Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 183 of 345
Found at i:61788178 original size:27 final size:27
Alignment explanation
Indices: 61788091--61788178 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
61788081 CTATTAGGTA
* *
61788091 AAAAT-ACTGTAAAGCCCTTGTAGGGT
1 AAAATGACCGTAAAGCCCCTGTAGGGT
61788117 AAAGA-GACCGTAAAGCCCCTGTAGGGT
1 AAA-ATGACCGTAAAGCCCCTGTAGGGT
* *
61788144 AAAGTGACCGTAATA-CCCCTGTATGGT
1 AAAATGACCGTAA-AGCCCCTGTAGGGT
61788171 AAAATGAC
1 AAAATGAC
61788179 GAATGTGCCC
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
26 3 0.06
27 49 0.92
28 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (27 bp):
AAAATGACCGTAAAGCCCCTGTAGGGT
Found at i:61789024 original size:25 final size:25
Alignment explanation
Indices: 61788979--61789062 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
61788969 GAAGAAGTGC
61788979 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTATTG
**
61789005 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATTG
61789030 AAAAGGGCTTTGCCCCAG-TTATT-
1 AAAAGGGCTTTGCCCCAGTTTATTG
61789053 AAAAGAGGCT
1 AAAAG-GGCT
61789063 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.09
24 7 0.13
25 31 0.58
26 10 0.19
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTG
Found at i:61789345 original size:31 final size:31
Alignment explanation
Indices: 61789268--61789346 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
61789258 TGTTTACAGT
*
61789268 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
61789299 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
61789330 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
61789347 AACCATTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:61800961 original size:19 final size:19
Alignment explanation
Indices: 61800937--61800983 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
61800927 TGAGGACACA
61800937 GGCGTGTCAAAGCCACATG
1 GGCGTGTCAAAGCCACATG
*
61800956 GGCGTGTCAAAGGCACATG
1 GGCGTGTCAAAGCCACATG
61800975 GGCGTGTCA
1 GGCGTGTCA
61800984 CCCTGTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.36, T:0.17
Consensus pattern (19 bp):
GGCGTGTCAAAGCCACATG
Found at i:61814375 original size:47 final size:47
Alignment explanation
Indices: 61814323--61814679 Score: 561
Period size: 47 Copynumber: 7.6 Consensus size: 47
61814313 GATAATTGTG
* *
61814323 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
61814370 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
61814417 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
61814466 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
61814513 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
61814560 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
61814607 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
61814654 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
61814680 TCCCGAAGGG
Statistics
Matches: 286, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 241 0.84
49 45 0.16
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:61816261 original size:25 final size:25
Alignment explanation
Indices: 61816233--61816291 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
61816223 GGGGTGTTAC
61816233 AGCCCTTTT-TGATAAACTGGGGCAA
1 AGCCCTTTTCT-ATAAACTGGGGCAA
*
61816258 AGCCCTTTTCTATAAACTGGGGCAT
1 AGCCCTTTTCTATAAACTGGGGCAA
61816283 AGCCCTTTT
1 AGCCCTTTT
61816292 AGCACTTCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (25 bp):
AGCCCTTTTCTATAAACTGGGGCAA
Found at i:61817163 original size:27 final size:27
Alignment explanation
Indices: 61817101--61817178 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
61817091 GGGCATATTC
61817101 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
61817128 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
61817155 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
61817179 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:61817249 original size:27 final size:27
Alignment explanation
Indices: 61817196--61817448 Score: 134
Period size: 27 Copynumber: 9.3 Consensus size: 27
61817186 TTTCATCCTA
** * * *
61817196 CAAGGGTATTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAC
*
61817223 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAC
* * *
61817250 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTTC-AGTAA-TTTTATAAA-C
* *
61817279 CAAGGGTATTTCTA-TAATTTTGTAAAT
1 CAAGGGTATTTC-AGTAATTTTATAAAC
* ** * *
61817306 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAC
** * * *
61817333 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAC
** *
61817360 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTCAGTAATTTTATAAAC
* * ** *
61817387 TAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAC
* * * *
61817414 CAAAGGCATTTTAGTAATTTTATAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAC
*
61817441 CGAGGGTA
1 CAAGGGTA
61817449 AAATGGTAAT
Statistics
Matches: 179, Mismatches: 41, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
26 2 0.01
27 145 0.81
28 16 0.09
29 16 0.09
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTATAAAC
Found at i:61817367 original size:110 final size:108
Alignment explanation
Indices: 61817196--61817448 Score: 267
Period size: 110 Copynumber: 2.3 Consensus size: 108
61817186 TTTCATCCTA
* * * * ***
61817196 CAAGGGTATTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAACCAATGGTATTT
* * *
61817261 CT-ATAATTTTTAGAAAGTCAAGGGTATTTCT-ATAATTTTGTAAAT
66 -TGATAA-TTTTACAAACT-AAGGGTATTT-TGATAATTTTGTAAAC
* * * *
61817306 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAACCAATGGTATTT
* * *
61817371 TGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAAC
66 TGATAATTTTACAAACTAAGGGTATTTTGATAATTTTGTAAAC
* * * *
61817414 CAAAGGCATTTTAGTAATTTTATAAATCGAGGGTA
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTA
61817449 AAATGGTAAT
Statistics
Matches: 118, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
107 1 0.01
108 50 0.42
109 10 0.08
110 57 0.48
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (108 bp):
CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAACCAATGGTATTT
TGATAATTTTACAAACTAAGGGTATTTTGATAATTTTGTAAAC
Found at i:61817368 original size:54 final size:54
Alignment explanation
Indices: 61817310--61817448 Score: 163
Period size: 54 Copynumber: 2.6 Consensus size: 54
61817300 GTAAATCAGG
**
61817310 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAA
* * ***
61817364 GGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTGTAAACCAAA
1 GGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAAA
* * * *
61817418 GGCATTTTAGTAATTTTATAAATCGAGGGTA
1 GGTATTTTGGTAATTTTACAAATTGAGGGTA
61817449 AAATGGTAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
53 1 0.01
54 69 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAA
Found at i:61817457 original size:27 final size:27
Alignment explanation
Indices: 61817427--61817583 Score: 206
Period size: 27 Copynumber: 5.8 Consensus size: 27
61817417 AGGCATTTTA
* *
61817427 GTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
61817454 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
61817481 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
61817508 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
61817535 ATAATTATGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
61817562 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
61817584 CTTATCCACC
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:61817484 original size:81 final size:81
Alignment explanation
Indices: 61817399--61817574 Score: 208
Period size: 81 Copynumber: 2.2 Consensus size: 81
61817389 GGGGTATTTT
* *** *** *
61817399 GGTAATTTTGTAAACCAAAGGCATTTTAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTAT
1 GGTAATTCTGTAAACCAAAGGCAAAATAGTAATTTTATAAATCGAGGGTAAAACAATAATTATAT
*
61817464 AAATTGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
*** * * * *
61817480 GGTAATTCTGTAAATTGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAATAATTATGT
1 GGTAATTCTGTAAACCAAAGGCAAAATAGTAATTTTATAAATCGAGGGTAAAACAATAATTATAT
61817545 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
61817561 GGTAATTCTGTAAA
1 GGTAATTCTGTAAA
61817575 TCGAGGGTAC
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (81 bp):
GGTAATTCTGTAAACCAAAGGCAAAATAGTAATTTTATAAATCGAGGGTAAAACAATAATTATAT
AAATCGAGGGTAAAAC
Found at i:61817575 original size:81 final size:81
Alignment explanation
Indices: 61817427--61817583 Score: 251
Period size: 81 Copynumber: 1.9 Consensus size: 81
61817417 AGGCATTTTA
*** * *
61817427 GTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTGTA
1 GTAATTTTATAAATCGAGGGTAAAACAATAATTATATAAATCGAGGGTAAAACGGTAATTCTGTA
*
61817492 AATTGAGGGTAAAATG
66 AATCGAGGGTAAAATG
*
61817508 GTAATTTTATAAATCGAGGGTAAAACAATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTTTATAAATCGAGGGTAAAACAATAATTATATAAATCGAGGGTAAAACGGTAATTCTGTA
61817573 AATCGAGGGTA
66 AATCGAGGGTA
61817584 CTTATCCACC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (81 bp):
GTAATTTTATAAATCGAGGGTAAAACAATAATTATATAAATCGAGGGTAAAACGGTAATTCTGTA
AATCGAGGGTAAAATG
Found at i:61818886 original size:24 final size:24
Alignment explanation
Indices: 61818820--61818879 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
61818810 CTGTCAGGAG
*
61818820 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGAAT
61818844 AGGATTTAGGAGTTGATAAGGAAT
1 AGGATTTAGGAGTTGATAAGGAAT
61818868 AGGATTTAGGAG
1 AGGATTTAGGAG
61818880 CAGATAATGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.37, T:0.28
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGAAT
Found at i:61820347 original size:27 final size:26
Alignment explanation
Indices: 61820307--61820418 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
61820297 AGGAAGCGTC
*
61820307 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
61820334 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
61820361 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * * *
61820389 CTAGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
61820415 CTGG
1 CTGG
61820419 CAACCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.71
28 15 0.21
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:61820411 original size:54 final size:54
Alignment explanation
Indices: 61820307--61820418 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
61820297 AGGAAGCGTC
* *
61820307 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
* * * *
61820361 CTGGTGGTTCTGCCACGATTATCTGTATCTAGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
61820415 CTGG
1 CTGG
61820419 CAACCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
Found at i:61821499 original size:11 final size:10
Alignment explanation
Indices: 61821471--61821504 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
61821461 AGCCTGTAAG
61821471 TATTCTGAAT
1 TATTCTGAAT
*
61821481 TTTTCTGAAT
1 TATTCTGAAT
61821491 ATATTCTGAAT
1 -TATTCTGAAT
61821502 TAT
