Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 235 of 284
Found at i:78512703 original size:43 final size:43
Alignment explanation
Indices: 78512636--78512776 Score: 174
Period size: 43 Copynumber: 3.3 Consensus size: 43
78512626 TTAAAATTTT
* *
78512636 ATGACTTTTAGCGGAGTTTTTGGGAAAAGCGCTGCTAAAGAAC
1 ATGACTTTTAGCGGAGTTTGTGGGAAAAGCGCCGCTAAAGAAC
* * * * **
78512679 ATGGCTTTTAGTGGCGTTTGTGGGAAAAGAGCCGCTAAAGGCC
1 ATGACTTTTAGCGGAGTTTGTGGGAAAAGCGCCGCTAAAGAAC
* * * *
78512722 ATGACCTTTAGCGGTGTTTGTGGGGAAAGCGCCGCTAAAGATC
1 ATGACTTTTAGCGGAGTTTGTGGGAAAAGCGCCGCTAAAGAAC
78512765 ATGACTTTTAGC
1 ATGACTTTTAGC
78512777 AGCGTTTTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (43 bp):
ATGACTTTTAGCGGAGTTTGTGGGAAAAGCGCCGCTAAAGAAC
Found at i:78526404 original size:3 final size:3
Alignment explanation
Indices: 78526398--78526423 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
78526388 TAATAATGGA
78526398 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
78526424 AATAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:78529123 original size:4 final size:4
Alignment explanation
Indices: 78529114--78529140 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
78529104 ACTCAATCCT
78529114 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
78529141 ATCTCATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:78530906 original size:28 final size:30
Alignment explanation
Indices: 78530845--78530907 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 30
78530835 TCCTCCGTTC
* *
78530845 TTTTATTTCTATTAAAAATGTCCGTTATAA
1 TTTTCTTTCTATTAAAAATGTCCCTTATAA
78530875 --TTCTTTCT-TTAAAAATGTCCCTT-TAA
1 TTTTCTTTCTATTAAAAATGTCCCTTATAA
78530901 TTTTCTT
1 TTTTCTT
78530908 GATTTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
26 3 0.10
27 14 0.48
28 12 0.41
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.54
Consensus pattern (30 bp):
TTTTCTTTCTATTAAAAATGTCCCTTATAA
Found at i:78537235 original size:2 final size:2
Alignment explanation
Indices: 78537228--78537262 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
78537218 GATTATAAAA
78537228 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
78537263 TGTGTGTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:78537878 original size:22 final size:21
Alignment explanation
Indices: 78537840--78537904 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
78537830 GTTTAATTAT
* *
78537840 AAAAATCATAATAGATATAAA
1 AAAAATTATAAAAGATATAAA
*
78537861 AAAAATTATAAAAGGATATCAA
1 AAAAATTATAAAA-GATATAAA
*
78537883 AAAATTTATCAAAA-ATATAAA
1 AAAAATTAT-AAAAGATATAAA
78537904 A
1 A
78537905 GTTATTAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 18 0.49
22 15 0.41
23 4 0.11
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (21 bp):
AAAAATTATAAAAGATATAAA
Found at i:78537986 original size:19 final size:19
Alignment explanation
Indices: 78537961--78538005 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
78537951 TATCAAAAAT
* *
78537961 ATAAAAAATATAATAAATTA
1 ATAAAAAGT-TAAAAAATTA
*
78537981 ATAAAAAGTTAAAAAATTC
1 ATAAAAAGTTAAAAAATTA
78538000 ATAAAA
1 ATAAAA
78538006 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
ATAAAAAGTTAAAAAATTA
Found at i:78538004 original size:11 final size:9
Alignment explanation
Indices: 78537935--78538108 Score: 75
Period size: 9 Copynumber: 18.3 Consensus size: 9
78537925 AAAATTCATA
78537935 AAAAAACTAT
1 AAAAAA-TAT
78537945 AAAAAATAT
1 AAAAAATAT
*
78537954 CAAAAATAT
1 AAAAAATAT
78537963 AAAAAATAT
1 AAAAAATAT
*
78537972 AATAAATTAAT
1 AA-AAAAT-AT
*
78537983 AAAAAGT-T
1 AAAAAATAT
78537991 AAAAAAT-T
1 AAAAAATAT
*
78537999 CATAAAATAT
1 -AAAAAATAT
** *
78538009 TTAAAATAA
1 AAAAAATAT
78538018 AAAAACATAT
1 AAAAA-ATAT
* * * *
78538028 TAGAACTCTT
1 AAAAAAT-AT
*
78538038 AAAAAATTGT
1 AAAAAA-TAT
78538048 AAAAAAATAT
1 -AAAAAATAT
78538058 AAAAAATATT
1 AAAAAATA-T
78538068 AAATAAA-AT
1 AAA-AAATAT
*
78538077 TAAAAATGAT
1 AAAAAAT-AT
**
78538087 ATAAACTTAT
1 A-AAAAATAT
*
78538097 AAAAATTAT
1 AAAAAATAT
78538106 AAA
1 AAA
78538109 TAACCATAAA
Statistics
Matches: 126, Mismatches: 25, Indels: 27
0.71 0.14 0.15
Matches are distributed among these distances:
8 11 0.09
9 59 0.47
10 38 0.30
11 18 0.14
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (9 bp):
AAAAAATAT
Found at i:78538060 original size:20 final size:20
Alignment explanation
Indices: 78538036--78538082 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
78538026 ATTAGAACTC
78538036 TTAAAAAAT-TGTAAA-AAAA
1 TTAAAAAATAT-TAAATAAAA
78538055 TATAAAAAATATTAAATAAAA
1 T-TAAAAAATATTAAATAAAA
78538076 TTAAAAA
1 TTAAAAA
78538083 TGATATAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 18 0.72
21 6 0.24
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
TTAAAAAATATTAAATAAAA
Found at i:78538509 original size:8 final size:9
Alignment explanation
Indices: 78538492--78538685 Score: 79
Period size: 10 Copynumber: 20.0 Consensus size: 9
78538482 CTAGTTGAAG
78538492 TTTTTATAA
1 TTTTTATAA
78538501 TTTTTTAATATA
1 -TTTTT-ATA-A
78538513 TTTTTTATAA
1 -TTTTTATAA
*
78538523 GTTTATATGAA
1 -TTTTTAT-AA
*
78538534 TTTTAATAA
1 TTTTTATAA
78538543 TTTTTATAAAA
1 TTTTTAT--AA
* *
78538554 GTTTAATATA
1 TTTTTATA-A
78538564 TTTTTATAAA
1 TTTTTAT-AA
* * *
78538574 ATTATAAATA
1 TTTTTATA-A
* *
78538584 TGTTTTGTTA
1 T-TTTTATAA
* *
78538594 GTTTTGTAA
1 TTTTTATAA
78538603 TTTTTATAA
1 TTTTTATAA
*
78538612 TTTGTTAAAA
1 TTT-TTATAA
*
78538622 TTTATTATATT
1 TTT-TTATA-A
78538633 TTTTTATAA
1 TTTTTATAA
78538642 TTTTTATGAA
1 TTTTTAT-AA
* *
78538652 TTTATATGA
1 TTTTTATAA
78538661 TTTTTA-ATA
1 TTTTTATA-A
78538670 TTTTT-T-A
1 TTTTTATAA
78538677 TTTTTATAA
1 TTTTTATAA
78538686 ATATTTTATG
Statistics
Matches: 138, Mismatches: 30, Indels: 33
0.69 0.15 0.16
Matches are distributed among these distances:
7 6 0.04
8 1 0.01
9 47 0.34
10 55 0.40
11 22 0.16
12 7 0.05
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:78538569 original size:31 final size:31
Alignment explanation
Indices: 78538502--78538569 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
78538492 TTTTTATAAT
*
78538502 TTTTTAATATATTTTTTATAAGTTTATATGA
1 TTTTTAATATATTTTTTAAAAGTTTATATGA
*
78538533 ATTTTAATA-ATTTTTATAAAAGTTTAATAT-A
1 TTTTTAATATATTTTT-TAAAAGTTT-ATATGA
78538564 TTTTTA
1 TTTTTA
78538570 TAAAATTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 6 0.19
31 22 0.69
32 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (31 bp):
TTTTTAATATATTTTTTAAAAGTTTATATGA
Found at i:78538589 original size:22 final size:21
Alignment explanation
Indices: 78538535--78538574 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
78538525 TTATATGAAT
78538535 TTTAATA-ATTTTTATAAAAG
1 TTTAATATATTTTTATAAAAG
78538555 TTTAATATATTTTTATAAAA
1 TTTAATATATTTTTATAAAA
78538575 TTATAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TTTAATATATTTTTATAAAAG
Found at i:78538607 original size:9 final size:9
Alignment explanation
Indices: 78538595--78538685 Score: 71
Period size: 9 Copynumber: 9.9 Consensus size: 9
78538585 GTTTTGTTAG
*
78538595 TTTTGTAAT
1 TTTTATAAT
78538604 TTTTATAAT
1 TTTTATAAT
*
78538613 TTGTTAAAAT
1 TT-TTATAAT
*
78538623 TTATTATATTT
1 TT-TTATA-AT
78538634 TTTTATAAT
1 TTTTATAAT
78538643 TTTTATGAAT
1 TTTTAT-AAT
* *
78538653 TTATATGAT
1 TTTTATAAT
78538662 TTTTA-ATAT
1 TTTTATA-AT
78538671 TTTT-T-AT
1 TTTTATAAT
78538678 TTTTATAA
1 TTTTATAA
78538686 ATATTTTATG
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
7 6 0.09
8 1 0.02
9 30 0.46
10 25 0.38
11 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:78541058 original size:3 final size:3
Alignment explanation
Indices: 78541050--78541080 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
78541040 CCGAGTTCTT
78541050 TGA TGA TGA TGA TGA TGA TGA TGA TGA -GA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
78541081 GTCCCTGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
TGA
Found at i:78544275 original size:23 final size:23
Alignment explanation
Indices: 78544249--78544292 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
78544239 AAGCCCGAAA
* * *
78544249 TAAAATTATAATTTCTACAATAG
1 TAAAAATACAATTTCAACAATAG
78544272 TAAAAATACAATTTCAACAAT
1 TAAAAATACAATTTCAACAAT
78544293 TTAATAATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (23 bp):
TAAAAATACAATTTCAACAATAG
Found at i:78545596 original size:13 final size:13
Alignment explanation
Indices: 78545578--78545603 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78545568 TTTCAAAACC
78545578 ATAATTTCGATGT
1 ATAATTTCGATGT
78545591 ATAATTTCGATGT
1 ATAATTTCGATGT
78545604 GTGAGTCCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
ATAATTTCGATGT
Found at i:78548180 original size:21 final size:20
Alignment explanation
Indices: 78548135--78548201 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
78548125 ACAGGCTACT
**
78548135 CACACAGGCGTGTGTCCCCTC
1 CACACAGG-GTGTGTAGCCTC
*
78548156 CACACAGGTGTGTGTAGCCTT
1 CACACAGG-GTGTGTAGCCTC
*
78548177 CACA-TGGGTGTGTAAGCCTC
1 CACACAGGGTGTGT-AGCCTC
78548197 CACAC
1 CACAC
78548202 GACCTAGACA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
19 6 0.16
20 11 0.29
21 21 0.55
ACGTcount: A:0.19, C:0.33, G:0.25, T:0.22
Consensus pattern (20 bp):
CACACAGGGTGTGTAGCCTC
Found at i:78550051 original size:56 final size:56
Alignment explanation
Indices: 78549984--78550097 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
78549974 TTTGAAAAGT
*
78549984 TTATAATTTGGTCATTTTTCGTTCTCAAGTCCAACCCCTTTGTATCTTAAAGCTCA
1 TTATAATTTGGTCATTTTTCATTCTCAAGTCCAACCCCTTTGTATCTTAAAGCTCA
78550040 TTATAATTTGGTCATTTTTCATTCTCAAGTCCAACCCCTTTGTATCTTAAAGCTCA
1 TTATAATTTGGTCATTTTTCATTCTCAAGTCCAACCCCTTTGTATCTTAAAGCTCA
78550096 TT
