Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 33 of 202
Found at i:9676444 original size:4 final size:4
Alignment explanation
Indices: 9676435--9676479 Score: 90
Period size: 4 Copynumber: 11.2 Consensus size: 4
9676425 CAACTATATG
9676435 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
9676480 CATATATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:9678364 original size:8 final size:7
Alignment explanation
Indices: 9678337--9678362 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9678327 TTAGCACCAC
9678337 TTTTTAT
1 TTTTTAT
9678344 TTTTTAT
1 TTTTTAT
9678351 TTTTTAT
1 TTTTTAT
9678358 TTTTT
1 TTTTT
9678363 TAAAAGGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:9679316 original size:18 final size:19
Alignment explanation
Indices: 9679289--9679325 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9679279 AGCTAGCTAG
*
9679289 GCTTTTGCTTTTG-TTTTC
1 GCTTTCGCTTTTGCTTTTC
9679307 GCTTTCGCTTTTGCTTTTC
1 GCTTTCGCTTTTGCTTTTC
9679326 CAAGGTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.00, C:0.22, G:0.16, T:0.62
Consensus pattern (19 bp):
GCTTTCGCTTTTGCTTTTC
Found at i:9683326 original size:44 final size:44
Alignment explanation
Indices: 9683269--9683356 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
9683259 TGTAAAAATA
* **
9683269 ATACTTCTTTGATTTTGAAATGTGTAGGGAGACAATAATGTAAT
1 ATACTTCTGTGATTTTGAAATGTACAGGGAGACAATAATGTAAT
9683313 ATACTTCTGTGATTTTGAAATGTACAGGGAGACAATAATGTAAT
1 ATACTTCTGTGATTTTGAAATGTACAGGGAGACAATAATGTAAT
9683357 TTGGTATCGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.36
Consensus pattern (44 bp):
ATACTTCTGTGATTTTGAAATGTACAGGGAGACAATAATGTAAT
Found at i:9686959 original size:20 final size:21
Alignment explanation
Indices: 9686925--9686967 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
9686915 TTTAGAAACT
9686925 AAATAATTGAAATAAAATAAA
1 AAATAATTGAAATAAAATAAA
*
9686946 AAATAATT-AAATAAATTAAA
1 AAATAATTGAAATAAAATAAA
9686966 AA
1 AA
9686968 TTAAATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (21 bp):
AAATAATTGAAATAAAATAAA
Found at i:9688584 original size:4 final size:4
Alignment explanation
Indices: 9688575--9688599 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9688565 AACTTGAGCC
9688575 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
9688600 GTACAAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:9697813 original size:43 final size:43
Alignment explanation
Indices: 9697743--9698291 Score: 297
Period size: 42 Copynumber: 12.9 Consensus size: 43
9697733 AGAGCCTCCA
* *
9697743 GCACCTTGGTGGCTCAGATGTGTGGGAGCCTCGAACACCATCG
1 GCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAACACCATCG
* * * *
9697786 GAACCTCGGTGGCTCGGATGTCCGGGAGCCTCGAGCACCATCG
1 GCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAACACCATCG
* * ** * * * * *
9697829 GCATCTTGGTGCCT-GTCTGTACAGGAGCCTCGAGCAACATGG
1 GCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAACACCATCG
*
9697871 GCACCTTGGTGGCACGGATGTGCGGGAGCCTC-AGACACCATCAG
1 GCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGA-ACACCATC-G
** * * * *
9697915 AAACCTTGAT-GCTTGCATGTGCGGGAGCCTCGAGCACCATCG
1 GCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAACACCATCG
* * *
9697957 GCACCTTGGT-GCAT-GGATGTGCGGGAGCATCGGACACCATCA
1 GCACCTTGGTGGC-TCGGATGTGCGGGAGCCTCGAACACCATCG
* * ** ** * * *
9697999 GCAAACTAGG-CCCTTAGTTGTGCGGGAGCCTCGGAGACCATCG
1 GC-ACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAACACCATCG
* ** **
9698042 GCACCTCGGT-GCTATGATGTGCGGGAGCCTC-AGACACTGTCG
1 GCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGA-ACACCATCG
* ** * * *
9698084 GCAACCTAGG-CCCTTGGTTGTGCGGGAGCCTC-AGAGACCATCG
1 GC-ACCTTGGTGGCTCGGATGTGCGGGAGCCTCGA-ACACCATCG
* * ** * **
9698127 GCACCTCGGT-CCTATGATGTGCGGGAGCCTCGGACACTGTCG
1 GCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAACACCATCG
* * *
9698169 GCAACC-TAG-GCCATTGG-TCGTGCGGGAGCCTC-AAGCACCATCG
1 GC-ACCTTGGTGGC-TCGGAT-GTGCGGGAGCCTCGAA-CACCATCG
* * **
9698212 GCACCTTGGT-GCTTGGATGTGCGGGAGCCTTGTGCACCATCG
1 GCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAACACCATCG
* * * *
9698254 GTAGCTTGGT-GCAT-GGATGTGCAGGAGCCTCGAGCACC
1 GCACCTTGGTGGC-TCGGATGTGCGGGAGCCTCGAACACC
9698292 GAAGCTAAAG
Statistics
Matches: 390, Mismatches: 92, Indels: 49
0.73 0.17 0.09
Matches are distributed among these distances:
42 195 0.50
43 186 0.48
44 9 0.02
ACGTcount: A:0.18, C:0.29, G:0.33, T:0.20
Consensus pattern (43 bp):
GCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAACACCATCG
Found at i:9698021 original size:85 final size:85
Alignment explanation
Indices: 9697761--9698241 Score: 442
Period size: 85 Copynumber: 5.6 Consensus size: 85
9697751 GTGGCTCAGA
* * * * *
9697761 TGTGTGGGAGCCTCGAACACCATCGGAACCTCGGTGGC-TCGGATGTCCGGGAGCCTC-GAGCAC
1 TGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGT-GCAT-GGATGTGCGGGAGCCTCAGA-CAC
* * * *
9697824 CATCGGC-ATCTTGGTGCC-T-GT
63 CATCAGCAAACTAGG-CCCTTGGT
* * * * *
9697845 CTGTACAGGAGCCTCGAGCAACATGGGCACCTTGGTGGCACGGATGTGCGGGAGCCTCAGACACC
1 -TGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGT-GCATGGATGTGCGGGAGCCTCAGACACC
* *** **
9697910 ATCAG-AAACCTTGATGCTTGCA
64 ATCAGCAAA-CTAGGCCCTTGGT
* *
9697932 TGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCATGGATGTGCGGGAGCATCGGACACCAT
1 TGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCATGGATGTGCGGGAGCCTCAGACACCAT
*
9697997 CAGCAAACTAGGCCCTTAGT
66 CAGCAAACTAGGCCCTTGGT
* *
9698017 TGTGCGGGAGCCTCGGAG-ACCATCGGCACCTCGGTGCTAT-GATGTGCGGGAGCCTCAGACACT
1 TGTGCGGGAGCCTC-GAGCACCATCGGCACCTTGGTGC-ATGGATGTGCGGGAGCCTCAGACACC
* * *
9698080 GTCGGCAACCTAGGCCCTTGGT
64 ATCAGCAAACTAGGCCCTTGGT
* * * *
9698102 TGTGCGGGAGCCTCAGAG-ACCATCGGCACCTCGGTCCTAT-GATGTGCGGGAGCCTCGGACACT
1 TGTGCGGGAGCCTC-GAGCACCATCGGCACCTTGGTGC-ATGGATGTGCGGGAGCCTCAGACACC
* * * *
9698165 GTCGGCAACCTAGGCCATTGGT
64 ATCAGCAAACTAGGCCCTTGGT
* * *
9698187 CGTGCGGGAGCCTCAAGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCT
1 TGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCATGGATGTGCGGGAGCCT
9698242 TGTGCACCAT
Statistics
Matches: 337, Mismatches: 48, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
84 3 0.01
85 288 0.85
86 46 0.14
ACGTcount: A:0.19, C:0.29, G:0.33, T:0.20
Consensus pattern (85 bp):
TGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCATGGATGTGCGGGAGCCTCAGACACCAT
CAGCAAACTAGGCCCTTGGT
Found at i:9698475 original size:42 final size:42
Alignment explanation
Indices: 9698425--9698928 Score: 389
Period size: 42 Copynumber: 11.9 Consensus size: 42
9698415 CTTTAGCTTC
** *
9698425 GGTGCTCGATCCTCCCGCACATCCATGCACCAAGGTGCC-AGT
1 GGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA-T
