144904 AAATACCGAAATACCCC-TGTAGGATAG
1 AATTACTGAAATACCCCTTATAGGGTAG
* *
69144931 AATTACGGAGATACC
1 AATTACTGAAATACC
69144946 TTTGTGGGGT
Statistics
Matches: 128, Mismatches: 15, Indels: 14
0.82 0.10 0.09
Matches are distributed among these distances:
26 8 0.06
27 114 0.89
28 6 0.05
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (28 bp):
AATTACTGAAATACCCCTTATAGGGTAG
Found at i:69144838 original size:54 final size:54
Alignment explanation
Indices: 69144769--69144964 Score: 234
Period size: 54 Copynumber: 3.6 Consensus size: 54
69144759 TTGATTGTTA
*
69144769 AATTACTGAAATACCCCTT-TAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATA-CCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
69144823 AATTACTAAAATACCCTTATAGGTTAGAATTACTGAAATACCCCCGTAGGGTAG
1 AATTACTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
69144877 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAG
1 AATTACT-GAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * * * *
69144931 AATTACGGAGATACCTTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTATAGGGTAGAATTACC
69144965 ATTTTGCCTC
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
53 6 0.05
54 115 0.95
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:69144876 original size:81 final size:81
Alignment explanation
Indices: 69144765--69144945 Score: 238
Period size: 81 Copynumber: 2.2 Consensus size: 81
69144755 ACCCTTGATT
** *
69144765 GTTA-AATTACTGAAATACCCCTTTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTAC
1 GTTAGAATTACTGAAATACCCCCGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATAC
* *
69144829 TAAAATACCCTTATAG
66 CAAAATACCCCTATAG
* * *
69144845 GTTAGAATTACTGAAATACCCCCGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATAC
1 GTTAGAATTACTGAAATACCCCCGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATAC
* *
69144910 CGAAATACCCCTGTAG
66 CAAAATACCCCTATAG
* * *
69144926 GATAGAATTACGGAGATACC
1 GTTAGAATTACTGAAATACC
69144946 TTTGTGGGGT
Statistics
Matches: 87, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 4 0.05
81 83 0.95
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (81 bp):
GTTAGAATTACTGAAATACCCCCGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATAC
CAAAATACCCCTATAG
Found at i:69145206 original size:27 final size:26
Alignment explanation
Indices: 69145163--69145245 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
69145153 CGGAGGAAGC
**
69145163 GTTCTGGTGGCAATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
69145190 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
69145216 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
69145243 GTT
1 GTT
69145246 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:69145365 original size:22 final size:22
Alignment explanation
Indices: 69145333--69145391 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
69145323 CCCGTTATTA
*
69145333 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
69145355 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
69145377 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
69145392 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:69145568 original size:25 final size:26
Alignment explanation
Indices: 69145540--69145625 Score: 75
Period size: 27 Copynumber: 3.3 Consensus size: 26
69145530 TGCCACGTAT
* * *
69145540 TCTGTT-AGGTGGGTTTGCCACATTA
1 TCTGTTCAGGTGGCTCTGCCACAATA
*
69145565 TCTGATTCGGGTGGCTCTGCCACAATA
1 TCTG-TTCAGGTGGCTCTGCCACAATA
* * * *
69145592 TCTGTATCTGGTGACTCTGTCACGATA
1 TCTGT-TCAGGTGGCTCTGCCACAATA
69145619 TCTGTTC
1 TCTGTTC
69145626 TGGCAGCCAT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
25 4 0.08
26 5 0.10
27 41 0.82
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.37
Consensus pattern (26 bp):
TCTGTTCAGGTGGCTCTGCCACAATA
Found at i:69145604 original size:27 final size:27
Alignment explanation
Indices: 69145555--69145628 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
69145545 TAGGTGGGTT
* * *
69145555 TGCCACATTATCTG-ATTCGGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGACTC
69145582 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
* *
69145609 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
69145629 CAGCCATGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 35 0.85
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:69145755 original size:6 final size:6
Alignment explanation
Indices: 69145746--69145817 Score: 76
Period size: 6 Copynumber: 11.8 Consensus size: 6
69145736 TTGCATTCAC
* *
69145746 ATTCTG ATTCTG ATTCT- ATCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
*
69145795 -TTACTG ATTATG ATTCTG ATTCT
1 ATT-CTG ATTCTG ATTCTG ATTCT
69145818 CATTTTGGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
5 4 0.07
6 46 0.82
7 4 0.07
8 2 0.04
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:69145781 original size:31 final size:30
Alignment explanation
Indices: 69145746--69145817 Score: 99
Period size: 31 Copynumber: 2.4 Consensus size: 30
69145736 TTGCATTCAC
*
69145746 ATTCTGATTCTGATTCTATCACGTAATTCTG
1 ATTCTGATTCTGATTCTATCAC-TAATTATG
* * *
69145777 ATTCTGATTCTGATTCTGTTACTGATTATG
1 ATTCTGATTCTGATTCTATCACTAATTATG
69145807 ATTCTGATTCT
1 ATTCTGATTCT
69145818 CATTTTGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 17 0.46
31 20 0.54
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTATCACTAATTATG
Found at i:69153833 original size:7 final size:7
Alignment explanation
Indices: 69153816--69153860 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
69153806 AACTAAAACT
69153816 AAAATAGA
1 AAAATA-A
69153824 AAAATAA
1 AAAATAA
69153831 AAAATAA
1 AAAATAA
*
69153838 GAAATAA
1 AAAATAA
*
69153845 GAAATAA
1 AAAATAA
69153852 ATAAATAA
1 A-AAATAA
69153860 A
1 A
