Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 229 of 230
Found at i:68152323 original size:18 final size:18
Alignment explanation
Indices: 68152289--68152323 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68152279 AAAAGGAAAC
* *
68152289 ATATAAGGGTTATGATAT
1 ATATAAGGGCTAGGATAT
68152307 ATATAAGGGCTAGGATA
1 ATATAAGGGCTAGGATA
68152324 CTCACCTGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Found at i:68153952 original size:11 final size:11
Alignment explanation
Indices: 68153926--68153961 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
68153916 AGAGAGCTTT
68153926 GAGAAATTTAGA
1 GAGAAATTT-GA
68153938 GAGAAATTTGA
1 GAGAAATTTGA
*
68153949 GAGAAAATTGA
1 GAGAAATTTGA
68153960 GA
1 GA
68153962 AATAATGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.22
Consensus pattern (11 bp):
GAGAAATTTGA
Found at i:68155999 original size:27 final size:27
Alignment explanation
Indices: 68155967--68156021 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
68155957 TATGTATGTA
68155967 TGTATGTATGTTTTGGGTTATGGATAC
1 TGTATGTATGTTTTGGGTTATGGATAC
68155994 TGTATGTATGTTTTGGGTTATGGATAC
1 TGTATGTATGTTTTGGGTTATGGATAC
68156021 T
1 T
68156022 CTTAAGCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.04, G:0.29, T:0.49
Consensus pattern (27 bp):
TGTATGTATGTTTTGGGTTATGGATAC
Found at i:68159017 original size:14 final size:14
Alignment explanation
Indices: 68158998--68159029 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
68158988 AGGTCATTTA
68158998 GCCCAACCAAACTG
1 GCCCAACCAAACTG
68159012 GCCCAACCAAACTG
1 GCCCAACCAAACTG
68159026 GCCC
1 GCCC
68159030 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:68179444 original size:20 final size:20
Alignment explanation
Indices: 68179419--68179458 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
68179409 AATATTTTCC
*
68179419 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
68179439 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
68179459 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:68179464 original size:34 final size:34
Alignment explanation
Indices: 68179407--68179472 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
68179397 CAAACACCAG
*
68179407 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
68179442 AAAACATTTTCCAG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
68179473 ATATTTTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:68186844 original size:40 final size:40
Alignment explanation
Indices: 68186789--68186868 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
68186779 GTGTAAGAGA
68186789 ACATTAAGGGTGGGTTTAAATGGGCAATTAGGTGCACGGT
1 ACATTAAGGGTGGGTTTAAATGGGCAATTAGGTGCACGGT
*
68186829 ACATTAAGGGTGGGTTTAGATGGGCAATTAGGTGCACGGT
1 ACATTAAGGGTGGGTTTAAATGGGCAATTAGGTGCACGGT
68186869 GCGGTGCGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.26, C:0.10, G:0.36, T:0.28
Consensus pattern (40 bp):
ACATTAAGGGTGGGTTTAAATGGGCAATTAGGTGCACGGT
Found at i:68190686 original size:4 final size:4
Alignment explanation
Indices: 68190677--68190703 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
68190667 CAAAACAACC
68190677 ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACA
68190704 CACAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (4 bp):
ACAT
Found at i:68191664 original size:39 final size:39
Alignment explanation
Indices: 68191621--68191698 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
68191611 TGTTTCATAA
68191621 AAGGAAAAACTAAATTGTGGACAAAAGGGAATGTGAGCT
1 AAGGAAAAACTAAATTGTGGACAAAAGGGAATGTGAGCT
68191660 AAGGAAAAACTAAATTGTGGACAAAAGGGAATGTGAGCT
1 AAGGAAAAACTAAATTGTGGACAAAAGGGAATGTGAGCT
68191699 TTGATTGGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.08, G:0.28, T:0.18
Consensus pattern (39 bp):
AAGGAAAAACTAAATTGTGGACAAAAGGGAATGTGAGCT
Found at i:68197259 original size:30 final size:31
Alignment explanation
Indices: 68197194--68197262 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
68197184 ACTGTTAATC
*
68197194 AGTGACTGTTTTGTTACTTTTTTATAAAGTT
1 AGTGACTGTTTTGTTACTTTTTCATAAAGTT
*
68197225 AGTGATTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTTACTTTTTCATAAAGTT
68197254 GAGTGACTG
1 -AGTGACTG
68197263 AAATGAAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 6 0.18
30 13 0.38
31 15 0.44
ACGTcount: A:0.23, C:0.06, G:0.20, T:0.51
Consensus pattern (31 bp):
AGTGACTGTTTTGTTACTTTTTCATAAAGTT
Found at i:68197386 original size:29 final size:29
Alignment explanation
Indices: 68197354--68197410 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
68197344 AAAACTTTTG
68197354 ATTATTTACACAAATAACCTATTTTGAAA
1 ATTATTTACACAAATAACCTATTTTGAAA
** *
68197383 ATTATTTACGTAAATGACCTATTTTGAA
1 ATTATTTACACAAATAACCTATTTTGAA
68197411 CAGTAAACGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (29 bp):
ATTATTTACACAAATAACCTATTTTGAAA
Found at i:68197626 original size:38 final size:38
Alignment explanation
Indices: 68197584--68197659 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
68197574 AGATTGGCAT
* *
68197584 AAATTAGTGGCTAAAATTAGTATAACTTTAAATAAAAA
1 AAATTAGTGGCGAAAATTAATATAACTTTAAATAAAAA
*
68197622 AAATTAGTGGCGCAAATTAATATAACTTTAAATAAAAA
1 AAATTAGTGGCGAAAATTAATATAACTTTAAATAAAAA
68197660 TTAAAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.30
Consensus pattern (38 bp):
AAATTAGTGGCGAAAATTAATATAACTTTAAATAAAAA
Found at i:68203055 original size:23 final size:23
Alignment explanation
Indices: 68203026--68203087 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
68203016 GCCCGGCCCG
* *
68203026 TTTTTAATTAAAATTAAAATTAT
1 TTTTTAATTAAAATTAAAACTAA
*
68203049 TTTTTAAATAAAATTAAAACTAA
1 TTTTTAATTAAAATTAAAACTAA
*
68203072 TTGTT-ATTAAAATTAA
1 TTTTTAATTAAAATTAA
68203088 TTGTTAGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 10 0.29
23 24 0.71
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTTTAATTAAAATTAAAACTAA
Found at i:68203100 original size:16 final size:16
Alignment explanation
Indices: 68203063--68203102 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
68203053 TAAATAAAAT
* *
68203063 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
68203079 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
68203095 TAAAATTA
1 TAAAATTA
68203103 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:68203164 original size:66 final size:59
Alignment explanation
Indices: 68203105--68203224 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
68203095 TAAAATTATC
* * *
68203105 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
*
68203163 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
68203222 AAA
1 AAA
68203225 CAAACTTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 6 0.11
59 50 0.89
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:68203336 original size:23 final size:23
Alignment explanation
Indices: 68203290--68203334 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
68203280 AAATAAACTT
* *
68203290 AAAATAAAAACTATTGTATTTTA
1 AAAATAAAAAATATTATATTTTA
68203313 AAAATAAAAAATATATATATTT
1 AAAATAAAAAATAT-TATATTT
68203335 AATATTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
AAAATAAAAAATATTATATTTTA
Found at i:68205195 original size:19 final size:18
Alignment explanation
Indices: 68205159--68205195 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
68205149 TCATTTAAAA
*
68205159 CAAGTTTATTTTTGTGCC
1 CAAGTTTATTTTTATGCC
68205177 CAAGTTTATTTTTCATGCC
1 CAAGTTTATTTTT-ATGCC
68205196 TTGTATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (18 bp):
CAAGTTTATTTTTATGCC
Found at i:68207126 original size:24 final size:24
Alignment explanation
Indices: 68207086--68207133 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
68207076 TAGCTGGCAT
68207086 TGAAGGAGGAGGAGGAGGTGGTGG
1 TGAAGGAGGAGGAGGAGGTGGTGG
*
68207110 TGAAGGCAGG-GGTGGAGGTGGTGG
1 TGAAGG-AGGAGGAGGAGGTGGTGG
68207134 AAATGGAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.21, C:0.02, G:0.62, T:0.15
Consensus pattern (24 bp):
TGAAGGAGGAGGAGGAGGTGGTGG
Found at i:68207254 original size:6 final size:6
Alignment explanation
Indices: 68207243--68207301 Score: 118
Period size: 6 Copynumber: 9.8 Consensus size: 6
68207233 GGGATTTGGT
68207243 ATGGGA ATGGGA ATGGGA ATGGGA ATGGGA ATGGGA ATGGGA ATGGGA
1 ATGGGA ATGGGA ATGGGA ATGGGA ATGGGA ATGGGA ATGGGA ATGGGA
68207291 ATGGGA ATGGG
1 ATGGGA ATGGG
68207302 CATTGGGGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.51, T:0.17