* ** * * *
9698467 GGTGCTCGAGGCTCCCTCACGA-CCAAGGGCCTAGGTTGCCAAC
1 GGTGCTCGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGAT
* *
9698510 AGTG-TCCGAGGCTCCCGCACAT-CATAGCACCGAGGTGCCGAT
1 GGTGCT-CGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGAT
* ** * * *
9698552 GGT-CTCCGAGGCTCCCGCACAACCAAGGGCCTAGTTTGCTGAT
1 GGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAG-GTGCCGAT
* *
9698595 GGTG-TCGATGCTCCCGCACATCCATGCACCAAGGTGCCGAT
1 GGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGAT
* *
9698636 GGTGCTCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGAT
1 GGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGAT
* * ** *
9698679 GACGT-CT-GAGGCTTCCGTACATCCGTGCCACCAAGGTGCCCAT
1 G--GTGCTCGAGGCTCCCGCACATCCAAG-CACCAAGGTGCCGAT
* * ** * *
9698722 GCTGCTCGAGGCTCCCGTACAGACAGGCACAAAGGTGCCGAT
1 GGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGAT
**
9698764 GGTGCTCGAGGCTTTCGCACATCCAAGCACCAAGGTTGCCGAT
1 GGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGAT
* * *
9698807 GGTGGC-CGAGGCTCTCGCACATCCGAGCACTAAGGTGCCGAT
1 GGT-GCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGAT
* * * * *
9698849 GGTGCTCAAGGCTCCCAG-ACATTCGAGCCACCAAGGTTCCAAT
1 GGTGCTCGAGGCTCCC-GCACATCCAAG-CACCAAGGTGCCGAT
* * *
9698892 GGTGTTCGAGGCTCCCACACATCCGAGCCACCAAGGT
1 GGTGCTCGAGGCTCCCGCACATCCAAG-CACCAAGGT
9698929 ACTGGAGGCT
Statistics
Matches: 369, Mismatches: 70, Indels: 45
0.76 0.14 0.09
Matches are distributed among these distances:
41 13 0.04
42 177 0.48
43 165 0.45
44 12 0.03
45 2 0.01
ACGTcount: A:0.21, C:0.33, G:0.28, T:0.18
Consensus pattern (42 bp):
GGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGAT
Found at i:9698762 original size:128 final size:128
Alignment explanation
Indices: 9698620--9698928 Score: 354
Period size: 128 Copynumber: 2.4 Consensus size: 128
9698610 GCACATCCAT
* *
9698620 GCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGATGACGTC
1 GCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTTACCGATGACGGC
* * * *
9698685 TGAGGCT-TCCGTACATCCGTGCCACCAAGGTGCCCATGCTGCTCGAGGCTCCC-GTACAGAC-A
66 CGAGGCTCT-CGCACATCCGAG-CACCAAGGTGCCCATGCTGCTCAAGGCTCCCAG-ACAGACGA
9698747 G
128 G
* ** * **
9698748 GCACAAAGGTGCCGATGGTGCTCGAGGCTTTCGCACATCCAAGCACCAAGGTTGCCGATGGTGGC
1 GCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTTACCGATGACGGC
* * * **
9698813 CGAGGCTCTCGCACATCCGAGCACTAAGGTGCCGATGGTGCTCAAGGCTCCCAGACATTCGAG
66 CGAGGCTCTCGCACATCCGAGCACCAAGGTGCCCATGCTGCTCAAGGCTCCCAGACAGACGAG
* * * * * *
9698876 CCACCAAGGTTCCAATGGTGTTCGAGGCTCCCACACATCCGAGCCACCAAGGT
1 GCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACATCCAAG-CACCAAGGT
9698929 ACTGGAGGCT
Statistics
Matches: 151, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
127 31 0.21
128 110 0.73
129 10 0.07
ACGTcount: A:0.22, C:0.32, G:0.28, T:0.18
Consensus pattern (128 bp):
GCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTTACCGATGACGGC
CGAGGCTCTCGCACATCCGAGCACCAAGGTGCCCATGCTGCTCAAGGCTCCCAGACAGACGAG
Found at i:9698842 original size:85 final size:85
Alignment explanation
Indices: 9698425--9698928 Score: 346
Period size: 85 Copynumber: 5.9 Consensus size: 85
9698415 CTTTAGCTTC
** * *
9698425 GGTGCTCGATCCTCCCGCACATCCATG-CACCAAGGTGCC-AGTGGTGCTCGAGGCTCCCTCACG
1 GGTGCTCGAGGCTCCCGCACATCCAAGCCACCAAGGTGCCGA-TGGTGCTCGAGGCTCCCGCAC-
* * *
9698488 A-CCAAGGGC-CT-AGGTTGCCAAC
64 ATCC--GAGCACTAAGG-TGCCGAT
* *
9698510 AGTG-TCCGAGGCTCCCGCACAT-CATAG-CACCGAGGTGCCGATGGT-CTCCGAGGCTCCCGCA
1 GGTGCT-CGAGGCTCCCGCACATCCA-AGCCACCAAGGTGCCGATGGTGCT-CGAGGCTCCCGCA
* * * *
9698571 CAACCAAGGGC-CT-AGTTTGCTGAT
63 CATCC--GAGCACTAAG-GTGCCGAT
* *
9698595 GGTG-TCGATGCTCCCGCACATCCATG-CACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACAT
1 GGTGCTCGAGGCTCCCGCACATCCAAGCCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACAT
* *
9698658 CCAAGCA-TCAAGGTTACCGAT
66 CCGAGCACT-AAGG-TGCCGAT
* * ** * * *
9698679 GACGT-CT-GAGGCTTCCGTACATCCGTGCCACCAAGGTGCCCATGCTGCTCGAGGCTCCCGTAC
1 G--GTGCTCGAGGCTCCCGCACATCCAAGCCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCAC
** *
9698742 AGAC-AGGCACAAAGGTGCCGAT
64 ATCCGA-GCACTAAGGTGCCGAT
** *
9698764 GGTGCTCGAGGCTTTCGCACATCCAAG-CACCAAGGTTGCCGATGGTGGC-CGAGGCTCTCGCAC
1 GGTGCTCGAGGCTCCCGCACATCCAAGCCACCAAGG-TGCCGATGGT-GCTCGAGGCTCCCGCAC
9698827 ATCCGAGCACTAAGGTGCCGAT
64 ATCCGAGCACTAAGGTGCCGAT
* * * * * * *
9698849 GGTGCTCAAGGCTCCCAG-ACATTCGAGCCACCAAGGTTCCAATGGTGTTCGAGGCTCCCACACA
1 GGTGCTCGAGGCTCCC-GCACATCCAAGCCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACA
*
9698913 TCCGAGCCACCAAGGT
65 TCCGAG-CACTAAGGT
9698929 ACTGGAGGCT
Statistics
Matches: 339, Mismatches: 53, Indels: 53
0.76 0.12 0.12
Matches are distributed among these distances:
82 3 0.01
83 2 0.01
84 75 0.22
85 194 0.57
86 65 0.19
ACGTcount: A:0.21, C:0.33, G:0.28, T:0.18
Consensus pattern (85 bp):
GGTGCTCGAGGCTCCCGCACATCCAAGCCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACAT
CCGAGCACTAAGGTGCCGAT
Found at i:9701651 original size:7 final size:7
Alignment explanation
Indices: 9701639--9701663 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9701629 CATAGGTTGT
9701639 TTTTAAA
1 TTTTAAA
9701646 TTTTAAA
1 TTTTAAA
9701653 TTTTAAA
1 TTTTAAA
9701660 TTTT
1 TTTT
9701664 TCTGTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:9705350 original size:6 final size:6
Alignment explanation
Indices: 9705326--9705373 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
9705316 TGCAAATGTA
* * * *
9705326 TCATTT CTCATTT TTATTT TCATTT TCATTT TCGTTT CCATTT CCATT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATT
9705374 ATGAGAAACC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
6 30 0.83
7 6 0.17
ACGTcount: A:0.15, C:0.21, G:0.02, T:0.62
Consensus pattern (6 bp):
TCATTT
Found at i:9707918 original size:45 final size:45
Alignment explanation
Indices: 9707867--9707960 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
9707857 AACAGATACT
* *
9707867 CGGTGG-ATTCAGCACATATCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATT-AGCACATAGCAACCACCTTACTAATCAATGATGTC
*
9707912 CGGTGGAATTAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATTAGCACATAGCAACCACCTTACTAATCAATGATGTC
9707957 CGGT
1 CGGT
9707961 TCACATAGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 42 0.93
46 3 0.07
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (45 bp):
CGGTGGAATTAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:9715511 original size:9 final size:9
Alignment explanation
Indices: 9715494--9715530 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
9715484 TATAGTTTGA
9715494 TATTCGAAT
1 TATTCGAAT
*
9715503 TATTTGAAT
1 TATTCGAAT