69153861 TGAAACTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 21 0.62
8 13 0.38
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.16
Consensus pattern (7 bp):
AAAATAA
Found at i:69154692 original size:139 final size:139
Alignment explanation
Indices: 69154442--69154860 Score: 793
Period size: 139 Copynumber: 3.0 Consensus size: 139
69154432 ATGTATGTAT
69154442 TATGACTACACCCTTGATATAGACTCAATGTAAAACCAAACATTTATTTACAACAGAATCATCAC
1 TATGACTACACCCTTGATATAGACTCAATGTAAAACCAAACATTTATTTACAACAGAATCATCAC
*
69154507 ATATACATACATGTTGCGCAATGACCCATATGCCAAAGCCACGCTTAGCATTAAAGCAATAAATA
66 ATATACATACATGTTGCGCAATGACCCATATGCCAAAGCCACGCTTAACATTAAAGCAATAAATA
*
69154572 CATACGAAA
131 CATACCAAA
*
69154581 TATGACTACACCCTTGATATAGACTCAATGTAAAACCAATCATTTATTTACAACAGAATCATCAC
1 TATGACTACACCCTTGATATAGACTCAATGTAAAACCAAACATTTATTTACAACAGAATCATCAC
69154646 ATATACATACATGTTGCGCAATGACCCATATGCCAAAGCCACGCTTAACATTAAAGCAATAAATA
66 ATATACATACATGTTGCGCAATGACCCATATGCCAAAGCCACGCTTAACATTAAAGCAATAAATA
69154711 CATACCAAA
131 CATACCAAA
*
69154720 TATGACTACACCCTTGATACAGACTCAATGTAAAACCAAACATTTATTTACAACAGAATCATCAC
1 TATGACTACACCCTTGATATAGACTCAATGTAAAACCAAACATTTATTTACAACAGAATCATCAC
*
69154785 ATATACATACATGTTGCGCAATTACCCATATGCCAAAGCCACGCTTAACATTAAAGCAATAAATA
66 ATATACATACATGTTGCGCAATGACCCATATGCCAAAGCCACGCTTAACATTAAAGCAATAAATA
69154850 CATACCAAA
131 CATACCAAA
69154859 TA
1 TA
69154861 GTTGACTAAA
Statistics
Matches: 274, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 274 1.00
ACGTcount: A:0.42, C:0.24, G:0.10, T:0.25
Consensus pattern (139 bp):
TATGACTACACCCTTGATATAGACTCAATGTAAAACCAAACATTTATTTACAACAGAATCATCAC
ATATACATACATGTTGCGCAATGACCCATATGCCAAAGCCACGCTTAACATTAAAGCAATAAATA
CATACCAAA
Found at i:69173439 original size:47 final size:47
Alignment explanation
Indices: 69173321--69173492 Score: 253
Period size: 47 Copynumber: 3.7 Consensus size: 47
69173311 GGATGGTTGA
* * * *
69173321 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAG
69173369 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
69173414 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
69173461 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
69173493 ATTTATAGAT
Statistics
Matches: 116, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
43 6 0.05
45 4 0.03
46 29 0.25
47 76 0.66
48 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:69173804 original size:19 final size:20
Alignment explanation
Indices: 69173767--69173804 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
69173757 ATAAGGTGGT
69173767 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
69173787 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
69173805 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:69181862 original size:31 final size:31
Alignment explanation
Indices: 69181821--69181885 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
69181811 TGCCTTACGA
* *
69181821 ATAATGAATACTC-AGTTGTCTTTGTCTGATG
1 ATAATAAATACTCGA-TTATCTTTGTCTGATG
69181852 ATAATAAATACTCGATTATCTTTGTCTGATG
1 ATAATAAATACTCGATTATCTTTGTCTGATG
69181883 ATA
1 ATA
69181886 GTTCAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (31 bp):
ATAATAAATACTCGATTATCTTTGTCTGATG
Found at i:69185430 original size:31 final size:31
Alignment explanation
Indices: 69185389--69185452 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
69185379 CCTTTTCATA
*
69185389 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
69185420 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
69185451 TT
1 TT
69185453 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:69185722 original size:23 final size:23
Alignment explanation
Indices: 69185667--69185855 Score: 306
Period size: 23 Copynumber: 8.1 Consensus size: 23
69185657 CCTAGCCTCT
* *
69185667 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
69185690 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
69185714 TTTAGTAACTGGGGAATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
69185737 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
69185760 TTTTAATAACTGGGGCATAAGCCT
1 -TTTAATAACTGGGGCATAAGCCC
*
69185784 TTTAATAACTGGGGTATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
69185807 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
69185830 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
69185853 TTT
1 TTT
69185856 TGCACTTCCT
Statistics
Matches: 154, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
23 111 0.72
24 43 0.28
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:69185751 original size:70 final size:70
Alignment explanation
Indices: 69185667--69185855 Score: 326
Period size: 70 Copynumber: 2.7 Consensus size: 70
69185657 CCTAGCCTCT
* * *
69185667 TTTAGTAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAGTAACTGGGGAATA
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGAATA
69185732 AGCCC
66 AGCCC
* *
69185737 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCTTTTAATAACTGGGGTATA
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGAATA
69185802 AGCCC
66 AGCCC
69185807 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTT
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
69185856 TGCACTTCCT
Statistics
Matches: 113, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
69 25 0.22
70 88 0.78
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (70 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGAATA
AGCCC
Found at i:69185938 original size:20 final size:20
Alignment explanation
Indices: 69185906--69185971 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
69185896 TTATGATTAC
* *
69185906 ATCATGGGCATATCAAACAT
1 ATCATGAGCATATCATACAT
* *
69185926 ATCTTGTGCATATCATACAT
1 ATCATGAGCATATCATACAT
*
