Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 22 of 144
Found at i:6589273 original size:39 final size:39
Alignment explanation
Indices: 6589219--6589296 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
6589209 CTAGGGGTGT
6589219 GCATAATTCGAGTAAAACCGAAAAAATTCGGTTAACCGA
1 GCATAATTCGAGTAAAACCGAAAAAATTCGGTTAACCGA
6589258 GCATAATTCGAGTAAAACCGAAAAAATTCGGTTAACCGA
1 GCATAATTCGAGTAAAACCGAAAAAATTCGGTTAACCGA
6589297 CCGATTAATC
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:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (39 bp):
GCATAATTCGAGTAAAACCGAAAAAATTCGGTTAACCGA
Found at i:6589641 original size:18 final size:17
Alignment explanation
Indices: 6589613--6589649 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
6589603 TCGGGTATTT
*
6589613 TTCGGTAATTCGGTTAA
1 TTCGGTAATTCGGGTAA
6589630 TTCGGATAATTCGGGTAA
1 TTCGG-TAATTCGGGTAA
6589648 TT
1 TT
6589650 TTTAACCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (17 bp):
TTCGGTAATTCGGGTAA
Found at i:6594178 original size:28 final size:29
Alignment explanation
Indices: 6594124--6594178 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
6594114 GATCAAATAT
* *
6594124 TTTTAAAAGTATTTAAACAGGGTCAAATC
1 TTTTAAAAGTATTTAAAAAGGGACAAATC
*
6594153 TTTTAAAA-TATTTAAAAATGGACAAA
1 TTTTAAAAGTATTTAAAAAGGGACAAA
6594179 AACATTTTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (29 bp):
TTTTAAAAGTATTTAAAAAGGGACAAATC
Found at i:6609112 original size:19 final size:19
Alignment explanation
Indices: 6609088--6609126 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6609078 AATACTTTAT
* * *
6609088 AAAATTTTATTAATTATAA
1 AAAATTATATGAAATATAA
6609107 AAAATTATATGAAATATAA
1 AAAATTATATGAAATATAA
6609126 A
1 A
6609127 GTTAATTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAATTATATGAAATATAA
Found at i:6610342 original size:20 final size:20
Alignment explanation
Indices: 6610278--6610344 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
6610268 TAAAAGATTC
*
6610278 AATAATATTATAAG-AATTT
1 AATAATTTTATAAGAAATTT
* * * *
6610297 AGTAATTTTTTAAGATATTC
1 AATAATTTTATAAGAAATTT
** *
6610317 GGTAATTTTGTAAGAAATTT
1 AATAATTTTATAAGAAATTT
6610337 AATAATTT
1 AATAATTT
6610345 ACAAAAGGTA
Statistics
Matches: 36, Mismatches: 11, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
19 11 0.31
20 25 0.69
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.46
Consensus pattern (20 bp):
AATAATTTTATAAGAAATTT
Found at i:6623291 original size:16 final size:17
Alignment explanation
Indices: 6623270--6623303 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6623260 TTTATTGATG
6623270 GATTTG-GTATTAATTT
1 GATTTGAGTATTAATTT
6623286 GATTTGTAGTATTAATTT
1 GATTTG-AGTATTAATTT
6623304 AATAATACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (17 bp):
GATTTGAGTATTAATTT
Found at i:6624020 original size:21 final size:21
Alignment explanation
Indices: 6623995--6624042 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
6623985 TATCGAGAAG
*
6623995 TTTTTCAAATTAA-GAATTAT
1 TTTTTTAAATTAATGAATTAT
* *
6624015 TTTTTTAATTTAATGTATTAT
1 TTTTTTAAATTAATGAATTAT
*
6624036 TTATTTA
1 TTTTTTA
6624043 TTTTATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTTTTAAATTAATGAATTAT
Found at i:6640514 original size:3 final size:3
Alignment explanation
Indices: 6640496--6640553 Score: 73
Period size: 3 Copynumber: 19.7 Consensus size: 3
6640486 GACTTACAGC
* *
6640496 TAT T-T TAT TAT CAT TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
6640543 CAT CAT TAT TA
1 TAT TAT TAT TA
6640554 ATTAACAGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:6647549 original size:86 final size:85
Alignment explanation
Indices: 6647392--6647562 Score: 306
Period size: 86 Copynumber: 2.0 Consensus size: 85
6647382 TGAGTCCATT
6647392 TTCTTTTCCATGTTAGCCTACTTTTAACTTTCTTTTTTTCCCCTTCTGTGAAACCAAAGGAGAGA
1 TTCTTTTCCATGTTAGCCTACTTTTAACTTTCTTTTTTTCCCCTTCTGTGAAACCAAAGGAGAGA
6647457 GAAAAAGAGGAAGAAAGAAG
66 GAAAAAGAGGAAGAAAGAAG
* **
6647477 TTCTTTTCCATGTTAGCCTACTTTTAGCTTTCTTTTTTTTTTCCTTCTGTGAAACCAAAGGAGAG
1 TTCTTTTCCATGTTAGCCTACTTTTAACTTTC-TTTTTTTCCCCTTCTGTGAAACCAAAGGAGAG
6647542 AGAAAAAGAGGAAGAAAGAAG
65 AGAAAAAGAGGAAGAAAGAAG
6647563 AGAAGGAAGA
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
85 31 0.38
86 51 0.62
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (85 bp):
TTCTTTTCCATGTTAGCCTACTTTTAACTTTCTTTTTTTCCCCTTCTGTGAAACCAAAGGAGAGA
GAAAAAGAGGAAGAAAGAAG
Found at i:6648805 original size:3 final size:3
Alignment explanation
Indices: 6648797--6648824 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6648787 GCTGACAAAC
6648797 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6648825 GGTTAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6648947 original size:13 final size:13
Alignment explanation
Indices: 6648919--6648955 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
6648909 TGTTTTAATA
*
6648919 TTTTACTATA-TT
1 TTTTAATATATTT
6648931 TTTTAATATATTT
1 TTTTAATATATTT
6648944 TTTTAATATATT
1 TTTTAATATATT
6648956 ACTATACCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATATATTT
Found at i:6648948 original size:33 final size:33
Alignment explanation
Indices: 6648896--6648961 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6648886 GTCATGTCTC
*
6648896 TTTTTTAAATATATGTTTTAATATTTTACTATA
1 TTTTTTAAATATATGTTTTAATATATTACTATA
*
6648929 TTTTTT-AATATATTTTTTTAATATATTACTATA
1 TTTTTTAAATATA-TGTTTTAATATATTACTATA
6648962 CCCCTAGGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 6 0.20
33 24 0.80
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (33 bp):
TTTTTTAAATATATGTTTTAATATATTACTATA
Found at i:6661377 original size:17 final size:18
Alignment explanation
Indices: 6661345--6661379 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6661335 GCAACATTGT
6661345 ACATAAAAATAATAAGGA
1 ACATAAAAATAATAAGGA
*
6661363 ACATAAATA-AATAAGGA
1 ACATAAAAATAATAAGGA
6661380 TCCAAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (18 bp):
ACATAAAAATAATAAGGA
Found at i:6681897 original size:24 final size:24
Alignment explanation
Indices: 6681870--6681915 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6681860 CTAATTAAAT
* *
6681870 TTTATAAATAATTAATATTTATTG
1 TTTAAAAATAATTAAAATTTATTG
*
6681894 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAATAATTAAAATTTAT
6681916 ATTTCATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAAAATAATTAAAATTTATTG
Found at i:6686584 original size:14 final size:14
Alignment explanation
Indices: 6686561--6686600 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
6686551 ACAGAAAAGT
*
6686561 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
6686575 AAATCATTTTACGG
1 AAAACATTTTACAG
6686589 AAAACATTTTAC
1 AAAACATTTTAC
6686601 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:6686586 original size:34 final size:35
Alignment explanation
Indices: 6686526--6686592 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
6686516 CAAACACCAG
* *
6686526 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
6686561 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
6686593 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:6686658 original size:2 final size:2
Alignment explanation
Indices: 6686651--6686703 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
6686641 TGTATAAGAA
6686651 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6686693 AG AG AG AG AG A
1 AG AG AG AG AG A
6686704 TATCTATTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6687378 original size:8 final size:8
Alignment explanation
Indices: 6687365--6687391 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
6687355 CATAAAATGA
6687365 AAAATTTT
1 AAAATTTT
6687373 AAAATTTT
1 AAAATTTT
6687381 AAAATTTT
1 AAAATTTT
6687389 AAA
1 AAA
6687392 TTAGTAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:6689581 original size:19 final size:19
Alignment explanation
Indices: 6689557--6689605 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