1 TAT
61821505 CACTAGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:61824607 original size:40 final size:39
Alignment explanation
Indices: 61824537--61824718 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
61824527 AAACCAAGTA
* * *
61824537 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TACTCGCACAAATG
*
61824576 CCTTTGGGACTTAGCCCGGTTATAGTGACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGT-ACTCGCACAAATG
* *
61824616 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATT
1 CCTTCGGGACTTAGCCCGGTTATAGT-ACTCGCACAAATG
* *
61824656 CCTTCGGGGCTTAGCCCGGAATTA-A-TCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGG--TTATAGT-ACTCGCACAAATG
61824696 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
61824719 CATCTGAATA
Statistics
Matches: 124, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 3 0.02
39 13 0.10
40 105 0.85
41 1 0.01
42 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGTTATAGTACTCGCACAAATG
Found at i:61832936 original size:39 final size:40
Alignment explanation
Indices: 61832746--61832959 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
61832736 AAACCAAGTA
* *
61832746 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
61832785 CCTTC-GGACTTAG-CCGGTTATAGT-ACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61832822 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61832862 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
61832902 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61832941 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61832960 TTATCATCCG
Statistics
Matches: 164, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
37 18 0.11
38 25 0.15
39 50 0.30
40 71 0.43
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61832936 original size:79 final size:79
Alignment explanation
Indices: 61832746--61832959 Score: 305
Period size: 79 Copynumber: 2.7 Consensus size: 79
61832736 AAACCAAGTA
* * * *
61832746 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTC-GGACTTAG-CCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
61832807 GTACTCGCACAAATG
65 GTACTCGCACAAATG
*
61832822 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
61832887 TAACTCGCACAAATG
66 T-ACTCGCACAAATG
*
61832902 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
61832960 TTATCATCCG
Statistics
Matches: 127, Mismatches: 5, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
76 14 0.11
77 27 0.21
78 9 0.07
79 56 0.44
80 21 0.17
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TACTCGCACAAATG
Found at i:61839845 original size:27 final size:26
Alignment explanation
Indices: 61839805--61839916 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
61839795 AGGAAGCGTC
*
61839805 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
61839832 CTGGTGGCTCTGCCACATATATGTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
61839859 CTGGTTGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
61839887 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
61839913 CTGG
1 CTGG
61839917 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.10
27 48 0.69
28 15 0.21
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:61845190 original size:39 final size:39
Alignment explanation
Indices: 61845143--61845258 Score: 187
Period size: 39 Copynumber: 3.0 Consensus size: 39
61845133 CTGGACATAT
* *
61845143 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
* * *
61845182 TTCTAGCACATAGCCTGCTGACCCTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
61845221 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
61845259 CATCACTGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
Found at i:61851684 original size:39 final size:39
Alignment explanation
Indices: 61851641--61851757 Score: 180
Period size: 39 Copynumber: 3.0 Consensus size: 39
61851631 CCAGACATAT
** * *
61851641 TTCCAGCATGTAGCATGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
*
61851680 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
*
61851719 TTCCAGCACATAGCCTGCAGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
61851758 ATCACTGAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
Found at i:61851686 original size:78 final size:78
Alignment explanation
Indices: 61851593--61851757 Score: 183
Period size: 78 Copynumber: 2.1 Consensus size: 78
61851583 GAATTTAAAC
* * * * **
61851593 CCGG-TATAATACCAGCTCCA-AGCCTGCGGGA-CTTTAGCCCAGACATATTTCCAGCATGTAGC
1 CCGGATATAATACCAGC-ACATAGCCTGC-GGACCCTAAGCCCAGACATAATTCCAGCACATAGC
* *
61851655 ATGCGGACCTTAAGT
64 ATGCAGACCCTAAGT
* * * *
61851670 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAATTCCAGCACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCAGACATAATTCCAGCACATAGCAT
61851735 GCAGACCCTAAGT
66 GCAGACCCTAAGT
61851748 CCGGATATAA
1 CCGGATATAA
61851758 ATCACTGAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
77 9 0.12
78 64 0.88
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCAGACATAATTCCAGCACATAGCAT
GCAGACCCTAAGT
Found at i:61860615 original size:39 final size:40
Alignment explanation
Indices: 61860571--61860856 Score: 397
Period size: 40 Copynumber: 7.2 Consensus size: 40
61860561 CCTTCGGAGT
* *
61860571 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
61860610 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
61860650 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
61860690 TTAGCCCGGTTATAGTAACTCGCAC-AATAGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAAT-GCCTTCGGGAC
* *
61860730 TTAGCCCTGATATAGTAACTCGTACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
61860769 TTAGCCCGGA-ATTAGTCACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
* *
61860808 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
61860848 TTAGCCCGG
1 TTAGCCCGG
61860857 GTATCAATCC
Statistics
Matches: 231, Mismatches: 10, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.00
39 80 0.35
40 147 0.64
41 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:61866292 original size:42 final size:42
Alignment explanation
Indices: 61866183--61866298 Score: 124
Period size: 42 Copynumber: 2.8 Consensus size: 42
61866173 TAAGATTCCG
* * * * *
61866183 TATAAGACCATATCTAGGATATGGCATCGGTATGCGATTTCG
1 TATAAGACCATATCTGGGATATGGCGTCGATATGAGATTTCA
* * * * *
61866225 TATAAGACCTTGTCAGGGACATGGCGTCGATATGATATTTCA
1 TATAAGACCATATCTGGGATATGGCGTCGATATGAGATTTCA
* *
61866267 TGTAAGACCATATCTGGGATATGGCGTTGATA
1 TATAAGACCATATCTGGGATATGGCGTCGATA
61866299 CGGTACTAAG
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
TATAAGACCATATCTGGGATATGGCGTCGATATGAGATTTCA
Found at i:61870709 original size:27 final size:27
Alignment explanation
Indices: 61870638--61870752 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
61870628 TGGAGGAAGC
61870638 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
*
61870665 GTTTCTAGTGGCTATGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCACAAATATCT
* *
61870693 GTTCTGGTGGCTCTGCCA-TAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
* * *
61870719 GTATCTGGTGACTCTGTCAC-AATATCT
1 GT-TCTGGTGGCTATGCCACAAATATCT
61870746 GTTCTGG
1 GTTCTGG
61870753 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 14 0.18
27 39 0.49
28 26 0.33
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTATGCCACAAATATCT
Found at i:61875497 original size:27 final size:25
Alignment explanation
Indices: 61875445--61875497 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
61875435 AAACTCTTCT
**
61875445 AAAAGAAACTCAAGAGAAATTCTTG
1 AAAAGAAACTCAAGAGAAATAATTG
*
61875470 AAAAGAAAACTCAAAGAGAAGTAATTG
1 AAAAG-AAACTC-AAGAGAAATAATTG
61875497 A
1 A
61875498 TTGCTTTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 6 0.26
27 12 0.52
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (25 bp):
AAAAGAAACTCAAGAGAAATAATTG
Found at i:61876523 original size:96 final size:96
Alignment explanation
Indices: 61876340--61876525 Score: 279
Period size: 96 Copynumber: 1.9 Consensus size: 96
61876330 CTTACTTTCT
*
61876340 TCTCTAGTTGGATATTTAATTGGACATCGAAAACTCTTATGATCTTTTGAACTACACCAATAACA
1 TCTCTAGTTGGATATTTAATTGGACATCGAAAACTCTTATGATCTTTTAAACTACACCAATAACA
*
61876405 TTGCACAATAGATGGTAGCTCAATCATCTTC
66 TTGCACAATAGATGGTAACTCAATCATCTTC
* * *
61876436 TCTCTATTTGGATATTTAATTGGACATTGGAAAC-CTTTATGATCTTTTAAACTACACCAATAAC
1 TCTCTAGTTGGATATTTAATTGGACATCGAAAACTC-TTATGATCTTTTAAACTACACCAATAAC
61876500 ATTGCACAA-A-ATGTGATAACTCAATC
65 ATTGCACAATAGATG-G-TAACTCAATC
61876526 GTATTCCTCC
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
94 3 0.04
95 3 0.04
96 76 0.93
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (96 bp):
TCTCTAGTTGGATATTTAATTGGACATCGAAAACTCTTATGATCTTTTAAACTACACCAATAACA
TTGCACAATAGATGGTAACTCAATCATCTTC
Found at i:61891722 original size:27 final size:27
Alignment explanation
Indices: 61891549--61891943 Score: 244
Period size: 27 Copynumber: 14.7 Consensus size: 27
61891539 TTAGTTTACC
** * * *
61891549 AAATTACTGAAATACCCTCAAATTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
61891576 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
****
61891603 AAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* ***** * *
61891630 GAATTACTGTTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** *
61891657 GAATTACTATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* *
61891684 AAATTACTAAAATACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * **
61891711 GAATTACCAAAATACCCTTGA-CCAGTA
1 AAATTACCAAAATACCCTCGATTTA-TA
* *
61891738 AAATTACCAAAATACCCTAG-TTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * * * *
61891764 AAATTGCTAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* *
61891791 AAATTA-CAGAAATACCCTCAATTTGTA
1 AAATTACCA-AAATACCCTCGATTTATA
* *
61891818 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * * * *
61891845 AAATTACCAAAATACCATTGGTTTGTG
1 AAATTACCAAAATACCCTCGATTTATA
* * *
61891872 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
61891899 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACCAAAATACCCTC-GATTTATA
*
61891926 AAGTTA-CAGAAATACCCT
1 AAATTACCA-AAATACCCT
61891944 TGACTTTCTA
Statistics
Matches: 302, Mismatches: 56, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
26 26 0.09
27 274 0.91
28 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:61891993 original size:27 final size:27
Alignment explanation
Indices: 61891954--61892005 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
61891944 TGACTTTCTA
61891954 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
61891981 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
61892006 GTAGATTTAC
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:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:61892089 original size:27 final size:27
Alignment explanation
Indices: 61892050--61892146 Score: 108
Period size: 27 Copynumber: 3.6 Consensus size: 27
61892040 GACTAAAATA
* *
61892050 CCCCTATTAGGTAAAAAGACCGTAAAG