69185946 GTCATGAGCATATCATACAT
1 ATCATGAGCATATCATACAT
*
69185966 ACCATG
1 ATCATG
69185972 TTTATCAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATCATGAGCATATCATACAT
Found at i:69187315 original size:27 final size:27
Alignment explanation
Indices: 69187215--69187298 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
69187205 GGGCATATTC
* *
69187215 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
69187242 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
69187269 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
69187296 GTC
1 GTC
69187299 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:69187390 original size:27 final size:27
Alignment explanation
Indices: 69187360--69187411 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
69187350 GTAAATCTAC
69187360 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
69187387 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
69187412 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:69187473 original size:27 final size:27
Alignment explanation
Indices: 69187443--69187605 Score: 161
Period size: 27 Copynumber: 6.0 Consensus size: 27
69187433 GTAACTTTGT
*
69187443 AAATCAGGGGTGTTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * *
69187470 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* * *
69187497 AAACCAGTGGTATTTTAGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
69187524 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
* *
69187551 AAAT-TGAGGGTATTTTTGTAATTTTAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* * * *
69187578 AAACCAAGGGTATTTTAGCAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
69187605 A
1 A
69187606 GACTAGGGTT
Statistics
Matches: 111, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
26 3 0.03
27 107 0.96
28 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:69187518 original size:54 final size:53
Alignment explanation
Indices: 69187450--69187642 Score: 181
Period size: 54 Copynumber: 3.6 Consensus size: 53
69187440 TGTAAATCAG
* * ** * *
69187450 GGGTGTTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTAGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTACAAACCA
* **
69187503 GTGGTATTTTAGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAATTGA
1 G-GGTATTTTAGTAATTTTACAAACCGA-GGGTATTTTGGTAATTTTACAAA-CCA
* * * * * *
69187558 GGGTATTTTTGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGACTA
1 GGGTATTTTAGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTACAAACCA
* ** *
69187611 GGGTTTTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTAGTAATTTTACAAACCGAGGGTA
69187643 AAACAATAAT
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
53 29 0.25
54 82 0.71
55 4 0.03
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (53 bp):
GGGTATTTTAGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTACAAACCA
Found at i:69187544 original size:81 final size:81
Alignment explanation
Indices: 69187448--69187642 Score: 268
Period size: 81 Copynumber: 2.4 Consensus size: 81
69187438 TTTGTAAATC
*
69187448 AGGGGTGTTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGTATTT
*
69187512 TAGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
** *
69187529 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
*
69187594 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
* * ** *
69187610 A-GGGTTTTTTAGTAATTTTGTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
69187643 AAACAATAAT
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 27 0.26
81 73 0.72
82 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:69187652 original size:27 final size:27
Alignment explanation
Indices: 69187620--69187779 Score: 196
Period size: 27 Copynumber: 6.0 Consensus size: 27
69187610 AGGGTTTTTT
*
69187620 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
69187647 AATAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
69187674 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
69187701 GGTACTTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
69187728 GGTAATTCTGTAAGTCGAGGGTAAAAA
1 AGTAATTCTGTAAATCGAGGGTAAAAC
**
69187755 AGTAATTCCATAAATCGA-GGTAAAA
1 AGTAATTCTGTAAATCGAGGGTAAAA
69187780 TGGTAATTTT
Statistics
Matches: 115, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 7 0.06
27 108 0.94
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:69187688 original size:54 final size:54
Alignment explanation
Indices: 69187619--69187801 Score: 190
Period size: 54 Copynumber: 3.4 Consensus size: 54
69187609 TAGGGTTTTT
* * *
69187619 TAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAA
* ** *
69187673 TAGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAA
** * * **
69187727 CGGTAATTCTGTAAGTCGAGGGTAAAA-AAGTAATTCCATAAATCGA-GGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAACAA-TAATTCTGTAAATCGAGGGTAAAA
* * * *
69187780 TGGTAATTTTACAAATTGAGGG
1 TAGTAATTCTATAAATCGAGGG
69187802 CATTTCAGTA
Statistics
Matches: 105, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 23 0.22
54 82 0.78
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.28
Consensus pattern (54 bp):
TAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAA
Found at i:69187722 original size:81 final size:80
Alignment explanation
Indices: 69187628--69187784 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 80
69187618 TTAGTAATTT
* *
69187628 TGTAAATCGAGGGTAAAACAATAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAAG
1 TGTAAATCGAGGGTAAAACAATAATTCTGTAAATCAAGGGTAAAAAAGTAATTCCATAAATCAA-
69187693 GGTAAAACGGTACTTC
65 GGTAAAACGGTACTTC
** * * *
69187709 TGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAAAAGTAATTCCATAAATCGAG
1 TGTAAATCGAGGGTAAAACAATAATTCTGTAAATCAAGGGTAAAAAAGTAATTCCATAAATCAAG
*
69187774 GTAAAATGGTA
