Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 27 of 190
Found at i:7667710 original size:29 final size:29
Alignment explanation
Indices: 7667655--7667710 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
7667645 TAAGTTATTT
* *
7667655 TTAAATTTGTATGTTTTATTTATGTTTAC
1 TTAAATTTGTATGTTTCAATTATGTTTAC
*
7667684 TTAAATTTGTTTGGTTTCAATTA-GTTT
1 TTAAATTTGTAT-GTTTCAATTATGTTT
7667711 TCTCTTACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 15 0.65
30 8 0.35
ACGTcount: A:0.23, C:0.04, G:0.12, T:0.61
Consensus pattern (29 bp):
TTAAATTTGTATGTTTCAATTATGTTTAC
Found at i:7669588 original size:22 final size:21
Alignment explanation
Indices: 7669561--7669601 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
7669551 CCTTGGATGT
7669561 TTTTAA-GTTGTTTGTAAGATTC
1 TTTTAAGGTT-TTTG-AAGATTC
7669583 TTTTAAGGTTTTTGAAGAT
1 TTTTAAGGTTTTTGAAGAT
7669602 GGGCAGTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 10 0.56
23 3 0.17
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.54
Consensus pattern (21 bp):
TTTTAAGGTTTTTGAAGATTC
Found at i:7675869 original size:8 final size:8
Alignment explanation
Indices: 7675858--7675924 Score: 53
Period size: 8 Copynumber: 7.5 Consensus size: 8
7675848 TTAATTTTTT
7675858 AAAATTTA
1 AAAATTTA
7675866 AAAATTTAA
1 AAAATTT-A
*
7675875 AAAATATAA
1 AAAAT-TTA
7675884 AAATATTTTTA
1 AAA-A--TTTA
*
7675895 AAAATTAA
1 AAAATTTA
7675903 AAAATCATTA
1 AAAAT--TTA
7675913 AAAATTTA
1 AAAATTTA
7675921 AAAA
1 AAAA
7675925 ATTATAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
8 22 0.46
9 10 0.21
10 10 0.21
11 5 0.10
12 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATTTA
Found at i:7675925 original size:19 final size:17
Alignment explanation
Indices: 7675858--7675927 Score: 63
Period size: 19 Copynumber: 3.9 Consensus size: 17
7675848 TTAATTTTTT
7675858 AAAATTT-AAAAATTTAA
1 AAAATTTAAAAAATTT-A
*
7675875 AAAATATAAAAATATTTTTA
1 AAAATTTAAAAA-A--TTTA
7675895 AAAA-TTAAAAAATCATTA
1 AAAATTTAAAAAAT--TTA
7675913 AAAATTTAAAAAATT
1 AAAATTTAAAAAATT
7675928 ATAATTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
16 1 0.02
17 7 0.16
18 12 0.27
19 16 0.36
20 5 0.11
21 3 0.07
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTTAAAAAATTTA
Found at i:7678700 original size:630 final size:623
Alignment explanation
Indices: 7677238--7678988 Score: 2343
Period size: 630 Copynumber: 2.7 Consensus size: 623
7677228 TTAAGTAGAA
* * * *
7677238 ATTTCCATGTCATATTTACACATAGATAGAAATTTTTTATATTACCTAATTTAGTTTTCGTTGTG
1 ATTTCCATGCCATATTTACACATGGATAGAAA-TTTCTATATTACCTAATTTAGTTATCGTTGTG
***
7677303 GTTGATAATAACAAGAAAAACTTAGGATGGATATTTTGATAAGCAGAAAAGGAGACACAAAATAT
65 GTTGATAATAACAAGAAAAACTTAGGACAAATATTTTGATAAGCAG-AAAGGAGACACAAAA-AT
* * * * *
7677368 TTTGATGTATACCGAAACGACATGATAAAGAATGATATAAAAGTTGATGGCTTCTGAAAGGGCAC
128 TTTGATGTATACAGAAACAACATGATAAA-AAAGATATAAAAGTTGATGGCTTCTGAAAGGACAT
* * * *
7677433 TAATGAATCAAAAGTTTTATATCTTATATCTGTGGAGGAAAATTGAAAGAGAGAGAGAGAGAGGA
192 TGATGAATCAAAAGTTTTATTTGTTATATATGTGG-GGAAAATTG-AA-A-A-A-A-A-AGAGGA
* * *
7677498 GGATATGATATATGTATATGTATATTAGTGGATTAATTGGAA-TAAGAATATAAATGGGATTAGA
249 GGATATGATATATGTATATGTATATAAGTGGATTGATT-GAAGTAAGAATATAAAT-GGATTGGA
*
7677562 ATTACCTTGGT-GGAAA-A---ATAGCATTGATGCTAGTAACATGAGAGAGGTTGTGTCATGATC
312 ATTACCTTGGTAGGAAATAGTTGTAGCATTGATGCTAGTAACATGAGAGAGGTTGTGTCATGATC
* *
7677622 TACCACCAGAATTGAAAAACTCTCACCACTATTGGTTCTTCTCATTTCCTCCATAGATGAAATTG
377 TACCACCAAAATTG-AAAACTCTCACCACAATT-G---TT-TC--TT-CT-C--AGATGAAATTG
* *
7677687 GATATGGGATTGATAGTTATGAGATAAAAAGAGAGAGGGGCTTTATGATATATTATTAGACCCAA
430 GGTATGGGATTGATAGTTATGAGATAAAAAGAGAGAGAGGCTTTATGATATATTATTAGACCCAA
** *
7677752 AAAAATTTAACCCCAAACTATTAACAAATGCCTTAAACAAACCACATTGCCACCTTAACATCATG
495 AAAAATTTAACCCCAAACTATTAACAAATGCCTTAAACAAACCACATCACCACCTTAACACCATG
* * *
7677817 TTTGGTTCATCTGAATAACTAAGCCATTCTGGGTGTATAGATCTAAATTAATACCAGCTGATTT
560 TTTGGTTCATCTGAATAACTAAGCCATTCCGGCTGTATACATCTAAATTAATACCAGCTGATTT
* * *
7677881 ATTTCCATGCCATATTTACACATGAATAGAAATTTAC-ATATTATCTAATTTAGTAATCGTTGTG
1 ATTTCCATGCCATATTTACACATGGATAGAAATTT-CTATATTACCTAATTTAGTTATCGTTGTG
* *
7677945 GTTGATAATAACAAGAAAAACTTAGGACATATATTTTGATAAGGAGAAAGGAGACACAAAAAATT
65 GTTGATAATAACAAGAAAAACTTAGGACAAATATTTTGATAAGCAGAAAGGAGACAC-AAAAATT
* *
7678010 TTGATGTATACAGAAACAACATGATAAAGAAGGATATAAAAGTTGATGGCTTCTGAAAGGATATT
129 TTGATGTATACAGAAACAACATGATAAA-AAAGATATAAAAGTTGATGGCTTCTGAAAGGACATT
* * *
7678075 GATGAATCAAAAGTTTTATTTGATATATATGTAAGGGAAAATTGAAAAAAAAAACTGGAGGATAT
193 GATGAATCAAAAGTTTTATTTGTTATATATGT-GGGGAAAATTGAAAAAAAAGA--GGAGGATAT
*
7678140 GATATATGTATATGTATATAAGTGGATTGATTGAAGTAAGAATATAAAGTGGATTGGAATTATCT
255 GATATATGTATATGTATATAAGTGGATTGATTGAAGTAAGAATATAAA-TGGATTGGAATTACCT
7678205 TGGTAGGAGAATAGTTGTAGCATTGATGCTAGTAACATGAGAGAGGTTGTGTCATGATCTACCAC
319 TGGTAGGA-AATAGTTGTAGCATTGATGCTAGTAACATGAGAGAGGTTGTGTCATGATCTACCAC
*
7678270 TAAAATTGAAAAGCTCTCACCACAATTGTTTCTTCTCAGATGAAATTGGGTATGGGATTGATAGT
383 CAAAATTGAAAA-CTCTCACCACAATTGTTTCTTCTCAGATGAAATTGGGTATGGGATTGATAGT
*
7678335 TATGAGATAAAAAGAGAGAGAAGG-TTTATGATATATTATTAGACCCAAAAAGATTTAACCCCAA
447 TATGAGATAAAAAGAGAGAG-AGGCTTTATGATATATTATTAGACCCAAAAAAATTTAACCCCAA
* *
7678399 ATTATTAACAAATGTCTTAAACAAACCACATCACCACCTTAACACCATGTTTGGTTCATCTGAAT
511 ACTATTAACAAATGCCTTAAACAAACCACATCACCACCTTAACACCATGTTTGGTTCATCTGAAT
* * *
7678464 AACTAAGCCATTCCGGCTGTTTACATCT-GATTAATACTAG-TAGATTT
576 AACTAAGCCATTCCGGCTGTATACATCTAAATTAATACCAGCT-GATTT
* * *
7678511 GTTTCCATGCCATATTTACACATGGATAGAAATTTCTATATTACCTAATTTAGTTATCATCGTGG
1 ATTTCCATGCCATATTTACACATGGATAGAAATTTCTATATTACCTAATTTAGTTATCGTTGTGG
* * * *
7678576 TCGATAATAACAAGAAAAATTTAGGACAAATTTTTTGATAAGTAGAAAGGAGACACGAAAAATTT
66 TTGATAATAACAAGAAAAACTTAGGACAAATATTTTGATAAGCAGAAAGGAGACAC-AAAAATTT
* * *
7678641 TGATGTATACAGAAACAACATAATAAAAAAGAATATAAAAGTTAATGGCTCCTGAAAGGACATTG
130 TGATGTATACAGAAACAACATGATAAAAAAG-ATATAAAAGTTGATGGCTTCTGAAAGGACATTG
* * *
7678706 ATGAATCAAAAGTTTTATTTGTTATATATGTGGGGAAAAATTGAAAAAAGAGAGGAGGACATGGT
194 ATGAATCAAAAGTTTTATTTGTTATATATGTGGGG-AAAATTGAAAAAAAAGAGGAGGATATGAT
7678771 ATATGTATATGCATATGCATATAAGTGGATTGATTGAAGTAAGAATATAAATGAGATTGGAATTA
258 ATATGTATATG----T--ATATAAGTGGATTGATTGAAGTAAGAATATAAATG-GATTGGAATTA
* * *
7678836 CCTTGGTAGGAAAATAGTTGTAGCATTGATGTTAATAACATGAGAGAGGTTGTGTCATGATCTGC
316 CCTTGGTAGG-AAATAGTTGTAGCATTGATGCTAGTAACATGAGAGAGGTTGTGTCATGATCTAC
*** * * * *
7678901 CACCAGAACCAGAAAACTCTAACCACAATTGCTTCTTCTCATATGAAATTGGGTATGAGATTGAT
380 CACCA-AAATTGAAAACTCTCACCACAATTGTTTCTTCTCAGATGAAATTGGGTATGGGATTGAT
*
7678966 AGTTATGAGATAAAAAGAAAGAG
444 AGTTATGAGATAAAAAGAGAGAG
7678989 GGAGTTTATG
Statistics
Matches: 998, Mismatches: 82, Indels: 65
0.87 0.07 0.06
Matches are distributed among these distances:
628 21 0.02
629 8 0.01
630 232 0.23
631 170 0.17
632 3 0.00
633 3 0.00
634 178 0.18
635 14 0.01
636 69 0.07
637 7 0.01
638 5 0.01
639 2 0.00
640 2 0.00
641 114 0.11
642 141 0.14
643 29 0.03
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (623 bp):
ATTTCCATGCCATATTTACACATGGATAGAAATTTCTATATTACCTAATTTAGTTATCGTTGTGG
TTGATAATAACAAGAAAAACTTAGGACAAATATTTTGATAAGCAGAAAGGAGACACAAAAATTTT
GATGTATACAGAAACAACATGATAAAAAAGATATAAAAGTTGATGGCTTCTGAAAGGACATTGAT
GAATCAAAAGTTTTATTTGTTATATATGTGGGGAAAATTGAAAAAAAAGAGGAGGATATGATATA
TGTATATGTATATAAGTGGATTGATTGAAGTAAGAATATAAATGGATTGGAATTACCTTGGTAGG
AAATAGTTGTAGCATTGATGCTAGTAACATGAGAGAGGTTGTGTCATGATCTACCACCAAAATTG
AAAACTCTCACCACAATTGTTTCTTCTCAGATGAAATTGGGTATGGGATTGATAGTTATGAGATA
AAAAGAGAGAGAGGCTTTATGATATATTATTAGACCCAAAAAAATTTAACCCCAAACTATTAACA
AATGCCTTAAACAAACCACATCACCACCTTAACACCATGTTTGGTTCATCTGAATAACTAAGCCA
TTCCGGCTGTATACATCTAAATTAATACCAGCTGATTT
Found at i:7682879 original size:5 final size:5
Alignment explanation
Indices: 7682869--7682894 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7682859 AAAAAATAGG
7682869 GGAAA GGAAA GGAAA GGAAA GGAAA G
1 GGAAA GGAAA GGAAA GGAAA GGAAA G
7682895 CGATGGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (5 bp):
GGAAA
Found at i:7683490 original size:90 final size:90
Alignment explanation
Indices: 7683393--7683653 Score: 427
Period size: 89 Copynumber: 2.9 Consensus size: 90
7683383 AAGAATATAA
* * *
7683393 AAGTTGATGGCTTCTGAAAGGACATTGATGAATCAAAAGTTTTATTTCTTATATATGTGGGGGGA
1 AAGTTGATGGCTTCTTAAAGGACATTGATGAATCAAAAATTTTATTTCTTATATATGTGGGGGAA
7683458 AATTGAAAAAAAAGAAGAAG-AAGAG
66 AATTGAAAAAAAAGAA-AAGAAAGAG
*
7683483 AAGTTGATGGTTTCTTAAAGGACATTGATGAATCAAAAATTTTATTTCTTATATATGTGGGGGAA
1 AAGTTGATGGCTTCTTAAAGGACATTGATGAATCAAAAATTTTATTTCTTATATATGTGGGGGAA
7683548 AATTGAAAAAAAA-AAAAGAAAGAG
66 AATTGAAAAAAAAGAAAAGAAAGAG
** *
7683572 AAGTTGATGGCTTCTTAATCGACATTGATGAATCAAAAATTTTATTTCTTATATATGTGGGGAAA
1 AAGTTGATGGCTTCTTAAAGGACATTGATGAATCAAAAATTTTATTTCTTATATATGTGGGGGAA
*
7683637 AATTGAAAAAAGAGAAA
66 AATTGAAAAAAAAGAAA
7683654 TGATGATATG
Statistics
Matches: 160, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
88 3 0.02
89 80 0.50
90 77 0.48
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (90 bp):
AAGTTGATGGCTTCTTAAAGGACATTGATGAATCAAAAATTTTATTTCTTATATATGTGGGGGAA
AATTGAAAAAAAAGAAAAGAAAGAG
Found at i:7685237 original size:9 final size:9
Alignment explanation
Indices: 7685223--7685347 Score: 59
Period size: 10 Copynumber: 13.8 Consensus size: 9
7685213 TAAAATTTAT
7685223 TTTAAAATA
1 TTTAAAATA
7685232 TTTAAAATA
1 TTTAAAATA
7685241 TTTTAAAATA
1 -TTTAAAATA
*
7685251 TTTTAAAT-
1 TTTAAAATA
* *
7685259 TTAAAAAAA
1 TTTAAAATA
*
7685268 TTAAAAAAGTA
1 TT-TAAAA-TA
7685279 TTTTAAAAATA
1 -TTT-AAAATA
*
7685290 TTTTAAA-A
1 TTTAAAATA
7685298 -TTAATAA-A
1 TTTAA-AATA
7685306 -TTAAAA-A
1 TTTAAAATA
7685313 -TTAAAAGTA
1 TTTAAAA-TA
*
7685322 TGTAAAAATA
1 T-TTAAAATA
7685332 TTTTAAAAT-
1 -TTTAAAATA
7685341 TTTAAAA
1 TTTAAAA
7685348 AATATTTATT
Statistics
Matches: 94, Mismatches: 10, Indels: 25
0.73 0.08 0.19
Matches are distributed among these distances:
7 12 0.13
8 20 0.21
9 22 0.23
10 25 0.27
11 9 0.10
12 6 0.06
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (9 bp):
TTTAAAATA
Found at i:7685245 original size:10 final size:10
Alignment explanation
Indices: 7685220--7685298 Score: 76
Period size: 10 Copynumber: 8.1 Consensus size: 10
7685210 AATTAAAATT
7685220 TATTTTAAAA
1 TATTTTAAAA
7685230 TA-TTTAAAA
1 TATTTTAAAA
7685239 TATTTTAAAA
1 TATTTTAAAA
7685249 TATTTT--AA
1 TATTTTAAAA
*
7685257 -ATTTAAAAA
1 TATTTTAAAA
* **
7685266 AATTAAAAAA
1 TATTTTAAAA
7685276 GTATTTTAAAAA
1 -TATTTT-AAAA
7685288 TATTTTAAAA
1 TATTTTAAAA
7685298 T
1 T
7685299 TAATAAATTA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
7 4 0.07
8 2 0.03
9 11 0.19
10 28 0.48
11 9 0.16
12 4 0.07
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:7685823 original size:27 final size:27
Alignment explanation
Indices: 7685776--7685829 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
7685766 TTTTAAAATT
* *
7685776 TTAAATTTAAAATATTATAAAATTATC
1 TTAAAATTAAAATATTATAAAAATATC
*
7685803 TTAAAATTAAAA-ATTGTTAAAAATATC
1 TTAAAATTAAAATATT-ATAAAAATATC
7685830 ATATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (27 bp):
TTAAAATTAAAATATTATAAAAATATC
