Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold20
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: 3599867
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 51021 characters in sequence are not A, C, G, or T
File 5 of 25
Found at i:672462 original size:51 final size:51
Alignment explanation
Indices: 672405--672521 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
672395 TTATTTTTGA
* *
672405 GGGGATACTCCAGCCTCGATTTTA-TTTCTAAAATC-CCAATTTTTCACAATC
1 GGGGATACTCCAACCTCGATTTTATTTTC-AAAA-CACCAATTTCTCACAATC
* *
672456 GGGGATACTCCAACTTCGATTTTATTTTCAAAACACCAATTTCTCACAATT
1 GGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAATTTCTCACAATC
**
672507 AAGGATACTCCAACC
1 GGGGATACTCCAACC
672522 CCGTTATTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 1 0.02
51 52 0.91
52 4 0.07
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAATTTCTCACAATC
Found at i:672546 original size:130 final size:129
Alignment explanation
Indices: 672379--672627 Score: 324
Period size: 130 Copynumber: 1.9 Consensus size: 129
672369 ATGTCATTGG
* ** * * * **
672379 GGATACTCCAATCTTGTTATTTTTGAGGGGATACTCCAGCCTCGATTTTATTTCTAAA-ATCCCA
1 GGATACTCCAACCCCGTTATTTTTCAGGGGATACTCCAACCCCGACCTTATTTCTAAACAT--CA
**
672443 ATTTTTCACAATCGGGGATACTCCAACTTCGATTTTATTT-TCAAAACACCAATTTCTCACAATT
64 ATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTGT-AAAACACCAATTTCTCACAATT
672507 AA
128 AA
*
672509 GGATACTCCAACCCCGTTA-TTTTCACGGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCA
1 GGATACTCCAACCCCGTTATTTTTCA-GGGGATACTCCAACCCCGACCTTATTTCTAAA-CATCA
*
672573 ATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTGTAAAACATCAATTT
64 ATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTGTAAAACACCAATTT
672628 TCCATAATCG
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
129 5 0.05
130 95 0.92
131 1 0.01
132 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (129 bp):
GGATACTCCAACCCCGTTATTTTTCAGGGGATACTCCAACCCCGACCTTATTTCTAAACATCAAT
TTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTGTAAAACACCAATTTCTCACAATTAA
Found at i:672598 original size:51 final size:51
Alignment explanation
Indices: 672534--672705 Score: 202
Period size: 51 Copynumber: 3.4 Consensus size: 51
672524 GTTATTTTCA
*** *
672534 CGGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCAATTTTTCACAAT
1 CGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAAT
* * *
672585 CGGGGATACTCCAACCCCGATTTTATTTGTAAAACATCAATTTTCCATAAT
1 CGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAAT
** * * * *
672636 CGGAAATACTCTAACTCCGATTTTATTTCCAAAACATCATTTTTTTCACAAT
1 CGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCA-ATTTTTCACAAT
672688 CAGGGG-TACTCCAACCCC
1 C-GGGGATACTCCAACCCC
672706 AGGGATACCC
Statistics
Matches: 99, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
51 77 0.78
52 20 0.20
53 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
CGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAAT
Found at i:672718 original size:17 final size:17
Alignment explanation
Indices: 672688--672722 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
672678 TTTTCACAAT
* *
672688 CAGGGGTACTCCAACCC
1 CAGGGATACCCCAACCC
672705 CAGGGATACCCCAACCC
1 CAGGGATACCCCAACCC
672722 C
1 C
672723 GTTATTTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.46, G:0.20, T:0.09
Consensus pattern (17 bp):
CAGGGATACCCCAACCC
Found at i:679994 original size:12 final size:12
Alignment explanation
Indices: 679979--680003 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
679969 ATTGTAAAGA
679979 TGATTGATAAAT
1 TGATTGATAAAT
679991 TGATTGATAAAT
1 TGATTGATAAAT
680003 T
1 T
680004 AAACTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (12 bp):
TGATTGATAAAT
Found at i:680989 original size:27 final size:27
Alignment explanation
Indices: 680954--681020 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
680944 CCTTTTTAAG
*
680954 ATTATTTTTAAAGCATCTCTCAAGAAT
1 ATTAATTTTAAAGCATCTCTCAAGAAT
*
680981 ATTAATTTTAAAGCCTCTCTCAAGAAT
1 ATTAATTTTAAAGCATCTCTCAAGAAT
*
681008 ATTAGTTTTAAAG
1 ATTAATTTTAAAG
681021 TCTTTCTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.40
Consensus pattern (27 bp):
ATTAATTTTAAAGCATCTCTCAAGAAT
Found at i:683459 original size:27 final size:27
Alignment explanation
Indices: 683414--683466 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
683404 GAACAAATCT
* *
683414 ACACATTTATACACTCGAAACTAAGCC
1 ACACATTTATACACACGAAAATAAGCC
* *
683441 ACACATTTGTACAGACGAAAATAAGC
1 ACACATTTATACACACGAAAATAAGC
683467 TGAACTTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.43, C:0.25, G:0.11, T:0.21
Consensus pattern (27 bp):
ACACATTTATACACACGAAAATAAGCC
Found at i:688091 original size:105 final size:105
Alignment explanation
Indices: 687909--688121 Score: 426
Period size: 105 Copynumber: 2.0 Consensus size: 105
687899 AATGAAGAGA
687909 CACAAAACAAGTGAAATCAATTAAAAATAGACATTCCAAGAGGAATATCACTTCATTACCATTAC
1 CACAAAACAAGTGAAATCAATTAAAAATAGACATTCCAAGAGGAATATCACTTCATTACCATTAC
687974 CTAATGAATAAAACAGAGTCCCCAGCAAAGAGTCTCTTTC
66 CTAATGAATAAAACAGAGTCCCCAGCAAAGAGTCTCTTTC
688014 CACAAAACAAGTGAAATCAATTAAAAATAGACATTCCAAGAGGAATATCACTTCATTACCATTAC
1 CACAAAACAAGTGAAATCAATTAAAAATAGACATTCCAAGAGGAATATCACTTCATTACCATTAC
688079 CTAATGAATAAAACAGAGTCCCCAGCAAAGAGTCTCTTTC
66 CTAATGAATAAAACAGAGTCCCCAGCAAAGAGTCTCTTTC
688119 CAC
1 CAC
688122 TAACAAATAG
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 108 1.00
ACGTcount: A:0.44, C:0.23, G:0.11, T:0.23
Consensus pattern (105 bp):
CACAAAACAAGTGAAATCAATTAAAAATAGACATTCCAAGAGGAATATCACTTCATTACCATTAC
CTAATGAATAAAACAGAGTCCCCAGCAAAGAGTCTCTTTC
Found at i:689518 original size:2 final size:2
Alignment explanation
Indices: 689513--689552 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
689503 TCACAAAAAA
*
689513 GT GT GT GC GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
689553 ATACATAGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
GT
Found at i:690432 original size:2 final size:2
Alignment explanation
Indices: 690427--690476 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
690417 CTTCTCTCAG
* * *
690427 CT CT CT CT CT CT CG CT CT CT CG CT CT CT CG CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
690469 CT CT CT CT
1 CT CT CT CT
690477 ATTGGTGTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.06, T:0.44
Consensus pattern (2 bp):
CT
Found at i:690444 original size:8 final size:8
Alignment explanation
Indices: 690419--690476 Score: 75
Period size: 8 Copynumber: 7.4 Consensus size: 8
690409 CCTTCTTACT
690419 TCTCTCAGC
1 TCTCTC-GC
690428 TCTCT--C
1 TCTCTCGC
690434 TCTCTCGC
1 TCTCTCGC
690442 TCTCTCGC
1 TCTCTCGC
690450 TCTCTCGC
1 TCTCTCGC
*
690458 TCTCTCTC
1 TCTCTCGC
*
690466 TCTCTCTC
1 TCTCTCGC
690474 TCT
1 TCT
690477 ATTGGTGTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
6 6 0.13
8 35 0.76
9 5 0.11
ACGTcount: A:0.02, C:0.48, G:0.07, T:0.43
Consensus pattern (8 bp):
TCTCTCGC
Found at i:690794 original size:19 final size:18
Alignment explanation
Indices: 690772--690819 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
690762 TTTTTTAATT
690772 TATTTTTTTT-TAAATACAA
1 TATTTTTTTTGTAAA-A-AA
*
690791 TATTTTTTCTTGTAAAATA
1 TATTTTTT-TTGTAAAAAA
690810 TATTTTTTTT
1 TATTTTTTTT
690820 CAACTATCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.08
19 17 0.65
20 3 0.12
21 4 0.15
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (18 bp):
TATTTTTTTTGTAAAAAA
Found at i:691479 original size:3 final size:3
Alignment explanation
Indices: 691471--691510 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
691461 TATCTATTGT
691471 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
691511 CCTCTACATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:691664 original size:12 final size:13
Alignment explanation
Indices: 691638--691685 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 13
691628 AGAGGGAGCG
*
691638 AAGGAGAGAAGGA
1 AAGGAGAGAAAGA
691651 AAGGA-AGAAAGA
1 AAGGAGAGAAAGA
691663 AA-G-GA-AAAG-
1 AAGGAGAGAAAGA
691672 AAGGAGAGAAAGA
1 AAGGAGAGAAAGA
691685 A
1 A
691686 GAAAAAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
9 2 0.07
10 5 0.17
11 4 0.14
12 12 0.41
13 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (13 bp):
AAGGAGAGAAAGA
Found at i:691692 original size:22 final size:21
Alignment explanation
Indices: 691651--691699 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
691641 GAGAGAAGGA
*
691651 AAGGAAGAAAGAAAGGAAAAG
1 AAGGAAGAAAGAAAGAAAAAG
691672 AAGGAGAGAAAG-AAGAAAAA-
1 AAGGA-AGAAAGAAAGAAAAAG
691692 AAGAGAAG
1 AAG-GAAG
691700 GGAAAAAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.20
21 14 0.56
22 6 0.24
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (21 bp):
AAGGAAGAAAGAAAGAAAAAG
Found at i:691864 original size:11 final size:12
Alignment explanation
Indices: 691858--691886 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
691848 TATATTAATA
691858 ATTTATTTATAT
1 ATTTATTTATAT
691870 ATTT-TTTATAT
1 ATTTATTTATAT
691881 ATTTAT
1 ATTTAT
691887 ATATTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTATTTATAT
Found at i:691872 original size:19 final size:19
Alignment explanation
Indices: 691842--691891 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
691832 AATTTATATA
691842 ATATTT-TATATTAATAAT
1 ATATTTATATATTAATAAT
* ** *
691860 TTATTTATATATTTTTTAT
1 ATATTTATATATTAATAAT
691879 ATATTTATATATT
1 ATATTTATATATT
691892 TATATAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATATTTATATATTAATAAT
Found at i:691885 original size:8 final size:8
Alignment explanation
Indices: 691818--691897 Score: 56
Period size: 8 Copynumber: 10.0 Consensus size: 8
691808 TGTGCATTTT
*
691818 TTTATATG
1 TTTATATA
* *
691826 TTCATAAA
1 TTTATATA
691834 TTTATATAA
1 TTTATAT-A
*
691843 TATTTTATA
1 T-TTATATA
*
691852 TTAATA-A
1 TTTATATA
*
691859 TTTATTTA
1 TTTATATA
* *
691867 TATAT-TT
1 TTTATATA
691874 TTTATATA
1 TTTATATA
691882 TTTATATA
1 TTTATATA
691890 TTTATATA
1 TTTATATA
691898 AAATTCATAT
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
7 10 0.19
8 35 0.65
9 4 0.07
10 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (8 bp):
TTTATATA
Found at i:692728 original size:23 final size:24
Alignment explanation
Indices: 692692--692739 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