66 GTAAAACGGTA
69187785 ATTTTACAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
80 11 0.16
81 57 0.84
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (80 bp):
TGTAAATCGAGGGTAAAACAATAATTCTGTAAATCAAGGGTAAAAAAGTAATTCCATAAATCAAG
GTAAAACGGTACTTC
Found at i:69192134 original size:24 final size:24
Alignment explanation
Indices: 69192103--69192151 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
69192093 TAAATATATG
*
69192103 TTAGAGTGTGTTTATGTTGTCTAT
1 TTAGAGTGTGTTTATGTTGCCTAT
69192127 TTAGAGTGTGTTTATGTTGCCTAT
1 TTAGAGTGTGTTTATGTTGCCTAT
69192151 T
1 T
69192152 ATTTGCATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.06, G:0.24, T:0.53
Consensus pattern (24 bp):
TTAGAGTGTGTTTATGTTGCCTAT
Found at i:69196226 original size:25 final size:25
Alignment explanation
Indices: 69196192--69196243 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
69196182 ACGAAAAGAG
69196192 ATAGAATTTCAAGTTGTGATAAGGT
1 ATAGAATTTCAAGTTGTGATAAGGT
69196217 ATAGAATTTCAAGTTGTGATAAGGT
1 ATAGAATTTCAAGTTGTGATAAGGT
69196242 AT
1 AT
69196244 TCTTGAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.37
Consensus pattern (25 bp):
ATAGAATTTCAAGTTGTGATAAGGT
Found at i:69198225 original size:45 final size:47
Alignment explanation
Indices: 69198161--69198249 Score: 112
Period size: 45 Copynumber: 1.9 Consensus size: 47
69198151 CCCTGATAAT
* *
69198161 AACTCTTTGGAGTTACCTATTA-AGCTCA-ATGAACTTCCTGTTCTG
1 AACTCTTTGGAGTTACCTATCACAGCCCAGATGAACTTCCTGTTCTG
* *
69198206 AACTCTTAT-GAGTTTCCTATCACAGCCCAGATGAGCTTCCTGTT
1 AACTCTT-TGGAGTTACCTATCACAGCCCAGATGAACTTCCTGTT
69198250 ACATGGCTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
45 18 0.49
46 6 0.16
47 13 0.35
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.36
Consensus pattern (47 bp):
AACTCTTTGGAGTTACCTATCACAGCCCAGATGAACTTCCTGTTCTG
Found at i:69198265 original size:25 final size:25
Alignment explanation
Indices: 69198236--69198283 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
69198226 CACAGCCCAG
* *
69198236 ATGAGCTTCCTGTTACATGGCTCAC
1 ATGAGCATCCTATTACATGGCTCAC
* *
69198261 ATGAGGATCCTATTATATGGCTC
1 ATGAGCATCCTATTACATGGCTC
69198284 GAGAGAGTGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (25 bp):
ATGAGCATCCTATTACATGGCTCAC
Found at i:69203227 original size:46 final size:45
Alignment explanation
Indices: 69203169--69203341 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 45
69203159 GGGTTATTTT
*
69203169 GAGCAAGTGTAAGACATGTCTGGGACATGCATCAGCCACATT-ACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAG-C-CATTGACGA
*
69203215 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATC-GGCATTGAGACGA
1 GAGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCAGCCATT--GACGA
* * *
69203263 GAGCTAGTGTAATACATGTCTAGGACATGCATCAGCC-TTGA-GA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATTGACGA
* *
69203306 TGTAAGCCAGCGTAGGACATGTCTGGGACATGCATC
1 -G--AGCCAGTGTAAGACATGTCTGGGACATGCATC
69203342 GACTATAAGT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
43 2 0.02
44 3 0.03
45 4 0.04
46 48 0.45
47 28 0.26
48 22 0.21
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATTGACGA
Found at i:69204566 original size:22 final size:20
Alignment explanation
Indices: 69204541--69204580 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
69204531 TCGAATTGGT
69204541 CACATAGGCATGTTGCCCCTCC
1 CACATAGGC-TG-TGCCCCTCC
*
69204563 CACATGGGCTGTGCCCCT
1 CACATAGGCTGTGCCCCT
69204581 GTGGGTAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.15, C:0.40, G:0.23, T:0.23
Consensus pattern (20 bp):
CACATAGGCTGTGCCCCTCC
Found at i:69206459 original size:51 final size:49
Alignment explanation
Indices: 69206344--69206575 Score: 197
Period size: 50 Copynumber: 4.7 Consensus size: 49
69206334 TGAATAGACC
* * * * *
69206344 TGTGTAGTACTAAGTGTAGGCTACTACGTGTA-TCATACTG-TTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCA-A-TGATTGA-TCACG
* *
69206394 TGTGTAGTATTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCAATGA-TT-GATCACG
* *
69206445 TGTGTAGTACTAAGTGTAGGCTACTACGAGTA-TCAGATGA-TGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCA-ATGATTGA--TCACG
* * * * *
69206495 TGTGTAGTACTAAGTGCAAGG-TACTACGTGTACTGGATTG-TTGATCGCA
1 TGTGTAGTACTAAGTGC-AGGCTACTACGCGTACT-CAATGATTGATCACG
*
69206544 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA
69206576 TCAGATAGCT
Statistics
Matches: 151, Mismatches: 19, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
48 5 0.03
49 32 0.21
50 63 0.42
51 49 0.32
52 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCAATGATTGATCACG
Found at i:69206580 original size:99 final size:99
Alignment explanation
Indices: 69206344--69206581 Score: 266
Period size: 101 Copynumber: 2.4 Consensus size: 99
69206334 TGAATAGACC
* * * * *
69206344 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCATGTGTAGTATTAAGT
1 TGTGTAGTACTAAGTGTAGGCTACTACGAGTATCAGA-TGTGAAGTCACATGTGTAGTACTAAGT
* *
69206409 GCAGGCTACTATGCGTACTCAATGACTTCGATCACG
65 GCAGGCTACTACGCGTACTCAATGA-TTCGATCACA
* *
69206445 TGTGTAGTACTAAGTGTAGGCTACTACGAGTATCAGATGATGAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGTAGGCTACTACGAGTATCAGATG-TGAAGTCACATGTGTAGTACTAAGT
* * * *
69206510 GCAAGG-TACTACGTGTACTGGATTG-TT-GATCGCA
65 GC-AGGCTACTACGCGTACT-CAATGATTCGATCACA
* * *
69206544 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 TGTGTAGTACTAAGTGTAGGCTACTACGAGTATCAGAT
69206582 AGCTTCGGCT
Statistics
Matches: 118, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
99 40 0.34
100 4 0.03
101 68 0.58
102 6 0.05
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGTAGGCTACTACGAGTATCAGATGTGAAGTCACATGTGTAGTACTAAGTG
CAGGCTACTACGCGTACTCAATGATTCGATCACA
Found at i:69223419 original size:10 final size:10