1 CCCCTGTTGGGTAAAAAGACCGTAAAG
*
61892077 CCCCTGTTGGGTAAAGAGACCGTAAAG
1 CCCCTGTTGGGTAAAAAGACCGTAAAG
* **
61892104 CCCCTGTAGGGTAAAGTGACCGTAATA-
1 CCCCTGTTGGGTAAAAAGACCGTAA-AG
61892131 CCCCTGTAT-GGTAAAA
1 CCCCTGT-TGGGTAAAA
61892147 TGACGAATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
27 60 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.21
Consensus pattern (27 bp):
CCCCTGTTGGGTAAAAAGACCGTAAAG
Found at i:61892906 original size:16 final size:16
Alignment explanation
Indices: 61892885--61892915 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61892875 CAAATATGGG
61892885 CATGACATTCTGCATA
1 CATGACATTCTGCATA
*
61892901 CATGACATTTTGCAT
1 CATGACATTCTGCAT
61892916 TGGGTTCGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (16 bp):
CATGACATTCTGCATA
Found at i:61892978 original size:26 final size:26
Alignment explanation
Indices: 61892949--61893098 Score: 203
Period size: 26 Copynumber: 5.8 Consensus size: 26
61892939 GAGGAAGTGC
61892949 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* * * **
61892975 AAAAGGTCTTAGGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
61893001 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
61893027 AAAAAGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
61893053 AAAAAGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
61893079 AAAAGGG-TTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
61893099 ATTAAAAGAG
Statistics
Matches: 109, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
25 12 0.11
26 97 0.89
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:61893079 original size:78 final size:77
Alignment explanation
Indices: 61892949--61893098 Score: 239
Period size: 78 Copynumber: 1.9 Consensus size: 77
61892939 GAGGAAGTGC
* *
61892949 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGTCTTAGGCCCTAGTTTATTGAAAAGGGCTTATG
1 AAAAAGGCTTATGCCCCAGTTTACCGAAAAGGTCTTAGGCCCCAGTTTATTGAAAAGGG-TTATG
61893014 CCCCAGTTTACCG
65 CCCCAGTTTACCG
* *
61893027 AAAAAGGCTTATGCCCCAGTTTACCGAAAAAGG-CTTATGCCCCAGTTTATTGAAAAGGGTTTTG
1 AAAAAGGCTTATGCCCCAGTTTACCG-AAAAGGTCTTAGGCCCCAGTTTATTGAAAAGGGTTATG
61893091 CCCCAGTT
65 CCCCAGTT
61893099 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
77 12 0.18
78 49 0.73
79 6 0.09
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (77 bp):
AAAAAGGCTTATGCCCCAGTTTACCGAAAAGGTCTTAGGCCCCAGTTTATTGAAAAGGGTTATGC
CCCAGTTTACCG
Found at i:61895608 original size:27 final size:27
Alignment explanation
Indices: 61895559--61895912 Score: 128
Period size: 27 Copynumber: 13.3 Consensus size: 27
61895549 CAAATTACTG
* * * *
61895559 AAATACCCTCAAATTGTAAAATTACCA
1 AAATACCCTCGATTTATAGAATTACCA
* **
61895586 AAGTACCCTCGATTTATAGAATTACTG
1 AAATACCCTCGATTTATAGAATTACCA
*** * * *
61895613 TTTTACCCTTGATTTATAGAAATACTA
1 AAATACCCTCGATTTATAGAATTACCA
*** * * *
61895640 TTTTACCCTCGATTTACAAAATTACTAA
1 AAATACCCTCGATTTATAGAATTAC-CA
*
61895668 AAATA-CCTC-AGTTTACAGAATTA-CA
1 AAATACCCTCGA-TTTATAGAATTACCA
* *
61895693 AAATACCCTCTGA-TCATAAAATTACCA
1 AAATACCCTC-GATTTATAGAATTACCA
* * * *
61895720 AAATACCCTAG-TTTGTA-AATTGCTA
1 AAATACCCTCGATTTATAGAATTACCA
* * *
61895745 AAATACCCTTGGTTTGTA-AATTA-CA
1 AAATACCCTCGATTTATAGAATTACCA
* *
61895770 GAAAT-CCCTCAATTTGTA-AATTACCA
1 -AAATACCCTCGATTTATAGAATTACCA
* * *
61895796 AAATACCC-CTAGTTTGTAAAATTACCA
1 AAATACCCTCGA-TTTATAGAATTACCA
* *
61895823 AAATACCACT-G-TTTGT-GAAATTACACG
1 AAATACC-CTCGATTTATAG-AATTAC-CA
** * *
61895850 AAATACCCTTAATTTGTAAAATTACCA
1 AAATACCCTCGATTTATAGAATTACCA
* *
61895877 AAATACCC-CTGATTTACA-AAGTTACAA
1 AAATACCCTC-GATTTATAGAA-TTACCA
61895904 AAATACCCT
1 AAATACCCT
61895913 TGACTTTCTA
Statistics
Matches: 255, Mismatches: 49, Indels: 45
0.73 0.14 0.13
Matches are distributed among these distances:
25 44 0.17
26 57 0.22
27 138 0.54
28 16 0.06
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATACCCTCGATTTATAGAATTACCA
Found at i:61895747 original size:25 final size:26
Alignment explanation
Indices: 61895709--61895884 Score: 184
Period size: 26 Copynumber: 6.7 Consensus size: 26
61895699 CCTCTGATCA
61895709 TAAAATTACCAAAATACCCTAGTTTG
1 TAAAATTACCAAAATACCCTAGTTTG
* * *
61895735 T-AAATTGCTAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCC-TAGTTTG
*
61895761 T-AAATTA-CAGAAAT-CCCTCAATTTG
1 TAAAATTACCA-AAATACCCT-AGTTTG
61895786 T-AAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATA-CCCTAGTTTG
61895812 TAAAATTACCAAAATACCACT-GTTTG
1 TAAAATTACCAAAATACC-CTAGTTTG
* * *
61895838 TGAAATTACACGAAATACCCTTAATTTG
1 TAAAATTAC-CAAAATACCC-TAGTTTG
61895866 TAAAATTACCAAAATACCC
1 TAAAATTACCAAAATACCC
61895885 CTGATTTACA
Statistics
Matches: 126, Mismatches: 13, Indels: 21
0.79 0.08 0.13
Matches are distributed among these distances:
24 1 0.01
25 34 0.27
26 41 0.33
27 38 0.30
28 12 0.10
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (26 bp):
TAAAATTACCAAAATACCCTAGTTTG
Found at i:61895908 original size:54 final size:53
Alignment explanation
Indices: 61895657--61895913 Score: 172
Period size: 54 Copynumber: 4.9 Consensus size: 53
61895647 CTCGATTTAC
* * * * **
61895657 AAAATTACTAAAAATACCTCAGTTT-ACAGAATTAC-AAAATACCCTCTGA-TCAT
1 AAAATTAC-CAAAATACCACTGTTTGACA-AATTACAAAAATACCCT-TAATTTGT
* * * **
61895710 AAAATTACCAAAATACC-CTAGTTTG-TAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCACT-GTTTGACAAATTACAAAAATACCCTTAATTTGT
* * ** * * * *
61895762 -AAATTA-CAGAAATCCCTCAATTTG-TAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCA-AAATACCACTGTTTGACAAATTACAAAAATACCCTTAATTTGT
** *
61895813 AAAATTACCAAAATACCACTGTTTGTGAAATTACACGAAATACCCTTAATTTGT
1 AAAATTACCAAAATACCACTGTTTGACAAATTACA-AAAATACCCTTAATTTGT
*
61895867 AAAATTACCAAAATACCCCTGATTT-ACAAAGTTACAAAAATACCCTT
1 AAAATTACCAAAATACCACTG-TTTGACAAA-TTACAAAAATACCCTT
61895914 GACTTTCTAA
Statistics
Matches: 165, Mismatches: 27, Indels: 23
0.77 0.13 0.11
Matches are distributed among these distances:
50 2 0.01
51 47 0.28
52 43 0.26
53 17 0.10
54 48 0.29
55 8 0.05
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (53 bp):
AAAATTACCAAAATACCACTGTTTGACAAATTACAAAAATACCCTTAATTTGT
Found at i:61895956 original size:27 final size:26
Alignment explanation
Indices: 61895923--61895973 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
61895913 TGACTTTCTA
61895923 AAAATTA-TGGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACC-TTGGTTTAC
61895950 AAAATTACTGAAATACCTTGGTTT
1 AAAATTACTGAAATACCTTGGTTT
61895974 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 7 0.30
27 15 0.65
28 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (26 bp):
AAAATTACTGAAATACCTTGGTTTAC
Found at i:61896090 original size:27 final size:26
Alignment explanation
Indices: 61896024--61896111 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 26
61896014 ATACACCTAT
*
61896024 TAGGTAAAAAGACCGTAAAGCCCCTG
1 TAGGTAAAGAGACCGTAAAGCCCCTG
61896050 TAGGTAAAGAGACCGTAAAGCCCCTG
1 TAGGTAAAGAGACCGTAAAGCCCCTG
* *
61896076 TAGGGTAAAGTGACCATAATA-CCCCTG
1 TA-GGTAAAGAGACCGTAA-AGCCCCTG
61896103 TATGGTAAA
1 TA-GGTAAA
61896112 ATGATGAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 27 0.48
27 28 0.50
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
TAGGTAAAGAGACCGTAAAGCCCCTG
Found at i:61896929 original size:25 final size:25
Alignment explanation
Indices: 61896901--61897079 Score: 185
Period size: 24 Copynumber: 7.3 Consensus size: 25
61896891 AGGGAAGTGT
61896901 AAAGGGCTTATGCCCAGTTTATTGA
1 AAAGGGCTTATGCCCAGTTTATTGA
* *
61896926 AAA-GGCTTATGCCCAATTTA-CGA
1 AAAGGGCTTATGCCCAGTTTATTGA
*
61896949 AAAGGGCTTATGCCCTGTTTATTGA
1 AAAGGGCTTATGCCCAGTTTATTGA
* **
61896974 AAA-GGCTTATACCCAGTTTACCGA
1 AAAGGGCTTATGCCCAGTTTATTGA
61896998 AAAGGGCTTATGCCCCAG-TTATTGA
1 AAAGGGCTTATG-CCCAGTTTATTGA
**
61897023 AAAGGGCTT-TGCCCCAGTTTACCGA
1 AAAGGGCTTATG-CCCAGTTTATTGA
*
61897048 AAAGGG-TTTTGCCCCAG-TTATT-A
1 AAAGGGCTTATG-CCCAGTTTATTGA
61897071 AAAGAGGCT
1 AAAG-GGCT
61897080 AGGCTCCAGA
Statistics
Matches: 130, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
23 10 0.08
24 66 0.51
25 49 0.38
26 5 0.04
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCAGTTTATTGA
Found at i:61896972 original size:48 final size:49
Alignment explanation
Indices: 61896901--61897074 Score: 234
Period size: 48 Copynumber: 3.6 Consensus size: 49
61896891 AGGGAAGTGT
*
61896901 AAAGGGCTTATGCCCAGTTTATTGAAAAGGCTTATGCCCAATTTA-CGA
1 AAAGGGCTTATGCCCAGTTTATTGAAAAGGCTTATGCCCAGTTTACCGA
* *
61896949 AAAGGGCTTATGCCCTGTTTATTGAAAAGGCTTATACCCAGTTTACCGA
1 AAAGGGCTTATGCCCAGTTTATTGAAAAGGCTTATGCCCAGTTTACCGA
61896998 AAAGGGCTTATGCCCCAG-TTATTGAAAAGGGCTT-TGCCCCAGTTTACCGA
1 AAAGGGCTTATG-CCCAGTTTATTGAAAA-GGCTTATG-CCCAGTTTACCGA
*
61897048 AAAGGG-TTTTGCCCCAG-TTATT-AAAAG
1 AAAGGGCTTATG-CCCAGTTTATTGAAAAG
61897075 AGGCTAGGCT
Statistics
Matches: 116, Mismatches: 6, Indels: 9
0.89 0.05 0.07
Matches are distributed among these distances:
47 1 0.01
48 46 0.40
49 41 0.35
50 28 0.24
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (49 bp):
AAAGGGCTTATGCCCAGTTTATTGAAAAGGCTTATGCCCAGTTTACCGA
Found at i:61897317 original size:29 final size:29
Alignment explanation
Indices: 61897284--61897353 Score: 99
Period size: 27 Copynumber: 2.5 Consensus size: 29
61897274 GTTTACAATG
*
61897284 AAGGCTTCGGCCCAATGATATGATTATGA
1 AAGGCTTCGGCCCAATGATATGATTATAA
*
61897313 AAGGCTTC-G-CCTATGATATGATTATAA
1 AAGGCTTCGGCCCAATGATATGATTATAA
*
61897340 AAGGCTTCGTCCCA
1 AAGGCTTCGGCCCA
61897354 GTAACCGTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 24 0.69
28 1 0.03
29 10 0.29
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (29 bp):
AAGGCTTCGGCCCAATGATATGATTATAA
Found at i:61899501 original size:40 final size:40
Alignment explanation
Indices: 61899361--61899536 Score: 170
Period size: 40 Copynumber: 4.5 Consensus size: 40
61899351 ATGATGTCCA
* * * *
61899361 GGCTAAG-CCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* *
61899400 GACTAAGAT-CCGAAGGC-TTTGTGCGAGATACT-AATCTCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC-CG
*
61899439 GGCTAAG--CCGAAAGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
61899477 GGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
61899517 GGCTATGTCCCGAAGGCATT
1 GGCTAAGTCCCGAAGGCATT
61899537 GAACGAGTAG
Statistics
Matches: 114, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
37 7 0.06
38 25 0.22
39 22 0.19
40 58 0.51
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:61907626 original size:79 final size:81
Alignment explanation
Indices: 61907490--61907674 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
61907480 TTGAATGATG
* *
61907490 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
61907554 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
61907569 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
61907631 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
61907649 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61907675 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:61907688 original size:40 final size:40