6689547 TGAGAGTTTC
*
6689557 TTTTATATTTCTTCTTCTG
1 TTTTATATTTCCTCTTCTG
*
6689576 TTTTATTAGTTCCTCTTCTG
1 TTTTA-TATTTCCTCTTCTG
*
6689596 TTTAATATTT
1 TTTTATATTT
6689606 TGAAGCTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.14, C:0.14, G:0.06, T:0.65
Consensus pattern (19 bp):
TTTTATATTTCCTCTTCTG
Found at i:6691927 original size:24 final size:24
Alignment explanation
Indices: 6691900--6691951 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6691890 TTAGTAAGTC
*
6691900 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6691924 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6691948 AAAT
1 AAAT
6691952 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6704854 original size:16 final size:16
Alignment explanation
Indices: 6704833--6704865 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6704823 GGGAATATTT
6704833 AAAAAAGACAAA-AAAA
1 AAAAAAGA-AAAGAAAA
6704849 AAAAAAGAAAAGAAAA
1 AAAAAAGAAAAGAAAA
6704865 A
1 A
6704866 GGCTAAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAGAAAA
Found at i:6709906 original size:12 final size:11
Alignment explanation
Indices: 6709891--6709932 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
6709881 GTAAATAATG
*
6709891 ATAATGATGATA
1 ATAATAATG-TA
6709903 ATAATAATGTA
1 ATAATAATGTA
6709914 AT-ATAATAGTA
1 ATAATAAT-GTA
6709925 ATAATAAT
1 ATAATAAT
6709933 ATTAAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 5 0.19
11 9 0.33
12 13 0.48
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (11 bp):
ATAATAATGTA
Found at i:6709925 original size:11 final size:12
Alignment explanation
Indices: 6709901--6709943 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
6709891 ATAATGATGA
6709901 TAATAATAAT-G
1 TAATAATAATAG
6709912 TAAT-ATAATAG
1 TAATAATAATAG
*
6709923 TAATAATAATAT
1 TAATAATAATAG
6709935 TAA-AATAAT
1 TAATAATAAT
6709944 TAATTTAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 5 0.17
11 15 0.52
12 9 0.31
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:6715748 original size:39 final size:37
Alignment explanation
Indices: 6715681--6715773 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
6715671 ACCAGAATGG
* *
6715681 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
6715720 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
6715757 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
6715774 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:6716135 original size:3 final size:3
Alignment explanation
Indices: 6716127--6716167 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
6716117 TAATTCCAAC
* *
6716127 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA TAT TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6716168 CTTACCTCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:6717246 original size:9 final size:9
Alignment explanation
Indices: 6717232--6717281 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
6717222 CATTTGAATA
6717232 AATAATTAT
1 AATAATTAT
6717241 AATAATTAT
1 AATAATTAT
6717250 AATAATTAT
1 AATAATTAT
6717259 -ATACA-TAT
1 AATA-ATTAT
*
6717267 AATATTTAT
1 AATAATTAT
6717276 ATATAA
1 A-ATAA
6717282 CTTAAACAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
8 6 0.17
9 26 0.74
10 3 0.09
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
AATAATTAT
Found at i:6723017 original size:41 final size:41
Alignment explanation
Indices: 6722972--6723070 Score: 153
Period size: 41 Copynumber: 2.4 Consensus size: 41
6722962 TCAATACACT
* *
6722972 GGCATTAAACCTGCTAGACGTAAGGTCTGAAATATTTCACC
1 GGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACC
* *
6723013 GGCATTAAGCCTACTAGACGTAAAGTCTGAAATATTTTACC
1 GGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACC
*
6723054 GGCATTAAGCTTGCTAG
1 GGCATTAAGCCTGCTAG
6723071 GCACAAAGCC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (41 bp):
GGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACC
Found at i:6723084 original size:41 final size:41
Alignment explanation
Indices: 6722998--6723085 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
6722988 GACGTAAGGT
** *
6722998 CTGAAATATTTCACCGGCATTAAGCCTACTAGACGTAAAGT
1 CTGAAATATTTCACCGGCATTAAGCCTACTAGACACAAAGC
* * * *
6723039 CTGAAATATTTTACCGGCATTAAGCTTGCTAGGCACAAAGC
1 CTGAAATATTTCACCGGCATTAAGCCTACTAGACACAAAGC
6723080 CTGAAA
1 CTGAAA
6723086 ATCTCATATA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (41 bp):
CTGAAATATTTCACCGGCATTAAGCCTACTAGACACAAAGC
Found at i:6732188 original size:22 final size:20
Alignment explanation
Indices: 6732163--6732204 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
6732153 CTTTTTGTTA
6732163 GAAAAAAATAAATAAGAAAATT
1 GAAAAAAATAAA-AA-AAAATT
6732185 GAAAAAAATAAAAAAAAATT
1 GAAAAAAATAAAAAAAAATT
6732205 AGTAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.30
21 2 0.10
22 12 0.60
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (20 bp):
GAAAAAAATAAAAAAAAATT
Found at i:6744070 original size:12 final size:12
Alignment explanation
Indices: 6744053--6744077 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6744043 CTTTCCATCC
6744053 ATAGAACGAGAG
1 ATAGAACGAGAG
6744065 ATAGAACGAGAG
1 ATAGAACGAGAG
6744077 A
1 A
6744078 GAGAGAGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.32, T:0.08
Consensus pattern (12 bp):
ATAGAACGAGAG
Found at i:6744077 original size:2 final size:2
Alignment explanation
Indices: 6744072--6744111 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6744062 GAGATAGAAC
6744072 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6744112 AACTGCAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6744681 original size:17 final size:18
Alignment explanation
Indices: 6744656--6744708 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
6744646 CTTTGCTGTC
*
6744656 CTCTGTTCTTCTTCCT-T
1 CTCTTTTCTTCTTCCTCT
6744673 CTCTTTTCTT-TCTCCTCT
1 CTCTTTTCTTCT-TCCTCT
*
6744691 CTCTTATCTTCCTTCCTC
1 CTCTTTTCTT-CTTCCTC
6744709 CCTTCCATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 1 0.03
17 13 0.43
18 10 0.33
19 5 0.17
20 1 0.03
ACGTcount: A:0.02, C:0.40, G:0.02, T:0.57
Consensus pattern (18 bp):
CTCTTTTCTTCTTCCTCT
Found at i:6747415 original size:18 final size:20
Alignment explanation
Indices: 6747373--6747422 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
6747363 ATGTGGAGAT
*
6747373 TTATTTAAAATTTGCTAAGAA
1 TTATTAAAAATTT-CTAAGAA
*
6747394 TTATTGAAAATTT-TAA-AA
1 TTATTAAAAATTTCTAAGAA
6747412 TTATTAAAAAT
1 TTATTAAAAAT
6747423 CAATAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 12 0.44
19 3 0.11
21 12 0.44
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (20 bp):
TTATTAAAAATTTCTAAGAA
Found at i:6757704 original size:19 final size:19
Alignment explanation
Indices: 6757682--6757726 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6757672 AAAAAATTAC
6757682 AAAAAAAATTCAAAAATTT
1 AAAAAAAATTCAAAAATTT
* * *
6757701 AAAATAATTTTAAAAATTT
1 AAAAAAAATTCAAAAATTT
6757720 ATAAAAA
1 A-AAAAA
6757727 TTTTATAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAAAAATTCAAAAATTT
Found at i:6757728 original size:19 final size:20
Alignment explanation
Indices: 6757693--6757740 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
6757683 AAAAAAATTC
6757693 AAAAATTTA-AAATAATTTT
1 AAAAATTTATAAATAATTTT
6757712 AAAAATTTATAAA-AATTTT
1 AAAAATTTATAAATAATTTT
*
6757731 -ATAATTTATA
1 AAAAATTTATA
6757741 TTTTTACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 9 0.33
19 15 0.56
20 3 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAAATTTATAAATAATTTT
Found at i:6758010 original size:22 final size:21
Alignment explanation
Indices: 6757985--6758028 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6757975 CTCAATCCGT
*
6757985 ATTAAAATATAAATATATAAAA
1 ATTAAAAGAT-AATATATAAAA
* *
6758007 ATTAGAAGATAATATCTAAAA
1 ATTAAAAGATAATATATAAAA
6758028 A
1 A
6758029 CACACGCGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (21 bp):