Alignment explanation
Indices: 69223401--69223433 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
69223391 TTTTTTCGTA
69223401 TTTTC-CTTT
1 TTTTCACTTT
69223410 TTTTCACTTT
1 TTTTCACTTT
69223420 TTTATCACTTT
1 TTT-TCACTTT
69223431 TTT
1 TTT
69223434 GTCAGAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.23
10 7 0.32
11 10 0.45
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTCACTTT
Found at i:69223421 original size:17 final size:16
Alignment explanation
Indices: 69223375--69223421 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
69223365 CTATAGAATA
*
69223375 TTTTTTT-ATTTTTCT
1 TTTTTTTCATTTTTCC
*
69223390 TTTTTTTCGTATTTTCC
1 TTTTTTTCAT-TTTTCC
69223407 TTTTTTTCACTTTTT
1 TTTTTTTCA-TTTTT
69223422 TATCACTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 7 0.27
16 1 0.04
17 17 0.65
18 1 0.04
ACGTcount: A:0.06, C:0.13, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTTTTCATTTTTCC
Found at i:69237341 original size:27 final size:26
Alignment explanation
Indices: 69237293--69237352 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
69237283 GCGAGGCTTC
*
69237293 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
69237320 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
69237346 CAGATAT
1 CAGATAT
69237353 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:69237365 original size:33 final size:32
Alignment explanation
Indices: 69237314--69237375 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
69237304 ACGAAGTCAC
* *
69237314 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
69237346 CAGATATATATATATGTGGCGAAGCCACCA
1 CAGATACAGATAT-TGTGGCGAAGCCACCA
69237376 CATTGCAGCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 11 0.44
33 14 0.56
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:69244833 original size:29 final size:27
Alignment explanation
Indices: 69244758--69244836 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
69244748 GCGAGGCTTC
** *
69244758 CAGATATTGTGATGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
69244785 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGCCACCAGATA
69244811 CAGATATATATGTGGCGAAGCCACCA
1 CAG--ATAT-TGTGGCGAAGCCACCA
69244837 CATTGCAGCG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.10
27 20 0.48
28 4 0.10
29 14 0.33
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGCCACCAGATA
Found at i:69244905 original size:27 final size:26
Alignment explanation
Indices: 69244854--69244905 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
69244844 GCGAGGCTGC
*
69244854 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
69244880 CAGATATATGTGACGAGGCCATCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
69244906 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:69244923 original size:67 final size:68
Alignment explanation
Indices: 69244785--69244924 Score: 192
Period size: 67 Copynumber: 2.1 Consensus size: 68
69244775 TCACCAGATA
* * * *
69244785 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATGTGGCGAAGCCACCACATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAGAACAGA-ATATATGTGACGAAGCCACCACATTGCAGCGAGG
69244850 CTGC
65 CTGC
* * * *
69244854 CAGATATTGTGACGAAGTCACCAGAACAG-ATATATGTGACGAGGCCATCAGATTGCAGCGAGGC
1 CAGATATTGTGACGAAGCCACCAGAACAGAATATATGTGACGAAGCCACCACATTGCAGCGAGGC
69244918 TGC
66 TGC
69244921 CAGA
1 CAGA
69244925 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 38 0.60
69 25 0.40
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.19
Consensus pattern (68 bp):
CAGATATTGTGACGAAGCCACCAGAACAGAATATATGTGACGAAGCCACCACATTGCAGCGAGGC
TGC
Found at i:69249009 original size:47 final size:47
Alignment explanation
Indices: 69248958--69249276 Score: 487
Period size: 47 Copynumber: 6.7 Consensus size: 47
69248948 TTAGGATTCT
* * *
69248958 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
69249005 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
69249052 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
69249101 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
69249148 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
69249195 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
69249242 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
69249277 TCCCGAAGGG
Statistics
Matches: 252, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 206 0.82
49 45 0.18
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:69249134 original size:143 final size:141
Alignment explanation
Indices: 69248958--69249276 Score: 532
Period size: 143 Copynumber: 2.2 Consensus size: 141
69248948 TTAGGATTCT
* *
69248958 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGGATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
69249022 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
65 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACA
69249087 AGGCCGAATGGCCA
128 AGGCCGAATGGCCA
*
69249101 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
69249166 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGG
*
69249231 CCGAGTGGCCA
131 CCGAATGGCCA
* *
69249242 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAG
69249277 TCCCGAAGGG
Statistics
Matches: 166, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
141 56 0.34
142 1 0.01
143 109 0.66
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (141 bp):
ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGG
CCGAATGGCCA
Found at i:69249451 original size:37 final size:37
Alignment explanation
Indices: 69249395--69249473 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
69249385 CCGAGCTCTA
* * *
69249395 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
69249432 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