Consensus pattern (6 bp):
ATGGGA
Found at i:68208865 original size:21 final size:21
Alignment explanation
Indices: 68208841--68208885 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
68208831 TAAGCTGACA
68208841 ACAAATTGAACAGCATTGCCT
1 ACAAATTGAACAGCATTGCCT
68208862 ACAAATTGAACAGCATTGCCT
1 ACAAATTGAACAGCATTGCCT
68208883 ACA
1 ACA
68208886 TACCAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.22
Consensus pattern (21 bp):
ACAAATTGAACAGCATTGCCT
Found at i:68212076 original size:8 final size:8
Alignment explanation
Indices: 68212060--68212095 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
68212050 TAAAGAAGCC
68212060 ATATGTAT
1 ATATGTAT
*
68212068 ATATATAT
1 ATATGTAT
68212076 ATATGTAT
1 ATATGTAT
*
68212084 GTATGTAT
1 ATATGTAT
68212092 ATAT
1 ATAT
68212096 ATGAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:68226225 original size:10 final size:10
Alignment explanation
Indices: 68226210--68226236 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
68226200 TCTAAGTTTA
68226210 TATATATATG
1 TATATATATG
68226220 TATATATATG
1 TATATATATG
68226230 TATATAT
1 TATATAT
68226237 TCTACTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (10 bp):
TATATATATG
Found at i:68232840 original size:10 final size:10
Alignment explanation
Indices: 68232825--68232851 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
68232815 TCTAAGTTTA
68232825 TATATATATG
1 TATATATATG
68232835 TATATATATG
1 TATATATATG
68232845 TATATAT
1 TATATAT
68232852 TCTACTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (10 bp):
TATATATATG
Found at i:68239488 original size:10 final size:10
Alignment explanation
Indices: 68239473--68239499 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
68239463 TCTAAGTTTA
68239473 TATATATATG
1 TATATATATG
68239483 TATATATATG
1 TATATATATG
68239493 TATATAT
1 TATATAT
68239500 TCTACTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (10 bp):
TATATATATG
Found at i:68246142 original size:10 final size:10
Alignment explanation
Indices: 68246127--68246153 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
68246117 TCTAAGTTTA
68246127 TATATATATG
1 TATATATATG
68246137 TATATATATG
1 TATATATATG
68246147 TATATAT
1 TATATAT
68246154 TCTACTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (10 bp):
TATATATATG
Found at i:68249879 original size:16 final size:16
Alignment explanation
Indices: 68249858--68249888 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68249848 TTTTTTTCAT
68249858 ATATATACATACATAC
1 ATATATACATACATAC
*
68249874 ATATATATATACATA
1 ATATATACATACATA
68249889 TGGCTTCTTT
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:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATATACATACATAC
Found at i:68253330 original size:20 final size:21
Alignment explanation
Indices: 68253305--68253361 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 21
68253295 AATAATATAA
68253305 ATTTTGAAATTTTT-ATAAA-T
1 ATTTTGAAATTTTTGA-AAATT
68253325 ATTTTG-AATTTTTGAAAATT
1 ATTTTGAAATTTTTGAAAATT
68253345 ATTTTGAATTATTTTTG
1 ATTTTGAA--ATTTTTG
68253362 TAATTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
19 10 0.31
20 14 0.44
21 1 0.03
23 7 0.22
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (21 bp):
ATTTTGAAATTTTTGAAAATT
Found at i:68253336 original size:19 final size:20
Alignment explanation
Indices: 68253305--68253354 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
68253295 AATAATATAA
68253305 ATTTTGAAATTTTT-ATAAA-T
1 ATTTTG-AATTTTTGA-AAATT
68253325 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
68253345 ATTTTGAATT
1 ATTTTGAATT
68253355 ATTTTTGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:68253507 original size:23 final size:23
Alignment explanation
Indices: 68253481--68253534 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
68253471 TCGAACTCAA
* *
68253481 AACTCGAATTACT-TATTCGAGTC
1 AACTCGAATAACTCGATTCGA-TC
* *
68253504 AACTTGAATAACTCGATTCGATT
1 AACTCGAATAACTCGATTCGATC
68253527 AACTCGAA
1 AACTCGAA
68253535 ATTCAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (23 bp):
AACTCGAATAACTCGATTCGATC
Found at i:68267599 original size:31 final size:31
Alignment explanation
Indices: 68267564--68267624 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
68267554 AATTTTGAAA
* *
68267564 TTTAAAAAGTACAATGACTGAAATTGATCAT
1 TTTAAAAAGTACAAAGACTAAAATTGATCAT
*
68267595 TTTAAAAAGTATAAAGACTAAAATTGATCA
1 TTTAAAAAGTACAAAGACTAAAATTGATCA
68267625 AATTAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.31
Consensus pattern (31 bp):
TTTAAAAAGTACAAAGACTAAAATTGATCAT
Found at i:68279930 original size:31 final size:30
Alignment explanation
Indices: 68279864--68280020 Score: 106
Period size: 31 Copynumber: 5.1 Consensus size: 30
68279854 TTATACTCAT
* * **
68279864 TTTTAAAAATTTTAATTAGGTCCAT-CAAATT
1 TTTTAAAAA-TTTAATTAAG-CCTTCCAAAAG
68279895 TTTTAGAAAATTTAATTAAGCCTTCCAAAAG
1 TTTTA-AAAATTTAATTAAGCCTTCCAAAAG
* * *
68279926 TTTTAAAATTTTTAATT-AGACTCTCCAAAAC
1 TTTTAAAA-ATTTAATTAAGCCT-TCCAAAAG
* * * *
68279957 TTTTGAAAATTCTCATTAATCC-TCTCAAAAT
1 TTTTAAAAATT-TAATTAAGCCTTC-CAAAAG
*
68279988 TTTTAAAAATTTTAATTAAACCTTCC-AAAG
1 TTTTAAAAA-TTTAATTAAGCCTTCCAAAAG
68280018 TTT
1 TTT
68280021 ATGGAAATTC
Statistics
Matches: 100, Mismatches: 17, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
30 20 0.20
31 70 0.70
32 10 0.10
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (30 bp):
TTTTAAAAATTTAATTAAGCCTTCCAAAAG
Found at i:68279933 original size:62 final size:62
Alignment explanation
Indices: 68279864--68280069 Score: 162
Period size: 62 Copynumber: 3.3 Consensus size: 62
68279854 TTATACTCAT
* **
68279864 TTTTAAAAATTTTAATTAG-GTC-CATCAAATTTTTTAGAAAATT-TAATTAAGCCT-TCCAAAA
1 TTTTAAAAATTTTAATTAGACTCTC--CAAAACTTTT-GAAAATTCTAATTAAGCCTCT-CAAAA
68279925 G
62 G
* * * *
68279926 TTTTAAAATTTTTAATTAGACTCTCCAAAACTTTTGAAAATTCTCATTAATCCTCTCAAAAT
1 TTTTAAAAATTTTAATTAGACTCTCCAAAACTTTTGAAAATTCTAATTAAGCCTCTCAAAAG
* * * *
68279988 TTTTAAAAATTTTAATTAAAC-CTTCC-AAAGTTTATGGAAATTCTTATTAAG-CTGCT---AAG
1 TTTTAAAAATTTTAATTAGACTC-TCCAAAACTTT-TGAAAATTCTAATTAAGCCT-CTCAAAAG
68280047 TTTTTAGAAAATTTTAATTAGAC
1 -TTTTA-AAAATTTTAATTAGAC
68280070 CTTTGAAATT
Statistics
Matches: 120, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
59 2 0.02
60 5 0.04
61 31 0.26
62 78 0.65
63 3 0.03
64 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (62 bp):
TTTTAAAAATTTTAATTAGACTCTCCAAAACTTTTGAAAATTCTAATTAAGCCTCTCAAAAG
Found at i:68279982 original size:32 final size:32
Alignment explanation
Indices: 68279895--68280016 Score: 110
Period size: 31 Copynumber: 3.9 Consensus size: 32
68279885 CCATCAAATT
* *
68279895 TTTTAGAAAATT-TAATTAAGCCT-TCCAAAAG
1 TTTTA-AAAATTCTAATTAAACCTCTCCAAAAC
* * *
68279926 TTTTAAAATTTTTAATTAGA-CTCTCCAAAAC
1 TTTTAAAAATTCTAATTAAACCTCTCCAAAAC
* * * *
68279957 TTTTGAAAATTCTCATTAATCCTCT-CAAAAT
1 TTTTAAAAATTCTAATTAAACCTCTCCAAAAC
*
68279988 TTTTAAAAATTTTAATTAAACCT-TCCAAA
1 TTTTAAAAATTCTAATTAAACCTCTCCAAA
68280017 GTTTATGGAA
Statistics
Matches: 72, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
30 8 0.11
31 60 0.83
32 4 0.06
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (32 bp):
TTTTAAAAATTCTAATTAAACCTCTCCAAAAC
Found at i:68285713 original size:322 final size:324
Alignment explanation
Indices: 68285195--68285815 Score: 840
Period size: 322 Copynumber: 1.9 Consensus size: 324
68285185 AGTACGTGGT
* * * * * *
68285195 GATAATTGATGGTTGTCTTATCGAAGTGACCTTGTTGTCAGGGGTGGTTGGCTTGCACTTCCTTT
1 GATAAGTGATAGTTGTCTTATCGAAGTGACCTTATTATCAGGGGTGGTTAGCTTGCACTTCCCTT
* * *
68285260 GATCCTGACAAACAATCCTTATGGTGGATGAGATAAGATTGACGAAACCTGATGGGCGGAGTTAG
66 GATCCTGACAAACAATCCTTATGGTGGAAGAGATAAGACTGACGAAACCAGATGGGCGGA--TAG
* * ** *
68285325 GTGGTGAAGTGATCATGGTACTTTGGCGCAGATTGCCAAGTAGCGTATGTATTTGGAACAGTCCT
129 GT-GTGAAGTGATCACGGTACTTTGGCGCAGATTGCCAAGTAGAGTACATATATGGAACAGTCCT
* * *
68285390 TATGGTGGAAGAGATAAGACGGACGAAACCAGATCGGCGGAGTTAGATGATGGTTGTCTTTGATA
193 TATGGTGGAAGAGATAAGACGGACAAAACCAGATCGGCGGAGTTAGAGGATGATTGTC-TTGATA
* * * * *
68285455 GGCTCGTTGCTCCTTCTCATGATCTCTTGTTAGGTGAGTAATGTGACATCACCAAGATTTCAAAA
257 GCCTCGCTGCTCCTTCCCATCATCCCTTGTTAGGTGAGTAATGTGACATCACCAAGATTTCAAAA
68285520 TAC
322 TAC
* **
68285523 GATAAGTGATAGTTGTCTTA-CTGGAGTGACCTTATTATTGGGGGTGGTTAGCTTGCACATTCCC
1 GATAAGTGATAGTTGTCTTATC-GAAGTGACCTTATTATCAGGGGTGGTTAGCTTGCAC-TTCCC
* *