1 TT
78550098 TTAAGCTTTG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.44
Consensus pattern (56 bp):
TTATAATTTGGTCATTTTTCATTCTCAAGTCCAACCCCTTTGTATCTTAAAGCTCA
Found at i:78552002 original size:3 final size:3
Alignment explanation
Indices: 78551984--78552034 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
78551974 TTAAATACTC
* *
78551984 TTA TTA TTT TTA -TA TTA TTAA TT- TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
78552028 TGTA TTA
1 T-TA TTA
78552035 GTTTATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 30 0.75
4 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:78552014 original size:15 final size:15
Alignment explanation
Indices: 78551984--78552034 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
78551974 TTAAATACTC
*
78551984 TTATTATTTTTA-TA
1 TTATTAATTTTATTA
78551998 TTATTAATTTTATTA
1 TTATTAATTTTATTA
*
78552013 TTATTAATATTATTA
1 TTATTAATTTTATTA
78552028 TGTATTA
1 T-TATTA
78552035 GTTTATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.33
15 17 0.52
16 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTAATTTTATTA
Found at i:78554142 original size:30 final size:30
Alignment explanation
Indices: 78554108--78554190 Score: 166
Period size: 30 Copynumber: 2.8 Consensus size: 30
78554098 ACTTATTTTA
78554108 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGATAT
78554138 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGATAT
78554168 TTGTTAATTTTGTTATTATTTTA
1 TTGTTAATTTTGTTATTATTTTA
78554191 GATGCATTTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.63
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGATAT
Found at i:78556405 original size:33 final size:33
Alignment explanation
Indices: 78556363--78556430 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
78556353 AGTGTCACTT
78556363 ATTAGAGTTGGAATGTCTATGCCAATCCAACGA
1 ATTAGAGTTGGAATGTCTATGCCAATCCAACGA
78556396 ATTAGAGTTGGAATGTCTATGCCAATCCAACGA
1 ATTAGAGTTGGAATGTCTATGCCAATCCAACGA
78556429 AT
1 AT
78556431 AAACTTTGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (33 bp):
ATTAGAGTTGGAATGTCTATGCCAATCCAACGA
Found at i:78563509 original size:17 final size:16
Alignment explanation
Indices: 78563482--78563591 Score: 78
Period size: 17 Copynumber: 6.3 Consensus size: 16
78563472 TATGTGACAA
*
78563482 AAAAATTATAAAAAAT
1 AAAAATAATAAAAAAT
*
78563498 AAAAATCAATAAAATTTAT
1 AAAAAT-AATAAAA--AAT
*
78563517 AAAAATAATAAATTTTAAT
1 AAAAATAATAAA---AAAT
78563536 AAAAAT-ATAAAAATATT
1 AAAAATAATAAAAA-A-T
*
78563553 AAAAATAAAAAAAAATT
1 AAAAATAATAAAAAA-T
*
78563570 AAAAATCATAAAAAAAT
1 AAAAATAAT-AAAAAAT
78563587 AAAAA
1 AAAAA
78563592 ATTGTAAACT
Statistics
Matches: 76, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
15 1 0.01
16 7 0.09
17 29 0.38
18 23 0.30
19 16 0.21
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAATAATAAAAAAT
Found at i:78563520 original size:18 final size:19
Alignment explanation
Indices: 78563495--78563564 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
78563485 AATTATAAAA
78563495 AATAAAAATCAATAAAATTT
1 AATAAAAAT-AATAAAATTT
*
78563515 -ATAAAAATAATAAATTTT
1 AATAAAAATAATAAAATTT
*
78563533 AATAAAAAT-ATAAAA-AT
1 AATAAAAATAATAAAATTT
*
78563550 ATTAAAAATAA-AAAA
1 AATAAAAATAATAAAA
78563565 AAATTAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
17 13 0.30
18 15 0.34
19 16 0.36
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (19 bp):
AATAAAAATAATAAAATTT
Found at i:78563592 original size:8 final size:8
Alignment explanation
Indices: 78563533--78563592 Score: 50
Period size: 8 Copynumber: 7.1 Consensus size: 8
78563523 AATAAATTTT
78563533 AATAAAAA
1 AATAAAAA
*
78563541 TATAAAAA
1 AATAAAAA
*
78563549 TATTAAAAA
1 -AATAAAAA
78563558 TAA-AAAAA
1 -AATAAAAA
78563566 AATTAAAAA
1 AA-TAAAAA
*
78563575 TCATAAAAA
1 -AATAAAAA
78563584 AATAAAAA
1 AATAAAAA
78563592 A
1 A
78563593 TTGTAAACTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 2 0.05
8 20 0.48
9 19 0.45
10 1 0.02
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (8 bp):
AATAAAAA
Found at i:78563627 original size:9 final size:9
Alignment explanation
Indices: 78563482--78563628 Score: 81
Period size: 9 Copynumber: 16.4 Consensus size: 9
78563472 TATGTGACAA
78563482 AAAAATTAT
1 AAAAATTAT
78563491 AAAAA--AT
1 AAAAATTAT
*
78563498 AAAAATCAAT
1 AAAAAT-TAT
*
78563508 AAAATTTAT
1 AAAAATTAT
*
78563517 AAAAATAAT
1 AAAAATTAT
**
78563526 AAATTTTAAT
1 AAAAATT-AT
78563536 AAAAA-TAT
1 AAAAATTAT
78563544 AAAAA-TATT
1 AAAAATTA-T
* *
78563553 AAAAATAAA
1 AAAAATTAT
*
78563562 AAAAAAT-T
1 AAAAATTAT
*
78563570 AAAAATCAT
1 AAAAATTAT
*
78563579 AAAAA-AAT
1 AAAAATTAT
*
78563587 AAAAAATTGT
1 -AAAAATTAT
**
78563597 AAACTTTAT
1 AAAAATTAT
*
78563606 AAAAATCATT
1 AAAAATTA-T
78563616 AAAAATTAT
1 AAAAATTAT
78563625 AAAA
1 AAAA
78563629 TGCATAAAAA
Statistics
Matches: 102, Mismatches: 26, Indels: 20
0.69 0.18 0.14
Matches are distributed among these distances:
7 7 0.07
8 16 0.16
9 57 0.56
10 22 0.22
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:78563628 original size:18 final size:18
Alignment explanation
Indices: 78563483--78563640 Score: 73
Period size: 17 Copynumber: 8.8 Consensus size: 18
78563473 ATGTGACAAA
*
78563483 AAAATTATAAAAAA-TA-
1 AAAATCATAAAAAATTAT
*
78563499 AAAATCA-ATAAAATTTAT
1 AAAATCATA-AAAAATTAT
*
78563517 AAAA--ATAATAAATTTTAAT
1 AAAATCATAA-AAA-ATT-AT
78563536 AAAAAT-ATAAAAATATTA-
1 -AAAATCATAAAAA-ATTAT
* *
78563554 AAAATAAAAAAAAATTA-
1 AAAATCATAAAAAATTAT
* *
78563571 AAAATCATAAAAAAATAA
1 AAAATCATAAAAAATTAT
** **
78563589 AAAATTGT-AAACTTTAT
1 AAAATCATAAAAAATTAT
*
78563606 AAAAATCATTAAAAATTAT
1 -AAAATCATAAAAAATTAT
78563625 AAAATGCATAAAAAAT
1 AAAAT-CATAAAAAAT
78563641 ATCATTTAAC
Statistics
Matches: 110, Mismatches: 18, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
15 1 0.01
16 12 0.11
17 34 0.31
18 30 0.27
19 19 0.17
20 10 0.09
21 4 0.04
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (18 bp):
AAAATCATAAAAAATTAT
Found at i:78563947 original size:27 final size:25
Alignment explanation
Indices: 78563913--78563974 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
78563903 TTTTTTACGA
78563913 TTTTTTAAAATTTTAA-AATTTTTTAT
1 TTTTTTAAAA-TTTAATAA-TTTTTAT
78563939 TTTTATTAAAATTTAATAATTTTTAT
1 TTTT-TTAAAATTTAATAATTTTTAT
78563965 TTTTTATAAA
1 TTTTT-TAAA
78563975 TTTGTTGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
25 1 0.03
26 24 0.73
27 8 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTTTAAAATTTAATAATTTTTAT
Found at i:78563997 original size:15 final size:15
Alignment explanation
Indices: 78563977--78564012 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
78563967 TTTATAAATT
78563977 TGTTGTCATATGTCA
1 TGTTGTCATATGTCA
78563992 TGTTGTCATATGTCA
1 TGTTGTCATATGTCA
78564007 TGTTGT
1 TGTTGT
78564013 GGTTGTGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.11, G:0.22, T:0.50
Consensus pattern (15 bp):
TGTTGTCATATGTCA
Found at i:78565225 original size:29 final size:30
Alignment explanation
Indices: 78565169--78565225 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
78565159 AAATTTTGAT
*
78565169 TTTAAATAGTTTAATAATTAAATAAAAAAA
1 TTTAAATAGTTTAATAATCAAATAAAAAAA
*
78565199 TTTAAA-AGTTTAATCATCAAAGTAAAA
1 TTTAAATAGTTTAATAATCAAA-TAAAA
78565226 CATAGGCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (30 bp):
TTTAAATAGTTTAATAATCAAATAAAAAAA
Found at i:78582963 original size:93 final size:93
Alignment explanation
Indices: 78582851--78583022 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
78582841 CGCCCATAAG
* *
78582851 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78582916 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
78582944 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78583009 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
78583023 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:78583019 original size:46 final size:46
Alignment explanation
Indices: 78582844--78583019 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
78582834 TGTAACCCGC
* * *
78582844 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
78582890 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
78582940 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
78582983 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
78583020 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:78586100 original size:55 final size:52
Alignment explanation
Indices: 78585974--78586180 Score: 177
Period size: 53 Copynumber: 3.8 Consensus size: 52
78585964 ATTAGTGTTT
* *
78585974 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGAT-CCATGTAAGACCATGCCAAGACATGGCATT-GTAAGTTCTACAAGGC
* * *
78586028 AAGGTAAT-CATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTACAAGGC
1 AAGG--ATCCATGTAAGACCATGCCAAGACATGGCATTG-T-AAGTTCTACAAGGC
* * * * **
78586083 AAAGATCCCATGTAAGACCATGCCAAGGCATGACAATGGCGAGTTCATA-AA-GC
1 AAGGAT-CCATGTAAGACCATGCCAAGACATGGC-ATTGTAAGTTC-TACAAGGC
* *
78586136 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGAT-CCATGTAAGACCATGCCAAGACATGGC-ATTGTAAGTT
78586181 TAAAAAGGAA
Statistics
Matches: 124, Mismatches: 21, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
53 43 0.35
54 36 0.29
55 40 0.32
56 5 0.04
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (52 bp):
AAGGATCCATGTAAGACCATGCCAAGACATGGCATTGTAAGTTCTACAAGGC
Found at i:78588027 original size:18 final size:17
Alignment explanation
Indices: 78587998--78588053 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 17
78587988 AAAATTAGAA
*
78587998 AAATTATAAAAAATAAT
1 AAATTTTAAAAAATAAT
*
78588015 AAATTTTAGAAAAATTATT
1 AAATTTTA-AAAAA-TAAT
78588034 AAATTTTAATAAAAT-AT
1 AAATTTTAA-AAAATAAT