*
9715512 TATTCGAGT
1 TATTCGAAT
9715521 TATTCGAAT
1 TATTCGAAT
9715530 T
1 T
9715531 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9716342 original size:5 final size:5
Alignment explanation
Indices: 9716325--9716355 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
9716315 CATTTCCTTC
9716325 TGATA TG-TA TGATA TGATA TGATA TGATA TG
1 TGATA TGATA TGATA TGATA TGATA TGATA TG
9716356 TGGTAATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (5 bp):
TGATA
Found at i:9727991 original size:16 final size:16
Alignment explanation
Indices: 9727970--9728001 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9727960 GTAAACTTAA
9727970 GTTAACTCTCTACACT
1 GTTAACTCTCTACACT
9727986 GTTAACTCTCTACACT
1 GTTAACTCTCTACACT
9728002 AATAGGGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (16 bp):
GTTAACTCTCTACACT
Found at i:9731040 original size:19 final size:20
Alignment explanation
Indices: 9730998--9731046 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
9730988 TCATGCTTTC
*
9730998 TATTCACAATTTCATATTCA
1 TATTCACAATTTCAAATTCA
*
9731018 -ATTCACATTTTCAAATT-A
1 TATTCACAATTTCAAATTCA
9731036 TATTCCACAAT
1 TATT-CACAAT
9731047 CACGTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 18 0.75
20 5 0.21
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (20 bp):
TATTCACAATTTCAAATTCA
Found at i:9731252 original size:45 final size:44
Alignment explanation
Indices: 9731180--9731284 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 44
9731170 AGTAATCAGT
9731180 ATCGGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTGTT-GA
1 ATCGGTA-CAGTAACAGTAACAGTATTCAACACACAAAGT-TTCGA
* * * *
9731225 ATCTGTAACAGTAACGGTAATAGTATTCGACACACAAAGTTTCGA
1 ATCGGT-ACAGTAACAGTAACAGTATTCAACACACAAAGTTTCGA
9731270 ATCGGTACAGTAACA
1 ATCGGTACAGTAACA
9731285 ATAGTCGGCA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
44 10 0.19
45 41 0.79
46 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (44 bp):
ATCGGTACAGTAACAGTAACAGTATTCAACACACAAAGTTTCGA
Found at i:9733965 original size:25 final size:25
Alignment explanation
Indices: 9733934--9733998 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
9733924 ATAAATGTTT
*
9733934 TAATAATCAGATAGCACTAGCATGC
1 TAATAATCAGATAGCACTACCATGC
* * *
9733959 TATTAATCAGAGAGCACTACCGTGC
1 TAATAATCAGATAGCACTACCATGC
9733984 TAATAATCAGATAGC
1 TAATAATCAGATAGC
9733999 GCGCTTAGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (25 bp):
TAATAATCAGATAGCACTACCATGC
Found at i:9737768 original size:42 final size:41
Alignment explanation
Indices: 9737699--9737777 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 41
9737689 ATGTCCTTAC
* *
9737699 CCGTGAACTCTCTGAGTAGCGTTACACGTCCA-TGTGCCAAA
1 CCGTGAACTCTCTGAGTAGCCTCACACG-CCAGTGTGCCAAA
*
9737740 CCGTGTAACTCTCTGAGTTGCCTCACACGCCAGTGTGC
1 CCGTG-AACTCTCTGAGTAGCCTCACACGCCAGTGTGC
9737778 TAGGCAATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 8 0.24
42 25 0.76
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (41 bp):
CCGTGAACTCTCTGAGTAGCCTCACACGCCAGTGTGCCAAA
Found at i:9749167 original size:17 final size:17
Alignment explanation
Indices: 9749145--9749180 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9749135 TTATTTTCGA
* *
9749145 TGGATCCTCTGTTATGG
1 TGGATCATCTGTCATGG
9749162 TGGATCATCTGTCATGG
1 TGGATCATCTGTCATGG
9749179 TG
1 TG
9749181 CCCCTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.31, T:0.39
Consensus pattern (17 bp):
TGGATCATCTGTCATGG
Found at i:9750839 original size:116 final size:115
Alignment explanation
Indices: 9750630--9750865 Score: 400
Period size: 116 Copynumber: 2.0 Consensus size: 115
9750620 TGTGCCAGGT
* *
9750630 CGTGTGCTAGGCCGTGTAACTTTCGAATTGCAACCCCAAAAACCTACAGGGGACACACAGCCATG
1 CGTGTCCTAGGCCATGTAACTTTCGAATTGCAACCCCAAAAACCTACAGGGGACACACAGCCATG
* *
9750695 TTGCATGGCCATGTGTCACATACAGCTGAGACACACGCTCGTGTCTTAGGC
66 TCGCATGGCCATGTGTCACACACAGCTGAGACACACGC-CGTGTCTTAGGC
*
9750746 CGTGTCCTAGGCCATGTAACTTTCGAATTGCAACCCCAAAAACCTACAGGGGACACACAGTCATG
1 CGTGTCCTAGGCCATGTAACTTTCGAATTGCAACCCCAAAAACCTACAGGGGACACACAGCCATG
* *
9750811 TCGCATGGCCATGTGTCACACACGGCTGAGACACATGCCGTGTCTTAGGC
66 TCGCATGGCCATGTGTCACACACAGCTGAGACACACGCCGTGTCTTAGGC
9750861 CGTGT
1 CGTGT
9750866 GGACAAGAAA
Statistics
Matches: 113, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
115 17 0.15
116 96 0.85
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (115 bp):
CGTGTCCTAGGCCATGTAACTTTCGAATTGCAACCCCAAAAACCTACAGGGGACACACAGCCATG
TCGCATGGCCATGTGTCACACACAGCTGAGACACACGCCGTGTCTTAGGC
Found at i:9753622 original size:30 final size:30
Alignment explanation
Indices: 9753586--9753646 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
9753576 CCTCTTCTTT
9753586 GTGTTCTATTCTTGTCACAGAGTTGATGTC
1 GTGTTCTATTCTTGTCACAGAGTTGATGTC
9753616 GTGTTCTATTCTTGTCACAGAGTTGATGTC
1 GTGTTCTATTCTTGTCACAGAGTTGATGTC
9753646 G
1 G
9753647 CAAGGACCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.43
Consensus pattern (30 bp):
GTGTTCTATTCTTGTCACAGAGTTGATGTC
Found at i:9754849 original size:148 final size:148
Alignment explanation
Indices: 9754600--9754871 Score: 411
Period size: 148 Copynumber: 1.8 Consensus size: 148
9754590 ATTACGCCTC
* *
9754600 CTTTAACCACCGATAATTTATTTCACAAATCATAACTATTAATTATTTGTAGAACCACATAACCA
1 CTTTAACCACCGATAATTTATTTCACAAACCATAACTATTAATTATTTGTAGAACCACAAAACCA
* * ***
9754665 TGCAACCATTTTAGTTTGTGCTTAGCGTTCTCGCTTTGTAGTGAGGTTGAGAGTGGTGGATCAGA
66 TGCAACCACTTTAGTTTGTGCTTAGCGTTCTCGCTTTGCAACAAGGTTGAGAGTGGTGGATCAGA
9754730 ACTTGCCTTTTCAATCTG
131 ACTTGCCTTTTCAATCTG
* ** *
9754748 CTTTAACCACCGATAATTTTTTTCGTAAACCATAACTATTAATTATTTGTAGGACCACAAAACCA
1 CTTTAACCACCGATAATTTATTTCACAAACCATAACTATTAATTATTTGTAGAACCACAAAACCA
* *
9754813 TGCAACCACTTTAGTTTGT-CATTAGTGTTCTTGCTTTGCAACAAGGTTGAGAGTGGTGG
66 TGCAACCACTTTAGTTTGTGC-TTAGCGTTCTCGCTTTGCAACAAGGTTGAGAGTGGTGG
9754872 TTCATACTTA
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
147 1 0.01
148 109 0.99
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (148 bp):
CTTTAACCACCGATAATTTATTTCACAAACCATAACTATTAATTATTTGTAGAACCACAAAACCA
TGCAACCACTTTAGTTTGTGCTTAGCGTTCTCGCTTTGCAACAAGGTTGAGAGTGGTGGATCAGA
ACTTGCCTTTTCAATCTG
Found at i:9758005 original size:45 final size:45
Alignment explanation
Indices: 9757933--9758155 Score: 216
Period size: 45 Copynumber: 5.0 Consensus size: 45
9757923 ACTATGCGCC
* * * ** *
9757933 AAAAATGAGTAAGACCATAA-CTAAAAGATGCTATGGCATTGTCAT
1 AAAAGTGAGTAAGACCA-AAGTTGAAAGATGCTATGGCATCATGAT
* * * *
9757978 AAGAGTGTGTAAGACCAAAGTTGAAAGATGTTATGGAATCATGAT
1 AAAAGTGAGTAAGACCAAAGTTGAAAGATGCTATGGCATCATGAT
* *
9758023 AAAAGTGAGTAAGA-AAATAGTTGAAAGATGTTATGGCATCATGAT
1 AAAAGTGAGTAAGACCAA-AGTTGAAAGATGCTATGGCATCATGAT
