Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 244 of 253
Found at i:78629460 original size:15 final size:14
Alignment explanation
Indices: 78629435--78629473 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
78629425 AAATCACAAA
78629435 TTTAGTTTTTAATAT
1 TTTA-TTTTTAATAT
*
78629450 TTATATTTTTATTAT
1 TT-TATTTTTAATAT
78629465 TTTATTTTT
1 TTTATTTTT
78629474 TTAGTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 13 0.59
16 2 0.09
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTATTTTTAATAT
Found at i:78629476 original size:16 final size:15
Alignment explanation
Indices: 78629440--78629473 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
78629430 ACAAATTTAG
78629440 TTTTTAATATTTATA
1 TTTTTAATATTTATA
*
78629455 TTTTTATTATTT-TA
1 TTTTTAATATTTATA
78629469 TTTTT
1 TTTTT
78629474 TTAGTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTAATATTTATA
Found at i:78629842 original size:21 final size:20
Alignment explanation
Indices: 78629817--78629865 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
78629807 TTTTAAAATC
*
78629817 AAATTTAATTAAAAAAATATT
1 AAATTTAATAAAAAAAATA-T
*
78629838 AAA-TTGATAAAAAAAATAT
1 AAATTTAATAAAAAAAATAT
78629857 AAATATTAA
1 AAAT-TTAA
78629866 AAACCAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.17
20 13 0.57
21 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATTTAATAAAAAAAATAT
Found at i:78630989 original size:47 final size:47
Alignment explanation
Indices: 78630937--78631026 Score: 135
Period size: 47 Copynumber: 1.9 Consensus size: 47
78630927 TGAACTCTAT
* * *
78630937 ATATAATTTTCGTGATCCTAATACAGTTCTAACTAAGATATATATAA
1 ATATAAATTTCGTAATCCTAATACAATTCTAACTAAGATATATATAA
* *
78630984 ATATAAATTTCGTAATCCTAATTCAATTCTAACTAATATATAT
1 ATATAAATTTCGTAATCCTAATACAATTCTAACTAAGATATAT
78631027 TTATAAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (47 bp):
ATATAAATTTCGTAATCCTAATACAATTCTAACTAAGATATATATAA
Found at i:78631054 original size:50 final size:47
Alignment explanation
Indices: 78630937--78631056 Score: 125
Period size: 47 Copynumber: 2.5 Consensus size: 47
78630927 TGAACTCTAT
* * * * *
78630937 ATATAATTTTCGTGATCCTAATACAGTTCTAACTAAGATATATATAA
1 ATATAAATTTCATAATCCTAATTCAATTCTAACTAAGATATATATAA
* *
78630984 ATATAAATTTCGTAATCCTAATTCAATTCTAACTAATATATATTTATAA
1 ATATAAATTTCATAATCCTAATTCAATTCTAACTAAGATATA--TATAA
*
78631033 A-ATATAGTTTGCATAATCCTAATT
1 ATATA-AATTT-CATAATCCTAATT
78631057 AAGTTCTGAG
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
47 37 0.60
48 3 0.05
49 10 0.16
50 12 0.19
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (47 bp):
ATATAAATTTCATAATCCTAATTCAATTCTAACTAAGATATATATAA
Found at i:78631139 original size:3 final size:3
Alignment explanation
Indices: 78631131--78631160 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
78631121 TATGCTTTAT
78631131 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
78631161 TAAAAGGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:78634256 original size:30 final size:30
Alignment explanation
Indices: 78634222--78634281 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
78634212 TCGCCGAAAG
78634222 AAGGGAAATCGGAGAGTAATTAAAGGCATC
1 AAGGGAAATCGGAGAGTAATTAAAGGCATC
78634252 AAGGGAAATCGGAGAGTAATTAAAGGCATC
1 AAGGGAAATCGGAGAGTAATTAAAGGCATC
78634282 CTCAATTGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.30, T:0.17
Consensus pattern (30 bp):
AAGGGAAATCGGAGAGTAATTAAAGGCATC
Found at i:78635542 original size:47 final size:49
Alignment explanation
Indices: 78635486--78635605 Score: 156
Period size: 47 Copynumber: 2.5 Consensus size: 49
78635476 TGAACTCTAT
* * *
78635486 ATATAATTTTCGTGATCTTAATTCAATTCTAGCTAGA-ATATA-CAT-AA
1 ATATAATTTTCCTAATCCTAATTCAATTCTAGCTA-ATATATATCATAAA
*
78635533 ATATAATTTTCCTAATCCTAATTCAATTCTAGCTAATATATATTTATAAA
1 ATATAATTTTCCTAATCCTAATTCAATTCTAGCTAATATATA-TCATAAA
*
78635583 ATATAATTTTCATAATCCTAATT
1 ATATAATTTTCCTAATCCTAATT
78635606 AAGTTCTGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
46 1 0.02
47 37 0.58
49 2 0.03
50 24 0.38
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (49 bp):
ATATAATTTTCCTAATCCTAATTCAATTCTAGCTAATATATATCATAAA
Found at i:78639157 original size:3 final size:3
Alignment explanation
Indices: 78639149--78639191 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
78639139 TGTAAAATTG
*
78639149 ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
78639192 AACATTAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:78640993 original size:61 final size:59
Alignment explanation
Indices: 78640873--78640996 Score: 144
Period size: 61 Copynumber: 2.1 Consensus size: 59
78640863 CAGATAATAG
* ***
78640873 CAGGGCCTAACTTGGACAAAAAGAAGTTCATGCCCCAATGTGGAAAAAATTGGGGAGTT
1 CAGGGCCTAACTTGGACAAAAAGAAGTTCAAGCCCCAATGTGGAAAAAATTGCCAAGTT
* *
78640932 CAGGGCCTAACTTGGGACAAAAA-ATTAGTTTAAGCCCCAATGT-GAAAATAGTTGCCAAGTT
1 CAGGGCCTAACTT-GGACAAAAAGA--AGTTCAAGCCCCAATGTGGAAAA-AATTGCCAAGTT
78640993 CAGG
1 CAGG
78640997 CCCCAAAAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
59 14 0.25
60 14 0.25
61 27 0.49
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (59 bp):
CAGGGCCTAACTTGGACAAAAAGAAGTTCAAGCCCCAATGTGGAAAAAATTGCCAAGTT
Found at i:78644078 original size:22 final size:21
Alignment explanation
Indices: 78644033--78644081 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
78644023 TGTTCGGTTG
78644033 TTTTCTTCTTGTTTTACACTA
1 TTTTCTTCTTGTTTTACACTA
*
78644054 TTTTCTTGTTGTTTT-CTTACTA
1 TTTTCTTCTTGTTTTAC--ACTA
78644076 TTTTCT
1 TTTTCT
78644082 CACTGGTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.56
22 10 0.40
ACGTcount: A:0.10, C:0.16, G:0.06, T:0.67
Consensus pattern (21 bp):
TTTTCTTCTTGTTTTACACTA
Found at i:78646434 original size:19 final size:21
Alignment explanation
Indices: 78646396--78646435 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
78646386 TTACAGTATT
78646396 TTAGATCAATATGATAAAAATA
1 TTAGATCAATAT-ATAAAAATA
78646418 TTAGATCAAT-T-TAAAAAT
1 TTAGATCAATATATAAAAAT
78646436 TTACATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (21 bp):
TTAGATCAATATATAAAAATA
Found at i:78648475 original size:25 final size:23
Alignment explanation
Indices: 78648446--78648528 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 23
78648436 TAAAACCTCT
78648446 TTTTATTTACAAATAGCTAATTATG
1 TTTTA-TTACAAATAG-TAATTATG
* * * * *
78648471 TTTTATTACTAGTA-AAACCTCT-
1 TTTTATTACAAATAGTAA-TTATG
78648493 TTTTATTTACAAATAGATAATTATG
1 TTTTA-TTACAAATAG-TAATTATG
78648518 TTTTATTACAA
1 TTTTATTACAA
78648529 GTAAAACCTA
Statistics
Matches: 43, Mismatches: 10, Indels: 11
0.67 0.16 0.17
Matches are distributed among these distances:
22 7 0.16
23 9 0.21
24 15 0.35
25 12 0.28
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (23 bp):
TTTTATTACAAATAGTAATTATG
Found at i:78648487 original size:47 final size:47
Alignment explanation
Indices: 78648433--78648537 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
78648423 TGTGATTTAG
*
78648433 AAGTAAAACCTCTTTTTATTTACAAATAGCTAATTATGTTTTATTAC
1 AAGTAAAACCTCTTTTTATTTACAAATAGATAATTATGTTTTATTAC
*
78648480 TAGTAAAACCTCTTTTTATTTACAAATAGATAATTATGTTTTATTAC
1 AAGTAAAACCTCTTTTTATTTACAAATAGATAATTATGTTTTATTAC
78648527 AAGTAAAACCT
1 AAGTAAAACCT
78648538 AATTAACATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (47 bp):
AAGTAAAACCTCTTTTTATTTACAAATAGATAATTATGTTTTATTAC
Found at i:78653788 original size:12 final size:12
Alignment explanation
Indices: 78653664--78653809 Score: 53
Period size: 12 Copynumber: 11.5 Consensus size: 12
78653654 ATATTGATGA
* *
78653664 TAATAAAAATAA
1 TAATAATAATAG
*
78653676 TAATAATAAGAG
1 TAATAATAATAG
* * *
78653688 TATTAATATTTG
1 TAATAATAATAG
*
78653700 TATTAATAATAGTG
1 TAATAATAATA--G
78653714 ATAATAATAATAG
1 -TAATAATAATAG
*
78653727 AAAATAATAA-AG
1 -TAATAATAATAG
* * *
78653739 GAATGATATTAG
1 TAATAATAATAG
* *
78653751 TAATAGTAATAAA
1 TAATAATAAT-AG
*
78653764 AAATGAAAATAATAG
1 TAAT---AATAATAG
*
78653779 TAATAATAATGG
1 TAATAATAATAG
78653791 TAAATACA-AATAG
1 T-AATA-ATAATAG