78588051 AAA
1 AAA
78588054 AAAATTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 11 0.33
18 7 0.21
19 15 0.45
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AAATTTTAAAAAATAAT
Found at i:78588043 original size:29 final size:28
Alignment explanation
Indices: 78587986--78588064 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 28
78587976 ATGCTCTTAT
*
78587986 TAAAAATTAGAAAAATTATAAAAAATAA
1 TAAAATTTAGAAAAATTATAAAAAATAA
* ***
78588014 TAAATTTTAGAAAAATTATTAAATTTTAA
1 TAAAATTTAGAAAAATTA-TAAAAAATAA
* *
78588043 TAAAATATAAAAAAATTA-AAAA
1 TAAAATTTAGAAAAATTATAAAA
78588065 TTTATTAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 3 0.07
28 16 0.39
29 22 0.54
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (28 bp):
TAAAATTTAGAAAAATTATAAAAAATAA
Found at i:78589126 original size:26 final size:26
Alignment explanation
Indices: 78589090--78589140 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
78589080 TGAAGCGTAA
*
78589090 GAAAAACTTATCATTGGAAAGAAAAT
1 GAAAAACTTATCACTGGAAAGAAAAT
78589116 GAAAAACTTATCACTGGAAAGAAAA
1 GAAAAACTTATCACTGGAAAGAAAA
78589141 AAGAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.55, C:0.10, G:0.16, T:0.20
Consensus pattern (26 bp):
GAAAAACTTATCACTGGAAAGAAAAT
Found at i:78592289 original size:73 final size:73
Alignment explanation
Indices: 78592202--78592445 Score: 479
Period size: 73 Copynumber: 3.3 Consensus size: 73
78592192 ACAACTTGAC
78592202 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
78592267 CACTAACA
66 CACTAACA
*
78592275 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
78592340 CACTAACA
66 CACTAACA
78592348 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
78592413 CACTAACA
66 CACTAACA
78592421 AACTTAGTTGGAATACAACTAAGTT
1 AACTTAGTTGGAATACAACTAAGTT
78592446 NNNNNNNNNN
Statistics
Matches: 169, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 169 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:78596333 original size:73 final size:73
Alignment explanation
Indices: 78596246--78596431 Score: 336
Period size: 73 Copynumber: 2.5 Consensus size: 73
78596236 ACAACTTGAC
* *
78596246 AACTTAGTTAGAATACAACTAAGTTTCATCATTAAATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
78596311 CACTAACA
66 CACTAACA
*
78596319 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
78596384 CACTAACA
66 CACTAACA
*
78596392 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
78596432 AATAATAATA
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 108 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:78602613 original size:163 final size:163
Alignment explanation
Indices: 78602343--78602668 Score: 652
Period size: 163 Copynumber: 2.0 Consensus size: 163
78602333 GGCCTTGTTA
78602343 AGTATTATGATAATCTATAAGAGTATGGGGATGATAGAGGGTGACCAAAGGCTTGGAAAATAGCC
1 AGTATTATGATAATCTATAAGAGTATGGGGATGATAGAGGGTGACCAAAGGCTTGGAAAATAGCC
78602408 TAACAAGGTCCACACGTGTAACACTCCTCACCCGTATCCGACGCCGAGACAGGGTTCGAGGTGTT
66 TAACAAGGTCCACACGTGTAACACTCCTCACCCGTATCCGACGCCGAGACAGGGTTCGAGGTGTT
78602473 ACCTGACTTAAACTCAATCAATCACACAAAAAT
131 ACCTGACTTAAACTCAATCAATCACACAAAAAT
78602506 AGTATTATGATAATCTATAAGAGTATGGGGATGATAGAGGGTGACCAAAGGCTTGGAAAATAGCC
1 AGTATTATGATAATCTATAAGAGTATGGGGATGATAGAGGGTGACCAAAGGCTTGGAAAATAGCC
78602571 TAACAAGGTCCACACGTGTAACACTCCTCACCCGTATCCGACGCCGAGACAGGGTTCGAGGTGTT
66 TAACAAGGTCCACACGTGTAACACTCCTCACCCGTATCCGACGCCGAGACAGGGTTCGAGGTGTT
78602636 ACCTGACTTAAACTCAATCAATCACACAAAAAT
131 ACCTGACTTAAACTCAATCAATCACACAAAAAT
78602669 TGGACCGTAA
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 163 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (163 bp):
AGTATTATGATAATCTATAAGAGTATGGGGATGATAGAGGGTGACCAAAGGCTTGGAAAATAGCC
TAACAAGGTCCACACGTGTAACACTCCTCACCCGTATCCGACGCCGAGACAGGGTTCGAGGTGTT
ACCTGACTTAAACTCAATCAATCACACAAAAAT
Found at i:78611451 original size:57 final size:58
Alignment explanation
Indices: 78611358--78611495 Score: 174
Period size: 57 Copynumber: 2.4 Consensus size: 58
78611348 ATATAACAAA
** * *
78611358 ATTACCAGTCCAGGCTAAATCCTTTTTGTAATATATGCTC-AGAAGAG-CTCA-ATTAGG
1 ATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCGA-AAGAGACT-ATATCAGG
* *
78611415 ATTACCAGTCCAGACTAAATCCTAATTGTAACATATGCTCGAAAGGGACTATATCAGG
1 ATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCGAAAGAGACTATATCAGG
*
78611473 ATTACCAGTCCAGGCCAAATCCT
1 ATTACCAGTCCAGGCTAAATCCT
78611496 GTCAGCAACA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 41 0.59
58 29 0.41
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (58 bp):
ATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCGAAAGAGACTATATCAGG
Found at i:78618825 original size:72 final size:72
Alignment explanation
Indices: 78618709--78618910 Score: 225
Period size: 72 Copynumber: 2.8 Consensus size: 72
78618699 CCACATATTT
* *
78618709 TGTAATGCCCG--CATTTGAGCTACTCACGGGTCTGTACACAAAGTCAGCACCTGGACCCCAAAG
1 TGTAATGCCCGCTCA-TTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCTGGACCCCAAAG
*
78618772 CATTATCA
65 CATTAACA
** * *
78618780 TGTAATGCCCGCTCATTGAGCTACTCACGAATTTATACACAAAGTCAGTACCCT-GAACCCAAAG
1 TGTAATGCCCGCTCATTGAGCTACTCACGGGTTTATACACAAAGTCAGCA-CCTGGACCCCAAAG
78618844 CATTAACA
65 CATTAACA
* *** *
78618852 TG-ATATGCTCGCTCAGCAAGTTACTCACGGGTTTATACACAAAGTCAGCA-CTCGGACCC
1 TGTA-ATGCCCGCTCATTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCT-GGACCC
78618911 ATATTGCATA
Statistics
Matches: 109, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
70 2 0.02
71 12 0.11
72 90 0.83
73 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (72 bp):
TGTAATGCCCGCTCATTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCTGGACCCCAAAGC
ATTAACA
Found at i:78623128 original size:20 final size:19
Alignment explanation
Indices: 78623090--78623134 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
78623080 CTTTTATTAG
*
78623090 AAAATAAAATAAAATAAATT
1 AAAA-AAAATAAAAGAAATT
*
78623110 ATAAAAAAATAAAGGAAATT
1 A-AAAAAAATAAAAGAAATT
78623130 AAAAA
1 AAAAA
78623135 GAAAAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 4 0.18
20 15 0.68
21 3 0.14
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (19 bp):
AAAAAAAATAAAAGAAATT
Found at i:78624957 original size:37 final size:37
Alignment explanation
Indices: 78624916--78625000 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
78624906 AATCCAACTA
*
78624916 AAAACACGCCAAATGCTCATAAGATATAATCCAATCG
1 AAAACACGCCAAATGCTCATAAGAGATAATCCAATCG
* ** * *
78624953 AAAACATGCCAAATGCTTGTAAGAGCTAATCCATTCG
1 AAAACACGCCAAATGCTCATAAGAGATAATCCAATCG
*
78624990 ATAACACGCCA
1 AAAACACGCCA
78625001 TGGCACTAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.42, C:0.25, G:0.13, T:0.20
Consensus pattern (37 bp):
AAAACACGCCAAATGCTCATAAGAGATAATCCAATCG
Found at i:78628472 original size:35 final size:34
Alignment explanation
Indices: 78628419--78628484 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 34
78628409 ACCAGCTCAC
** * *
78628419 TAGAGCAACATTGTGACGACGGTCTATCGACTCTA
1 TAGAGCAACACCGCGACGACGCT-TATCGACTCTA
78628454 TAGAGCAACACCGCGACGACGCTTATCGACT
1 TAGAGCAACACCGCGACGACGCTTATCGACT
78628485 GATCTTTCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 8 0.30
35 19 0.70
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (34 bp):
TAGAGCAACACCGCGACGACGCTTATCGACTCTA
Found at i:78637250 original size:87 final size:87
Alignment explanation
Indices: 78637062--78637272 Score: 311
Period size: 88 Copynumber: 2.4 Consensus size: 87
78637052 GTGTAAATAG
78637062 CCCTCAAACTTTTTCAAAAAAACAATTAAGCCCT--TTTTTTTTGCACTCAATTGAGCACTTGAA
1 CCCTCAAACTTTTTCAAAAAAACAATTAAGCCCTGCTTTTTTTTGCACTCAATTGAGCACTTGAA
* *
78637125 CTTTCAAAATGTATCAAAAAGG
66 CTTTCAAAATGCATCAAAAAGA
* * * *
78637147 CCCTCAAACTTCTTCAAAAAAAGCAATTAAGCCCTGCTTTTTTTTTCACTTAATTGAGTACTTGA
1 CCCTCAAACTTTTTCAAAAAAA-CAATTAAGCCCTGCTTTTTTTTGCACTCAATTGAGCACTTGA
78637212 ACTTTCAAAA-GCATCAAAAAGA
65 ACTTTCAAAATGCATCAAAAAGA
*
78637234 CCCTCAAAATTTTTCAAAAAAAACAATTAAGCTCCTGCT
1 CCCTCAAACTTTTTC-AAAAAAACAATTAAGC-CCTGCT
78637273 CTTATTTAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
85 21 0.19
86 12 0.11
87 32 0.28
88 48 0.42
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (87 bp):
CCCTCAAACTTTTTCAAAAAAACAATTAAGCCCTGCTTTTTTTTGCACTCAATTGAGCACTTGAA
CTTTCAAAATGCATCAAAAAGA
Found at i:78637355 original size:20 final size:19
Alignment explanation
Indices: 78637305--78637356 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
78637295 ATATAAAACA
*
78637305 TAAAAAATTTTAGAAAAAT
1 TAAAAAATTTAAGAAAAAT
* * *
78637324 TATTAAATTTTAATAAAAATT
1 TA-AAAAATTTAAGAAAAA-T
78637345 TAAAAAATTTAA
1 TAAAAAATTTAA
78637357 AATCTATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TAAAAAATTTAAGAAAAAT
Found at i:78637404 original size:17 final size:17
Alignment explanation
Indices: 78637384--78637416 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
78637374 AATTTTTTTC
78637384 ATAAAAATATT-TAAAAA
1 ATAAAAA-ATTGTAAAAA
78637401 ATAAAAAATTGTAAAA
1 ATAAAAAATTGTAAAA
78637417 TTTTATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
ATAAAAAATTGTAAAAA
Found at i:78637627 original size:9 final size:9
Alignment explanation
Indices: 78637615--78637826 Score: 58
Period size: 9 Copynumber: 22.7 Consensus size: 9
78637605 TTCTTTACAT
78637615 TTTTTATAA
1 TTTTTATAA
*
78637624 TTTTCTTACAA
1 -TTT-TTATAA
* *
78637635 CTTTATAAAA
1 -TTTTTATAA
78637645 T-TTTATAA
1 TTTTTATAA
*
78637653 TTTTTTTATA
1 TTTTTATA-A
*
78637663 TTTCTAT-A
1 TTTTTATAA
78637671 TATTTTATAA
1 T-TTTTATAA
*
78637681 TTGTTTTATGA
1 -T-TTTTATAA
*
78637692 GTTTTATAAA
1 TTTTTAT-AA
* * * *
78637702 GTTGTACAC
1 TTTTTATAA
*
78637711 TTTTTTATAT
1 T-TTTTATAA
*
78637721 TTTTTATGA
1 TTTTTATAA
*