* * * *
9758068 AAAAGTGAGTAAAACCATAGTTGAAAGATGCTATGACATCATGAC
1 AAAAGTGAGTAAGACCAAAGTTGAAAGATGCTATGGCATCATGAT
* * * * * *
9758113 AAAACTAAGTAAGACCATAGTTGAAAGACGCTATCGCAACATG
1 AAAAGTGAGTAAGACCAAAGTTGAAAGATGCTATGGCATCATG
9758156 TGAAAGCACA
Statistics
Matches: 148, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
44 4 0.03
45 143 0.97
46 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (45 bp):
AAAAGTGAGTAAGACCAAAGTTGAAAGATGCTATGGCATCATGAT
Found at i:9761288 original size:17 final size:16
Alignment explanation
Indices: 9761263--9761296 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
9761253 AAAAAAAAGT
*
9761263 ACATTGCCATGTGAGCC
1 ACATGGCCATGTG-GCC
9761280 ACATGGCCATGTGGCC
1 ACATGGCCATGTGGCC
9761296 A
1 A
9761297 GGCCATTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (16 bp):
ACATGGCCATGTGGCC
Found at i:9761343 original size:14 final size:14
Alignment explanation
Indices: 9761324--9761353 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9761314 GGTCGTGTGG
9761324 ATAGGCCGTGTAGA
1 ATAGGCCGTGTAGA
*
9761338 ATAGGCCTTGTAGA
1 ATAGGCCGTGTAGA
9761352 AT
1 AT
9761354 CACCTAGACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (14 bp):
ATAGGCCGTGTAGA
Found at i:9761690 original size:20 final size:21
Alignment explanation
Indices: 9761665--9761706 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9761655 ATCCAAATTT
* *
9761665 TTTTCAA-TATTTTTTATAAA
1 TTTTCAATTAATTTTTAAAAA
9761685 TTTTCAATTAATTTTTAAAAA
1 TTTTCAATTAATTTTTAAAAA
9761706 T
1 T
9761707 AATGAAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTCAATTAATTTTTAAAAA
Found at i:9768275 original size:42 final size:42
Alignment explanation
Indices: 9768229--9768412 Score: 165
Period size: 42 Copynumber: 4.3 Consensus size: 42
9768219 AGTAACTAGA
* *
9768229 CACTATATTTTTCATGTAGGTTAACCCAAAAGGGTAAAAAAG
1 CACTATATTTTTCGTGTAGGTTAACCCAAAAGGGTAAACAAG
* *
9768271 CACTATATTTCTT-GTGTAGGTTAACCTAAAAGGGTAATC-AG
1 CACTATATTT-TTCGTGTAGGTTAACCCAAAAGGGTAAACAAG
* * * * * *
9768312 ACACTAAATTTCTCGTGTAGGTTAACTCGAAAGGGTAACCATG
1 -CACTATATTTTTCGTGTAGGTTAACCCAAAAGGGTAAACAAG
* * *
9768355 CACTATTAATATTTCTCGTGTAGGTTTAACCCAAATGAGTAACCAAG
1 CACTA-T-AT-TTT-TCGTGTAGG-TTAACCCAAAAGGGTAAACAAG
*
9768402 CGCTATATTTT
1 CACTATATTTT
9768413 CCCCGTGTAC
Statistics
Matches: 114, Mismatches: 19, Indels: 16
0.77 0.13 0.11
Matches are distributed among these distances:
41 3 0.03
42 68 0.60
43 3 0.03
44 5 0.04
45 4 0.04
46 10 0.09
47 21 0.18
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (42 bp):
CACTATATTTTTCGTGTAGGTTAACCCAAAAGGGTAAACAAG
Found at i:9774166 original size:7 final size:7
Alignment explanation
Indices: 9774156--9774185 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
9774146 TTTCAAGTCA
9774156 TTTTCAT
1 TTTTCAT
9774163 TTTTCAT
1 TTTTCAT
9774170 TTTTCA-
1 TTTTCAT
9774176 TTTTCAT
1 TTTTCAT
9774183 TTT
1 TTT
9774186 GGAGAAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTCAT
Found at i:9774171 original size:13 final size:14
Alignment explanation
Indices: 9774156--9774185 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
9774146 TTTCAAGTCA
9774156 TTTTCATTTTTCAT
1 TTTTCATTTTTCAT
9774170 TTTTCA-TTTTCAT
1 TTTTCATTTTTCAT
9774183 TTT
1 TTT
9774186 GGAGAAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTCATTTTTCAT
Found at i:9774231 original size:57 final size:58
Alignment explanation
Indices: 9774139--9774249 Score: 156
Period size: 57 Copynumber: 1.9 Consensus size: 58
9774129 AAAAACATAA
* * *
9774139 ATTCATTTTTCAAGTCATTTTCATTTTTCATTTTTCATTTTCATTTTGGAGAAAACCAC
1 ATTCATTTTTCAAATCAATTTCATTTTCCATTTTTCATTTTCATTTT-GAGAAAACCAC
9774198 ATTCA-TTTTCAAAT-AATTTCATTTCTCCA-TTTTCATTTTCATTTTGAGAAAA
1 ATTCATTTTTCAAATCAATTTCATTT-TCCATTTTTCATTTTCATTTTGAGAAAA
9774250 TCTTAACCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
56 7 0.15
57 25 0.52
58 11 0.23
59 5 0.10
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.50
Consensus pattern (58 bp):
ATTCATTTTTCAAATCAATTTCATTTTCCATTTTTCATTTTCATTTTGAGAAAACCAC
Found at i:9774279 original size:57 final size:57
Alignment explanation
Indices: 9774157--9774286 Score: 140
Period size: 57 Copynumber: 2.3 Consensus size: 57
9774147 TTCAAGTCAT
* ** *
9774157 TTTCATTT-TTCATTTTTCATTTTCATTTTGGAGAAAACCACATTCATTTTCAAATAA
1 TTTCATTTCTCCA-TTTTCATTTTCATTTTGGAGAAAACCACAACCATTTCCAAATAA
* ** *
9774214 TTTCATTTCTCCATTTTCATTTTCATTTT-GAGAAAATCTTAACCATTTCCAAAT-G
1 TTTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCACAACCATTTCCAAATAA
9774269 TTTCATATTTCTCCATTT
1 TTTC--ATTTCTCCATTT
9774287 CTCCATTTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
55 4 0.06
56 19 0.31
57 36 0.58
58 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.50
Consensus pattern (57 bp):
TTTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCACAACCATTTCCAAATAA
Found at i:9774288 original size:8 final size:8
Alignment explanation
Indices: 9774275--9774304 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9774265 AATGTTTCAT
9774275 ATTTCTCC
1 ATTTCTCC
9774283 ATTTCTCC
1 ATTTCTCC
*
9774291 ATTTCACC
1 ATTTCTCC
9774299 ATTTCT
1 ATTTCT
9774305 GTTCATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTCTCC
Found at i:9780817 original size:22 final size:22
Alignment explanation
Indices: 9780792--9780846 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
9780782 CTAGTTGCTA
*
9780792 TGTCGCGACATAGGTCCTGGTG
1 TGTCGCAACATAGGTCCTGGTG
*
9780814 TGTCACAACATAGGTCCTGGTG
1 TGTCGCAACATAGGTCCTGGTG
9780836 TGTCGCAACAT
1 TGTCGCAACAT
9780847 CAACTTTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (22 bp):
TGTCGCAACATAGGTCCTGGTG
Found at i:9783660 original size:20 final size:22
Alignment explanation
Indices: 9783616--9783660 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9783606 ACATAGGGGT
**
9783616 ATTTGTCTCGAGACAATTGAAA
1 ATTTGTCTCGAGACAATCCAAA
9783638 ATTTGTCTCGAGAC-A-CCAAA
1 ATTTGTCTCGAGACAATCCAAA
9783658 ATT
1 ATT
9783661 CAAAGTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 1 0.05
22 14 0.67
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (22 bp):
ATTTGTCTCGAGACAATCCAAA
Found at i:9790952 original size:7 final size:7
Alignment explanation
Indices: 9790936--9790975 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
9790926 TACATTAACC
9790936 TTTA-TT
1 TTTATTT
9790942 TTTATTT
1 TTTATTT
9790949 TTTATTT
1 TTTATTT
9790956 TTTA-TT
1 TTTATTT
9790962 TTTATTT
1 TTTATTT
9790969 TTTATTT
1 TTTATTT
9790976 ACTTGTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 10 0.31
7 22 0.69
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTATTT
Found at i:9790954 original size:13 final size:13
Alignment explanation