ATTAAAAGATAATATATAAAA
Found at i:6762995 original size:24 final size:24
Alignment explanation
Indices: 6762948--6762993 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
6762938 TGATTATCGC
6762948 TATTTTTTAAATTTATAATTAAAT
1 TATTTTTTAAATTTATAATTAAAT
* *
6762972 TATTTTTT-ATTTTATATTTAAA
1 TATTTTTTAAATTTATAATTAAA
6762994 ATAATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTTTTTAAATTTATAATTAAAT
Found at i:6777265 original size:52 final size:48
Alignment explanation
Indices: 6777246--6777448 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
6777236 TGACAAGTGG
* *
6777246 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
6777292 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
6777344 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
6777390 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
6777436 AAAGTGATAAGTG
1 AAAGTGATAAGTG
6777449 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:6777300 original size:98 final size:98
Alignment explanation
Indices: 6777180--6777448 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
6777170 TTTGAGTACT
*
6777180 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
6777245 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
6777278 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
6777343 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
6777376 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
6777441 GATAAGTG
65 GAAAAGTG
6777449 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:6777456 original size:37 final size:37
Alignment explanation
Indices: 6777412--6777557 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
6777402 GATAGCTTTA
*
6777412 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6777449 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
6777486 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
6777523 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6777558 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:6778357 original size:9 final size:9
Alignment explanation
Indices: 6778343--6778367 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6778333 ACATGGTAAA
6778343 ATTAATACC
1 ATTAATACC
6778352 ATTAATACC
1 ATTAATACC
6778361 ATTAATA
1 ATTAATA
6778368 TTATTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (9 bp):
ATTAATACC
Found at i:6778477 original size:22 final size:22
Alignment explanation
Indices: 6778449--6778501 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
6778439 TTTAATTTTA
* *
6778449 TTATTTAATTTTGAAATTAATT
1 TTATTTAATTTTAAAATCAATT
*
6778471 TTATTTAACTTTAAAATCAATT
1 TTATTTAATTTTAAAATCAATT
*
6778493 CTA-TTAATT
1 TTATTTAATT
6778502 ATATATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.55
Consensus pattern (22 bp):
TTATTTAATTTTAAAATCAATT
Found at i:6787626 original size:32 final size:31
Alignment explanation
Indices: 6787590--6787659 Score: 72
Period size: 32 Copynumber: 2.2 Consensus size: 31
6787580 TTATTTATGA
*
6787590 TTTTTT-T-AATTATTTAATAATATTTCAACAAT
1 TTTTTTGTCAATTATAT-ATAAT-TTT-AACAAT
*
6787622 TTTTTATGTCAATTATATATAATTTTAATAAT
1 TTTTT-TGTCAATTATATATAATTTTAACAAT
6787654 TTTTTT
1 TTTTTT
6787660 ATTCTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
31 1 0.03
32 15 0.45
33 4 0.12
34 6 0.18
35 7 0.21
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (31 bp):
TTTTTTGTCAATTATATATAATTTTAACAAT
Found at i:6787699 original size:41 final size:41
Alignment explanation
Indices: 6787652--6787734 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
6787642 AATTTTAATA
6787652 ATTTTTTTATTCTAAATTTCGAATTTAAAACTTTAAATCTC
1 ATTTTTTTATTCTAAATTTCGAATTTAAAACTTTAAATCTC
6787693 ATTTTTTTATTCTAAATTTCGAATTTAAAACTTTAAATCTC
1 ATTTTTTTATTCTAAATTTCGAATTTAAAACTTTAAATCTC
6787734 A
1 A
6787735 CAGAACTCTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.51
Consensus pattern (41 bp):
ATTTTTTTATTCTAAATTTCGAATTTAAAACTTTAAATCTC
Found at i:6789285 original size:20 final size:20
Alignment explanation
Indices: 6789262--6789302 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
6789252 TTAGTAATTC
6789262 TTTTTCCATTTTGAGAGTAT
1 TTTTTCCATTTTGAGAGTAT
*
6789282 TTTTTCCCTTTTGAGAGTAT
1 TTTTTCCATTTTGAGAGTAT
6789302 T
1 T
6789303 GTTATTAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.12, G:0.15, T:0.56
Consensus pattern (20 bp):
TTTTTCCATTTTGAGAGTAT
Found at i:6789660 original size:18 final size:17
Alignment explanation
Indices: 6789622--6789663 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
6789612 TTTAGTAATG
* *
6789622 TTTTTATTTCAAAGTAT
1 TTTTTATTTCAAAATAC
6789639 TTTTTATTTCAAAAATAC
1 TTTTTATTTC-AAAATAC
6789657 TTTTTAT
1 TTTTTAT
6789664 GCTTCTTCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTTATTTCAAAATAC
Found at i:6802358 original size:7 final size:7
Alignment explanation
Indices: 6802346--6802385 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
6802336 TAGCATACCA
6802346 TTCATAT
1 TTCATAT
6802353 TTCATAT
1 TTCATAT
6802360 TTCATAT
1 TTCATAT
6802367 TTCATAT
1 TTCATAT
6802374 TTCATAT
1 TTCATAT
6802381 TTCAT
1 TTCAT
6802386 TTTTGTTGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (7 bp):
TTCATAT
Found at i:6808128 original size:27 final size:27
Alignment explanation
Indices: 6808088--6808163 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
6808078 TAGTATTGGC
*
6808088 GCCTATCTCAGAGGCGCCAATGGTGGT
1 GCCTATCTGAGAGGCGCCAATGGTGGT
* * **
6808115 GCCTATCTGGGAGGCGCCATTATTGGT
1 GCCTATCTGAGAGGCGCCAATGGTGGT
6808142 GCC-ATACTGAGAGGCGCCAATG
1 GCCTAT-CTGAGAGGCGCCAATG
6808164 CGCTGATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.05
27 38 0.95
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.22
Consensus pattern (27 bp):
GCCTATCTGAGAGGCGCCAATGGTGGT
Found at i:6813282 original size:16 final size:15
Alignment explanation
Indices: 6813251--6813292 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
6813241 ACAAAATCAA
*
6813251 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
6813266 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
6813282 ATAAAAATTAA
1 ATAAAAGTTAA
6813293 ATGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:6813372 original size:38 final size:38
Alignment explanation
Indices: 6813329--6813410 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
6813319 AAAAAGTCAG
6813329 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
*
6813367 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
6813405 TTATAA
1 TTATAA
6813411 ACTTTATATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
Found at i:6813520 original size:60 final size:60
Alignment explanation
Indices: 6813444--6813565 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
6813434 ATACTAAACT
* * * * *
6813444 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
*
6813504 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
6813564 AA
1 AA
6813566 TATTCATACA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 4 0.07
60 51 0.93
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:6813593 original size:8 final size:8
Alignment explanation
Indices: 6813580--6813719 Score: 50
Period size: 8 Copynumber: 16.4 Consensus size: 8
6813570 CATACAAAAA
6813580 ATTACAAT
1 ATTACAAT
6813588 ATTACAAT
1 ATTACAAT
* * *
6813596 ATATCCCGAC
1 AT-T-ACAAT
6813606 ATTACAAT
1 ATTACAAT
*
6813614 ATTCATACAAA
1 A-T--TACAAT
6813625 ATTACAAT
1 ATTACAAT
6813633 ATTACAAT
1 ATTACAAT
6813641 ATT-C-AT
1 ATTACAAT
** * *
6813647 ACAAAAAA
1 ATTACAAT
*
6813655 ATTGCAAT
1 ATTACAAT
*
6813663 ATTCATACAAA
1 A-T--TACAAT
*
6813674 ATTATAAT
1 ATTACAAT
6813682 ATTACAAT
1 ATTACAAT
*
6813690 ATTCATACAAA
1 A-T--TACAAT
*
6813701 ATTACAAA
1 ATTACAAT
6813709 ATTACAAT
1 ATTACAAT
6813717 ATT
1 ATT
6813720 CATACAAAAA
Statistics
Matches: 95, Mismatches: 24, Indels: 26
0.66 0.17 0.18
Matches are distributed among these distances:
6 3 0.03
7 1 0.01
8 62 0.65
9 5 0.05
10 7 0.07
11 17 0.18