Found at i:7688059 original size:21 final size:22
Alignment explanation
Indices: 7687987--7688061 Score: 98
Period size: 22 Copynumber: 3.5 Consensus size: 22
7687977 TGTGTCATAG
**
7687987 TCACATGACCGTGTGCCTCCTT
1 TCACATGGGCGTGTGCCTCCTT
* *
7688009 TCACACGGGCATGTGCCTCCTT
1 TCACATGGGCGTGTGCCTCCTT
7688031 TCACATGGGCGTGTGCCTCC-T
1 TCACATGGGCGTGTGCCTCCTT
*
7688052 TCATATGGGC
1 TCACATGGGC
7688062 ATGTTGACCC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 10 0.22
22 36 0.78
ACGTcount: A:0.13, C:0.33, G:0.24, T:0.29
Consensus pattern (22 bp):
TCACATGGGCGTGTGCCTCCTT
Found at i:7694969 original size:17 final size:18
Alignment explanation
Indices: 7694937--7694973 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
7694927 CCACACGGGC
*
7694937 TAGGCCAGATTGGGCGTG
1 TAGGCCACATTGGGCGTG
7694955 TAGGCCACA-TGGGCGTG
1 TAGGCCACATTGGGCGTG
7694972 TA
1 TA
7694974 AGTTTTGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.19, C:0.19, G:0.41, T:0.22
Consensus pattern (18 bp):
TAGGCCACATTGGGCGTG
Found at i:7700033 original size:18 final size:17
Alignment explanation
Indices: 7699999--7700033 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7699989 ATCATGGTGT
*
7699999 TTGTTAGTGGGATTTAG
1 TTGTTAGTGGGAGTTAG
7700016 TTGTTAGTGGGGAGTTAG
1 TTGTTAGT-GGGAGTTAG
7700034 GCTATTCTTC
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:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (17 bp):
TTGTTAGTGGGAGTTAG
Found at i:7710968 original size:7 final size:7
Alignment explanation
Indices: 7710956--7710986 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
7710946 CTTAAAACAA
7710956 ATTTACC
1 ATTTACC
7710963 ATTTACC
1 ATTTACC
7710970 ATTTACC
1 ATTTACC
7710977 ATTTACC
1 ATTTACC
7710984 ATT
1 ATT
7710987 GGTGTCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTTACC
Found at i:7711227 original size:66 final size:66
Alignment explanation
Indices: 7711122--7711257 Score: 256
Period size: 66 Copynumber: 2.1 Consensus size: 66
7711112 GGTAAATAAG
7711122 TTCA-TTTTTTTTATTTCTCTTTAGTGTAAATTATTTCATTGAAGTCTAAGTGATGTTGCAATTA
1 TTCATTTTTTTTTATTTCTCTTTAGTGTAAATTATTTCATTGAAGTCTAAGTGATGTTGCAATTA
7711186 C
66 C
7711187 TTCATTTTTTTTTATTTCTCTTTAGTGTAAATTATTTCATTGAAGTCTAAGTGATGTTGCAATTA
1 TTCATTTTTTTTTATTTCTCTTTAGTGTAAATTATTTCATTGAAGTCTAAGTGATGTTGCAATTA
7711252 C
66 C
*
7711253 CTCAT
1 TTCAT
7711258 CCATATCAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 4 0.06
66 65 0.94
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (66 bp):
TTCATTTTTTTTTATTTCTCTTTAGTGTAAATTATTTCATTGAAGTCTAAGTGATGTTGCAATTA
C
Found at i:7711838 original size:47 final size:48
Alignment explanation
Indices: 7711768--7711863 Score: 176
Period size: 47 Copynumber: 2.0 Consensus size: 48
7711758 CTCCCCTGGT
7711768 AGAAAATTTTTCATATAAGAAATTGAAAGCTTGTTACTCAAATGTTAA
1 AGAAAATTTTTCATATAAGAAATTGAAAGCTTGTTACTCAAATGTTAA
*
7711816 AGAAAA-TTTTCATATAATAAATTGAAAGCTTGTTACTCAAATGTTAA
1 AGAAAATTTTTCATATAAGAAATTGAAAGCTTGTTACTCAAATGTTAA
7711863 A
1 A
7711864 ATTGAATAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 41 0.87
48 6 0.13
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.35
Consensus pattern (48 bp):
AGAAAATTTTTCATATAAGAAATTGAAAGCTTGTTACTCAAATGTTAA
Found at i:7712398 original size:6 final size:6
Alignment explanation
Indices: 7712387--7712450 Score: 119
Period size: 6 Copynumber: 10.7 Consensus size: 6
7712377 AAAAATGAGG
*
7712387 ATATGT ATATGT ATATGT ATAGGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
7712435 ATATGT ATATGT ATAT
1 ATATGT ATATGT ATAT
7712451 AAGTAGATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (6 bp):
ATATGT
Found at i:7715632 original size:16 final size:16
Alignment explanation
Indices: 7715611--7715644 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
7715601 AATGGAGTTA
7715611 CAATTGAGATTGAATC
1 CAATTGAGATTGAATC
7715627 CAATTGAGATTGAATC
1 CAATTGAGATTGAATC
7715643 CA
1 CA
7715645 GACTCTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (16 bp):
CAATTGAGATTGAATC
Found at i:7717692 original size:30 final size:30
Alignment explanation
Indices: 7717657--7717717 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
7717647 CAGATTTTAG
7717657 GAGCCACACGGGCTAGACACACACCCATGT
1 GAGCCACACGGGCTAGACACACACCCATGT
* *
7717687 GAGCCACACGGGCTAGACACACGCCTATGT
1 GAGCCACACGGGCTAGACACACACCCATGT
7717717 G
1 G
7717718 CCAGCCCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.34, G:0.26, T:0.11
Consensus pattern (30 bp):
GAGCCACACGGGCTAGACACACACCCATGT
Found at i:7725987 original size:28 final size:28
Alignment explanation
Indices: 7725938--7725994 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
7725928 AAAACATAGA
* *
7725938 GGTAGAAAGGAATAGTTTCAATTGATAT
1 GGTAGAAAGGAATAGTTCCAATTCATAT
7725966 GGTAGAAAGGAATAAG-TCCAATTCATAT
1 GGTAGAAAGGAAT-AGTTCCAATTCATAT
7725994 G
1 G
7725995 AAAATTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (28 bp):
GGTAGAAAGGAATAGTTCCAATTCATAT
Found at i:7750910 original size:61 final size:62
Alignment explanation
Indices: 7750758--7750981 Score: 181
Period size: 62 Copynumber: 3.6 Consensus size: 62
7750748 TCGTCTGCCC
* * * * * * *
7750758 GTGTGGTC-CTAAATCGCAAACAGTGAGTCATACGGTCT-GAGCGCACGCCCGTGTCTCTGACCT
1 GTGTGGTCTCT-AATAGC-AACAGTGAGTCACACGGCCTAGA-CACACACTCGTGTCTCT-AGCT
7750821 A
62 A
* * * * * * *
7750822 -CGTGGTCTTTAATAGTAATAGTAAGTCACACGGCCTGGACACA-AGCAT-GTGTCTCTGGC-A
1 GTGTGGTCTCTAATAGCAACAGTGAGTCACACGGCCTAGACACACA-C-TCGTGTCTCTAGCTA
* *
7750882 GTGTGGTCTCTAATAGCAACAGTGAGTCATACGGCCTAGACACACACTCGTGTCTCTAGCTC
1 GTGTGGTCTCTAATAGCAACAGTGAGTCACACGGCCTAGACACACACTCGTGTCTCTAGCTA
* * *
7750944 GTGTGGTCTCTAATAGCAACGGTGAGTTACACGACCTA
1 GTGTGGTCTCTAATAGCAACAGTGAGTCACACGGCCTA
7750982 CCACACGGCC
Statistics
Matches: 126, Mismatches: 26, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
60 2 0.02
61 48 0.38
62 63 0.50
63 12 0.10
64 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (62 bp):
GTGTGGTCTCTAATAGCAACAGTGAGTCACACGGCCTAGACACACACTCGTGTCTCTAGCTA
Found at i:7752028 original size:18 final size:20
Alignment explanation
Indices: 7751984--7752030 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
7751974 ATCCTCCTTC
7751984 TCCTCATCACCTCAGATCTA
1 TCCTCATCACCTCAGATCTA
** *
7752004 TAATCATC-CTTC-GATCTA
1 TCCTCATCACCTCAGATCTA
7752022 TCCTCATCA
1 TCCTCATCA
7752031 GGCTCTTTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
18 12 0.57
19 3 0.14
20 6 0.29
ACGTcount: A:0.26, C:0.36, G:0.04, T:0.34
Consensus pattern (20 bp):
TCCTCATCACCTCAGATCTA
Found at i:7752220 original size:25 final size:27
Alignment explanation
Indices: 7752161--7752223 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
7752151 AGAAAATGGA
*
7752161 GTGAACAAAATCAAAATCATGGAAAAT
1 GTGAACAAAATCAAAACCATGGAAAAT
7752188 GTGAACAAAAT-AAAACCAT-G-AAAT
1 GTGAACAAAATCAAAACCATGGAAAAT
*
7752212 CGTGGACAAAAT
1 -GTGAACAAAAT
7752224 TATGTGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 4 0.12
25 11 0.33
26 7 0.21
27 11 0.33
ACGTcount: A:0.54, C:0.13, G:0.16, T:0.17
Consensus pattern (27 bp):
GTGAACAAAATCAAAACCATGGAAAAT
Found at i:7752939 original size:6 final size:6
Alignment explanation
Indices: 7752925--7752957 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
7752915 TTACGTTAAT
*
7752925 TATATA TATAAA TATAAA TATAAA TATAAA TAT
1 TATAAA TATAAA TATAAA TATAAA TATAAA TAT
7752958 TTATTTACGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (6 bp):
TATAAA
Found at i:7758520 original size:23 final size:23
Alignment explanation
Indices: 7758498--7758552 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
7758488 CTATTTAATA
*
7758498 ATAAATATTTTAA-AGTATAAAT
1 ATAAATATTTTAACAATATAAAT
*
7758520 ATGAATATTTTAACAATATAAAT
1 ATAAATATTTTAACAATATAAAT
*
7758543 ATAAGTATTT
1 ATAAATATTT
7758553 GTGTAAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (23 bp):
ATAAATATTTTAACAATATAAAT
Found at i:7758884 original size:20 final size:18
Alignment explanation
Indices: 7758846--7758898 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
7758836 CATCCAAACA
* *
7758846 CCAAAAAGAATTAACTTTT
1 CCAAAAATAATTTA-TTTT
*
7758865 CCGGAAAATCAATTTATTTT
1 CC-AAAAAT-AATTTATTTT
7758885 CCAAAAATAATTTA
1 CCAAAAATAATTTA
7758899 CCGAAAACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 6 0.21
19 7 0.25
20 10 0.36
21 5 0.18
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (18 bp):
CCAAAAATAATTTATTTT
Found at i:7759429 original size:27 final size:26
Alignment explanation
Indices: 7759389--7759444 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 26
7759379 AAGAAAGAAA
*
7759389 AAGAAAAAGAGAAGAGACAAGATTTT
1 AAGAAAAAGAGAAGAGACAAGATTAT
7759415 AAGAAAAATGAGAAGAGACAAGATTAT
1 AAGAAAAA-GAGAAGAGACAAGATTAT
7759442 AAG
1 AAG
7759445 TGCATAGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.59, C:0.04, G:0.23, T:0.14
Consensus pattern (26 bp):
AAGAAAAAGAGAAGAGACAAGATTAT
Found at i:7767847 original size:5 final size:5
Alignment explanation
Indices: 7767837--7767861 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7767827 GGCAGGGGGA
7767837 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
7767862 CAGGAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:7772191 original size:33 final size:33
Alignment explanation
Indices: 7772141--7772215 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 33
7772131 AAACTAATCC
* *
7772141 TCTCTCAAATTTCCTCTC-AATTTCTTCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCCAAATT
*
7772174 TCCTCTCAATTTGCTCTCAAATTCCTTCCAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCCAAATT
7772208 TCTCTCAA
1 TCTCTCAA
7772216 ATTCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 18 0.49
34 19 0.51
ACGTcount: A:0.24, C:0.31, G:0.01, T:0.44
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCCAAATT
Found at i:7772216 original size:11 final size:11
Alignment explanation
Indices: 7772141--7772218 Score: 74
Period size: 11 Copynumber: 7.0 Consensus size: 11
7772131 AAACTAATCC
7772141 TCTCTCAAATT
1 TCTCTCAAATT
7772152 TCCTCTC-AATT
1 T-CTCTCAAATT
7772163 TCT-TCTAAATT
1 TCTCTC-AAATT
7772174 TCCTCTC-AATT
1 T-CTCTCAAATT
7772185 TGCTCTCAAATT
1 T-CTCTCAAATT
*
7772197 CCT-TCCAAATT
1 TCTCT-CAAATT
7772208 TCTCTCAAATT
1 TCTCTCAAATT
7772219 CATATTTAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
9 2 0.04
10 3 0.05
11 37 0.66
12 12 0.21
13 2 0.04
ACGTcount: A:0.24, C:0.29, G:0.01, T:0.45
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:7772219 original size:22 final size:22
Alignment explanation
Indices: 7772141--7772218 Score: 99
Period size: 22 Copynumber: 3.5 Consensus size: 22
7772131 AAACTAATCC
7772141 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAATTTCCTCTCAATT
7772163 TCT-TCTAAATTTCCTCTCAATT
1 TCTCTC-AAATTTCCTCTCAATT
7772185 TGCTCTCAAA-TTCCT-TCCAAATT
1 T-CTCTCAAATTTCCTCT-C-AATT
7772208 TCTCTCAAATT
1 TCTCTCAAATT
7772219 CATATTTAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
21 3 0.06
22 34 0.68
23 11 0.22
24 2 0.04
ACGTcount: A:0.24, C:0.29, G:0.01, T:0.45
Consensus pattern (22 bp):
TCTCTCAAATTTCCTCTCAATT
Found at i:7774108 original size:18 final size:18