78637730 TTTTTATAT
1 TTTTTATAA
78637739 TTTTTCATAA
1 TTTTT-ATAA
78637749 -TTTT-TAA
1 TTTTTATAA
* *
78637756 TATTT-GAA
1 TTTTTATAA
78637764 TTTTTATTAAA
1 TTTTTA-T-AA
* *
78637775 ATTTAATAA
1 TTTTTATAA
*
78637784 TATTTATAGA
1 TTTTTATA-A
* *
78637794 TTTTAAT-T
1 TTTTTATAA
78637802 TTTTTATAA
1 TTTTTATAA
*
78637811 TTTTTTCTAA
1 -TTTTTATAA
78637821 TTTTTA
1 TTTTTA
78637827 ATAAAAGCAG
Statistics
Matches: 144, Mismatches: 42, Indels: 33
0.66 0.19 0.15
Matches are distributed among these distances:
7 3 0.02
8 23 0.16
9 52 0.36
10 44 0.31
11 22 0.15
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:78637670 original size:29 final size:27
Alignment explanation
Indices: 78637616--78637689 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
78637606 TCTTTACATT
* *
78637616 TTTTATAATTTTCTTACAACTTTATAAAA
1 TTTTATAATTTTTTTA-TACTTTAT-AAA
* *
78637645 TTTTATAATTTTTTTATATTTCTATATA
1 TTTTATAATTTTTTTATACTT-TATAAA
*
78637673 TTTTATAATTGTTTTAT
1 TTTTATAATTTTTTTAT
78637690 GAGTTTTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 21 0.54
29 18 0.46
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.62
Consensus pattern (27 bp):
TTTTATAATTTTTTTATACTTTATAAA
Found at i:78637733 original size:18 final size:19
Alignment explanation
Indices: 78637712--78637760 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
78637702 GTTGTACACT
*
78637712 TTTTTATATTTTTT-ATGA
1 TTTTTATATTTTTTCATAA
78637730 TTTTTATATTTTTTCATAA
1 TTTTTATATTTTTTCATAA
78637749 TTTTTAATATTT
1 TTTTT-ATATTT
78637761 GAATTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 14 0.50
19 8 0.29
20 6 0.21
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTATATTTTTTCATAA
Found at i:78638428 original size:16 final size:16
Alignment explanation
Indices: 78638406--78638444 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
78638396 GTTTGGTTCA
78638406 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
* *
78638422 TTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
78638438 CTGTAAT
1 CTGTAAT
78638445 CAGTAATTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:78638707 original size:26 final size:26
Alignment explanation
Indices: 78638613--78638717 Score: 66
Period size: 26 Copynumber: 3.8 Consensus size: 26
78638603 GTTATTAAAT
*
78638613 TTTAATAAGATTATTATTAAAAATAA
1 TTTAATAAAATTATTATTAAAAATAA
* * ** *
78638639 CTTAATAAAAATAGTAAATAATTAACCATAT
1 TTTAAT-AAAAT--T--ATTATTAAAAATAA
* * *
78638670 TTTAACATAATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAAAATAA
* *
78638696 TTTAATAAAATTCTTAATAAAA
1 TTTAATAAAATTATTATTAAAA
78638718 TTATTATTAT
Statistics
Matches: 56, Mismatches: 18, Indels: 10
0.67 0.21 0.12
Matches are distributed among these distances:
26 32 0.57
27 4 0.07
28 1 0.02
29 1 0.02
30 4 0.07
31 14 0.25
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (26 bp):
TTTAATAAAATTATTATTAAAAATAA
Found at i:78639048 original size:44 final size:44
Alignment explanation
Indices: 78638998--78639081 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
78638988 TTTCCTAGTG
* *
78638998 GCTCTACGTTCATCCTATGATATTATATTTAAGGAGTGTAGCTA
1 GCTCTACATTCATCCTATGATATCATATTTAAGGAGTGTAGCTA
*
78639042 GCTCTACATTCATCCTATGATATCATATTTAGGGAGTGTA
1 GCTCTACATTCATCCTATGATATCATATTTAAGGAGTGTA
78639082 ATTGGTTTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (44 bp):
GCTCTACATTCATCCTATGATATCATATTTAAGGAGTGTAGCTA
Found at i:78640711 original size:21 final size:21
Alignment explanation
Indices: 78640687--78640727 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
78640677 GTATATACAT
* *
78640687 ATATTTTATGTATATATTTTA
1 ATATATTATGCATATATTTTA
*
78640708 ATATATTATGCGTATATTTT
1 ATATATTATGCATATATTTT
78640728 GTTTTGTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (21 bp):
ATATATTATGCATATATTTTA
Found at i:78645799 original size:87 final size:87
Alignment explanation
Indices: 78645653--78645824 Score: 308
Period size: 87 Copynumber: 2.0 Consensus size: 87
78645643 CGGGTTTTGC
*
78645653 CCCAGCGGACGTTCAGACACAACCTGATATGTACCCAAGAAGGCCATCGGTCACAATTAGGCCCC
1 CCCAGCGGACGTTCAGACACAACCTGATATGTACCCAAGAAGGCCATCGGTCACAATTAGACCCC
78645718 AACCATTTCAGGCCGGTGTTGT
66 AACCATTTCAGGCCGGTGTTGT
* * *
78645740 CCCAGCGGACGTTCAGACACAACTTGATATGTATCCAAGAAGGCCATCGGTCACAATTAGACCTC
1 CCCAGCGGACGTTCAGACACAACCTGATATGTACCCAAGAAGGCCATCGGTCACAATTAGACCCC
78645805 AACCATTTCAGGCCGGTGTT
66 AACCATTTCAGGCCGGTGTT
78645825 TCAGTACCGA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (87 bp):
CCCAGCGGACGTTCAGACACAACCTGATATGTACCCAAGAAGGCCATCGGTCACAATTAGACCCC
AACCATTTCAGGCCGGTGTTGT
Found at i:78647880 original size:45 final size:45
Alignment explanation
Indices: 78647816--78647902 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
78647806 AATGAAACTT
78647816 ATGTTGCTAACGATATCTCTGTAAACAAACTGGACCACTTAGTCA
1 ATGTTGCTAACGATATCTCTGTAAACAAACTGGACCACTTAGTCA
*
78647861 ATGTTGCTAACGATATCTCTGTAAACAAACTGGACCGCTTAG
1 ATGTTGCTAACGATATCTCTGTAAACAAACTGGACCACTTAG
78647903 ACAACAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (45 bp):
ATGTTGCTAACGATATCTCTGTAAACAAACTGGACCACTTAGTCA
Found at i:78653536 original size:43 final size:43
Alignment explanation
Indices: 78653471--78653724 Score: 144
Period size: 43 Copynumber: 5.9 Consensus size: 43
78653461 AGAACCGATG
* * *
78653471 AATTTACA-AGCTTTAACTCCCTAAGCAGTAGGGTAATAAGCCA
1 AATTTACAGACCTTAAAC-CCCTAAGCAGTAGGGTAACAAGCCA
** * **
78653514 AATTTACAGACCTTAAACCCCTAAGTGGTAGGGTAACAGGCTG
1 AATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAACAAGCCA
* * * *
78653557 AATATACAGATCC-TATCACCCC-AAGCAGTAGGGAAAC-AGATCA
1 AATTTACAGA-CCTTA-AACCCCTAAGCAGTAGGGTAACAAG-CCA
* * * ** * *
78653600 AAGATGA-TGGGCTTAACCCCCTAAGCAATAGGGTAACAAGCCA
1 AA-TTTACAGACCTTAAACCCCTAAGCAGTAGGGTAACAAGCCA
* * * * *
78653643 AATTCACA-AGCC-TCATCTCCCTAAGCAGTAGGGTAACAGGCTA
1 AATTTACAGA-CCTTAAAC-CCCTAAGCAGTAGGGTAACAAGCCA
* * *
78653686 AATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACA
1 AATTTAC-AGACCTTAAACCCCTAAGCAGTAGGGTAACA
78653725 GGTCGAGCTT
Statistics
Matches: 154, Mismatches: 43, Indels: 27
0.69 0.19 0.12
Matches are distributed among these distances:
42 11 0.07
43 101 0.66
44 38 0.25
45 4 0.03
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (43 bp):
AATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAACAAGCCA
Found at i:78653771 original size:34 final size:34
Alignment explanation
Indices: 78653707--78653771 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
78653697 TCTTAACCCC
* *
78653707 CTAAGCAGTAGGGAAACAGGTCGAGCTTTAACCT
1 CTAAGCAGTAGGGAAACAGCTCGAACTTTAACCT
* *
78653741 CTAAGCAGTAGGGTAACAAGCT-GAATTTTAA
1 CTAAGCAGTAGGGAAAC-AGCTCGAACTTTAA
78653772 AGATCTTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
34 23 0.88
35 3 0.12
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (34 bp):
CTAAGCAGTAGGGAAACAGCTCGAACTTTAACCT
Found at i:78654061 original size:45 final size:44
Alignment explanation
Indices: 78653918--78654069 Score: 132
Period size: 44 Copynumber: 3.5 Consensus size: 44
78653908 GATCTTATCA
* * *
78653918 CCCTAAGCAGTAGGGAAACAGATCGAA-TGCAATGGGTCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGT-AAAAGAGTCTTAAAC
* * * *** *
78653962 CCCTAAGCAGTAGGGTAACAGA-CCAAATTGCAGA-TCTT-ATC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTAAAAGAGTCTTAAAC
* *
78654003 TCCCTAAGTAGTAGGGAAACAGATCGAAGGTAAAAGAGCCTTAAAC
1 -CCCTAAGCAGTAGGGAAACAGATCGAA-GTAAAAGAGTCTTAAAC
*
78654049 CCCTAAGCAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGAAACAG
78654070 GCTGAATTTA
Statistics
Matches: 83, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
41 2 0.02
42 24 0.29
43 7 0.08
44 26 0.31
45 22 0.27
46 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAGATCGAAGTAAAAGAGTCTTAAAC
Found at i:78654129 original size:87 final size:88
Alignment explanation
Indices: 78653895--78654171 Score: 314
Period size: 86 Copynumber: 3.2 Consensus size: 88
78653885 GTGGGGCAGA
* * * *
78653895 CTGAAGATCTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAATG-CAATGGGTCTTA
1 CTGAA-AT-TACAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAAGACAATGAGCCTTA
*
78653959 AACCCCTAAGCAGTAGGGTAACAGA
64 AACCCCTAAGCAGTAGGGTAACAGG
* * * * *
78653984 C-CAAATTGCAGATCTTATCTCCCTAAGTAGTAGGGAAACAGATCGAAGGTA-AAAGAGCCTTAA
1 CTGAAATTACAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAAG-ACAATGAGCCTTAA
78654047 ACCCCTAAGCAGTAGGGTAACAGG
65 ACCCCTAAGCAGTAGGGTAACAGG
* * * * *
78654071 CTGAATTTACAGATCTTACCTCCCTAAGCAGTAGTGG-AGCAGATC-AAAGACGATGAGCCTT-G
1 CTGAAATTACAGATCTTATCTCCCTAAGCAGTAG-GGAAACAGATCGAAAGACAATGAGCCTTAA
*
78654133 ACCCCTAAGCAGCAGGGTAACAGG
65 ACCCCTAAGCAGTAGGGTAACAGG
*
78654157 CTGAAAATTATAGAT
1 CTG-AAATTACAGAT
78654172 TATATCTTCT
Statistics
Matches: 160, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
86 66 0.41
87 55 0.34
88 36 0.22
89 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (88 bp):
CTGAAATTACAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAAGACAATGAGCCTTAAA
CCCCTAAGCAGTAGGGTAACAGG
Found at i:78655874 original size:21 final size:22
Alignment explanation
Indices: 78655834--78655884 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
78655824 TGTATATACG
*
78655834 TATATTTTATGTACATTATGTA
1 TATATTTTATATACATTATGTA
* *
78655856 TATATTTTA-ATATATTATGTG
1 TATATTTTATATACATTATGTA
78655877 TATATTTT
1 TATATTTT
78655885 GTTTTGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (22 bp):
TATATTTTATATACATTATGTA
Found at i:78656495 original size:20 final size:23
Alignment explanation
Indices: 78656461--78656501 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
78656451 TACTAACATA
78656461 TATATATACTATGTA-ATTTTAT
1 TATATATACTATGTACATTTTAT