Alignment explanation
Indices: 61907491--61907674 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
61907481 TGAATGATGT
* * * *
61907491 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
61907531 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
61907571 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
61907609 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61907650 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
61907675 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:61907696 original size:79 final size:79
Alignment explanation
Indices: 61907543--61907707 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
61907533 GGACTAAGAT
* * **
61907543 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
61907608 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
61907622 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
61907685 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
61907701 CCGAAGG
1 CCGAAGG
61907708 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
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:61916659 original size:29 final size:28
Alignment explanation
Indices: 61916560--61916674 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 28
61916550 TACCTGTATG
* *
61916560 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* * *
61916588 TGGCCCATGAGGCCCAAATTACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* *
61916617 TGACCCAATT-GGCCCAAATCACATTTATA
1 TGGCCC-ATTAGGCCC-AATCACATTCATA
* *
61916646 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
61916674 T
1 T
61916675 TCATGCTCAC
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
28 28 0.41
29 38 0.55
30 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:61921171 original size:18 final size:19
Alignment explanation
Indices: 61921148--61921187 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
61921138 GCCTCTCGAT
61921148 GGTGGCTG-ACCACC-CCTC
1 GGTGGCTGTA-CACCACCTC
61921166 GGTGGCTGTACACCACCTC
1 GGTGGCTGTACACCACCTC
61921185 GGT
1 GGT
61921188 CCACAACTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.12, C:0.38, G:0.30, T:0.20
Consensus pattern (19 bp):
GGTGGCTGTACACCACCTC
Found at i:61923825 original size:29 final size:28
Alignment explanation
Indices: 61923768--61923853 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
61923758 TTCCTGTATG
* * *
61923768 TGGCCCATTAAGTCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
61923796 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
61923825 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
61923853 T
1 T
61923854 TCATGCTCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 25 0.50
29 25 0.50
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:61927810 original size:50 final size:49
Alignment explanation
Indices: 61927684--61927859 Score: 226
Period size: 50 Copynumber: 3.5 Consensus size: 49
61927674 TGAGGTTGCA
* * *
61927684 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAA-TT-GGTCACG
* * **
61927735 TGTGTAGTACTAAGTGCAGGTTACTACGTGTATCTGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAATT-GGTCACG
* * * *
61927785 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAATTGGTCACG
61927834 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
61927860 TGCGTACCAG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
49 31 0.28
50 44 0.40
51 34 0.31
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAATTGGTCACG
Found at i:61935211 original size:62 final size:62
Alignment explanation
Indices: 61935144--61935342 Score: 178
Period size: 62 Copynumber: 3.1 Consensus size: 62
61935134 TTTGGCTATG
* *
61935144 GGGAAAAGGAAAAGATGAAAGAAAGAAAGGTGAGAAGGGAAACTAGTATTCGGTTATGGCAA
1 GGGAAAAGGAAAAGATGAAAGAAAGAAAGGTGAAAAGGGAAAGTAGTATTCGGTTATGGCAA
* **
61935206 GGGAAAATGG-CAAGA-GAAAAGAAAATGATAAAAGAGACAAAAGAGAGGAAAGTA-TAGGTTCG
1 GGGAAAA-GGAAAAGATG-AAAG-AAA-G---AAAG-G-TGAAA-AG-GGAAAGTAGTA--TTCG
*
61935268 GCTAT-G---
53 GTTATGGCAA
61935274 GGGAAAAGGAAAAGATGAAAGAAAGAAAGGTGAAAAGGGAAAGTAGTATTCGGTTATGGCAA
1 GGGAAAAGGAAAAGATGAAAGAAAGAAAGGTGAAAAGGGAAAGTAGTATTCGGTTATGGCAA
61935336 GGGAAAA
1 GGGAAAA
61935343 CGGCACAGAG
Statistics
Matches: 107, Mismatches: 10, Indels: 40
0.68 0.06 0.25
Matches are distributed among these distances:
58 8 0.07
59 9 0.08
60 4 0.04
61 4 0.04
62 23 0.21
63 9 0.08
64 1 0.01
66 1 0.01
67 9 0.08
68 16 0.15
69 3 0.03
70 4 0.04
71 8 0.07
72 8 0.07
ACGTcount: A:0.49, C:0.05, G:0.33, T:0.14
Consensus pattern (62 bp):
GGGAAAAGGAAAAGATGAAAGAAAGAAAGGTGAAAAGGGAAAGTAGTATTCGGTTATGGCAA
Found at i:61935261 original size:130 final size:131
Alignment explanation
Indices: 61935089--61935353 Score: 469
Period size: 130 Copynumber: 2.0 Consensus size: 131
61935079 GGGAACAATG
* * *
61935089 GAGAAAAGCAAATGATGAAAGAGACAAAAGAGAGGAAAGTATAGGTTTGGCTATGGGGAAAAGGA
1 GAGAAAAGAAAATGATAAAAGAGACAAAAGAGAGGAAAGTATAGGTTCGGCTATGGGGAAAAGGA
* *
61935154 AAAGATGAAAGAAAGAAAGGTGAGAAGGGAAACTAGTATTCGGTTATGGCAAGGGAAAATGGCA-
66 AAAGATGAAAGAAAGAAAGGTGAAAAGGGAAACTAGTATTCGGTTATGGCAAGGGAAAACGGCAC
61935218 A
131 A
61935219 GAGAAAAGAAAATGATAAAAGAGACAAAAGAGAGGAAAGTATAGGTTCGGCTATGGGGAAAAGGA
1 GAGAAAAGAAAATGATAAAAGAGACAAAAGAGAGGAAAGTATAGGTTCGGCTATGGGGAAAAGGA
*
61935284 AAAGATGAAAGAAAGAAAGGTGAAAAGGGAAAGTAGTATTCGGTTATGGCAAGGGAAAACGGCAC
66 AAAGATGAAAGAAAGAAAGGTGAAAAGGGAAACTAGTATTCGGTTATGGCAAGGGAAAACGGCAC
61935349 A
131 A
61935350 GAGA
1 GAGA
61935354 GTTATAAGGT
Statistics
Matches: 128, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
130 123 0.96
131 5 0.04
ACGTcount: A:0.48, C:0.06, G:0.33, T:0.14
Consensus pattern (131 bp):
GAGAAAAGAAAATGATAAAAGAGACAAAAGAGAGGAAAGTATAGGTTCGGCTATGGGGAAAAGGA
AAAGATGAAAGAAAGAAAGGTGAAAAGGGAAACTAGTATTCGGTTATGGCAAGGGAAAACGGCAC
A
Found at i:61939472 original size:13 final size:13
Alignment explanation
Indices: 61939454--61939479 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61939444 ATATTATAAT
61939454 TATTTTATGTTAA
1 TATTTTATGTTAA
61939467 TATTTTATGTTAA
1 TATTTTATGTTAA
61939480 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:61940901 original size:40 final size:40
Alignment explanation
Indices: 61940853--61941098 Score: 379
Period size: 40 Copynumber: 6.2 Consensus size: 40
61940843 GGACTAAGAT
61940853 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
61940893 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
61940933 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
61940973 CCAAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
61941013 CTGAAGGCATCTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * *
61941053 TCGAAGGCATTTGTGCGAGTTG-CTATAT-CAGGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
61941092 CCGAAGG
1 CCGAAGG
61941099 TACTTGGGTT
Statistics
Matches: 188, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 15 0.08
40 172 0.91
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:61945166 original size:25 final size:25
Alignment explanation
Indices: 61945132--61945179 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
61945122 CGGGTATTCG
61945132 AGTTTGAATGGACAGGAAAATGTTA
1 AGTTTGAATGGACAGGAAAATGTTA
61945157 AGTTTGAATGGACAGGAAAATGT
1 AGTTTGAATGGACAGGAAAATGT
61945180 CAGAAAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.29, T:0.27
Consensus pattern (25 bp):
AGTTTGAATGGACAGGAAAATGTTA
Found at i:61951760 original size:39 final size:40
Alignment explanation
Indices: 61951715--61951934 Score: 204
Period size: 40 Copynumber: 5.7 Consensus size: 40
61951705 GCTCCTCGTT
* * * *
61951715 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
61951755 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
61951794 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
61951834 CAAAGGCCTTCGGGGCTTAA----AATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
61951869 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
61951910 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
61951935 CAGCATTCAA
Statistics
Matches: 149, Mismatches: 22, Indels: 18
0.79 0.12 0.10
Matches are distributed among these distances:
34 2 0.01
35 23 0.15
36 4 0.03
39 37 0.25
40 72 0.48
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:61951894 original size:75 final size:75
Alignment explanation
Indices: 61951788--61951927 Score: 176
Period size: 75 Copynumber: 1.9 Consensus size: 75
61951778 GATTTAATAA
* * * *
61951788 CTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGT-ACCTCGCACAAAGGCCTTCGGGGCTT
1 CTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTCACCTAGCACAAA-GCCTTCGGGACTT
61951852 AAAATTTGTAT
65 AAAATTTGTAT
** * *
61951863 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTT
1 CTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTCACCTAGCACAAAGCCTTCGGGACTT
61951927 A
65 A
61951928 GCCCGGACAG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
74 3 0.05
75 42 0.76
76 10 0.18
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (75 bp):
CTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTCACCTAGCACAAAGCCTTCGGGACTTA
AAATTTGTAT
Found at i:61951943 original size:41 final size:41
Alignment explanation
Indices: 61951866--61951943 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61951856 TTTGTATCTC
* * *
61951866 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61951907 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61951944 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61955384 original size:15 final size:15
Alignment explanation
Indices: 61955364--61955394 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
61955354 ATTTTACTGT
61955364 TGTTATATAGGATTA
1 TGTTATATAGGATTA
61955379 TGTTATATAGGATTA
1 TGTTATATAGGATTA
61955394 T
1 T
61955395 TATTTATTAT
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):
TGTTATATAGGATTA
Found at i:61966621 original size:67 final size:66
Alignment explanation
Indices: 61966486--61966640 Score: 170
Period size: 67 Copynumber: 2.3 Consensus size: 66
61966476 CCTAGCCAGT
* * * * *
61966486 TTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGTGACCTAGCTAC
1 TTATCTCGTAGCTCTCTTGTCTACATGGTG--CTACACATAGAACCACCCATGAGACCTAACTAC
61966551 ATA
64 ATA
* * *
61966554 -TATCTCATAGCTCTCTTGTCTACATGGTG-TACACATAGTATCACCCATGAGACCTAACTACAT
1 TTATCTCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACCCATGAGACCTAACT--A-
61966617 CATA
63 CATA
*
61966621 TTGTCTCGTAGCTCTCTTGT
1 TTATCTCGTAGCTCTCTTGT
61966641 ACACATGATG
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
64 23 0.32
66 1 0.01
67 32 0.44
68 17 0.23
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (66 bp):
TTATCTCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACCCATGAGACCTAACTACAT
A
Found at i:61976648 original size:33 final size:33
Alignment explanation
Indices: 61976573--61976657 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 33
61976563 TTAGGCCTAC
*
61976573 ACTGTTACTGTATAAGGCTAAAGCCCACACTAT