78653804 TAATAA
1 TAATAA
78653810 CAAAATACAA
Statistics
Matches: 99, Mismatches: 25, Indels: 21
0.68 0.17 0.14
Matches are distributed among these distances:
11 7 0.07
12 48 0.48
13 23 0.23
14 2 0.02
15 14 0.14
16 5 0.05
ACGTcount: A:0.58, C:0.01, G:0.11, T:0.31
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:78654021 original size:23 final size:23
Alignment explanation
Indices: 78653995--78654043 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
78653985 ACAAAAGAGG
*
78653995 AAAATATAATAACAATAATAGTA
1 AAAATACAATAACAATAATAGTA
**
78654018 AAAATACAATAGTAATAATAGTA
1 AAAATACAATAACAATAATAGTA
78654041 AAA
1 AAA
78654044 GGTGTAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.24
Consensus pattern (23 bp):
AAAATACAATAACAATAATAGTA
Found at i:78654121 original size:22 final size:24
Alignment explanation
Indices: 78654055--78654124 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 24
78654045 GTGTAACAAT
*
78654055 ATAATAATATGATGGTAATAAAATACA
1 ATAATAATAT-ATGATAAT--AATACA
*
78654082 ATAATAATATATTA-AATAATA-A
1 ATAATAATATATGATAATAATACA
78654104 ATAATAATA-ATGATAATAATA
1 ATAATAATATATGATAATAATA
78654125 TAGAAATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 3 0.08
22 17 0.44
23 4 0.10
25 3 0.08
26 2 0.05
27 10 0.26
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (24 bp):
ATAATAATATATGATAATAATACA
Found at i:78654295 original size:37 final size:36
Alignment explanation
Indices: 78654228--78654310 Score: 89
Period size: 35 Copynumber: 2.3 Consensus size: 36
78654218 TAATATGTAC
* * * *
78654228 ATAATATATCTATATATATGTATGTATTAGAA-AAT
1 ATAATATATATATATACATGCATGTATTAGAAGAAG
*
78654263 ATAATATATATATATGCATGCATTGTATTTAGAAGAAG
1 ATAATATATATATATACATGCA-TGTA-TTAGAAGAAG
78654301 A-AATATATAT
1 ATAATATATAT
78654311 GATGTAGTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 18 0.45
36 4 0.10
37 15 0.38
38 3 0.08
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.40
Consensus pattern (36 bp):
ATAATATATATATATACATGCATGTATTAGAAGAAG
Found at i:78660919 original size:72 final size:72
Alignment explanation
Indices: 78660820--78661038 Score: 348
Period size: 72 Copynumber: 3.0 Consensus size: 72
78660810 GAAGGGTTTC
* *
78660820 GGTTTGTAAATAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGATGAGGCTTATA
1 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGATGAGGCTTATA
78660885 AACCGGT
66 AACCGGT
*
78660892 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGAGGAGGCTTATA
1 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGATGAGGCTTATA
78660957 AACCGGT
66 AACCGGT
* * * * * * *
78660964 GGTTTGTAGACAGGAACCGGTGGAGGGAGTGGTTTCTTGTAGACCGGCACCGGATGAGGCTTATA
1 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGATGAGGCTTATA
78661029 AACCGGT
66 AACCGGT
78661036 GGT
1 GGT
78661039 GGAAGAGGTT
Statistics
Matches: 136, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 136 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (72 bp):
GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGATGAGGCTTATA
AACCGGT
Found at i:78666228 original size:27 final size:28
Alignment explanation
Indices: 78666187--78666243 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
78666177 TATTTATTTC
* *
78666187 TTTATAGTATAATAACTAGAACTAATTA
1 TTTATAGTATAATAAATACAACTAATTA
* *
78666215 TTTATA-TTTAATAAATACAATTAATTA
1 TTTATAGTATAATAAATACAACTAATTA
78666242 TT
1 TT
78666244 CCATTTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (28 bp):
TTTATAGTATAATAAATACAACTAATTA
Found at i:78674202 original size:23 final size:23
Alignment explanation
Indices: 78674170--78674224 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
78674160 TATATACTAA
*
78674170 ATTTTTAATCACATTTACATTTT
1 ATTTTCAATCACATTTACATTTT
78674193 ATTTTCAATCACATTTACATTTT
1 ATTTTCAATCACATTTACATTTT
78674216 ATTTTCAAT
1 ATTTTCAAT
78674225 TTTAATATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTCAATCACATTTACATTTT
Found at i:78674321 original size:9 final size:9
Alignment explanation
Indices: 78674309--78674366 Score: 50
Period size: 10 Copynumber: 6.6 Consensus size: 9
78674299 TTGTTTTTTG
78674309 TTTTAATATT
1 TTTTAATA-T
78674319 TTTTAATAT
1 TTTTAATAT
78674328 TTTTAAATAT
1 TTTT-AATAT
*
78674338 ATTTAAT-T
1 TTTTAATAT
*
78674346 TATT-ATA-
1 TTTTAATAT
*
78674353 TTTTAATTT
1 TTTTAATAT
78674362 TTTTA
1 TTTTA
78674367 TTTAATGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
7 5 0.13
8 5 0.13
9 13 0.33
10 16 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTAATAT
Found at i:78674615 original size:19 final size:19
Alignment explanation
Indices: 78674591--78674628 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
78674581 CAATGCGTTT
78674591 CAACAGTCTCGAAGCCACA
1 CAACAGTCTCGAAGCCACA
78674610 CAACAGTCTCGAAGCCACA
1 CAACAGTCTCGAAGCCACA
78674629 TACTCTTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.37, G:0.16, T:0.11
Consensus pattern (19 bp):
CAACAGTCTCGAAGCCACA
Found at i:78678013 original size:31 final size:31
Alignment explanation
Indices: 78677975--78678033 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
78677965 CTTAGGGTTC
** *
78677975 AATAGTTCAATGACTTCAATAAAAACTTCTG
1 AATAGTTCAACAACTTAAATAAAAACTTCTG
*
78678006 AATAGTTCAACAACTTAAATGAAAACTT
1 AATAGTTCAACAACTTAAATAAAAACTT
78678034 ACAAATAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (31 bp):
AATAGTTCAACAACTTAAATAAAAACTTCTG
Found at i:78678041 original size:31 final size:31
Alignment explanation
Indices: 78677975--78678043 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
78677965 CTTAGGGTTC
** * *
78677975 AATAGTTCAATGACTTCAATAAAAACTTCTG
1 AATAGTTCAACAACTTAAATAAAAACTTCTA
*
78678006 AATAGTTCAACAACTTAAATGAAAACTTAC-A
1 AATAGTTCAACAACTTAAATAAAAACTT-CTA
78678037 AATAGTT
1 AATAGTT
78678044 TAGTGACCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.30
Consensus pattern (31 bp):
AATAGTTCAACAACTTAAATAAAAACTTCTA
Found at i:78678725 original size:105 final size:102
Alignment explanation
Indices: 78678595--78678843 Score: 306
Period size: 101 Copynumber: 2.4 Consensus size: 102
78678585 ATTTTTTTTT
*
78678595 AAATCTCGTACCTGGTGCCAGCCATTGACAGGCCAGCACCAAATTTTTTTTTTAAATACTCATGC
1 AAATCTCGTACCTAGTGCCAGCCATTGACAGGCCAGCACCAAA--TTTTTTTTAAATACTCATGC
78678660 TGGTGCC-AGCCATTAGAAGGCCAAAACAAAAAAAAAATTA
64 TGGTGCCGA-CCATTAGAAGGCCAAAA-AAAAAAAAAATTA
* * * ** *
78678700 AAATCTCGTACCTAATGCC-GACCATTGATAGGTCAGCACC-AATTTTTTTTAAATACTTGTGTT
1 AAATCTCGTACCTAGTGCCAG-CCATTGACAGGCCAGCACCAAATTTTTTTTAAATACTCATGCT
* * *
78678763 GGTGTCGACCATTAGAAGGTCAAAATAAAAAAAAATTA
65 GGTGCCGACCATTAGAAGGCCAAAAAAAAAAAAAATTA
* * * *
78678801 AAATCTCATGCTTTGTGCCAGCCATTGACAGGCCAGCACCAAA
1 AAATCTCGTACCTAGTGCCAGCCATTGACAGGCCAGCACCAAA
78678844 AGAATTTGAT
Statistics
Matches: 123, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
101 43 0.35
102 42 0.34
103 1 0.01
104 3 0.02
105 34 0.28
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (102 bp):
AAATCTCGTACCTAGTGCCAGCCATTGACAGGCCAGCACCAAATTTTTTTTAAATACTCATGCTG
GTGCCGACCATTAGAAGGCCAAAAAAAAAAAAAATTA
Found at i:78682608 original size:34 final size:34
Alignment explanation
Indices: 78682565--78682637 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
78682555 CTAATACAAG
78682565 GATCTCTATGATACTTTTACTGTTCCCTTGCTAT
1 GATCTCTATGATACTTTTACTGTTCCCTTGCTAT
78682599 GATCTCTATGATACTTTTACTGTTCCCTTGCTAT
1 GATCTCTATGATACTTTTACTGTTCCCTTGCTAT
78682633 GATCT
1 GATCT
78682638 TAGTACAGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.18, C:0.23, G:0.12, T:0.47
Consensus pattern (34 bp):
GATCTCTATGATACTTTTACTGTTCCCTTGCTAT
Found at i:78684757 original size:28 final size:28
Alignment explanation
Indices: 78684722--78684776 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
78684712 TTTAAAAAAT
78684722 TAAGATTAA-AGAATTAATTAAAATTTTA
1 TAAGATTAAGAGAATT-ATTAAAATTTTA
*
78684750 TAAGATTAATGAGAATTTTTAAAATTT
1 TAAGATTAA-GAGAATTATTAAAATTT
78684777 GAGAGGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 9 0.38
29 9 0.38
30 6 0.25