78656483 TATAT-TACT-TGTACATTTT
1 TATATATACTATGTACATTTT
78656502 TATATACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (23 bp):
TATATATACTATGTACATTTTAT
Found at i:78656507 original size:21 final size:21
Alignment explanation
Indices: 78656459--78656507 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
78656449 ATTACTAACA
78656459 TATATATATACTATGTAATTT
1 TATATATATACTATGTAATTT
78656480 TAT-TATATTACT-TGTACATTT
1 TATATATA-TACTATGTA-ATTT
78656501 T-TATATA
1 TATATATA
78656508 CCATGCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (21 bp):
TATATATATACTATGTAATTT
Found at i:78659102 original size:15 final size:15
Alignment explanation
Indices: 78659082--78659112 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
78659072 AAATATGACT
78659082 AGAATCAAGATTCTA
1 AGAATCAAGATTCTA
78659097 AGAATCAAGATTCTA
1 AGAATCAAGATTCTA
78659112 A
1 A
78659113 AGAAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (15 bp):
AGAATCAAGATTCTA
Found at i:78664187 original size:60 final size:61
Alignment explanation
Indices: 78664070--78664199 Score: 156
Period size: 60 Copynumber: 2.1 Consensus size: 61
78664060 TTTCCTTTTA
* * * * * * * *
78664070 AAATTTTTAGAATTAGAATTAAATTTATAAATTTTGTAAATGTTGATGATTAAATTTATTG
1 AAATTTTTAGAATTAAAACTAAATTGAAAAATTTTATAAATATTGAAGACTAAATTTATTG
78664131 AAATTTTTAGAATTAAAACTAAA-TGAAAAATTTTATAAATATT-AAGAGCTAAATTTATTG
1 AAATTTTTAGAATTAAAACTAAATTGAAAAATTTTATAAATATTGAAGA-CTAAATTTATTG
*
78664191 AATTTTTTA
1 AAATTTTTA
78664200 ATTTAAGATC
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
59 3 0.05
60 35 0.59
61 21 0.36
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (61 bp):
AAATTTTTAGAATTAAAACTAAATTGAAAAATTTTATAAATATTGAAGACTAAATTTATTG
Found at i:78666773 original size:15 final size:15
Alignment explanation
Indices: 78666726--78666773 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
78666716 CTGAAATCTG
*
78666726 TTTTAATTTTTATAC
1 TTTTAATTTATATAC
*
78666741 -TTTAATTTA-ATCAA
1 TTTTAATTTATAT-AC
78666755 TTTTAATTTATATAC
1 TTTTAATTTATATAC
78666770 TTTT
1 TTTT
78666774 CAAATCGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 2 0.07
14 9 0.33
15 14 0.52
16 2 0.07
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTAATTTATATAC
Found at i:78666858 original size:14 final size:14
Alignment explanation
Indices: 78666841--78666867 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78666831 TCAAATAATA
78666841 TTAGTTAAATTCAT
1 TTAGTTAAATTCAT
78666855 TTAGTTAAATTCA
1 TTAGTTAAATTCA
78666868 ATTATTAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
TTAGTTAAATTCAT
Found at i:78671213 original size:8 final size:8
Alignment explanation
Indices: 78671200--78671244 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
78671190 CGACAAAACT
78671200 CGAAATGC
1 CGAAATGC
78671208 CGAAATGC
1 CGAAATGC
*
78671216 CAAAATGC
1 CGAAATGC
*
78671224 CGAAAAGC
1 CGAAATGC
*
78671232 CGAAATAC
1 CGAAATGC
78671240 CGAAA
1 CGAAA
78671245 AGCTGAAAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.09
Consensus pattern (8 bp):
CGAAATGC
Found at i:78671252 original size:16 final size:16
Alignment explanation
Indices: 78671200--78671252 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
78671190 CGACAAAACT
* *
78671200 CGAAATGCCGAAATGC
1 CGAAATACCGAAAAGC
* *
78671216 CAAAATGCCGAAAAGC
1 CGAAATACCGAAAAGC
78671232 CGAAATACCGAAAAGC
1 CGAAATACCGAAAAGC
*
78671248 TGAAA
1 CGAAA
78671253 GTTTGACTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (16 bp):
CGAAATACCGAAAAGC
Found at i:78671509 original size:29 final size:28
Alignment explanation
Indices: 78671465--78671549 Score: 125
Period size: 29 Copynumber: 3.0 Consensus size: 28
78671455 TAATCATGAC
*
78671465 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTG-ATTGGGCCTAATGGGCCA
78671494 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
* *
78671523 TATAAATGTGATTGGGCTTAGTGGGCC
1 TATAAATGTGATTGGGCCTAATGGGCC
78671550 GCATACAGGT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 15 0.29
29 37 0.71
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.31
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:78675208 original size:8 final size:8
Alignment explanation
Indices: 78675195--78675233 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
78675185 ATCGGCAAAA
78675195 GCCGAAAT
1 GCCGAAAT
78675203 GCCGAAAT
1 GCCGAAAT
*
78675211 GCCGAAAA
1 GCCGAAAT
*
78675219 GCTGAAAT
1 GCCGAAAT
*
78675227 GCTGAAA
1 GCCGAAA
78675234 AGCTGAAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.41, C:0.21, G:0.26, T:0.13
Consensus pattern (8 bp):
GCCGAAAT
Found at i:78675216 original size:16 final size:16
Alignment explanation
Indices: 78675195--78675241 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
78675185 ATCGGCAAAA
*
78675195 GCCGAAATGCCGAAAT
1 GCCGAAAAGCCGAAAT
*
78675211 GCCGAAAAGCTGAAAT
1 GCCGAAAAGCCGAAAT
* *
78675227 GCTGAAAAGCTGAAA
1 GCCGAAAAGCCGAAA
78675242 GTTTGACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.13
Consensus pattern (16 bp):
GCCGAAAAGCCGAAAT
Found at i:78675241 original size:24 final size:24
Alignment explanation
Indices: 78675191--78675241 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
78675181 GTAGATCGGC
*
78675191 AAAAGCCGAAATGCCGAAATGCCG
1 AAAAGCCGAAATGCCGAAAAGCCG
* * *
78675215 AAAAGCTGAAATGCTGAAAAGCTG
1 AAAAGCCGAAATGCCGAAAAGCCG
78675239 AAA
1 AAA
78675242 GTTTGACTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.12
Consensus pattern (24 bp):
AAAAGCCGAAATGCCGAAAAGCCG
Found at i:78675563 original size:8 final size:8
Alignment explanation
Indices: 78675550--78675588 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
78675540 ATCGGCAAAA
78675550 GCCGAAAT
1 GCCGAAAT
78675558 GCCGAAAT
1 GCCGAAAT
*
78675566 GCCGAAAA
1 GCCGAAAT
*
78675574 GCTGAAAT
1 GCCGAAAT
*
78675582 GCTGAAA
1 GCCGAAA
78675589 AGCTGAAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.41, C:0.21, G:0.26, T:0.13
Consensus pattern (8 bp):
GCCGAAAT
Found at i:78675571 original size:16 final size:16
Alignment explanation
Indices: 78675550--78675596 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
78675540 ATCGGCAAAA
*
78675550 GCCGAAATGCCGAAAT
1 GCCGAAAAGCCGAAAT
*
78675566 GCCGAAAAGCTGAAAT
1 GCCGAAAAGCCGAAAT
* *
78675582 GCTGAAAAGCTGAAA
1 GCCGAAAAGCCGAAA
78675597 GTTTGACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.13
Consensus pattern (16 bp):
GCCGAAAAGCCGAAAT
Found at i:78675590 original size:355 final size:355
Alignment explanation
Indices: 78674939--78675648 Score: 1420
Period size: 355 Copynumber: 2.0 Consensus size: 355
78674929 AGGGGGACTA
78674939 TGTCATATTTCAAGTTACATAGGCAGATCGCAGTCTATCAATTTAGTCAAGGCAAGTATAGGTGG
1 TGTCATATTTCAAGTTACATAGGCAGATCGCAGTCTATCAATTTAGTCAAGGCAAGTATAGGTGG
78675004 TTCTTCGGTAAGTAGTGGATTTATTTTGAATTAATGGAATGTGACTAATGGAATATAACATTGAA
66 TTCTTCGGTAAGTAGTGGATTTATTTTGAATTAATGGAATGTGACTAATGGAATATAACATTGAA
78675069 TATAGGTTCGAGCGATTATGAATACTTAGTACTCCAGGTGATAAGGTGTGTAATTCTACCCTATG
131 TATAGGTTCGAGCGATTATGAATACTTAGTACTCCAGGTGATAAGGTGTGTAATTCTACCCTATG
78675134 ATAACTTGATATAAAGCCGAGGGTGTGTACACACACTGCACACACAAGTAGATCGGCAAAAGCCG
196 ATAACTTGATATAAAGCCGAGGGTGTGTACACACACTGCACACACAAGTAGATCGGCAAAAGCCG
78675199 AAATGCCGAAATGCCGAAAAGCTGAAATGCTGAAAAGCTGAAAGTTTGACTACGACAGTCTTGCG
261 AAATGCCGAAATGCCGAAAAGCTGAAATGCTGAAAAGCTGAAAGTTTGACTACGACAGTCTTGCG
78675264 AGTGCGCGAACACTCGTGAGATGGAAACTG
326 AGTGCGCGAACACTCGTGAGATGGAAACTG
78675294 TGTCATATTTCAAGTTACATAGGCAGATCGCAGTCTATCAATTTAGTCAAGGCAAGTATAGGTGG
1 TGTCATATTTCAAGTTACATAGGCAGATCGCAGTCTATCAATTTAGTCAAGGCAAGTATAGGTGG
78675359 TTCTTCGGTAAGTAGTGGATTTATTTTGAATTAATGGAATGTGACTAATGGAATATAACATTGAA
66 TTCTTCGGTAAGTAGTGGATTTATTTTGAATTAATGGAATGTGACTAATGGAATATAACATTGAA
78675424 TATAGGTTCGAGCGATTATGAATACTTAGTACTCCAGGTGATAAGGTGTGTAATTCTACCCTATG
131 TATAGGTTCGAGCGATTATGAATACTTAGTACTCCAGGTGATAAGGTGTGTAATTCTACCCTATG
78675489 ATAACTTGATATAAAGCCGAGGGTGTGTACACACACTGCACACACAAGTAGATCGGCAAAAGCCG
196 ATAACTTGATATAAAGCCGAGGGTGTGTACACACACTGCACACACAAGTAGATCGGCAAAAGCCG
78675554 AAATGCCGAAATGCCGAAAAGCTGAAATGCTGAAAAGCTGAAAGTTTGACTACGACAGTCTTGCG
261 AAATGCCGAAATGCCGAAAAGCTGAAATGCTGAAAAGCTGAAAGTTTGACTACGACAGTCTTGCG
78675619 AGTGCGCGAACACTCGTGAGATGGAAACTG
326 AGTGCGCGAACACTCGTGAGATGGAAACTG
78675649 ATAGGTTGTC
Statistics
Matches: 355, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
355 355 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (355 bp):
TGTCATATTTCAAGTTACATAGGCAGATCGCAGTCTATCAATTTAGTCAAGGCAAGTATAGGTGG
TTCTTCGGTAAGTAGTGGATTTATTTTGAATTAATGGAATGTGACTAATGGAATATAACATTGAA
TATAGGTTCGAGCGATTATGAATACTTAGTACTCCAGGTGATAAGGTGTGTAATTCTACCCTATG
ATAACTTGATATAAAGCCGAGGGTGTGTACACACACTGCACACACAAGTAGATCGGCAAAAGCCG
AAATGCCGAAATGCCGAAAAGCTGAAATGCTGAAAAGCTGAAAGTTTGACTACGACAGTCTTGCG
AGTGCGCGAACACTCGTGAGATGGAAACTG
Found at i:78675596 original size:24 final size:24
Alignment explanation
Indices: 78675546--78675596 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
78675536 GTAGATCGGC
*
78675546 AAAAGCCGAAATGCCGAAATGCCG
1 AAAAGCCGAAATGCCGAAAAGCCG
* * *
78675570 AAAAGCTGAAATGCTGAAAAGCTG
1 AAAAGCCGAAATGCCGAAAAGCCG
78675594 AAA
1 AAA
78675597 GTTTGACTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.12
Consensus pattern (24 bp):
AAAAGCCGAAATGCCGAAAAGCCG
Found at i:78675890 original size:28 final size:28
Alignment explanation
Indices: 78675809--78675895 Score: 129
Period size: 29 Copynumber: 3.0 Consensus size: 28
78675799 TGAGCATGAC
* *
78675809 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTG-ATTGGGCCTAATGAGCCA
78675838 TATAAATGTGATTTGGGCCTAATGAGCCA
1 TATAAATGTGA-TTGGGCCTAATGAGCCA
*
78675867 TATAAATGTGATTGGGCTTAATGAGCCA
1 TATAAATGTGATTGGGCCTAATGAGCCA
78675895 T
1 T