69249469 AAGAC
1 AAGAC
69249474 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:69252898 original size:40 final size:41
Alignment explanation
Indices: 69252815--69252920 Score: 128
Period size: 40 Copynumber: 2.6 Consensus size: 41
69252805 TTGAATGATG
*
69252815 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAA
* * * *
69252855 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCAAA
*
69252895 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
69252921 AACGAGTAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 47 0.84
41 8 0.14
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAA
Found at i:69253085 original size:108 final size:108
Alignment explanation
Indices: 69252896--69253108 Score: 426
Period size: 108 Copynumber: 2.0 Consensus size: 108
69252886 GTTACTAAAT
69252896 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGGTATGTGA
1 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGGTATGTGA
69252961 TTTGGGAATGAATGATCTTGCTGTAAAAATTTCAGTTAATTAA
66 TTTGGGAATGAATGATCTTGCTGTAAAAATTTCAGTTAATTAA
69253004 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGGTATGTGA
1 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGGTATGTGA
69253069 TTTGGGAATGAATGATCTTGCTGTAAAAATTTCAGTTAAT
66 TTTGGGAATGAATGATCTTGCTGTAAAAATTTCAGTTAAT
69253109 ACGCTTGAAA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (108 bp):
CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGGTATGTGA
TTTGGGAATGAATGATCTTGCTGTAAAAATTTCAGTTAATTAA
Found at i:69255712 original size:43 final size:43
Alignment explanation
Indices: 69255651--69255737 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
69255641 CCCCTTCTTA
69255651 GGTTTCACCCTAATCCGGCAAAATCTTGTCACCCTATGTCTAG
1 GGTTTCACCCTAATCCGGCAAAATCTTGTCACCCTATGTCTAG
* *
69255694 GGTTTCATCCTAATCCGGCAAAATCTTGTCACCTTATGTCTAG
1 GGTTTCACCCTAATCCGGCAAAATCTTGTCACCCTATGTCTAG
69255737 G
1 G
69255738 CGCGCAATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (43 bp):
GGTTTCACCCTAATCCGGCAAAATCTTGTCACCCTATGTCTAG
Found at i:69256553 original size:20 final size:20
Alignment explanation
Indices: 69256530--69256595 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
69256520 AAGTATATCT
69256530 AGGGGTACCGTAGTACAATC
1 AGGGGTACCGTAGTACAATC
* *
69256550 AGGGGCA-CGTATGTGCAATTC
1 AGGGGTACCGTA-GTACAA-TC
* * *
69256571 AGGGTTACCGAAGTACAAAC
1 AGGGGTACCGTAGTACAATC
69256591 AGGGG
1 AGGGG
69256596 CACGCATGTA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 4 0.11
20 16 0.46
21 12 0.34
22 3 0.09
ACGTcount: A:0.30, C:0.18, G:0.33, T:0.18
Consensus pattern (20 bp):
AGGGGTACCGTAGTACAATC
Found at i:69256586 original size:41 final size:41
Alignment explanation
Indices: 69256530--69256776 Score: 255
Period size: 41 Copynumber: 6.0 Consensus size: 41
69256520 AAGTATATCT
* *
69256530 AGGGGTACCGTAGTACAATCAGGGGCACGTATGTGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
* * ** *
69256571 AGGGTTACCGAAGTACAAACAGGGGCACGCATGTAAAATTT
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
* * *
69256612 AGGGGTATCGAAGTACAAACATGGGCACGCATGTG-AACTTC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAA-TTC
* * * *
69256653 AGGGGTATCAAAGTACAAACAAGGGCACGTATGTGCAATTT
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
* * * * *
69256694 AAGGGTACCAAAGTACAAATAAGGGCATGTATGTGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
** * *
69256735 AGGGGTATTGAAGTATAAA-AGTGGGCACATATGTGCAATTC
1 AGGGGTACCGAAGTACAAACAG-GGGCACGTATGTGCAATTC
69256776 A
1 A
69256777 TCATTAATCT
Statistics
Matches: 174, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
40 3 0.02
41 169 0.97
42 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (41 bp):
AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
Found at i:69256697 original size:21 final size:21
Alignment explanation
Indices: 69256673--69256733 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 21
69256663 AAGTACAAAC
69256673 AAGGGCACGTATGTGCAATTT
1 AAGGGCACGTATGTGCAATTT
* ** * * *
69256694 AAGGGTACCAAAGTACAA-AT
1 AAGGGCACGTATGTGCAATTT
*
69256714 AAGGGCATGTATGTGCAATT
1 AAGGGCACGTATGTGCAATT
69256734 CAGGGGTATT
Statistics
Matches: 26, Mismatches: 13, Indels: 2
0.63 0.32 0.05
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (21 bp):
AAGGGCACGTATGTGCAATTT
Found at i:69256749 original size:123 final size:123
Alignment explanation
Indices: 69256541--69256762 Score: 295
Period size: 123 Copynumber: 1.8 Consensus size: 123
69256531 GGGGTACCGT
* * * * *
69256541 AGTACAATCAGGGGCACGTATGTGCAATTCAGGGTTACCGAAGTACAAACAGGGGCACGCATGTA
1 AGTACAAACAAGGGCACGTATGTGCAATTAAGGGTTACCAAAGTACAAACAAGGGCACGCATGTA
*
69256606 AAATTTAGGGGTATCGAAGTACAAACA-TGGGCACGCATGTGAACTTCAGGGGTATCAA
66 AAATTCAGGGGTATCGAAGTACAAA-AGTGGGCACGCATGTGAACTTCAGGGGTATCAA
* * *
69256664 AGTACAAACAAGGGCACGTATGTGCAATTTAAGGG-TACCAAAGTACAAATAAGGGCATGTATGT
1 AGTACAAACAAGGGCACGTATGTGCAA-TTAAGGGTTACCAAAGTACAAACAAGGGCACGCATGT
** * *
69256728 GCAATTCAGGGGTATTGAAGTATAAAAGTGGGCAC
65 AAAATTCAGGGGTATCGAAGTACAAAAGTGGGCAC
69256763 ATATGTGCAA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
122 1 0.01
123 77 0.92
124 6 0.07
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (123 bp):
AGTACAAACAAGGGCACGTATGTGCAATTAAGGGTTACCAAAGTACAAACAAGGGCACGCATGTA
AAATTCAGGGGTATCGAAGTACAAAAGTGGGCACGCATGTGAACTTCAGGGGTATCAA
Found at i:69257008 original size:12 final size:12
Alignment explanation
Indices: 69256988--69257048 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
69256978 TTAATAACCC
69256988 TAGCATTCAATT
1 TAGCATTCAATT
*
69257000 TAGCTTTCAATT
1 TAGCATTCAATT
69257012 TAGCATTCAATT
1 TAGCATTCAATT
* *
69257024 TAG--TCCAACT
1 TAGCATTCAATT
69257034 TAGCATTCAATT
1 TAGCATTCAATT
69257046 TAG
1 TAG