1 ACTGTTACTGTATAGGGCTAAAGCCCACACTAT
* * * * *
61976606 TCTGTTACTGTATAGGGCTAAGGCTCAGACTGT
1 ACTGTTACTGTATAGGGCTAAAGCCCACACTAT
* *
61976639 ACTGATACTGAATAGGGCT
1 ACTGTTACTGTATAGGGCT
61976658 CAGGGCTAGA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (33 bp):
ACTGTTACTGTATAGGGCTAAAGCCCACACTAT
Found at i:61977340 original size:26 final size:27
Alignment explanation
Indices: 61977304--61977394 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
61977294 AGCATAACTG
*
61977304 CCAGAAACAGTAAATGTGGCA-AGCCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
* * *
61977330 CTAGTATCAGTAATTGTGGCATAGCCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
* * *
61977357 CCAGTAACAGTGAATGTGACATAGTCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
61977384 CCAGT-ACAGTA
1 CCAGTAACAGTA
61977395 CTTCCTCCAT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 22 0.42
27 31 0.58
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGGCATAGCCA
Found at i:61977562 original size:27 final size:27
Alignment explanation
Indices: 61977522--61977609 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 27
61977512 CAGAACATAA
* *
61977522 GGGTATAATCGTCATTTTACCATACAG
1 GGGTATTATGGTCATTTTACCATACAG
* **
61977549 GGGTATTATGGTCATTTTACCCTATGG
1 GGGTATTATGGTCATTTTACCATACAG
* ** *
61977576 GGGTATTACGGTCATTTTATGATACAA
1 GGGTATTATGGTCATTTTACCATACAG
61977603 GGGTATT
1 GGGTATT
61977610 TCAGTAATTT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.38
Consensus pattern (27 bp):
GGGTATTATGGTCATTTTACCATACAG
Found at i:61977619 original size:27 final size:27
Alignment explanation
Indices: 61977600--61977670 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
61977590 TTTTATGATA
61977600 CAAGGGTATTTC-AGTAATTTTACAAAC
1 CAAGGGTATTTCGA-TAATTTTACAAAC
* *
61977627 CAAGGGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTCGATAATTTTACAAAC
* *
61977654 CAGGGGTATTTCTATAA
1 CAAGGGTATTTCGATAA
61977671 CGCCCCTAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 38 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (27 bp):
CAAGGGTATTTCGATAATTTTACAAAC
Found at i:61978610 original size:39 final size:39
Alignment explanation
Indices: 61978553--61978687 Score: 216
Period size: 39 Copynumber: 3.5 Consensus size: 39
61978543 TTAAGCCCGG
* * * *
61978553 ATATAATTCCAGCTCATAGCCTGCGGACCTAAAGTCTGA
1 ATATAATTCCAGCACATAGCTTGCGGACCTGAAGTCCGA
*
61978592 ATATAATTCCAGCACATAGCTTGCGGACCTGAAGTCCGG
1 ATATAATTCCAGCACATAGCTTGCGGACCTGAAGTCCGA
61978631 ATATAATTCCAGCACATAGCTTGCGGACCTGAAGTCCGA
1 ATATAATTCCAGCACATAGCTTGCGGACCTGAAGTCCGA
*
61978670 ATATAATTTCAGCACATA
1 ATATAATTCCAGCACATA
61978688 CAATTATGAT
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (39 bp):
ATATAATTCCAGCACATAGCTTGCGGACCTGAAGTCCGA
Found at i:61986181 original size:40 final size:40
Alignment explanation
Indices: 61986126--61986347 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
61986116 TACTCGGATG
*
61986126 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
61986166 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
61986206 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
61986246 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
61986286 ATAACCGGGCTAAATCCCGAAGGCATTTGAGTGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
61986326 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
61986348 TACTTGGTTT
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 17 0.10
40 154 0.90
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:61998012 original size:47 final size:47
Alignment explanation
Indices: 61997943--61998167 Score: 201
Period size: 47 Copynumber: 4.7 Consensus size: 47
61997933 GTATAATGCT
61997943 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCATGT-C
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCCATCATGTGC
* * ** *
61997990 GATGCCATGTCCCAGACATGGTCTTACACTGACTATTGAAATCAAG-GTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-CT-CCATCATGTG-C
* * *
61998039 GACGCCATGTACCAGACATGGTCTTACACTAGCTCTCACAT-ATTCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-CATCA-T-GTG-C
* * * *
61998089 AATGCCATGTCCCAGACATGGTCTTACACTGACTCT-TATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCATCATGT-G-C
*
61998137 GATG-CATGTCTCAGACAT-GTCTTACACTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC
61998168 ACACAAATAA
Statistics
Matches: 145, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
46 12 0.08
47 50 0.34
48 17 0.12
49 33 0.23
50 33 0.23
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCATCATGTGC
Found at i:61998115 original size:99 final size:96
Alignment explanation
Indices: 61997946--61998122 Score: 268
Period size: 96 Copynumber: 1.8 Consensus size: 96
61997936 TAATGCTGAT
* * *
61997946 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCATGTCGATGCCATGTCCCAGACATGG
1 GCCATGTACCAGACATGGTCTTACACTAGCTCATCCATCATGTCAATGCCATGTCCCAGACATGG
61998011 TCTTACACTGACTATTGAAATCAAGGTCGAC
66 TCTTACACTGACTATTGAAATCAAGGTCGAC
61998042 GCCATGTACCAGACATGGTCTTACACTAGCTC-TCACAT-ATTCGTGCCAATGCCATGTCCCAGA
1 GCCATGTACCAGACATGGTCTTACACTAGCTCATC-CATCA-T-GT--CAATGCCATGTCCCAGA
61998105 CATGGTCTTACACTGACT
61 CATGGTCTTACACTGACT
61998123 CTTATAATGT
Statistics
Matches: 73, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
95 3 0.04
96 34 0.47
97 2 0.03
99 34 0.47
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (96 bp):
GCCATGTACCAGACATGGTCTTACACTAGCTCATCCATCATGTCAATGCCATGTCCCAGACATGG
TCTTACACTGACTATTGAAATCAAGGTCGAC
Found at i:61998724 original size:30 final size:30
Alignment explanation
Indices: 61998690--61998764 Score: 141
Period size: 30 Copynumber: 2.5 Consensus size: 30
61998680 CACTTTTTGG
*
61998690 CAAAATGACCATTTTGCCCCTAGACTTTCA
1 CAAAATGACCATTTTGCCCCAAGACTTTCA
61998720 CAAAATGACCATTTTGCCCCAAGACTTTCA
1 CAAAATGACCATTTTGCCCCAAGACTTTCA
61998750 CAAAATGACCATTTT
1 CAAAATGACCATTTT
61998765 ACCCTTAGGC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.29
Consensus pattern (30 bp):
CAAAATGACCATTTTGCCCCAAGACTTTCA
Found at i:62000498 original size:33 final size:32
Alignment explanation
Indices: 62000457--62000539 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 32
62000447 TTTCATGGCC
* *
62000457 CAGCTATGGTCTTACATTAGTAGTGCCATAACCT
1 CAGCTATGGTCTTACATCA-AAGTGCCAT-ACCT
* * *
62000491 -AGTTATGGCCTTATCATCAAAGTGCCATAGCT
1 CAGCTATGGTCTTA-CATCAAAGTGCCATACCT
62000523 CAGCTATGGTCTTACAT
1 CAGCTATGGTCTTACAT
62000540 ATAAATATTG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
32 6 0.15
33 30 0.75
34 4 0.10
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (32 bp):
CAGCTATGGTCTTACATCAAAGTGCCATACCT
Found at i:62004958 original size:23 final size:22
Alignment explanation
Indices: 62004915--62004972 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
62004905 AAAAGGTATC
* *
62004915 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
62004936 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
62004959 TGCATATCATATCT
1 TACAAATCATATCT
62004973 AAAATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:62004966 original size:17 final size:19
Alignment explanation
Indices: 62004951--62005022 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
62004941 AATCATATCT
62004951 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
62004970 TCTAAAATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
62004988 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
62005005 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
62005023 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 16 0.33
18 15 0.31
19 17 0.35
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:62005007 original size:35 final size:37
Alignment explanation
Indices: 62004944--62005022 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
62004934 ATTACAAAAT
62004944 CATATC-T-TCTAAGATTGCATATCATATCTAAAATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAAATTG
*
62004980 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAAATTG
62005015 CATATCAT
1 CATATCAT
62005023 TGAAGATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.54
36 8 0.21
37 10 0.26
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAAATTG
Found at i:62005020 original size:14 final size:15
Alignment explanation
Indices: 62004983--62005020 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
62004973 AAAATTGCAA
62004983 TCATATCTAAGATTG
1 TCATATCTAAGATTG
62004998 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
62005015 -CATATC
1 TCATATC
62005021 ATTGAAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:62005450 original size:45 final size:45
Alignment explanation
Indices: 62005401--62005571 Score: 238
Period size: 45 Copynumber: 3.8 Consensus size: 45
62005391 GCTATTTTTG
**
62005401 ATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTTATCTTCA
1 ATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTTCA
* *
62005446 ATCTGCTCCCCATCTAATATAGAGACGCCAAATCTGCT-TCTTCA
1 ATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTTCA
* * *
62005490 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATC-TCTG
1 ATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTTC-A
* *
62005535 ATTTGCTCCCCATCTAATACAGAGATGCCAAATCTGT
1 ATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGT
62005572 CATATTGGAT
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
44 42 0.37
45 71 0.63
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTTCA
Found at i:62005505 original size:89 final size:89
Alignment explanation
Indices: 62005401--62005570 Score: 270
Period size: 89 Copynumber: 1.9 Consensus size: 89
62005391 GCTATTTTTG
*
62005401 ATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTTATCT-TCAATCTGCTCCCCATCTAATA
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCT-AATCTGCTCCCCATCTAATA
*
62005465 TAGAGACGCCAAATCTGCTTCTTCA
65 CAGAGACGCCAAATCTGCTTCTTCA
* * *
62005490 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCTGATTTGCTCCCCATCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCTAATCTGCTCCCCATCTAATAC
*
62005555 AGAGATGCCAAATCTG
66 AGAGACGCCAAATCTG
62005571 TCATATTGGA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
89 73 0.99
90 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCTAATCTGCTCCCCATCTAATAC
AGAGACGCCAAATCTGCTTCTTCA
Found at i:62005565 original size:134 final size:136
Alignment explanation
Indices: 62005399--62005660 Score: 316
Period size: 134 Copynumber: 1.9 Consensus size: 136
62005389 CTGCTATTTT
** * *
62005399 TGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTTATCTTCAATCTGCTCCCCATCT-AA
1 TGATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTCATATTCAATCTGCT-CCCATCTAAA
* *
62005463 TATA-GAGACGCCAAATCTGC-T-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCT
65 CACATGA-ACGCCAAATCTGCATGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCT
62005525 GTTATCTC
129 GTTATCTC
* * ** * * *
62005533 TGATTTGCTCCCCATCTAATACAGAGATGCCAAATCTGTCATATTGGATCTGCTTCGATGTAAAC