68285587 TTGATCCTGGCAGAACAATCCTTATGGTGGAAGAGATAAGACTGACGAAACCAGATGGG-TGA-A
64 TTGATCCTGACA-AACAATCCTTATGGTGGAAGAGATAAGACTGACGAAACCAGATGGGCGGATA
* *
68285650 -GT-T-AGGTGATCACGGTACTTTGGCGCAGATTGCCAAGTGGAGTACATATATGGAACAGTCCT
128 GGTGTGAAGTGATCACGGTACTTTGGCGCAGATTGCCAAGTAGAGTACATATATGGAACAGTCCT
* * *
68285712 TATGGTGGAAGAGATAAGACTGACAAAACCAGATGGGCGGAGTTAGGGGATGATTGTCTTGATAG
193 TATGGTGGAAGAGATAAGACGGACAAAACCAGATCGGCGGAGTTAGAGGATGATTGTCTTGATAG
*
68285777 CCTCGCTGGTCCTTCCCATCATCCCTTGTTAGGTGAGTA
258 CCTCGCTGCTCCTTCCCATCATCCCTTGTTAGGTGAGTA
68285816 TTGTTAGGTG
Statistics
Matches: 257, Mismatches: 33, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
321 40 0.16
322 104 0.40
323 1 0.00
325 2 0.01
326 1 0.00
327 1 0.00
328 48 0.19
329 17 0.07
330 43 0.17
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (324 bp):
GATAAGTGATAGTTGTCTTATCGAAGTGACCTTATTATCAGGGGTGGTTAGCTTGCACTTCCCTT
GATCCTGACAAACAATCCTTATGGTGGAAGAGATAAGACTGACGAAACCAGATGGGCGGATAGGT
GTGAAGTGATCACGGTACTTTGGCGCAGATTGCCAAGTAGAGTACATATATGGAACAGTCCTTAT
GGTGGAAGAGATAAGACGGACAAAACCAGATCGGCGGAGTTAGAGGATGATTGTCTTGATAGCCT
CGCTGCTCCTTCCCATCATCCCTTGTTAGGTGAGTAATGTGACATCACCAAGATTTCAAAATAC
Found at i:68285821 original size:14 final size:14
Alignment explanation
Indices: 68285802--68285829 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
68285792 CCATCATCCC
68285802 TTGTTAGGTGAGTA
1 TTGTTAGGTGAGTA
68285816 TTGTTAGGTGAGTA
1 TTGTTAGGTGAGTA
68285830 ATGTGATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (14 bp):
TTGTTAGGTGAGTA
Found at i:68294832 original size:23 final size:21
Alignment explanation
Indices: 68294806--68294852 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
68294796 AACTCAAATA
68294806 ATTCAAATAACTCAAACAATTCG
1 ATTCAAATAACTC-AA-AATTCG
* *
68294829 ATTCGATTAACTCAAAATTCG
1 ATTCAAATAACTCAAAATTCG
68294850 ATT
1 ATT
68294853 TTTTGAATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (21 bp):
ATTCAAATAACTCAAAATTCG
Found at i:68297122 original size:11 final size:11
Alignment explanation
Indices: 68297108--68297133 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
68297098 TTTTGGGAAA
68297108 TTTTATAGATT
1 TTTTATAGATT
68297119 TTTTATAGATT
1 TTTTATAGATT
68297130 TTTT
1 TTTT
68297134 GAATTTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTATAGATT
Found at i:68299830 original size:73 final size:69
Alignment explanation
Indices: 68299671--68299903 Score: 274
Period size: 69 Copynumber: 3.3 Consensus size: 69
68299661 TTACTTCGGT
* *
68299671 TTTTGCTGATAGCATGAATAATAT-T-ATTACCAAGTATTCAATACTCATACCCGAGTCTGAATA
1 TTTTGCTGATAGCATGAATAAGATCTCA-TACC-TGTATTCAATACTCATACCCGAGTCTGAATA
68299734 AGATGA
64 AGATGA
* * * *
68299740 TTTTGCTGATAGAATGAATAAGATGCTCATACCTGTATTCAGTACTCGTA-CTGAGTCTGAATAA
1 TTTTGCTGATAGCATGAATAAGAT-CTCATACCTGTATTCAATACTCATACCCGAGTCTGAATAA
68299804 GATACTTGA
65 G--A--TGA
* * *
68299813 TTTTGCTGATAGCATGAATAAGACACTCATACATCTGTATTCAATACTCATACCCGAGTCCGAGT
1 TTTTGCTGATAGCATGAATAAGA-TCTCATAC--CTGTATTCAATACTCATACCCGAGTCTGAAT
68299878 AAGATGA
63 AAGATGA
68299885 TTTTGCTGATAGCATGAAT
1 TTTTGCTGATAGCATGAAT
68299904 GTTATTAGGA
Statistics
Matches: 140, Mismatches: 13, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
69 36 0.26
70 14 0.10
71 6 0.04
72 23 0.16
73 32 0.23
74 1 0.01
75 16 0.11
76 12 0.09
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (69 bp):
TTTTGCTGATAGCATGAATAAGATCTCATACCTGTATTCAATACTCATACCCGAGTCTGAATAAG
ATGA
Found at i:68305166 original size:14 final size:14
Alignment explanation
Indices: 68305149--68305186 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
68305139 TTTATAAATT
68305149 ACGGGTAGATTTGG
1 ACGGGTAGATTTGG
68305163 ACGGGTAGATTTGG
1 ACGGGTAGATTTGG
*
68305177 ATGGGT-GATT
1 ACGGGTAGATT
68305187 GGATACGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.21, C:0.05, G:0.42, T:0.32
Consensus pattern (14 bp):
ACGGGTAGATTTGG
Found at i:68306887 original size:16 final size:16
Alignment explanation
Indices: 68306861--68306907 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
68306851 AAAATTCAAT
*
68306861 AAATAAAAAATATATA
1 AAATAATAAATATATA
* *
68306877 AATTATTAAATAT-TA
1 AAATAATAAATATATA
68306892 AAATAATATAATATAT
1 AAATAATA-AATATAT
68306908 CTTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
15 8 0.33
16 15 0.62
17 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATAATAAATATATA
Found at i:68306888 original size:27 final size:27
Alignment explanation
Indices: 68306844--68306929 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
68306834 TTTAAAAGAC
** *
68306844 TATATAAAAAATTCAATAAATAAAAAA
1 TATATAAATTATTAAATAAATAAAAAA
*
68306871 TATATAAATTATTAAAT-ATTAAAATAA
1 TATATAAATTATTAAATAAATAAAA-AA
* * *
68306898 TATAATATATCTTTTAAAAAAATTAAAAAA
1 TAT-ATAAAT-TATTAAATAAA-TAAAAAA
68306928 TA
1 TA
68306930 ATATGAACGA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
26 6 0.13
27 19 0.41
28 5 0.11
29 6 0.13
30 5 0.11
31 5 0.11
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
TATATAAATTATTAAATAAATAAAAAA
Found at i:68312186 original size:3 final size:3
Alignment explanation
Indices: 68312178--68312203 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
68312168 TCTTTTAGGA
68312178 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
68312204 CAGATTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:68315772 original size:20 final size:21
Alignment explanation
Indices: 68315747--68315788 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
68315737 AAAAAAAAAG
68315747 AGGATAAACGTA-CAACAAAT
1 AGGATAAACGTACCAACAAAT
*
68315767 AGGATAAATGTATCCAACAAAT
1 AGGATAAACGTA-CCAACAAAT
68315789 TCATTAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (21 bp):
AGGATAAACGTACCAACAAAT
Found at i:68317028 original size:3 final size:3
Alignment explanation
Indices: 68317020--68317045 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
68317010 GAATCTAATT
68317020 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
68317046 GAAAAAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:68325963 original size:29 final size:29
Alignment explanation
Indices: 68325930--68325986 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
68325920 GCTCAAAAAA
68325930 TTAAAGACTAAATTGATAAAAGATATAAG
1 TTAAAGACTAAATTGATAAAAGATATAAG
68325959 TTAAAGACTAAATTGATAAAAGATATAA
1 TTAAAGACTAAATTGATAAAAGATATAA
68325987 ATGTTGATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.28
Consensus pattern (29 bp):
TTAAAGACTAAATTGATAAAAGATATAAG
Found at i:68327261 original size:29 final size:30
Alignment explanation
Indices: 68327212--68327272 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
68327202 ATATAAAAAC
*
68327212 TATACATGAATTTTAATTTTG-TGCGATTT
1 TATACAAGAATTTTAATTTTGATGCGATTT
* *
68327241 TATACAAGAAATTTTGA-TTTGATTCGATTT
1 TATACAAG-AATTTTAATTTTGATGCGATTT
68327271 TA
1 TA
68327273 AAAAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (30 bp):
TATACAAGAATTTTAATTTTGATGCGATTT
Found at i:68333159 original size:11 final size:11
Alignment explanation
Indices: 68333145--68333186 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
68333135 AAAATTTTAA
68333145 TTTTAAAATAT
1 TTTTAAAATAT
68333156 TTTTAAAATACTTT
1 TTTTAAAATA---T
68333170 TTTTAAAAT-T
1 TTTTAAAATAT
68333180 TTTTAAA
1 TTTTAAA
68333187 TAAATTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 8 0.29
11 10 0.36
14 10 0.36
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:68333159 original size:17 final size:17
Alignment explanation
Indices: 68333115--68333161 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
68333105 CGAATATAAT
*
68333115 AAATATTTTTACTTTTTTA
1 AAATATTTTTA--ATTTTA
*
68333134 AAA-AATTTTAATTTTA
1 AAATATTTTTAATTTTA
68333150 AAATATTTTTAA
1 AAATATTTTTAA
68333162 AATACTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 8 0.33
17 7 0.29
18 6 0.25
19 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:68333163 original size:25 final size:23
Alignment explanation
Indices: 68333127--68333196 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 23
68333117 ATATTTTTAC
*
68333127 TTTTTTAAAAAATTTTAATTTTAAAA
1 TTTTTTAAAATA-TTT--TTTTAAAA
68333153 TATTTTTAAAATACTTTTTTTAAAA
1 T-TTTTTAAAATA-TTTTTTTAAAA
*
68333178 TTTTTTAAATAAATTTTTT
1 TTTTTTAAA-ATATTTTTT
68333197 ATATTTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
24 14 0.36
25 11 0.28
26 1 0.03
27 13 0.33
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTTTAAAATATTTTTTTAAAA
Found at i:68333180 original size:23 final size:24
Alignment explanation
Indices: 68333145--68333197 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
68333135 AAAATTTTAA
* **
68333145 TTTTAAAATATTTTTAAAATACTT
1 TTTTTAAATATTTTTAAAATAAAT
*
68333169 TTTTTAAA-ATTTTTTAAATAAAT
1 TTTTTAAATATTTTTAAAATAAAT
68333192 TTTTTA
1 TTTTTA
68333198 TATTTATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTTAAATATTTTTAAAATAAAT
Found at i:68339340 original size:16 final size:15
Alignment explanation
Indices: 68339301--68339349 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
68339291 CCCGATATAA
68339301 TAATTTTTTTTATTT
1 TAATTTTTTTTATTT
**
68339316 TTTTATTTTTTTATTT
1 TAAT-TTTTTTTATTT
68339332 TAAATTTTTTTTAATTT
1 T-AATTTTTTTT-ATTT
68339349 T
1 T
68339350 TAAAATAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 2 0.07
16 19 0.70
17 6 0.22
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TAATTTTTTTTATTT
Found at i:68339350 original size:8 final size:8
Alignment explanation
Indices: 68339305--68339332 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
68339295 ATATAATAAT
68339305 TTTTTTTA
1 TTTTTTTA
68339313 TTTTTTTA
1 TTTTTTTA
68339321 TTTTTTTA
1 TTTTTTTA
68339329 TTTT
1 TTTT
68339333 AAATTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTTA
Found at i:68339376 original size:24 final size:23
Alignment explanation
Indices: 68339332--68339378 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
68339322 TTTTTTATTT
**
68339332 TAAATTTTTTTTAATTTTTAAAA
1 TAAATTTTTGGTAATTTTTAAAA
*
68339355 TAAATTTTTGGTATTTTATTAAAA
1 TAAATTTTTGGTAATTT-TTAAAA
68339379 AATAGGCTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
TAAATTTTTGGTAATTTTTAAAA
Found at i:68345171 original size:18 final size:18
Alignment explanation
Indices: 68345148--68345187 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
68345138 GGTTCTCGGT
68345148 TAAATA-AATTATTAAAAA
1 TAAATATAATTATT-AAAA
*
68345166 TAAATATAATTGTTAAAA
1 TAAATATAATTATTAAAA
68345184 TAAA
1 TAAA
68345188 AAAAAAACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
TAAATATAATTATTAAAA
Found at i:68348847 original size:6 final size:6
Alignment explanation
Indices: 68348836--68348888 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
68348826 AAATATATAT
*** *
68348836 TTTTTA TTTTTA TTTTTA TTTTTA -AAATA CTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
68348883 TTTTTA
1 TTTTTA
68348889 AAATAATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
5 2 0.05
6 37 0.95
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:68348879 original size:29 final size:29
Alignment explanation
Indices: 68348837--68348898 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
68348827 AATATATATT
*
68348837 TTTTATTTTTATTTTTATTTTTAAAATAC
1 TTTTATTTTTATTTTTATTTTTAAAATAA
68348866 TTTTATTTTTATTTTTATTTTTAAAATAA
1 TTTTATTTTTATTTTTATTTTTAAAATAA
68348895 TTTT
1 TTTT
68348899 TTAATGTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (29 bp):
TTTTATTTTTATTTTTATTTTTAAAATAA
Found at i:68350356 original size:20 final size:20
Alignment explanation
Indices: 68350321--68350358 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
68350311 TGGTCATTTC
68350321 GTAACAAAACGATAACATAA
1 GTAACAAAACGATAACATAA
68350341 GTAATCAAAACG-TAACAT
1 GTAA-CAAAACGATAACAT
68350359 TTCAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.55, C:0.16, G:0.11, T:0.18
Consensus pattern (20 bp):
GTAACAAAACGATAACATAA
Found at i:68351404 original size:30 final size:30
Alignment explanation
Indices: 68351364--68351425 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
68351354 ATTTATAAAT
*
68351364 AATTAATATTT-AT-TACTTAAAAATATTTAC
1 AATTAATATTTCATATA-TT-AAAATATTAAC
*
68351394 AATTTATATTTCATATATTAAAATATTAAC
1 AATTAATATTTCATATATTAAAATATTAAC
68351424 AA
1 AA
68351426 CAAGTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 22 0.79
31 4 0.14
32 2 0.07
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTAAC
Found at i:68351613 original size:13 final size:13
Alignment explanation
Indices: 68351592--68351623 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
68351582 ATTTTAAACT
*
68351592 AACACTTTTCAAA
1 AACAATTTTCAAA
68351605 AACAATTTTCAAA
1 AACAATTTTCAAA
68351618 AACAAT
1 AACAAT
68351624 AAAGATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (13 bp):
AACAATTTTCAAA
Found at i:68354098 original size:97 final size:96
Alignment explanation
Indices: 68353942--68354230 Score: 332
Period size: 97 Copynumber: 3.0 Consensus size: 96
68353932 AGCACACAAT
* * * * *
68353942 GAGGAAAGATTGAACCATAAAACCAA-AAAAAGCAACCA-AAGCGTTTTGAAGATCAATATAACT
1 GAGG-AAGATGGAACCATAAAGCCAATAAAAAACAACCAGAA-CATTTTGAA-ATCGATATAACT
** *
68354005 CACTAACACGAACCGAGCAATGAAAACTCGAATA
63 TGCTAACACGAACCAAGCAATGAAAACTCGAATA
* * **
68354039 TAGGAAGATGGAACCGTAATTCCAATAAAAAAACAA-CAGAAACATTTTGAAATCGATATAACTT
1 GAGGAAGATGGAACCATAAAGCCAAT-AAAAAACAACCAG-AACATTTTGAAATCGATATAACTT
* * * *
68354103 GCTACCACGAACCAAGCAATGAAAACTTGTATG
64 GCTAACACGAACCAAGCAATGAAAACTCGAATA
* * *
68354136 GAGGAAGATGGAACCATAAAGCCAATAAAAAGCAACCTGAACATTTTGAAAATCGACATAACTTG
1 GAGGAAGATGGAACCATAAAGCCAATAAAAAACAACCAGAACATTTTG-AAATCGATATAACTTG
68354201 CTAACACGAACCAAGCAATGAAAACTCGAA
65 CTAACACGAACCAAGCAATGAAAACTCGAA
68354231 AGTAGGCCAT
Statistics
Matches: 161, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
96 34 0.21
97 109 0.68
98 16 0.10
99 2 0.01
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (96 bp):
GAGGAAGATGGAACCATAAAGCCAATAAAAAACAACCAGAACATTTTGAAATCGATATAACTTGC
TAACACGAACCAAGCAATGAAAACTCGAATA
Found at i:68358374 original size:18 final size:18
Alignment explanation
Indices: 68358353--68358390 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
68358343 TCAGGTAGTC
68358353 TTGTCTGTTCAACTTTTA
1 TTGTCTGTTCAACTTTTA
68358371 TTGTCTGTTCAACTTTTA
1 TTGTCTGTTCAACTTTTA
68358389 TT
1 TT
68358391 CATCAGACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.58
Consensus pattern (18 bp):
TTGTCTGTTCAACTTTTA
Found at i:68365106 original size:61 final size:63
Alignment explanation
Indices: 68364971--68365114 Score: 204
Period size: 61 Copynumber: 2.3 Consensus size: 63
68364961 AAGCGGGACG
** * *
68364971 AAGTGAGAATTTCATTATAGTGTAAGGAACAAAATGGTAAAAAAAAAATTAGTAAAAGGGCCA
1 AAGTGAGAATTTCATTATAGTCAAAGGAACAAAATGATAAAAAAAAAATTAGTAAAAGGACCA
*
68365034 AGGTGAGAATTTCATTATAGTACAAAGG-ACAAAATGAT-AAAAAAAAA-TAGTAAAAGGACCA
1 AAGTGAGAATTTCATTATAGT-CAAAGGAACAAAATGATAAAAAAAAAATTAGTAAAAGGACCA
*
68365095 AAGTGAGAATTTCACTATAG
1 AAGTGAGAATTTCATTATAG
68365115 GGCCAAAATA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
61 31 0.42
62 9 0.12
63 29 0.40
64 4 0.05
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.22
Consensus pattern (63 bp):
AAGTGAGAATTTCATTATAGTCAAAGGAACAAAATGATAAAAAAAAAATTAGTAAAAGGACCA
Found at i:68367569 original size:31 final size:32
Alignment explanation
Indices: 68367508--68367570 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
68367498 AATAGACTGG
*
68367508 TGACTTAAATAAAAAACTTTTGAATAGTTCAA
1 TGACTTAAATAAAAAACTTTAGAATAGTTCAA
*
68367540 TGACTTAAATAAAACA-TTTCAG-ATAGTTCAA
1 TGACTTAAATAAAAAACTTT-AGAATAGTTCAA
68367571 AGACCATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (32 bp):
TGACTTAAATAAAAAACTTTAGAATAGTTCAA
Found at i:68376032 original size:104 final size:104
Alignment explanation
Indices: 68375896--68376320 Score: 647
Period size: 104 Copynumber: 4.1 Consensus size: 104
68375886 ATCAGGCACC
* * * * * * * *
68375896 AACCACTAAGTTAAATACTCGAGTTTATGCGAAAATTA-CAGATCAAAAACAAACTCCTGCTACA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGA-ATCAAAATCAAACTCATTCTACA
*
68375960 ATGTAAGAGCTTTGATTAATTATTTACATAAAAATCTTGA
65 ATGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
68376000 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
* * *
68376065 TGTAAGAGCTTTGATTCCTTGTTTACATGAAAATCTTGA
66 TGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
*
68376104 AACCTCTAAGTTAAATATTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
* * *
68376169 TGTAAGAGCTTTGATTCATTATTTACATGAAAATTTTTA
66 TGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
*
68376208 AACCTCTAAGTTTAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
*
68376273 TGTAAGAGCTTTGATTCATTACTTACA-AGAAAATCTTGA
66 TGTAAGAGCTTTGATTCATTATTTACATA-AAAATCTTGA
*
68376312 AGCCTCTAA
1 AACCTCTAA
68376321 ATTTACAACA
Statistics