Alignment explanation
Indices: 7774081--7774120 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7774071 CAGGTGCGTT
* *
7774081 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
7774099 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
7774117 TCCT
1 TCCT
7774121 TTTTCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:7774637 original size:22 final size:22
Alignment explanation
Indices: 7774587--7775042 Score: 363
Period size: 23 Copynumber: 20.3 Consensus size: 22
7774577 TTGAGTTATT
7774587 ACTTAAAAACCCTAAACCCTTAA
1 ACTTAAAAACCCTAAACCCTT-A
*
7774610 AATTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
* **
7774632 ACTTAAAAACCATAAACTAATTTA
1 ACTTAAAAACCCTAAAC--CCTTA
*
7774656 A-TTAAAAACACTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
*
7774677 ACTTAAAAA-CCTTAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
* *
7774698 AATTAAAAACACTAAACCCTTAA
1 ACTTAAAAACCCTAAACCCTT-A
*
7774721 AATTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
*
7774743 ACTTAAAAAACCTAAACCCTTAA
1 ACTTAAAAACCCTAAACCCTT-A
**
7774766 AAATAAAAACCCTAAACCCTAACCCTTA
1 ACTTAAAAACCCT--A----AACCCTTA
* **
7774794 GCTTAAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCTAAAC--CCTTA
***
7774818 A-TTAAAAATTTTAAACCCTTAA
1 ACTTAAAAACCCTAAACCCTT-A
* * **
7774840 ACATAAAAAACCTAAACTAATTTA
1 ACTTAAAAACCCTAAAC--CCTTA
*
7774864 A-TTAAAAACCCTAAACCATTA
1 ACTTAAAAACCCTAAACCCTTA
** *
7774885 ACTTAAAAACCCTAAACTAATTT
1 ACTTAAAAACCCTAAAC-CCTTA
7774908 ACTTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
*
7774930 ACTTAAAAACCCT-AACCCTCA
1 ACTTAAAAACCCTAAACCCTTA
* *
7774951 ACTTAAAAA-TCTTAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
*
7774972 ACTTAAAAACCCTTAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
* *** *
7774994 ACTTTAAAATTTTAAA--CTAGA
1 ACTTAAAAACCCTAAACCCT-TA
*
7775015 ACTTAAAAACCAT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
7775036 ACTTAAA
1 ACTTAAA
7775043 TTTATTTGAT
Statistics
Matches: 347, Mismatches: 61, Indels: 52
0.75 0.13 0.11
Matches are distributed among these distances:
20 6 0.02
21 78 0.22
22 111 0.32
23 121 0.35
24 9 0.03
25 3 0.01
26 1 0.00
28 11 0.03
29 7 0.02
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (22 bp):
ACTTAAAAACCCTAAACCCTTA
Found at i:7774637 original size:45 final size:44
Alignment explanation
Indices: 7774587--7775042 Score: 363
Period size: 45 Copynumber: 10.2 Consensus size: 44
7774577 TTGAGTTATT
*
7774587 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTT-AACTTAAAAACCCTAAACCCTTA
* ** *
7774632 ACTTAAAAACCATAAACTAATTTAA-TTAAAAACACTAAACCCTTA
1 ACTTAAAAACCCTAAAC--CCTTAACTTAAAAACCCTAAACCCTTA
* * *
7774677 ACTTAAAAA-CCTTAACCCTTAAATTAAAAACACTAAACCCTTAA
1 ACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTT-A
* *
7774721 AATTAAAAACCCTAAACCCTTAACTTAAAAAACCTAAACCCTTAA
1 ACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTT-A
** * **
7774766 AAATAAAAACCCTAAACCCTAACCCTTAGCTTAAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCT--A----AACCCTTAACTTAAAAACCCTAAAC--CCTTA
*** * * **
7774818 A-TTAAAAATTTTAAACCCTTAAACATAAAAAACCTAAACTAATTTA
1 ACTTAAAAACCCTAAACCCTT-AACTTAAAAACCCTAAAC--CCTTA
* ** *
7774864 A-TTAAAAACCCTAAACCATTAACTTAAAAACCCTAAACTAATTT
1 ACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAAC-CCTTA
*
7774908 ACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTCA
1 ACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTA
* * *
7774951 ACTTAAAAA-TCTTAACCCTTAACTTAAAAACCCTTAACCCTTA
1 ACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTA
* *** * *
7774994 ACTTTAAAATTTTAAA--CTAGAACTTAAAAACCAT-AACCCTTA
1 ACTTAAAAACCCTAAACCCT-TAACTTAAAAACCCTAAACCCTTA
7775036 ACTTAAA
1 ACTTAAA
7775043 TTTATTTGAT
Statistics
Matches: 345, Mismatches: 48, Indels: 39
0.80 0.11 0.09
Matches are distributed among these distances:
42 43 0.12
43 57 0.17
44 25 0.07
45 142 0.41
46 40 0.12
47 3 0.01
49 1 0.00
51 30 0.09
52 2 0.01
53 2 0.01
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (44 bp):
ACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTA
Found at i:7774885 original size:21 final size:22
Alignment explanation
Indices: 7774779--7775042 Score: 193
Period size: 21 Copynumber: 12.0 Consensus size: 22
7774769 TAAAAACCCT
*
7774779 AAACCCT-AACCCTTAGCTTAA
1 AAACCCTAAACCCTTAACTTAA
**
7774800 AAACCCTAAACTAATTTAA-TTAA
1 AAACCCTAAAC--CCTTAACTTAA
*** *
7774823 AAATTTTAAACCCTTAAACATAA
1 AAACCCTAAACCCTT-AACTTAA
* **
7774846 AAAACCTAAACTAATTTAA-TTAA
1 AAACCCTAAAC--CCTTAACTTAA
*
7774869 AAACCCTAAACCATTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
** *
7774891 AAACCCTAAACTAATTTACTTAA
1 AAACCCTAAAC-CCTTAACTTAA
7774914 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
7774936 AAACCCT-AACCCTCAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
7774957 AAA-TCTTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
7774978 AAACCCTTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*** *
7775000 AAATTTTAAA--CTAGAACTTAA
1 AAACCCTAAACCCT-TAACTTAA
*
7775021 AAACCAT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
7775042 A
1 A
7775043 TTTATTTGAT
Statistics
Matches: 191, Mismatches: 38, Indels: 28
0.74 0.15 0.11
Matches are distributed among these distances:
20 6 0.03
21 63 0.33
22 59 0.31
23 56 0.29
24 5 0.03
25 2 0.01
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:7774905 original size:91 final size:89
Alignment explanation
Indices: 7774779--7774944 Score: 242
Period size: 91 Copynumber: 1.8 Consensus size: 89
7774769 TAAAAACCCT
* * ***
7774779 AAACCCTAACCCTTAGCTTAAAAACCCTAAACTAATTTAATTAAAAATTTTAAACCCTTAAACAT
1 AAACCCTAACCATTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTT-AACAT
7774844 AAAAAACCTAAACTAATTTAATTAA
65 AAAAAACCTAAACTAATTTAATTAA
* *
7774869 AAACCCTAAACCATTAACTTAAAAACCCTAAACTAATTTACTTAAAAACCCTAAACCCTTAACTT
1 AAACCCT-AACCATTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAACAT
*
7774934 AAAAACCCTAA
65 AAAAAACCTAA
7774945 CCCTCAACTT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
90 21 0.31
91 46 0.69
ACGTcount: A:0.49, C:0.23, G:0.01, T:0.27
Consensus pattern (89 bp):
AAACCCTAACCATTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAACATA
AAAAACCTAAACTAATTTAATTAA
Found at i:7774990 original size:64 final size:64
Alignment explanation
Indices: 7774779--7775042 Score: 185
Period size: 64 Copynumber: 4.0 Consensus size: 64
7774769 TAAAAACCCT
* * ***
7774779 AAACCCT-AACCCTTAGCTTAAAAACCCTAAACTA-ATTTAATTAAAAATTTTAAACCCTTAAAC
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACTACA---ACTTAAAAACCAT-AACCCTT-AAC
*
7774842 ATAA
61 TTAA
* ** * * * ** *
7774846 AAAACCTAAACTAATTTAA-TTAAAAACCCTAAACCATTAACTTAAAAACCCTAAACTAATTTAC
1 AAACCCTAAAC--CCTTAACTTAAAAACCCTAAACTA-CAACTTAAAAACCAT-AAC-CCTTAAC
7774910 TTAA
61 TTAA
* * *
7774914 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCT-CAACTTAAAAATCTTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAA-ACTACAACTTAAAAACCATAACCCTTAACTTAA
* * *** *
7774978 AAACCCTTAACCCTTAACTTTAAAATTTTAAACTAGAACTTAAAAACCATAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACTACAACTTAAAAACCATAACCCTTAACTTAA
7775042 A
1 A
7775043 TTTATTTGAT
Statistics
Matches: 155, Mismatches: 33, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
63 2 0.01
64 61 0.39
65 3 0.02
66 16 0.10
67 19 0.12
68 32 0.21
69 18 0.12
70 3 0.02
71 1 0.01
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (64 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAAACTACAACTTAAAAACCATAACCCTTAACTTAA
Found at i:7779645 original size:51 final size:51
Alignment explanation
Indices: 7779590--7779687 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
7779580 AATTATTTAA
*
7779590 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTCAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * *
7779641 AAATATGGATTCAAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTCAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
7779688 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.47, C:0.04, G:0.23, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTCAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:7779687 original size:11 final size:11
Alignment explanation
Indices: 7779663--7779718 Score: 69
Period size: 11 Copynumber: 5.2 Consensus size: 11
7779653 AAGAGAAATT
*
7779663 TTGA-AGGAAT
1 TTGAGAGGAAA
*
7779673 TTGAGAGCAAA
1 TTGAGAGGAAA
7779684 TTGAGAGGAAA
1 TTGAGAGGAAA
* *
7779695 TTTAGAAGAAA
1 TTGAGAGGAAA
7779706 TTGAGAGGAAA
1 TTGAGAGGAAA
7779717 TT
1 TT
7779719 TTAGATAAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
10 4 0.11
11 34 0.89
ACGTcount: A:0.45, C:0.02, G:0.29, T:0.25
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:7781376 original size:41 final size:40
Alignment explanation
Indices: 7781346--7781602 Score: 327
Period size: 41 Copynumber: 6.3 Consensus size: 40
7781336 GGTGCTTTAC
* *
7781346 GTAAAACGCCGCTAATGCTCAGATCTTTAGCGGCGTTTAT
1 GTAAAACGCCGCTAATGCTCAGTTCTTTAGCGGCGTTTTT
* * * *
7781386 GGAGAAGCGCCGCTAATGCTCAGATCTTTAGC-GCATTTTT
1 GTA-AAACGCCGCTAATGCTCAGTTCTTTAGCGGCGTTTTT
* * * *
7781426 GGAGAAGCGCCACTAATGCTCAGTTCTTTAGCGGTGTTTTT
1 GTA-AAACGCCGCTAATGCTCAGTTCTTTAGCGGCGTTTTT
7781467 GTAAAAGCGCCGCTAATGCTCAGTTCTTTAGCGGCGTTTTT
1 GTAAAA-CGCCGCTAATGCTCAGTTCTTTAGCGGCGTTTTT
7781508 GTAAAAGCGCCGCTAATGCTCAGTTCTTTAGCGGCGTTTTT
1 GTAAAA-CGCCGCTAATGCTCAGTTCTTTAGCGGCGTTTTT
* * *
7781549 GTAACAGCGCCGCTAATACTTAGTTCTTTAGCGGCGTTTTT
1 GTAA-AACGCCGCTAATGCTCAGTTCTTTAGCGGCGTTTTT
*
7781590 GAAAAAGCGCCGC
1 GTAAAA-CGCCGC
7781603 AAGAACATTT
Statistics
Matches: 195, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
40 41 0.21
41 153 0.78
42 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (40 bp):
GTAAAACGCCGCTAATGCTCAGTTCTTTAGCGGCGTTTTT
Found at i:7781732 original size:88 final size:89
Alignment explanation
Indices: 7781626--7781804 Score: 324
Period size: 88 Copynumber: 2.0 Consensus size: 89
7781616 CTGTCTATTT
*
7781626 ACTATTTAATTTATTTATTTATATTAATTAAAATTCAATTTATTTTTAATTTAATATTTGTT-AA
1 ACTATTTAATTTATTTATTTATATTAATTAAAATTCAATTTATTTTTAATTGAATATTTGTTAAA
7781690 AATAGATAAATTTGAAATAATGAC
66 AATAGATAAATTTGAAATAATGAC
*
7781714 ACTATTTAATTTGTTTATTTATATTAATTAAAATTCAATTTATTTTTAATTGAATATTTGTTAAA
1 ACTATTTAATTTATTTATTTATATTAATTAAAATTCAATTTATTTTTAATTGAATATTTGTTAAA
*
7781779 AATGGATAAATTTGAAATAATGAC
66 AATAGATAAATTTGAAATAATGAC
7781803 AC
1 AC
7781805 GTAGAAATAA
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
88 60 0.69
89 27 0.31
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (89 bp):
ACTATTTAATTTATTTATTTATATTAATTAAAATTCAATTTATTTTTAATTGAATATTTGTTAAA
AATAGATAAATTTGAAATAATGAC
Found at i:7782123 original size:14 final size:15
Alignment explanation
Indices: 7782095--7782127 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
7782085 AAGGTTTATA
7782095 GATTATGGAATTAGG
1 GATTATGGAATTAGG
7782110 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
7782124 GATT
1 GATT
7782128 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:7782365 original size:83 final size:82