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (28 bp):
TAAGATTAAGAGAATTATTAAAATTTTA
Found at i:78685296 original size:17 final size:16
Alignment explanation
Indices: 78685265--78685302 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
78685255 AGGTTTGAGA
*
78685265 TAAAATAATAAAATAT
1 TAAAATAAAAAAATAT
78685281 TAAAATGAAAAAAATAT
1 TAAAAT-AAAAAAATAT
78685298 TAAAA
1 TAAAA
78685303 GATTGGAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
TAAAATAAAAAAATAT
Found at i:78687171 original size:12 final size:12
Alignment explanation
Indices: 78687154--78687178 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78687144 CTCATAGGGT
78687154 CCTTTTTAAATC
1 CCTTTTTAAATC
78687166 CCTTTTTAAATC
1 CCTTTTTAAATC
78687178 C
1 C
78687179 AACTTGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (12 bp):
CCTTTTTAAATC
Found at i:78688761 original size:13 final size:13
Alignment explanation
Indices: 78688743--78688768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78688733 TTAAGTTTAA
78688743 ATTAATTTAAAAT
1 ATTAATTTAAAAT
78688756 ATTAATTTAAAAT
1 ATTAATTTAAAAT
78688769 TTTACTTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTAATTTAAAAT
Found at i:78693383 original size:31 final size:31
Alignment explanation
Indices: 78693347--78693409 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
78693337 ATTTGGTTAT
* * *
78693347 TGAACTATTTAAAAGTTTTTATTTAAGTCAC
1 TGAACTATTCAAAAGTTCTTATTCAAGTCAC
78693378 TGAACTATTCAAAAGTTCTTATTCAAGTCAC
1 TGAACTATTCAAAAGTTCTTATTCAAGTCAC
78693409 T
1 T
78693410 TTACTGTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (31 bp):
TGAACTATTCAAAAGTTCTTATTCAAGTCAC
Found at i:78697475 original size:28 final size:28
Alignment explanation
Indices: 78697435--78697493 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
78697425 GGCATGCCGC
* *
78697435 ATGTAATTGTTTGGTTATTCTGTCAGCA
1 ATGTAATTGTTTGGTAATTCAGTCAGCA
78697463 ATGTAATTGTTTGGTAATTCAGTCAGCA
1 ATGTAATTGTTTGGTAATTCAGTCAGCA
78697491 ATG
1 ATG
78697494 CCAATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.42
Consensus pattern (28 bp):
ATGTAATTGTTTGGTAATTCAGTCAGCA
Found at i:78701189 original size:115 final size:115
Alignment explanation
Indices: 78700987--78701214 Score: 393
Period size: 115 Copynumber: 2.0 Consensus size: 115
78700977 ATGTGATACC
* * *
78700987 ATGGAAATTGATCTTGGTGGTGATGGAAAAGAGGAGAGGAAACTATGATTTGATGGTCCAGGGCC
1 ATGGAAATTGATCATGGTGGTGATGGAAAAGAGGAGAAGAAACAATGATTTGATGGTCCAGGGCC
** *
78701052 CGATCATGGGGACAGTGTCTACTCATGCTTCCTTGTGTTAGCCTTAATTG
66 CGATCATACGGACAGTGTCTACTCATGCTGCCTTGTGTTAGCCTTAATTG
*
78701102 ATGGAAGTTGATCATGGTGGTGATGGAAAAGAGGAGAAGAAACAATGATTTGATGGTCCAGGGCC
1 ATGGAAATTGATCATGGTGGTGATGGAAAAGAGGAGAAGAAACAATGATTTGATGGTCCAGGGCC
78701167 CGATCATACGGACAGTGTCTACTCATGCTGCCTTGTGTTAGCCTTAAT
66 CGATCATACGGACAGTGTCTACTCATGCTGCCTTGTGTTAGCCTTAAT
78701215 AGATCTACCC
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
115 106 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (115 bp):
ATGGAAATTGATCATGGTGGTGATGGAAAAGAGGAGAAGAAACAATGATTTGATGGTCCAGGGCC
CGATCATACGGACAGTGTCTACTCATGCTGCCTTGTGTTAGCCTTAATTG
Found at i:78707116 original size:34 final size:34
Alignment explanation
Indices: 78707077--78707145 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
78707067 TATTAAAAAC
78707077 GAAAATAAAATGAACTAAGTATGTTGTATTTAAG
1 GAAAATAAAATGAACTAAGTATGTTGTATTTAAG
*
78707111 GAAAATAAAATGAATTAAGTATGTTGTATTTAAG
1 GAAAATAAAATGAACTAAGTATGTTGTATTTAAG
78707145 G
1 G
78707146 TGACAATGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.46, C:0.01, G:0.19, T:0.33
Consensus pattern (34 bp):
GAAAATAAAATGAACTAAGTATGTTGTATTTAAG
Found at i:78708165 original size:14 final size:14
Alignment explanation
Indices: 78708148--78708188 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
78708138 TAAATTAAAA
* *
78708148 AAATTAAACATTTT
1 AAATTAAAAATATT
78708162 AAA-TAAAAATATT
1 AAATTAAAAATATT
78708175 AAA-TAAAAATATT
1 AAATTAAAAATATT
78708188 A
1 A
78708189 TTACAGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 22 0.88
14 3 0.12
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATTAAAAATATT
Found at i:78708176 original size:13 final size:13
Alignment explanation
Indices: 78708160--78708188 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
78708150 ATTAAACATT
78708160 TTAAATAAAAATA
1 TTAAATAAAAATA
78708173 TTAAATAAAAATA
1 TTAAATAAAAATA
78708186 TTA
1 TTA
78708189 TTACAGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TTAAATAAAAATA
Found at i:78712271 original size:22 final size:23
Alignment explanation
Indices: 78712243--78712289 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
78712233 CACATTAGCG
78712243 AACAAATATATATAAATA-AATA
1 AACAAATATATATAAATATAATA
* *
78712265 AACAAATATTTATATATATAATA
1 AACAAATATATATAAATATAATA
78712288 AA
1 AA
78712290 ATAAATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (23 bp):
AACAAATATATATAAATATAATA
Found at i:78714125 original size:22 final size:21
Alignment explanation
Indices: 78714098--78714148 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
78714088 ACAAAATGAT
*
78714098 AAAATATTAGTGTCAATTTCCA
1 AAAATATTAGAG-CAATTTCCA
* * *
78714120 AAAATAGTAGAGGATTTTCCA
1 AAAATATTAGAGCAATTTCCA
78714141 AAAATATT
1 AAAATATT
78714149 CTCATGTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (21 bp):
AAAATATTAGAGCAATTTCCA
Found at i:78714452 original size:20 final size:19
Alignment explanation
Indices: 78714409--78714453 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
78714399 TTACTTTTAT
*
78714409 TAATTTAAATTTTAAAAAA
1 TAATTTAAATTCTAAAAAA
* *
78714428 AAATTTAAATGTCTAAAGAA
1 TAATTTAAAT-TCTAAAAAA
78714448 TAATTT
1 TAATTT
78714454 TTCATTTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (19 bp):
TAATTTAAATTCTAAAAAA
Found at i:78720566 original size:14 final size:14
Alignment explanation
Indices: 78720547--78720573 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78720537 TAAACAATAA
78720547 CAACATAATAGTAG
1 CAACATAATAGTAG
78720561 CAACATAATAGTA
1 CAACATAATAGTA
78720574 AAATAGTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (14 bp):
CAACATAATAGTAG
Found at i:78723271 original size:13 final size:15
Alignment explanation
Indices: 78723245--78723276 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
78723235 GTTAATTACG
78723245 CTATATATTCTCAAA
1 CTATATATTCTCAAA
78723260 CTATA-ATT-TCAAA
1 CTATATATTCTCAAA
78723273 CTAT
1 CTAT
78723277 CGAAGTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 3 0.18
15 5 0.29
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (15 bp):
CTATATATTCTCAAA
Found at i:78729395 original size:6 final size:7
Alignment explanation
Indices: 78729377--78729404 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
78729367 GAAATATATG
78729377 TAAAAAA
1 TAAAAAA
78729384 TAAAAAA
1 TAAAAAA
78729391 TAAAAAA
1 TAAAAAA
78729398 TAAAAAA
1 TAAAAAA
78729405 AATTTGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAAAAA
Found at i:78729516 original size:32 final size:33
Alignment explanation
Indices: 78729446--78729526 Score: 146
Period size: 33 Copynumber: 2.5 Consensus size: 33
78729436 AATTACTTTC
*
78729446 TTAAGATTTAATTAATAAAAATAAACTATTTTT
1 TTAAAATTTAATTAATAAAAATAAACTATTTTT
78729479 TTAAAATTTAATTAATAAAAATAAACTA-TTTT
1 TTAAAATTTAATTAATAAAAATAAACTATTTTT
78729511 TTAAAATTTAATTAAT
1 TTAAAATTTAATTAAT
78729527 TAATTAATTA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 20 0.43
33 27 0.57
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (33 bp):
TTAAAATTTAATTAATAAAAATAAACTATTTTT
Found at i:78735449 original size:2 final size:2
Alignment explanation
Indices: 78735442--78735476 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
78735432 TTTTACAGAA
*
78735442 TC TC TC TC TC TC TC TC TC TC TA TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
78735477 TATTTAAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.46, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:78736491 original size:21 final size:21
Alignment explanation