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (8 bp):
ATTACAAT
Found at i:6813642 original size:27 final size:26
Alignment explanation
Indices: 6813606--6813797 Score: 212
Period size: 27 Copynumber: 7.7 Consensus size: 26
6813596 ATATCCCGAC
6813606 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
6813633 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
*
6813655 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
*
6813682 ATTACAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTA-AAT
6813709 ATTACAATATTCATAC--AA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
* *
6813730 ATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
6813757 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
*
6813779 ATTACAATATTTATACAAA
1 ATTACAATATTCATACAAA
6813798 TTACTAATCC
Statistics
Matches: 146, Mismatches: 7, Indels: 28
0.81 0.04 0.15
Matches are distributed among these distances:
21 15 0.10
22 32 0.22
23 12 0.08
24 2 0.01
25 4 0.03
26 10 0.07
27 71 0.49
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.32
Consensus pattern (26 bp):
ATTACAATATTCATACAAAATTAAAT
Found at i:6813698 original size:76 final size:75
Alignment explanation
Indices: 6813558--6813776 Score: 320
Period size: 75 Copynumber: 2.9 Consensus size: 75
6813548 ATTATAAAAT
* * * *
6813558 AATTACAATATTCATACAAAAAATTACAATA-T--TACAATA-TATCCCGACATTACAATATTCA
1 AATTACAATATTCATACAAAAAATTGCAATATTCATACAAAACTAT---AATATTACAATATTCA
6813619 TACAAAATTACAA
63 TACAAAATTACAA
* *
6813632 TATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATA
1 AATTACAATATTCATAC-AAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATA
6813697 CAAAATTACAA
65 CAAAATTACAA
6813708 AATTACAATATTCATACAAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATAC
1 AATTACAATATTCATACAAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATAC
6813773 AAAA
66 AAAA
6813777 AAATTACAAT
Statistics
Matches: 133, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
74 16 0.12
75 64 0.48
76 44 0.33
78 6 0.05
79 3 0.02
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.31
Consensus pattern (75 bp):
AATTACAATATTCATACAAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATAC
AAAATTACAA
Found at i:6813761 original size:48 final size:49
Alignment explanation
Indices: 6813558--6813797 Score: 210
Period size: 49 Copynumber: 4.9 Consensus size: 49
6813548 ATTATAAAAT
* * * * *
6813558 AATTACAATATTCATAC-AAAAAATTACAATATTACA-ATATATC-CCGA
1 AATTACAATATTCATACAAAAAAATTACAATATT-CATACAAAACTACAA
*
6813605 CATTACAATATTCATACAAAATTACAATATTACAATATTCATAC--AA--A-AA
1 AATTACAATATTCATAC-AAA--A-AA-ATTACAATATTCATACAAAACTACAA
* *
6813654 AATTGCAATATTCATACAAAATTATAATATTACAATATTCATACAAAATTACAA
1 AATTACAATATTCATAC-AAA--A-AA-ATTACAATATTCATACAAAACTACAA
* *
6813708 AATTACAATATTCATAC-AAAAAATTGCAATATTCATACAAAACTATAA
1 AATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACTACAA
* *
6813756 TATTACAATATTCATACAAAAAAATTACAATATTTATACAAA
1 AATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
6813798 TTACTAATCC
Statistics
Matches: 165, Mismatches: 15, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
47 16 0.10
48 39 0.24
49 68 0.41
50 1 0.01
51 4 0.02
52 6 0.04
53 13 0.08
54 18 0.11
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.31
Consensus pattern (49 bp):
AATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACTACAA
Found at i:6813765 original size:124 final size:122
Alignment explanation
Indices: 6813559--6813927 Score: 348
Period size: 124 Copynumber: 3.0 Consensus size: 122
6813549 TTATAAAATA
* *** *
6813559 ATTACAATATTCATACAAAAAATTACAATATTACAATATATCCCGACATTACAATATTCATACAA
1 ATTACAATATTCATAC-AAAAATTACAAAATTACAATATATCAAAAAATTACAATATTCATACAA
* *
6813624 AATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTA-TAAT
65 AACTACAATATTACAATATTCATACAAAAAAATTACAATATTCATAC-AAATTACTAAT
*
6813682 ATTACAATATTCATAC-AAAATTACAAAATTACAATATTCATACAAAAAATTGCAATATTCATAC
1 ATTACAATATTCATACAAAAATTACAAAATTACAATA-T-AT-CAAAAAATTACAATATTCATAC
* *
6813746 AAAACTATAATATTACAATATTCATACAAAAAAATTACAATATTTATACAAATTACTAAT
63 AAAACTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAATTACTAAT
** * ** * *
6813806 -CCAAAACTATAAATACAAATTTAATTATAAAATAATTACAATAT-TCATACAACATTACAATAT
1 ATTACAA-TATTCATACAAA---AA-T-TACAA-AATTACAATATATCA-A-AAAATTACAATAT
* *
6813869 TCAT---AAA--A-AA-ATTACAATATTCATACAAAAAAGTTAGAATATTCATACAAAATT-CTA
57 TCATACAAAACTACAATATTACAATATTCATACAAAAAAATTACAATATTCATAC-AAATTACTA
6813926 AT
121 AT
6813928 CTAAACTATA
Statistics
Matches: 210, Mismatches: 21, Indels: 31
0.80 0.08 0.12
Matches are distributed among these distances:
121 19 0.09
122 41 0.20
123 34 0.16
124 74 0.35
125 2 0.01
126 3 0.01
127 2 0.01
128 4 0.02
129 16 0.08
130 5 0.02
131 10 0.05
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (122 bp):
ATTACAATATTCATACAAAAATTACAAAATTACAATATATCAAAAAATTACAATATTCATACAAA
ACTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAATTACTAAT
Found at i:6813909 original size:22 final size:21
Alignment explanation
Indices: 6813834--6813920 Score: 117
Period size: 20 Copynumber: 4.2 Consensus size: 21
6813824 ATTTAATTAT
6813834 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
*
6813856 --AACATTACAATATTCATA-
1 AAAAAATTACAATATTCATAC
6813874 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
*
6813895 AAAAAAGTTAGAATATTCATAC
1 AAAAAA-TTACAATATTCATAC
6813917 AAAA
1 AAAA
6813921 TTCTAATCTA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
19 15 0.26
20 19 0.33
21 6 0.10
22 18 0.31
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:6813910 original size:61 final size:59
Alignment explanation
Indices: 6813745--6813919 Score: 169
Period size: 61 Copynumber: 2.8 Consensus size: 59
6813735 AATATTCATA
* *
6813745 CAAAACTATAATATTACAATATTCATACAAAAAAATTACAATATTTATACAAATTACTAATC
1 CAAAAC-ATAA-ATTACAATATTCATAC-AAAAAATTACAATATTCATACAAATTACAAATC
* * *
6813807 CAAAACTATAAA-TACAA-ATTTAATTATAAAATAATTACAATATTCATACAACATTACAATATT
1 CAAAAC-ATAAATTACAATA-TTCA-TACAAAA-AATTACAATATTCATACAA-ATTACAA-ATC
*
6813870 CATAAA-A-AAATTACAATATTCATACAAAAAAGTTAGAATATTCATACAAA
1 CA-AAACATAAATTACAATATTCATACAAAAAA-TTACAATATTCATACAAA
6813920 ATTCTAATCT
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
59 1 0.01
60 15 0.16
61 46 0.48
62 26 0.27
63 5 0.05
64 3 0.03
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.31
Consensus pattern (59 bp):
CAAAACATAAATTACAATATTCATACAAAAAATTACAATATTCATACAAATTACAAATC
Found at i:6813949 original size:61 final size:61
Alignment explanation
Indices: 6813762--6813949 Score: 163
Period size: 61 Copynumber: 3.1 Consensus size: 61
6813752 ATAATATTAC
* * *
6813762 AATATTCATACAAAAAAATTACAATATTTATAC-AAATTACTAATCCAAAACTATAAATAC-A
1 AATATTCATAC-AAAAAATTACAATATTCATACAAAATTACTAAT-CTAAACTATAAAAACTA
* * * * ** * *
6813823 AAT-TTAATTATAAAATAATTACAATATTCATACAACATTAC-AATATTCA-TAAAAAAATTA
1 AATATTCA-TACAAAA-AATTACAATATTCATACAAAATTACTAATCTAAACTATAAAAACTA
* *
6813883 CAATATTCATACAAAAAAGTTAGAATATTCATACAAAATT-CTAATCTAAACTATAAACACTA
1 -AATATTCATACAAAAAA-TTACAATATTCATACAAAATTACTAATCTAAACTATAAAAACTA
6813945 AATAT
1 AATAT
6813950 AGATAATTTA
Statistics
Matches: 97, Mismatches: 21, Indels: 18
0.71 0.15 0.13
Matches are distributed among these distances:
59 6 0.06
60 12 0.12
61 62 0.64
62 17 0.18
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.31
Consensus pattern (61 bp):
AATATTCATACAAAAAATTACAATATTCATACAAAATTACTAATCTAAACTATAAAAACTA
Found at i:6814002 original size:12 final size:12
Alignment explanation
Indices: 6813985--6814010 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6813975 AAAAATTCAC
6813985 AATATCTTCTAA
1 AATATCTTCTAA
6813997 AATATCTTCTAA
1 AATATCTTCTAA
6814009 AA
1 AA
6814011 AATTCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:6814309 original size:27 final size:27
Alignment explanation
Indices: 6814234--6814298 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
6814224 AGAAGGTCAC
*