1 TGATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTCATATTCAATCTGCTCCCATCTAAAC
* * * *
62005598 ACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
66 ACATGAACGCCAAATCTGC-ATGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
62005661 ATCTTGGATC
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
133 4 0.04
134 60 0.57
135 2 0.02
136 1 0.01
137 39 0.37
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (136 bp):
TGATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTCATATTCAATCTGCTCCCATCTAAAC
ACATGAACGCCAAATCTGCATGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
TATCTC
Found at i:62005837 original size:78 final size:78
Alignment explanation
Indices: 62005600--62005893 Score: 441
Period size: 78 Copynumber: 3.8 Consensus size: 78
62005590 ATGTAAACAC
* *
62005600 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCTCGTCTAATACAGAGATGCCAAATCATCT
62005665 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* ** * *
62005678 ATAAAGGTCCA-ATCTATTATGTCTTTGATCTGCTCCGCATCTAATACAGAG-TGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTTGATCTGCTCCTCGTCTAATACAGAGATGCCAAATCATC
62005741 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
62005755 ATGAAGGTCAGATCTGCTGTGTCTTTGATCTGTTCCTCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCTCGTCTAATACAGAGATGCCAAATCATCT
62005820 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* **
62005833 ATGAAGGTCAGATCTGCTATGTCTTTTATCTGCT-CTCTGTCTAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCTC-GTCTAATACAGAGATGCCAAATC
62005894 TATTTCTTCG
Statistics
Matches: 194, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
76 2 0.01
77 70 0.36
78 120 0.62
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCTCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:62006293 original size:87 final size:87
Alignment explanation
Indices: 62006119--62006784 Score: 643
Period size: 87 Copynumber: 7.6 Consensus size: 87
62006109 AAATCTGTTA
* * * * *
62006119 TCTTCAATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTTAGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATC-TTAGATTTGCTTCAACATAAAC
* * * *
62006184 AAGTGAAAGGCAAATTATCTATG
65 ACGTGAAAGCCAAATCAGCTATG
* *
62006207 TCTTCAATCTGCTCCCTGCTAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACATAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACATAAACA
*
62006272 CGTGAAAACCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* * * *
62006294 TCCTCGATCTGTTCCCTACCAATACAGAGACGCCAAATCATCCTAGATTTGCTTCAACATAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACATAAACA
*
62006359 AGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* * **
62006381 TCTTCGATCTGCTCACTGCCAATACAGAGACTCCAAATCATCTTAGATTTGCTTCAATGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACATAAACA
62006446 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* * * * * * **
62006468 TCCTCGATCTGCTCCCTTCCAATACAGAGACGCCAAATCTGCTGTCTTTGATCTGTTCTCTGCCA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAA--T-C-ATCTTAGATTTGCT-TC-AACA
* * * * *
62006533 -ATACA-GAG-ATGCCAAATCTG-T-TA
60 TAAACACGTGAAAGCCAAATCAGCTATG
* * * * *
62006556 TCTTCGATCTGATCTCTGACAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACATAAACA
* *
62006621 CGTGAAAACCAAATCAGTTATG
66 CGTGAAAGCCAAATCAGCTATG
* * * * **
62006643 TCTTCGATCTGCTCCCTGCCAATATAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC----ATCTTAGATTTGCT-TC-AACA
* * * *
62006708 -ATACA-GAG-ATGCCAAATCTG-TCA--
60 TAAACACGTGAAAGCCAAATCAGCT-ATG
* * *
62006731 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTTGGATCTGCTT
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTT
62006785 TAGTGTAAAA
Statistics
Matches: 479, Mismatches: 81, Indels: 41
0.80 0.13 0.07
Matches are distributed among these distances:
82 1 0.00
83 7 0.01
84 25 0.05
85 10 0.02
86 2 0.00
87 264 0.55
88 107 0.22
89 3 0.01
90 21 0.04
91 26 0.05
92 12 0.03
93 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACATAAACA
CGTGAAAGCCAAATCAGCTATG
Found at i:62006534 original size:44 final size:44
Alignment explanation
Indices: 62006453--62006769 Score: 261
Period size: 44 Copynumber: 7.2 Consensus size: 44
62006443 ACACGTGAAA
* * * *
62006453 GCCAAATCAGCTATGTCCTCGATCTGCTCCCTTCCAATACAGAGAC
1 GCCAAATCTGCTA--TCTTCGATCTGCTCTCTGCCAATACAGAGAC
* * * *
62006499 GCCAAATCTGCTGTCTTTGATCTGTTCTCTGCCAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGAC
* * *
62006543 GCCAAATCTGTTATCTTCGATCTGATCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGAC
* * ** * * *
62006587 GCCAAA--T-C-ATCTTGGATTTGCT-TCAACGTAA-ACACGTGAAA
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGC-CAATACA-GAG-AC
* * * * * *
62006628 ACCAAATCAGTTATGTCTTCGATCTGCTCCCTGCCAATATAGAGAT
1 GCCAAATCTGCTA--TCTTCGATCTGCTCTCTGCCAATACAGAGAC
* *
62006674 GCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGAC
* *
62006718 GCCAAATCTG-TCATCTTCGATCTGCTCCCTGACAATACAGAGAC
1 GCCAAATCTGCT-ATCTTCGATCTGCTCTCTGCCAATACAGAGAC
62006762 GCCAAATC
1 GCCAAATC
62006770 ATCTTGGATC
Statistics
Matches: 216, Mismatches: 43, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
39 5 0.02
40 15 0.07
41 6 0.03
42 1 0.00
43 1 0.00
44 145 0.67
45 1 0.00
46 23 0.11
47 15 0.07
48 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGAC
Found at i:62006607 original size:262 final size:262
Alignment explanation
Indices: 62006119--62006681 Score: 674
Period size: 262 Copynumber: 2.1 Consensus size: 262
62006109 AAATCTGTTA
* * * *
62006119 TCTTCAATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTTAGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCACTGCCAATACAGAGACTCCAAATCATCTTTAGATTTGCTTCAACGTAAAC
* * * * *
62006184 AAGTGAAAGGCAAATTATCTATGTCTTCAATCTGCTCCCTGCTAATACAGAGACGCCAAATCATC
66 AAGTGAAAGCCAAATCAGCTATGTCCTCAATCTGCTCCCTGCCAATACAGAGACGCCAAATCATC
* * * *
62006249 TTAGATTTGCTTCAACATAAACACGTGAAAACCAAATCAGCTATGTCCTCGATCTGTTCCCTACC
131 TTAGATCTGCTTCAACATAAACACGAGAAAACCAAATCAGCTATATCCTCGATCTGATCCCTACC
*
62006314 AATACAGAGACGCCAAATCATCCTAGATTTGCTTCAACATAAACAAGTGAAAGCCAAATCAGCTA
196 AATACAGAGACGCCAAATCATCCTAGATTTGCTTCAACATAAACAAGTGAAAACCAAATCAGCTA
62006379 TG
261 TG
*
62006381 TCTTCGATCTGCTCACTGCCAATACAGAGACTCCAAATCATC-TTAGATTTGCTTCAATGTAAAC
1 TCTTCGATCTGCTCACTGCCAATACAGAGACTCCAAATCATCTTTAGATTTGCTTCAACGTAAAC
* * *
62006445 ACGTGAAAGCCAAATCAGCTATGTCCTCGATCTGCTCCCTTCCAATACAGAGACGCCAAATCTGC
66 AAGTGAAAGCCAAATCAGCTATGTCCTCAATCTGCTCCCTGCCAATACAGAGACGCCAAA--T-C
* * * ** * ** * *
62006510 TGTCTTTGATCTGTTCTCTGCCA-ATACA-GAG-ATGCCAAATCTG-T-TATCTTCGATCTGATC
128 -ATCTTAGATCTGCT-TC-AACATAAACACGAGAAAACCAAATCAGCTATATCCTCGATCTGATC
* * * * *
62006570 TCTGA-CAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACACGTGAAAACCAAA
190 CCT-ACCAATACAGAGACGCCAAATCATCCTAGATTTGCTTCAACATAAACAAGTGAAAACCAAA
*
62006634 TCAGTTATG
254 TCAGCTATG
* *
62006643 TCTTCGATCTGCTCCCTGCCAATATAGAGA-TGCCAAATC
1 TCTTCGATCTGCTCACTGCCAATACAGAGACT-CCAAATC
62006682 TGTTATCTTC
Statistics
Matches: 257, Mismatches: 36, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
261 74 0.29
262 150 0.58
263 3 0.01
264 10 0.04
265 12 0.05
266 6 0.02
267 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (262 bp):
TCTTCGATCTGCTCACTGCCAATACAGAGACTCCAAATCATCTTTAGATTTGCTTCAACGTAAAC
AAGTGAAAGCCAAATCAGCTATGTCCTCAATCTGCTCCCTGCCAATACAGAGACGCCAAATCATC
TTAGATCTGCTTCAACATAAACACGAGAAAACCAAATCAGCTATATCCTCGATCTGATCCCTACC
AATACAGAGACGCCAAATCATCCTAGATTTGCTTCAACATAAACAAGTGAAAACCAAATCAGCTA
TG
Found at i:62006625 original size:175 final size:174
Alignment explanation
Indices: 62006207--62006784 Score: 729
Period size: 175 Copynumber: 3.3 Consensus size: 174
62006197 ATTATCTATG
* * *
62006207 TCTTCAATCTGCTCCCTG-CTAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACATAAAC
1 TCTTCGATCTGCTCACTGAC-AATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAAC
*
62006271 ACGTGAAAACCAAATCAGCTATGTCCTCGATCTGTTCCCTACCAATACAGAGACGCCAAATCAT-
65 ACGTGAAAACCAAATCAGCTATGTCCTCGATCTGCTCCCTACCAATACAGAGACGCCAAATC-TG
* ** * * * * *
62006335 C--C-TAGATTTGCT-TC-AACATAAACAAGTGAAAGCCAAATCAGCTATG
129 CTTCTTAGATCTGCTCTCTGCCA-ATAC-AGAG-ATGCCAAATCTG-T-TA
* * *
62006381 TCTTCGATCTGCTCACTGCCAATACAGAGACTCCAAATCATCTTAGATTTGCTTCAATGTAAACA
1 TCTTCGATCTGCTCACTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
* *
62006446 CGTGAAAGCCAAATCAGCTATGTCCTCGATCTGCTCCCTTCCAATACAGAGACGCCAAATCTGCT
66 CGTGAAAACCAAATCAGCTATGTCCTCGATCTGCTCCCTACCAATACAGAGACGCCAAATCTGCT
* *
62006511 GTCTTTGATCTGTTCTCTGCCAATACAGAGATGCCAAATCTGTTA
131 -TCTTAGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
* * *
62006556 TCTTCGATCTGATCTCTGACAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCACTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
* * * * * *
62006621 CGTGAAAACCAAATCAGTTATGTCTTCGATCTGCTCCCTGCCAATATAGAGATGCCAAATCTGTT
66 CGTGAAAACCAAATCAGCTATGTCCTCGATCTGCTCCCTACCAATACAGAGACGCCAAATCTGCT
* *
62006686 ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCA
131 -TCTTAGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
* * *
62006731 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTTGGATCTGCTT
1 TCTTCGATCTGCTCACTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTT
62006785 TAGTGTAAAA
Statistics
Matches: 358, Mismatches: 38, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
173 1 0.00
174 117 0.33
175 211 0.59
176 1 0.00
177 11 0.03
178 10 0.03
179 5 0.01
180 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (174 bp):
TCTTCGATCTGCTCACTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
CGTGAAAACCAAATCAGCTATGTCCTCGATCTGCTCCCTACCAATACAGAGACGCCAAATCTGCT
TCTTAGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
Found at i:62007750 original size:8 final size:8
Alignment explanation
Indices: 62007737--62007780 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
62007727 GGCCTCTCCA
62007737 TTTTTTCT
1 TTTTTTCT
62007745 TTTTTTC-
1 TTTTTTCT
62007752 TTTTTT-T
1 TTTTTTCT
*
62007759 TCTTTTCT
1 TTTTTTCT
*
62007767 TTTTTCCT
1 TTTTTTCT
62007775 TTTTTT
1 TTTTTT
62007781 TTTGAAATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 11 0.37
8 19 0.63
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTTCT
Found at i:62007756 original size:9 final size:9
Alignment explanation
Indices: 62007737--62007769 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
62007727 GGCCTCTCCA
62007737 TTTTTTC-T
1 TTTTTTCTT
62007745 TTTTTTCTT
1 TTTTTTCTT
62007754 TTTTTTCTT
1 TTTTTTCTT
62007763 TTCTTTT
1 TT-TTTT
62007770 TTCCTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 7 0.30
9 12 0.52
10 4 0.17
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:62007764 original size:22 final size:22
Alignment explanation
Indices: 62007739--62007781 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
62007729 CCTCTCCATT
*
62007739 TTTTCTTTTTTTCTTTTTTTTC
1 TTTTCTTTTTTCCTTTTTTTTC
62007761 TTTTCTTTTTTCCTTTTTTTT
1 TTTTCTTTTTTCCTTTTTTTT