Indices: 78736466--78736509 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
78736456 TATGAAGTAC
78736466 ATGTGGATTGTCATATAGGTT
1 ATGTGGATTGTCATATAGGTT
*
78736487 ATGTGGATTGTCATGTAGGTT
1 ATGTGGATTGTCATATAGGTT
78736508 AT
1 AT
78736510 CATACTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.30, T:0.43
Consensus pattern (21 bp):
ATGTGGATTGTCATATAGGTT
Found at i:78740241 original size:6 final size:6
Alignment explanation
Indices: 78740226--78740277 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
78740216 AACACAATAT
*
78740226 ATTTTA ATTTTT ATTTTA A--TTA ATTTT- -TTATT- ATTTTA ATTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATT-TTA ATTTTA ATTTTA
78740270 ATTTTA AT
1 ATTTTA AT
78740278 ATAATTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 6 0.15
5 4 0.10
6 29 0.74
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTA
Found at i:78752559 original size:24 final size:24
Alignment explanation
Indices: 78752512--78752559 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
78752502 AACAAATAAT
*
78752512 TCAAAATTATAAAAAAAATCAAAA
1 TCAAAATTATAAAAAAAATAAAAA
78752536 TCAAAATTA-AAAAAAATATAAAAA
1 TCAAAATTATAAAAAAA-ATAAAAA
78752560 GGTCATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (24 bp):
TCAAAATTATAAAAAAAATAAAAA
Found at i:78753791 original size:12 final size:13
Alignment explanation
Indices: 78753774--78753802 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
78753764 ACGAATTTTT
78753774 ATTTAATATGT-A
1 ATTTAATATGTGA
78753786 ATTTAATATGTGA
1 ATTTAATATGTGA
78753799 ATTT
1 ATTT
78753803 TGATTTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (13 bp):
ATTTAATATGTGA
Found at i:78758326 original size:92 final size:92
Alignment explanation
Indices: 78758159--78758357 Score: 235
Period size: 92 Copynumber: 2.2 Consensus size: 92
78758149 ATAACTCTAA
*
78758159 TTTGCACTCAATTGAATATTTAAACTTTTTAAAATACATAAAAAAGATTGTCAAACTTTTTCAAA
1 TTTGCACTCAATTGAATATTTAAACTTGTTAAAATACATAAAAAAGATTGTCAAACTTTTTCAAA
*
78758224 AGAAGCAATTAAGCCCCTTCTTCTTTTT
66 AGAAGCAATTAAGCCCCTGCTT-TTTTT
* ** * *
78758252 TTTGCGCTCAATTGGGTATTTAAAC-TGTTAAAATATATAAAAAAGACCTT-T-AGACTTTTTCA
1 TTTGCACTCAATTGAATATTTAAACTTGTTAAAATACATAAAAAAGA--TTGTCAAACTTTTTCA
* *
78758314 AAA-ATAGTAATTAAGGCCCTGCTTTTTTT
64 AAAGA-AGCAATTAAGCCCCTGCTTTTTTT
*
78758343 TATTGCACTTAATTG
1 T-TTGCACTCAATTG
78758358 TCAAAATGCA
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
91 7 0.08
92 59 0.65
93 23 0.25
94 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (92 bp):
TTTGCACTCAATTGAATATTTAAACTTGTTAAAATACATAAAAAAGATTGTCAAACTTTTTCAAA
AGAAGCAATTAAGCCCCTGCTTTTTTT
Found at i:78758556 original size:19 final size:19
Alignment explanation
Indices: 78758516--78758566 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
78758506 ATAAAAATAT
*
78758516 AAATAATATAGAATGTTGTA
1 AAATAATATA-AATGTTATA
*
78758536 AAATAATATAAATTTTATA
1 AAATAATATAAATGTTATA
78758555 AAA-AATCATAAA
1 AAATAAT-ATAAA
78758567 AAAATTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 3 0.11
19 15 0.54
20 10 0.36
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (19 bp):
AAATAATATAAATGTTATA
Found at i:78758829 original size:38 final size:38
Alignment explanation
Indices: 78758787--78758861 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
78758777 ATTTCTCTAC
78758787 TTTTTTATCA-TTTTTTA-CGACTTTATAAAATTTTATA
1 TTTTTTAT-ATTTTTTTACCGACTTTATAAAATTTTATA
**
78758824 TTTTTTATATTTTTTTACCGTTTTTATAAAATTTTATA
1 TTTTTTATATTTTTTTACCGACTTTATAAAATTTTATA
78758862 ATATTTTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 1 0.03
37 15 0.44
38 18 0.53
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.63
Consensus pattern (38 bp):
TTTTTTATATTTTTTTACCGACTTTATAAAATTTTATA
Found at i:78758830 original size:19 final size:19
Alignment explanation
Indices: 78758808--78758861 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
78758798 TTTTTACGAC
*
78758808 TTTATAAAATTTTATATTT
1 TTTATAAAATTTTATAGTT
*** **
78758827 TTTATATTTTTTTACCGTT
1 TTTATAAAATTTTATAGTT
78758846 TTTATAAAATTTTATA
1 TTTATAAAATTTTATA
78758862 ATATTTTTCT
Statistics
Matches: 24, Mismatches: 11, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTATAAAATTTTATAGTT
Found at i:78758940 original size:28 final size:28
Alignment explanation
Indices: 78758844--78758956 Score: 104
Period size: 28 Copynumber: 3.9 Consensus size: 28
78758834 TTTTTTACCG
* *
78758844 TTTTTATAAAATTTTATAATATTTTTCTAA
1 TTTTTATAAAATTTAAT-A-ATTTTTATAA
* *
78758874 TTTTTAATAAAATTAAAT-GTTTCTTAT-A
1 TTTTT-ATAAAATTTAATAATTT-TTATAA
78758902 TTTTTATTAAAATTTAATAATTTTTATAA
1 TTTTTA-TAAAATTTAATAATTTTTATAA
* * *
78758931 TTTTTATAAATTTTATTGATTTTTAT
1 TTTTTATAAAATTTAATAATTTTTAT
78758957 TTTTATCATT
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
27 1 0.01
28 40 0.58
29 13 0.19
30 5 0.07
31 10 0.14
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (28 bp):
TTTTTATAAAATTTAATAATTTTTATAA
Found at i:78758969 original size:9 final size:9
Alignment explanation
Indices: 78758918--78758956 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
78758908 TTAAAATTTA
78758918 ATAATTTTT
1 ATAATTTTT
78758927 ATAATTTTT
1 ATAATTTTT
*
78758936 ATAAATTTT
1 ATAATTTTT
*
78758945 ATTGATTTTT
1 A-TAATTTTT
78758955 AT
1 AT
78758957 TTTTATCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:78774026 original size:33 final size:34
Alignment explanation
Indices: 78773989--78774052 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
78773979 TTTTTTTTAA
*
78773989 TTATT-TAATGATAA-TTTAATAATTTTTTACATG
1 TTATTGTAAT-ATAATTTTAATAAATTTTTACATG
*
78774022 TTATTGTCATATAATTTTAATAAATTTTTAC
1 TTATTGTAATATAATTTTAATAAATTTTTAC
78774053 CTAAAACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (34 bp):
TTATTGTAATATAATTTTAATAAATTTTTACATG
Found at i:78775024 original size:14 final size:14
Alignment explanation
Indices: 78775005--78775033 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
78774995 GTTTCTTAAA
78775005 AAAACCTATTTATG
1 AAAACCTATTTATG
78775019 AAAACCTATTTATG
1 AAAACCTATTTATG
78775033 A
1 A
78775034 CTCGAGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (14 bp):
AAAACCTATTTATG
Found at i:78778237 original size:24 final size:23
Alignment explanation
Indices: 78778208--78778263 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
78778198 ACAAGCAATA
78778208 TTAAAAAATTATTA-TATCTCTTTT
1 TTAAAAAATT-TTATTATCTC-TTT
*
78778232 TTAAAAATATTTTATTATGTCTTT
1 TTAAAAA-ATTTTATTATCTCTTT
*
78778256 ATAAAAAA
1 TTAAAAAA
78778264 CTTGTCAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 1 0.04
24 19 0.68
25 8 0.29
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAAAAAATTTTATTATCTCTTT
Found at i:78778548 original size:14 final size:14
Alignment explanation
Indices: 78778529--78778557 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
78778519 TTTATCTTAT
78778529 TATTAATTAATATA
1 TATTAATTAATATA
78778543 TATTAATTAATATA
1 TATTAATTAATATA
78778557 T
1 T
78778558 TTATAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTAATTAATATA
Found at i:78779286 original size:47 final size:47
Alignment explanation
Indices: 78779232--78779325 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
78779222 TTGTAAATTT
78779232 CACTTTTCACTAAAAAAAGAAATTGTACCTCCCCTCTTTCTTTCTTA
1 CACTTTTCACTAAAAAAAGAAATTGTACCTCCCCTCTTTCTTTCTTA
78779279 CACTTTTCACTAAAAAAAGAAATTGTACCTCCCCTCTTTCTTTCTTA
1 CACTTTTCACTAAAAAAAGAAATTGTACCTCCCCTCTTTCTTTCTTA
78779326 GTTGCCTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.38
Consensus pattern (47 bp):
CACTTTTCACTAAAAAAAGAAATTGTACCTCCCCTCTTTCTTTCTTA
Found at i:78780623 original size:51 final size:51
Alignment explanation
Indices: 78780536--78780652 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
78780526 CGGATCACAT
* *
78780536 TTATCACTTGTCACTTGTCACTGATCGGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
* * * *
78780587 TTATCGCTTGTCACTTGTCACTAATCAGATATGTGTAGCTGAGGCTACCAC
1 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