Matches: 295, Mismatches: 24, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
104 294 1.00
105 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (104 bp):
AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
TGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
Found at i:68381276 original size:20 final size:21
Alignment explanation
Indices: 68381251--68381289 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
68381241 CATAATATCA
68381251 AATTTAATGTTTAT-TTTTTT
1 AATTTAATGTTTATATTTTTT
*
68381271 AATTTAATTTTTATATTTT
1 AATTTAATGTTTATATTTT
68381290 AGTTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (21 bp):
AATTTAATGTTTATATTTTTT
Found at i:68388058 original size:5 final size:5
Alignment explanation
Indices: 68388048--68388111 Score: 96
Period size: 5 Copynumber: 12.8 Consensus size: 5
68388038 AATTATGTTT
68388048 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
68388097 TTATTA TTATA TTAT
1 TTA-TA TTATA TTAT
68388112 TATATATATG
Statistics
Matches: 55, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 41 0.75
6 10 0.18
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:68388062 original size:8 final size:8
Alignment explanation
Indices: 68388048--68388116 Score: 67
Period size: 8 Copynumber: 8.8 Consensus size: 8
68388038 AATTATGTTT
68388048 TTATATTA
1 TTATATTA
68388056 -TATTATTA
1 TTA-TATTA
68388064 TTA-ATATA
1 TTATAT-TA
68388072 TTATATTA
1 TTATATTA
68388080 -TAT-TATA
1 TTATAT-TA
68388087 TTATATTA
1 TTATATTA
68388095 -TATTATTA
1 TTA-TATTA
68388103 TTATATTA
1 TTATATTA
68388111 TTATAT
1 TTATAT
68388117 ATATGACAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
6 1 0.02
7 11 0.21
8 33 0.63
9 7 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATATTA
Found at i:68388064 original size:3 final size:3
Alignment explanation
Indices: 68388051--68388114 Score: 63
Period size: 3 Copynumber: 24.0 Consensus size: 3
68388041 TATGTTTTTA
*
68388051 TAT TA- TAT TAT TAT TAA TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
68388093 TA- TAT TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
68388115 ATATATGACA
Statistics
Matches: 52, Mismatches: 1, Indels: 16
0.75 0.01 0.23
Matches are distributed among these distances:
2 16 0.31
3 36 0.69
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:68388186 original size:40 final size:40
Alignment explanation
Indices: 68388129--68388224 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
68388119 ATGACAAAGA
68388129 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
68388170 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
68388210 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
68388225 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:68388990 original size:29 final size:30
Alignment explanation
Indices: 68388931--68388988 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
68388921 TCCGGGCCTT
*
68388931 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
68388961 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
68388989 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:68389218 original size:13 final size:13
Alignment explanation
Indices: 68389200--68389231 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
68389190 TTTCCAGCAA
68389200 TTATGAATTTATT
1 TTATGAATTTATT
68389213 TTATGAATTTATT
1 TTATGAATTTATT
*
68389226 TGATGA
1 TTATGA
68389232 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:68389439 original size:50 final size:50
Alignment explanation
Indices: 68389326--68389567 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
68389316 ATTTGGGTAA
* * *
68389326 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
* *
68389382 AGAGGTCCCCTGTAAGACCATGTCTGGGATATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
68389432 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
68389482 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
68389532 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
68389568 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:68389516 original size:100 final size:103
Alignment explanation
Indices: 68389326--68389575 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
68389316 ATTTGGGTAA
68389326 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
68389391 CTGTAAGACCATGTCTGGGATATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
68389432 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
68389494 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
68389532 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
68389576 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 39 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:68391808 original size:19 final size:20
Alignment explanation
Indices: 68391772--68391809 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
68391762 AGCAACATGG
*
68391772 TTCATTTTTATGTATTTTTT
1 TTCATTTATATGTATTTTTT
68391792 TTCATTTATAT-TATTTTT
1 TTCATTTATATGTATTTTT
68391810 CCAGTGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TTCATTTATATGTATTTTTT
Found at i:68391844 original size:16 final size:16
Alignment explanation
Indices: 68391817--68391857 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
68391807 TTTCCAGTGT
68391817 AAAA-TATTTTTTT-A
1 AAAATTATTTTTTTCA
68391831 AAAATTATTTTTTTCA
1 AAAATTATTTTTTTCA
*
68391847 AATATTATTTT
1 AAAATTATTTT
68391858 CGAGAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 4 0.17
15 9 0.38
16 11 0.46
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
AAAATTATTTTTTTCA
Found at i:68392198 original size:29 final size:29
Alignment explanation
Indices: 68392161--68392224 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
68392151 AATTAGTAAA
* *
68392161 TATAAAATTACACTTTAAT-TTTTTAAAAT
1 TATAAAATTACA-TTTAATCCTTTAAAAAT
**
68392190 TATAAAATTTGATTTAATCCTTTAAAAAT
1 TATAAAATTACATTTAATCCTTTAAAAAT
68392219 TATAAA
1 TATAAA
68392225 GATTTAGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (29 bp):
TATAAAATTACATTTAATCCTTTAAAAAT
Found at i:68395324 original size:22 final size:22
Alignment explanation
Indices: 68395296--68395347 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
68395286 ATGACTACAG
68395296 ACACGTGGACAAAACGTTATCT
1 ACACGTGGACAAAACGTTATCT
* *
68395318 ACACGTGGACTATACGTTATCT
1 ACACGTGGACAAAACGTTATCT
68395340 ACACGTGG
1 ACACGTGG
68395348 CCCAAAATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (22 bp):
ACACGTGGACAAAACGTTATCT
Found at i:68401682 original size:22 final size:23
Alignment explanation
Indices: 68401656--68401703 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
68401646 TTTTCACAAA
68401656 TTTA-GAATTTAATCCTTTTATT
1 TTTAGGAATTTAATCCTTTTATT
* *
68401678 TTTAGGAATTTGATCTTTTTATT
1 TTTAGGAATTTAATCCTTTTATT
68401701 TTT
1 TTT
68401704 TAGATTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTAGGAATTTAATCCTTTTATT
Found at i:68402499 original size:30 final size:31
Alignment explanation
Indices: 68402429--68402502 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
68402419 AATATTTTAG
*
68402429 TTTAAATCACTGAATAATTTGAAAGCTTCTA
1 TTTAAGTCACTGAATAATTTGAAAGCTTCTA
* *
68402460 TTTAAGTCACTGAATTATTTGGAATG-TT-TA
1 TTTAAGTCACTGAATAATTT-GAAAGCTTCTA
*
68402490 TTTACGTCACTGA
1 TTTAAGTCACTGA
68402503 GTTGTTAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 14 0.37
31 20 0.53
32 4 0.11
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (31 bp):
TTTAAGTCACTGAATAATTTGAAAGCTTCTA
Found at i:68412372 original size:20 final size:20
Alignment explanation
Indices: 68412333--68412371 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
68412323 AAACTTATAG
* *
68412333 ATGTATGTAATTTATATTTT
1 ATGTATATAATATATATTTT
68412353 ATGTATATAATATAT-TTTT
1 ATGTATATAATATATATTTT
68412372 TTAGAGAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
ATGTATATAATATATATTTT
Found at i:68417690 original size:17 final size:19
Alignment explanation
Indices: 68417663--68417697 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
68417653 TTTGTTTTAG
68417663 TGTTTTATTT-AATTTTTT
1 TGTTTTATTTAAATTTTTT
68417681 TGTTTT-TTTAAATTTTT
1 TGTTTTATTTAAATTTTT
68417698 GATCTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (19 bp):
TGTTTTATTTAAATTTTTT
Found at i:68417697 original size:18 final size:18
Alignment explanation
Indices: 68417663--68417697 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
68417653 TTTGTTTTAG
68417663 TGTTTTATTTAATTTTTT