Alignment explanation
Indices: 7782221--7782372 Score: 250
Period size: 83 Copynumber: 1.8 Consensus size: 82
7782211 TTTAGTGTCA
* *
7782221 GGTTAGGATTTAGGGTTTAGATTAATTAGTATATTTTAATTTATATATTAAATAATGTTTAGGGG
1 GGTTAGGATTTAGGATTTAGATTAATTAGTATATTTTAATTTATATATTAAATAAGGTTTAGGGG
7782286 TTAGAGATTCAGGGTCG
66 TTAGAGATTCAGGGTCG
* * *
7782303 GGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTTAATTTATATATTAAATAAGGTTTAGGG
1 GGTTAGGATTTAGGATTTAGATTAATTAGT-ATATTTTAATTTATATATTAAATAAGGTTTAGGG
7782368 GTTAG
65 GTTAG
7782373 TTGTCAGAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
82 28 0.44
83 36 0.56
ACGTcount: A:0.30, C:0.01, G:0.24, T:0.45
Consensus pattern (82 bp):
GGTTAGGATTTAGGATTTAGATTAATTAGTATATTTTAATTTATATATTAAATAAGGTTTAGGGG
TTAGAGATTCAGGGTCG
Found at i:7782964 original size:7 final size:7
Alignment explanation
Indices: 7782948--7782986 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
7782938 AGATTATGGT
7782948 TTAGGGG
1 TTAGGGG
*
7782955 TTAGGAG
1 TTAGGGG
7782962 TTAGGGG
1 TTAGGGG
7782969 TTAGGGG
1 TTAGGGG
* *
7782976 CTAGGAG
1 TTAGGGG
7782983 TTAG
1 TTAG
7782987 ATTAATTAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.21, C:0.03, G:0.49, T:0.28
Consensus pattern (7 bp):
TTAGGGG
Found at i:7783370 original size:19 final size:19
Alignment explanation
Indices: 7783346--7783389 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
7783336 AATTATAAGA
*
7783346 AAAAATAAAATACAAAAAT
1 AAAAATAAAATAAAAAAAT
*
7783365 AAAAATGAAATAAAAAAAT
1 AAAAATAAAATAAAAAAAT
*
7783384 TAAAAT
1 AAAAAT
7783390 TTATAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (19 bp):
AAAAATAAAATAAAAAAAT
Found at i:7788838 original size:43 final size:43
Alignment explanation
Indices: 7788681--7788907 Score: 225
Period size: 43 Copynumber: 5.3 Consensus size: 43
7788671 TTTTTGTGAG
* *
7788681 AAGCGCCGCTAAAGGT-ATCGAGCTATAGCGACGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCAT-GAGCTATAGCGGCGTTTGTGGAAA
* * *
7788724 AAGCACCACTAAAGGT-ATGAGCTATAGCGACGTTTGTGGAAA
1 AAGCGCCGCTAAAGGTCATGAGCTATAGCGGCGTTTGTGGAAA
*
7788766 AAGCGCCGCTAAAGCTCATGAGCTATAGCGGCGTTTGTGGAAA
1 AAGCGCCGCTAAAGGTCATGAGCTATAGCGGCGTTTGTGGAAA
* * * * *
7788809 AAGCGCCGCTAAAGGTCAATG-TCTTTAGCGGCATTTGT-TAGAG
1 AAGCGCCGCTAAAGGTC-ATGAGCTATAGCGGCGTTTGTGGA-AA
* * **
7788852 AAGCGCCGCTATAGGTCATG-GCCTTTAGCGGCGCTTT-TCCAAA
1 AAGCGCCGCTAAAGGTCATGAG-CTATAGCGGCG-TTTGTGGAAA
7788895 AA-CGCCGCTAAAG
1 AAGCGCCGCTAAAG
7788908 ACCTTGACCT
Statistics
Matches: 159, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
42 50 0.31
43 102 0.64
44 7 0.04
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGAGCTATAGCGGCGTTTGTGGAAA
Found at i:7789051 original size:22 final size:22
Alignment explanation
Indices: 7789023--7789065 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
7789013 TAGTGGCGCT
*
7789023 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
7789045 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
7789066 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:7789325 original size:19 final size:19
Alignment explanation
Indices: 7789297--7789333 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
7789287 TTTTGGAGAA
7789297 TAAAAGTTT-GAGGGAAAG
1 TAAAAGTTTGGAGGGAAAG
7789315 TAAATAGTTTGGAGGGAAA
1 TAAA-AGTTTGGAGGGAAA
7789334 ATATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.24
Consensus pattern (19 bp):
TAAAAGTTTGGAGGGAAAG
Found at i:7789674 original size:9 final size:9
Alignment explanation
Indices: 7789657--7789693 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
7789647 TATAGTTTGA
7789657 TATTCGAAT
1 TATTCGAAT
*
7789666 TATTTGAAT
1 TATTCGAAT
*
7789675 TATTCGAGT
1 TATTCGAAT
7789684 TATTCGAAT
1 TATTCGAAT
7789693 T
1 T
7789694 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:7789761 original size:9 final size:9
Alignment explanation
Indices: 7789744--7789774 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7789734 TCGAGTTGAT
7789744 TCGAATAAC
1 TCGAATAAC
*
7789753 TCGATTAAC
1 TCGAATAAC
7789762 TCGAATAAC
1 TCGAATAAC
7789771 TCGA
1 TCGA
7789775 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:7797575 original size:13 final size:13
Alignment explanation
Indices: 7797559--7797622 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
7797549 TTTAAACCAA
7797559 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
7797572 ACTTCTCAAAATC
1 ACTTTTCAAAAGC
*
7797585 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
*
7797598 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
7797611 ACTTATCAAAAG
1 ACTTTTCAAAAG
7797623 TATTGCCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 4 0.10
13 34 0.81
14 4 0.10
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.31
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:7798886 original size:19 final size:20
Alignment explanation
Indices: 7798862--7798900 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
7798852 TTTTAAATAA
*
7798862 ATATATCTCAAA-TATAAAT
1 ATATATCTAAAATTATAAAT
*
7798881 ATATATTTAAAATTATAAAT
1 ATATATCTAAAATTATAAAT
7798901 TAAATTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATATCTAAAATTATAAAT
Found at i:7799449 original size:4 final size:4
Alignment explanation
Indices: 7799440--7799465 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
7799430 ATACTAGTGT
7799440 TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TA
7799466 CCCATCCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:7803090 original size:11 final size:11
Alignment explanation
Indices: 7803066--7803100 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
7803056 CACAAACTAA
7803066 TCCTCTCAAATT
1 TCCTCTC-AATT
7803078 TCCTCTCAATT
1 TCCTCTCAATT
7803089 TCCTCTCAATT
1 TCCTCTCAATT
7803100 T
1 T
7803101 TGGTGTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.20, C:0.34, G:0.00, T:0.46
Consensus pattern (11 bp):
TCCTCTCAATT
Found at i:7803761 original size:23 final size:23
Alignment explanation
Indices: 7803733--7803777 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7803723 TTTGGTGCTC
7803733 TTATTTTT-CTACTGTTTTTGTTG
1 TTATTTTTGCTA-TGTTTTTGTTG
*
7803756 TTATTTTTGCTATTTTTTTGTT
1 TTATTTTTGCTATGTTTTTGTT
7803778 ATTTATACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.09, C:0.07, G:0.11, T:0.73
Consensus pattern (23 bp):
TTATTTTTGCTATGTTTTTGTTG
Found at i:7805693 original size:12 final size:12
Alignment explanation
Indices: 7805676--7805701 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7805666 CAACACAGGC
7805676 TTTTAGCGGCGT
1 TTTTAGCGGCGT
7805688 TTTTAGCGGCGT
1 TTTTAGCGGCGT
7805700 TT
1 TT
7805702 ATTTTCCAAA
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:7806057 original size:112 final size:112
Alignment explanation
Indices: 7805770--7806098 Score: 391
Period size: 112 Copynumber: 2.9 Consensus size: 112
7805760 AAAATAAACA
* *
7805770 TTAGCGGCGATTTCT-AGAAAGCGCCGC-TAAAAACCTAAGCCCAACGACGCCGTTTTCGGAG-T
1 TTAGCGGCGATTT-TGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * * *
7805832 TTCT-GGGATTTTAGTTGCGTTTTCAAGAAAGCGCCCCAAAAGATCAGGGCT
65 TT-TGGGGA-TTTAGTGGTGTTTT-TAGAAAGCGCCGCAAAAGA-CAGGGCT
* * *
7805883 TTAGCGGCGTTTTTGAGAAAGCGCCACAAACAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGATTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
7805948 TTGGGGATTTAGCGGTGTTTTTAGTAAAGCGCCGCTAATG-CGAGGGCT
66 TTGGGGATTTAGTGGTGTTTTTAG-AAAGCGCCGCAAAAGAC-AGGGCT
* *
7805996 TTAGCGGCG-TTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTT
1 TTAGCGGCGATTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
7806060 TCGTGGATATAGTGGTGTTTTTAAGAAAGCGCCGCAAAA
66 TTGGGGATTTAGTGGTGTTTTT-AGAAAGCGCCGCAAAA
7806099 AAACCTAAAC
Statistics
Matches: 187, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
112 83 0.44
113 42 0.22
114 55 0.29
115 7 0.04
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (112 bp):
TTAGCGGCGATTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TTGGGGATTTAGTGGTGTTTTTAGAAAGCGCCGCAAAAGACAGGGCT
Found at i:7806219 original size:72 final size:73
Alignment explanation
Indices: 7805997--7806239 Score: 301
Period size: 73 Copynumber: 3.4 Consensus size: 73
7805987 GCGAGGGCTT
* * *
7805997 TAGCGGCG-TTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTTT
1 TAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
7806061 CGTGGATA
66 CGTGGATA
* * * * * *
7806069 TAGTGGTGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAACCCAACTACGTCGTTTTCTGATCTTT
1 TAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
* * *
7806134 TGGGGATT
66 CGTGGATA
** * **
7806142 TAGCGGCGTTTTTGGGAAAGCGCCGC-TAAAAACCTAAACGAAACGATGTCGTTTTTTGAGCTTT
1 TAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
7806206 CGTGGATA
66 CGTGGATA
* *
7806214 CAGCGGCGTTTTTAGGAAAGCGCCGC
1 TAGCGGCGTTTTTAAGAAAGCGCCGC
7806240 TAATGCTCAG
Statistics
Matches: 142, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
72 66 0.46
73 76 0.54
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (73 bp):
TAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
CGTGGATA
Found at i:7806242 original size:72 final size:73
Alignment explanation
Indices: 7805997--7806239 Score: 310
Period size: 72 Copynumber: 3.4 Consensus size: 73
7805987 GCGAGGGCTT
* * *
7805997 TAGCGGCGTTTTGA-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTTT
1 TAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
7806061 CGTGGATA
66 CGTGGATA
* * * * * * *
7806069 TAGTGGTGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAACCCAACTACGTCGTTTTCTGATCTTT
1 TAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
* * *
7806134 TGGGGATT
66 CGTGGATA
* * **
7806142 TAGCGGCGTTTTTGGGAAAGCGCCGC-TAAAAACCTAAACGAAACGATGTCGTTTTTTGAGCTTT
1 TAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
7806206 CGTGGATA
66 CGTGGATA
*
7806214 CAGCGGCGTTTTTAGGAAAGCGCCGC
1 TAGCGGCGTTTTTAGGAAAGCGCCGC
7806240 TAATGCTCAG
Statistics
Matches: 142, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
72 71 0.50
73 71 0.50
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (73 bp):
TAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
CGTGGATA
Found at i:7806346 original size:114 final size:113
Alignment explanation
Indices: 7806140--7806362 Score: 304
Period size: 114 Copynumber: 2.0 Consensus size: 113
7806130 CTTTTGGGGA
* * * *
7806140 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAAACCTAAACGAAACGATGTCGTTTTTTGAGCTT
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCAAAAAACCTAAACGAAACGATGCCGTTTTCTGAGCTT
*
7806205 TCGTGGATACAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGGC
66 TCGGGGATACAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGGC
* * *
7806253 TTTAGCGGCGTTTTTGGAAAAGCGCCGCAAAAAAACCTAAGC-ATAACGGTGCCGTTTTCTGATC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGC-AAAAAACCTAAACGA-AACGATGCCGTTTTCTGAGC
* * ** *
7806317 TTTTGGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
64 TTTCGGGGATACAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCA
7806363 AATAGTTTAA
Statistics
Matches: 95, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
113 28 0.29