692682 AAATGATAAA
*
692692 ATTATTTTAAATT-AATAATTATT
1 ATTATTTTAAATTAAATAATAATT
**
692715 ATTATTTTGCATTAAATAATAATT
1 ATTATTTTAAATTAAATAATAATT
692739 A
1 A
692740 ATACTTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
ATTATTTTAAATTAAATAATAATT
Found at i:692751 original size:24 final size:24
Alignment explanation
Indices: 692705--692751 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
692695 ATTTTAAATT
* *
692705 AATAATTATTATTATTTTGCATTA
1 AATAATAATTAATATTTTGCATTA
692729 AATAATAATTAATACTTTT-CATT
1 AATAATAATTAATA-TTTTGCATT
692752 GCTTTTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.51
Consensus pattern (24 bp):
AATAATAATTAATATTTTGCATTA
Found at i:693450 original size:21 final size:24
Alignment explanation
Indices: 693411--693473 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
693401 ATTTTAAAAT
* *
693411 TAAT-TATTTAACTTAAAAAT-ATT
1 TAATATATTTAA-ATAAAAATAATA
693434 TAA-ATA-TTAAATAAAAATAATA
1 TAATATATTTAAATAAAAATAATA
693456 TAATATATTTAAATAAAA
1 TAATATATTTAAATAAAA
693474 TAAAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 7 0.21
22 9 0.26
23 8 0.24
24 10 0.29
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TAATATATTTAAATAAAAATAATA
Found at i:695176 original size:13 final size:13
Alignment explanation
Indices: 695158--695183 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
695148 TACACCAAGT
695158 ATGTATCGATACA
1 ATGTATCGATACA
695171 ATGTATCGATACA
1 ATGTATCGATACA
695184 CCCAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:695181 original size:32 final size:34
Alignment explanation
Indices: 695140--695204 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
695130 TAGCCAAACT
**
695140 TGTATCGATACA-CCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCCAAAAATTGTATCGATACAA
695172 TGTATCGATACACCCAAAAATTGTATCGATACA
1 TGTATCGATACACCCAAAAATTGTATCGATACA
695205 TTGGCTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 12 0.41
33 5 0.17
34 12 0.41
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (34 bp):
TGTATCGATACACCCAAAAATTGTATCGATACAA
Found at i:697259 original size:14 final size:16
Alignment explanation
Indices: 697235--697266 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
697225 TTTACTTTTC
697235 TATTCAATATTA-TTG
1 TATTCAATATTACTTG
697250 TATT-AATATTACTTG
1 TATTCAATATTACTTG
697265 TA
1 TA
697267 CAATTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (16 bp):
TATTCAATATTACTTG
Found at i:699449 original size:28 final size:27
Alignment explanation
Indices: 699418--699482 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
699408 GATAATTTTA
*
699418 AATAAAACATAAAAAATAATTAAAATAT
1 AATAAAACATAAAAAATAA-TAAAAAAT
* *
699446 AATATAATATAAAAAATAATAAAAAAT
1 AATAAAACATAAAAAATAATAAAAAAT
699473 AA-AAATACAT
1 AATAAA-ACAT
699483 GAATGTGTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.06
27 12 0.39
28 17 0.55
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (27 bp):
AATAAAACATAAAAAATAATAAAAAAT
Found at i:699464 original size:17 final size:17
Alignment explanation
Indices: 699433--699477 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
699423 AACATAAAAA
*
699433 ATAAT-TAAAATATAAT
1 ATAATATAAAAAATAAT
699449 ATAATATAAAAAATAAT
1 ATAATATAAAAAATAAT
* *
699466 AAAAAATAAAAA
1 ATAATATAAAAA
699478 TACATGAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAATATAAAAAATAAT
Found at i:699467 original size:10 final size:10
Alignment explanation
Indices: 699426--699474 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
699416 TAAATAAAAC
699426 ATAAAAAATA
1 ATAAAAAATA
*
699436 AT-TAAAAT-
1 ATAAAAAATA
*
699444 ATAATATAAT-
1 ATAA-AAAATA
699454 ATAAAAAATA
1 ATAAAAAATA
699464 ATAAAAAATA
1 ATAAAAAATA
699474 A
1 A
699475 AAATACATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
8 2 0.06
9 9 0.28
10 21 0.66
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
ATAAAAAATA
Found at i:701104 original size:16 final size:16
Alignment explanation
Indices: 701085--701115 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
701075 ATTTAATATT
701085 TATTTAATATTAAAAA
1 TATTTAATATTAAAAA
*
701101 TATTTATTATTAAAA
1 TATTTAATATTAAAA
701116 TCTATTCTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:703280 original size:22 final size:22
Alignment explanation
Indices: 703250--703356 Score: 94
Period size: 22 Copynumber: 4.8 Consensus size: 22
703240 TTAAATTATT
* *
703250 TTTAA-ATTTATATTAATTATG
1 TTTAATATTTAAATTAATTAAG
* * *
703271 TTTAATATTTGATTTAATTAAA
1 TTTAATATTTAAATTAATTAAG
703293 TTTAAATTATTTAAATTTAAGTT-A-
1 TTT-AA-TATTTAAA-TTAA-TTAAG
* *
703317 TTTAAAATTTAAATAAATTAAG
1 TTTAATATTTAAATTAATTAAG
703339 TTTAATATTTAAATTAAT
1 TTTAATATTTAAATTAAT
703357 CAACCTTAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
20 2 0.03
21 9 0.13
22 37 0.54
23 4 0.06
24 9 0.13
25 5 0.07
26 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
TTTAATATTTAAATTAATTAAG
Found at i:703306 original size:15 final size:15
Alignment explanation
Indices: 703288--703353 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 15
703278 TTTGATTTAA
703288 TTAAATTTAAATTAT
1 TTAAATTTAAATTAT
*
703303 TTAAATTTAAGTTAT
1 TTAAATTTAAATTAT
* *
703318 TTAAAATTTAAATAAA
1 TT-AAATTTAAATTAT
*
703334 TTAAGTTT-AA-TAT
1 TTAAATTTAAATTAT
703347 TTAAATT
1 TTAAATT
703354 AATCAACCTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
13 7 0.17
14 2 0.05
15 21 0.50
16 12 0.29
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TTAAATTTAAATTAT
Found at i:703325 original size:31 final size:29
Alignment explanation
Indices: 703290--703351 Score: 79
Period size: 31 Copynumber: 2.1 Consensus size: 29
703280 TGATTTAATT
* *
703290 AAATTTAAATTATTTAAATTTAAGTTATTTA
1 AAATTTAAATAAATTAAATTTAA--TATTTA
*
703321 AAATTTAAATAAATTAAGTTTAATATTTA
1 AAATTTAAATAAATTAAATTTAATATTTA
703350 AA
1 AA
703352 TTAATCAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 8 0.29
31 20 0.71
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
AAATTTAAATAAATTAAATTTAATATTTA
Found at i:703366 original size:37 final size:37
Alignment explanation
Indices: 703325--703396 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
703315 TATTTAAAAT
**
703325 TTAAATAAATTAAGTTTAATATTTAAATTAATCAACC
1 TTAAATAAATTAAAATTAATATTTAAATTAATCAACC
* *
703362 TTAAATCAATTAAAATTAATATTTAAATTTATCAA
1 TTAAATAAATTAAAATTAATATTTAAATTAATCAA
703397 ATTTGATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (37 bp):
TTAAATAAATTAAAATTAATATTTAAATTAATCAACC
Found at i:703366 original size:68 final size:66
Alignment explanation
Indices: 703250--703392 Score: 162
Period size: 68 Copynumber: 2.2 Consensus size: 66
703240 TTAAATTATT
* * * * * * * * *
703250 TTTAAATTTATATTAATTATGTTTAATATTTGATTTAATTAAATTTAAATTATTTAAATTTAAGT
1 TTTAAATTTAAATAAATTAAGTTTAATATTTAAATTAATCAAACTTAAATCAATTAAATTTAA-T
703315 TA
65 TA
* *
703317 TTTAAAATTTAAATAAATTAAGTTTAATATTTAAATTAATCAACCTTAAATCAATTAAAATTAA-
1 TTT-AAATTTAAATAAATTAAGTTTAATATTTAAATTAATCAAACTTAAATCAATTAAATTTAAT
703381 TA
65 TA
703383 TTTAAATTTA
1 TTTAAATTTA
703393 TCAAATTTGA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
65 7 0.11
66 5 0.08
67 3 0.05
68 49 0.77
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (66 bp):
TTTAAATTTAAATAAATTAAGTTTAATATTTAAATTAATCAAACTTAAATCAATTAAATTTAATT
A
Found at i:703477 original size:16 final size:17
Alignment explanation
Indices: 703458--703490 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
703448 ATATCGGTTC
703458 AAATTTAAATT-ATTTT
1 AAATTTAAATTAATTTT
703474 AAATTTAAATTAATTTT
1 AAATTTAAATTAATTTT
703491 TTTATTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AAATTTAAATTAATTTT
Found at i:703518 original size:18 final size:18
Alignment explanation
Indices: 703465--703518 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 18
703455 TTCAAATTTA
*
703465 AATTATTTTAAATTTAAATT
1 AATTATTTTTAA-TTAAA-T
703485 AATT-TTTTT-ATT--AT
1 AATTATTTTTAATTAAAT
703499 AATTATTTTTAATTAAAT
1 AATTATTTTTAATTAAAT
703517 AA
1 AA
703519 ATTAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
14 5 0.17
15 6 0.21
16 3 0.10
17 2 0.07
18 5 0.17
19 4 0.14
20 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTATTTTTAATTAAAT
Found at i:704077 original size:10 final size:10
Alignment explanation
Indices: 704059--704101 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
704049 TTGAAAGGTC
704059 TTTATTTATT
1 TTTATTTATT
*
704069 TTTAGTTATT
1 TTTATTTATT
* *
704079 TTTAAATTAGT
1 TTT-ATTTATT
704090 TTTATTTATT
1 TTTATTTATT
704100 TT
1 TT
704102 CTCCATGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (10 bp):
TTTATTTATT
Found at i:706019 original size:17 final size:16
Alignment explanation
Indices: 705989--706022 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
705979 TAAATTAATA
705989 TAATTTAATTTAAAAT
1 TAATTTAATTTAAAAT
*
706005 TAATTTTATTATAAAAT
1 TAATTTAATT-TAAAAT
706022 T
1 T
706023 TAAAACTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATTTAATTTAAAAT
Found at i:709416 original size:19 final size:18
Alignment explanation
Indices: 709391--709476 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 18
709381 TAGCGACACA
709391 TTGTATCGATACAATATT
1 TTGTATCGATACAATATT
709409 TATGTATCGATAC---A--
1 T-TGTATCGATACAATATT
*
709423 TTGTATCGATACAACACTT
1 TTGTATCGATACAATA-TT
* *
709442 ATGTATCGATACATTTACTGT
1 TTGTATCGATACA-ATA-T-T
709463 TTGTATCGATACAA
1 TTGTATCGATACAA
709477 ATTGTTGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 23 0.43
20 3 0.06
21 13 0.24
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (18 bp):
TTGTATCGATACAATATT
Found at i:709429 original size:13 final size:13
Alignment explanation
Indices: 709411--709435 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
709401 ACAATATTTA
709411 TGTATCGATACAT
1 TGTATCGATACAT
709424 TGTATCGATACA
1 TGTATCGATACA
709436 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:709429 original size:32 final size:32
Alignment explanation
Indices: 709379--709456 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
709369 GCAGTAGCTT
* * * *
709379 TGTAGCGACACATTGTATCGATACAATATTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
709411 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
709443 TGTATCGATACATT
1 TGTATCGATACATT
709457 TACTGTTTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:712347 original size:51 final size:52