6814234 CATTGGCGCCTCTCTATGAGGCACCTT
1 CATTGGCGCCTCTCTATCAGGCACCTT
6814261 CATTGGCGCCTCTCTATCAGGCACCTT
1 CATTGGCGCCTCTCTATCAGGCACCTT
6814288 CATTGGCGCCT
1 CATTGGCGCCT
6814299 ACCTGATAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.14, C:0.35, G:0.22, T:0.29
Consensus pattern (27 bp):
CATTGGCGCCTCTCTATCAGGCACCTT
Found at i:6815815 original size:19 final size:19
Alignment explanation
Indices: 6815791--6815829 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6815781 TAGAACTTGA
6815791 CAGTTTTTCTCAATTTAGT
1 CAGTTTTTCTCAATTTAGT
*
6815810 CAGTTTTTCTTAATTTAGT
1 CAGTTTTTCTCAATTTAGT
6815829 C
1 C
6815830 CTTAAACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (19 bp):
CAGTTTTTCTCAATTTAGT
Found at i:6815927 original size:15 final size:16
Alignment explanation
Indices: 6815907--6815937 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6815897 AATTTTTTAT
6815907 AAAATTG-AAAAGAAA
1 AAAATTGTAAAAGAAA
6815922 AAAATTGTAAAAGAAA
1 AAAATTGTAAAAGAAA
6815938 TTTTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAATTGTAAAAGAAA
Found at i:6828654 original size:24 final size:24
Alignment explanation
Indices: 6828627--6828673 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
6828617 ATCGTCGTCA
*
6828627 TCATCATCAATACCATCATCACCG
1 TCATCACCAATACCATCATCACCG
* *
6828651 TCATCACCATTACCATCCTCACC
1 TCATCACCAATACCATCATCACC
6828674 ATCGACTGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.43, G:0.02, T:0.26
Consensus pattern (24 bp):
TCATCACCAATACCATCATCACCG
Found at i:6835450 original size:22 final size:24
Alignment explanation
Indices: 6835415--6835458 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
6835405 TAATAACCAT
*
6835415 CAAAAACCCTAATTCAA-AAAGGG
1 CAAAAACACTAATTCAATAAAGGG
6835438 CAAAAACAC-AATTCAATAAAG
1 CAAAAACACTAATTCAATAAAG
6835459 AACTTTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.57, C:0.20, G:0.09, T:0.14
Consensus pattern (24 bp):
CAAAAACACTAATTCAATAAAGGG
Found at i:6841234 original size:16 final size:16
Alignment explanation
Indices: 6841213--6841248 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
6841203 TTTGGTTCGC
6841213 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6841229 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6841245 TGTA
1 TGTA
6841249 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:6841313 original size:44 final size:45
Alignment explanation
Indices: 6841229--6841319 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
6841219 GGATTAGAGG
* * *
6841229 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAATCAACTGTTTGGTTGAA
* **
6841274 TGTAATGGAATAGAGGCGTAATAG-TAATCATGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAATCAACTGTTTGGTTGAA
6841318 TG
1 TG
6841320 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCAAATCAACTGTTTGGTTGAA
Found at i:6841506 original size:18 final size:17
Alignment explanation
Indices: 6841485--6841519 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6841475 TTATTATTAA
*
6841485 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6841503 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6841520 TTTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6841656 original size:156 final size:157
Alignment explanation
Indices: 6841372--6841687 Score: 553
Period size: 156 Copynumber: 2.0 Consensus size: 157
6841362 TAGAATACCC
* *
6841372 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAATTTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
6841437 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
*
6841502 TATATAATTTAATAAAATT-TTTATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
6841528 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
6841593 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
6841658 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
6841685 TTA
1 TTA
6841688 ATATTCTTTT
Statistics
Matches: 151, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
156 142 0.94
157 9 0.06
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:6841658 original size:16 final size:16
Alignment explanation
Indices: 6841621--6841662 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6841611 TTAATCATAT
*
6841621 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
6841637 TT-AAATATATTATAA
1 TTAAAATATATTATAA
6841652 TTAAAATATAT
1 TTAAAATATAT
6841663 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:6841669 original size:14 final size:15
Alignment explanation
Indices: 6841630--6841671 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6841620 TTTAAACATA
*
6841630 ATTATTATTAAATAT
1 ATTATAATTAAATAT
6841645 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
6841659 A-TATAATTTAATA
1 ATTATAATTAAATA
6841672 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:6841749 original size:156 final size:154
Alignment explanation
Indices: 6841422--6841737 Score: 364
Period size: 156 Copynumber: 2.0 Consensus size: 154
6841412 TATTTAATTT
* * *
6841422 TTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAAT
1 TTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAAT
* * * * **
6841487 ATATTTTAATTAAAATATATAATTTAATAAAATTTTTATAATTAGCAGAAATTTGTTTTGGTAAA
66 ATATTATAATTAAAATATATAATTTAATAAAATTTTAATAATTAACAGAAATTTGATTTACTAAA
* * * * ** *
6841552 TTATTATTGTTATTGTTATTTAAA
131 TCATAATTATGATACTTATTGAAA
6841576 TTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAA
1 --TTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAA
* ****
6841641 ATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTTTATGAATTT
64 ATATATTATAATTAAAATATATAATTTAATAAAATT-TTAATAATTAACA-GAAATT-TG-ATTT
6841706 ACTCAAATCATAATATATGATACTT-TTGAAA
125 ACT-AAATCATAAT-TATGATACTTATTGAAA
6841737 T
1 T
6841738 AATTAATATT
Statistics
Matches: 133, Mismatches: 21, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
156 95 0.71
157 10 0.08
158 2 0.02
159 3 0.02
160 4 0.03
161 13 0.10
162 6 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (154 bp):
TTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAAT
ATATTATAATTAAAATATATAATTTAATAAAATTTTAATAATTAACAGAAATTTGATTTACTAAA
TCATAATTATGATACTTATTGAAA
Found at i:6841777 original size:18 final size:17
Alignment explanation
Indices: 6841750--6841784 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6841740 TTAATATTAA
*
6841750 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6841768 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6841785 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6841797 original size:109 final size:109
Alignment explanation
Indices: 6841627--6841838 Score: 379
Period size: 109 Copynumber: 1.9 Consensus size: 109
6841617 ATATTTAAAC
*
6841627 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
* *
6841692 TCTTTTATGAATTTACTCAAATCATAATATATGATACTTTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTTTTGAA
*
6841736 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
*
6841801 TCTTATATGAATTTATTAAAATCATAATATATGATACT
66 TCTTATATGAATTTACTAAAATCATAATATATGATACT
6841839 ATAAAAGGTA
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
109 98 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (109 bp):
ATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTTTTGAA
Found at i:6841829 original size:37 final size:35
Alignment explanation
Indices: 6841658--6841829 Score: 95
Period size: 37 Copynumber: 4.7 Consensus size: 35
6841648 ATAATTAAAA
*
6841658 TATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
* * * *
6841695 TTTATGAATTTACTCAAATCATAAT-ATATGATACTTT
1 TATAT-AATTTAATAAAATCATAATAAT-TAATA-TTT
* * *
6841732 TGAAATAA-TTAATATTAAAT-ATATTTTAATTAA-A--A
1 T-ATATAATTTAATA--AAATCATA--ATAATTAATATTT
*
6841767 TATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
*
6841804 TATATGAATTTATTAAAATCATAATA
1 TATAT-AATTTAATAAAATCATAATA
6841830 TATGATACTA
Statistics
Matches: 100, Mismatches: 18, Indels: 34
0.66 0.12 0.22
Matches are distributed among these distances:
33 10 0.10
34 7 0.07
35 9 0.09
36 6 0.06
37 33 0.33
38 30 0.30
39 3 0.03
40 2 0.02
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (35 bp):
TATATAATTTAATAAAATCATAATAATTAATATTT
Found at i:6841875 original size:120 final size:120
Alignment explanation
Indices: 6841736--6841958 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
6841726 TACTTTTGAA
6841736 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
*
6841801 TCTTATATGAATTTATTAAAATCATAATATATGATACTATAAAAGGTAATTTAAC
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAGGTAATTTAAC
*
6841856 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
*
6841921 TCTTATATGAATTTACTCAAATCATAATATATGATACT
66 TCTTATATGAATTTACTAAAATCATAATATATGATACT
6841959 NNNNNNNNNN
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAGGTAATTTAAC
Found at i:6841891 original size:18 final size:17
Alignment explanation
Indices: 6841870--6841904 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6841860 TTATTATTAA
*
6841870 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6841888 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6841905 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6844754 original size:8 final size:9
Alignment explanation
Indices: 6844734--6844768 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
6844724 ATATTACAAC
6844734 AAAAATTTA
1 AAAAATTTA
6844743 AAAAATTTA
1 AAAAATTTA
6844752 AAAAATTT-
1 AAAAATTTA
6844760 AAAAATTTA
1 AAAAATTTA
6844769 GAAGAGTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAAATTTA
Found at i:6844757 original size:18 final size:17
Alignment explanation
Indices: 6844734--6844768 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
6844724 ATATTACAAC
6844734 AAAAATTTAAAAAATTTA
1 AAAAATTT-AAAAATTTA
6844752 AAAAATTTAAAAATTTA
1 AAAAATTTAAAAATTTA
6844769 GAAGAGTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAATTTAAAAATTTA
Found at i:6848870 original size:28 final size:27
Alignment explanation
Indices: 6848824--6848904 Score: 78
Period size: 28 Copynumber: 3.0 Consensus size: 27
6848814 TATAAATTAA
* *
6848824 TAAAACATTCA-AAATCTTATAAAAGATT
1 TAAAA-ATTCATAAAACTTATAAAA-ATG
*
6848852 TAAAAATTCATAAAACTTACAAATAATG
1 TAAAAATTCATAAAACTTATAAA-AATG
6848880 TAAAAATT-ATAAAA-TATATAAAAAT
1 TAAAAATTCATAAAACT-TATAAAAAT
6848905 AAAAAAAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
26 4 0.09
27 16 0.35
28 25 0.54
29 1 0.02
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (27 bp):
TAAAAATTCATAAAACTTATAAAAATG
Found at i:6848910 original size:17 final size:17
Alignment explanation
Indices: 6848880--6848940 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 17
6848870 ACAAATAATG
*
6848880 TAAAAATTATAAAATATA
1 TAAAAA-TAAAAAATATA
* *
6848898 TAAAAATAAAAAAAATTG
1 TAAAAATAAAAAATA-TA
*
6848916 TAAAAA-AATAAAATTTA
1 TAAAAATAA-AAAATATA
6848933 TAAAAATA
1 TAAAAATA
6848941 TCATTTAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 16 0.47
18 18 0.53
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (17 bp):
TAAAAATAAAAAATATA
Found at i:6850118 original size:31 final size:32
Alignment explanation
Indices: 6850078--6850137 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
6850068 TATAAATAAA
* *
6850078 TAATAATAAATATTATATAATTTAGTTAAACT
1 TAATAATAAATACTATATAATTTAATTAAACT
*
6850110 TAAT-ATAAATACTATCTAATTTAATTAA
1 TAATAATAAATACTATATAATTTAATTAA
6850138 TTATCTCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (32 bp):
TAATAATAAATACTATATAATTTAATTAAACT
Found at i:6869751 original size:4 final size:4
Alignment explanation
Indices: 6869742--6869772 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
6869732 AAGCAGCTAT
6869742 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
6869773 TTAAAGCTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:6877340 original size:16 final size:18
Alignment explanation
Indices: 6877321--6877359 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
6877311 GAAAATTAGT
6877321 TCAA-CTTTTAATTT-AA
1 TCAATCTTTTAATTTGAA
*
6877337 TCAATTTTTTAATTTGAA
1 TCAATCTTTTAATTTGAA
6877355 TCAAT
1 TCAAT
6877360 TAATATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 9 0.45
18 7 0.35
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (18 bp):
TCAATCTTTTAATTTGAA
Found at i:6877348 original size:17 final size:18
Alignment explanation
Indices: 6877326--6877360 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
6877316 TTAGTTCAAC
6877326 TTTTAATTT-AATCAATT
1 TTTTAATTTGAATCAATT
6877343 TTTTAATTTGAATCAATT
1 TTTTAATTTGAATCAATT
6877361 AATATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTTAATTTGAATCAATT
Found at i:6890622 original size:39 final size:39
Alignment explanation
Indices: 6890578--6890698 Score: 233
Period size: 39 Copynumber: 3.1 Consensus size: 39
6890568 ACCAATTAGC
6890578 ATATGCAACTAAAGTACCAACAATACTATATGAATCAAA
1 ATATGCAACTAAAGTACCAACAATACTATATGAATCAAA
6890617 ATATGCAACTAAAGTACCAACAATACTATATGAATCAAA
1 ATATGCAACTAAAGTACCAACAATACTATATGAATCAAA
*
6890656 ACATGCAACTAAAGTACCAACAATACTATATGAATCAAA
1 ATATGCAACTAAAGTACCAACAATACTATATGAATCAAA
6890695 ATAT
1 ATAT
6890699 ACATGTTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.23
Consensus pattern (39 bp):
ATATGCAACTAAAGTACCAACAATACTATATGAATCAAA
Found at i:6892634 original size:16 final size:15
Alignment explanation
Indices: 6892605--6892633 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6892595 GCATATAGTA
6892605 AAATATTTTAAAAAT
1 AAATATTTTAAAAAT
6892620 AAATATTTTAAAAA
1 AAATATTTTAAAAA
6892634 AAGAGACGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATATTTTAAAAAT
Found at i:6894923 original size:11 final size:11
Alignment explanation
Indices: 6894909--6894975 Score: 68
Period size: 11 Copynumber: 6.0 Consensus size: 11
6894899 ATTAAATATG
6894909 AATTTGAGAGA
1 AATTTGAGAGA
*
6894920 AATTTG-GAAGG
1 AATTTGAG-AGA
6894931 AATTTGAGAGTA
1 AATTTGAGAG-A
6894943 AA-TTGAGAGTA
1 AATTTGAGAG-A
6894954 AA-TTGAGAGGA
1 AATTTGAGA-GA
6894965 AATTTGAGAGA
1 AATTTGAGAGA
6894976 GGATTAGTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
10 1 0.02
11 38 0.78
12 10 0.20
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (11 bp):
AATTTGAGAGA
Found at i:6898845 original size:24 final size:24
Alignment explanation
Indices: 6898813--6898881 Score: 129
Period size: 24 Copynumber: 2.9 Consensus size: 24
6898803 GGGAATAACA
6898813 TATCCACGAGGACTAAAAGTATCG
1 TATCCACGAGGACTAAAAGTATCG
6898837 TATCCACGAGGACTAAAAGTATCG
1 TATCCACGAGGACTAAAAGTATCG
*
6898861 TATCCATGAGGACTAAAAGTA
1 TATCCACGAGGACTAAAAGTA
6898882 CTAGTAATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (24 bp):
TATCCACGAGGACTAAAAGTATCG
Found at i:6898953 original size:14 final size:14
Alignment explanation
Indices: 6898934--6898964 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6898924 GGAATTGTTT
*
6898934 TAATCTAAATTTAC
1 TAATCTAAATTAAC
6898948 TAATCTAAATTAAC
1 TAATCTAAATTAAC
6898962 TAA
1 TAA
6898965 GAACGCGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:6904897 original size:22 final size:21
Alignment explanation
Indices: 6904842--6904897 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 21
6904832 CTTTAAGAAT
6904842 TAAGTAAAT-ATATAGAATATAA
1 TAAGTAAATGA-ATA-AATATAA
6904864 TAA-TAAA-G--TAAATATAA
1 TAAGTAAATGAATAAATATAA
6904881 TAAGTAAATGAAATAAA
1 TAAGTAAATG-AATAAA
6904898 AAGAGAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
17 10 0.36
18 6 0.21
19 1 0.04
21 4 0.14
22 7 0.25
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (21 bp):
TAAGTAAATGAATAAATATAA
Found at i:6905878 original size:37 final size:38
Alignment explanation
Indices: 6905778--6905880 Score: 109
Period size: 37 Copynumber: 2.7 Consensus size: 38
6905768 GACTTTGAGT
* **
6905778 CGATGAGACACTAAGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTAGGTGTCAA-TT--TACTTCGGATTAAGC
* * *
6905819 CGATGAGGCACTAGGTGCCAATTTACTTC-GATTTAGC
1 CGATGAGACACTAGGTGTCAATTTACTTCGGATTAAGC
*