78675896 GTACAGGTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 18 0.33
29 36 0.67
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGAGCCA
Found at i:78704426 original size:15 final size:16
Alignment explanation
Indices: 78704406--78704435 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
78704396 CTGTAAAGAT
78704406 TATACATT-TCATATA
1 TATACATTCTCATATA
78704421 TATACATTCTCATAT
1 TATACATTCTCATAT
78704436 CTCGTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (16 bp):
TATACATTCTCATATA
Found at i:78707516 original size:41 final size:42
Alignment explanation
Indices: 78707421--78707521 Score: 118
Period size: 41 Copynumber: 2.4 Consensus size: 42
78707411 GCCAACATCC
** * *
78707421 CAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCT
1 CAGACGTGGTCTTACA-CAAATCAAATATCGATGCCAATGTCT
78707464 CAGACAG-GGTCTTACACAAATCAAATA-CGATGCCAATGTC-
1 CAGAC-GTGGTCTTACACAAATCAAATATCGATGCCAATGTCT
78707504 CAAGACGTGGTCTTACAC
1 C-AGACGTGGTCTTACAC
78707522 GAGAACACAT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
40 2 0.04
41 26 0.51
42 8 0.16
43 14 0.27
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (42 bp):
CAGACGTGGTCTTACACAAATCAAATATCGATGCCAATGTCT
Found at i:78723649 original size:43 final size:41
Alignment explanation
Indices: 78723576--78723655 Score: 97
Period size: 43 Copynumber: 1.9 Consensus size: 41
78723566 AGATAGGGTC
* * *
78723576 TTACACGAATCAAATACGATGCCGATGTCCCATACATAGTA
1 TTACACGAATCAAATACGATGCCAACGTCCCAGACATAGTA
**
78723617 TTACACGTAATCTCATATCGATGCCAACGTCCCAGACAT
1 TTACACG-AATCAAATA-CGATGCCAACGTCCCAGACAT
78723656 GGCCTTATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 7 0.22
42 7 0.22
43 18 0.56
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.25
Consensus pattern (41 bp):
TTACACGAATCAAATACGATGCCAACGTCCCAGACATAGTA
Found at i:78728072 original size:60 final size:60
Alignment explanation
Indices: 78727991--78728127 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
78727981 CAGAGTTAAC
*
78727991 TGGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATAACAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* * *
78728052 TGGGCCTAGCCCATATCAATATCAATTTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATAACAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
78728112 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
78728128 TAACACAGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
60 53 0.78
61 13 0.19
62 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATAACAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:78728145 original size:20 final size:20
Alignment explanation
Indices: 78728120--78728165 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
78728110 ATTGGGCCTT
78728120 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
78728140 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
78728159 GCCCATA
1 GCCCATA
78728166 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:78728174 original size:19 final size:20
Alignment explanation
Indices: 78728132--78728175 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
78728122 CCATATTAAC
** *
78728132 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
78728152 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
78728171 ACAGT
1 ACAGT
78728176 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:78733411 original size:48 final size:48
Alignment explanation
Indices: 78733336--78733563 Score: 207
Period size: 48 Copynumber: 4.9 Consensus size: 48
78733326 CACATGGTAG
* * ** * *
78733336 GATGCCAATACCATATCCTGGATATGGTCTTACGTGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * ** **
78733384 GATGCCAATGCCATGTCCCAGACATGGTCTTACGTAGGATCGTAGGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
*
78733432 GATGCCAATGCCATGTCTCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * * ** * *
78733480 GATGCCGAT---A-G-CCTAG-CTACGGTCTTACACGAAATTACATATA
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
*
78733523 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
78733564 GTACATAACC
Statistics
Matches: 139, Mismatches: 34, Indels: 14
0.74 0.18 0.07
Matches are distributed among these distances:
42 1 0.01
43 29 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 104 0.75
49 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:78739020 original size:18 final size:18
Alignment explanation
Indices: 78738997--78739031 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78738987 TCCTGTTCAA
78738997 CTTCCTAGTCTTCACTTC
1 CTTCCTAGTCTTCACTTC
**
78739015 CTTCCTCTTCTTCACTT
1 CTTCCTAGTCTTCACTT
78739032 TCTTACTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.40, G:0.03, T:0.49
Consensus pattern (18 bp):
CTTCCTAGTCTTCACTTC
Found at i:78739040 original size:18 final size:18
Alignment explanation
Indices: 78739005--78739043 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
78738995 AACTTCCTAG
*
78739005 TCTTCACTTCCTTCCTCT
1 TCTTCACTTCCTTACTCT
*
78739023 TCTTCACTTTCTTACTCT
1 TCTTCACTTCCTTACTCT
78739041 TCT
1 TCT
78739044 GATCTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.38, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTCACTTCCTTACTCT
Found at i:78751485 original size:39 final size:40
Alignment explanation
Indices: 78751440--78751607 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
78751430 CGGGGTTTAG
* * *
78751440 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
78751479 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
78751519 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
78751559 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
78751600 CCGGATAT
1 CCGGATAT
78751608 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:78751590 original size:41 final size:40
Alignment explanation
Indices: 78751463--78751607 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
78751453 CTCGCACAAG
* * * * *
78751463 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
78751503 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
78751543 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
78751584 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
78751608 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:78759926 original size:46 final size:46
Alignment explanation
Indices: 78759791--78759968 Score: 130
Period size: 46 Copynumber: 3.8 Consensus size: 46
78759781 ACATTATGAG
** * * * *
78759791 AGCCAGTGTAAGACCAT-GTCCAGGACATGGCATCGACATTGAGAAGAG
1 AGCCAGTGTAAGA-CATGGT-TGGGACAT-GCATCAACATCGAGACGAT
* * * * *
78759839 AGCTAGTGTAAGATATGTTTGGGACGTGCATCAACCTCGAGACG-T
1 AGCCAGTGTAAGACATGGTTGGGACATGCATCAACATCGAGACGAT
*
78759884 AAGCCAGTGTAAGACATGGTTGGGACATGCATCAA-ATACGAGATGAT
1 -AGCCAGTGTAAGACATGGTTGGGACATGCATCAACAT-CGAGACGAT
* *
78759931 AGTCAGTGTAAGACCAT-GTCTAGGACATGGCATCAACA
1 AGCCAGTGTAAGA-CATGGT-TGGGACAT-GCATCAACA
78759969 CCTTACCCAC
Statistics
Matches: 103, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
45 1 0.01
46 63 0.61
47 18 0.17
48 20 0.19
49 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.21
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGGTTGGGACATGCATCAACATCGAGACGAT
Found at i:78762050 original size:47 final size:47
Alignment explanation
Indices: 78761993--78762246 Score: 224
Period size: 47 Copynumber: 5.4 Consensus size: 47
78761983 GCGGGTAAGG
78761993 TGCCGATGCCATGTCCCAGACACGGTCTTACACTAGATCAT-ATCTC-A
1 TGCCGATGCCATGTCCCAGACA-GGTCTTACACTAGA-CATCATCTCGA
*
78762040 TGTCGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCATCTCG-
1 TGCCGATGCCATGTCCCAGACA-GGTCTTACACTAGAC-ATCATCTCGA
* * * * *** *
78762087 TAGTCGATG-CATGTACCAGACATGTCTTCCACT-GGTTTACGTCTCGA
1 T-GCCGATGCCATGTCCCAGACAGGTCTTACACTAGACAT-CATCTCGA
* *
78762134 GGCCGATG-CATGTCCCAGACATGTCTTACACTAG-CACTCATCTCGA
1 TGCCGATGCCATGTCCCAGACAGGTCTTACACTAGACA-TCATCTCGA
* *
78762180 TGCCGATGCCACGTCCCAGACATGGTCTTACACT-GACTATCATCTTG-
1 TGCCGATGCCATGTCCCAGACA-GGTCTTACACTAGAC-ATCATCTCGA
78762227 TAGCCGATG-CATGTCCCAGA
1 T-GCCGATGCCATGTCCCAGA
78762247 ATATACAGCA
Statistics
Matches: 173, Mismatches: 21, Indels: 26
0.79 0.10 0.12
Matches are distributed among these distances:
45 2 0.01
46 62 0.36
47 76 0.44
48 32 0.18
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACAGGTCTTACACTAGACATCATCTCGA
Found at i:78762199 original size:93 final size:94
Alignment explanation
Indices: 78762043--78762214 Score: 228
Period size: 93 Copynumber: 1.8 Consensus size: 94
78762033 TATCTCATGT
* *
78762043 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGTCGATGCATGTACCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-ATCATCTCGTAGCCGATGCACGTACCAGAC
*
78762108 AT-GTCTTCCACTGGTTTACGTCTCGAGGC
65 ATGGTCTTACACTGGTTTACGTCTCGAGGC
*
78762137 CGATG-CATGTCCCAGACAT-GTCTTACACT-AGCACTCATCTCG-ATGCCGATGCCACGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CA-TCATCTCGTA-GCCGATG-CACGTACCA
78762198 GACATGGTCTTACACTG
62 GACATGGTCTTACACTG
78762215 ACTATCATCT
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
91 3 0.04
92 25 0.36
93 26 0.38
94 15 0.22
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACATCATCTCGTAGCCGATGCACGTACCAGACA
TGGTCTTACACTGGTTTACGTCTCGAGGC
Found at i:78762266 original size:140 final size:140
Alignment explanation
Indices: 78761994--78762266 Score: 356
Period size: 140 Copynumber: 1.9 Consensus size: 140
78761984 CGGGTAAGGT
* *
78761994 GCCGATGCCATGTCCCAGACACGGTCTTACACTAGATCATATCTCATGTCGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAGACACGGTCTTACACTAGATCA-ATCTCATGCCGATGCCACGTCCCAG
* * ** * **
78762059 ACATGGTCTTACACTGACTATCATCTCGTAGTCGATGCATGTACCAGACATGTCTTCCACTGGTT
65 ACATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTACCAGACATATCAGCAACAAGTT
78762124 TACGTCTCGAG
130 TACGTCTCGAG
*
78762135 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCACTC-ATCTCGATGCCGATGCCACGTCCC
1 GCCGATGCCATGTCCCAGACACGGTCTTACACTAG-A-TCAATCTC-ATGCCGATGCCACGTCCC
* *
78762197 AGACATGGTCTTACACTGACTATCATCTTGTAGCCGATGCATGTCCCAGA-ATATACAGCAACAA
63 AGACATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTACCAGACATAT-CAGCAACAA
*
78762261 TTTTAC
127 GTTTAC
78762267 CATTCATTAA
Statistics
Matches: 115, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
139 20 0.17
140 86 0.75
141 9 0.08
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (140 bp):
GCCGATGCCATGTCCCAGACACGGTCTTACACTAGATCAATCTCATGCCGATGCCACGTCCCAGA
CATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTACCAGACATATCAGCAACAAGTTT
ACGTCTCGAG
Found at i:78762446 original size:48 final size:46
Alignment explanation
Indices: 78762352--78762446 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 46
78762342 CTGGCTTATG
78762352 TCTCGAGGCCAATGCATGTCCCAAACATGTCTTACACTAGCACTCA
1 TCTCGAGGCCAATGCATGTCCCAAACATGTCTTACACTAGCACTCA
* * * * *
78762398 TCTCGATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
1 TCTCGAGGCCAATG-CATGTCCCAAACAT-GTCTTACACTAGCACTCA
78762446 T
1 T
78762447 AATGTGGCTG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
46 12 0.29
47 13 0.31
48 17 0.40
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (46 bp):
TCTCGAGGCCAATGCATGTCCCAAACATGTCTTACACTAGCACTCA
Found at i:78762464 original size:47 final size:46
Alignment explanation
Indices: 78762354--78762486 Score: 126
Period size: 47 Copynumber: 2.8 Consensus size: 46
78762344 GGCTTATGTC
* * * *
78762354 TCGAGGCCAATGCATGTCCCAAACATGTCTTACACTAGCACTCATC
1 TCGATGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATA
* *
78762400 TCGATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAA
1 TCGATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCAT-A
* * * *
78762449 T-G-TGGCTGATGCATGTCCTAGACACGTCTTACCCTAGC
1 TCGAT-GCCGATGCATGTCCCAGACATGTCTTACACTAGC
78762487 CCACAATGAC
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
46 21 0.29
47 26 0.36
48 24 0.33
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (46 bp):
TCGATGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATA
Found at i:78765260 original size:46 final size:46
Alignment explanation
Indices: 78765124--78765387 Score: 211
Period size: 47 Copynumber: 5.6 Consensus size: 46
78765114 GGTAAGGTGC
* *
78765124 CGATGCCATGTCCCAGACACGGTCTTACACTAGA-TCAT-ATCTC-ATGT
1 CGATG-CATGTCCCAGACA-TGTCTTACACT-GACT-ATCATCTCGAGGT
78765171 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGT
* * * * * *
78765219 CGATGCATGTACCAGACATGTCTTCCACTG-GTTTACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAGGT
* *
78765265 CGATGCATGTCCCAGACATGTCTTACACT-AGC-ACTCATCTCGATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGA-CTA-TCATCTCGAGGT
* * * * * *
78765311 CGATGCCACGTCCCAGACATGGTCTTACACTGGCTTTCATAT-TATGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCGA-GGT
78765359 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
78765388 AGCTAATACA
Statistics
Matches: 182, Mismatches: 20, Indels: 31
0.78 0.09 0.13
Matches are distributed among these distances:
45 3 0.02
46 72 0.40
47 76 0.42
48 30 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGT
Found at i:78765362 original size:94 final size:94
Alignment explanation
Indices: 78765120--78765390 Score: 308
Period size: 94 Copynumber: 2.9 Consensus size: 94
78765110 CGCGGGTAAG
* * * *
78765120 GTGCCGATGCCATGTCCCAGACACGGTCTTACACTAG-ATCATATCTCAT-GTCGATGCCATGTC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTTCATATCT-ATGGCCGATG-CATGTC
78765183 CCAGACATGGTCTTACACT-G-ACTATCATCTC
64 CCAGACAT-GTCTTACACTAGCAC-ATCATCTC
* * * * * *
78765214 GTAGTCGATG-CATGTACCAGACAT-GTCTTCCACTGGTTTACGTCTCGA-GGCCGATGCATGTC
1 GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTT-CATATCTATGGCCGATGCATGTC
78765276 CCAGACATGTCTTACACTAGCAC-TCATCTC
64 CCAGACATGTCTTACACTAGCACATCATCTC
*
78765306 GATGCCGATGCCACGTCCCAGACATGGTCTTACACTGGCTTTCATAT-TATGGCCGATGCATGTC
1 G-TGCCGATGCCATGTCCCAGACATGGTCTTACACTGG-TTTCATATCTATGGCCGATGCATGTC
78765370 CCAGACATGTCTTACACTAGC
64 CCAGACATGTCTTACACTAGC
78765391 TAATACAAGT
Statistics
Matches: 149, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
92 24 0.16
93 39 0.26
94 73 0.49
95 13 0.09
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (94 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTTCATATCTATGGCCGATGCATGTCCC
AGACATGTCTTACACTAGCACATCATCTC
Found at i:78765382 original size:140 final size:140
Alignment explanation
Indices: 78765122--78765387 Score: 367
Period size: 140 Copynumber: 1.9 Consensus size: 140
78765112 CGGGTAAGGT
* *
78765122 GCCGATGCCATGTCCCAGACACGGTCTTACACTAGATCATATCTCATGTCGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAGACACGGTCTTACACTAGATCA-ATCTCATGCCGATGCCACGTCCCAG
* * * *
78765187 ACATGGTCTTACACTGACTATCATCTCGTAGTCGATGCATGTACCAGACATGTCTTCCACTGGTT
65 ACATGGTCTTACACTGACTATCATATCATAGCCGATGCATGTACCAGACATGTCTTACACTGGTT
78765252 TACGTCTCGAG
130 TACGTCTCGAG
*
78765263 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCACTC-ATCTCGATGCCGATGCCACGTCCC
1 GCCGATGCCATGTCCCAGACACGGTCTTACACTAG-A-TCAATCTC-ATGCCGATGCCACGTCCC
* * * * *
78765325 AGACATGGTCTTACACTGGCTTTCATATTATGGCCGATGCATGTCCCAGACATGTCTTACACT
63 AGACATGGTCTTACACTGACTATCATATCATAGCCGATGCATGTACCAGACATGTCTTACACT
78765388 AGCTAATACA
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
139 17 0.15
140 84 0.76
141 9 0.08
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (140 bp):
GCCGATGCCATGTCCCAGACACGGTCTTACACTAGATCAATCTCATGCCGATGCCACGTCCCAGA
CATGGTCTTACACTGACTATCATATCATAGCCGATGCATGTACCAGACATGTCTTACACTGGTTT
ACGTCTCGAG
Found at i:78765689 original size:46 final size:45
Alignment explanation
Indices: 78765562--78765770 Score: 190
Period size: 46 Copynumber: 4.5 Consensus size: 45
78765552 CCTAGGTTCG
*
78765562 TGTCCCAGACATGGTCTTACACTG-ACTATCATCTCGTA-GTCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGCAC--TCATCTCG-AGGCCGATGCA
* * *** *
78765609 TGTACCAGACATGTCTTCCACTGGTTTACGTCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGCACT-CATCTCGAGGCCGATGCA
*
78765655 TGTCCCAGACATGTCTTACACTAGCACTCATCTCGATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACT-GCACTCATCTCGAGGCCGATG-CA
* ** * *
78765702 CGTCCCAGACATGGTCTTACACTGGCTTTCATAT-TATGGCCGATGCA
1 TGTCCCAGACAT-GTCTTACACT-GCACTCATCTCGA-GGCCGATGCA
78765749 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
78765771 AGCTAATACA
Statistics
Matches: 134, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.01
46 68 0.51
47 40 0.30
48 24 0.18
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.29
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGCACTCATCTCGAGGCCGATGCA
Found at i:78765751 original size:94 final size:93
Alignment explanation
Indices: 78765562--78765773 Score: 256
Period size: 94 Copynumber: 2.3 Consensus size: 93
78765552 CCTAGGTTCG
* *
78765562 TGTCCCAGACATGGTCTTACACT-G-ACTATCATCTCGTAGTCGATGCATGTACCAGACATGTCT
1 TGTCCCAGACAT-GTCTTACACTAGCAC-ATCATCTCGTAGCCGATGCACGTACCAGACATGTCT
* * *
78765625 TCCACTGGTTTACGTCTCGAGGCCGATGCA
64 TACACTGGTTTACATATCGAGGCCGATGCA
*
78765655 TGTCCCAGACATGTCTTACACTAGCAC-TCATCTCG-ATGCCGATGCCACGTCCCAGACATGGTC
1 TGTCCCAGACATGTCTTACACTAGCACATCATCTCGTA-GCCGATG-CACGTACCAGACAT-GTC
*
78765718 TTACACTGGCTTT-CATAT-TATGGCCGATGCA
63 TTACACTGG-TTTACATATCGA-GGCCGATGCA
78765749 TGTCCCAGACATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
78765774 TAATACAAGT
Statistics
Matches: 105, Mismatches: 7, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
91 1 0.01
92 24 0.23
93 26 0.25
94 51 0.49
95 3 0.03
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (93 bp):
TGTCCCAGACATGTCTTACACTAGCACATCATCTCGTAGCCGATGCACGTACCAGACATGTCTTA
CACTGGTTTACATATCGAGGCCGATGCA
Found at i:78772226 original size:14 final size:14
Alignment explanation
Indices: 78772207--78772314 Score: 78
Period size: 14 Copynumber: 7.7 Consensus size: 14
78772197 ATAAATCTGC
*
78772207 ATCTATGAGTCCAT
1 ATCTATGAATCCAT
78772221 ATCTATGAATCCAT
1 ATCTATGAATCCAT
* ***
78772235 ATTTATGAATATGT
1 ATCTATGAATCCAT
78772249 ATCTATGAATCC-T
1 ATCTATGAATCCAT
* ***
78772262 AACCTATGAATCTGC
1 -ATCTATGAATCCAT
78772277 ATCTATGAA--CATGT
1 ATCTATGAATCCA--T
*
78772291 ATCTATGAATGCAT
1 ATCTATGAATCCAT
78772305 ATCTATGAAT
1 ATCTATGAAT
78772315 TCACATTTGC
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
13 1 0.01
14 70 0.96
16 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (14 bp):
ATCTATGAATCCAT
Found at i:78772253 original size:42 final size:42
Alignment explanation
Indices: 78772207--78772320 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
78772197 ATAAATCTGC
* * * *
78772207 ATCTATGAGTCCATATCTATGAATCCATATTTATGAATATGT
1 ATCTATGAATCCATATCTATGAATCCACATCTATGAACATGT
* **
78772249 ATCTATGAATCC-TAACCTATGAATCTGCATCTATGAACATGT
1 ATCTATGAATCCAT-ATCTATGAATCCACATCTATGAACATGT
* *
78772291 ATCTATGAATGCATATCTATGAATTCACAT
1 ATCTATGAATCCATATCTATGAATCCACAT
78772321 TTGCGAATTT
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
41 1 0.02
42 56 0.97
43 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (42 bp):
ATCTATGAATCCATATCTATGAATCCACATCTATGAACATGT
Found at i:78775510 original size:42 final size:42
Alignment explanation
Indices: 78775463--78775546 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
78775453 TTATTTCTAA
78775463 GATCTAGTATAGTAACAATAGAGATCAACAAATTGCATTCAC
1 GATCTAGTATAGTAACAATAGAGATCAACAAATTGCATTCAC
78775505 GATCTAGTATAGTAACAATAGAGATCAACAAATTGCATTCAC
1 GATCTAGTATAGTAACAATAGAGATCAACAAATTGCATTCAC
78775547 CCCAATATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (42 bp):