Alignment explanation
Indices: 712272--712378 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 52
712262 AATTTAACTG
* * *
712272 AATGTATCGATATATTAAAGAATGTATTAATACATTTGGGTC-AAAACCCAA
1 AATGTATCGATAAATGAAAGAATGTATCAATACATTTGGGTCAAAAACCCAA
* *
712323 AATGTATCGATACAATGAAA-AATGTATCGATACATTTGGGTCAAAAACCCAG
1 AATGTATCGATA-AATGAAAGAATGTATCAATACATTTGGGTCAAAAACCCAA
712375 AATG
1 AATG
712379 ATGTACGGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 32 0.65
52 17 0.35
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (52 bp):
AATGTATCGATAAATGAAAGAATGTATCAATACATTTGGGTCAAAAACCCAA
Found at i:713268 original size:19 final size:18
Alignment explanation
Indices: 713240--713294 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
713230 AAAAATTGGT
*
713240 GAAAAAAAGAGAAAAGGA
1 GAAAAAAAGAGAAAAGAA
713258 GAAAGAAAAGA-AAGAAGAA
1 GAAA-AAAAGAGAA-AAGAA
713277 G-AAAAAAGAGAAAA-AA
1 GAAAAAAAGAGAAAAGAA
713293 GA
1 GA
713295 TTTATACATT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
16 3 0.09
17 8 0.25
18 10 0.31
19 11 0.34
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (18 bp):
GAAAAAAAGAGAAAAGAA
Found at i:713290 original size:9 final size:9
Alignment explanation
Indices: 713242--713294 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
713232 AAATTGGTGA
713242 AAAAAAGAG
1 AAAAAAGAG
*
713251 -AAAAGGAG
1 AAAAAAGAG
713259 AAAGAAA-AG
1 AAA-AAAGAG
*
713268 AAAGAAGAAG
1 AAAAAAG-AG
713278 AAAAAAGAG
1 AAAAAAGAG
713287 AAAAAAGA
1 AAAAAAGA
713295 TTTATACATT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 9 0.25
9 17 0.47
10 10 0.28
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:714843 original size:29 final size:28
Alignment explanation
Indices: 714811--714866 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
714801 GTCTCTGAAA
*
714811 TTTTCAAAATTACACTTTAAACCCTAAAC
1 TTTTCAAAACTACACTTT-AACCCTAAAC
* * *
714840 TTTTTAGAACTACACTTTGACCCTAAA
1 TTTTCAAAACTACACTTTAACCCTAAA
714867 ATGGCCTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.36
Consensus pattern (28 bp):
TTTTCAAAACTACACTTTAACCCTAAAC
Found at i:716535 original size:6 final size:6
Alignment explanation
Indices: 716513--716558 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
716503 TGAAACTAGT
* *
716513 TTAAAA ATAAAA -TAAAA TAAAAA TCTAAAA TTAAAA TTAAAA TTAA
1 TTAAAA TTAAAA TTAAAA TTAAAA T-TAAAA TTAAAA TTAAAA TTAA
716559 TAATCATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 5 0.14
6 25 0.71
7 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (6 bp):
TTAAAA
Found at i:716549 original size:19 final size:18
Alignment explanation
Indices: 716520--716555 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
716510 AGTTTAAAAA
716520 TAAAATAAAATAAAAATC
1 TAAAATAAAATAAAAATC
*
716538 TAAAATTAAAATTAAAAT
1 TAAAA-TAAAATAAAAAT
716556 TAATAATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAATAAAATAAAAATC
Found at i:718768 original size:35 final size:35
Alignment explanation
Indices: 718729--718808 Score: 142
Period size: 35 Copynumber: 2.3 Consensus size: 35
718719 AAACTATTAG
* *
718729 TAATGCAAGTGTGCCTCTTGAGCAACTACTTTGCA
1 TAATGCAAGTGCGCCTCTTGAGCAACTACCTTGCA
718764 TAATGCAAGTGCGCCTCTTGAGCAACTACCTTGCA
1 TAATGCAAGTGCGCCTCTTGAGCAACTACCTTGCA
718799 TAATGCAAGT
1 TAATGCAAGT
718809 CCACTTGTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (35 bp):
TAATGCAAGTGCGCCTCTTGAGCAACTACCTTGCA
Found at i:724665 original size:80 final size:79
Alignment explanation
Indices: 724447--724871 Score: 428
Period size: 80 Copynumber: 5.4 Consensus size: 79
724437 TAAAAAATAA
**** *
724447 GGTTGGAGTAT-CCTAGAGATGAAAAATTCAATATTTTGGAAGTAAAAACAAGGTT-GAAGTATC
1 GGTTGGAGTATCCCTAGAGATGAAAAATTTGGCATTTTGGAAGTAAAAACAGGGTTAG-AGTATC
**
724510 CCTTTGAAGATGGGAG
65 CCTTCAAAGAT-GGAG
** *
724526 GGTTGGAGTAT-CCTA-AGATGAAAAATTCAG-AGTTTTGGAAGTAAAAACAGGGTTGGAGTATC
1 GGTTGGAGTATCCCTAGAGATGAAAAATTTGGCA-TTTTGGAAGTAAAAACAGGGTTAGAGTATC
* **
724588 TCTTCGGAGATGGTAG
65 CCTTCAAAGATGG-AG
* * * *
724604 GGTTGGAATATCCCTAGAGATGAAGAATTTGGCATTTTGGAAGTAGAAACAGGTTTAGAGTATCC
1 GGTTGGAGTATCCCTAGAGATGAAAAATTTGGCATTTTGGAAGTAAAAACAGGGTTAGAGTATCC
* * *
724669 CCTCAGAGATGGGG
66 CTTCAAAGATGGAG
* *** * * *
724683 GGTCGGCCCATCCCTAGAGATGAAAAATTTGACATTTTGGAAATAAAAACGGGGTTAGAGTATCC
1 GGTTGGAGTATCCCTAGAGATGAAAAATTTGGCATTTTGGAAGTAAAAACAGGGTTAGAGTATCC
*
724748 TTTCAAAGATGGAG
66 CTTCAAAGATGGAG
* * * * * *
724762 GGTTTGAAGTATCCCTAGAAATGAAAAATTTGGCATTTTGGAAGTAGAAATATGGTTGGAGTATC
1 GG-TTGGAGTATCCCTAGAGATGAAAAATTTGGCATTTTGGAAGTAAAAACAGGGTTAGAGTATC
*
724827 CCTTCAAAGATGGTG
65 CCTTCAAAGATGGAG
* *
724842 AGGTTGGAGTATCCCTAGAAATAAAAAATT
1 -GGTTGGAGTATCCCTAGAGATGAAAAATT
724872 CTGTGTTTTA
Statistics
Matches: 291, Mismatches: 47, Indels: 15
0.82 0.13 0.04
Matches are distributed among these distances:
77 3 0.01
78 61 0.21
79 88 0.30
80 136 0.47
81 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (79 bp):
GGTTGGAGTATCCCTAGAGATGAAAAATTTGGCATTTTGGAAGTAAAAACAGGGTTAGAGTATCC
CTTCAAAGATGGAG
Found at i:724868 original size:159 final size:159
Alignment explanation
Indices: 724447--724872 Score: 472
Period size: 159 Copynumber: 2.7 Consensus size: 159
724437 TAAAAAATAA
**** * *
724447 GGTTGG-AGTAT-CCTAGAGATGAAAAATTCAATATTTTGGAAGTAAAAACAAGGTTGAAGTATC
1 GGTTGGAAGTATCCCTAGAGATGAAAAATTTGGCATTTTGGAAGTAGAAAC-AGGTTGGAGTATC
** * *
724510 CCTTTGAAGATGGGAGGGTTGGAGTAT-CCTA-AGATGAAAAATTCAGAGTTTTGGAAGTAAAAA
65 CCTTCAAAGATGGGA-GGTTGGAGTATCCCTAGAGATGAAAAATTCAGAATTTTGGAAATAAAAA
* **
724573 CAGGGTTGGAGTATCTCTTCGGAGATGGTAG
129 CAGGGTTAGAGTATCTCTTCAAAGATGGTAG
* *
724604 GGTTGGAA-TATCCCTAGAGATGAAGAATTTGGCATTTTGGAAGTAGAAACAGGTTTAGAGTATC
1 GGTTGGAAGTATCCCTAGAGATGAAAAATTTGGCATTTTGGAAGTAGAAACAGG-TTGGAGTATC
* * * * *** *
724668 CCCTCAGAGATGGGGGGTCGGCCCATCCCTAGAGATGAAAAATT-TGACATTTTGGAAATAAAAA
65 CCTTCAAAGATGGGAGGTTGGAGTATCCCTAGAGATGAAAAATTCAGA-ATTTTGGAAATAAAAA
*
724732 CGGGGTTAGAGTATC-CTTTCAAAGATGG-AG
129 CAGGGTTAGAGTATCTC-TTCAAAGATGGTAG
* * *
724762 GGTTTGAAGTATCCCTAGAAATGAAAAATTTGGCATTTTGGAAGTAGAAATATGGTTGGAGTATC
1 GGTTGGAAGTATCCCTAGAGATGAAAAATTTGGCATTTTGGAAGTAGAAACA-GGTTGGAGTATC
* *
724827 CCTTCAAAGATGGTGAGGTTGGAGTATCCCTAGAAATAAAAAATTC
65 CCTTCAAAGATGG-GAGGTTGGAGTATCCCTAGAGATGAAAAATTC
724873 TGTGTTTTAG
Statistics
Matches: 220, Mismatches: 38, Indels: 18
0.80 0.14 0.07
Matches are distributed among these distances:
157 19 0.09
158 67 0.30
159 108 0.49
160 26 0.12
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (159 bp):
GGTTGGAAGTATCCCTAGAGATGAAAAATTTGGCATTTTGGAAGTAGAAACAGGTTGGAGTATCC
CTTCAAAGATGGGAGGTTGGAGTATCCCTAGAGATGAAAAATTCAGAATTTTGGAAATAAAAACA
GGGTTAGAGTATCTCTTCAAAGATGGTAG
Found at i:727355 original size:20 final size:19
Alignment explanation
Indices: 727328--727403 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 19
727318 CAAAAACGCA
727328 TAATGTATCGATACAATGAG
1 TAATGTATCGATAC-ATGAG
* *
727348 TGATGTATCAATACATCGCCAG
1 TAATGTATCGATACAT-G--AG
* *
727370 -CATGTATCGATACATAAG
1 TAATGTATCGATACATGAG
727388 TAAATGTATCGATACA
1 T-AATGTATCGATACA
727404 ATTTTTCCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.04
19 2 0.04
20 26 0.58
21 13 0.29
22 2 0.04
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (19 bp):
TAATGTATCGATACATGAG
Found at i:729806 original size:17 final size:17
Alignment explanation
Indices: 729764--729806 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
729754 TTTCACTTGT
729764 TCTTTTCTTCTCTCTTTC
1 TCTTTTC-TCTCTCTTTC
* **
729782 CCCCTTCTCTCTCTTTC
1 TCTTTTCTCTCTCTTTC
729799 TCTTTTCT
1 TCTTTTCT
729807 TTTTATATTT
Statistics
Matches: 19, Mismatches: 6, Indels: 1
0.73 0.23 0.04
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (17 bp):
TCTTTTCTCTCTCTTTC
Found at i:730189 original size:20 final size:20
Alignment explanation
Indices: 730164--730320 Score: 112
Period size: 20 Copynumber: 7.8 Consensus size: 20
730154 TTTTCACAAT
730164 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
730184 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
*
730204 TTGTATCCATACATTG-T-A
1 TTGTATCGATACATTGTTCA
* * *
730222 TCG-ATAC-ATTC-TGGGTTTACCTA
1 TTGTAT-CGATACAT-TG-TT--C-A
*
730245 GATGTATCGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
*
730266 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
730286 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
730306 ATGTATCGATACATT
1 TTGTATCGATACATT
730321 TAGGCATTTT
Statistics
Matches: 109, Mismatches: 14, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
16 1 0.01
17 6 0.06
18 4 0.04
19 3 0.03
20 81 0.74
21 2 0.02
22 1 0.01
23 3 0.03
24 2 0.02
25 5 0.05
26 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:730218 original size:13 final size:13
Alignment explanation
Indices: 730202--730231 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
730192 ATACATTGCT
730202 CATTGTATCCATA
1 CATTGTATCCATA
*
730215 CATTGTATCGATA
1 CATTGTATCCATA
730228 CATT
1 CATT
730232 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTGTATCCATA
Found at i:732683 original size:51 final size:51
Alignment explanation
Indices: 732608--732790 Score: 197
Period size: 51 Copynumber: 3.6 Consensus size: 51
732598 AAATTTCTAG
* * * * ** *
732608 ATTTTTCAT-CTCAGGGATACTCCAATCCCGGTTCCATTTCCAAAACATCA
1 ATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCA
* * * *
732658 ATTTTTCTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAGCATCG
1 ATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCA
** * * * *
732709 ATTTACCACAATCGGGGATACTCTAACCCCGATTTTATTTTTAAAACATTA
1 ATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCA
*
732760 ATTTTTCATAATCGGGGATATTCCAACCCCG
1 ATTTTTCATAATCGGGGATACTCCAACCCCG
732791 TTATTTCATC
Statistics
Matches: 106, Mismatches: 26, Indels: 1
0.80 0.20 0.01
Matches are distributed among these distances:
50 8 0.08
51 98 0.92
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCA
Found at i:732806 original size:28 final size:28
Alignment explanation
Indices: 732770--732824 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
732760 ATTTTTCATA
732770 ATCGGGGATA-TTCCAACCCCGTTATTTC
1 ATCGGGGATACTT-CAACCCCGTTATTTC
*
732798 ATCGGGGATACTTCAATCCCGTTATTT
1 ATCGGGGATACTTCAACCCCGTTATTT
732825 TCGAGGGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (28 bp):
ATCGGGGATACTTCAACCCCGTTATTTC