6905856 CGATGAGACACTGGGTGTCAATTTA
1 CGATGAGACACTAGGTGTCAATTTA
6905881 TTACTTTTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
37 27 0.51
38 6 0.11
40 2 0.04
41 18 0.34
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (38 bp):
CGATGAGACACTAGGTGTCAATTTACTTCGGATTAAGC
Found at i:6907689 original size:29 final size:29
Alignment explanation
Indices: 6907643--6907698 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
6907633 CATGTTTTTG
*
6907643 AAAATTTAAAGTTTTTTTTTACAATTTTCT
1 AAAATTTAAAGTATTTTTTT-CAATTTTCT
6907673 AAAATTTAAA-TATTTTTTTCAATTTT
1 AAAATTTAAAGTATTTTTTTCAATTTT
6907699 ATATATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 7 0.28
29 8 0.32
30 10 0.40
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (29 bp):
AAAATTTAAAGTATTTTTTTCAATTTTCT
Found at i:6907715 original size:19 final size:19
Alignment explanation
Indices: 6907669--6907722 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
6907659 TTTTACAATT
* *
6907669 TTCTAAAATTTAAATATTT
1 TTCTAAATTTTAAATATTA
* * *
6907688 TTTTCAATTTTATATATTA
1 TTCTAAATTTTAAATATTA
6907707 TTCTAAATTTTTAAAT
1 TTCTAAA-TTTTAAAT
6907723 TTTAAATATT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTCTAAATTTTAAATATTA
Found at i:6908026 original size:2 final size:2
Alignment explanation
Indices: 6908019--6908053 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6908009 TTAAAATGTC
6908019 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6908054 CTGGAGCGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6908978 original size:15 final size:16
Alignment explanation
Indices: 6908959--6908994 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
6908949 TCCTAGACAA
6908959 AATTTTCATCTAATGT
1 AATTTTCATCTAATGT
6908975 -A-TTTCATCTAATGT
1 AATTTTCATCTAATGT
6908989 AATTTT
1 AATTTT
6908995 AGTAATATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
14 13 0.72
15 2 0.11
16 3 0.17
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.53
Consensus pattern (16 bp):
AATTTTCATCTAATGT
Found at i:6909763 original size:90 final size:89
Alignment explanation
Indices: 6909609--6909855 Score: 257
Period size: 90 Copynumber: 2.7 Consensus size: 89
6909599 TTCAGTTTAA
* * * *
6909609 AAATTC-AGTGAATTCATCAAGCCCGTCTCACTAGGACCACCCAAAAC-CTAGGATATGAATTCA
1 AAATTCGA-TGAATTCATCAAGTCCGTCTTAATAGGA-CACCC-AAACTCTAGGATATGAACTCA
* *
6909672 TTAAGAGCATTTAGTGGCTCATCCTAT
63 TTAAGAGCATCTAGTAGCTCATCCTAT
* * * * *
6909699 AAATTTGAT-AGGTTCATCAAGTTCGTCTTAATAGGATCACCCAAACTCTGGGTTATGAACTCAT
1 AAATTCGATGA-ATTCATCAAGTCCGTCTTAATAGGA-CACCCAAACTCTAGGATATGAACTCAT
*
6909763 TAAGAGCATCTAGTAGTTCATCCTAT
64 TAAGAGCATCTAGTAGCTCATCCTAT
* * ** * *
6909789 ATATTCGATGAATTCATCAAGTCCATCTTAGCAGGACTACCCAAACTTTAGGCTATGAACTCATT
1 AAATTCGATGAATTCATCAAGTCCGTCTTAATAGGAC-ACCCAAACTCTAGGATATGAACTCATT
6909854 AA
65 AA
6909856 AACCAATGAG
Statistics
Matches: 129, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
89 6 0.05
90 121 0.94
91 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (89 bp):
AAATTCGATGAATTCATCAAGTCCGTCTTAATAGGACACCCAAACTCTAGGATATGAACTCATTA
AGAGCATCTAGTAGCTCATCCTAT
Found at i:6916519 original size:58 final size:58
Alignment explanation
Indices: 6916429--6916620 Score: 366
Period size: 58 Copynumber: 3.3 Consensus size: 58
6916419 AGCAAGTATG
6916429 TTTCTGATGAGCTTTATTCCAACTCTCCGATTCCTTCATACCTAATCCCCCTTCAGCC
1 TTTCTGATGAGCTTTATTCCAACTCTCCGATTCCTTCATACCTAATCCCCCTTCAGCC
6916487 TTTCTGATGAGCTTTATTCCAACTCTCCGATTCCTTCATACCTAATCCCCCTTCAGCC
1 TTTCTGATGAGCTTTATTCCAACTCTCCGATTCCTTCATACCTAATCCCCCTTCAGCC
6916545 TTTCTGATGAGCTTTATTCCAACTCTCCGATTCCTTCATACCTAATCCCCCTTCAGCC
1 TTTCTGATGAGCTTTATTCCAACTCTCCGATTCCTTCATACCTAATCCCCCTTCAGCC
* *
6916603 TTTCGGATGAGCTCTATT
1 TTTCTGATGAGCTTTATT
6916621 TCAGCAAGTA
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
58 132 1.00
ACGTcount: A:0.19, C:0.34, G:0.10, T:0.37
Consensus pattern (58 bp):
TTTCTGATGAGCTTTATTCCAACTCTCCGATTCCTTCATACCTAATCCCCCTTCAGCC
Found at i:6932841 original size:21 final size:21
Alignment explanation
Indices: 6932815--6932869 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
6932805 AACAGCGGTG
*
6932815 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
6932836 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
6932857 GCGGTGAGATTAG
1 GCGGTGAGATTAG
6932870 AAACAATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:6932985 original size:32 final size:32
Alignment explanation
Indices: 6932949--6933013 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
6932939 ATTAAGGACA
6932949 TCATATTAGAATTGATATATAATAGAAGTTAT
1 TCATATTAGAATTGATATATAATAGAAGTTAT
6932981 TCATATTAGAATTGATATATAATAGAAGTTAT
1 TCATATTAGAATTGATATATAATAGAAGTTAT
6933013 T
1 T
6933014 TAAATTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (32 bp):
TCATATTAGAATTGATATATAATAGAAGTTAT
Found at i:6932990 original size:16 final size:16
Alignment explanation
Indices: 6932955--6933007 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
6932945 GACATCATAT
6932955 TAGAATTGATATATAA
1 TAGAATTGATATATAA
*
6932971 TAGAAGTT-AT-TCATAT
1 TAGAA-TTGATAT-ATAA
6932987 TAGAATTGATATATAA
1 TAGAATTGATATATAA
6933003 TAGAA
1 TAGAA
6933008 GTTATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 3 0.10
16 25 0.81
17 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.38
Consensus pattern (16 bp):
TAGAATTGATATATAA
Found at i:6933214 original size:22 final size:22
Alignment explanation
Indices: 6933163--6933214 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
6933153 TTTTATAGTT
*
6933163 ATAATTAAATATTTTTTATAACA
1 ATAA-TAAATATTATTTATAACA
* *
6933186 ATGATAAATATTATTT-TCACAA
1 ATAATAAATATTATTTATAAC-A
6933208 ATAATAA
1 ATAATAA
6933215 CATTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATAAATATTATTTATAACA
Found at i:6933854 original size:30 final size:30
Alignment explanation
Indices: 6933813--6934116 Score: 551
Period size: 30 Copynumber: 10.2 Consensus size: 30
6933803 GAATAAACCG
*
6933813 AATACAGTACATATATTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
6933843 AATACACTACATATA-TTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
*
6933872 AATACAGTACATATA-TTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
*
6933901 AATACACTAAATATA-TTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
6933930 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
6933960 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
6933990 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
6934020 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
6934050 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
*
6934080 AATACATTACATATATTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
6934110 AATACAC
1 AATACAC
6934117 AAATACAATG
Statistics
Matches: 266, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
29 83 0.31
30 183 0.69
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.52
Consensus pattern (30 bp):
AATACACTACATATATTTTTTTATTTTTAA
Found at i:6934198 original size:7 final size:7
Alignment explanation
Indices: 6934186--6934264 Score: 58
Period size: 7 Copynumber: 11.1 Consensus size: 7
6934176 CGTGCCCTCC
6934186 TCCCATT
1 TCCCATT
6934193 TCCCA-T
1 TCCCATT
6934199 TCCCATT
1 TCCCATT
*
6934206 TCCCCTCT
1 TCCCAT-T
6934214 T-CCATCGAT
1 TCCCAT---T
* *
6934223 TCCCCTCC
1 TCCCAT-T
6934231 TCCCATT
1 TCCCATT
6934238 TCCCA-T
1 TCCCATT
6934244 TCCCATT
1 TCCCATT
6934251 TCCCA-T
1 TCCCATT
6934257 TCCCATT
1 TCCCATT
6934264 T
1 T
6934265 ACGGTTGCTT
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
6 18 0.32
7 27 0.47
8 7 0.12
9 2 0.04
10 3 0.05
ACGTcount: A:0.13, C:0.48, G:0.01, T:0.38
Consensus pattern (7 bp):
TCCCATT
Found at i:6934204 original size:13 final size:13
Alignment explanation
Indices: 6934186--6934264 Score: 77
Period size: 13 Copynumber: 5.6 Consensus size: 13
6934176 CGTGCCCTCC
6934186 TCCCATTTCCCAT
1 TCCCATTTCCCAT
*
6934199 TCCCATTTCCCCT
1 TCCCATTTCCCAT
* *
6934212 CTTCCATCGATTCCCCT