Indices: 9790936--9790975 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
9790926 TACATTAACC
9790936 TTTA-TTTTTATTT
1 TTTATTTTTTA-TT
9790949 TTTATTTTTTATT
1 TTTATTTTTTATT
9790962 TTTATTTTTTATT
1 TTTATTTTTTATT
9790975 T
1 T
9790976 ACTTGTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:9790961 original size:20 final size:20
Alignment explanation
Indices: 9790936--9790975 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9790926 TACATTAACC
9790936 TTTATTTTTATTTTTTATTT
1 TTTATTTTTATTTTTTATTT
9790956 TTTATTTTTATTTTTTATTT
1 TTTATTTTTATTTTTTATTT
9790976 ACTTGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTATTTTTATTTTTTATTT
Found at i:9790989 original size:4 final size:4
Alignment explanation
Indices: 9790942--9791004 Score: 57
Period size: 4 Copynumber: 16.5 Consensus size: 4
9790932 AACCTTTATT
9790942 TTTA TTT- TTTA TTT- TTTA -TT- TTTA TTT- TTTA TTTA CTTGT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TT-TA TTTA
9790986 TTTA TTTCA TTTA TTTA TT
1 TTTA TTT-A TTTA TTTA TT
9791005 CCTTAATTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
3 14 0.28
4 29 0.58
5 6 0.12
6 1 0.02
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:9797550 original size:154 final size:154
Alignment explanation
Indices: 9797270--9797572 Score: 570
Period size: 154 Copynumber: 2.0 Consensus size: 154
9797260 CTTTGTGGAA
* * *
9797270 CTTAGAGCTACCTCCTAAGGTTAAATGATTCTCTTGGCAGGCTTGCTATGGTATACTACCTTTCG
1 CTTAGAGCTACCTCCTAAAGTTAAATCATTCTCGTGGCAGGCTTGCTATGGTATACTACCTTTCG
*
9797335 GATGAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTCCAAGATGCCATTCCACTAATG
66 GATGAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTCCAAGATGCCATTCCACTAACG
9797400 AGGATGATCTGCATGCTTTGCTTT
131 AGGATGATCTGCATGCTTTGCTTT
9797424 CTTAGAGCTACCTCCTAAAGTTAAATCATTCTCGTGGCAGGCTTGCTATGGTATACTACCTTTCG
1 CTTAGAGCTACCTCCTAAAGTTAAATCATTCTCGTGGCAGGCTTGCTATGGTATACTACCTTTCG
9797489 GATGAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTCCAAGATGCCATTCCACTAACG
66 GATGAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTCCAAGATGCCATTCCACTAACG
9797554 AGGATGATCTGCATGCTTT
131 AGGATGATCTGCATGCTTT
9797573 AAAGCAAATA
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 145 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (154 bp):
CTTAGAGCTACCTCCTAAAGTTAAATCATTCTCGTGGCAGGCTTGCTATGGTATACTACCTTTCG
GATGAAAATAGCAAGGAGAATTCACGTCATTGACCTTATGTGTCCAAGATGCCATTCCACTAACG
AGGATGATCTGCATGCTTTGCTTT
Found at i:9800704 original size:12 final size:12
Alignment explanation
Indices: 9800693--9800740 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
9800683 TTTTTTATTT
* *
9800693 TTAATATTATTT
1 TTAATATTAATA
9800705 TTAAT--TAATA
1 TTAATATTAATA
9800715 TTAATATTAATA
1 TTAATATTAATA
9800727 TTAATATTAATA
1 TTAATATTAATA
9800739 TT
1 TT
9800741 TTTAATTAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 8 0.25
12 24 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTAATATTAATA
Found at i:9800719 original size:6 final size:6
Alignment explanation
Indices: 9800708--9800740 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
9800698 ATTATTTTTA
9800708 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATT
9800741 TTTAATTAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTAAT
Found at i:9800905 original size:2 final size:2
Alignment explanation
Indices: 9800898--9800928 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9800888 CAAATTCACA
9800898 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9800929 CAAAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9802241 original size:9 final size:9
Alignment explanation
Indices: 9802212--9802256 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
9802202 GGTTTTTGGA
9802212 TTTTAGGG-
1 TTTTAGGGT
9802220 -TTTAGGG-
1 TTTTAGGGT
9802227 TTTTAGGGT
1 TTTTAGGGT
*
9802236 TTTTAGGAT
1 TTTTAGGGT
*
9802245 TTTTAAGGT
1 TTTTAGGGT
9802254 TTT
1 TTT
9802257 GGAGAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
7 7 0.22
8 7 0.22
9 18 0.56
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.56
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:9805988 original size:18 final size:18
Alignment explanation
Indices: 9805954--9805987 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9805944 GTGTTTTAGT
9805954 TAAAATATGCATATTTTG
1 TAAAATATGCATATTTTG
*
9805972 TAAAATTTG-ATATTTT
1 TAAAATATGCATATTTT
9805988 TATATATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (18 bp):
TAAAATATGCATATTTTG
Found at i:9809578 original size:12 final size:12
Alignment explanation
Indices: 9809561--9809585 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9809551 TCGAATAAGC
9809561 ATGTATATATAT
1 ATGTATATATAT
9809573 ATGTATATATAT
1 ATGTATATATAT
9809585 A
1 A
9809586 ATGTTAGAAT
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:9810415 original size:40 final size:42
Alignment explanation
Indices: 9810398--9810547 Score: 189
Period size: 41 Copynumber: 3.6 Consensus size: 42
9810388 GGCTTTAAGT
9810398 CTAGCAGGCTACGTGCCGGTG-ATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGAATCTGAATCAGGTTATAAAC
*
9810439 CTAGCAGGCTACGTGCCGGTG-ATCTGACTCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGAATCTGAATCAGGTTATAAAC
* * * * **
9810480 CTAGCAGGCTACGTGCTGGTG-ATCTGAATTAAGCTATAATT
1 CTAGCAGGCTACGTGCCGGTGAATCTGAATCAGGTTATAAAC
* * *
9810521 CTAGCAGGCTAAGTGTCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTGAATCTG
9810548 TTTTAATTAA
Statistics
Matches: 96, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 91 0.95
42 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (42 bp):
CTAGCAGGCTACGTGCCGGTGAATCTGAATCAGGTTATAAAC
Found at i:9810443 original size:41 final size:41
Alignment explanation
Indices: 9810398--9810531 Score: 205
Period size: 41 Copynumber: 3.3 Consensus size: 41
9810388 GGCTTTAAGT
9810398 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
9810439 CTAGCAGGCTACGTGCCGGTGATCTGACTCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* * * * **
9810480 CTAGCAGGCTACGTGCTGGTGATCTGAATTAAGCTATAATT
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
9810521 CTAGCAGGCTA
1 CTAGCAGGCTA
9810532 AGTGTCGTTG
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 85 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:9812045 original size:24 final size:24
Alignment explanation
Indices: 9811999--9812046 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
9811989 TTTAATTATT
9811999 TTTGTTTAATGATTTTTTTGTTAAA
1 TTTGTTTAATGA-TTTTTTGTTAAA
9812024 TTTGATTTAATGA-TTTTTGTTAA
1 TTTG-TTTAATGATTTTTTGTTAA
9812047 TTGAACGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
25 4 0.18
26 8 0.36