Found at i:732846 original size:28 final size:27
Alignment explanation
Indices: 732772--732846 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
732762 TTTTCATAAT
* *
732772 CGGGGATATTCCAACCCCGTTATTTCA
1 CGGGGATACTCTAACCCCGTTATTTCA
*
732799 TCGGGGATACT-TCAATCCCGTTATTTTCGA
1 -CGGGGATACTCT-AACCCCGTTA-TTTC-A
732829 -GGGGATACTCTAACCCCG
1 CGGGGATACTCTAACCCCG
732847 GCTTTATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
28 33 0.85
29 5 0.13
30 1 0.03
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (27 bp):
CGGGGATACTCTAACCCCGTTATTTCA
Found at i:732885 original size:81 final size:79
Alignment explanation
Indices: 732798--733008 Score: 230
Period size: 82 Copynumber: 2.6 Consensus size: 79
732788 CCGTTATTTC
* * * *
732798 ATCGGGGATACT-TCAATCCCGTTATTTTCGA-GGGGATACTCTAACCCCGGCTTTATATCCAGA
1 ATCGGGGATACTCT-AACCCCGGTA-TTTC-ACGGGGATACTCCAACCCCGGCTTTATATCCAAA
732861 ATATTGATTTTTTTCATA
63 ATATTGA-TTTTTTCATA
*
732879 ATCGGGGGATACTCTAACCCCGGTATTTCATCGGGGATACTCCAACCCCGGCTTTATATCTAAAA
1 ATC-GGGGATACTCTAACCCCGGTATTTCA-CGGGGATACTCCAACCCCGGCTTTATATCCAAAA
732944 TATTGATTTTTTCATA
64 TATTGATTTTTTCATA
* * * * **
732960 ATCGAGGG-TGCTCCAACCCAGTTATGACATCGGGGATACTCCAACCCCG
1 ATCG-GGGATACTCTAACCCCGGTATTTCA-CGGGGATACTCCAACCCCG
733009 TTATTTCCGA
Statistics
Matches: 114, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
80 37 0.32
81 23 0.20
82 53 0.46
83 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (79 bp):
ATCGGGGATACTCTAACCCCGGTATTTCACGGGGATACTCCAACCCCGGCTTTATATCCAAAATA
TTGATTTTTTCATA
Found at i:732977 original size:190 final size:188
Alignment explanation
Indices: 732719--733088 Score: 510
Period size: 190 Copynumber: 2.0 Consensus size: 188
732709 ATTTACCACA
* * * * *
732719 ATCGGGGATACTCTAACCCCGATTTTATTTTTAAAACATTAATTTTTCATAATCGGGGATATTCC
1 ATCGGGGATACTCCAACCCCGACTTTATATCTAAAACATTAATTTTTCATAATCGGGGATACTCC
* ** * * * *
732784 AACCCCGTTATTTCATCGGGGATACTTCAATCCCGTTATTTTCGAGGGGATACTCTAACCCCGGC
66 AACCCAGTTATGACATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGC
* *
732849 TTTATATCCAGAATATTGATTTTTTTCATAAT-CGGGGGATACTCTAACCCCGGTATTTC
131 TTTATATCCAAAATATTGA-TTTTTTCATAATCCGGGGG-TACTCCAACCCCGGTATTTC
* * * *
732908 ATCGGGGATACTCCAACCCCGGCTTTATATCTAAAATATTGATTTTTTCATAATCGAGGG-TGCT
1 ATCGGGGATACTCCAACCCCGACTTTATATCTAAAACATT-AATTTTTCATAATCG-GGGATACT
*
732972 CCAACCCAGTTATGACATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTG
64 CCAACCCAGTTATGACATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
*
733037 GCTTTTTATCCAAAATATTGATTTTTTCATAATCCGGGGGTACTCCAACCCC
129 GCTTTATATCCAAAATATTGATTTTTTCATAATCCGGGGGTACTCCAACCCC
733089 ATTATGTCAT
Statistics
Matches: 158, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
189 57 0.36
190 98 0.62
191 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (188 bp):
ATCGGGGATACTCCAACCCCGACTTTATATCTAAAACATTAATTTTTCATAATCGGGGATACTCC
AACCCAGTTATGACATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGC
TTTATATCCAAAATATTGATTTTTTCATAATCCGGGGGTACTCCAACCCCGGTATTTC
Found at i:733005 original size:80 final size:82
Alignment explanation
Indices: 732829--733008 Score: 256
Period size: 82 Copynumber: 2.2 Consensus size: 82
732819 TTATTTTCGA
* * * *
732829 GGGGATACTCTAACCCCGGCTTTATATCCAGAATATTGATTTTTTTCATAATCGGGGGATACTCT
1 GGGGATACTCCAACCCCGGCTTTATATCCAAAATATTGATTTTTTTCATAATCGAGGGATACTCC
* **
732894 AACCCCGGTATTTCATC
66 AACCCAGGTATGACATC
* *
732911 GGGGATACTCCAACCCCGGCTTTATATCTAAAATATTGA-TTTTTTCATAATCGAGGG-TGCTCC
1 GGGGATACTCCAACCCCGGCTTTATATCCAAAATATTGATTTTTTTCATAATCGAGGGATACTCC
*
732974 AACCCAGTTATGACATC
66 AACCCAGGTATGACATC
732991 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
733009 TTATTTCCGA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 35 0.40
81 17 0.19
82 36 0.41
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (82 bp):
GGGGATACTCCAACCCCGGCTTTATATCCAAAATATTGATTTTTTTCATAATCGAGGGATACTCC
AACCCAGGTATGACATC
Found at i:733014 original size:108 final size:109
Alignment explanation
Indices: 732883--733144 Score: 359
Period size: 108 Copynumber: 2.4 Consensus size: 109
732873 TTCATAATCG
* * *** *
732883 GGGGATACTCTAACCCCGGTATTTCATCGGGGATACTCCAACCCCGGCTTTATATCTAAAATATT
1 GGGGATACTCCAACCCCGCTATTTCCGAGGGGATACTCCAACCCCGGCTTTATATCCAAAATATT
*
732948 GATTTTTTCATAAT-CGAGGGTGCTCCAA-CCCAGTTATGACATC
66 GATTTTTTCATAATCCGAGGGTACTCCAACCCCA-TTATGACATC
* * *
732991 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGCTTTTTATCCAAAATATT
1 GGGGATACTCCAACCCCGCTATTTCCGAGGGGATACTCCAACCCCGGCTTTATATCCAAAATATT
* *
733056 GATTTTTTCATAATCCGGGGGTACTCCAACCCCATTATGTCATC
66 GATTTTTTCATAATCCGAGGGTACTCCAACCCCATTATGACATC
** *
733100 ATGGATACT-CAATCCCGCTATTTCCGAGGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCGCTATTTCCGAGGGGATACTCCAACCCCG
733145 ATTTTATTTT
Statistics
Matches: 136, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
108 104 0.76
109 28 0.21
110 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (109 bp):
GGGGATACTCCAACCCCGCTATTTCCGAGGGGATACTCCAACCCCGGCTTTATATCCAAAATATT
GATTTTTTCATAATCCGAGGGTACTCCAACCCCATTATGACATC
Found at i:733192 original size:51 final size:51
Alignment explanation
Indices: 733127--733246 Score: 150
Period size: 51 Copynumber: 2.4 Consensus size: 51
733117 CTATTTCCGA
* *
733127 GGGGATACTCCAACCCCGATTTTATTTTTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCACAATC
* * ** * * *
733178 GGGGATATTTCAACCCTAATTTTATTTTTAAAGCATCGATTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCACAATC
*
733229 GGGAATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
733247 TTATTTTCGA
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCACAATC
Found at i:735612 original size:153 final size:155
Alignment explanation
Indices: 735243--735636 Score: 490
Period size: 156 Copynumber: 2.5 Consensus size: 155
735233 GTGACTCTAA
* * * * * * *
735243 AAAACTTAAAAAGGATTATAGATGGGAAGAACCTATCCTAAATACCTAACTTCGACATAAAAGCG
1 AAAACTTAAAAAGGATTAAAAATGGGATGAACATATCCTAAATACCCACCTTCGGCATAAAAGCG
* *
735308 GACCCGATGACAACCTAAGACTCAATTCTAAAAAATTACCAAAATGCCCTTAAGGAATATCTTCA
66 GACCCGATGACAACCTAGGACTCAATTCTAAAAAATTACCAAAATGCCCTTAAGGAATACCTTCA
* * *
735373 ACGTAGAAGTGCTCGATACCCCTAG
131 ACATAAAAGTACTCGATACCCCTAG
* *
735398 AAAACTTAAAAATGATTATAAAATGGGATGAATATATCCTAAATACCCACCTTCGGCATAAAAGC
1 AAAACTTAAAAAGGATTA-AAAATGGGATGAACATATCCTAAATACCCACCTTCGGCATAAAAGC
* * * * * * *
735463 AGACCCGATGACAACCTAGGACTCGATTTTAGAAAATTA-CAAATTGCCCTTAGGGGATACCTTC
65 GGACCCGATGACAACCTAGGACTCAATTCTAAAAAATTACCAAAATGCCCTTAAGGAATACCTTC
*
735527 AACATAAAAGTACTCGATATCCCTA-
130 AACATAAAAGTACTCGATACCCCTAG
* * * *
735552 AAGGACTTAAAAA-GATTAGAAATGGGATGAACATATCTTAAATGCCCACCTTCGGCATAAAAGC
1 AA-AACTTAAAAAGGATTAAAAATGGGATGAACATATCCTAAATACCCACCTTCGGCATAAAAGC
*
735616 GGACCC-AGTGACGACCTAGGA
65 GGACCCGA-TGACAACCTAGGA
735637 GTTTTTTTAA
Statistics
Matches: 207, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
152 1 0.00
153 59 0.29
154 7 0.03
155 68 0.33
156 72 0.35
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.22
Consensus pattern (155 bp):
AAAACTTAAAAAGGATTAAAAATGGGATGAACATATCCTAAATACCCACCTTCGGCATAAAAGCG
GACCCGATGACAACCTAGGACTCAATTCTAAAAAATTACCAAAATGCCCTTAAGGAATACCTTCA
ACATAAAAGTACTCGATACCCCTAG
Found at i:735652 original size:153 final size:154
Alignment explanation
Indices: 735243--735659 Score: 491
Period size: 153 Copynumber: 2.7 Consensus size: 154
735233 GTGACTCTAA
* * * * * * *
735243 AAAACTTAAAAAGGATTATAGATGGGAAGAACCTATCCTAAATACCTAACTTCGACATAAAAGCG
1 AAAACTTAAAAAGGATTAAAAATGGGATGAACATATCCTAAATACCCACCTTCGGCATAAAAGCG
* * *
735308 GACCCGATGACAACCTAAGACTCAATTCTAAAAAATTACCAAAATGCCCTTAAGGAATATCTTCA
66 GACCCGATGACAACCTAGGACTCAATTTTAAAAAATTA-CAAAATGCCCTTAAGGAATACCTTCA
* * *
735373 ACGTAGAAGTGCTCGATACCCCTAG
130 ACATAAAAGTACTCGATACCCCTAG
* *
735398 AAAACTTAAAAATGATTATAAAATGGGATGAATATATCCTAAATACCCACCTTCGGCATAAAAGC
1 AAAACTTAAAAAGGATTA-AAAATGGGATGAACATATCCTAAATACCCACCTTCGGCATAAAAGC
* * * * * *
735463 AGACCCGATGACAACCTAGGACTCGATTTTAGAAAATTACAAATTGCCCTTAGGGGATACCTTCA
65 GGACCCGATGACAACCTAGGACTCAATTTTAAAAAATTACAAAATGCCCTTAAGGAATACCTTCA
*
735528 ACATAAAAGTACTCGATATCCCTA-
130 ACATAAAAGTACTCGATACCCCTAG
* * * *
735552 AAGGACTTAAAAA-GATTAGAAATGGGATGAACATATCTTAAATGCCCACCTTCGGCATAAAAGC
1 AA-AACTTAAAAAGGATTAAAAATGGGATGAACATATCCTAAATACCCACCTTCGGCATAAAAGC
* * **
735616 GGACCC-AGTGACGACCTAGGAGT-TTTTTTAAAAAAATTACAAAA
65 GGACCCGA-TGACAACCTAGGACTCAATTTT-AAAAAATTACAAAA
735660 ATACCCCTAT
Statistics
Matches: 224, Mismatches: 34, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
152 5 0.02
153 72 0.32
154 7 0.03
155 68 0.30
156 72 0.32
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (154 bp):
AAAACTTAAAAAGGATTAAAAATGGGATGAACATATCCTAAATACCCACCTTCGGCATAAAAGCG
GACCCGATGACAACCTAGGACTCAATTTTAAAAAATTACAAAATGCCCTTAAGGAATACCTTCAA
CATAAAAGTACTCGATACCCCTAG
Found at i:736506 original size:9 final size:10
Alignment explanation
Indices: 736478--736506 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
736468 CTATACAATG
736478 AAATAATCAT
1 AAATAATCAT
736488 AAATAATCAT
1 AAATAATCAT
736498 AAA-AATCAT
1 AAATAATCAT
736507 CAAGATTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (10 bp):
AAATAATCAT
Found at i:736980 original size:14 final size:13
Alignment explanation
Indices: 736954--736978 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
736944 TTTTGATATT
736954 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
736967 TTTCTTTTTTTT
1 TTTCTTTTTTTT
736979 TCCTTTTTTT
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:737488 original size:15 final size:17
Alignment explanation
Indices: 737456--737492 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
737446 TTAGTGTAGG
737456 AAAATCAATATATACAA
1 AAAATCAATATATACAA
*
737473 AAAATCAA-A-ATTCAA
1 AAAATCAATATATACAA
737488 AAAAT
1 AAAAT
737493 AATTTGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 10 0.53
16 1 0.05
17 8 0.42
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATCAATATATACAA
Found at i:737850 original size:130 final size:130
Alignment explanation
Indices: 737661--737910 Score: 394
Period size: 130 Copynumber: 1.9 Consensus size: 130
737651 TATGGAAATG
*
737661 AATGAATTTTTAAAAAATAATTTACTATGAAATAAATAATAATATTTGATGAATTTTAAAAATTA
1 AATGAATTTTTAAAAAATAATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTA
* * *
737726 AAAACCAAGATAAATGC-CCTCGAAAAAATTTATGGAATAGAAAACTCCATTTTTTAACAACAGA
66 AAAACCAAGAAAAAT-CTCCCCGAAAAAATTTATGAAATAGAAAACTCCATTTTTTAACAACAGA
737790 A
130 A
* * *
737791 AATGAATTTTTTAAAAATAATTTAATATGAAATAAATAATAATATTTTATGAATTTTAAAAATTG
1 AATGAATTTTTAAAAAATAATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTA
* * *
737856 TAAACTAAGAAAAATCTCCCCGAAAAAATTTATGAAATAGAAAACTCTATTTTTT
66 AAAACCAAGAAAAATCTCCCCGAAAAAATTTATGAAATAGAAAACTCCATTTTTT
737911 GAAAATAGAG
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
129 1 0.01
130 108 0.99
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (130 bp):
AATGAATTTTTAAAAAATAATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTA
AAAACCAAGAAAAATCTCCCCGAAAAAATTTATGAAATAGAAAACTCCATTTTTTAACAACAGAA
Found at i:737969 original size:130 final size:128
Alignment explanation
Indices: 737660--737949 Score: 340
Period size: 130 Copynumber: 2.2 Consensus size: 128
737650 TTATGGAAAT
** *
737660 GAATGAAT-TTTTAAAAAATAATTTACTATGAAATAAATAATAATATTTGATGAATTTTAAAAAT
1 GAATGAATATTTTAAAAAA-AATTTAAAATGAAATAAATAATAATATTTTATGAATTTTAAAAAT
* * *
737724 TAAAAACCAAGATAAATGCCCTCGAAAAAATTTATGGAATAGAAAACTCCATTTTTTAACAACA
65 TAAAAACCAAGAAAAATGCCCCCGAAAAAATTTATGAAATAGAAAACTCCATTTTTTAACAACA
* * *
737788 GAAAATGAATTTTTTAAAAATAATTTAATATGAAATAAATAATAATATTTTATGAATTTTAAAAA
1 G--AATGAATATTTTAAAAAAAATTTAAAATGAAATAAATAATAATATTTTATGAATTTTAAAAA
** * *
737853 TTGTAAACTAAGAAAAAT-CTCCCCGAAAAAATTTATGAAATAGAAAACTCTATTTTTTGAA-AA
64 TTAAAAACCAAGAAAAATGC-CCCCGAAAAAATTTATGAAATAGAAAACTCCATTTTTT-AACAA
*
737916 TA
127 CA
737918 G-A-GAA-ATTTTAAGGAAAAAATTTAAAAATGAA
1 GAATGAATATTTTAA--AAAAAATTT-AAAATGAA
737950 TGAAAATGAA
Statistics
Matches: 140, Mismatches: 14, Indels: 16
0.82 0.08 0.09
Matches are distributed among these distances:
125 6 0.04
126 3 0.02
127 9 0.06
128 8 0.06
129 1 0.01
130 102 0.73
131 11 0.08
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (128 bp):
GAATGAATATTTTAAAAAAAATTTAAAATGAAATAAATAATAATATTTTATGAATTTTAAAAATT
AAAAACCAAGAAAAATGCCCCCGAAAAAATTTATGAAATAGAAAACTCCATTTTTTAACAACA
Found at i:740556 original size:51 final size:52
Alignment explanation
Indices: 740440--740577 Score: 158
Period size: 52 Copynumber: 2.7 Consensus size: 52
740430 ATTTAGCTGG
* * *
740440 ATATATCGATAC-ATAGAAGAATGTATCAATACATTTAGGTAAAAAACCTAGA
1 ATATATCGATACAAT-GAAGAATATATCGATACATTTAGGTAAAAAACCCAGA
* * *
740492 ATGTATCGATACAATGAAGAATTTATCGATACATTT-GG-ATCAAAACCCAGA
1 ATATATCGATACAATGAAGAATATATCGATACATTTAGGTA-AAAAACCCAGA
* *
740543 ATATATCAATACAAT-AAAAATATATCGATACATTT
1 ATATATCGATACAATGAAGAATATATCGATACATTT
740578 TCTTTATAGA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
50 19 0.25
51 24 0.32
52 30 0.40
53 2 0.03
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (52 bp):
ATATATCGATACAATGAAGAATATATCGATACATTTAGGTAAAAAACCCAGA
Found at i:741521 original size:103 final size:105
Alignment explanation
Indices: 741385--741625 Score: 256
Period size: 103 Copynumber: 2.3 Consensus size: 105
741375 AAAGGTTAAT
* * * * * * *
741385 GTGCTAATTCAAGGCTAGCAACATTAGG-TTTAAAAATGATAAAAGTGCCAATATATTGATTCAA
1 GTGCTGATTCAAGGCTAGCGACATT-GGACTTAAAAATAAGAAAAGTACCAATATACTGATTCAA
* * *
741449 GG-CAGTGATATTGGACTT-AAAGATGACAAAG-GTGCCTAC
65 GGCCAATGACATTGGACTTAAAAGATGA-AAAGAGTGCCAAC
* * * *
741488 GTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGAAGAGTACCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCTAGCGACATTGGACTTAAAAATAAGAAAAGTACCAATATACTGATTCAAG
* * * *
741553 GCCAATGACATTGGACTTAGAAAGCTGAGAAGAGTGTCAAT
66 GCCAATGACATTGGACTTA-AAAGATGAAAAGAGTGCCAAC
*
741594 GTGCTGATTCAAGGCTAGCGACATTAGACTTA
1 GTGCTGATTCAAGGCTAGCGACATTGGACTTA
741626 GAAAGAGATG
Statistics
Matches: 113, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
102 2 0.02
103 52 0.46
104 14 0.12
105 3 0.03
106 42 0.37
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (105 bp):
GTGCTGATTCAAGGCTAGCGACATTGGACTTAAAAATAAGAAAAGTACCAATATACTGATTCAAG
GCCAATGACATTGGACTTAAAAGATGAAAAGAGTGCCAAC
Found at i:741608 original size:54 final size:54
Alignment explanation
Indices: 741257--741690 Score: 248
Period size: 52 Copynumber: 8.1 Consensus size: 54
741247 TAAAGATGAT
* * * *
741257 AAAGGTGAGAAGAGTGCCAATGTGCTAATTCACA-GCCATCGACATTAGACTT-G
1 AAAGATGAGAAGAGTGCCAATGTGCTGATTCA-AGGCCAACGACATTGGACTTAG
* * ** *
741310 -AAGATGAGAAGAATGCCAATGTGTTGATTCAAGGCCAACGACATCAGACTTAA
1 AAAGATGAGAAGAGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAG
* ** * * ** * * * * *
741363 AAATTAAAAAAAAAAG-GTTAATGTGCTAATTCAAGGCTAGCAACATTAGG-TTTA-
1 AAA--GATGAGAAGAGTGCCAATGTGCTGATTCAAGGCCAACGACATT-GGACTTAG
* * * ** ** *
741417 AAA-ATGATAAAAGTGCCAATATATTGATTCAAGG-CAGTGATATTGGACTT--
1 AAAGATGAGAAGAGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAG
* * * *
741467 AAAGATGACAA-AGGTGCCTACGTGCTGATTCAAGGCCAGCGACATTGGACTT--
1 AAAGATGAGAAGA-GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAG
* * * *
741519 AAAGATAAGAAGAGTACCAATATGCTGATTCAAGGCCAATGACATTGGACTTAG
1 AAAGATGAGAAGAGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAG
* * * * *
741573 AAAGCTGAGAAGAGTGTCAATGTGCTGATTCAAGGCTAGCGACATTAGACTTAG
1 AAAGATGAGAAGAGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAG
* * * * *
741627 AAAGAGATGGTTTGACA-AGTGCCAATGTGTTAATTCAAGGCCAATGACATTGGGCTTAG
1 -AA-AGAT-G--AGA-AGAGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAG
741686 AAAGA
1 AAAGA
741691 GCTACCACCA
Statistics
Matches: 289, Mismatches: 72, Indels: 36
0.73 0.18 0.09
Matches are distributed among these distances:
50 6 0.02
51 39 0.13
52 113 0.39
53 1 0.00
54 50 0.17
55 28 0.10
56 9 0.03
57 4 0.01
58 2 0.01
59 36 0.12
60 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (54 bp):
AAAGATGAGAAGAGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAG
Found at i:741676 original size:59 final size:56
Alignment explanation
Indices: 741488--741691 Score: 170
Period size: 54 Copynumber: 3.7 Consensus size: 56
741478 AGGTGCCTAC
* ** * *
741488 GTGCTGATTCAAGGCCAGCGACATTGGACTT---AA-AGATAAGAAGAGTACCAAT
1 GTGCTAATTCAAGGCCAATGACATTGGACTTAGAAAGAGATGAGAAGAGTGCCAAT
* * * *
741540 ATGCTGATTCAAGGCCAATGACATTGGACTTAG-AA-AGCTGAGAAGAGTGTCAAT
1 GTGCTAATTCAAGGCCAATGACATTGGACTTAGAAAGAGATGAGAAGAGTGCCAAT
* * ** * *
741594 GTGCTGATTCAAGGCTAGCGACATTAGACTTAGAAAGAGATGGTTTGACA-AGTGCCAAT
1 GTGCTAATTCAAGGCCAATGACATTGGACTTAGAAAGAGAT-G--AGA-AGAGTGCCAAT
* *
741653 GTGTTAATTCAAGGCCAATGACATTGGGCTTAGAAAGAG
1 GTGCTAATTCAAGGCCAATGACATTGGACTTAGAAAGAG
741692 CTACCACCAA
Statistics
Matches: 122, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
52 28 0.23
54 45 0.37
55 2 0.02
56 3 0.02
57 1 0.01
59 42 0.34
60 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.24
Consensus pattern (56 bp):
GTGCTAATTCAAGGCCAATGACATTGGACTTAGAAAGAGATGAGAAGAGTGCCAAT
Found at i:741733 original size:32 final size:32
Alignment explanation
Indices: 741695--741891 Score: 121
Period size: 31 Copynumber: 6.1 Consensus size: 32
741685 GAAAGAGCTA
* * *
741695 CCACCAACTTATATGGGCTTTTGATAAGGCTG
1 CCACCAACTTGTATGGGCTTTTGAAAAGGATG
* *
741727 CCACCAACTTGTGTGGACTTTTGGAAAAGGATG
1 CCACCAACTTGTATGGGCTTTT-GAAAAGGATG
* * * ** *
741760 CCACTAACTTGCATGGGTTTTTG-AGTGGTTG
1 CCACCAACTTGTATGGGCTTTTGAAAAGGATG
* * * *
741791 ACACCGACTTGTGTGGGCTTTTGAGAAAATGATG
1 CCACCAACTTGTATGGGCTTTT--GAAAAGGATG
* * *
741825 CTACCGACTTGTATGGGC-TTT-AAAAGGGTTG
1 CCACCAACTTGTATGGGCTTTTGAAAA-GGATG
* * * * **
741856 CTACCAACTTATGTGAGCTTTAAAAAAGGATG
1 CCACCAACTTGTATGGGCTTTTGAAAAGGATG
741888 CCAC
1 CCAC
741892 TAGCTTGTGG
Statistics
Matches: 123, Mismatches: 35, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
30 4 0.03
31 38 0.31
32 29 0.24
33 33 0.27
34 19 0.15
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (32 bp):
CCACCAACTTGTATGGGCTTTTGAAAAGGATG
Found at i:741855 original size:65 final size:64
Alignment explanation
Indices: 741728--741891 Score: 147
Period size: 65 Copynumber: 2.6 Consensus size: 64
741718 ATAAGGCTGC
* ***
741728 CACCAACTTGTGTGGACTTTTGGAAAAGGATGCCACTAACTTGCATGGGTTTTTGAGTGGTTGA
1 CACCAACTTGTGTGGACTTTTGGAAAAGGATGCCACCAACTTGCATGGGTTTAAAAGTGGTTGA
* * * * * *
741792 CACCGACTTGTGTGGGCTTTTGAGAAAATGATGCTACCGACTTGTATGGGCTTTAAAAG-GGTTG
1 CACCAACTTGTGTGGACTTTTG-GAAAAGGATGCCACCAACTTGCATGGG-TTTAAAAGTGGTTG
741856 -
64 A
* **
741856 CTACCAACTTATGT-GAGC-TTTAAAAAAGGATGCCAC
1 C-ACCAACTTGTGTGGA-CTTTTGGAAAAGGATGCCAC
741892 TAGCTTGTGG
Statistics
Matches: 79, Mismatches: 17, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
63 11 0.14
64 25 0.32
65 38 0.48
66 5 0.06
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (64 bp):
CACCAACTTGTGTGGACTTTTGGAAAAGGATGCCACCAACTTGCATGGGTTTAAAAGTGGTTGA
Found at i:741937 original size:29 final size:29
Alignment explanation
Indices: 741873--742221 Score: 253
Period size: 29 Copynumber: 11.9 Consensus size: 29
741863 CTTATGTGAG
* *
741873 CTTTAAAAAAGGATGCCAC-TAGCTTGTGGA
1 CTTTAAAAGAGG-TGCCACGGAG-TTGTGGA
*
741903 CTTTTAAAAGAGGTGCCACGGAGTTATGGA
1 C-TTTAAAAGAGGTGCCACGGAGTTGTGGA
** *
741933 CTTTAAAA-AGGATGCCACAAAGTTATGGA
1 CTTTAAAAGAGG-TGCCACGGAGTTGTGGA
* * *
741962 CTTAAAAAAAAAGAGTGCCACGAAGTTGTGGA
1 CTT--TAAAAGAG-GTGCCACGGAGTTGTGGA
* **
741994 CTTTAAAA-AGAGTACTGCGGAGTTGTGGA
1 CTTTAAAAGAG-GTGCCACGGAGTTGTGGA
* *** * *
742023 CTTTAAAAG-GGTGTCAAAAATTTGTGAA
1 CTTTAAAAGAGGTGCCACGGAGTTGTGGA
* ** *
742051 CTTTGAAAA-ATGTGCCATAGAGTTGTGAA
1 CTTT-AAAAGAGGTGCCACGGAGTTGTGGA
* * *
742080 TTTTAAAAGGGGTGCCACAGAGTTGTGGA
1 CTTTAAAAGAGGTGCCACGGAGTTGTGGA
* *
742109 CTTAAAAAAAGGAGTGCCACGGAGTTGTGGA
1 CTTTAAAAGA-G-GTGCCACGGAGTTGTGGA
* *
742140 CTTTATAAG-GAGTGCCACGGAGTTCTGGA
1 CTTTAAAAGAG-GTGCCACGGAGTTGTGGA
* *
742169 CTTTAAAAG-GGTGCCACAGAGTTATGGA
1 CTTTAAAAGAGGTGCCACGGAGTTGTGGA
*
742197 CTTTAAAAAAGGTGCCACGGAGTTG
1 CTTTAAAAGAGGTGCCACGGAGTTG
742222 GGATTATACT
Statistics
Matches: 258, Mismatches: 47, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
28 44 0.17
29 135 0.52
30 19 0.07
31 39 0.15
32 20 0.08
33 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.26
Consensus pattern (29 bp):
CTTTAAAAGAGGTGCCACGGAGTTGTGGA
Found at i:742060 original size:90 final size:91
Alignment explanation
Indices: 741896--742213 Score: 203
Period size: 89 Copynumber: 3.6 Consensus size: 91
741886 TGCCACTAGC
* * * *
741896 TTGTGGACTTTTAAAAGAGGTGCCACGGAGTTATGGACTTTAAAAAGGATGCCACAAAGTTATGG