1 TGTTTTATTTAATTTTTT
*
68417681 TGTTTT-TTTAAATTTTT
1 TGTTTTATTTAATTTTTT
68417698 GATCTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (18 bp):
TGTTTTATTTAATTTTTT
Found at i:68417786 original size:21 final size:20
Alignment explanation
Indices: 68417751--68417789 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
68417741 ATTAACTTTG
*
68417751 TTTAAAAATATTTTTTTAAT
1 TTTAAAAATAATTTTTTAAT
68417771 TTTAAAAATAAATTTTTTA
1 TTTAAAAAT-AATTTTTTA
68417790 TTCATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTAAAAATAATTTTTTAAT
Found at i:68418045 original size:23 final size:23
Alignment explanation
Indices: 68418015--68418062 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
68418005 TATGTTAGTC
68418015 TGGTCGATTTCAAGTCTAAGTTT
1 TGGTCGATTTCAAGTCTAAGTTT
68418038 TGGTCGATTTCAAGTCTAAGTTT
1 TGGTCGATTTCAAGTCTAAGTTT
68418061 TG
1 TG
68418063 AATTAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (23 bp):
TGGTCGATTTCAAGTCTAAGTTT
Found at i:68428562 original size:16 final size:18
Alignment explanation
Indices: 68428523--68428564 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
68428513 TAAGTTTATA
68428523 ATACTT-TATATTATGTT
1 ATACTTATATATTATGTT
*
68428540 ATTCTTATATATTATG-T
1 ATACTTATATATTATGTT
68428557 A-ACTTATA
1 ATACTTATA
68428565 ACACATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (18 bp):
ATACTTATATATTATGTT
Found at i:68428713 original size:20 final size:19
Alignment explanation
Indices: 68428671--68428713 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
68428661 ATAGAAAAAT
* *
68428671 ATATAAAATTATTAAATAG
1 ATATAAAATTATTAAAGAA
*
68428690 ATATAAATATTTTTAAAGAA
1 ATATAAA-ATTATTAAAGAA
68428710 ATAT
1 ATAT
68428714 GGGCAGACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
ATATAAAATTATTAAAGAA
Found at i:68432682 original size:2 final size:2
Alignment explanation
Indices: 68432675--68432704 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
68432665 TCAAGGTAAT
*
68432675 CA CA CA CA CA CA CA TA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68432705 TCTATATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:68440690 original size:20 final size:20
Alignment explanation
Indices: 68440645--68440692 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
68440635 CCATTTTTGA
**
68440645 TATTTTATTCAATTTTATGT
1 TATTTTATTCAATCATATGT
68440665 TAATTTTA-TCAATCATATCGT
1 T-ATTTTATTCAATCATAT-GT
68440686 TATTTTA
1 TATTTTA
68440693 AAATTGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.58
Consensus pattern (20 bp):
TATTTTATTCAATCATATGT
Found at i:68452676 original size:31 final size:31
Alignment explanation
Indices: 68452641--68452705 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
68452631 TAAAATGGCC
* *
68452641 ACTGAATTATTCAAAAAATTTCATTTAAGTT
1 ACTGAACTATTCAAAAAATTTCATTTAACTT
** *
68452672 ACTGAACTATTCAAAAGTTTTTATTTAACTT
1 ACTGAACTATTCAAAAAATTTCATTTAACTT
68452703 ACT
1 ACT
68452706 AGGCTGTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.43
Consensus pattern (31 bp):
ACTGAACTATTCAAAAAATTTCATTTAACTT
Found at i:68454064 original size:19 final size:19
Alignment explanation
Indices: 68454023--68454064 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
68454013 CTAAAAATAT
68454023 TAAAATTGATATTTTTATC
1 TAAAATTGATATTTTTATC
68454042 -AAAATTGATATTTTTATC
1 TAAAATTGATATTTTTATC
68454060 TAAAA
1 TAAAA
68454065 ATTAAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (19 bp):
TAAAATTGATATTTTTATC
Found at i:68455530 original size:24 final size:24
Alignment explanation
Indices: 68455502--68455549 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
68455492 GCGTGTCTTC
* *
68455502 CAAGGAAGAGAAGGATAAATCATT
1 CAAGGAAGAGAAAGAGAAATCATT
68455526 CAAGGAAGAGAAAGAGAAATCATT
1 CAAGGAAGAGAAAGAGAAATCATT
68455550 ATCACAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.08, G:0.25, T:0.15
Consensus pattern (24 bp):
CAAGGAAGAGAAAGAGAAATCATT
Found at i:68460418 original size:17 final size:15
Alignment explanation
Indices: 68460388--68460421 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
68460378 ACGAAGTCTC
68460388 CCTCCCTTTCCCTCA
1 CCTCCCTTTCCCTCA
68460403 CCTCCCTCTCTCCCTCA
1 CCTCCCT-T-TCCCTCA
68460420 CC
1 CC
68460422 CGTTGCCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 1 0.06
17 9 0.53
ACGTcount: A:0.06, C:0.65, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTCCCTTTCCCTCA
Found at i:68465378 original size:11 final size:11
Alignment explanation
Indices: 68465348--68465389 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
68465338 ACACCAATTT
*
68465348 TTTTAAAAAAA
1 TTTTAAAAATA
*
68465359 TTTAAAAAAGTA
1 TTTTAAAAA-TA
68465371 TTTTAAAAATA
1 TTTTAAAAATA
68465382 TTTTAAAA
1 TTTTAAAA
68465390 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:68465416 original size:30 final size:30
Alignment explanation
Indices: 68465355--68465413 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
68465345 TTTTTTTAAA
*
68465355 AAAATTTAAAAAAGTATTTTAAAAATATTTT
1 AAAATTTAAAAAAGTA-TTAAAAAATATTTT
68465386 AAAATTTAAAAAA-TA-TAAAAAATATTTT
1 AAAATTTAAAAAAGTATTAAAAAATATTTT
68465414 TTATTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 12 0.44
30 2 0.07
31 13 0.48
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (30 bp):
AAAATTTAAAAAAGTATTAAAAAATATTTT
Found at i:68472882 original size:23 final size:22
Alignment explanation
Indices: 68472831--68472882 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
68472821 CCTCGTCTTT
*
68472831 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
68472853 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
68472876 TTCTTTT
1 TTCTTTT
68472883 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:68525011 original size:33 final size:33
Alignment explanation
Indices: 68524953--68525020 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
68524943 TGGGAGTTAC
* * *
68524953 ATAATGCATGACATAGTTAAGAGATGTAGATTA
1 ATAATGCAGGACATAATTAAGAGATGCAGATTA
*
68524986 ATAATGCAGGACATTAATTAA-AGATGCATATTA
1 ATAATGCAGGACA-TAATTAAGAGATGCAGATTA
68525019 AT
1 AT
68525021 GATGTTAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.31
Consensus pattern (33 bp):
ATAATGCAGGACATAATTAAGAGATGCAGATTA
Found at i:68525944 original size:22 final size:23
Alignment explanation
Indices: 68525919--68525964 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
68525909 ATTTAATCAC
*
68525919 TTCATA-TTTATTATAGGTTGTT
1 TTCATATTTTATTATAAGTTGTT
68525941 TTCATATTTTATTATAAGTTGTT
1 TTCATATTTTATTATAAGTTGTT
68525964 T
1 T
68525965 CCACTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.61
Consensus pattern (23 bp):
TTCATATTTTATTATAAGTTGTT
Found at i:68535870 original size:28 final size:27
Alignment explanation
Indices: 68535807--68536013 Score: 333
Period size: 27 Copynumber: 7.6 Consensus size: 27
68535797 ATATTAAGTC
* * *
68535807 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
68535834 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
68535862 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
68535889 AGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
68535916 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
68535944 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
*
68535972 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
68535999 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68536014 GCACAATTTA
Statistics
Matches: 171, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
27 91 0.53
28 80 0.47
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:68535894 original size:55 final size:55
Alignment explanation
Indices: 68535807--68536038 Score: 331
Period size: 55 Copynumber: 4.2 Consensus size: 55
68535797 ATATTAAGTC
* * *
68535807 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
68535862 CGCACACTTAGTGCTACATAGTCAACTAGCACACTTAGTGCTACATAGTC-AACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
68535916 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
68535972 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
68536028 CGCACACTTAG
1 CGCACACTTAG
68536039 CGCCAATCTC
Statistics
Matches: 160, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
54 27 0.17
55 92 0.57
56 41 0.26
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:68551138 original size:28 final size:27
Alignment explanation
Indices: 68551054--68551231 Score: 277
Period size: 27 Copynumber: 6.6 Consensus size: 27