1 -TCCCAT---TTCCCAT
6934229 CCTCCCATTTCCCAT
1 --TCCCATTTCCCAT
6934244 TCCCATTTCCCAT
1 TCCCATTTCCCAT
6934257 TCCCATTT
1 TCCCATTT
6934265 ACGGTTGCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
13 33 0.58
14 5 0.09
15 6 0.11
17 7 0.12
18 6 0.11
ACGTcount: A:0.13, C:0.48, G:0.01, T:0.38
Consensus pattern (13 bp):
TCCCATTTCCCAT
Found at i:6934223 original size:60 final size:57
Alignment explanation
Indices: 6934129--6934264 Score: 166
Period size: 60 Copynumber: 2.3 Consensus size: 57
6934119 ATACAATGCA
* * *
6934129 ATTTCCCCATTCCCATCTTCCCTTTTCCATCGATTCCCCTCTTCCACCGTGCCC-TCCTCCC
1 ATTT-CCCATTCCCAT-TTCCCTCTTCCATCGATTCCCCTCCTCC-CAGTGCCCAT--TCCC
* *
6934190 ATTTCCCATTCCCATTTCCCCTCTTCCATCGATTCCCCTCCTCCCATTTCCCATTCCC
1 ATTTCCCATTCCCATTT-CCCTCTTCCATCGATTCCCCTCCTCCCAGTGCCCATTCCC
6934248 ATTTCCCATTCCCATTT
1 ATTTCCCATTCCCATTT
6934265 ACGGTTGCTT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
58 21 0.31
59 7 0.10
60 36 0.53
61 4 0.06
ACGTcount: A:0.12, C:0.49, G:0.03, T:0.37
Consensus pattern (57 bp):
ATTTCCCATTCCCATTTCCCTCTTCCATCGATTCCCCTCCTCCCAGTGCCCATTCCC
Found at i:6934237 original size:45 final size:43
Alignment explanation
Indices: 6934162--6934254 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 43
6934152 TTTCCATCGA
*
6934162 TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCAT
1 TTCCCCTCTTCCACCGTCCCCTCCTCCCATTTCCCATTCCCAT
*
6934205 TTCCCCTCTTCCATCGATTCCCCTCCTCCCATTTCCCATTCCCAT
1 TTCCCCTCTTCCACCG--TCCCCTCCTCCCATTTCCCATTCCCAT
6934250 TTCCC
1 TTCCC
6934255 ATTCCCATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 15 0.33
45 31 0.67
ACGTcount: A:0.10, C:0.53, G:0.03, T:0.34
Consensus pattern (43 bp):
TTCCCCTCTTCCACCGTCCCCTCCTCCCATTTCCCATTCCCAT
Found at i:6936217 original size:29 final size:31
Alignment explanation
Indices: 6936164--6936234 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 31
6936154 ATTTTAAATT
6936164 AATAATAGTAAAATTGTACTTTAA-CCTCTTAAA
1 AATAATA--AAAATTGTACTTTAACCCTC-TAAA
6936197 AATAATAAAAATT-TA-TTTAACCCTCTAAA
1 AATAATAAAAATTGTACTTTAACCCTCTAAA
*
6936226 AATTATAAA
1 AATAATAAA
6936235 GATATAAGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 17 0.47
30 6 0.17
31 6 0.17
33 7 0.19
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (31 bp):
AATAATAAAAATTGTACTTTAACCCTCTAAA
Found at i:6937646 original size:15 final size:14
Alignment explanation
Indices: 6937626--6937653 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6937616 ATCTCCCCCA
6937626 TTTTTTTAGTTTTC
1 TTTTTTTAGTTTTC
6937640 TTTTTTTAGTTTTC
1 TTTTTTTAGTTTTC
6937654 AACACTAATT
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:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTTTTAGTTTTC
Found at i:6940273 original size:25 final size:25
Alignment explanation
Indices: 6940245--6940296 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
6940235 ATCCCTCATA
6940245 TTAACTAAAATATATGAAATCAATT
1 TTAACTAAAATATATGAAATCAATT
* *
6940270 TTAACTAAAATATATGGAATTAATT
1 TTAACTAAAATATATGAAATCAATT
6940295 TT
1 TT
6940297 TTTTTATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (25 bp):
TTAACTAAAATATATGAAATCAATT
Found at i:6940848 original size:26 final size:26
Alignment explanation
Indices: 6940813--6940879 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 26
6940803 ATGTATAATT
6940813 AAAA-GTATTATCAAATTTACCTT-AA
1 AAAATGTATTATCAAATTT-CCTTAAA
* *
6940838 AAAATGTATTACCAAAACTTCCTTAAA
1 AAAATGTATTATC-AAATTTCCTTAAA
6940865 AAAATG--TTATCAAAT
1 AAAATGTATTATCAAAT
6940880 CTAATTTTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
24 3 0.09
25 8 0.23
26 11 0.31
27 13 0.37
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAATGTATTATCAAATTTCCTTAAA
Found at i:6940907 original size:21 final size:21
Alignment explanation
Indices: 6940872--6940916 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
6940862 AAAAAAATGT
6940872 TATCAAATCTAATTTTAGTAATA
1 TATCAAA-CTAATTTTA-TAATA
6940895 TATCAAA-TAATTTTATAATA
1 TATCAAACTAATTTTATAATA
6940915 TA
1 TA
6940917 AAATTAGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 8 0.36
23 7 0.32
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (21 bp):
TATCAAACTAATTTTATAATA
Found at i:6945765 original size:6 final size:6
Alignment explanation
Indices: 6945754--6945780 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6945744 GCTAAGTTTG
6945754 TTTCCT TTTCCT TTTCCT TTTCCT TTT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTT
6945781 GCTTCTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTCCT
Found at i:6953750 original size:11 final size:11
Alignment explanation
Indices: 6953734--6953776 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
6953724 GTCATTTCAC
6953734 TATTATATTGT
1 TATTATATTGT
6953745 TATTATATTGT
1 TATTATATTGT
* *
6953756 TGTTATTATTGGA
1 TATTA-TATT-GT
6953769 TATTATAT
1 TATTATAT
6953777 AACTATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 15 0.56
12 7 0.26
13 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (11 bp):
TATTATATTGT
Found at i:6961962 original size:24 final size:24
Alignment explanation
Indices: 6961924--6962004 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
6961914 CAACTAAGAA
*
6961924 AGAGGAGCAGGTTCCAACCAAGGT
1 AGAGGAGCAGTTTCCAACCAAGGT
* * *
6961948 AGCA-GAGGA-TCTTCCTACCAAAGT
1 AG-AGGAGCAGT-TTCCAACCAAGGT
6961972 AGAGGAGCAGTTTCCAACCAAGGT
1 AGAGGAGCAGTTTCCAACCAAGGT
*
6961996 AGATGAGCA
1 AGAGGAGCA
6962005 TCCTCAGCAT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
23 1 0.02
24 42 0.93
25 2 0.04
ACGTcount: A:0.35, C:0.21, G:0.28, T:0.16
Consensus pattern (24 bp):
AGAGGAGCAGTTTCCAACCAAGGT
Found at i:6975056 original size:17 final size:19
Alignment explanation
Indices: 6975029--6975066 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
6975019 TCACATAAGC
6975029 AATTAATTAAAAAT-TTAA
1 AATTAATTAAAAATATTAA
6975047 AATT-ATTAAAAATATTAA
1 AATTAATTAAAAATATTAA
6975065 AA
1 AA
6975067 ATAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTAATTAAAAATATTAA
Found at i:6975067 original size:10 final size:9
Alignment explanation
Indices: 6975034--6975069 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
6975024 TAAGCAATTA
6975034 ATTAAAAAT
1 ATTAAAAAT
*
6975043 -TTAAAATT
1 ATTAAAAAT
6975051 ATTAAAAAT
1 ATTAAAAAT
6975060 ATTAAAAAT
1 ATTAAAAAT
6975069 A
1 A
6975070 AAAAAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:6976178 original size:14 final size:13
Alignment explanation
Indices: 6976152--6976212 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
6976142 TATGCAGGAA
6976152 AAAAAAAGAAGAG
1 AAAAAAAGAAGAG
*
6976165 AAAAGAAGATAGAG
1 AAAAAAAGA-AGAG
* * *
6976179 CAATAAATAA-AG
1 AAAAAAAGAAGAG
6976191 AAAAATAAGAGAGAG
1 AAAAA-AAGA-AGAG
6976206 AAAAAAA
1 AAAAAAA
6976213 TTAAAAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
12 5 0.14
13 12 0.33
14 12 0.33
15 7 0.19
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.07
Consensus pattern (13 bp):
AAAAAAAGAAGAG
Found at i:6976213 original size:27 final size:29
Alignment explanation
Indices: 6976149--6976213 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
6976139 TTCTATGCAG
* *
6976149 GAAAAAAAAAGAAGAGAAAAGAAGATAGA
1 GAAAAAAATAGAAGAGAAAAGAAGAGAGA
* * *
6976178 GCAATAAATA-AAGA-AAAATAAGAGAGA
1 GAAAAAAATAGAAGAGAAAAGAAGAGAGA
6976205 GAAAAAAAT
1 GAAAAAAAT
6976214 TAAAAACATA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
27 18 0.62
28 4 0.14
29 7 0.24
ACGTcount: A:0.71, C:0.02, G:0.20, T:0.08
Consensus pattern (29 bp):
GAAAAAAATAGAAGAGAAAAGAAGAGAGA
Found at i:6978088 original size:26 final size:26
Alignment explanation
Indices: 6978058--6978107 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
6978048 TTAATATTGC
6978058 TTTTGAGAAATACTTTTAAAAAGTGA
1 TTTTGAGAAATACTTTTAAAAAGTGA
*
6978084 TTTTGAGAAATATTTTTAAAAAGT
1 TTTTGAGAAATACTTTTAAAAAGT
6978108 TTAGTTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (26 bp):
TTTTGAGAAATACTTTTAAAAAGTGA
Done.