114 67 0.71
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (113 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCAAAAAACCTAAACGAAACGATGCCGTTTTCTGAGCTT
TCGGGGATACAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGGC
Found at i:7806377 original size:10 final size:10
Alignment explanation
Indices: 7806362--7806386 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7806352 GCTAATGCTC
7806362 AAATAGTTTA
1 AAATAGTTTA
7806372 AAATAGTTTA
1 AAATAGTTTA
7806382 AAATA
1 AAATA
7806387 TTTGTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (10 bp):
AAATAGTTTA
Found at i:7806396 original size:12 final size:12
Alignment explanation
Indices: 7806379--7806408 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
7806369 TTAAAATAGT
7806379 TTAAAATATTTG
1 TTAAAATATTTG
7806391 TTAAAATATTTG
1 TTAAAATATTTG
7806403 TTAAAA
1 TTAAAA
7806409 ATGAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
TTAAAATATTTG
Found at i:7806602 original size:22 final size:21
Alignment explanation
Indices: 7806577--7806644 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
7806567 TCTAGTGTAA
7806577 GGGTTAGGAGCTTATGGTTTAG
1 GGGTTAGG-GCTTATGGTTTAG
* * *
7806599 GGGTTATGGGCTTAGGGTCTAT
1 GGGTTA-GGGCTTATGGTTTAG
*
7806621 GGGTTAATGGCTTATGGTTTAG
1 GGGTT-AGGGCTTATGGTTTAG
7806643 GG
1 GG
7806645 TTTAATCAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 34 0.92
23 3 0.08
ACGTcount: A:0.16, C:0.06, G:0.41, T:0.37
Consensus pattern (21 bp):
GGGTTAGGGCTTATGGTTTAG
Found at i:7806678 original size:7 final size:7
Alignment explanation
Indices: 7806668--7806903 Score: 61
Period size: 7 Copynumber: 33.3 Consensus size: 7
7806658 TTATGATTTA
7806668 AGGGTTT
1 AGGGTTT
7806675 AGGGGTTT
1 A-GGGTTT
* *
7806683 ATGCTTT
1 AGGGTTT
7806690 AGAGGTTT
1 AG-GGTTT
*
7806698 AAGGTTT
1 AGGGTTT
*
7806705 AAAGGTTT
1 -AGGGTTT
*
7806713 AAGGTTT
1 AGGGTTT
7806720 AGGGGTTT
1 A-GGGTTT
7806728 A-GG-TT
1 AGGGTTT
**
7806733 ATCGTCTT
1 AGGGT-TT
7806741 AGGGTTT
1 AGGGTTT
7806748 AAGGG-TT
1 -AGGGTTT
*
7806755 ATTGGTTT
1 A-GGGTTT
* *
7806763 ACGATTT
1 AGGGTTT
*
7806770 AGTGTTT
1 AGGGTTT
**
7806777 ACTGTTT
1 AGGGTTT
*
7806784 AGGGTGT
1 AGGGTTT
7806791 A-GGTTT
1 AGGGTTT
*
7806797 ATGGTTTT
1 A-GGGTTT
* *
7806805 A-AGTAT
1 AGGGTTT
*
7806811 -GCAGTTT
1 AG-GGTTT
* *
7806818 ATGATTT
1 AGGGTTT
* *
7806825 AGTGTTA
1 AGGGTTT
*
7806832 AGAGTTT
1 AGGGTTT
*
7806839 AGTGTTT
1 AGGGTTT
*
7806846 ATGGTTT
1 AGGGTTT
*
7806853 AGGGTGT
1 AGGGTTT
*
7806860 AGGGTGT
1 AGGGTTT
*
7806867 AGGGCTT
1 AGGGTTT
7806874 AGGGTTT
1 AGGGTTT
**
7806881 ATTGTTT
1 AGGGTTT
*
7806888 AGAGTTT
1 AGGGTTT
*
7806895 AGAGTTT
1 AGGGTTT
7806902 AG
1 AG
7806904 CTAGTAGCTT
Statistics
Matches: 168, Mismatches: 46, Indels: 30
0.69 0.19 0.12
Matches are distributed among these distances:
5 3 0.02
6 11 0.07
7 112 0.67
8 42 0.25
ACGTcount: A:0.20, C:0.03, G:0.32, T:0.44
Consensus pattern (7 bp):
AGGGTTT
Found at i:7806690 original size:15 final size:15
Alignment explanation
Indices: 7806664--7806732 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
7806654 GAGTTTATGA
*
7806664 TTTAAGGGTTTAGGGG
1 TTTAA-GGTTTAGAGG
* *
7806680 TTTATGCTTTAGAGG
1 TTTAAGGTTTAGAGG
*
7806695 TTTAAGGTTTAAAGG
1 TTTAAGGTTTAGAGG
*
7806710 TTTAAGGTTTAGGGG
1 TTTAAGGTTTAGAGG
7806725 TTT-AGGTT
1 TTTAAGGTT
7806733 ATCGTCTTAG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
14 5 0.11
15 36 0.80
16 4 0.09
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.43
Consensus pattern (15 bp):
TTTAAGGTTTAGAGG
Found at i:7806730 original size:8 final size:8
Alignment explanation
Indices: 7806687--7806729 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
7806677 GGGTTTATGC
7806687 TTTAGAGG
1 TTTAGAGG
7806695 TTTA-AGG
1 TTTAGAGG
*
7806702 TTTAAAGG
1 TTTAGAGG
7806710 TTTA-AGG
1 TTTAGAGG
*
7806717 TTTAGGGG
1 TTTAGAGG
7806725 TTTAG
1 TTTAG
7806730 GTTATCGTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 14 0.44
8 18 0.56
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.42
Consensus pattern (8 bp):
TTTAGAGG
Found at i:7806985 original size:103 final size:103
Alignment explanation
Indices: 7806885--7807103 Score: 395
Period size: 103 Copynumber: 2.1 Consensus size: 103
7806875 GGGTTTATTG
7806885 TTTAGAGTTTAGAGTTTAGCTAGTAGCTTAGAGTTTAGGGATTAATACGGGCATAGGGTATATGG
1 TTTAGAGTTTAGAGTTTAGCTAGTAGCTTAGAGTTTAGGGATTAATACGGGCATAGGGTATATGG
7806950 GTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATAT
66 GTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATAT
*
7806988 TTTA-AGGTTTAGGGTTTAGCTAGTAGCTTAGAGTTTAGGGATTAATACGGGCATAGGGTATATG
1 TTTAGA-GTTTAGAGTTTAGCTAGTAGCTTAGAGTTTAGGGATTAATACGGGCATAGGGTATATG
*
7807052 GGTTAAGAGGGCATATGGTTTAGGGTTTAAATTTTATAT
65 GGTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATAT
*
7807091 TTTAGGGTTTAGA
1 TTTAGAGTTTAGA
7807104 ATTATGGTAA
Statistics
Matches: 110, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
102 1 0.01
103 109 0.99
ACGTcount: A:0.28, C:0.05, G:0.29, T:0.38
Consensus pattern (103 bp):
TTTAGAGTTTAGAGTTTAGCTAGTAGCTTAGAGTTTAGGGATTAATACGGGCATAGGGTATATGG
GTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATAT
Found at i:7807076 original size:49 final size:49
Alignment explanation
Indices: 7806917--7807081 Score: 120
Period size: 49 Copynumber: 3.3 Consensus size: 49
7806907 GTAGCTTAGA
*
7806917 GTTTAGGGATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCATATG
1 GTTTAGGGATTAATACGGGCATAGGGTATATGGGTTAAGAGGGCATATG
* ***** * * * * *
7806966 GTTTAGGGTTTAAATTTTA-TATTTTAAGGTTTA-GGGTTTAGCTAGTAGCTTA-G
1 GTTTAGGGATT-AA---TACGGGCATAGGGTATATGGGTTAAG--AG-GGCATATG
7807019 AGTTTAGGGATTAATACGGGCATAGGGTATATGGGTTAAGAGGGCATATG
1 -GTTTAGGGATTAATACGGGCATAGGGTATATGGGTTAAGAGGGCATATG
*
7807069 GTTTAGGGTTTAA
1 GTTTAGGGATTAA
7807082 ATTTTATATT
Statistics
Matches: 81, Mismatches: 24, Indels: 22
0.64 0.19 0.17
Matches are distributed among these distances:
49 26 0.32
50 7 0.09
51 14 0.17
52 14 0.17
53 6 0.07
54 14 0.17
ACGTcount: A:0.28, C:0.05, G:0.32, T:0.36
Consensus pattern (49 bp):
GTTTAGGGATTAATACGGGCATAGGGTATATGGGTTAAGAGGGCATATG
Found at i:7807081 original size:24 final size:24
Alignment explanation
Indices: 7807020--7807078 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
7807010 GTAGCTTAGA
*
7807020 GTTTAGGGATTAATACGGGCATAGG
1 GTTTAGGG-TTAAGACGGGCATAGG
* *
7807045 GTATATGGGTTAAGA-GGGCATATG
1 GTTTA-GGGTTAAGACGGGCATAGG
7807069 GTTTAGGGTT
1 GTTTAGGGTT
7807079 TAAATTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 5 0.17
24 12 0.41
25 9 0.31
26 3 0.10
ACGTcount: A:0.25, C:0.05, G:0.37, T:0.32
Consensus pattern (24 bp):
GTTTAGGGTTAAGACGGGCATAGG
Found at i:7807137 original size:103 final size:102
Alignment explanation
Indices: 7806924--7807127 Score: 259
Period size: 103 Copynumber: 2.0 Consensus size: 102
7806914 AGAGTTTAGG
7806924 GATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATATT
1 GATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATATT
** * ** ** **
7806989 TTAAGGTTTAGGGTTTAGCTAGTAGCTTAGAGTTTAGG
66 TTAAGGTTTAGAATTTAGCTAG-AACACAGAGTAAAAA
*
7807027 GATTAATACGGGCATAGGGTATATGGGTTAAGAGGGCATATGGTTTAGGGTTTAAATTTTATATT
1 GATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATATT
* * *
7807092 TTAGGGTTTAGAA-TTATGGTA-AACACAGGGTAAAAA
66 TTAAGGTTTAGAATTTA-GCTAGAACACAGAGTAAAAA
7807128 TATGTTAATA
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
101 7 0.08
102 3 0.03
103 77 0.89
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (102 bp):
GATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATATT
TTAAGGTTTAGAATTTAGCTAGAACACAGAGTAAAAA
Found at i:7807637 original size:116 final size:113
Alignment explanation
Indices: 7807345--7807643 Score: 331
Period size: 116 Copynumber: 2.6 Consensus size: 113
7807335 TTAGTTTCCA
* *
7807345 TTTTAGTGGCGTTTCTTC-ATAAACGCCGCAATTATGTTTTAAGTCTTTGCTAAACACTGTCG-T
1 TTTTAGTGGCGTTT-TTCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTT
* * **
7807408 TTTAAATTGCGTTTTAGTGGCGTTTTCTCTTATGCACCGCAAAATTTCAG
65 TTTATATTGCGTTTTAGTGGCATTTTCTCTTATG-ACCGCAAAAGGTCAG
* * *
7807458 TTTTTGTGGCGTTTTT-ATGATAAACGCCGTAATTATGTTTTAAGTATTTGCTAAACGCAGTCGT
1 TTTTAGTGGCGTTTTTCA--ATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGT
* *
7807522 TTTTATTTTGCGTTATTAGTGGCATTTT-TCGTTAAATG-CCGCAATAGGT-ATG
64 TTTTATATTGCGTT-TTAGTGGCATTTTCTC-TT--ATGACCGCAAAAGGTCA-G
* * * *
7807574 TTTTAGTGGCGTTTTGTCAATAAACGCCGCAAATATGTTTTAAGTGTTTGCTAAACGGTGTCGTA
1 TTTTAGTGGCGTTTT-TCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTT
7807639 TTTAT
65 TTTAT
7807644 CTGGCATTTT
Statistics
Matches: 157, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
112 2 0.01
113 13 0.08
114 40 0.25
115 15 0.10
116 82 0.52
117 1 0.01
118 4 0.03
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.43
Consensus pattern (113 bp):
TTTTAGTGGCGTTTTTCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTTT
TTATATTGCGTTTTAGTGGCATTTTCTCTTATGACCGCAAAAGGTCAG
Found at i:7810050 original size:9 final size:9
Alignment explanation
Indices: 7810005--7810336 Score: 281
Period size: 9 Copynumber: 35.4 Consensus size: 9
7809995 CTTATATATA
*
7810005 AACTTGCAT
1 AACTTACAT
7810014 AACTTACTCAGT
1 AACTTA--CA-T
*
7810026 AACATA-AT
1 AACTTACAT
*
7810034 ATCTTACAT
1 AACTTACAT
7810043 AACTTACAT
1 AACTTACAT
*
7810052 AAATTACAT
1 AACTTACAT
* *
7810061 AAATTAAAT
1 AACTTACAT
7810070 AACTTACAT
1 AACTTACAT
7810079 AACTTACAT
1 AACTTACAT
* *
7810088 AAATTAAAT
1 AACTTACAT
7810097 AACTTACAT
1 AACTTACAT
7810106 AACTTACAT
1 AACTTACAT
7810115 AACTTACAT
1 AACTTACAT
* *
7810124 AAATTAAAT
1 AACTTACAT
7810133 AACTTACAT
1 AACTTACAT
7810142 AACTTACAT
1 AACTTACAT
*
7810151 AAATTACAT
1 AACTTACAT
* *
7810160 AAATTAAAT
1 AACTTACAT
7810169 AACTTACAT
1 AACTTACAT
7810178 AACTTACAT
1 AACTTACAT
* *
7810187 AAATTAAAT
1 AACTTACAT
7810196 AACTTACAT
1 AACTTACAT
7810205 AACTTACAT
1 AACTTACAT
* *
7810214 AAATTAAAT
1 AACTTACAT
7810223 AACTTACATATT
1 AACTTAC--A-T
7810235 AACTTACAT
1 AACTTACAT
* *
7810244 AAGTTATCTAC
1 AACTTA-C-AT
*
7810255 AAGCTTATATAT
1 AA-C-T-TACAT
*
7810267 AAACTTGCAT
1 -AACTTACAT
7810277 AACTTACAT
1 AACTTACAT
*
7810286 AA-TAACAT
1 AACTTACAT
7810294 AATATCTTACAT
1 -A-A-CTTACAT
7810306 AACTTACAT
1 AACTTACAT
* *
7810315 AAATTACAC
1 AACTTACAT
* *
7810324 AAATTAAAT
1 AACTTACAT
7810333 AACT
1 AACT
7810337 GGCGTTTTAA
Statistics
Matches: 262, Mismatches: 44, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
8 10 0.04
9 211 0.81
10 7 0.03
11 8 0.03
12 21 0.08
13 3 0.01
14 2 0.01
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:7810295 original size:27 final size:27
Alignment explanation
Indices: 7810268--7810336 Score: 50
Period size: 29 Copynumber: 2.5 Consensus size: 27
7810258 CTTATATATA
* *
7810268 AACTTGCATAACTTACATAA-TAACAT
1 AACTTACATAACTTACATAACTTACAT
* *
7810294 AATATCTTACATAACTTACATAAATTACAC
1 -A-A-CTTACATAACTTACATAACTTACAT
* *
7810324 AAATTAAATAACT
1 AACTTACATAACT
7810337 GGCGTTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
27 10 0.29
28 2 0.06
29 18 0.53
30 4 0.12
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.32