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (24 bp):
TTTGTTTAATGATTTTTTGTTAAA
Found at i:9813136 original size:25 final size:25
Alignment explanation
Indices: 9813082--9813136 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
9813072 AAACATTAAA
*
9813082 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
9813107 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
9813131 TATTAA
1 T-TTAA
9813137 GATATGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:9815181 original size:30 final size:30
Alignment explanation
Indices: 9815145--9815206 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
9815135 ATTTATTTTA
*
9815145 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
9815175 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
9815205 TT
1 TT
9815207 ACTTATTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:9823470 original size:42 final size:42
Alignment explanation
Indices: 9823421--9823524 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 42
9823411 TGATCCACTC
* *
9823421 ACATGCCAATATATTTGCTTTGATTTATCTGATGATGCACCT
1 ACATGCCAATATATTTGCTTTGATATATCTGATAATGCACCT
* * * * *
9823463 ATATGCCAATGTAATTGCTCTGATATATCTGATAATGCACTT
1 ACATGCCAATATATTTGCTTTGATATATCTGATAATGCACCT
* *
9823505 ACGTGCCAGTATATTTGCTT
1 ACATGCCAATATATTTGCTT
9823525 CAGTACATCA
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (42 bp):
ACATGCCAATATATTTGCTTTGATATATCTGATAATGCACCT
Found at i:9828342 original size:18 final size:17
Alignment explanation
Indices: 9828302--9828343 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
9828292 CTTTCATTTT
*
9828302 TATTTATAAAATTTTTA
1 TATTTATAAAATTTATA
9828319 TGATTTATAAAATTATATA
1 T-ATTTATAAAATT-TATA
9828338 TATTTA
1 TATTTA
9828344 AAATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 17 0.77
19 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TATTTATAAAATTTATA
Found at i:9828381 original size:26 final size:28
Alignment explanation
Indices: 9828322--9828379 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
9828312 ATTTTTATGA
9828322 TTTATAAAATTATATATATTTAAAATTTT
1 TTTA-AAAATTATATATATTTAAAATTTT
* *
9828351 TTTAAAAATTATATAT-TTTTAGATTTT
1 TTTAAAAATTATATATATTTAAAATTTT
9828378 TT
1 TT
9828380 AATTTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 11 0.41
28 12 0.44
29 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTAAAAATTATATATATTTAAAATTTT
Found at i:9833271 original size:44 final size:43
Alignment explanation
Indices: 9833170--9833673 Score: 293
Period size: 44 Copynumber: 11.6 Consensus size: 43
9833160 TTCAATCTAT
* *
9833170 TCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCCAT-TT-AGTCTGC
9833215 -CTCACTGCAACTTCA-GGAGGATAAGACTTGCCTATTTAGTCTGC
1 TC-CACTGCAACTTCAGGGA-GATAAGACTTGCC-ATTTAGTCTGC
* **
9833259 TCCACTGCAACTTCAGGGAGATAAGACTAG--A-TGCGATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCCATTTAG-TCTGC
* * * * * ** * *
9833300 T-CTCTACAACTTTAGAGAGATAAGATCTAAG-GTTTTAATCCGC
1 TCCACTGCAACTTCAGGGAGATAAGA-CT-TGCCATTTAGTCTGC
* * * *
9833343 TCCACTGCAACTTCAGGGAGATAGGA-TTATCGACTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTT-GCCA-TTTAGTCTGC
9833387 TCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCCAT-TT-AGTCTGC
* * * * *
9833432 CCCACTGCAACTTCA-GGAGGGTAAGACTTGCTTACTTAGTCTAC
1 TCCACTGCAACTTCAGGGA-GATAAGACTTGC-CATTTAGTCTGC
* * * * **
9833476 TCTACTGCAACTTTAGAGAGATAAGACTAG--A-TGCGATCTG-
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCCATTTAG-TCTGC
* * * * *** * *
9833516 TTCTCTGCAACTTCAGAGAGATAA-AATCTGAGGTTTTAATCCGC
1 TCCACTGCAACTTCAGGGAGATAAGACT-TG-CCATTTAGTCTGC
* * *
9833560 TCCACTGCAACTTCAGGGAGATAGGACTATCGGC-TTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACT-T-GCCATTTAGTCTGC
* *
9833604 TCCACTGCAACTTTAGGGAGATAAGACTTGCCATCTTCGATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCCAT-TTAG-TCTGC
* **
9833649 TCCACTACTGCTT-AGGGAGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
9833674 TCTGTAATTT
Statistics
Matches: 359, Mismatches: 68, Indels: 65
0.73 0.14 0.13
Matches are distributed among these distances:
39 2 0.01
40 45 0.13
41 13 0.04
42 5 0.01
43 12 0.03
44 192 0.53
45 86 0.24
46 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGCCATTTAGTCTGC
Found at i:9833526 original size:173 final size:172
Alignment explanation
Indices: 9833170--9833631 Score: 437
Period size: 173 Copynumber: 2.7 Consensus size: 172
9833160 TTCAATCTAT
* * * * *
9833170 TCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGC-CTCACTGCAACTTCA-GGA
1 TCCACTGCAACTTCAGGGAGAT-AGATTATCGAGCTTTAATCTGCTC-CACTGCAACTTCAGGGA
* *
9833233 GGATAAGACTTGCCTATTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCT
64 -GATAAGACTTGCCTATTTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCT
* * **
9833298 GCTCTCTACAACTTTAGAGAGATAAGATCTAAGGTTTTAATCCGC
128 ACTCTCTACAACTTTAGAGAGATAAGATCTAAGGATGCAATCCGC
9833343 TCCACTGCAACTTCAGGGAGATAGGATTATCGA-CTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATA-GATTATCGAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
9833407 ATAAGACTTGCC-ATCTTCAGTCTGCCCCACTGCAACTTCA-GGAGGGTAAGACTTGCTTACTTA
65 ATAAGACTTGCCTAT-TT-AGTCTGCCCCACTGCAACTTCAGGGA-GATAAGACTAG-ATAC-GA
* * *
9833470 GTCTACTCTACTGCAACTTTAGAGAGATAAGA-CT-A-GATGCGATCTG-
125 -TCTACTCT-CTACAACTTTAGAGAGATAAGATCTAAGGATGCAATCCGC
* * * * * *
9833516 TTCTCTGCAACTTCAGAGAGATA-A-AATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAGATAGATTATC-GA-GCTTTAATCTGCTCCACTGCAACTTCAGGGA
* * * * *
9833579 GATAGGACTATCGGC--TTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGACT
64 GATAAGACT-T-GCCTATTTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACT
9833632 TGCCATCTTC
Statistics
Matches: 244, Mismatches: 29, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
170 3 0.01
171 5 0.02
172 68 0.28
173 124 0.51
174 10 0.04
175 4 0.02
176 9 0.04
177 21 0.09
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (172 bp):
TCCACTGCAACTTCAGGGAGATAGATTATCGAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
TAAGACTTGCCTATTTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTACT
CTCTACAACTTTAGAGAGATAAGATCTAAGGATGCAATCCGC
Found at i:9833552 original size:217 final size:217
Alignment explanation
Indices: 9833170--9833654 Score: 783
Period size: 217 Copynumber: 2.2 Consensus size: 217
9833160 TTCAATCTAT
* * *
9833170 TCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGG
* * *
9833235 ATAAGACTTGCCTATTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGC
66 ATAAGACTTGCCTACTTAGTCTACTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGC
* *
9833300 TCTCTACAACTTTAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