GATCTAGTATAGTAACAATAGAGATCAACAAATTGCATTCAC
Found at i:78776257 original size:27 final size:27
Alignment explanation
Indices: 78776204--78776259 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
78776194 CTTAAAGGTT
*
78776204 AAAGTATTAAATTAAATGATATATAGA
1 AAAGTATTAAATTAAATGACATATAGA
* *
78776231 AAAGTATTAAATTAAATGACCTGTAGA
1 AAAGTATTAAATTAAATGACATATAGA
78776258 AA
1 AA
78776260 TATCCATCGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (27 bp):
AAAGTATTAAATTAAATGACATATAGA
Found at i:78781788 original size:40 final size:40
Alignment explanation
Indices: 78781733--78781812 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
78781723 GATGATAGTT
78781733 CATATAAAACTTATGAGTCAGATACTTCATATTCTGATTC
1 CATATAAAACTTATGAGTCAGATACTTCATATTCTGATTC
* *
78781773 CATATAAAACTTATGAGTCAGATACTTCTTATTTTGATTC
1 CATATAAAACTTATGAGTCAGATACTTCATATTCTGATTC
78781813 TTTTGAGTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (40 bp):
CATATAAAACTTATGAGTCAGATACTTCATATTCTGATTC
Found at i:78792512 original size:8 final size:8
Alignment explanation
Indices: 78792501--78792555 Score: 89
Period size: 8 Copynumber: 7.2 Consensus size: 8
78792491 TTAATGTTTT
78792501 AAACCCTA
1 AAACCCTA
78792509 AAACCCTA
1 AAACCCTA
78792517 AAA-CCTA
1 AAACCCTA
78792524 AAACCCTA
1 AAACCCTA
78792532 AAACCCT-
1 AAACCCTA
78792539 AAACCCT-
1 AAACCCTA
78792546 AAACCCTA
1 AAACCCTA
78792554 AA
1 AA
78792556 CCATAAACCC
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
7 21 0.47
8 24 0.53
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.13
Consensus pattern (8 bp):
AAACCCTA
Found at i:78792556 original size:7 final size:7
Alignment explanation
Indices: 78792500--78792565 Score: 87
Period size: 7 Copynumber: 9.0 Consensus size: 7
78792490 ATTAATGTTT
78792500 TAAACCC
1 TAAACCC
78792507 TAAAACCC
1 T-AAACCC
*
78792515 TAAAACC
1 TAAACCC
78792522 TAAAACCC
1 T-AAACCC
78792530 TAAAACCC
1 T-AAACCC
78792538 TAAACCC
1 TAAACCC
78792545 TAAACCC
1 TAAACCC
*
78792552 TAAACCA
1 TAAACCC
78792559 TAAACCC
1 TAAACCC
78792566 CTTATTCTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
7 32 0.60
8 21 0.40
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAACCC
Found at i:78792567 original size:15 final size:14
Alignment explanation
Indices: 78792500--78792565 Score: 87
Period size: 15 Copynumber: 4.5 Consensus size: 14
78792490 ATTAATGTTT
78792500 TAAACCCTAAAACCC
1 TAAACCCT-AAACCC
*
78792515 TAAAACCTAAAACCC
1 TAAACCCT-AAACCC
78792530 TAAAACCCTAAACCC
1 T-AAACCCTAAACCC
*
78792545 TAAACCCTAAACCA
1 TAAACCCTAAACCC
78792559 TAAACCC
1 TAAACCC
78792566 CTTATTCTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
14 19 0.40
15 22 0.47
16 6 0.13
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (14 bp):
TAAACCCTAAACCC
Found at i:78795966 original size:55 final size:55
Alignment explanation
Indices: 78795855--78795973 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
78795845 CAGCCAAAGC
* * *
78795855 AACACGGGCGTGTGACACGCCCGTGCCTTGAAGCAGTGGATGAAACTGTCAAATT
1 AACACGGGCGTGTGACACGCCCGTGCCTAGAACCAGTGGATCAAACTGTCAAATT
* * * *
78795910 AACACGGGCGTGTGACACGCCCGTGTCTAGCACCCA-TGG-TCAAACTTGTTAGATT
1 AACACGGGCGTGTGACACGCCCGTGCCTAG-AACCAGTGGATCAAAC-TGTCAAATT
*
78795965 AACATGGGC
1 AACACGGGC
78795974 ATGGGGCTAC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
54 5 0.09
55 46 0.85
56 3 0.06
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.21
Consensus pattern (55 bp):
AACACGGGCGTGTGACACGCCCGTGCCTAGAACCAGTGGATCAAACTGTCAAATT
Found at i:78803945 original size:20 final size:21
Alignment explanation
Indices: 78803920--78803958 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
78803910 CTAAACTTAT
*
78803920 TCAATCAAT-TCATACAATCA
1 TCAATCAATCTCAAACAATCA
78803940 TCAATCAATCTCAAACAAT
1 TCAATCAATCTCAAACAAT
78803959 TTGTCCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (21 bp):
TCAATCAATCTCAAACAATCA
Found at i:78810976 original size:6 final size:6
Alignment explanation
Indices: 78810884--78810986 Score: 82
Period size: 6 Copynumber: 17.0 Consensus size: 6
78810874 AGGCGAAATT
* * * * * * * *
78810884 AATAAA AACATAA AATGAA AAGAAA AATGAA AAGAAA AAGAAA TAGAAA
1 AATAAA AATA-AA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
* *
78810933 TAGAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA-ATAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATA-AA AATAAA
*
78810981 ATTAAA
1 AATAAA
78810987 CATCATCATT
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
5 1 0.01
6 75 0.93
7 5 0.06
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:78812729 original size:40 final size:40
Alignment explanation
Indices: 78812676--78812785 Score: 168
Period size: 40 Copynumber: 2.8 Consensus size: 40
78812666 GGACATAGCT
* *
78812676 ACTCGCTCGAATGCCTTCGGGACTTAGCCCAG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAAT-TAGTA
*
78812716 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
*
78812756 ACTAGCACAAATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
78812786 GGTTATCATC
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
40 63 0.97
41 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
Found at i:78820465 original size:40 final size:40
Alignment explanation
Indices: 78820395--78820612 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
78820385 CAACCAAGTA
* * * *
78820395 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
78820434 CCTTTGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
78820474 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
78820514 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
78820554 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
78820594 CATTCGAGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
78820613 TTATCATCCG
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
39 15 0.09
40 144 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:78823433 original size:23 final size:23
Alignment explanation
Indices: 78823364--78823427 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
78823354 CATTAGTATG
* * *
78823364 GTAATAGCATGAGAATGATCATA
1 GTAATGGCATGGGAATGAGCATA
78823387 GTAATGGCATGGGAATGAGCATA
1 GTAATGGCATGGGAATGAGCATA
*
78823410 GTAATGGCATGGGTATGA
1 GTAATGGCATGGGAATGA
78823428 CAATAGAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.08, G:0.31, T:0.25
Consensus pattern (23 bp):
GTAATGGCATGGGAATGAGCATA
Found at i:78824004 original size:55 final size:55
Alignment explanation
Indices: 78823931--78824048 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
78823921 CAGTCTCACA
* * **
78823931 CCCGTGTTAATCTAACAGGTTCGACCATGGTTGCTTGGCACGGGCGTGTCGCACG
1 CCCGTGTTAATCTAACAGGTTCGACCACGATTGCAAGGCACGGGCGTGTCGCACG
* * * * * * *
78823986 CCCGTGTTAATTTGACAGGTTTGGCCACGATTTCAAGGCATGGGCGTGTCTCACG
1 CCCGTGTTAATCTAACAGGTTCGACCACGATTGCAAGGCACGGGCGTGTCGCACG
78824041 CCCGTGTT
1 CCCGTGTT
78824049 GTTTTGCCAG
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (55 bp):
CCCGTGTTAATCTAACAGGTTCGACCACGATTGCAAGGCACGGGCGTGTCGCACG
Found at i:78831990 original size:17 final size:18
Alignment explanation
Indices: 78831965--78832006 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
78831955 GAAATTAATA
78831965 AAAACATAAAATGAAAAT
1 AAAACATAAAATGAAAAT
*
78831983 AAAA-ATAAAATTAAAAT
1 AAAACATAAAATGAAAAT
*
78832000 TAAACAT
1 AAAACAT
78832007 CATCATCGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAACATAAAATGAAAAT
Found at i:78845087 original size:13 final size:13
Alignment explanation
Indices: 78845071--78845095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78845061 ATATGCCTAC
78845071 TATATATCAAGAT
1 TATATATCAAGAT
78845084 TATATATCAAGA
1 TATATATCAAGA
78845096 CAACATTTGC
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:0.08, T:0.36
Consensus pattern (13 bp):
TATATATCAAGAT
Found at i:78849154 original size:13 final size:13
Alignment explanation
Indices: 78849136--78849161 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78849126 CAAAATTTGG
78849136 CTCGTTTTGGTAA
1 CTCGTTTTGGTAA
78849149 CTCGTTTTGGTAA
1 CTCGTTTTGGTAA
78849162 TTCATTCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (13 bp):
CTCGTTTTGGTAA
Found at i:78849888 original size:54 final size:54
Alignment explanation
Indices: 78849806--78849936 Score: 253
Period size: 54 Copynumber: 2.4 Consensus size: 54
78849796 TTTATGGCAG
78849806 GATTACCAGTCCAGGCTAAATCCCCCATATTGTAAACTCATAAGGTGATGTCGA
1 GATTACCAGTCCAGGCTAAATCCCCCATATTGTAAACTCATAAGGTGATGTCGA
78849860 GATTACCAGTCCAGGCTAAATCCCCCATATTGTAAACTCATAAGGTGATGTCGA
1 GATTACCAGTCCAGGCTAAATCCCCCATATTGTAAACTCATAAGGTGATGTCGA
*
78849914 GATTACCAGTCCAGGTTAAATCC
1 GATTACCAGTCCAGGCTAAATCC
78849937 TTTATTTTAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (54 bp):
GATTACCAGTCCAGGCTAAATCCCCCATATTGTAAACTCATAAGGTGATGTCGA
Found at i:78857755 original size:67 final size:68
Alignment explanation
Indices: 78857614--78857761 Score: 187
Period size: 67 Copynumber: 2.2 Consensus size: 68
78857604 CATCATGTGT
* * * *
78857614 ACAAGAGAGCTACAAGAGATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACAAGAGATTATGATGTAGCTAGGTCGCATGCGTGATACAATGAGGACACCATG
78857679 TAG
66 TAG
* *
78857682 ACAAGAGAGCTAC-AGA-A-TAT-ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACC
1 ACAAGAGAGCTACAAGAGATTATGATGTAGCTAGGTCGCATGCGT-GATACAA-TG-AGGACACC
78857743 ATGTAG
63 ATGTAG
78857749 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
78857762 GAGATAAACT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
64 20 0.28
65 7 0.10
66 3 0.04
67 28 0.39
68 13 0.18
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACAAGAGATTATGATGTAGCTAGGTCGCATGCGTGATACAATGAGGACACCATG
TAG
Done.