Consensus pattern (27 bp):
AACTTACATAACTTACATAACTTACAT
Found at i:7820004 original size:22 final size:22
Alignment explanation
Indices: 7819979--7820023 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
7819969 TATATATATT
7819979 TTTTA-TATTGTTTTTCATTTGG
1 TTTTATTATT-TTTTTCATTTGG
*
7820001 TTTTATTTATTTTTTTGATTTGG
1 TTTTA-TTATTTTTTTCATTTGG
7820024 GCCCGGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.13, C:0.02, G:0.13, T:0.71
Consensus pattern (22 bp):
TTTTATTATTTTTTTCATTTGG
Found at i:7820315 original size:44 final size:44
Alignment explanation
Indices: 7820250--7820368 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 44
7820240 TCGAATCCAA
*
7820250 TCTA-CCCACTGCAACTTCAGGGAGATAAGATTTG-CTTCTTCAG
1 TCTACCCCACTGCAACTTCAGGGAGATAAGACTTGTCTTCTT-AG
* ** * *
7820293 TCTGCCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTTAG
1 TCTACCCCACTGCAACTTCAGGGAGATAAGACTTGTCTTCTTAG
* *
7820337 TCTACTCCGCTGCAACTTCAGGGAGATAAGAC
1 TCTACCCCACTGCAACTTCAGGGAGATAAGAC
7820369 CCGATGTGAT
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
43 3 0.05
44 54 0.87
45 5 0.08
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTACCCCACTGCAACTTCAGGGAGATAAGACTTGTCTTCTTAG
Found at i:7820662 original size:87 final size:87
Alignment explanation
Indices: 7820548--7820990 Score: 663
Period size: 87 Copynumber: 5.1 Consensus size: 87
7820538 ACTTGTAATC
* * ** * * *
7820548 TTCGATTTGCTTCACTGTCGACGCAGGATGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
* * *
7820613 ACGATAGAGGCAAGGCTTCGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * * * *
7820635 TTCGATCTGCTTCGCTGTTAACACAGGAAGGCAAGATCTGCTTTTTTTAACCAGTTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
7820700 ACGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* *
7820722 TTCGATCTGCTTCGCTGTTAACACAGGAAGGCAAGATCTACTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
* *
7820787 CCGGTGGAGGTAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
7820809 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
7820874 CCGATGGAGGCAAGGCTTCG-T
66 CCGATGGAGGCAAGGCTTTGTT
* *
7820895 TTCTGATCTGCTTCGCTGCTAACGCAGAAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACA
1 TTC-GATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACA
7820960 ACCGATGGAGGCAAGGCTTTGTT
65 ACCGATGGAGGCAAGGCTTTGTT
7820983 TTCGATCT
1 TTCGATCT
7820991 TCACTGATCT
Statistics
Matches: 326, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
86 4 0.01
87 318 0.98
88 4 0.01
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:7820756 original size:43 final size:43
Alignment explanation
Indices: 7820620--7820756 Score: 115
Period size: 43 Copynumber: 3.2 Consensus size: 43
7820610 CAAACGATAG
*
7820620 AGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAACACAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACACAGGA
* * * * *
7820663 AGGCAAGATCTGCTTT-TTTT-AACCAG-TTCCACTG-CAA-ACGATGG-
1 AGGCAAG----GCTTTGTTTTCGATCTGCTT-CGCTGTTAACAC-A-GGA
7820707 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACACAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACACAGGA
7820750 AGGCAAG
1 AGGCAAG
7820757 ATCTACTATC
Statistics
Matches: 70, Mismatches: 11, Indels: 26
0.65 0.10 0.24
Matches are distributed among these distances:
40 5 0.07
41 4 0.06
42 9 0.13
43 21 0.30
44 14 0.20
45 9 0.13
46 4 0.06
47 4 0.06
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACACAGGA
Found at i:7822231 original size:7 final size:7
Alignment explanation
Indices: 7822219--7822256 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
7822209 ATTTTTACTC
7822219 TTTCATT
1 TTTCATT
7822226 TTTCATTT
1 TTTCA-TT
7822234 TTTCA-T
1 TTTCATT
*
7822240 TCTCATT
1 TTTCATT
7822247 TTTCATT
1 TTTCATT
7822254 TTT
1 TTT
7822257 TTTGAAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 5 0.19
7 15 0.56
8 7 0.26
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTCATT
Found at i:7822699 original size:28 final size:30
Alignment explanation
Indices: 7822632--7822699 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 30
7822622 TCTTTTCATA
7822632 TTTTATTTTAACTTTGATTGATTTCTCTTTT
1 TTTTATTTTAACTTTGATT-ATTTCTCTTTT
***
7822663 TTCGCTTTTAACTTTGA-T-TTTCTCTTTT
1 TTTTATTTTAACTTTGATTATTTCTCTTTT
7822691 TTTTATTTT
1 TTTTATTTT
7822700 TTTTGAATCT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 16 0.52
30 1 0.03
31 14 0.45
ACGTcount: A:0.13, C:0.12, G:0.06, T:0.69
Consensus pattern (30 bp):
TTTTATTTTAACTTTGATTATTTCTCTTTT
Found at i:7824435 original size:17 final size:17
Alignment explanation
Indices: 7824413--7824448 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
7824403 GGCCTTCTGT
7824413 GCATATTGTTTTACAAG
1 GCATATTGTTTTACAAG
7824430 GCATATTGTTTTACAAG
1 GCATATTGTTTTACAAG
7824447 GC
1 GC
7824449 CTTCAGTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (17 bp):
GCATATTGTTTTACAAG
Found at i:7827118 original size:108 final size:106
Alignment explanation
Indices: 7826931--7827124 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 106
7826921 AAGATTTAAG
* *
7826931 AGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTTCCTCGA
1 AGGATATTTGGCTATTTGATCAAACGAGAAATCGAAACCCAACACATTAGGGCACATTTCCTCGA
* *
7826996 ATTTCCAAACGCAAAATATTGTCTTACTTCGAAATTTAAAA
66 ATCTCCAAACGCAAAACATTGTCTTACTTCGAAATTTAAAA
* *
7827037 AGGATATTTGGCTATTTGATCAAACGAGAGAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGATCAAAC--GAGAAATCGAAACCCAACACATTAGGGCACATTTCCTC
*
7827102 GAATCTCTAAACGCAAAACATTG
64 GAATCTCCAAACGCAAAACATTG
7827125 CCTTTATTAA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
106 24 0.30
108 55 0.70
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (106 bp):
AGGATATTTGGCTATTTGATCAAACGAGAAATCGAAACCCAACACATTAGGGCACATTTCCTCGA
ATCTCCAAACGCAAAACATTGTCTTACTTCGAAATTTAAAA
Found at i:7842365 original size:14 final size:14
Alignment explanation
Indices: 7842342--7842388 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
7842332 TTAAATTATC
* *
7842342 TTAAGGTTAATTAG
1 TTAAGCTTAATTAA
7842356 TTAAGCTTAAGTTAA
1 TTAAGCTTAA-TTAA
*
7842371 TTAAACTTAATTAA
1 TTAAGCTTAATTAA
7842385 TTAA
1 TTAA
7842389 TCCCTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (14 bp):
TTAAGCTTAATTAA
Found at i:7843250 original size:20 final size:20
Alignment explanation
Indices: 7843225--7843263 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
7843215 CGTAAAATAA
7843225 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
7843245 TTTCTGGAAAATGATTTAC
1 TTTCTGGAAAATGATTTAC
7843264 GAAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:7844507 original size:28 final size:28
Alignment explanation
Indices: 7844467--7844523 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
7844457 TCTCTAGCAT
* *
7844467 CAAATACTAACAGGTCATTAAGTGCTAA
1 CAAATACTAACAGATCAGTAAGTGCTAA
7844495 CAAATACTAACAGATCAGTAAGTGCTAA
1 CAAATACTAACAGATCAGTAAGTGCTAA
7844523 C
1 C
7844524 CAGAGAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (28 bp):
CAAATACTAACAGATCAGTAAGTGCTAA
Found at i:7849383 original size:34 final size:34
Alignment explanation
Indices: 7849345--7849438 Score: 116
Period size: 34 Copynumber: 2.8 Consensus size: 34
7849335 AACCATTTAG
*
7849345 CACACCAGATACTCGTATGAGCTAATCCATCCAA
1 CACACCAAATACTCGTATGAGCTAATCCATCCAA
* * * * *
7849379 CACACTAAATACTCGTATAACCTAATCCATCTAG
1 CACACCAAATACTCGTATGAGCTAATCCATCCAA
* *
7849413 CACACCAAATGCTCGTATGAGATAAT
1 CACACCAAATACTCGTATGAGCTAAT
7849439 TGATCCAGAG
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23
Consensus pattern (34 bp):
CACACCAAATACTCGTATGAGCTAATCCATCCAA
Found at i:7853109 original size:25 final size:25
Alignment explanation
Indices: 7853080--7853127 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7853070 TATAGCCTTT
* *
7853080 ATGAGCTTCCTGTTACATGGCTCAC
1 ATGAGATTCCCGTTACATGGCTCAC
*
7853105 ATGAGATTCCCGTTATATGGCTC
1 ATGAGATTCCCGTTACATGGCTC
7853128 GTGAGAGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (25 bp):
ATGAGATTCCCGTTACATGGCTCAC
Found at i:7858460 original size:51 final size:51
Alignment explanation
Indices: 7858384--7858578 Score: 250
Period size: 51 Copynumber: 3.8 Consensus size: 51
7858374 CATGAGAACT
* * * ***
7858384 CATGTGTAGTACTATGTGTAGGCTACTATGAGTATAAGATAGTTATGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAGTTATGGTCA
*
7858435 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAGCTT-TGGTTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAG-TTATGGTCA
* * * *
7858486 CGTATGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT-GGTATTGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAGTTA-TGGTCA
*
7858537 CATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGGATAG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAG
7858579 CATTGATCAT
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
51 119 0.96
52 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (51 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAGTTATGGTCA
Found at i:7858564 original size:102 final size:102
Alignment explanation
Indices: 7858388--7858579 Score: 305
Period size: 102 Copynumber: 1.9 Consensus size: 102
7858378 AGAACTCATG
* *
7858388 TGTAGTACTATGTGTAGGCTACTATGAGTATAAGATAGTTATGGTCACATGTGTAGTACTAAGTG
1 TGTAGTACTATGTGCAGGCTACTATGAGTACAAGATAGTTATGGTCACATGTGTAGTACTAAGTG
7858453 CAGGCTACTATGTGTACCGGATAGCTTTGGTTACGTA
66 CAGGCTACTATGTGTACCGGATAGCTTTGGTTACGTA
* ** *
7858490 TGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT-GGTATTGGTCACATGTGTAGTACTAAGT
1 TGTAGTACTATGTGCAGGCTACTATGAGTACAAGATAGTTA-TGGTCACATGTGTAGTACTAAGT
*
7858554 GTAGGCTACTATGTGTACCGGATAGC
65 GCAGGCTACTATGTGTACCGGATAGC
7858580 ATTGATCATA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 3 0.04
102 79 0.96
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (102 bp):
TGTAGTACTATGTGCAGGCTACTATGAGTACAAGATAGTTATGGTCACATGTGTAGTACTAAGTG
CAGGCTACTATGTGTACCGGATAGCTTTGGTTACGTA
Found at i:7863603 original size:27 final size:27
Alignment explanation
Indices: 7863573--7863627 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
7863563 CAAATTTTCG
*
7863573 AAGGTTACAAGGCCTAAAATGGTTCAC
1 AAGGTTACAAGGCCTAAAATGGTCCAC
* *
7863600 AAGGTTATAAGTCCTAAAATGGTCCAC
1 AAGGTTACAAGGCCTAAAATGGTCCAC
7863627 A
1 A
7863628 CGGCCTGGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (27 bp):
AAGGTTACAAGGCCTAAAATGGTCCAC
Found at i:7869042 original size:18 final size:18
Alignment explanation
Indices: 7869021--7869074 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
7869011 TTTATTTTCC
*
7869021 TTTTAGTTTTAGTTTTAG
1 TTTTAGTTTTATTTTTAG
7869039 TTTTAGTTTTATTTTTA-
1 TTTTAGTTTTATTTTTAG
*
7869056 TCTTTATTTTTATTTTTAG
1 T-TTTAGTTTTATTTTTAG
7869075 CTATTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 1 0.03
18 31 0.97
ACGTcount: A:0.17, C:0.02, G:0.09, T:0.72
Consensus pattern (18 bp):
TTTTAGTTTTATTTTTAG
Found at i:7869087 original size:6 final size:6
Alignment explanation
Indices: 7869021--7869089 Score: 66
Period size: 6 Copynumber: 11.0 Consensus size: 6
7869011 TTTATTTTCC
* * * * *
7869021 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAT TTTTAT CTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