131 TCTCTACAACTTCAGAGAGATAAAATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
*
9833365 AGGATTATCGACTTTAATCTGC
196 AGGACTATCGACTTTAATCTGC
9833387 TCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGG
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGG
* * * * *
9833452 GTAAGACTTGCTTACTTAGTCTACTCTACTGCAACTTTAGAGAGATAAGACTAGATGCGATCTGT
66 ATAAGACTTGCCTACTTAGTCTACTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGC
* *
9833517 TCTCTGCAACTTCAGAGAGATAAAATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
131 TCTCTACAACTTCAGAGAGATAAAATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
*
9833582 AGGACTATCGGCTTTAATCTGC
196 AGGACTATCGACTTTAATCTGC
* *
9833604 TCCACTGCAACTTTAGGGAGATAAGACTTGCCATCTTC-GATCTGCTCCACT
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG-TCTGCCCCACT
9833655 ACTGCTTAGG
Statistics
Matches: 248, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
216 1 0.00
217 247 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (217 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGG
ATAAGACTTGCCTACTTAGTCTACTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGC
TCTCTACAACTTCAGAGAGATAAAATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
AGGACTATCGACTTTAATCTGC
Found at i:9850097 original size:20 final size:19
Alignment explanation
Indices: 9850048--9850098 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
9850038 GAAAATAAAG
9850048 AAAAATATACAAATATATAT
1 AAAAATATA-AAATATATAT
* *
9850068 AAATATTATAAAATATGTATT
1 AAA-AATATAAAATATATA-T
9850089 AAAAATATAA
1 AAAAATATAA
9850099 GTATATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAATATAAAATATATAT
Found at i:9850342 original size:2 final size:2
Alignment explanation
Indices: 9850337--9850374 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
9850327 TAAAAACTGC
*
9850337 AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9850375 CACATAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9850412 original size:3 final size:3
Alignment explanation
Indices: 9850404--9850456 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
9850394 TGAATATAGA
* * * *
9850404 AAT AAT AAT AGT AAT AAT GAC AAT ACAT AA- AAT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
9850449 AAT AAT AA
1 AAT AAT AA
9850457 CAAAAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:9856432 original size:14 final size:14
Alignment explanation
Indices: 9856413--9856445 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
9856403 CTACCTCCGT
9856413 CCTCCACCGATCCA
1 CCTCCACCGATCCA
*
9856427 CCTCCACCGGTCCA
1 CCTCCACCGATCCA
9856441 CCTCC
1 CCTCC
9856446 GGTCCTTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.61, G:0.09, T:0.15
Consensus pattern (14 bp):
CCTCCACCGATCCA
Found at i:9858540 original size:35 final size:36
Alignment explanation
Indices: 9858492--9858568 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 36
9858482 ATTTGTTAGA
* *
9858492 TATTGATTATGTTTTAACCTTTTTGGATATTGAATT
1 TATTGATTATGTTTTAACCTTGTTGGATATTGAAAT
*
9858528 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAAAT
1 TATTGATTATGTTTTAACCTTGTTGGATATTGAAAT
9858563 TATTGA
1 TATTGA
9858569 CAATGACAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 32 0.86
36 5 0.14
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (36 bp):
TATTGATTATGTTTTAACCTTGTTGGATATTGAAAT
Found at i:9859899 original size:14 final size:15
Alignment explanation
Indices: 9859877--9859953 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
9859867 CAATCAAACA
9859877 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
9859891 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
9859906 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
9859926 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
*
9859940 CCGGAAAA-CATTTT
1 CCAGAAAATCATTTT
9859954 ACTGCCAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 23 0.45
15 14 0.27
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:9859918 original size:20 final size:20
Alignment explanation
Indices: 9859893--9859932 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9859883 AATATTTTCC
*
9859893 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
9859913 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
9859933 TCATTTTCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:9863851 original size:182 final size:182
Alignment explanation
Indices: 9863519--9863855 Score: 451
Period size: 182 Copynumber: 1.9 Consensus size: 182
9863509 ACCTCTACTT
* * * * * *
9863519 GAGGGAGCTGATTGGAGTGGATGAGAGACAAGATGAACTTTACTACTTCCAGCAAGTATCTACAG
1 GAGGGAGCTAATTGGAGCGAATGAGAGACAAGATAAACTTTACTACCTCCAGCAAGTATCGACAG
* * * * * * * * *
9863584 TCAAAGCGGTTTCTATTGAAGCTTTATCCTCTTTGGAACTTTGGTGTAGAAGATTGGGTCAGCCT
66 TCAAAGAGATTTCTATTAAAGCTTCATCCTCTTTGGAACTTTAGTATAGAAGATAGGATCACCCT
*
9863649 TCCGAGAAAGTGCCGAAGTTACTTCCCTATGAGCTATTTAGGACCTCCAATC
131 TCCGAGAAACTGCCGAAGTTACTTCCCTATGAGCTATTTAGGACCTCCAATC
*** *
9863701 GAGGGAGCTAATTGGAGCGAATGAGAGATGGGATAAACTTTACTACCTCCAGCAAGTTTCGACAG
1 GAGGGAGCTAATTGGAGCGAATGAGAGACAAGATAAACTTTACTACCTCCAGCAAGTATCGACAG
* *
9863766 TCAAAGAGATTTTTATTAAAGCTTCATCCTCTTTTGAACTTTAGTATAGAAGATAGGATCACCCT
66 TCAAAGAGATTTCTATTAAAGCTTCATCCTCTTTGGAACTTTAGTATAGAAGATAGGATCACCCT
*
9863831 TCCGAGAAACTAG-TGAAGTTACTTC
131 TCCGAGAAACT-GCCGAAGTTACTTC
9863856 ATTATGTTAG
Statistics
Matches: 131, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
182 130 0.99
183 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (182 bp):
GAGGGAGCTAATTGGAGCGAATGAGAGACAAGATAAACTTTACTACCTCCAGCAAGTATCGACAG
TCAAAGAGATTTCTATTAAAGCTTCATCCTCTTTGGAACTTTAGTATAGAAGATAGGATCACCCT
TCCGAGAAACTGCCGAAGTTACTTCCCTATGAGCTATTTAGGACCTCCAATC
Found at i:9871357 original size:11 final size:11
Alignment explanation
Indices: 9871341--9871366 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9871331 TCATTAGATC
9871341 TTATTGTTTTA
1 TTATTGTTTTA
9871352 TTATTGTTTTA
1 TTATTGTTTTA
9871363 TTAT
1 TTAT
9871367 GAATTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (11 bp):
TTATTGTTTTA
Found at i:9871645 original size:26 final size:26
Alignment explanation
Indices: 9871580--9871635 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
9871570 CTCTTTTGAG
* *
9871580 TTAATAAATTCTCTTTGAGTTTTTCTT
1 TTAAGAAATTTTC-TTGAGTTTTTCTT
9871607 TTCAAGAAATTTTCTTGAG-TTTTCTT
1 TT-AAGAAATTTTCTTGAGTTTTTCTT
9871633 TTA
1 TTA
9871636 GAAGAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 9 0.35
27 7 0.27
28 9 0.35
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (26 bp):
TTAAGAAATTTTCTTGAGTTTTTCTT
Found at i:9873065 original size:24 final size:24
Alignment explanation