*
78780638 TTTTCACTTGTCACT
1 TTATCACTTGTCACT
78780653 GATTAGAAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:78783959 original size:21 final size:21
Alignment explanation
Indices: 78783914--78783959 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
78783904 GAATTATTCT
*
78783914 AAAAATTCAAAAAAAAAACAT
1 AAAAATTCAAAAAAAAAACAA
* *
78783935 AAAAATTCAAAAAAAGAAGAA
1 AAAAATTCAAAAAAAAAACAA
78783956 AAAA
1 AAAA
78783960 TATTATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.78, C:0.07, G:0.04, T:0.11
Consensus pattern (21 bp):
AAAAATTCAAAAAAAAAACAA
Found at i:78785934 original size:37 final size:37
Alignment explanation
Indices: 78785884--78785954 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
78785874 TTCATTAACA
78785884 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAAG
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAAG
* *
78785921 TGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGT
78785955 TAATTAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (37 bp):
TGGTGCTAAGTGGATATACCACGGTTAAACATGTAAG
Found at i:78803951 original size:17 final size:17
Alignment explanation
Indices: 78803907--78803941 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
78803897 AGATTTAGGT
*
78803907 TTAAAATTTTTAATTAA
1 TTAAATTTTTTAATTAA
78803924 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
78803941 T
1 T
78803942 AATCTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:78808813 original size:23 final size:22
Alignment explanation
Indices: 78808787--78808845 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 22
78808777 AATAATATTT
78808787 TAAAAATTAAAATCTCTAGAAAA
1 TAAAAATTAAAATCTCTA-AAAA
* *
78808810 TAAAGAGACT-AAATTTCTAAAAA
1 TAAA-A-ATTAAAATCTCTAAAAA
78808833 TAAAAATATAAAA
1 TAAAAAT-TAAAA
78808846 ATTAAATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
21 1 0.03
22 2 0.07
23 15 0.52
24 9 0.31
25 2 0.07
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.25
Consensus pattern (22 bp):
TAAAAATTAAAATCTCTAAAAA
Found at i:78809041 original size:6 final size:6
Alignment explanation
Indices: 78809032--78809061 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
78809022 TTTCATTACC
*
78809032 GAGCTA GAGCTG GAGCTG GAGCTG GAGCTG
1 GAGCTG GAGCTG GAGCTG GAGCTG GAGCTG
78809062 CTGGAGCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.47, T:0.17
Consensus pattern (6 bp):
GAGCTG
Found at i:78809291 original size:30 final size:30
Alignment explanation
Indices: 78809251--78809327 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
78809241 GACATAAATG
* *
78809251 GGGTTACCGTGTTCGTCAGTGAGTTGAACC
1 GGGTTGCCGTGTTCGTCAGTGAGTTGAACA
* *
78809281 GGGTTGCCGTGTTCGTCGGTGAGTTGAATA
1 GGGTTGCCGTGTTCGTCAGTGAGTTGAACA
78809311 GGGTTGCCGTGTTCGTC
1 GGGTTGCCGTGTTCGTC
78809328 TCTCAAATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.12, C:0.18, G:0.38, T:0.32
Consensus pattern (30 bp):
GGGTTGCCGTGTTCGTCAGTGAGTTGAACA
Found at i:78815360 original size:21 final size:21
Alignment explanation
Indices: 78815315--78815362 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
78815305 TATTTTTATT
*
78815315 TTTATTTTATTTATTTAAAAA
1 TTTATATTATTTATTTAAAAA
78815336 -TTATATTATTT-TTTAAAAAA
1 TTTATATTATTTATTT-AAAAA
78815356 TTTATAT
1 TTTATAT
78815363 CTAAATTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 3 0.12
20 15 0.62
21 6 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATATTATTTATTTAAAAA
Found at i:78815474 original size:26 final size:25
Alignment explanation
Indices: 78815426--78815478 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
78815416 TAATTTAAAA
* * *
78815426 TTAATATTATATTCTATATTTAATT
1 TTAATATAATATTCAATACTTAATT
78815451 TTAAGTATAATATTCAATACTTAATT
1 TTAA-TATAATATTCAATACTTAATT
78815477 TT
1 TT
78815479 TGAGTACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.55
Consensus pattern (25 bp):
TTAATATAATATTCAATACTTAATT
Found at i:78817373 original size:14 final size:14
Alignment explanation
Indices: 78817354--78817383 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78817344 AAAACTTTAT
78817354 ATATATATACACAC
1 ATATATATACACAC
*
78817368 ATATATATATACAC
1 ATATATATACACAC
78817382 AT
1 AT
78817384 TACTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATATATACACAC
Found at i:78817373 original size:16 final size:16
Alignment explanation
Indices: 78817352--78817382 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
78817342 CCAAAACTTT
78817352 ATATATATATACACAC
1 ATATATATATACACAC
78817368 ATATATATATACACA
1 ATATATATATACACA
78817383 TTACTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (16 bp):
ATATATATATACACAC
Found at i:78819570 original size:23 final size:21
Alignment explanation
Indices: 78819544--78819591 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
78819534 AGTTCATATA
*
78819544 TTTAAATATTAATAATTAAATTT
1 TTTAAATATTAAT--TTAAAATT
**
78819567 TTTATTTATTAATTTAAAATT
1 TTTAAATATTAATTTAAAATT
78819588 TTTA
1 TTTA
78819592 TTTCAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 11 0.50
23 11 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAAATATTAATTTAAAATT
Found at i:78819589 original size:21 final size:22
Alignment explanation
Indices: 78819550--78819594 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
78819540 TATATTTAAA
*
78819550 TATTAATAATTAAATTTTTTATT
1 TATTAAT-ATTAAAATTTTTATT
78819573 TATTAAT-TTAAAATTTTTATT
1 TATTAATATTAAAATTTTTATT
78819594 T
1 T
78819595 CAATTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
23 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTAATATTAAAATTTTTATT
Found at i:78822728 original size:14 final size:14
Alignment explanation
Indices: 78822711--78822752 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
78822701 ATTTTAATAT
78822711 ATTTTTATTAAAAA
1 ATTTTTATTAAAAA
78822725 A--TTTATTAAAAA
1 ATTTTTATTAAAAA
*
78822737 ATTTTTATTATAAA
1 ATTTTTATTAAAAA
78822751 AT
1 AT
78822753 ATCAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 12 0.48
14 13 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTTATTAAAAA
Found at i:78822735 original size:11 final size:12
Alignment explanation
Indices: 78822714--78822740 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
78822704 TTAATATATT
78822714 TTTATTAAAAAA
1 TTTATTAAAAAA
78822726 TTTATTAAAAAA
1 TTTATTAAAAAA
78822738 TTT
1 TTT
78822741 TTATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TTTATTAAAAAA
Found at i:78827168 original size:10 final size:10
Alignment explanation
Indices: 78827155--78827190 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
78827145 CATTTTTACG
78827155 ATTTTTAAAA
1 ATTTTTAAAA
78827165 ATTTTTTAAAA
1 A-TTTTTAAAA
*
78827176 ATTTTTATAA
1 ATTTTTAAAA
78827186 ATTTT
1 ATTTT
78827191 AAATTATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTTAAAA
Found at i:78827172 original size:11 final size:11
Alignment explanation
Indices: 78827156--78827190 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
78827146 ATTTTTACGA
78827156 TTTTTAAAAAT
1 TTTTTAAAAAT
78827167 TTTTTAAAAA-
1 TTTTTAAAAAT
*
78827177 TTTTTATAAAT
1 TTTTTAAAAAT
78827188 TTT
1 TTT
78827191 AAATTATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTTAAAAAT
Found at i:78829987 original size:4 final size:4
Alignment explanation
Indices: 78829980--78830032 Score: 106
Period size: 4 Copynumber: 13.2 Consensus size: 4
78829970 GTGTGAATGA
78829980 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
78830028 ATGT A
1 ATGT A
78830033 CCCTTTTAGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:78832484 original size:2 final size:2
Alignment explanation
Indices: 78832477--78832513 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
78832467 GTCAATACAT
78832477 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
78832514 TAAATATACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:78833436 original size:37 final size:37
Alignment explanation
Indices: 78833395--78833469 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