7869069 TTTTAGCT ATTTTAT TTTTAT
1 TTTTA--T -TTTTAT TTTTAT
7869090 GTTCTTAAAG
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
6 50 0.88
7 1 0.02
8 1 0.02
9 5 0.09
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.72
Consensus pattern (6 bp):
TTTTAT
Found at i:7870936 original size:30 final size:30
Alignment explanation
Indices: 7870902--7870965 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
7870892 CGGCAGATTT
* * *
7870902 TGTGAGCCACATAGGCTGGGCACATGCCCA
1 TGTGAGACACATAGGCTGGACACACGCCCA
*
7870932 TGTGAGACACATAGGCTGGACACACGCCCC
1 TGTGAGACACATAGGCTGGACACACGCCCA
7870962 TGTG
1 TGTG
7870966 CCAGCCCGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (30 bp):
TGTGAGACACATAGGCTGGACACACGCCCA
Found at i:7871149 original size:45 final size:45
Alignment explanation
Indices: 7871077--7871172 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
7871067 AGAGACAGGG
* *
7871077 GAGCCATCAGAGCAGATCAAAGAAAACACTCAAGGAACACCATTA
1 GAGCCATCAGAGAAGATCAAAGAAAACACTCAAAGAACACCATTA
* * * *
7871122 GAGCCATCAGATAAGATCGAAGGAAACACTCAAAGAACACCATTG
1 GAGCCATCAGAGAAGATCAAAGAAAACACTCAAAGAACACCATTA
7871167 GAGCCA
1 GAGCCA
7871173 CTTCTGAAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.45, C:0.24, G:0.20, T:0.11
Consensus pattern (45 bp):
GAGCCATCAGAGAAGATCAAAGAAAACACTCAAAGAACACCATTA
Found at i:7879812 original size:37 final size:37
Alignment explanation
Indices: 7879762--7879836 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
7879752 GATCAACCCA
7879762 AATACGTTATGCTTATATAACATGGCCCAAGAAACTG
1 AATACGTTATGCTTATATAACATGGCCCAAGAAACTG
7879799 AATACGTTATGCTTATATAACATGGCCCAAGAAACTG
1 AATACGTTATGCTTATATAACATGGCCCAAGAAACTG
7879836 A
1 A
7879837 CTTCGTGTAA
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:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (37 bp):
AATACGTTATGCTTATATAACATGGCCCAAGAAACTG
Found at i:7882893 original size:24 final size:22
Alignment explanation
Indices: 7882858--7883043 Score: 105
Period size: 24 Copynumber: 8.0 Consensus size: 22
7882848 GCATATACAT
*
7882858 ACCAAATTTAACAGCACTTTTAC
1 ACCAAATTTAACAGCA-TTATAC
7882881 ACCAAAATTTAACAGCATATATAC
1 ACC-AAATTTAACAGCAT-TATAC
* *
7882905 AACAAA--TAGGCAGCA-TATAC
1 ACCAAATTTA-ACAGCATTATAC
*
7882925 ATACCAAATTTAACAGCACTTTTAC
1 --ACCAAATTTAACAGCA-TTATAC
*
7882950 ACCAAAATTTAACAGTATATATAC
1 ACC-AAATTTAACAGCAT-TATAC
* **
7882974 AACAAA--TAGGTAGCA-TATAC
1 ACCAAATTTA-ACAGCATTATAC
*
7882994 ATACCAAATTTAACAGCACTTTTAC
1 --ACCAAATTTAACAGCA-TTATAC
*
7883019 ACTAAAATTTAACAGCATATATAC
1 AC-CAAATTTAACAGCAT-TATAC
7883043 A
1 A
7883044 GTAAATAGGC
Statistics
Matches: 125, Mismatches: 18, Indels: 39
0.69 0.10 0.21
Matches are distributed among these distances:
20 10 0.08
21 4 0.03
22 18 0.14
23 26 0.21
24 59 0.47
25 8 0.06
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.27
Consensus pattern (22 bp):
ACCAAATTTAACAGCATTATAC
Found at i:7882908 original size:69 final size:69
Alignment explanation
Indices: 7882829--7883053 Score: 396
Period size: 69 Copynumber: 3.3 Consensus size: 69
7882819 GGACAACTCT
*
7882829 TATATACAACAAATGGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAACAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
7882894 AGCA
66 AGCA
7882898 TATATACAACAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAACAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
*
7882963 AGTA
66 AGCA
* *
7882967 TATATACAACAAATAGGTAGCATATACATACCAAATTTAACAGCACTTTTACACTAAAATTTAAC
1 TATATACAACAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
7883032 AGCA
66 AGCA
**
7883036 TATATACAGTAAATAGGC
1 TATATACAACAAATAGGC
7883054 TTAAATATAA
Statistics
Matches: 148, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 148 1.00
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.26
Consensus pattern (69 bp):
TATATACAACAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
AGCA
Found at i:7883859 original size:41 final size:41
Alignment explanation
Indices: 7883814--7883950 Score: 157
Period size: 41 Copynumber: 3.3 Consensus size: 41
7883804 TTGTATAAAA
* * * * * *
7883814 CACCGGCATAAAGCTTACTAGGCACAAAGCCCGATACATTT
1 CACCGGCACAAAGCCTACTAGGCATAAAGCCTGATATAATT
* *
7883855 CACCGGCACAAAGCCTACTAGACATAAAGTCTGATATAATT
1 CACCGGCACAAAGCCTACTAGGCATAAAGCCTGATATAATT
* * *
7883896 CACCGGCACAGAGCCTGCTAGGCTTAAAGCCTGATATAATT
1 CACCGGCACAAAGCCTACTAGGCATAAAGCCTGATATAATT
* *
7883937 CACCAGCATAAAGC
1 CACCGGCACAAAGC
7883951 TTGAACTTAT
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.20
Consensus pattern (41 bp):
CACCGGCACAAAGCCTACTAGGCATAAAGCCTGATATAATT
Found at i:7885033 original size:13 final size:13
Alignment explanation
Indices: 7885015--7885039 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7885005 CACACAAACG
7885015 ATAAAATTTTCAT
1 ATAAAATTTTCAT
7885028 ATAAAATTTTCA
1 ATAAAATTTTCA
7885040 CACAAGTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTTTCAT
Found at i:7893377 original size:46 final size:44
Alignment explanation
Indices: 7893323--7893417 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 44
7893313 ACCTAATTTG
*
7893323 TTGTAAATGAGCAAGGTCAAAGGGTTAA-AGTTTTTTGAAAGAATT
1 TTGTAAATGAGCAAGGTCAAAGAGTTAACA-TTTTTT-AAAGAATT
* *
7893368 TTGTGAAATGAGCAAGGTGACAGAGTTAACATTTTTTAAAGAATT
1 TTGT-AAATGAGCAAGGTCAAAGAGTTAACATTTTTTAAAGAATT
7893413 TTGTA
1 TTGTA
7893418 TGATCAACAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
44 1 0.02
45 16 0.36
46 27 0.60
47 1 0.02
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (44 bp):
TTGTAAATGAGCAAGGTCAAAGAGTTAACATTTTTTAAAGAATT
Found at i:7899465 original size:59 final size:59
Alignment explanation
Indices: 7899402--7899565 Score: 175
Period size: 59 Copynumber: 2.8 Consensus size: 59
7899392 TAGATCAAAT
* * *
7899402 GCAAAGAGTTTGAGTATGTGTTGCTAGGACTTGTGAACAAGTGCTAGAAAAAAATGAGG
1 GCAAAGAGTTTGAGTATGTGTTGCTTGGACTTGCGAACAAGTGCTAGAAAAAAATGAAG
** * * * * * *
7899461 GCAAAGAGTTTGAGCCTGTGTTGCTTGGACTAGGGAACAAGTGTTAGAATAGAATGAAT
1 GCAAAGAGTTTGAGTATGTGTTGCTTGGACTTGCGAACAAGTGCTAGAAAAAAATGAAG
* * * ***
7899520 GCATAGGGTTTGAATACAAGTTGCTTGGACTTGCGAACAAGTGCTA
1 GCAAAGAGTTTGAGTATGTGTTGCTTGGACTTGCGAACAAGTGCTA
7899566 TATAGGGGTC
Statistics
Matches: 84, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
59 84 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (59 bp):
GCAAAGAGTTTGAGTATGTGTTGCTTGGACTTGCGAACAAGTGCTAGAAAAAAATGAAG
Found at i:7907241 original size:107 final size:107
Alignment explanation
Indices: 7907054--7907267 Score: 333
Period size: 107 Copynumber: 2.0 Consensus size: 107
7907044 GCATGTAATA
*
7907054 CATCTAAGGTTTACTAAGGGGAAAAAAATATTAGCAATTTCATATTTCCATTGCATGGGCACTCA
1 CATCTAAGGTTTACTAAGGGG-AAAAAATATGAGCAATTTCATATTTCCATTGCATGGGCACTCA
7907119 TAACATATGAATCCATAATTCAGAGCAAACTTTCATGCTCAAT
65 TAACATATGAATCCATAATTCAGAGCAAACTTTCATGCTCAAT
*
7907162 CATCTAAGGTTTACTAAGAGGG-GAAAATATGAGCAATTTCATATTTCCATTGCATGGGGC-CTC
1 CATCTAAGGTTTACTAAG-GGGAAAAAATATGAGCAATTTCATATTTCCATTGCAT-GGGCACTC
* * * *
7907225 ATAACATATGAATCCATAGTTCAGAGCACACTTTTATGTTCAA
64 ATAACATATGAATCCATAATTCAGAGCAAACTTTCATGCTCAA
7907268 CAAGCACTCT
Statistics
Matches: 98, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
107 73 0.74
108 22 0.22
109 3 0.03
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (107 bp):
CATCTAAGGTTTACTAAGGGGAAAAAATATGAGCAATTTCATATTTCCATTGCATGGGCACTCAT
AACATATGAATCCATAATTCAGAGCAAACTTTCATGCTCAAT
Found at i:7910880 original size:45 final size:44
Alignment explanation
Indices: 7910823--7910910 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 44
7910813 AGGGAAACCC
** *
7910823 ATGGCAAAGTTGGAAGTTTTCGTAAAAGATTTTAAAGAACCCACA
1 ATGGCAAAGTTGGAAGTTTTAAT-AAAGATGTTAAAGAACCCACA
*
7910868 ATGGCAAAGTTGGAAGTTTTAATGAAGATGTTAAAGAACCCAC
1 ATGGCAAAGTTGGAAGTTTTAATAAAGATGTTAAAGAACCCAC
7910911 GTTAAAGTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (44 bp):
ATGGCAAAGTTGGAAGTTTTAATAAAGATGTTAAAGAACCCACA
Found at i:7911863 original size:105 final size:105
Alignment explanation
Indices: 7911744--7911955 Score: 415
Period size: 105 Copynumber: 2.0 Consensus size: 105
7911734 AACTCCGAAA
*
7911744 TACCCTCAAAAGTAACAAACTCCAAACTAAATAGTAAGAGAAGAATCACTCTACTCTCAAAAATT
1 TACCCTCAAAAGTAACAAACTCCAAACTAAATAGTAAGAGAAGAATCACTCTACTATCAAAAATT
7911809 TGCCTCACACAAATTTGGAATAAAACAAATACTCTATTTT
66 TGCCTCACACAAATTTGGAATAAAACAAATACTCTATTTT
7911849 TACCCTCAAAAGTAACAAACTCCAAACTAAATAGTAAGAGAAGAATCACTCTACTATCAAAAATT
1 TACCCTCAAAAGTAACAAACTCCAAACTAAATAGTAAGAGAAGAATCACTCTACTATCAAAAATT
7911914 TGCCTCACACAAATTTGGAATAAAACAAATACTCTATTTT
66 TGCCTCACACAAATTTGGAATAAAACAAATACTCTATTTT
7911954 TA
1 TA
7911956 TTCGACCTCC
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (105 bp):
TACCCTCAAAAGTAACAAACTCCAAACTAAATAGTAAGAGAAGAATCACTCTACTATCAAAAATT
TGCCTCACACAAATTTGGAATAAAACAAATACTCTATTTT
Found at i:7924489 original size:163 final size:161
Alignment explanation
Indices: 7924267--7924593 Score: 503
Period size: 163 Copynumber: 2.0 Consensus size: 161
7924257 ACTAAGTTTG
7924267 ATTAATTAAACTTGAAAAGTTAAATGATTATTTAAAAAAAAATTATTTTCTGACTGTAGGTGACA
1 ATTAATTAAACTTGAAAAGTTAAATGATTATTTAAAAAAAAATTATTTTCTGACTGTAGGTGACA
* * * * *
7924332 TATTAACAAATTATCTTTGTATGCGTTTGCCACACTATTAACCGAATGCCATATAGGAGTTAAGA
66 TATTAACAAATCATATTTGTATGCATTTGCCACACCATTAACCGAATGCCATATAGGAGTTAACA
7924397 ATGCTATTGCTAACATTAGCATTTTCCATCCA
131 ATGCTATTGCTAACATTAGCA-TTTCCATCCA
* *
7924429 ATTAATTAAAACTTGAATAAGTTAAATGATTATTTTAAAAAAAA-TATTTTGTGACTGTAGGTGA
1 ATTAATT-AAACTTGAA-AAGTTAAATGATTATTTAAAAAAAAATTATTTTCTGACTGTAGGTGA
* ** * *
7924493 CATGTTAGGAAATCATATTTGTATGCATTTGCCACACCATTAACTGAATGCCATATGGGAGTTAA
64 CATATTAACAAATCATATTTGTATGCATTTGCCACACCATTAACCGAATGCCATATAGGAGTTAA
*
7924558 CAATGCTATTGCTGACATTAGCATTTCCATCCA
129 CAATGCTATTGCTAACATTAGCATTTCCATCCA
7924591 ATT
1 ATT
7924594 TGGGTTTTGA
Statistics
Matches: 150, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
162 20 0.13
163 105 0.70
164 25 0.17
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (161 bp):
ATTAATTAAACTTGAAAAGTTAAATGATTATTTAAAAAAAAATTATTTTCTGACTGTAGGTGACA
TATTAACAAATCATATTTGTATGCATTTGCCACACCATTAACCGAATGCCATATAGGAGTTAACA
ATGCTATTGCTAACATTAGCATTTCCATCCA
Found at i:7927665 original size:37 final size:36
Alignment explanation
Indices: 7927576--7927665 Score: 130
Period size: 36 Copynumber: 2.5 Consensus size: 36
7927566 ATTAACCGAA
*
7927576 TTGAATTACTACATAATTAAAAACATTACAAAGTTT
1 TTGAATTACTACATAATTAAAAACATTACAAAGTTC
7927612 TTGAATTACTACATAATTAAAAACATTACATAA-TTC
1 TTGAATTACTACATAATTAAAAACATTACA-AAGTTC
7927648 TTGAAATTAAC-ACATAAT
1 TTG-AATT-ACTACATAAT
7927666 GAAATGTAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
36 35 0.70
37 13 0.26
38 2 0.04
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.36
Consensus pattern (36 bp):
TTGAATTACTACATAATTAAAAACATTACAAAGTTC
Found at i:7927866 original size:39 final size:39
Alignment explanation
Indices: 7927784--7927900 Score: 200
Period size: 39 Copynumber: 3.0 Consensus size: 39
7927774 GGCTTAGAGT
* *
7927784 TAGACTTTAGTTTTATTTTTATTGGGCT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