62007782 TTGAAATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (22 bp):
TTTTCTTTTTTCCTTTTTTTTC
Found at i:62007848 original size:83 final size:83
Alignment explanation
Indices: 62007752--62007915 Score: 228
Period size: 83 Copynumber: 2.0 Consensus size: 83
62007742 TCTTTTTTTC
* * *
62007752 TTTTTTTTCTTTTCT-TTTTTCCTT-TTTTTTTTGAAATAGAAGTCCCAAAGTGCCCTTTGCTG-
1 TTTTTTTTCTTTTCTCTTTTT-ATTATTATTTTT-AAATAGAAGTCACAAAGTGCCCTTTGC-GA
62007814 GTTTTCACCTTGGCCTCTCCA
63 GTTTTCACCTTGGCCTCTCCA
62007835 TTTTTTCTT-TTTTCTCTTTTTATTATTATTTTTAAATAGAAGTCACAAAGTGCCCTTTGCGAGT
1 TTTTTT-TTCTTTTCTCTTTTTATTATTATTTTTAAATAGAAGTCACAAAGTGCCCTTTGCGAGT
*
62007899 TTTCACCTTGGCTTCTC
65 TTTCACCTTGGCCTCTC
62007916 TTCTCCTTCA
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
82 1 0.01
83 58 0.79
84 14 0.19
ACGTcount: A:0.16, C:0.21, G:0.12, T:0.52
Consensus pattern (83 bp):
TTTTTTTTCTTTTCTCTTTTTATTATTATTTTTAAATAGAAGTCACAAAGTGCCCTTTGCGAGTT
TTCACCTTGGCCTCTCCA
Found at i:62013087 original size:17 final size:17
Alignment explanation
Indices: 62013065--62013098 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62013055 TATCATATCA
62013065 TATCATACCTAAAATTG
1 TATCATACCTAAAATTG
* *
62013082 TATCATATCTAAGATTG
1 TATCATACCTAAAATTG
62013099 CATATCACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (17 bp):
TATCATACCTAAAATTG
Found at i:62013110 original size:19 final size:19
Alignment explanation
Indices: 62013082--62013123 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
62013072 CCTAAAATTG
*
62013082 TATCATATCTAAGATTGCA
1 TATCACATCTAAGATTGCA
62013101 TATCACATCTAAGATTGCA
1 TATCACATCTAAGATTGCA
62013120 TATC
1 TATC
62013124 CTTCATATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (19 bp):
TATCACATCTAAGATTGCA
Found at i:62013947 original size:55 final size:58
Alignment explanation
Indices: 62013888--62014013 Score: 168
Period size: 55 Copynumber: 2.2 Consensus size: 58
62013878 TTTTAAAAAG
* * * * *
62013888 ATTATTATTAAAAATATTTTAATAAAA-AATA-ATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAAAACAATTTAATAAAATAATATATAAATTAATAACATTCTTAACATA
* *
62013943 ATTATTATTAAATACAATTTAATAAAATAATATATAAATTAATAACATTCTTAATATA
1 ATTATTATTAAAAACAATTTAATAAAATAATATATAAATTAATAACATTCTTAACATA
62014001 ATTATTATTAAAA
1 ATTATTATTAAAA
62014014 TATGAATTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
55 24 0.40
56 4 0.07
57 13 0.22
58 19 0.32
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (58 bp):
ATTATTATTAAAAACAATTTAATAAAATAATATATAAATTAATAACATTCTTAACATA
Found at i:62014044 original size:58 final size:55
Alignment explanation
Indices: 62013888--62014044 Score: 142
Period size: 58 Copynumber: 2.8 Consensus size: 55
62013878 TTTTAAAAAG
* * * *
62013888 ATTATTATTAAAA-ATATTTTAATAAAAA-ATAATAATTTAATCATATTTTAACATA
1 ATTATTATTAAAATATA-ATTAATAAAAATATAAT-ATATAATAACATTTTAACATA
* * *
62013943 ATTATTATT-AAATACAATTTAAT-AAAATAATATATAAATTAATAACATTCTTAATATA
1 ATTATTATTAAAATATAA-TTAATAAAAAT-ATA-ATATA-TAATAACATT-TTAACATA
62014001 ATTATTATTAAAATATGAATTAATAAAAATCATAATATATAATA
1 ATTATTATTAAAATAT-AATTAATAAAAAT-ATAATATATAATA
62014045 TTATAGAAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
54 7 0.09
55 16 0.20
56 4 0.05
57 10 0.12
58 21 0.26
59 14 0.17
60 10 0.12
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (55 bp):
ATTATTATTAAAATATAATTAATAAAAATATAATATATAATAACATTTTAACATA
Found at i:62015622 original size:15 final size:16
Alignment explanation
Indices: 62015597--62015630 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
62015587 ACCTTAATAT
62015597 AAATAATAAAAGAAAC
1 AAATAATAAAAGAAAC
*
62015613 AAAT-ATAAAAGCAAC
1 AAATAATAAAAGAAAC
62015628 AAA
1 AAA
62015631 GAATTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.12
Consensus pattern (16 bp):
AAATAATAAAAGAAAC
Found at i:62022495 original size:37 final size:37
Alignment explanation
Indices: 62022436--62022544 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
62022426 AGCTCAGACG
* *
62022436 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
62022473 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
62022510 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
62022545 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:62022818 original size:48 final size:48
Alignment explanation
Indices: 62022690--62022876 Score: 277
Period size: 48 Copynumber: 3.8 Consensus size: 48
62022680 GCACATCGCC
*
62022690 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * * *
62022742 TATATATTTCGCATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
62022790 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
62022838 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
62022877 TGCATGTTCA
Statistics
Matches: 124, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
48 82 0.66
49 1 0.01
51 1 0.01
52 40 0.32
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:62022925 original size:47 final size:47
Alignment explanation
Indices: 62022846--62023039 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
62022836 CATACATATT
* * * *
62022846 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
62022893 CCACATTGGCCATTTGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
62022940 TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
62022987 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
62023034 TCACAT
1 TCACAT
62023040 AAAATCCTAA
Statistics
Matches: 129, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:62022966 original size:22 final size:22
Alignment explanation
Indices: 62022939--62023010 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
62022929 GCTCACATTC
62022939 ATCACATTGGCCATTCGACCTT
1 ATCACATTGGCCATTCGACCTT
* *
62022961 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGACCTT
*
62022985 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGACCTT
62023008 ATC
1 ATC
62023011 TCATATATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
22 13 0.34
23 7 0.18
24 8 0.21
25 10 0.26
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGACCTT
Found at i:62022967 original size:94 final size:94
Alignment explanation
Indices: 62022799--62023039 Score: 272
Period size: 94 Copynumber: 2.6 Consensus size: 94
62022789 ATACATATTT
* * * *
62022799 CACATTAGCCATTCGGCTTTA-C-CACATATACATATCTCATACATAT-TTCACATTAGCCATTC
1 CACATTGGCCATTCGGCCTTATCACACATATACACA-CTC--ACAT-TCATCACATTAGCCATTC
* * *
62022861 GGCTTTACCACATATATGCATGTTCATATTCAC
62 GACCTTACCACATATATGCATGTTCACATTCAC
* * ** *
62022894 CACATTGGCCATTTGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGACC
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGACC
* *
62022959 TTATCACATATATGCATGTTCACATTCAT
66 TTACCACATATATGCATGTTCACATTCAC
* * *
62022988 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACAT
62023040 AAAATCCTAA
Statistics
Matches: 124, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
93 1 0.01
94 91 0.73
95 18 0.15
96 4 0.03
97 10 0.08
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (94 bp):
CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGACC
TTACCACATATATGCATGTTCACATTCAC
Found at i:62025736 original size:2 final size:2
Alignment explanation
Indices: 62025729--62025757 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
62025719 AATGTTCAAA
62025729 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
62025758 ACACAAAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:62029702 original size:45 final size:45
Alignment explanation
Indices: 62029635--62029759 Score: 223
Period size: 45 Copynumber: 2.8 Consensus size: 45
62029625 CGCACAGTAT
62029635 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGCGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGCGAGATAC
* * *
62029680 TATTCAGGCCTTTGAGCTTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGCGAGATAC
62029725 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
62029760 AGTGAAATGA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGCGAGATAC
Found at i:62030366 original size:16 final size:18
Alignment explanation
Indices: 62030335--62030367 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
62030325 AACTCGTCAC
62030335 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
62030353 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
62030368 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:62039591 original size:33 final size:33
Alignment explanation
Indices: 62039536--62039603 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
62039526 ATGATACCAA
*
62039536 AATAAGCCAAATAAAATTGCTTAACTTATATAC
1 AATAAGCCAAATAAAATGGCTTAACTTATATAC
* * *
62039569 AATAAGCTAAATCACATGGCTTAACTTATATAC
1 AATAAGCCAAATAAAATGGCTTAACTTATATAC
62039602 AA
1 AA
62039604 ATTCATTCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.29
Consensus pattern (33 bp):
AATAAGCCAAATAAAATGGCTTAACTTATATAC
Found at i:62039918 original size:10 final size:11
Alignment explanation
Indices: 62039892--62039924 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
62039882 CAATTCAATT
*
62039892 TAATCATCACC
1 TAATCATCACA
62039903 TAATCA-CACA
1 TAATCATCACA
62039913 TAATCATCACA
1 TAATCATCACA
62039924 T
1 T
62039925 GTTAGTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.27
Consensus pattern (11 bp):
TAATCATCACA
Found at i:62040215 original size:22 final size:23
Alignment explanation
Indices: 62040135--62040263 Score: 111
Period size: 24 Copynumber: 5.5 Consensus size: 23
62040125 GACTCATGAT
*
62040135 CAGTAAGCTCTTACTGAGCTGATAAA
1 CAGTAAGCTC-TATTGAGCTG--AAA
62040161 CAGTAAGCTCTATTGAGCTGAAAA
1 CAGTAAGCTCTATTGAGCTG-AAA
*
62040185 CGGTAAGCTCTATTGAGCTG-AA
1 CAGTAAGCTCTATTGAGCTGAAA
* *
62040207 CAGTAAGCTCT-TTCAGGCTGAAT
1 CAGTAAGCTCTATTGA-GCTGAAA
* * *
62040230 CGGTAAGCTCCAATGA-CTTGAAA
1 CAGTAAGCTCTATTGAGC-TGAAA
*
62040253 TAGTAAGCTCT
1 CAGTAAGCTCT
62040264 TACGAGCTAT
Statistics
Matches: 85, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.04
22 17 0.20
23 22 0.26
24 24 0.28
25 9 0.11
26 10 0.12
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (23 bp):
CAGTAAGCTCTATTGAGCTGAAA
Found at i:62045423 original size:71 final size:68
Alignment explanation
Indices: 62045331--62045480 Score: 203
Period size: 68 Copynumber: 2.2 Consensus size: 68
62045321 AATTTATCTC
* * *
62045331 GTAGCTCTCTTGTCTACATGGTGTCCTTCACCT-GGAGCCACGCATACGACCTAGCTACATCATA
1 GTAGCTCTCTTGTCTACATGGTG---TACACATAGGA-CCACCCATACGACCTAGCTACATCATA
62045395 ATGTCTT
62 ATGTCTT
* * *
62045402 GTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGT
1 GTAGCTCTCTTGTCTACATGGTGTACACATAGGACCACCCATACGACCTAGCTACATCATAATGT
62045467 CTT
66 CTT
62045470 GTAGCTCTCTT
1 GTAGCTCTCTT
62045481 ATTCACATGA
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
68 47 0.65
69 2 0.03
71 23 0.32
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (68 bp):
GTAGCTCTCTTGTCTACATGGTGTACACATAGGACCACCCATACGACCTAGCTACATCATAATGT
CTT
Found at i:62045518 original size:68 final size:67
Alignment explanation