78833385 AAGTACAAGG
78833395 AGATTGATGTTAAAAAACCAAATGTCTATGGAGGATA
1 AGATTGATGTTAAAAAACCAAATGTCTATGGAGGATA
78833432 AGATTGATGTTAAAAAACCAAATGTCTATGGAGGATA
1 AGATTGATGTTAAAAAACCAAATGTCTATGGAGGATA
78833469 A
1 A
78833470 AAAAGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (37 bp):
AGATTGATGTTAAAAAACCAAATGTCTATGGAGGATA
Found at i:78835455 original size:15 final size:14
Alignment explanation
Indices: 78835431--78835483 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 14
78835421 TTTACAAATT
78835431 AAAAAATAATTATA
1 AAAAAATAATTATA
78835445 AAAAGAATAATTATA
1 AAAA-AATAATTATA
* *
78835460 TTAAAAATAAATAATA
1 -AAAAAAT-AATTATA
78835476 TAAAAAAT
1 -AAAAAAT
78835484 TTCAATATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 4 0.12
15 13 0.39
16 16 0.48
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (14 bp):
AAAAAATAATTATA
Found at i:78835477 original size:18 final size:16
Alignment explanation
Indices: 78835431--78835482 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 16
78835421 TTTACAAATT
78835431 AAAAAATAAT-TATAA
1 AAAAAATAATATATAA
*
78835446 AAAGAATAATTATATTAA
1 AAAAAATAA-TATA-TAA
78835464 AAATAAATAATATA-AA
1 AAA-AAATAATATATAA
78835480 AAA
1 AAA
78835483 TTTCAATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 8 0.26
16 6 0.19
17 2 0.06
18 10 0.32
19 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAAAATAATATATAA
Found at i:78836831 original size:17 final size:19
Alignment explanation
Indices: 78836811--78836848 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
78836801 ATTGAGAATT
78836811 TTTAT-AAA-TATTTTGAA
1 TTTATAAAATTATTTTGAA
78836828 TTTATGAAAATTATTTTGAA
1 TTTAT-AAAATTATTTTGAA
78836848 T
1 T
78836849 ACTTTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
19 3 0.17
20 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
TTTATAAAATTATTTTGAA
Found at i:78844460 original size:14 final size:16
Alignment explanation
Indices: 78844428--78844466 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
78844418 TTTAAAAAAT
78844428 ATTT-ATATTATATTA
1 ATTTAATATTATATTA
78844443 ATTTAATATTA-A-TA
1 ATTTAATATTATATTA
78844457 ATTTAATATT
1 ATTTAATATT
78844467 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.52
15 5 0.22
16 6 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTAATATTATATTA
Found at i:78845182 original size:48 final size:48
Alignment explanation
Indices: 78845111--78845207 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
78845101 TTTAAAAGAA
78845111 AATCAAACATATCCGTATCAAACACATACTGAACTCAAGATTTTTCAT
1 AATCAAACATATCCGTATCAAACACATACTGAACTCAAGATTTTTCAT
78845159 AATCAAACATATCCGTATCAAACACATACTGAACTCAAGATTTTTCAT
1 AATCAAACATATCCGTATCAAACACATACTGAACTCAAGATTTTTCAT
78845207 A
1 A
78845208 CTTTTTTGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (48 bp):
AATCAAACATATCCGTATCAAACACATACTGAACTCAAGATTTTTCAT
Found at i:78847723 original size:2 final size:2
Alignment explanation
Indices: 78847716--78847756 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
78847706 GCCTATTATT
78847716 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
78847757 CCACTCTCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:78863113 original size:47 final size:49
Alignment explanation
Indices: 78863010--78863129 Score: 136
Period size: 47 Copynumber: 2.5 Consensus size: 49
78863000 CTTATAACTT
*
78863010 AATTAGGATTAAGAAAATTATATTTTATAAATATATATTAGTTAGAATTG
1 AATTAGGATTAAGAAAATTATATTTTAT-AATATATATTAGCTAGAATTG
* * * * *
78863060 ATTTAGGATTACGGAATTTATA-TTTAT-ATATATCTTAGCTAGAATTG
1 AATTAGGATTAAGAAAATTATATTTTATAATATATATTAGCTAGAATTG
* * *
78863107 AATTAGGGTCACGAAAATTATAT
1 AATTAGGATTAAGAAAATTATAT
78863130 ATAGAGTTCA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
47 35 0.60
49 5 0.09
50 18 0.31
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (49 bp):
AATTAGGATTAAGAAAATTATATTTTATAATATATATTAGCTAGAATTG
Found at i:78866685 original size:35 final size:33
Alignment explanation
Indices: 78866646--78866710 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
78866636 ATAATTGTGA
* *
78866646 ATTAAATTATAATTATTTTTAAATGTATAATTAAT
1 ATTAAATTAT-ATT-TTTTAAAATATATAATTAAT
78866681 ATTAAATTATATTTTTTAAAATATATAATT
1 ATTAAATTATATTTTTTAAAATATATAATT
78866711 GTTACACCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 15 0.54
34 3 0.11
35 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (33 bp):
ATTAAATTATATTTTTTAAAATATATAATTAAT
Found at i:78867045 original size:45 final size:46
Alignment explanation
Indices: 78866978--78867077 Score: 152
Period size: 45 Copynumber: 2.2 Consensus size: 46
78866968 AGAAAATTAT
* * *
78866978 ATTT-TATAAATATATATTAGTTAGAATTGATTTAGGATTACG-AA
1 ATTTATATATATATATATTAGTTAGAATTGAATTAGGATCACGTAA
78867022 ATTTATATATATATATATTAGTTAGAATTGAATTAGGATCACGTAA
1 ATTTATATATATATATATTAGTTAGAATTGAATTAGGATCACGTAA
78867068 A-TTATATATA
1 ATTTATATATA
78867078 GAGTTCAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
44 4 0.08
45 44 0.86
46 3 0.06
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.43
Consensus pattern (46 bp):
ATTTATATATATATATATTAGTTAGAATTGAATTAGGATCACGTAA
Found at i:78878483 original size:23 final size:21
Alignment explanation
Indices: 78878450--78878501 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 21
78878440 TTGAACTGAA
78878450 TTTTTTAAAATTTTTAAATAT
1 TTTTTTAAAATTTTTAAATAT
*
78878471 TTTTTTATGAAATTTTTAATTAT
1 TTTTTTA--AAATTTTTAAATAT
*
78878494 TTATTTAA
1 TTTTTTAA
78878502 TTAAATTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 8 0.30
23 19 0.70
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTTAAAATTTTTAAATAT
Found at i:78878792 original size:15 final size:15
Alignment explanation
Indices: 78878772--78878811 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
78878762 TTATTATTAT
78878772 TTATTTTTAATATAA
1 TTATTTTTAATATAA
**
78878787 TTATTTTTTTTATAA
1 TTATTTTTAATATAA
78878802 TTATTCTTTA
1 TTATT-TTTA
78878812 TTCATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTTTTAATATAA
Found at i:78883348 original size:15 final size:16
Alignment explanation
Indices: 78883328--78883360 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
78883318 ACTAAAGATT
78883328 TTAATTACTTT-TATA
1 TTAATTACTTTATATA
78883343 TTAATTACTTTATATA
1 TTAATTACTTTATATA
78883359 TT
1 TT
78883361 TAGTTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATTACTTTATATA
Found at i:78884809 original size:60 final size:59
Alignment explanation
Indices: 78884712--78884825 Score: 201
Period size: 60 Copynumber: 1.9 Consensus size: 59
78884702 AATGAATTTT
78884712 TTAATTTAAAAAAATCAATATACTCTTAGATAATTTACTCTTTGATCCTTTTTGCAATA
1 TTAATTTAAAAAAATCAATATACTCTTAGATAATTTACTCTTTGATCCTTTTTGCAATA
* *
78884771 TTAATTTTAAAAAAATCAATCTACTCTTAGATAGTTTACTCTTTGATCCTTTTTG
1 TTAA-TTTAAAAAAATCAATATACTCTTAGATAATTTACTCTTTGATCCTTTTTG
78884826 TAATCTAACA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
59 4 0.08
60 48 0.92
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (59 bp):
TTAATTTAAAAAAATCAATATACTCTTAGATAATTTACTCTTTGATCCTTTTTGCAATA
Found at i:78890035 original size:24 final size:24
Alignment explanation
Indices: 78890002--78890049 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
78889992 TCAAATGAGA
* *
78890002 CTTTATTTTCAACATTTCCATTGT
1 CTTTAGTTTCAACAATTCCATTGT
*
78890026 CTTTAGTTTCAACAATTGCATTGT
1 CTTTAGTTTCAACAATTCCATTGT
78890050 TTTCATCAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (24 bp):
CTTTAGTTTCAACAATTCCATTGT
Found at i:78897609 original size:26 final size:25
Alignment explanation
Indices: 78897579--78897630 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
78897569 GCCCATATTA
*
78897579 TTTTA-ATATTTAATAATTTTATACAT
1 TTTTATATATTGAA-AATTTTA-ACAT
*
78897605 TTTTATTTATTGAAAATTTTAACAT
1 TTTTATATATTGAAAATTTTAACAT
78897630 T
1 T
78897631 ATTTTAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 5 0.22
26 12 0.52
27 6 0.26
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTATATATTGAAAATTTTAACAT
Found at i:78897709 original size:15 final size:16