69257049 TCTATTTTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 8 0.20
12 33 0.80
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (12 bp):
TAGCATTCAATT
Found at i:69257039 original size:22 final size:22
Alignment explanation
Indices: 69256988--69257050 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
69256978 TTAATAACCC
* *
69256988 TAGCATTCAATTTAGCTTTCAATT
1 TAGCATTCAATTTAG--TCCAACT
69257012 TAGCATTCAATTTAGTCCAACT
1 TAGCATTCAATTTAGTCCAACT
69257034 TAGCATTCAATTTAGTC
1 TAGCATTCAATTTAGTC
69257051 TATTTTGCCC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 22 0.59
24 15 0.41
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (22 bp):
TAGCATTCAATTTAGTCCAACT
Found at i:69257432 original size:17 final size:17
Alignment explanation
Indices: 69257412--69257446 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
69257402 CATAAAAATC
69257412 ATTAAAAATGGAATAAA
1 ATTAAAAATGGAATAAA
69257429 ATTAAAAATGGAATAAA
1 ATTAAAAATGGAATAAA
69257446 A
1 A
69257447 AATCACTTAC
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:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (17 bp):
ATTAAAAATGGAATAAA
Found at i:69264043 original size:41 final size:41
Alignment explanation
Indices: 69263978--69264099 Score: 138
Period size: 41 Copynumber: 3.0 Consensus size: 41
69263968 GTATATCTAG
* * *
69263978 GGGTACCGTAA-TACAATCAAGGGCATGTATGTGCAATTCAA
1 GGGTACCG-AAGTACAAACAGGGGCACGTATGTGCAATTCAA
* * * * *
69264019 GGGTATCGAAGTACAAACAGGGGCACATATGTGTAAGTAAA
1 GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAA
* *
69264060 GGGTACCGAAGCACAAACAGGGGCACGTGTGTGCAATTCA
1 GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCA
69264100 TCATTAATCT
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
40 2 0.03
41 63 0.97
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (41 bp):
GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAA
Found at i:69266805 original size:27 final size:28
Alignment explanation
Indices: 69266759--69266812 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
69266749 TACCTAAACC
69266759 CCCTATATATGATAAAATGACTATTTTA
1 CCCTATATATGATAAAATGACTATTTTA
* *
69266787 CCCT-TATATGGTAAGATGACTATTTT
1 CCCTATATATGATAAAATGACTATTTT
69266813 GCCCCTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (28 bp):
CCCTATATATGATAAAATGACTATTTTA
Found at i:69284910 original size:27 final size:28
Alignment explanation
Indices: 69284864--69284921 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
69284854 TACCTAGACC
69284864 CCCTATATATGATAAAATGACTATTTTG
1 CCCTATATATGATAAAATGACTATTTTG
* * * *
69284892 CCCT-TATATGGTAAGATGATTGTTTTG
1 CCCTATATATGATAAAATGACTATTTTG
69284919 CCC
1 CCC
69284922 CTATGTGATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (28 bp):
CCCTATATATGATAAAATGACTATTTTG
Found at i:69320813 original size:16 final size:16
Alignment explanation
Indices: 69320792--69320824 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
69320782 GGGTCATCCA
69320792 ACATGAGAGTAGAAGC
1 ACATGAGAGTAGAAGC
69320808 ACATGAGAGTAGAAGC
1 ACATGAGAGTAGAAGC
69320824 A
1 A
69320825 ATTTCCACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.30, T:0.12
Consensus pattern (16 bp):
ACATGAGAGTAGAAGC
Found at i:69322239 original size:31 final size:31
Alignment explanation
Indices: 69322194--69322307 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
69322184 TTAGTCTTGA
* *
69322194 CATAT-ACTGCGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
69322224 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
69322255 CATATCACTGGGCCGAAGCCTTTTTATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
69322286 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
69322308 ACTGTAAGCG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
30 18 0.22
31 62 0.77
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:69322555 original size:25 final size:25
Alignment explanation
Indices: 69322527--69322596 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
69322517 CTCTTTTAAT
*
69322527 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
69322552 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
69322577 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
69322597 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:69323407 original size:25 final size:28
Alignment explanation
Indices: 69323369--69323430 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
69323359 TCATACGGAA
69323369 CATA-AGGGGATATT-CG-TCA-TTTAAC
1 CATACAGGGGATATTACGATCACTTT-AC
69323394 CATACAGGGG-TATTACGATCACTTTAC
1 CATACAGGGGATATTACGATCACTTTAC
*
69323421 CCTACAGGGG
1 CATACAGGGG
69323431 CTTTACGGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 8 0.25
26 7 0.22
27 14 0.44
28 3 0.09
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (28 bp):
CATACAGGGGATATTACGATCACTTTAC
Found at i:69323532 original size:27 final size:27
Alignment explanation
Indices: 69323502--69323609 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
69323492 GTAAATCTAC
69323502 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
69323529 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
69323555 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
69323585 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
69323610 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 41 0.60
28 7 0.10
29 18 0.26
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:69323607 original size:56 final size:54
Alignment explanation
Indices: 69323499--69323668 Score: 164
Period size: 54 Copynumber: 3.1 Consensus size: 54
69323489 TTGGTAAATC
* *
69323499 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAA-TTT
* * * * *
69323554 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTT-TGGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCT-ATAATTT