68551044 TAAATTGTGC
*
68551054 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
68551081 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
68551108 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
*
68551136 AGCACTAAGTGTGCTA-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
68551162 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
68551190 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
68551217 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
68551232 GACTTAATAT
Statistics
Matches: 142, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
26 25 0.18
27 66 0.46
28 51 0.36
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:68560937 original size:23 final size:23
Alignment explanation
Indices: 68560920--68560966 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
68560910 CAAAAAGTGG
*
68560920 AAACAACTTATAATAAAATATGA
1 AAACAACCTATAATAAAATATGA
68560943 AAACAACCTATAATAAAATATGA
1 AAACAACCTATAATAAAATATGA
68560966 A
1 A
68560967 GTGATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.62, C:0.11, G:0.04, T:0.23
Consensus pattern (23 bp):
AAACAACCTATAATAAAATATGA
Found at i:68561912 original size:33 final size:33
Alignment explanation
Indices: 68561874--68561941 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
68561864 TTTTAACATC
* * *
68561874 ATTAATATGCATCT-TTAATTAATGTCCTGCATT
1 ATTAATATACATCTCTTAACT-ATGTCATGCATT
*
68561907 ATTAATCTACATCTCTTAACTATGTCATGCATT
1 ATTAATATACATCTCTTAACTATGTCATGCATT
68561940 AT
1 AT
68561942 GTAACTCCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (33 bp):
ATTAATATACATCTCTTAACTATGTCATGCATT
Found at i:68585359 original size:55 final size:54
Alignment explanation
Indices: 68585252--68585388 Score: 178
Period size: 55 Copynumber: 2.6 Consensus size: 54
68585242 NNNNNNNNNN
68585252 TGCTACAT--TCAAACTCGCACACTTAGTG-TACATAGTAACTAGCACACTTAG
1 TGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTAACTAGCACACTTAG
* *
68585303 TGCTACATAGTCAAACGCGCCACACTTAGTGCTACAT-GTCAGACTCGCACA-TTAG
1 TGCTACATAGTCAAACTCG-CACACTTAGTGCTACATAGT-A-ACTAGCACACTTAG
*
68585358 TGCTACATAGTC-AATTCGCACACTTAGTGCT
1 TGCTACATAGTCAAACTCGCACACTTAGTGCT
68585389 GCACAATTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
51 8 0.11
53 21 0.28
54 17 0.22
55 22 0.29
56 8 0.11
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (54 bp):
TGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTAACTAGCACACTTAG
Found at i:68585364 original size:26 final size:27
Alignment explanation
Indices: 68585263--68585388 Score: 170
Period size: 26 Copynumber: 4.7 Consensus size: 27
68585253 GCTACATTCA
68585263 AACTCGCACACTTAGTG-TACATAGT-
1 AACTCGCACACTTAGTGCTACATAGTC
*
68585288 AACTAGCACACTTAGTGCTACATAGTC
1 AACTCGCACACTTAGTGCTACATAGTC
*
68585315 AAACGCGCCACACTTAGTGCTACAT-GTC
1 -AACTCG-CACACTTAGTGCTACATAGTC
68585343 AGACTCGCACA-TTAGTGCTACATAGTC
1 A-ACTCGCACACTTAGTGCTACATAGTC
*
68585370 AATTCGCACACTTAGTGCT
1 AACTCGCACACTTAGTGCT
68585389 GCACAATTTA
Statistics
Matches: 89, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
25 16 0.18
26 28 0.31
27 17 0.19
28 11 0.12
29 17 0.19
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (27 bp):
AACTCGCACACTTAGTGCTACATAGTC
Found at i:68585407 original size:55 final size:56
Alignment explanation
Indices: 68585252--68585413 Score: 146
Period size: 55 Copynumber: 3.0 Consensus size: 56
68585242 NNNNNNNNNN
* **
68585252 TGCTACAT--TCAAACTCG-CACACTTAGTG-TACATAGT--AACTAGCACACTTAG
1 TGCTACATAGTCAAACGCGCCACACTTAGTGCTACAT-GTCAAACCCGCACACTTAG
* *
68585303 TGCTACATAGTCAAACGCGCCACACTTAGTGCTACATGTCAGACTCGCACA-TTAG
1 TGCTACATAGTCAAACGCGCCACACTTAGTGCTACATGTCAAACCCGCACACTTAG
** *
68585358 TGCTACATAGTC-AATTCG-CACACTTAGTGCTGCACAAT-TTAAACCCGCACACTTAG
1 TGCTACATAGTCAAACGCGCCACACTTAGTGCT--AC-ATGTCAAACCCGCACACTTAG
68585414 CGCCAATCTC
Statistics
Matches: 93, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
51 8 0.09
53 21 0.23
54 17 0.18
55 33 0.35
56 14 0.15
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (56 bp):
TGCTACATAGTCAAACGCGCCACACTTAGTGCTACATGTCAAACCCGCACACTTAG
Found at i:68585409 original size:82 final size:80
Alignment explanation
Indices: 68585252--68585413 Score: 204
Period size: 82 Copynumber: 2.0 Consensus size: 80
68585242 NNNNNNNNNN
68585252 TGCTACATTCAAACTCGCACACTTAGTGTACATAGTAACTAGCACACTTAGTGCTACATAGTCAA
1 TGCTACATTCAAACTCGCACACTTAGTGTACATAGTAACTAGCACACTTAGTGCTACATAGTCAA
*
68585317 ACGCGCCACACTTAG
66 ACCCGCCACACTTAG
* * *
68585332 TGCTACATGTCAGACTCGCACA-TTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACA-A
1 TGCTACAT-TCAAACTCGCACACTTAGTG-TACATAGT-AACTAGCACACTTAGTGCT--ACATA
* *
68585395 TTTAAACCCG-CACACTTAG
61 GTCAAACCCGCCACACTTAG
68585414 CGCCAATCTC
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
80 14 0.20
81 20 0.28
82 26 0.37
83 8 0.11
84 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (80 bp):
TGCTACATTCAAACTCGCACACTTAGTGTACATAGTAACTAGCACACTTAGTGCTACATAGTCAA
ACCCGCCACACTTAG
Found at i:68593168 original size:28 final size:28
Alignment explanation
Indices: 68593105--68593283 Score: 276
Period size: 28 Copynumber: 6.5 Consensus size: 28
68593095 ATATTAAGTC
* * *
68593105 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
68593132 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
68593160 CGCACACTTAGTGCTACATAGTC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
68593187 -GCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
68593214 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
68593242 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACT
68593269 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68593284 GCACAATTTA
Statistics
Matches: 143, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
26 22 0.15
27 46 0.32
28 75 0.52
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAGTCAAACT
Found at i:68593211 original size:54 final size:55
Alignment explanation
Indices: 68593105--68593283 Score: 290
Period size: 54 Copynumber: 3.3 Consensus size: 55
68593095 ATATTAAGTC
* * * *
68593105 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
68593160 CGCACACTTAGTGCTACATAGTCAACT-GCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
68593214 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCA-ACTCGCACACTTAGTGCTACATAGTCAAACT
68593269 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68593284 GCACAATTTA
Statistics
Matches: 117, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
54 50 0.43
55 45 0.38
56 22 0.19
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:68593223 original size:82 final size:82
Alignment explanation
Indices: 68593105--68593283 Score: 288
Period size: 82 Copynumber: 2.2 Consensus size: 82
68593095 ATATTAAGTC
* *
68593105 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
68593170 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* * *
68593187 -GCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAGACTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
*
68593251 AGTGCTACATAGTCAATT
65 AGTGCTACATAGTCAACT
68593269 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68593284 GCACAATTTA
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
81 19 0.21
82 56 0.63
83 14 0.16
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:68601149 original size:28 final size:28
Alignment explanation
Indices: 68601086--68601265 Score: 267
Period size: 28 Copynumber: 6.5 Consensus size: 28
68601076 ATATTAAGTC
* * *
68601086 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
68601113 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
68601141 CGCACACTTAGTACTACATAGTC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
68601168 AGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
68601196 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
68601224 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACT
68601251 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68601266 GCACAATTTA
Statistics
Matches: 141, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 63 0.45
28 78 0.55
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAGTCAAACT
Found at i:68601173 original size:55 final size:55
Alignment explanation
Indices: 68601086--68601265 Score: 281
Period size: 55 Copynumber: 3.3 Consensus size: 55
68601076 ATATTAAGTC
* * * *
68601086 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
* *