Alignment explanation
Indices: 78897689--78897719 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
78897679 TCTAAATTAC
78897689 ATAACAT-ATATAAAA
1 ATAACATAATATAAAA
78897704 ATAACATAATATAAAA
1 ATAACATAATATAAAA
78897720 TATTATAAAC
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:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAACATAATATAAAA
Found at i:78906743 original size:107 final size:107
Alignment explanation
Indices: 78906557--78906771 Score: 394
Period size: 107 Copynumber: 2.0 Consensus size: 107
78906547 ACTCACAACT
* * *
78906557 TCCTATATTGACAACAATGTCGATGTAATTCAAGCTAAAATTTAATCATAATAACCATGCATAAG
1 TCCTAAATTGACAACAATGTCGATGCAATTCAAACTAAAATTTAATCATAATAACCATGCATAAG
78906622 TAATTATAAATTATTAGGCTACAAATCTAATTACTAAATGAG
66 TAATTATAAATTATTAGGCTACAAATCTAATTACTAAATGAG
*
78906664 TCCTAAATTGACAATAATGTCGATGCAATTCAAACTAAAATTTAATCATAATAACCATGCATAAG
1 TCCTAAATTGACAACAATGTCGATGCAATTCAAACTAAAATTTAATCATAATAACCATGCATAAG
78906729 TAATTATAAATTATTAGGCTACAAATCTAATTACTAAATGAG
66 TAATTATAAATTATTAGGCTACAAATCTAATTACTAAATGAG
78906771 T
1 T
78906772 TTTTAAATAC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 104 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.33
Consensus pattern (107 bp):
TCCTAAATTGACAACAATGTCGATGCAATTCAAACTAAAATTTAATCATAATAACCATGCATAAG
TAATTATAAATTATTAGGCTACAAATCTAATTACTAAATGAG
Found at i:78907018 original size:3 final size:3
Alignment explanation
Indices: 78907010--78907037 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
78907000 CAATCACTTC
78907010 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
78907038 ATTCATTACC
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:78907772 original size:28 final size:31
Alignment explanation
Indices: 78907741--78907798 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
78907731 CCCAGTCACA
78907741 TAAA-AAAAA-ATTT-AATAGTTCAATGACT
1 TAAATAAAAACATTTGAATAGTTCAATGACT
*
78907769 TAAATAAAAACTTTTGAATAGTTCAATGAC
1 TAAATAAAAACATTTGAATAGTTCAATGAC
78907799 CAAATTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 4 0.15
29 5 0.19
30 3 0.12
31 14 0.54
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.33
Consensus pattern (31 bp):
TAAATAAAAACATTTGAATAGTTCAATGACT
Found at i:78910190 original size:67 final size:69
Alignment explanation
Indices: 78910106--78910248 Score: 159
Period size: 67 Copynumber: 2.1 Consensus size: 69
78910096 TAAGATTCAA
* * * *
78910106 TAAAATATATTTATAAAACCCTATAAAA-TTAAGAAATTGTAA-TAAAAATAT-ATAATA-TTTT
1 TAAAATATATTTATAAAACACTATAAAATTTAA-AAATTATAATTAAAAATATAAAAATAGTTAT
*
78910167 AATAT
65 AAAAT
* * * *
78910172 TAAAATATGTGTTATAAAATATTATAAAATTTAAAAATTATAATTTAAAATATAAAAATAGTTAT
1 TAAAATATAT-TTATAAAACACTATAAAATTTAAAAATTATAATTAAAAATATAAAAATAGTTAT
78910237 AAAAT
65 AAAAT
78910242 TAAAATA
1 TAAAATA
78910249 GTTGCATTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
66 9 0.14
67 23 0.37
68 12 0.19
69 5 0.08
70 14 0.22
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (69 bp):
TAAAATATATTTATAAAACACTATAAAATTTAAAAATTATAATTAAAAATATAAAAATAGTTATA
AAAT
Found at i:78910241 original size:19 final size:17
Alignment explanation
Indices: 78910187--78910246 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 17
78910177 TATGTGTTAT
78910187 AAAATATTATAAAATTTA
1 AAAATATTATAAAA-TTA
*
78910205 AAAATTATAATTTAAAATATA
1 AAAA-TAT--TATAAAAT-TA
78910226 AAAATAGTTATAAAATTA
1 AAAATA-TTATAAAATTA
78910244 AAA
1 AAA
78910247 TAGTTGCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
18 9 0.26
19 10 0.29
20 3 0.09
21 13 0.37
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATATTATAAAATTA
Found at i:78911538 original size:2 final size:2
Alignment explanation
Indices: 78911531--78911575 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
78911521 TTTAGTCAAA
78911531 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
78911573 AG A
1 AG A
78911576 TGCAATAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:78915881 original size:5 final size:5
Alignment explanation
Indices: 78915871--78915923 Score: 74
Period size: 5 Copynumber: 10.6 Consensus size: 5
78915861 TAAGAAATTT
78915871 TATTA TATTA TA-T- TATTA TATTA TATTATA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TA-T-TA TATTA TATTA TATTA TATTA
78915921 TAT
1 TAT
78915924 AAATAAGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 34 0.77
6 2 0.05
7 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:78915883 original size:22 final size:21
Alignment explanation
Indices: 78915871--78915928 Score: 77
Period size: 22 Copynumber: 2.9 Consensus size: 21
78915861 TAAGAAATTT
78915871 TATTATATTATAT---TATTA
1 TATTATATTATATAAATATTA
*
78915889 TATTATATTATATATTATATTA
1 TATTATATTATATA-AATATTA
78915911 TATTATATTATATAAATA
1 TATTATATTATATAAATA
78915929 AGTAAAAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 13 0.37
21 3 0.09
22 19 0.54
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTATATTATATAAATATTA
Found at i:78917724 original size:51 final size:49
Alignment explanation
Indices: 78917644--78917782 Score: 144
Period size: 45 Copynumber: 2.9 Consensus size: 49
78917634 TTACTGATCA
* * * *
78917644 GGCAC-TTATGTGCCGACTACTATTACTGTTACCGTTACTGTTACCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTT--CGATTC
78917694 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTA----TCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTCGATTC
* * * **
78917739 AGCACTTTGTGTGTTGAATACTGTTACTTTTACTATTACTGTTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTC
78917783 TGGATTTGTT
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
45 39 0.52
47 1 0.01
49 2 0.03
50 5 0.07
51 28 0.37
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (49 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTCGATTC
Found at i:78917766 original size:45 final size:45
Alignment explanation
Indices: 78917667--78917771 Score: 156
Period size: 45 Copynumber: 2.3 Consensus size: 45
78917657 CGACTACTAT
* * *
78917667 TACTGTTACCGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAA
* *
78917712 TACTGTTACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAA
*
78917757 TACTGTTACTTTTAC
1 TACTGTTACTGTTAC
78917772 TATTACTGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAA
Found at i:78918036 original size:18 final size:18
Alignment explanation
Indices: 78917945--78918243 Score: 192
Period size: 18 Copynumber: 16.3 Consensus size: 18
78917935 AAAGGTATAA
* * *
78917945 AATAACTGATTATTTCTG
1 AATAATTGATTGTTACTG
* *
78917963 AATAATTGACTGTTACCG
1 AATAATTGATTGTTACTG
*
78917981 AGTAATTGATTGTTACTG
1 AATAATTGATTGTTACTG
* * *
78917999 GATAATAGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
78918017 AATAATTGAATATTACTG
1 AATAATTGATTGTTACTG
* **
78918035 AATAAATGATCATTACTG
1 AATAATTGATTGTTACTG
* **
78918053 AATAACTGATCATTACTG
1 AATAATTGATTGTTACTG
* *
78918071 AATAACTGATTGTCACTG
1 AATAATTGATTGTTACTG
*
78918089 AATAAATGATTGTTACTG
1 AATAATTGATTGTTACTG
* * *
78918107 AATAACTTAATTGCTATTG
1 AATAA-TTGATTGTTACTG
*
78918126 AAT-ATCTGATT-TTACTA
1 AATAAT-TGATTGTTACTG
*
78918143 AATAATTGACTGTTACTGG
1 AATAATTGATTGTTACT-G
*
78918162 ATAACCGATCAATTGATTGAT-CTG
1 ---A---AT-AATTGATTGTTACTG
* * * *
78918186 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
*
78918204 AATAATTGATTGTTACCG
1 AATAATTGATTGTTACTG
*
78918222 AAT-ATTGACTGTTACTG
1 AATAATTGATTGTTACTG
78918239 AATAA
1 AATAA
78918244 ATAATTGTTT
Statistics
Matches: 218, Mismatches: 49, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
17 33 0.15
18 157 0.72
19 12 0.06
21 1 0.00
22 1 0.00
24 1 0.00
25 4 0.02
26 9 0.04
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:78918234 original size:17 final size:17
Alignment explanation
Indices: 78918203--78918242 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
78918193 GGTTATTATT
*
78918203 GAATAATTGATTGTTACC
1 GAAT-ATTGACTGTTACC
*
78918221 GAATATTGACTGTTACT
1 GAATATTGACTGTTACC
78918238 GAATA
1 GAATA
78918243 AATAATTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (17 bp):