1 TTGTGGACTTTAAAAAGAGGTACCACGGAGTTATGGACTTTAAAAAGGATGCCAAAAAGTTATGA
741961 ACTTAAAAAAAAAGAGTGCCACGAAG
66 ACTTAAAAAAAAAGAGTGCCACGAAG
** * * * * *
741987 TTGTGGACTTTAAAAAGA-GTACTGCGGAGTTGTGGACTTT-AAAAGGGTGTCAAAAATTTGTGA
1 TTGTGGACTTTAAAAAGAGGTACCACGGAGTTATGGACTTTAAAAAGGATGCCAAAAAGTTATGA
** * *
742050 ACTT--TGAAAAA-TGTGCCA-TAGAG
66 ACTTAAAAAAAAAGAGTGCCACGA-AG
* * * * * * * *** *
742073 TTGT-GAATTTTAAAAGGGGTGCCACAGAGTTGTGGACTTAAAAAAAGGAGTGCCACGGAGTTGT
1 TTGTGGACTTTAAAAAGAGGTACCACGGAGTTATGGACTT-TAAAAAGGA-TGCCAAAAAGTTAT
* * * * *
742137 GGACTT---TATAAGGAGTGCCACGGAG
64 GAACTTAAAAAAAAAGAGTGCCACGAAG
* * *
742162 TTCTGGACTTT-AAAAG-GGTGCCACAGAGTTATGGACTTTAAAAAAGG-TGCCA
1 TTGTGGACTTTAAAAAGAGGTACCACGGAGTTATGGACTTT-AAAAAGGATGCCA
742214 CGGAGTTGGG
Statistics
Matches: 178, Mismatches: 40, Indels: 23
0.74 0.17 0.10
Matches are distributed among these distances:
85 11 0.06
86 34 0.19
87 5 0.03
88 37 0.21
89 51 0.29
90 23 0.13
91 17 0.10
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (91 bp):
TTGTGGACTTTAAAAAGAGGTACCACGGAGTTATGGACTTTAAAAAGGATGCCAAAAAGTTATGA
ACTTAAAAAAAAAGAGTGCCACGAAG
Found at i:742117 original size:57 final size:58
Alignment explanation
Indices: 741896--742221 Score: 217
Period size: 57 Copynumber: 5.6 Consensus size: 58
741886 TGCCACTAGC
* * * * *
741896 TTGTGGACTTTTAAAAGAGGTGCCACGGAGTTATGGACTT-TAAAAAGGATGCCACAAAG
1 TTGTGGAC-TTTAAAAGGGGTGCCACGGAGTTGTGGACTTAAAAAAAAG-TGCCACAGAG
* * * * * * * * ** *
741955 TTATGGACTTAAAAAAAAAGAGTGCCACGAAGTTGTGGACTTTAAAAAGAGTACTGCGGAG
1 TTGTGGACTT---TAAAAGGGGTGCCACGGAGTTGTGGACTTAAAAAAAAGTGCCACAGAG
* *** * * ** * *
742016 TTGTGGACTTTAAAA-GGGTGTCAAAAATTTGTGAACTTTGAAAAATGTGCCATAGAG
1 TTGTGGACTTTAAAAGGGGTGCCACGGAGTTGTGGACTTAAAAAAAAGTGCCACAGAG
* * * *
742073 TTGTGAATTTTAAAAGGGGTGCCACAGAGTTGTGGACTTAAAAAAAGGAGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGGTGCCACGGAGTTGTGGACTTAAAAAAA--AGTGCCACAGAG
* * * * **
742133 TTGTGGACTTTATAAGGAGTGCCACGGAGTTCTGGACTT-TAAAAGGGTGCCACAGAG
1 TTGTGGACTTTAAAAGGGGTGCCACGGAGTTGTGGACTTAAAAAAAAGTGCCACAGAG
* **
742190 TTATGGACTTTAAAAAAGGTGCCACGGAGTTG
1 TTGTGGACTTTAAAAGGGGTGCCACGGAGTTG
742222 GGATTATACT
Statistics
Matches: 201, Mismatches: 59, Indels: 16
0.73 0.21 0.06
Matches are distributed among these distances:
57 77 0.38
58 29 0.14
59 11 0.05
60 42 0.21
61 37 0.18
62 5 0.02
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.26
Consensus pattern (58 bp):
TTGTGGACTTTAAAAGGGGTGCCACGGAGTTGTGGACTTAAAAAAAAGTGCCACAGAG
Found at i:742220 original size:146 final size:147
Alignment explanation
Indices: 741899--742221 Score: 396
Period size: 146 Copynumber: 2.2 Consensus size: 147
741889 CACTAGCTTG
* * *
741899 TGGACTTTTAAAAGAGGTGCCACGGAGTTATGGACTTTAAAAAGGATGCCACAAAGTTATGGACT
1 TGGAC-TTTAAAAAAGGTGCCACGGAGTTGTGAACTTTAAAAAGGATGCCACAAAGTTATGGACT
** *
741964 TAAAAAAAAAGAGTGCCACGAAGTTGTGGACTTTAAAAAGAGTACTGCGGAGTTGTGGACTTTAA
65 TAAAAAAAAAGAGTGCCACGAAGTTGTGGACTTTAAAAAGAGTACCACGGAGTTCTGGACTTTAA
* * *
742029 AAGGGTGTCAAAAATTTG
130 AAGGGTGCCAAAAAGTTA
* * * ** * * * * *
742047 TGAACTTTGAAAAATGTGCCATAGAGTTGTGAATTTTAAAAGGGGTGCCACAGAGTTGTGGACTT
1 TGGACTTTAAAAAAGGTGCCACGGAGTTGTGAACTTTAAAAAGGATGCCACAAAGTTATGGACTT
* * * * *
742112 -AAAAAAAGGAGTGCCACGGAGTTGTGGACTTTATAAGGAGTGCCACGGAGTTCTGGACTTTAAA
66 AAAAAAAAAGAGTGCCACGAAGTTGTGGACTTTAAAAAGAGTACCACGGAGTTCTGGACTTTAAA
* *
742176 AGGGTGCCACAGAGTTA
131 AGGGTGCCAAAAAGTTA
742193 TGGACTTTAAAAAAGGTGCCACGGAGTTG
1 TGGACTTTAAAAAAGGTGCCACGGAGTTG
742222 GGATTATACT
Statistics
Matches: 144, Mismatches: 31, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
146 92 0.64
147 48 0.33
148 4 0.03
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (147 bp):
TGGACTTTAAAAAAGGTGCCACGGAGTTGTGAACTTTAAAAAGGATGCCACAAAGTTATGGACTT
AAAAAAAAAGAGTGCCACGAAGTTGTGGACTTTAAAAAGAGTACCACGGAGTTCTGGACTTTAAA
AGGGTGCCAAAAAGTTA
Found at i:748442 original size:51 final size:50
Alignment explanation
Indices: 748368--748555 Score: 216
Period size: 51 Copynumber: 3.7 Consensus size: 50
748358 ATTTAACTGG
* * * *
748368 ATGTATTGATACATTGAAAAATGTATCGATACATTTGGGTCAAAGACCAGA
1 ATGTATCGAGACAATGAAAAATGTATCAATACATTTGGGTCAAA-ACCAGA
*
748419 ATGTATCGAGACAATGAAGAATGTATCAATACATTTGGGTCAAAAACCAGA
1 ATGTATCGAGACAATGAAAAATGTATCAATACATTTGGGTC-AAAACCAGA
* * * *
748470 ATGTATCGAGACAAAGAAGAATATATCAATACATTTGGATCAAAACCTAGA
1 ATGTATCGAGACAATGAAAAATGTATCAATACATTTGGGTCAAAACC-AGA
** * * *
748521 ATGTATTAATATAAT-AAAAATGTATCGATACATTT
1 ATGTATCGAGACAATGAAAAATGTATCAATACATTT
748556 TCTTTCCAGA
Statistics
Matches: 119, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
50 23 0.19
51 93 0.78
52 3 0.03
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (50 bp):
ATGTATCGAGACAATGAAAAATGTATCAATACATTTGGGTCAAAACCAGA
Found at i:748620 original size:20 final size:21
Alignment explanation
Indices: 748591--748644 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
748581 GATAAGGTCC
* *
748591 TGTATCGATACAGTCACTT-A
1 TGTATTGATACAATCACTTGA
748611 TGTATTGATACAATCACTTGA
1 TGTATTGATACAATCACTTGA
*
748632 TGTATTGTTACAA
1 TGTATTGATACAA
748645 ATTATAGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (21 bp):
TGTATTGATACAATCACTTGA
Found at i:749780 original size:9 final size:9
Alignment explanation
Indices: 749768--749800 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
749758 AAAAAGAGGA
749768 AAAAAAAAG
1 AAAAAAAAG
749777 AAAAAAAAG
1 AAAAAAAAG
*
749786 -AAAAAAGG
1 AAAAAAAAG
749794 AAAAAAA
1 AAAAAAA
749801 GTGGATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:749789 original size:16 final size:16
Alignment explanation
Indices: 749770--749801 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
749760 AAAGAGGAAA
749770 AAAAAAGAAAAAAAAG
1 AAAAAAGAAAAAAAAG
*
749786 AAAAAAGGAAAAAAAG
1 AAAAAAGAAAAAAAAG
749802 TGGATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:750651 original size:57 final size:56
Alignment explanation
Indices: 750587--750742 Score: 179
Period size: 57 Copynumber: 2.7 Consensus size: 56
750577 TAAGGATTTT
* * **
750587 TTTTATGTCATTTCATGCATTTTTATGTCACTTTACTTATTTTCCATGACTTA-GAGA
1 TTTTATGTCATTTCATGCA-TTTTATGTCA-TTTAGTTATTTTCAATGACACATGAGA
* * * *
750644 TTTTATGTTATTTCATGCATTTTATGTCATTTTAGTCATTTTCAATGACACATGGGC
1 TTTTATGTCATTTCATGCATTTTATGTCA-TTTAGTTATTTTCAATGACACATGAGA
* *
750701 TTTTATATCATTTCATACATTTTATGTCATTTAAGTTATTTT
1 TTTTATGTCATTTCATGCATTTTATGTCATTT-AGTTATTTT
750743 TCATATATTA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
56 30 0.36
57 54 0.64
ACGTcount: A:0.24, C:0.13, G:0.10, T:0.53
Consensus pattern (56 bp):
TTTTATGTCATTTCATGCATTTTATGTCATTTAGTTATTTTCAATGACACATGAGA
Found at i:750681 original size:9 final size:10
Alignment explanation
Indices: 750643--750685 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
750633 TGACTTAGAG
*
750643 ATTTTATGTT
1 ATTTTATGTC
*
750653 ATTTCATG-C
1 ATTTTATGTC
750662 ATTTTATGTC
1 ATTTTATGTC
750672 ATTTTA-GTC
1 ATTTTATGTC
750681 ATTTT
1 ATTTT
750686 CAATGACACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 15 0.52
10 14 0.48
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.60
Consensus pattern (10 bp):
ATTTTATGTC
Found at i:750771 original size:57 final size:56
Alignment explanation
Indices: 750587--750781 Score: 150
Period size: 57 Copynumber: 3.4 Consensus size: 56
750577 TAAGGATTTT
* * * * *
750587 TTTTATGTCATTTCATGCATTTTTATGTCACTTTACTTATTTTCCATGA-CTTAGAGA-
1 TTTTATGTCATTTCATACA-TTTTATGTCA-TTTAGTTATTTTTCAT-ATATTAGGGAC
* * * **
750644 TTTTATGTTATTTCATGCATTTTATGTCATTTTAGTCA-TTTTCA-ATGACACATGGG-C
1 TTTTATGTCATTTCATACATTTTATGTCA-TTTAGTTATTTTTCATAT-A-TTA-GGGAC
*
750701 TTTTATATCATTTCATACATTTTATGTCATTTAAGTTATTTTTCATATATTAGGGAC
1 TTTTATGTCATTTCATACATTTTATGTCATTT-AGTTATTTTTCATATATTAGGGAC
* *
750758 TATTATGTAATTTCATGA-ATTTTA
1 TTTTATGTCATTTCAT-ACATTTTA
750782 GAGCCATTTG
Statistics
Matches: 110, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
53 1 0.01
55 5 0.05
56 23 0.21
57 71 0.65
58 8 0.07
59 2 0.02
ACGTcount: A:0.26, C:0.12, G:0.11, T:0.51
Consensus pattern (56 bp):
TTTTATGTCATTTCATACATTTTATGTCATTTAGTTATTTTTCATATATTAGGGAC
Found at i:750857 original size:47 final size:47
Alignment explanation
Indices: 750786--750884 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 47
750776 ATTTTAGAGC
* * ** *
750786 CATTTGAGACATTTTTTATGCTTTAGGGACTATTATATCATTTCATG
1 CATTTAAGACATTTTTTATACTTTAGAAACTATTATATCATTTCATA
* * *
750833 CATTTAAGTCATTTTTTATACTTTAGAAATTATTATATCATTTTATA
1 CATTTAAGACATTTTTTATACTTTAGAAACTATTATATCATTTCATA
750880 CATTT
1 CATTT
750885 TAGAGATATT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (47 bp):
CATTTAAGACATTTTTTATACTTTAGAAACTATTATATCATTTCATA
Found at i:750886 original size:29 final size:27
Alignment explanation
Indices: 750846--750905 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 27
750836 TTAAGTCATT
*
750846 TTTTATACTTTAGAAATTATT-ATATCA
1 TTTTATACTTTAGAAA-TATTGAAATCA
*
750873 TTTTATACATTTTAGAGATATTGAAATCA
1 TTTTATAC--TTTAGAAATATTGAAATCA
750902 TTTT
1 TTTT
750906 CAATGATCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.29
28 4 0.14
29 16 0.57
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.52
Consensus pattern (27 bp):
TTTTATACTTTAGAAATATTGAAATCA
Found at i:752740 original size:31 final size:35
Alignment explanation
Indices: 752672--752743 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 35
752662 TTAATTAAAT
*
752672 TTAATAAATAATATATTAATTATTATTATTTATAAAA
1 TTAATAAATAATATATTAATTA-TA-TATTTAAAAAA
752709 TTAA-AAATAATAT-TTAATTA-A-ATTTAAAAAA
1 TTAATAAATAATATATTAATTATATATTTAAAAAA
752740 TTAA
1 TTAA
752744 GGTATGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
31 13 0.38
33 1 0.03
35 7 0.21
36 9 0.26
37 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (35 bp):
TTAATAAATAATATATTAATTATATATTTAAAAAA
Found at i:753039 original size:11 final size:11
Alignment explanation
Indices: 753023--753059 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
753013 TTATTACTTT
753023 TTATTTATAAA
1 TTATTTATAAA
* *
753034 TTATTTTTAAT
1 TTATTTATAAA
753045 TTATTTATAAA
1 TTATTTATAAA
753056 TTAT
1 TTAT
753060 ACAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:756815 original size:92 final size:92
Alignment explanation
Indices: 756701--756874 Score: 224
Period size: 92 Copynumber: 1.9 Consensus size: 92
756691 CTTCAACTGA