Indices: 62045331--62045526 Score: 189
Period size: 68 Copynumber: 2.8 Consensus size: 67
62045321 AATTTATCTC
* ** * * *
62045331 GTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAGCCACGCATACGACCTAGCTACATCATAA
1 GTAGCTCTCTTGTCTACATGGTG---TACACAAGCA-CCACACATGCGACCTAGCTACATCATAA
62045396 TGTCTT
62 TGTCTT
* * *
62045402 GTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGT
1 GTAGCTCTCTTGTCTACATGGTGTACACA-AGCACCACACATGCGACCTAGCTACATCATAATGT
62045467 CTT
65 CTT
* * * *
62045470 GTAGCTCTCTTAT-TCACATGATGTGTACTC-AGCACCATACATGTGACCTAGCTACAT
1 GTAGCTCTCTTGTCT-ACATG--GTGTACACAAGCACCACACATGCGACCTAGCTACAT
62045527 ACTATCTGTA
Statistics
Matches: 107, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
67 1 0.01
68 74 0.69
69 2 0.02
70 7 0.07
71 23 0.21
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.32
Consensus pattern (67 bp):
GTAGCTCTCTTGTCTACATGGTGTACACAAGCACCACACATGCGACCTAGCTACATCATAATGTC
TT
Found at i:62049006 original size:60 final size:60
Alignment explanation
Indices: 62048934--62049051 Score: 227
Period size: 60 Copynumber: 2.0 Consensus size: 60
62048924 TTCTGTATAT
*
62048934 GTATGCCATGACATATTATTTCTGTTGCATGGGACATGGGTTTATATTGATGGAGGAAAC
1 GTATGCCATGACATATTATTTCTGTTGCATGAGACATGGGTTTATATTGATGGAGGAAAC
62048994 GTATGCCATGACATATTATTTCTGTTGCATGAGACATGGGTTTATATTGATGGAGGAA
1 GTATGCCATGACATATTATTTCTGTTGCATGAGACATGGGTTTATATTGATGGAGGAA
62049052 GTGTTCCGGC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (60 bp):
GTATGCCATGACATATTATTTCTGTTGCATGAGACATGGGTTTATATTGATGGAGGAAAC
Found at i:62049378 original size:31 final size:31
Alignment explanation
Indices: 62049340--62049412 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
62049330 GTGCATTCAC
* * * *
62049340 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTAATTCTGTCACCTAATACTA
* *
62049371 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTAATTCTGTCACCTAATACTA
62049402 ATTCTGATTCT
1 ATTCTGATTCT
62049413 GTCACCTAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTAATACTA
Found at i:62049396 original size:25 final size:25
Alignment explanation
Indices: 62049368--62049437 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
62049358 TTACCTGATA
*
62049368 CTAATTCTGATTCTAATTCTGTCAC
1 CTAATTCTGATTCTGATTCTGTCAC
62049393 CTAATTCTGATTCTGATTCTGTCAC
1 CTAATTCTGATTCTGATTCTGTCAC
62049418 CTAATTCTGATTCTGATTCT
1 CTAATTCTGATTCTGATTCT
62049438 CATTTTGATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.46
Consensus pattern (25 bp):
CTAATTCTGATTCTGATTCTGTCAC
Found at i:62049398 original size:13 final size:13
Alignment explanation
Indices: 62049380--62049426 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
62049370 AATTCTGATT
62049380 CTAATTCTGTCAC
1 CTAATTCTGTCAC
*
62049393 CTAATTCTG--ATT
1 CTAATTCTGTCA-C
*
62049405 CTGATTCTGTCAC
1 CTAATTCTGTCAC
62049418 CTAATTCTG
1 CTAATTCTG
62049427 ATTCTGATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
11 1 0.04
12 8 0.30
13 17 0.63
14 1 0.04
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.43
Consensus pattern (13 bp):
CTAATTCTGTCAC
Found at i:62049405 original size:6 final size:6
Alignment explanation
Indices: 62049340--62049458 Score: 57
Period size: 6 Copynumber: 19.3 Consensus size: 6
62049330 GTGCATTCAC
* * * *
62049340 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
62049389 -TCACCTA ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTC
1 AT--TCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
62049439 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
62049459 AATGTTTCTT
Statistics
Matches: 82, Mismatches: 20, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
5 5 0.06
6 66 0.80
7 8 0.10
8 3 0.04
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:62049431 original size:31 final size:28
Alignment explanation
Indices: 62049340--62049437 Score: 100
Period size: 25 Copynumber: 3.6 Consensus size: 28
62049330 GTGCATTCAC
* *
62049340 ATTCTGATTTTGATTCTGTTACCTGATACT
1 ATTCTGATTCTGATTCTGTCACCT-AT-CT
*
62049370 AATTCTGATTCTAATTCTGTCACCTA---
1 -ATTCTGATTCTGATTCTGTCACCTATCT
62049396 ATTCTGATTCTGATTCTGTCACCTA---
1 ATTCTGATTCTGATTCTGTCACCTATCT
62049421 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
62049438 CATTTTGATT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
25 41 0.65
30 1 0.02
31 21 0.33
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.47
Consensus pattern (28 bp):
ATTCTGATTCTGATTCTGTCACCTATCT
Found at i:62051338 original size:50 final size:50
Alignment explanation
Indices: 62051213--62051460 Score: 266
Period size: 50 Copynumber: 5.0 Consensus size: 50
62051203 AACCGAAGCT
* * *
62051213 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC-AA-C
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
*
62051261 AATCTGGTACACGTAGTAGACTGCACTTAGTACTACACACGTGACCTAATC
1 -ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
* * * * * *
62051312 ATCTGGTACATGTAGTAGCCTACACTTAGTACTACACACATGATCGAATT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
* ** * * * * * *
62051362 AGTCGGGTATGCATAGTAGCCTGCACTTAGCACTACAAATGCGACCTAACC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
* * *
62051413 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGACCTAA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
62051461 AACCATTTTA
Statistics
Matches: 161, Mismatches: 35, Indels: 5
0.80 0.17 0.02
Matches are distributed among these distances:
49 41 0.25
50 84 0.52
51 36 0.22
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
Found at i:62051408 original size:101 final size:101
Alignment explanation
Indices: 62051213--62051455 Score: 301
Period size: 101 Copynumber: 2.4 Consensus size: 101
62051203 AACCGAAGCT
* * ** * * * * ** *
62051213 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-CAATCTGGTACACGTA
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGATCGAATTAGTCGGGTATGCATA
* * * *
62051276 GTAGACTGCACTTAGTACTACACACGTGACCTAATC
66 GTAGACTGCACTTAGCACTACAAACGCGACCTAACC
**
62051312 ATCTGGTACATGTAGTAGCCTACACTTAGTACTACACACATGATCGAATTAGTCGGGTATGCATA
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGATCGAATTAGTCGGGTATGCATA
* *
62051377 GTAGCCTGCACTTAGCACTACAAATGCGACCTAACC
66 GTAGACTGCACTTAGCACTACAAACGCGACCTAACC
62051413 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGA
1 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGA
62051456 CCTAAAACCA
Statistics
Matches: 121, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
99 37 0.31
100 3 0.02
101 81 0.67
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGATCGAATTAGTCGGGTATGCATA
GTAGACTGCACTTAGCACTACAAACGCGACCTAACC
Found at i:62051501 original size:12 final size:13
Alignment explanation
Indices: 62051472--62051504 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
62051462 ACCATTTTAA
62051472 ACACATAGTAGCCT
1 ACACATAGTA-CCT
62051486 ACACATAGTA-CT
1 ACACATAGTACCT
62051498 ACACATA
1 ACACATA
62051505 TGTTCTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
14 10 0.53
ACGTcount: A:0.42, C:0.27, G:0.09, T:0.21
Consensus pattern (13 bp):
ACACATAGTACCT
Found at i:62051502 original size:151 final size:149
Alignment explanation
Indices: 62051217--62051503 Score: 378
Period size: 151 Copynumber: 1.9 Consensus size: 149
62051207 GAAGCTATCT
* * * *
62051217 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGGTACACGTAGTAGAC
1 GGTACGCATAGTAGCCTGCACTTAGCACTACAAATGCGACCAACAATCTGGTACACATAGTAGAC
* * * ** ** *
62051282 TGCACTTAGTACTACACACGTGACCTAATCATCTGGTACATGTAGTAGCCTACACTTAGTACTAC
66 TACACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTACACATAGTACTA-
62051347 ACACATGATCGAATTAGTCG
130 ACACATGATCGAATTAGTCG
* * *
62051367 GGTATGCATAGTAGCCTGCACTTAGCACTACAAATGCGACCTAACCATCTGGTACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGCACTACAAATGCGACC-AACAATCTGGTACACATAGTAGA
* *
62051432 CTACACTTAGTACTACACACATGACCTAAAACCATTTTAAACACATAGTAGCCTACACATAGTAC
65 CTACACTTAGTACTACACACATGACCT--AACCATCTGAAACACATAGTAGCCTACACATAGTAC
62051497 T-ACACAT
128 TAACACAT
62051504 ATGTTCTTAC
Statistics
Matches: 117, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
150 37 0.32
151 51 0.44
153 29 0.25
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (149 bp):
GGTACGCATAGTAGCCTGCACTTAGCACTACAAATGCGACCAACAATCTGGTACACATAGTAGAC
TACACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTACACATAGTACTAA
CACATGATCGAATTAGTCG
Found at i:62058000 original size:40 final size:40
Alignment explanation
Indices: 62057910--62058094 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
62057900 TCGAATGATG
* * *
62057910 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
62057949 ATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
62057990 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
62058029 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
62058068 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
62058095 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:62058116 original size:79 final size:79
Alignment explanation
Indices: 62057963--62058127 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
62057953 AGACTAAGAT
* **
62057963 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
62058028 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
62058042 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
62058105 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
62058121 CCGAAGG
1 CCGAAGG
62058128 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:62060906 original size:10 final size:11
Alignment explanation
Indices: 62060880--62060912 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
62060870 CAATTCAATT
*
62060880 TAATCATCACC
1 TAATCATCACA
62060891 TAATCA-CACA
1 TAATCATCACA
62060901 TAATCATCACA
1 TAATCATCACA
62060912 T
1 T
62060913 GTTAGTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.27
Consensus pattern (11 bp):
TAATCATCACA
Found at i:62061181 original size:24 final size:23
Alignment explanation
Indices: 62061154--62061249 Score: 83
Period size: 23 Copynumber: 4.2 Consensus size: 23
62061144 AAATAGCAAA
62061154 CTCTATTGAGCTGAAAACGATAAG
1 CTCTATTGAGCTGAAAACG-TAAG
* *
62061178 CTCTATTGAGCTGAACA-GTTAG
1 CTCTATTGAGCTGAAAACGTAAG
*
62061200 CTCT-TTCGAGCTG-AATCGGTAAG
1 CTCTATT-GAGCTGAAAAC-GTAAG
* *
62061223 CTCCAATGAGCTGAAATA-GTAAG
1 CTCTATTGAGCTGAAA-ACGTAAG
62061246 CTCT
1 CTCT
62061250 TACAAGCTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
21 3 0.05
22 13 0.23
23 22 0.39
24 19 0.33
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (23 bp):
CTCTATTGAGCTGAAAACGTAAG
Found at i:62068070 original size:18 final size:17
Alignment explanation
Indices: 62068037--62068075 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
62068027 TTGTATAAAT
62068037 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
62068055 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
62068072 TGTG
1 TGTG
62068076 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Done.