GAATATTGACTGTTACC
Found at i:78920685 original size:3 final size:3
Alignment explanation
Indices: 78920679--78920856 Score: 103
Period size: 3 Copynumber: 58.3 Consensus size: 3
78920669 TTTTTCTAAA
* * * *
78920679 ATT ATT AAT ATT ATT AAT ATT ATT TTT ATT -TCT ATT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
* * * * * * * * *
78920724 AAT ATC ACT ATC ATC ATC ATC ATC ATC ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
78920772 ATT ATT ATT ATT ACTT -TT TTT ACT ATCT AATGT ATT ATT A-T ACCTT
1 ATT ATT ATT ATT A-TT ATT ATT ATT AT-T -AT-T ATT ATT ATT A--TT
* **
78920818 ATT ATT ATT ATT ATT ATT -GT ATT ATT GCT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
78920857 AATTTTCCTT
Statistics
Matches: 140, Mismatches: 25, Indels: 20
0.76 0.14 0.11
Matches are distributed among these distances:
2 6 0.04
3 123 0.88
4 6 0.04
5 5 0.04
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:78921047 original size:12 final size:12
Alignment explanation
Indices: 78921032--78921150 Score: 94
Period size: 12 Copynumber: 10.5 Consensus size: 12
78921022 TTATTTGTCT
*
78921032 TATTGTTATTAC
1 TATTATTATTAC
78921044 TATT-TGTATTTAC
1 TATTAT-TA-TTAC
* *
78921057 TGTTATTACTAC
1 TATTATTATTAC
*
78921069 TATTATTTTTAC
1 TATTATTATTAC
78921081 --TT-TTATTAC
1 TATTATTATTAC
*
78921090 TATTACTATT--
1 TATTATTATTAC
78921100 TATTATTATTAC
1 TATTATTATTAC
*
78921112 TATTATTATCAC
1 TATTATTATTAC
78921124 TATTATT-TT--
1 TATTATTATTAC
*
78921133 TATTTTTATTAC
1 TATTATTATTAC
78921145 TATTAT
1 TATTAT
78921151 CATTTTATAA
Statistics
Matches: 84, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
9 12 0.14
10 13 0.15
11 4 0.05
12 45 0.54
13 9 0.11
14 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.61
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:78921075 original size:3 final size:3
Alignment explanation
Indices: 78921059--78921243 Score: 81
Period size: 3 Copynumber: 61.0 Consensus size: 3
78921049 GTATTTACTG
* * * * *
78921059 TTA TTA CTA CTA TTA TTT TTA CTT- TTA TTA CTA TTA CTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA
* * * * * * *
78921105 TTA TTA CTA TTA TTA TCA CTA TTA TTT TTA TTT TTA TTA CTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * ** * *
78921153 TT- TTA -TA ACA TTG TTA CTA TTA TTC TT- TTA CCA TTTA ATA CATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA
* *
78921197 TTA TTA TTA TTA TTA TTA ATA TTA GTGTA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -T-TA TTA TTA TTA TTA TTA TTA
78921244 GTGTGTGTTT
Statistics
Matches: 132, Mismatches: 40, Indels: 20
0.69 0.21 0.10
Matches are distributed among these distances:
2 8 0.06
3 112 0.85
4 10 0.08
5 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:78921116 original size:22 final size:22
Alignment explanation
Indices: 78921037--78921117 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 22
78921027 TGTCTTATTG
*
78921037 TTATTACTATTTGTATTTACTGTTA
1 TTATTACTA-TTATATTTAC--TTA
* *
78921062 TTACTACTATTATTTTTACTT-
1 TTATTACTATTATATTTACTTA
78921083 TTATTACTATTACTATTTA-TTA
1 TTATTACTATTA-TATTTACTTA
78921105 TTATTACTATTAT
1 TTATTACTATTAT
78921118 TATCACTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
21 14 0.29
22 19 0.39
24 8 0.16
25 8 0.16
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTACTATTATATTTACTTA
Found at i:78921131 original size:55 final size:52
Alignment explanation
Indices: 78921038--78921149 Score: 154
Period size: 55 Copynumber: 2.1 Consensus size: 52
78921028 GTCTTATTGT
*
78921038 TATTACTATTTGTATTTACTGTTATTACTACTATTATTTTTACTTTTATTAC
1 TATTACTATTTGTATTTACTATTATTACTACTATTATTTTTACTTTTATTAC
* *
78921090 TATTACTATTTATTATTATTACTATTATTA-TCACTATTATTTTTATTTTTATTAC
1 TATTACTATTT-GTA-T-TTACTATTATTACT-ACTATTATTTTTACTTTTATTAC
78921145 TATTA
1 TATTA
78921150 TCATTTTATA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
52 11 0.21
53 2 0.04
54 2 0.04
55 38 0.72
ACGTcount: A:0.28, C:0.10, G:0.02, T:0.61
Consensus pattern (52 bp):
TATTACTATTTGTATTTACTATTATTACTACTATTATTTTTACTTTTATTAC
Found at i:78921174 original size:55 final size:55
Alignment explanation
Indices: 78921067--78921175 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 55
78921057 TGTTATTACT
** *
78921067 ACTATTATTTTTACTTTTATTACTATTACTATTTATTATTATTACTATTATTATC
1 ACTATTATTTTTACTTTTATTACTATTACTATTTATTAACATTACTACTATTATC
* **
78921122 ACTATTATTTTTATTTTTATTACTATTA-TCATTT-TATAACATTGTTACTATTAT
1 ACTATTATTTTTACTTTTATTACTATTACT-ATTTAT-TAACATTACTACTATTAT
78921176 TCTTTTACCA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 2 0.04
55 44 0.96
ACGTcount: A:0.29, C:0.10, G:0.01, T:0.60
Consensus pattern (55 bp):
ACTATTATTTTTACTTTTATTACTATTACTATTTATTAACATTACTACTATTATC
Found at i:78921229 original size:23 final size:23
Alignment explanation
Indices: 78921194--78921247 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
78921184 CATTTAATAC
78921194 ATATTA-T-TATTATTATTATTA
1 ATATTAGTGTATTATTATTATTA
78921215 ATATTAGTGTATTATTATTATTA
1 ATATTAGTGTATTATTATTATTA
78921238 ATATTAGTGT
1 ATATTAGTGT
78921248 GTGTTTCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 6 0.19
22 1 0.03
23 24 0.77
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (23 bp):
ATATTAGTGTATTATTATTATTA
Found at i:78922087 original size:8 final size:8
Alignment explanation
Indices: 78922074--78922099 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
78922064 CCAAAATTCC
78922074 ATTTTCAA
1 ATTTTCAA
78922082 ATTTTCAA
1 ATTTTCAA
78922090 ATTTTCAA
1 ATTTTCAA
78922098 AT
1 AT
78922100 AATCGCCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTTCAA
Found at i:78922896 original size:26 final size:26
Alignment explanation
Indices: 78922867--78922974 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
78922857 TGGTACAAAT
78922867 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
78922893 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78922919 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
78922945 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78922971 TGAT
1 TGAT
78922975 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:78926962 original size:20 final size:20
Alignment explanation
Indices: 78926925--78926963 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
78926915 GACTCTTTTT
* *
78926925 TATTATTATTTGTTTTAAAC
1 TATTATTATTTATCTTAAAC
*
78926945 TATTTTTATTTATCTTAAA
1 TATTATTATTTATCTTAAA
78926964 TTTCATACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (20 bp):
TATTATTATTTATCTTAAAC
Found at i:78927078 original size:27 final size:26
Alignment explanation
Indices: 78926981--78927103 Score: 135
Period size: 26 Copynumber: 4.8 Consensus size: 26
78926971 CATTAAACTG
*
78926981 TTTTAAATTGTTTTAGATA-TATT-A
1 TTTTAAATTGTTTTATATATTATTCA
* * *
78927005 TTTTAAATTATTTTATATACTATACA
1 TTTTAAATTGTTTTATATATTATTCA
* * *
78927031 CTTTAAATTGTTTTGTATATTATTTA
1 TTTTAAATTGTTTTATATATTATTCA
*
78927057 TTTTAAATTTGTTTTATGTATTATTCA
1 TTTTAAA-TTGTTTTATATATTATTCA
*
78927084 TTGTAAATTGTTTTAT-TATT
1 TTTTAAATTGTTTTATATATT
78927104 TACATTAATT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
24 17 0.21
25 7 0.09
26 36 0.44
27 22 0.27
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (26 bp):
TTTTAAATTGTTTTATATATTATTCA
Found at i:78927093 original size:53 final size:50
Alignment explanation
Indices: 78926982--78927098 Score: 139
Period size: 53 Copynumber: 2.3 Consensus size: 50
78926972 ATTAAACTGT
78926982 TTTAAATTGTTTTAGATATATTATTTTAAATTATTTTATATACTATACAC
1 TTTAAATTGTTTTAGATATATTATTTTAAATTATTTTATATACTATACAC
* * * *
78927032 TTTAAATTGTTTT-GTATATTATTTATTTTAAATTTGTTTTATGTATTATTCA-
1 TTTAAATTGTTTTAG-ATA-TA-TTATTTTAAA-TTATTTTATATACTATACAC
78927084 TTGTAAATTGTTTTA
1 TT-TAAATTGTTTTA
78927099 TTATTTACAT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
49 1 0.02
50 16 0.28
51 2 0.04
52 12 0.21
53 26 0.46
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (50 bp):
TTTAAATTGTTTTAGATATATTATTTTAAATTATTTTATATACTATACAC
Done.