** * *** *
69323609 TACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAG-GGTATTTCTATAATTT
69323663 TACAAA
1 TACAAA
69323669 CTAGGGGTAT
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
53 1 0.01
54 41 0.44
55 14 0.15
56 37 0.40
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTT
Found at i:69323615 original size:27 final size:27
Alignment explanation
Indices: 69323551--69323688 Score: 120
Period size: 27 Copynumber: 5.1 Consensus size: 27
69323541 TTTCTATAAT
* *
69323551 TTTTAGAAAGTCAAGGGTATTTCT-GTAA
1 TTTTACAAA-TCAGGGGTATTT-TGGTAA
**
69323579 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
69323606 TTTTACAAAT-TGAGGGTATTTCGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * * * *
69323633 TTTCACAAACCAGTGGTATTTCGATAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
69323660 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
69323687 TT
1 TT
69323689 CTATCCTACA
Statistics
Matches: 90, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.03
27 79 0.88
28 8 0.09
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:69323705 original size:54 final size:54
Alignment explanation
Indices: 69323508--69323730 Score: 150
Period size: 54 Copynumber: 4.1 Consensus size: 54
69323498 CTACAAACCA
* *** ** * *
69323508 AGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTTTAGAAAGTCA-
1 AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGATAA-TTTTACAAA-T-AG
* *** * * * *
69323564 AGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGATAATTTTACAAATAG
*
69323618 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGATAATTTTACAAACTAG
1 AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGATAATTTTACAAA-TAG
* ** * * *
69323673 -GGGTATTTTGGTAA-TTCTATCCTA-CAGGGGTATTTCAATAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTC-A-CAAACCAGGGGTATTTCGATAATTTTACAAATAG
69323725 AGGGTA
1 AGGGTA
69323731 AAACGGTAAT
Statistics
Matches: 137, Mismatches: 25, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
52 2 0.01
53 10 0.07
54 78 0.57
55 12 0.09
56 35 0.26
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGATAATTTTACAAATAG
Found at i:69323753 original size:27 final size:27
Alignment explanation
Indices: 69323724--69323917 Score: 266
Period size: 27 Copynumber: 7.2 Consensus size: 27
69323714 TTTCACAATT
69323724 GAGGGTAAAACGGTAATT-TAGTAAA-C
1 GAGGGTAAAACGGTAATTCTA-TAAATC
* *
69323750 TGAGGGTAAAATGGTAATTTTATAAATC
1 -GAGGGTAAAACGGTAATTCTATAAATC
* *
69323778 GAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
69323805 GAGGGTAAAATGGTAATTCTATAAATT
1 GAGGGTAAAACGGTAATTCTATAAATC
*
69323832 GAGGGTAAAACGGTAATTTTATAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
*
69323859 GAGGGTGAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
69323886 GAGGGTAAAATGGTAATTCTACAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
69323913 GAGGG
1 GAGGG
69323918 CATTTCAATA
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
27 145 0.98
28 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTCTATAAATC
Found at i:69323837 original size:81 final size:81
Alignment explanation
Indices: 69323724--69323917 Score: 300
Period size: 81 Copynumber: 2.4 Consensus size: 81
69323714 TTTCACAATT
* * *
69323724 GAGGGTAAAACGGTAATT-TAGTAAACTGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAA
1 GAGGGTAAAATGGTAATTCTA-TAAATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAA
*
69323788 CGATAATTCTGTAAATC
65 CGATAATTCTATAAATC
*
69323805 GAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTGAAAC
1 GAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAAC
*
69323870 GGTAATTCTATAAATC
66 GATAATTCTATAAATC
* *
69323886 GAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 GAGGGTAAAATGGTAATTCTATAAATTGAGGG
69323918 CATTTCAATA
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
81 102 0.98
82 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.28
Consensus pattern (81 bp):
GAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAAC
GATAATTCTATAAATC
Found at i:69325451 original size:17 final size:17
Alignment explanation
Indices: 69325404--69325451 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
69325394 TAAGCGGATT
69325404 AAAAATAAATAAATAAC
1 AAAAATAAATAAATAAC
* *
69325421 AGAAATAAATAAATAAG
1 AAAAATAAATAAATAAC
69325438 AAAAGATAAA-AAAT
1 AAAA-ATAAATAAAT
69325452 GAATTAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAAATAAATAAATAAC
Found at i:69329593 original size:47 final size:47
Alignment explanation
Indices: 69329519--69329689 Score: 163
Period size: 45 Copynumber: 3.7 Consensus size: 47
69329509 ATTCGTGTGT
* * * ** ** *
69329519 GAGCTAGTGTAAAACATGTCTAAGACATGCATCGGCCA-CATTATGA
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCATCAAGACGA
*
69329565 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-CATTAAGACGA
1 GAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCATCAAGACGA
* *
69329613 GAGCTAGTGTAAGACATGTTTGGGACATG-ATCGGCC-TCGAGACGTA
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCATCAAGACG-A
* *
69329659 -AGCCAGTGTAAGAAATGTCTGGGACATGCAT
1 GAGCCAGTGTAAGACATGTTTGGGACATGCAT
69329690 TGGTTACGAG
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
45 36 0.35
46 17 0.16
47 27 0.26
48 24 0.23
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCATCAAGACGA
Found at i:69334428 original size:16 final size:16
Alignment explanation
Indices: 69334407--69334440 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
69334397 AACAGAGATA
69334407 AACCATGATTTTTCCT
1 AACCATGATTTTTCCT
69334423 AACCATGATTTTTCCT
1 AACCATGATTTTTCCT
69334439 AA
1 AA
69334441 AAGAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (16 bp):
AACCATGATTTTTCCT
Done.