68601141 CGCACACTTAGTACTACATAGTCAACTAGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
68601196 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCA-ACTCGCACACTTAGTGCTACATAGTCAAACT
68601251 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68601266 GCACAATTTA
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
55 90 0.78
56 25 0.22
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:68601225 original size:83 final size:82
Alignment explanation
Indices: 68601087--68601265 Score: 277
Period size: 83 Copynumber: 2.2 Consensus size: 82
68601077 TATTAAGTCC
* *
68601087 GCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAG
1 GCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAG
68601152 TACTACATAGTCAACTA
66 TACTACATAGTCAACTA
* * *
68601169 GCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAGACTCGCACACTTA
1 GCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
* * *
68601234 GTGCTACATAGTCAATTC
65 GTACTACATAGTCAACTA
68601252 GCACACTTAGTGCT
1 GCACACTTAGTGCT
68601266 GCACAATTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
82 19 0.22
83 69 0.78
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (82 bp):
GCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAG
TACTACATAGTCAACTA
Found at i:68625904 original size:87 final size:88
Alignment explanation
Indices: 68625800--68625977 Score: 261
Period size: 87 Copynumber: 2.0 Consensus size: 88
68625790 ATGATTATAC
* * * * * *
68625800 ATGTGATTGATGATGATATTTGAAATTTGTGTAATGTTAATGATAAGTCAAGAATGGTGAAAGAT
1 ATGTGACTAATGATGATATATGAAATTTGGGTAATGTTAATGATAAGCCAAGAATAGTGAAAGAT
*
68625865 AAAA-GCGC-TATTTATTGAATTA
66 AAAAGGC-CTTATATATTGAATTA
*
68625887 ATGTGACTAATGATGATATATGAAATTTGGGTAATGTTAATGATAAGCCAAGACTAGTGAAAGAT
1 ATGTGACTAATGATGATATATGAAATTTGGGTAATGTTAATGATAAGCCAAGAATAGTGAAAGAT
68625952 AAAAGGCCTTATATATTGAATTA
66 AAAAGGCCTTATATATTGAATTA
68625975 ATG
1 ATG
68625978 ATTAATTTTC
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
87 63 0.78
88 18 0.22
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (88 bp):
ATGTGACTAATGATGATATATGAAATTTGGGTAATGTTAATGATAAGCCAAGAATAGTGAAAGAT
AAAAGGCCTTATATATTGAATTA
Found at i:68635402 original size:33 final size:33
Alignment explanation
Indices: 68635360--68635562 Score: 147
Period size: 33 Copynumber: 5.6 Consensus size: 33
68635350 AATATAAGGG
68635360 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
68635393 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAG-
1 GGTTGCTAAGTGCTGATTCC-CCGAATC----AT-TG---GT
68635434 GAGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 G-GTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * * *
68635468 GGTTGCTAAGTGCCGATTCCACCATAACTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CC-GAA--T-CAT-TG---GT
* *
68635510 GGTTGCTAAGTGTTGATTCCCTGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
68635543 GGTTGTTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
68635563 ACTGTATCTT
Statistics
Matches: 134, Mismatches: 16, Indels: 40
0.71 0.08 0.21
Matches are distributed among these distances:
33 57 0.43
34 9 0.07
35 2 0.01
36 4 0.03
37 5 0.04
38 5 0.04
39 4 0.03
40 2 0.01
41 8 0.06
42 38 0.28
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:68635453 original size:42 final size:41
Alignment explanation
Indices: 68635394--68635647 Score: 195
Period size: 42 Copynumber: 6.5 Consensus size: 41
68635384 ATCATTGGTG
*
68635394 GTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGGA
1 GTTGCTAAGTGCTGATTCCACCGTATCTT-AATGTGAAAGGA
*
68635436 GTTGCTAAGTGCTGATTCC-CCGAATC---AT-TG---GTG-
1 GTTGCTAAGTGCTGATTCCACCGTATCTTAATGTGAAAG-GA
* * * *
68635469 GTTGCTAAGTGCCGATTCCACCATAACTTGAATGTGAAAGGG
1 GTTGCTAAGTGCTGATTCCACCGTATCTT-AATGTGAAAGGA
* * *
68635511 GTTGCTAAGTGTTGATTCC-CTGAATC---AT-TG---GTG-
1 GTTGCTAAGTGCTGATTCCACCGTATCTTAATGTGAAAG-GA
* *
68635544 GTTGTTAAGTGCTGATTCCACTGTATCTTAAATGTGAAA-GA
1 GTTGCTAAGTGCTGATTCCACCGTATCTT-AATGTGAAAGGA
*
68635585 GGTTGCTAAGTGTTGATTCCACCGTATCTTTGAATGTGAAAGGA
1 -GTTGCTAAGTGCTGATTCCACCGTATC-TT-AATGTGAAAGGA
68635629 GTTGCTAAGTGCTGATTCC
1 GTTGCTAAGTGCTGATTCC
68635648 CCGAATCACT
Statistics
Matches: 167, Mismatches: 20, Indels: 49
0.71 0.08 0.21
Matches are distributed among these distances:
33 37 0.22
34 12 0.07
36 4 0.02
37 4 0.02
38 4 0.02
39 4 0.02
40 1 0.01
41 10 0.06
42 60 0.36
43 29 0.17
44 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (41 bp):
GTTGCTAAGTGCTGATTCCACCGTATCTTAATGTGAAAGGA
Found at i:68635486 original size:75 final size:75
Alignment explanation
Indices: 68635361--68635604 Score: 373
Period size: 75 Copynumber: 3.3 Consensus size: 75
68635351 ATATAAGGGG
*
68635361 GTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTAAA
1 GTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAA
68635426 TGTGAAAGGA
66 TGTGAAAGGA
* * * *
68635436 GTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCCGATTCCACCATAACTTGAA
1 GTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAA
*
68635501 TGTGAAAGGG
66 TGTGAAAGGA
* * * *
68635511 GTTGCTAAGTGTTGATTCCCTGAATCATTGGTGGTTGTTAAGTGCTGATTCCACTGTATCTTAAA
1 GTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAA
68635576 TGTGAAA-GA
66 TGTGAAAGGA
*
68635585 GGTTGCTAAGTGTTGATTCC
1 -GTTGCTAAGTGCTGATTCC
68635605 ACCGTATCTT
Statistics
Matches: 153, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
74 1 0.01
75 152 0.99
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (75 bp):
GTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAA
TGTGAAAGGA
Found at i:68635635 original size:43 final size:42
Alignment explanation
Indices: 68635543--68635647 Score: 149
Period size: 43 Copynumber: 2.5 Consensus size: 42
68635533 AATCATTGGT
* *
68635543 GGTTGTTAAGTGCTGATTCCACTGTATCTTAAATGTGAAAGA
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGA
* *
68635585 GGTTGCTAAGTGTTGATTCCACCGTATCTTTGAATGTGAAAG-
1 GGTTGCTAAGTGCTGATTCCACCGTATC-TTAAATGTGAAAGA
68635627 GAGTTGCTAAGTGCTGATTCC
1 G-GTTGCTAAGTGCTGATTCC
68635648 CCGAATCACT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
42 26 0.46
43 30 0.54
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGA
Found at i:68635676 original size:118 final size:117
Alignment explanation
Indices: 68635468--68635682 Score: 315
Period size: 118 Copynumber: 1.8 Consensus size: 117
68635458 AATCATTGGT
* * *
68635468 GGTTGCTAAGTGCCGATTCCACCATAACTTGAATGTGAAAGGGGTTGCTAAGTGTTGATTCCCTG
1 GGTTGCTAAGTGCCGATTCCACCATAACTTGAATGTGAAAGGAGTTGCTAAGTGCTGATTCCCCG
* * *
68635533 AATCATTGGTGGTTGTTAAGTGCTGATTCCACTGTATCTTAAATGTGAAAGA
66 AATCACTGGTGGTTGTAAAGTGCTGAATCCACTGTATCTTAAATGTGAAAGA
** * *
68635585 GGTTGCTAAGTGTTGATTCCACCGTATCTTTGAATGTGAAAGGAGTTGCTAAGTGCTGATTCCCC
1 GGTTGCTAAGTGCCGATTCCACCATAAC-TTGAATGTGAAAGGAGTTGCTAAGTGCTGATTCCCC
68635650 GAATCACTGGTGGTTGCTAAAG-GCTGAATCCAC
65 GAATCACTGGTGGTTG-TAAAGTGCTGAATCCAC
68635683 CGAGTAACGG
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
117 24 0.28
118 58 0.67
119 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (117 bp):
GGTTGCTAAGTGCCGATTCCACCATAACTTGAATGTGAAAGGAGTTGCTAAGTGCTGATTCCCCG
AATCACTGGTGGTTGTAAAGTGCTGAATCCACTGTATCTTAAATGTGAAAGA
Found at i:68641564 original size:40 final size:39
Alignment explanation
Indices: 68641442--68641576 Score: 116
Period size: 40 Copynumber: 3.5 Consensus size: 39
68641432 ACCAGTTTGG
* * * *
68641442 CACCCAGTGCCTCATCGGATGATTCGAAGTAATAAATTAA
1 CACCCAGTGCCTCATC-GATAATCCGAAGTAGTAAATTGA
* * * *
68641482 CACCCAGTGCATCATCGGCTAAACCG-A--AGTAAATTGG
1 CACCCAGTGCCTCATC-GATAATCCGAAGTAGTAAATTGA
68641519 CACCCAGTGCCTCAT-GAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCG-A-TAATCCGAAGTAGTAAATTGA
* *
68641559 CACCCAATGTCTCATCGA
1 CACCCAGTGCCTCATCGA
68641577 CTCGAAGTCG
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
35 1 0.01
37 27 0.36
38 1 0.01
39 1 0.01
40 44 0.59
41 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGATAATCCGAAGTAGTAAATTGA
Found at i:68642530 original size:21 final size:22
Alignment explanation
Indices: 68642505--68642551 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
68642495 GTTTCGTTTC
*
68642505 AATTTTGTTTG-TTTGTTTAAT
1 AATTTTATTTGTTTTGTTTAAT
68642526 AA-TTTATTTGTTTTGTTTAAT
1 AATTTTATTTGTTTTGTTTAAT
68642547 AATTT
1 AATTT
68642552 ACTTAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 14 0.61
22 2 0.09
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (22 bp):
AATTTTATTTGTTTTGTTTAAT
Done.