* * * *
756701 GATATTTACAATCAATCAACTTTTCAGCTTTTT-TATCAAAAGGAATTTGATTCTCAAATATAAT
1 GATACTTACAATCAATCAACTTTTC-GCTTTTTCTACCAAAAGGAATTCGATTCTCAAATACAAT
756765 TTATACATTAGTCTAATCTTTGCAGTGT
65 TTATACATTAGTCTAATCTTTGCAGTGT
* ** * * **
756793 GATACTTATAATCAATCAACTTTTCTTTTTTTCTACCAAAATGAATTCGATTCTTATGTACAATT
1 GATACTTACAATCAATCAACTTTTCGCTTTTTCTACCAAAAGGAATTCGATTCTCAAATACAATT
*
756858 TATGCATTAGTCTAATC
66 TATACATTAGTCTAATC
756875 CTTACCGTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
91 5 0.07
92 64 0.93
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.43
Consensus pattern (92 bp):
GATACTTACAATCAATCAACTTTTCGCTTTTTCTACCAAAAGGAATTCGATTCTCAAATACAATT
TATACATTAGTCTAATCTTTGCAGTGT
Found at i:757026 original size:161 final size:161
Alignment explanation
Indices: 756744--757034 Score: 379
Period size: 161 Copynumber: 1.8 Consensus size: 161
756734 TATCAAAAGG
* * *
756744 AATTTGATTCTCAAATATAATTTATACATTAGTCTAATCTTTGCAGTGTGATACTTATAATCAAT
1 AATTTGATTCTCAAATATAATTCATACATTAGTCTAATCATTGCAGTCTGATACTTATAATCAAT
* * * ** *
756809 CAACTTTTCTTTTTTTCTACCAAAATGAATTCGATTCTTATGTACAATTTATGCATTAGTCTAAT
66 CAACTTTTCTTTTTTTCTACAAAAAAGAATTCGATTCTCAAATACAATTCATGCATTAGTCTAAT
756874 CCTTACCGTTTTTCATTTTTTCTATAAAAAA
131 CCTTACCGTTTTTCATTTTTTCTATAAAAAA
* * * * *
756905 AATTTGCTTCTCAGATATAATTCATGCATTAGTCTAATCATTGTAGTCTGATATTTATAATCAAT
1 AATTTGATTCTCAAATATAATTCATACATTAGTCTAATCATTGCAGTCTGATACTTATAATCAAT
* * * * *
756970 -TAGTCTTTCTTTTTTTCTATAAAAAAGAA-TCTGGTTCTCAAATATAATTCATGCATTAGTCTA
66 CAACT-TTTCTTTTTTTCTACAAAAAAGAATTC-GATTCTCAAATACAATTCATGCATTAGTCTA
757033 AT
129 AT
757035 TCATGCATTA
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
160 4 0.04
161 105 0.96
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.45
Consensus pattern (161 bp):
AATTTGATTCTCAAATATAATTCATACATTAGTCTAATCATTGCAGTCTGATACTTATAATCAAT
CAACTTTTCTTTTTTTCTACAAAAAAGAATTCGATTCTCAAATACAATTCATGCATTAGTCTAAT
CCTTACCGTTTTTCATTTTTTCTATAAAAAA
Found at i:757036 original size:17 final size:17
Alignment explanation
Indices: 757012--757051 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
757002 GGTTCTCAAA
757012 TATAATTCATGCATTAG
1 TATAATTCATGCATTAG
*
757029 TCTAATTCATGCATTAG
1 TATAATTCATGCATTAG
757046 TATAAT
1 TATAAT
757052 CATTGTAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (17 bp):
TATAATTCATGCATTAG
Found at i:757132 original size:103 final size:109
Alignment explanation
Indices: 756922--757137 Score: 336
Period size: 103 Copynumber: 2.0 Consensus size: 109
756912 TTCTCAGATA
* * * **
756922 TAATTCATGCATTAGTCTAATCATTGTAGTCTGATATTTATAATCAATTAGTCTTTCTTTTTTTC
1 TAATTCATGCATTAGTATAATCATTGTAGTCTGACATTTATAATCAATCAGTCTAACTTTTTTTC
*
756987 TATAAAAAAGAATCTGGTTCTCAAATATAATTCATGCATTAGTC
66 TATAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTC
757031 TAATTCATGCATTAGTATAATCATTGTAGTCTGACA-TT-T-A-CAATCAGTC-AACTTTTTTTC
1 TAATTCATGCATTAGTATAATCATTGTAGTCTGACATTTATAATCAATCAGTCTAACTTTTTTTC
757091 TATAAAAAA-AATCTGATTCTCAAATATAATTCATGCATTAGTC
66 TATAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTC
757134 TAAT
1 TAAT
757138 CCTTGTACTT
Statistics
Matches: 101, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
103 37 0.37
104 18 0.18
105 8 0.08
106 1 0.01
107 1 0.01
108 2 0.02
109 34 0.34
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.42
Consensus pattern (109 bp):
TAATTCATGCATTAGTATAATCATTGTAGTCTGACATTTATAATCAATCAGTCTAACTTTTTTTC
TATAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTC
Found at i:757233 original size:95 final size:94
Alignment explanation
Indices: 757083--757366 Score: 444
Period size: 95 Copynumber: 3.0 Consensus size: 94
757073 ATCAGTCAAC
* * *
757083 TTTTTTTCTATAAAAAAAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGTACTT
1 TTTTTTTTTATAAAAAAAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGTAGTT
757148 TGACATTTACAATCAATCAACTTTTCTTT
66 TGACATTTACAATCAATCAACTTTTCTTT
* *
757177 TTTTTTTTTATAAAAAAGAATTTGATTCTCAGATATAATTCATGCATTAGTTTAATCCTTGTAGT
1 TTTTTTTTTATAAAAAA-AATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGTAGT
* * *
757242 CTGACATTTACAATTAATCAACTTTTC-TC
65 TTGACATTTACAATCAATCAACTTTTCTTT
* ** *
757271 TTTTTTTTCATAAAAAAAATCTGATTCTCAGATATAATTCATTTATTAGTCTAATCTTTGTAGTT
1 TTTTTTTTTATAAAAAAAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGTAGTT
757336 TGACATTTACAATCAATCAACTTTTCTTT
66 TGACATTTACAATCAATCAACTTTTCTTT
757365 TT
1 TT
757367 CTTTAAAAAA
Statistics
Matches: 171, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
93 67 0.39
94 36 0.21
95 68 0.40
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (94 bp):
TTTTTTTTTATAAAAAAAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGTAGTT
TGACATTTACAATCAATCAACTTTTCTTT
Found at i:757321 original size:188 final size:181
Alignment explanation
Indices: 757031--757366 Score: 519
Period size: 188 Copynumber: 1.8 Consensus size: 181
757021 TGCATTAGTC
*
757031 TAATTCATGCATTAGTATAATCATTGTAGTCTGACATTTACAATCAGTCAACTTTTTTTCTATAA
1 TAATTCATGCATTAGTATAATCATTGTAGTCTGACATTTACAATCAATCAACTTTTTTTCTATAA
757096 AAAAAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGTACTTTGACATTTACAAT
66 AAAAAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGTACTTTGACATTTACAAT
757161 CAATCAACTTTTCTTTTTTTTTTTTATAAAAAAGAATTTGATTCTCAGATA
131 CAATCAACTTTTCTTTTTTTTTTTTATAAAAAAGAATTTGATTCTCAGATA
* * *
757212 TAATTCATGCATTAGTTTAATCCTTGTAGTCTGACATTTACAATTAATCAACTTTTCTCTTTTTT
1 TAATTCATGCATTAGTATAATCATTGTAGTCTGACATTTACAATCAATCAA-----CT-TTTTTT
* * ** * *
757277 TTCATAAAAAAAATCTGATTCTCAGATATAATTCATTTATTAGTCTAATCTTTGTAGTTTGACAT
60 CT-ATAAAAAAAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGTACTTTGACAT
757342 TTACAATCAATCAACTTTTCTTTTT
124 TTACAATCAATCAACTTTTCTTTTT
757367 CTTTAAAAAA
Statistics
Matches: 138, Mismatches: 10, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
181 47 0.34
186 2 0.01
187 7 0.05
188 82 0.59
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.45
Consensus pattern (181 bp):
TAATTCATGCATTAGTATAATCATTGTAGTCTGACATTTACAATCAATCAACTTTTTTTCTATAA
AAAAAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGTACTTTGACATTTACAAT
CAATCAACTTTTCTTTTTTTTTTTTATAAAAAAGAATTTGATTCTCAGATA
Found at i:758702 original size:20 final size:23
Alignment explanation
Indices: 758663--758703 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
758653 ATAAAATAGG
758663 TTATTAATAATGATATTTGTATT
1 TTATTAATAATGATATTTGTATT
758686 TTATT-ATAAT-A-ATTTGTA
1 TTATTAATAATGATATTTGTA
758704 GATTATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 5 0.28
23 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (23 bp):
TTATTAATAATGATATTTGTATT
Found at i:758709 original size:20 final size:23
Alignment explanation
Indices: 758663--758709 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 23
758653 ATAAAATAGG
**
758663 TTATTAATAATGATATTTGTATT
1 TTATTAATAATGATATTTGTAGA
758686 TTATT-ATAAT-A-ATTTGTAGA
1 TTATTAATAATGATATTTGTAGA
758706 TTAT
1 TTAT
758710 GTTATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 11 0.50
21 1 0.05
22 5 0.23
23 5 0.23
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (23 bp):
TTATTAATAATGATATTTGTAGA
Found at i:758830 original size:21 final size:20
Alignment explanation
Indices: 758792--758835 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
758782 TATTTGAAGA
*
758792 TAAATGTCTTATTTTTAATT
1 TAAATGTCTTATTTTTAAAT
758812 TAAATGT-TTAATCTTTTAAAT
1 TAAATGTCTT-AT-TTTTAAAT
758833 TAA
1 TAA
758836 TTATGTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 9 0.43
21 10 0.48
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TAAATGTCTTATTTTTAAAT
Found at i:759598 original size:21 final size:21
Alignment explanation
Indices: 759574--759629 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 21
759564 ATATTTCATT
759574 AATGTCATATTGTATCAATAC
1 AATGTCATATTGTATCAATAC
** * *
759595 AATG-CCCATTGTACCGATAC
1 AATGTCATATTGTATCAATAC
* *
759615 AAGGTGATATTGTAT
1 AATGTCATATTGTAT
759630 TGAAACAATG
Statistics
Matches: 25, Mismatches: 9, Indels: 2
0.69 0.25 0.06
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (21 bp):
AATGTCATATTGTATCAATAC
Found at i:761273 original size:58 final size:58
Alignment explanation
Indices: 761231--761428 Score: 274
Period size: 58 Copynumber: 3.4 Consensus size: 58
761221 TATTGATATT
* * *
761231 ATTTAGGTCATTTTTCAAGATCTAGAGACTTTGATGCAATTTTATGAATGTTGGAGTC
1 ATTTAGGTCATTTTCCATGATCTAGAGACTTTGATGTAATTTTATGAATGTTGGAGTC
*
761289 ATTTAGGTCAATTTT-CATGATCTAGA-ACTTTGATGTAAATTTATGAATGTTGGAGTC
1 ATTTAGGTC-ATTTTCCATGATCTAGAGACTTTGATGTAATTTTATGAATGTTGGAGTC
* * * * * *
761346 ATTTAAGTCACTTTCCATGATCTAGGGACTTTGATATAATTTTATGAATGTTAGAGTT
1 ATTTAGGTCATTTTCCATGATCTAGAGACTTTGATGTAATTTTATGAATGTTGGAGTC
*
761404 ATTTAGATCATTTTCCATGATCTAG
1 ATTTAGGTCATTTTCCATGATCTAG
761429 GAACTTGGAT
Statistics
Matches: 124, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
56 4 0.03
57 47 0.38
58 68 0.55
59 5 0.04
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (58 bp):
ATTTAGGTCATTTTCCATGATCTAGAGACTTTGATGTAATTTTATGAATGTTGGAGTC
Found at i:761346 original size:57 final size:58
Alignment explanation
Indices: 761231--761465 Score: 262
Period size: 58 Copynumber: 4.1 Consensus size: 58
761221 TATTGATATT
* * *
761231 ATTTAGGTCATTTTTCAAGATCTA-GAGACTTTGATGCAATTTTATGAATGTTGGAGTC
1 ATTTAGGTCAATTTTCATGATCTAGGA-ACTTTGATGTAATTTTATGAATGTTGGAGTC
*
761289 ATTTAGGTCAATTTTCATGATCTA-GAACTTTGATGTAAATTTATGAATGTTGGAGTC
1 ATTTAGGTCAATTTTCATGATCTAGGAACTTTGATGTAATTTTATGAATGTTGGAGTC
* * * * * * *
761346 ATTTAAGTCACTTTCCATGATCTAGGGACTTTGATATAATTTTATGAATGTTAGAGTT
1 ATTTAGGTCAATTTTCATGATCTAGGAACTTTGATGTAATTTTATGAATGTTGGAGTC
* * ** * *
761404 ATTTAGATC-ATTTTCCATGATCTAGGAACTTGGATAAAATTTTACGAAT-TTTGATGTC
1 ATTTAGGTCAATTTT-CATGATCTAGGAACTTTGATGTAATTTTATGAATGTTGGA-GTC
761462 ATTT
1 ATTT
761466 TTCATGACTT
Statistics
Matches: 152, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
57 57 0.38
58 95 0.62
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (58 bp):
ATTTAGGTCAATTTTCATGATCTAGGAACTTTGATGTAATTTTATGAATGTTGGAGTC
Found at i:761444 original size:115 final size:115
Alignment explanation
Indices: 761231--761445 Score: 290
Period size: 115 Copynumber: 1.9 Consensus size: 115
761221 TATTGATATT
* * * * * *
761231 ATTTAGGTCATTTTTCAAGATCTAGAGACTTTGATGCAATTTTATGAATGTTGGAGTCATTTAGG