7927822 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
*
7927861 TAGACTTTAGTTTTAGTTTTATTGGGTTGTGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
7927900 T
1 T
7927901 TGAGTTGGAT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
38 26 0.35
39 49 0.65
ACGTcount: A:0.18, C:0.03, G:0.28, T:0.50
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:7934268 original size:171 final size:171
Alignment explanation
Indices: 7933980--7934321 Score: 639
Period size: 171 Copynumber: 2.0 Consensus size: 171
7933970 GGAACGTAGT
*
7933980 GAGTTATGAACACAACTTGCCTTTTTAACTTTCATGAAATTCTTCATCTTGGAAAATTGGACTTT
1 GAGTTATGAACACAACTTGCCTTTTTAACTTTCATGAAATTCTTCATCTTGAAAAATTGGACTTT
* *
7934045 CATGTATCTCTCTTTGGCGAATACCTTTTCATTTTTAGTTGTATACTTTCATACTTATACGCCTC
66 CATGTATCTCTCTTTGGCGAATACCTTTCCATTTTCAGTTGTATACTTTCATACTTATACGCCTC
7934110 TCATCATGCATACTATATATTCATTCATCCAACTATTTGGC
131 TCATCATGCATACTATATATTCATTCATCCAACTATTTGGC
7934151 GAGTTATGAACACAACTTGCCTTTTTAACTTTCATGAAATTCTTCATCTTGAAAAATTGGACTTT
1 GAGTTATGAACACAACTTGCCTTTTTAACTTTCATGAAATTCTTCATCTTGAAAAATTGGACTTT
* *
7934216 CATGTATCTCTCTTTGGCGAATACCTTTCCATTTTCAGTTTTATATTTTCATACTTATACGCCTC
66 CATGTATCTCTCTTTGGCGAATACCTTTCCATTTTCAGTTGTATACTTTCATACTTATACGCCTC
7934281 TCATCATGCATACTATATATTCATTCATCCAACTATTTGGC
131 TCATCATGCATACTATATATTCATTCATCCAACTATTTGGC
7934322 TAGCTCTAGG
Statistics
Matches: 166, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 166 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (171 bp):
GAGTTATGAACACAACTTGCCTTTTTAACTTTCATGAAATTCTTCATCTTGAAAAATTGGACTTT
CATGTATCTCTCTTTGGCGAATACCTTTCCATTTTCAGTTGTATACTTTCATACTTATACGCCTC
TCATCATGCATACTATATATTCATTCATCCAACTATTTGGC
Found at i:7938596 original size:43 final size:43
Alignment explanation
Indices: 7938532--7938687 Score: 208
Period size: 43 Copynumber: 3.7 Consensus size: 43
7938522 AGAAAAAAAA
* *
7938532 GCCGCTAAA-ACTACGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCACAACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
7938574 GCTGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCGACAAAT
1 GCCGCTAAAGACCACAACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
7938617 GCCGCTATAGATCACAACTTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCACAACCTTTAGCGGCGCTTTTCCCACAAAC
*
7938660 GCCGCTAAAGAACA-AACCTTTAGCGGCG
1 GCCGCTAAAGACCACAACCTTTAGCGGCG
7938688 ATTCTCGCAA
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 21 0.21
43 78 0.79
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (43 bp):
GCCGCTAAAGACCACAACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:7938703 original size:86 final size:86
Alignment explanation
Indices: 7938550--7938709 Score: 241
Period size: 86 Copynumber: 1.9 Consensus size: 86
7938540 AACTACGACC
* * * * * * *
7938550 TTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCGACAA
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACACAACCTTTAGCGGCGATTCTCCAAAAA
7938615 ATGCCGCTATAGATCACAACT
66 ATGCCGCTATAGATCACAACT
7938636 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACA-AACCTTTAGCGGCGATTCTCGCAAAA
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACACAACCTTTAGCGGCGATTCTC-CAAAA
7938700 AATGCCGCTA
65 AATGCCGCTA
7938710 AAAACATAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
85 17 0.26
86 49 0.74
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (86 bp):
TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACACAACCTTTAGCGGCGATTCTCCAAAAA
ATGCCGCTATAGATCACAACT
Found at i:7938707 original size:43 final size:43
Alignment explanation
Indices: 7938547--7938715 Score: 189
Period size: 43 Copynumber: 4.0 Consensus size: 43
7938537 TAAAACTACG
* * * * *
7938547 ACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGACCACG
1 ACCTTTAGCGGCGCTTTTCCAACAAATGCCGCTAAAGAACACA
* * *
7938590 ACCTTTAGCGGCGCTTTTCCGACAAATGCCGCTATAGATCACA
1 ACCTTTAGCGGCGCTTTTCCAACAAATGCCGCTAAAGAACACA
* * *
7938633 ACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACA-A
1 ACCTTTAGCGGCGCTTTTCCAACAAATGCCGCTAAAGAACACA
* * *
7938675 ACCTTTAGCGGCGATTCTCGCAAAAAATGCCGCTAAA-AACA
1 ACCTTTAGCGGCGCTTTTC-CAACAAATGCCGCTAAAGAACA
7938716 TAAATTTTAA
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
42 21 0.19
43 87 0.81
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTTTTCCAACAAATGCCGCTAAAGAACACA
Found at i:7938851 original size:116 final size:116
Alignment explanation
Indices: 7938636--7938862 Score: 339
Period size: 116 Copynumber: 2.0 Consensus size: 116
7938626 GATCACAACT
* *
7938636 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAAACCTTTAGCGGCGATTCTCGCAAAAA
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTAAAGAACAAACCTTTAGCAGCGATTCTCGCAAAAA
* * * *
7938701 ATGCCGCTAAAAACATAAATTTTAAAATAATTATTTTAATCAAATAATATC
66 ACGCCACTAAAAACATAAACTTTAAAAAAATTATTTTAATCAAATAATATC
* * *
7938752 TTTAGCGGCGCTTTTCATACAAACGTCGCTAAAGAACAAACCTTTAGCAGCGCTTCTCGC-AAAA
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTAAAGAACAAACCTTTAGCAGCGATTCTCGCAAAAA
* *
7938816 ACGTCACTAAAAACATAACCTTTAAAAAAATTTATTTTAATCAAATA
66 ACGCCACTAAAAACATAAACTTTAAAAAAA-TTATTTTAATCAAATA
7938863 TTATATTATG
Statistics
Matches: 99, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
115 28 0.28
116 71 0.72
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (116 bp):
TTTAGCGGCGCTTTTCACACAAACGCCGCTAAAGAACAAACCTTTAGCAGCGATTCTCGCAAAAA
ACGCCACTAAAAACATAAACTTTAAAAAAATTATTTTAATCAAATAATATC
Found at i:7942082 original size:13 final size:13
Alignment explanation
Indices: 7942064--7942088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7942054 TTCTTACAGA
7942064 AAGGAAAATAAAG
1 AAGGAAAATAAAG
7942077 AAGGAAAATAAA
1 AAGGAAAATAAA
7942089 CAATCAAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (13 bp):
AAGGAAAATAAAG
Found at i:7942922 original size:11 final size:11
Alignment explanation
Indices: 7942908--7942967 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 11
7942898 AAAATAAAAG
*
7942908 TTTAAAATCTT
1 TTTAAAATCAT
7942919 TTTAAAAT--T
1 TTTAAAATCAT
* *
7942928 TTTAAAA-AAA
1 TTTAAAATCAT
7942938 TTTAAAATC-T
1 TTTAAAATCAT
7942948 TTTAAAATTCAT
1 TTTAAAA-TCAT
7942960 TTTAAAAT
1 TTTAAAAT
7942968 TTTAAATCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
9 8 0.20
10 14 0.34
11 11 0.27
12 8 0.20
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (11 bp):
TTTAAAATCAT
Found at i:7942966 original size:29 final size:29
Alignment explanation
Indices: 7942901--7942975 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 29
7942891 TATTATAAAA
7942901 ATAAAAGTTTAAAATCTTTTTAAAATTTTT
1 ATAAAA-TTTAAAATCTTTTTAAAATTTTT
*
7942931 AAAAAAATTTAAAATC-TTTTAAAATTCATTT
1 -ATAAAATTTAAAATCTTTTTAAAATT--TTT
*
7942962 -TAAAATTTTAAATC
1 ATAAAATTTAAAATC
7942976 ACGAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.56
30 9 0.23
31 8 0.21
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (29 bp):
ATAAAATTTAAAATCTTTTTAAAATTTTT
Found at i:7942972 original size:30 final size:30
Alignment explanation
Indices: 7942901--7942973 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
7942891 TATTATAAAA
*
7942901 ATAAAAGTTTAAAATCTTTTTAAAATTTTT
1 ATAAAAATTTAAAATCTTTTTAAAATTTTT
*
7942931 AAAAAAATTTAAAATC-TTTTAAAATTCATTT
1 ATAAAAATTTAAAATCTTTTTAAAATT--TTT
*
7942962 -TAAAATTTTAAA
1 ATAAAAATTTAAA
7942974 TCACGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 10 0.27
30 24 0.65
31 3 0.08
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (30 bp):
ATAAAAATTTAAAATCTTTTTAAAATTTTT
Found at i:7942973 original size:20 final size:20
Alignment explanation
Indices: 7942908--7942970 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
7942898 AAAATAAAAG
*
7942908 TTTAAAATCTTTTTAAAATT
1 TTTAAAATCATTTTAAAATT
* *
7942928 TTTAAAA-AAATTTAAAATCT
1 TTTAAAATCATTTTAAAAT-T
7942948 TTTAAAATTCATTTTAAAATT
1 TTTAAAA-TCATTTTAAAATT
7942969 TT
1 TT
7942971 AAATCACGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 8 0.23
20 15 0.43
21 3 0.09
22 9 0.26
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAAATCATTTTAAAATT
Found at i:7943413 original size:7 final size:7
Alignment explanation
Indices: 7943364--7943426 Score: 65
Period size: 7 Copynumber: 9.1 Consensus size: 7
7943354 CACTAAAATG
*
7943364 TAAACTC
1 TAAACCC
*
7943371 TAAACCT
1 TAAACCC
7943378 TAAACCC
1 TAAACCC
* *
7943385 CAATCCC
1 TAAACCC
* *
7943392 CAAGCCC
1 TAAACCC
7943399 TAAA-CC
1 TAAACCC
7943405 TAAACCC
1 TAAACCC
7943412 TAAACCC
1 TAAACCC
7943419 TAAACCC
1 TAAACCC
7943426 T
1 T
7943427 GAACTCAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
6 6 0.13
7 41 0.87
ACGTcount: A:0.40, C:0.41, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:7943875 original size:28 final size:26
Alignment explanation
Indices: 7943843--7943901 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
7943833 CAACTTCACT
7943843 TAATTATATTCTAAAATTCAATATTTAA
1 TAATTATATTC-AAAATTCAATATTT-A
* * *
7943871 TAATTTTTATTCGAATTTCAATATTTA
1 TAA-TTATATTCAAAATTCAATATTTA
7943898 TAAT
1 TAAT
7943902 ATTTTCCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 1 0.04
27 4 0.15
28 15 0.56
29 7 0.26
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.51
Consensus pattern (26 bp):
TAATTATATTCAAAATTCAATATTTA
Found at i:7943881 original size:29 final size:28
Alignment explanation
Indices: 7943849--7943906 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
7943839 CACTTAATTA
7943849 TATTCTAAAATTCAATATTTAATAAT-TTT
1 TATTC-AAAATTCAATATTT-ATAATATTT
* *
7943878 TATTCGAATTTCAATATTTATAATATTT
1 TATTCAAAATTCAATATTTATAATATTT
7943906 T
1 T
7943907 CCTATAACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 5 0.19
28 16 0.62
29 5 0.19
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (28 bp):
TATTCAAAATTCAATATTTATAATATTT
Found at i:7944551 original size:41 final size:41
Alignment explanation
Indices: 7944491--7944851 Score: 578
Period size: 41 Copynumber: 8.8 Consensus size: 41
7944481 AGATTTTATT
* * * *
7944491 ATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGACACGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
* *
7944532 ATTAGCCGCGCTTTCTCAAAAATGCCGCTAAAGCCCCGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
* *
7944573 ATTAGCAGCGCCTTCTCAAAAACGCCGCTAAAGCCCCGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
* **
7944614 ATTAGCGACGCTTTCTCAAAAACTACGCTAAAGCCCCGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
*
7944655 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
*
7944696 ATTAGCGACGCTTTCTCAAAAAACGCCGCTAAAGCCCCGAGC
1 ATTAGCGGCGCTTTCTC-AAAAACGCCGCTAAAGCCCCGAGC
7944738 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
*
7944779 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCAAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
*
7944820 ATTAGCGGCGCTTTCTCAAAAACGCCTCTAAA
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAA
7944852 TGCCTCAAAA
Statistics
Matches: 296, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 257 0.87
42 39 0.13
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (41 bp):
ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
Done.