1 ATTTAAGTCACTTTCCAAGATCTAGAGACTTTGATACAATTTTATGAATGTTAGAGTCATTTAGA
* *
761296 TCAATTTTCATGATCTAGAACTTTGATGTAAATTTATGAATGTTGGAGTC
66 TCAATTTTCATGATCTAGAACTTGGATGAAAATTTATGAATGTTGGAGTC
* * * *
761346 ATTTAAGTCACTTTCCATGATCTAGGGACTTTGATATAATTTTATGAATGTTAGAGTTATTTAGA
1 ATTTAAGTCACTTTCCAAGATCTAGAGACTTTGATACAATTTTATGAATGTTAGAGTCATTTAGA
761411 TC-ATTTTCCATGATCTAGGAACTTGGAT-AAAATTT
66 TCAATTTT-CATGATCTA-GAACTTGGATGAAAATTT
761446 TACGAATTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
114 5 0.06
115 72 0.84
116 9 0.10
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (115 bp):
ATTTAAGTCACTTTCCAAGATCTAGAGACTTTGATACAATTTTATGAATGTTAGAGTCATTTAGA
TCAATTTTCATGATCTAGAACTTGGATGAAAATTTATGAATGTTGGAGTC
Found at i:761486 original size:49 final size:49
Alignment explanation
Indices: 761411--761506 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
761401 GTTATTTAGA
761411 TCATTTTCCATGATCTAGGAACTTGGATAAAATTTTACGAATTTTGATG
1 TCATTTTCCATGATCTAGGAACTTGGATAAAATTTTACGAATTTTGATG
* * ** *
761460 TCATTTTTCATGA-CTTAGGAATTTGGATGCAATTTTATGAATTTTGA
1 TCATTTTCCATGATC-TAGGAACTTGGATAAAATTTTACGAATTTTGA
761507 CATCATTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
48 1 0.02
49 40 0.98
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (49 bp):
TCATTTTCCATGATCTAGGAACTTGGATAAAATTTTACGAATTTTGATG
Found at i:761606 original size:58 final size:57
Alignment explanation
Indices: 761459--761607 Score: 151
Period size: 58 Copynumber: 2.6 Consensus size: 57
761449 GAATTTTGAT
* * * *
761459 GTCATTTTTCATGACTTAGGAATTTGGATGCAATTTTATGAATTTTGACATCATTTAT
1 GTCATTTTTCATGACTTAGGAATTT-CATGCAATTTCATGAATTTTGAAATCATTTAA
* *
761517 GTCTTTTTTCAT-AATCTAGGGAATTTCATGCAATTTCAT-ACATTTTAGAAAT-ATTTAA
1 GTCATTTTTCATGACT-TA-GGAATTTCATGCAATTTCATGA-ATTTT-GAAATCATTTAA
* *
761575 GTCATTTTTCATGACTTAAGAATTATTATGCAA
1 GTCATTTTTCATGACTTAGGAATT-TCATGCAA
761608 AATGTTTTGC
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
57 8 0.11
58 54 0.72
59 13 0.17
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (57 bp):
GTCATTTTTCATGACTTAGGAATTTCATGCAATTTCATGAATTTTGAAATCATTTAA
Found at i:762889 original size:23 final size:22
Alignment explanation
Indices: 762862--762919 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
762852 AACTTGAATG
* *
762862 TAAACTCAATTTACTCAAATGA
1 TAAACTCAATTAACTCAAATAA
* *
762884 TCAAACTCGATTAACTTAAATAA
1 T-AAACTCAATTAACTCAAATAA
762907 TAAACTCAATTAA
1 TAAACTCAATTAA
762920 TTTAAATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.31
Consensus pattern (22 bp):
TAAACTCAATTAACTCAAATAA
Found at i:762918 original size:22 final size:22
Alignment explanation
Indices: 762862--762926 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
762852 AACTTGAATG
* * *
762862 TAAACTCAATTTACTCAAATGA
1 TAAACTCAATTAACTTAAATAA
*
762884 TCAAACTCGATTAACTTAAATAA
1 T-AAACTCAATTAACTTAAATAA
*
762907 TAAACTCAATTAATTTAAAT
1 TAAACTCAATTAACTTAAAT
762927 TTAAAATAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 18 0.50
23 18 0.50
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (22 bp):
TAAACTCAATTAACTTAAATAA
Found at i:762965 original size:13 final size:14
Alignment explanation
Indices: 762914--762976 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 14
762904 TAATAAACTC
762914 AATTAATTTAAATTT
1 AATTAATTTAAA-TT
*
762929 AAAATAATTTAAATTT
1 -AATTAATTTAAA-TT
762945 AATTAATTTAAA-T
1 AATTAATTTAAATT
*
762958 ATTTAATTTAAAATT
1 AATTAATTT-AAATT
762973 AATT
1 AATT
762977 GAATCCAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
13 9 0.22
14 3 0.07
15 15 0.37
16 14 0.34
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AATTAATTTAAATT
Found at i:764558 original size:17 final size:18
Alignment explanation
Indices: 764531--764572 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
764521 ATAAATAATT
764531 AAATAACTTTA-AAACGTA
1 AAATAACTTTATAAA-GTA
*
764549 AAATAA-TTTATAAATTA
1 AAATAACTTTATAAAGTA
764566 AAATAAC
1 AAATAAC
764573 AATTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (18 bp):
AAATAACTTTATAAAGTA
Found at i:764896 original size:48 final size:48
Alignment explanation
Indices: 764840--764934 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
764830 ATCCAACTTG
*
764840 TCCAATTACCATATGAACCAACCATTGTTATTTCCTTCTATGTTTGTT
1 TCCAATTACCATAGGAACCAACCATTGTTATTTCCTTCTATGTTTGTT
764888 TCCAATTACCATAGGAACCAACCATTGTTATTTCCTTCTATGTTTGT
1 TCCAATTACCATAGGAACCAACCATTGTTATTTCCTTCTATGTTTGT
764935 CCCCCCCCCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.42
Consensus pattern (48 bp):
TCCAATTACCATAGGAACCAACCATTGTTATTTCCTTCTATGTTTGTT
Found at i:765342 original size:27 final size:25
Alignment explanation
Indices: 765312--765371 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 25
765302 AGGTGGCAGT
765312 TTTTTTTAATAAAAAAAAGGAGAGTAA
1 TTTTTTTAATAAAAAAAA--AGAGTAA
** *
765339 TTTTTTTAATTGAAAAAATGAGTAA
1 TTTTTTTAATAAAAAAAAAGAGTAA
765364 TTTTTTTA
1 TTTTTTTA
765372 GAATGAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 14 0.47
27 16 0.53
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (25 bp):
TTTTTTTAATAAAAAAAAAGAGTAA
Found at i:765690 original size:16 final size:16
Alignment explanation
Indices: 765651--765691 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
765641 TAATCTAAAT
*
765651 TCGAAATAATTCGAAC
1 TCGAAATGATTCGAAC
765667 TCGAAATGATTCGAAC
1 TCGAAATGATTCGAAC
765683 TCGAAATGA
1 TCGAAATGA
765692 CCCGAACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (16 bp):
TCGAAATGATTCGAAC
Found at i:765697 original size:16 final size:16
Alignment explanation
Indices: 765662--765699 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
765652 CGAAATAATT
**
765662 CGAACTCGAAATGATT
1 CGAACTCGAAATGACC
765678 CGAACTCGAAATGACC
1 CGAACTCGAAATGACC
765694 CGAACT
1 CGAACT
765700 ATTAACATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (16 bp):
CGAACTCGAAATGACC
Found at i:766548 original size:16 final size:16
Alignment explanation
Indices: 766527--766557 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
766517 ATTGATTTGA
766527 ATCTGAAATAATTCAT
1 ATCTGAAATAATTCAT
*
766543 ATCTGAAATGATTCA
1 ATCTGAAATAATTCA
766558 AACTTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (16 bp):
ATCTGAAATAATTCAT
Found at i:766627 original size:26 final size:27
Alignment explanation
Indices: 766579--766639 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
766569 ATCCAAATCT
** *
766579 AAAATAATCTAAACGTATCTAAACTTA
1 AAAATAATCTAAAAATATCTAAAATTA
* *
766606 AAAATAATCTAAAAAT-TTTAAAATTT
1 AAAATAATCTAAAAATATCTAAAATTA
766632 AAAATAAT
1 AAAATAAT
766640 TTAATTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (27 bp):
AAAATAATCTAAAAATATCTAAAATTA
Found at i:766645 original size:15 final size:15
Alignment explanation
Indices: 766627--766672 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
766617 AAAATTTTAA
766627 AATTTAAAATAATTT
1 AATTTAAAATAATTT
*
766642 AATTTAAAATAACTT
1 AATTTAAAATAATTT
*
766657 AATTCAAAATTAATTT
1 AATTTAAAA-TAATTT
766673 TACTGTAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 22 0.81
16 5 0.19
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTTAAAATAATTT
Found at i:767032 original size:16 final size:16
Alignment explanation
Indices: 767001--767164 Score: 147
Period size: 16 Copynumber: 10.2 Consensus size: 16
766991 TTCACGTTAT
767001 ATTATTTTAAAATTTAA
1 ATTATTTT-AAATTTAA
*
767018 ATTATTTTTAATTTAA
1 ATTATTTTAAATTTAA
* *
767034 ATTTATTTTTAATTTTA
1 A-TTATTTTAAATTTAA
*
767051 ATAATTTTAAATTTAAA
1 ATTATTTTAAATTT-AA
* * *
767068 ATT-TTTCAGATTTAC
1 ATTATTTTAAATTTAA
* * *
767083 AGTA-TTTAAATATGA
1 ATTATTTTAAATTTAA
*
767098 ATTATTTTAAATTAAA
1 ATTATTTTAAATTTAA
*
767114 ATTATTTTAAATAT-A
1 ATTATTTTAAATTTAA
767129 ATTATTTTAAA-TTAGA
1 ATTATTTTAAATTTA-A
*
767145 ATCATTTTAAATTTAA
1 ATTATTTTAAATTTAA
767161 ATTA
1 ATTA
767165 GTTCGAATTC
Statistics
Matches: 116, Mismatches: 24, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
14 1 0.01
15 24 0.21
16 62 0.53
17 29 0.25
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTATTTTAAATTTAA
Found at i:767120 original size:31 final size:31
Alignment explanation
Indices: 767087--767156 Score: 113
Period size: 31 Copynumber: 2.2 Consensus size: 31
767077 ATTTACAGTA
767087 TTTAAATATGAATTATTTTAAATTAAAATTAT
1 TTTAAATAT-AATTATTTTAAATTAAAATTAT
* *
767119 TTTAAATATAATTATTTTAAATTAGAATCAT
1 TTTAAATATAATTATTTTAAATTAAAATTAT
767150 TTTAAAT
1 TTTAAAT
767157 TTAAATTAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 27 0.75
32 9 0.25
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (31 bp):
TTTAAATATAATTATTTTAAATTAAAATTAT
Found at i:767163 original size:47 final size:47
Alignment explanation
Indices: 767004--767164 Score: 148
Period size: 47 Copynumber: 3.4 Consensus size: 47
766994 ACGTTATATT
* * **
767004 ATTTTAAAATTTAAATTATTTTTAATTTAAATTTATTTTTAATTTTAATA
1 ATTTT-AAATTTAAATTATTTTAAATTT-AA-TTATTTTAAATTAGAATA
* * * *
767054 ATTTTAAATTTAAAATT-TTTCAGATTTACAGTA-TTTAAA-TATGAATT
1 ATTTTAAATTT-AAATTATTTTAAATTTA-ATTATTTTAAATTA-GAATA
* * *
767101 ATTTTAAATTAAAATTATTTTAAATATAATTATTTTAAATTAGAATC
1 ATTTTAAATTTAAATTATTTTAAATTTAATTATTTTAAATTAGAATA
767148 ATTTTAAATTTAAATTA
1 ATTTTAAATTTAAATTA
767165 GTTCGAATTC
Statistics
Matches: 90, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
46 9 0.10
47 52 0.58
48 5 0.06
49 14 0.16
50 10 0.11
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (47 bp):
ATTTTAAATTTAAATTATTTTAAATTTAATTATTTTAAATTAGAATA
Found at i:767216 original size:14 final size:15
Alignment explanation
Indices: 767197--767230 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
767187 TATGTAGTGA
767197 TAAAATTATAAA-AT
1 TAAAATTATAAAGAT
*
767211 TAAAATTTTAAAGAT
1 TAAAATTATAAAGAT
767226 TAAAA
1 TAAAA
767231 AAATATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
TAAAATTATAAAGAT
Found at i:768703 original size:16 final size:16
Alignment explanation
Indices: 768684--768733 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
768674 GATTTTAAAC
*
768684 TTTTCAAATTTAAATT
1 TTTTTAAATTTAAATT
*
768700 TTTTTAACTTT-AATT
1 TTTTTAAATTTAAATT
*
768715 TTTTTAAATCTAAAATT
1 TTTTTAAAT-TTAAATT
768732 TT
1 TT
768734 AATTTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 12 0.43
16 10 0.36
17 6 0.21
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTTAAATTTAAATT
Done.