Indices: 9873038--9873090 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
9873028 ACTTGTAATT
*
9873038 TAAATA-AGTTATTCTAATAAATAC
1 TAAATATA-TTATACTAATAAATAC
9873062 TAAATATATTATACTAATAAATAC
1 TAAATATATTATACTAATAAATAC
9873086 TAAAT
1 TAAAT
9873091 CTTCTAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAATATATTATACTAATAAATAC
Found at i:9874045 original size:44 final size:44
Alignment explanation
Indices: 9873994--9874078 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
9873984 GTAAGTCAAA
9873994 TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAAAATT
1 TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAAAATT
* * * *
9874038 TAATATTAAAATAACTTATACTAATTAGAGTTTGAGTGAAA
1 TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAAA
9874079 CTAAAAACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAAAATT
Found at i:9874709 original size:43 final size:43
Alignment explanation
Indices: 9874508--9874689 Score: 283
Period size: 43 Copynumber: 4.2 Consensus size: 43
9874498 TAGCAAAAAA
* * * * *
9874508 CGCCGCTAAAGGTCACGGTATTTAGCGGCGTTTGTGACTTGAG
1 CGCCGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTGACTTAAG
9874551 CGCCGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTGACTTAAG
1 CGCCGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTGACTTAAG
* * * *
9874594 CGTCACTAAAAGTTAAGCTCTTTAGCGACGTTTGTGACTTAAG
1 CGCCGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTGACTTAAG
9874637 CGCCGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTGACTTAAG
1 CGCCGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTGACTTAAG
9874680 CGCCGCTAAA
1 CGCCGCTAAA
9874690 GGTTATTATC
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 126 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.28
Consensus pattern (43 bp):
CGCCGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTGACTTAAG
Found at i:9874732 original size:86 final size:86
Alignment explanation
Indices: 9874551--9874732 Score: 240
Period size: 86 Copynumber: 2.1 Consensus size: 86
9874541 GTGACTTGAG
* *
9874551 CGCCGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTGACTTAAGCGTCACTAAAAGTTAAGCTCTT
1 CGCCGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTGACTTAAGCGCCACTAAAAGTTAAGATCTT
* ** *
9874616 TAGCGACGTTTGTGACTTAAG
66 TAGCGACGCTTGTGACAAAAA
* * **
9874637 CGCCGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTGACTTAAGCGCCGCTAAAGGTTATTATCTT
1 CGCCGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTGACTTAAGCGCCACTAAAAGTTAAGATCTT
*
9874702 TAGCGGCGCTT-TGACCAAAAA
66 TAGCGACGCTTGTGA-CAAAAA
*
9874723 CGCCACTAAA
1 CGCCGCTAAA
9874733 GAGCTTGACT
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 3 0.04
86 80 0.96
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (86 bp):
CGCCGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTGACTTAAGCGCCACTAAAAGTTAAGATCTT
TAGCGACGCTTGTGACAAAAA
Found at i:9874767 original size:43 final size:41
Alignment explanation
Indices: 9874699--9874855 Score: 136
Period size: 43 Copynumber: 3.7 Consensus size: 41
9874689 AGGTTATTAT
* * *
9874699 CTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGAGCTTGAC
1 CTTTAGCGGCGC-TTCACTACAAACGCCACTAAAGA-CTTGAC
* * * *
9874742 TTTTAGCGGCGCTTCCACTACAAACGCCGCAAAATACATT-AGC
1 CTTTAGCGGCGCTT-CACTACAAACGCCACTAAAGAC-TTGA-C
* * *
9874785 CTATAGCGGCGCTTGATTTACAAACGCCACTAAAGACCTTGAC
1 CTTTAGCGGCGCTTCA-CTACAAACGCCACTAAAGA-CTTGAC
*
9874828 CTTTAGCGGCGCTTCAATCACAAACGCC
1 CTTTAGCGGCGCTTCACT-ACAAACGCC
9874856 GCTGACTTTT
Statistics
Matches: 90, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
42 6 0.07
43 82 0.91
44 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (41 bp):
CTTTAGCGGCGCTTCACTACAAACGCCACTAAAGACTTGAC
Found at i:9874770 original size:129 final size:129
Alignment explanation
Indices: 9874505--9874775 Score: 273
Period size: 129 Copynumber: 2.1 Consensus size: 129
9874495 TTATAGCAAA
* * * * *
9874505 AAACGCCGCTAAAGGTCACGGTATTTAGCGGCGTTTGTGACTTGAGCGCCGCTAAAAGTCAAGCT
1 AAACGCCGCTAAAAGTCAAGCTATTTAGCGGCGTTTGTGACTTAAGCGCCGCTAAAAGTCAAGAT
* ** * * * ** *
9874570 CTTTAGCGGCGTTTGTGACTTAAGCGTCACTAAAAGTTAAGCTCTTTAGCGACGTTTGTGACTT
66 CTTTAGCGGCGCTTGTGACAAAAACGCCACTAAAAGTTAAGCTCTTTAGCGACGCTTGCCACTC
* * * * **
9874634 AAGCGCCGCTAAAAGTCAAGCTCTTTAGCGGCGTTTGTGACTTAAGCGCCGCTAAAGGTTATTAT
1 AAACGCCGCTAAAAGTCAAGCTATTTAGCGGCGTTTGTGACTTAAGCGCCGCTAAAAGTCAAGAT
* *
9874699 CTTTAGCGGCGCTT-TGACCAAAAACGCCACTAAAGAGCTTGA-CT-TTTAGCGGCGCTT-CCAC
66 CTTTAGCGGCGCTTGTGA-CAAAAACGCCACTAAA-AG-TTAAGCTCTTTAGCGACGCTTGCCAC
9874760 TAC
128 T-C
9874763 AAACGCCGC-AAAA
1 AAACGCCGCTAAAA
9874776 TACATTAGCC
Statistics
Matches: 115, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
128 10 0.09
129 98 0.85
130 4 0.03
131 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (129 bp):
AAACGCCGCTAAAAGTCAAGCTATTTAGCGGCGTTTGTGACTTAAGCGCCGCTAAAAGTCAAGAT
CTTTAGCGGCGCTTGTGACAAAAACGCCACTAAAAGTTAAGCTCTTTAGCGACGCTTGCCACTC
Found at i:9877654 original size:15 final size:15
Alignment explanation
Indices: 9877591--9877654 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
9877581 ATCATTTTCT
9877591 TTATTATTT-TAATGTA
1 TTATTATTTAT-AT-TA
*
9877607 TTATCATTTATTATTA
1 TTATTATTTA-TATTA
* *
9877623 CTATTATTTATAATA
1 TTATTATTTATATTA
*
9877638 TTATTATTTATCTTA
1 TTATTATTTATATTA
9877653 TT
1 TT
9877655 TTTACTTATC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 18 0.46
16 18 0.46
17 2 0.05
18 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (15 bp):
TTATTATTTATATTA
Found at i:9877926 original size:24 final size:23
Alignment explanation
Indices: 9877898--9877951 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
9877888 TATATTATCT
*
9877898 TATTTTATTTTTATA-ATGCACATA
1 TATTTTATTTATATACAT--ACATA
*
9877922 TATTTT-TTTATCTACATACATA
1 TATTTTATTTATATACATACATA
9877944 TATTTTAT
1 TATTTTAT
9877952 GTTTCGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 11 0.42
23 7 0.27
24 8 0.31
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTTTATTTATATACATACATA
Found at i:9883454 original size:13 final size:14
Alignment explanation
Indices: 9883436--9883470 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
9883426 ACAAAAAAAG
9883436 AGATGAAAAACGAA
1 AGATGAAAAACGAA
*
9883450 A-ATGAAAAATGAA
1 AGATGAAAAACGAA
9883463 AGATGAAA
1 AGATGAAA
9883471 TAGTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.66, C:0.03, G:0.20, T:0.11
Consensus pattern (14 bp):
AGATGAAAAACGAA
Found at i:9884788 original size:44 final size:44
Alignment explanation
Indices: 9884725--9885430 Score: 267
Period size: 43 Copynumber: 16.7 Consensus size: 44
9884715 AAGCCACCAG
*
9884725 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAATATGTTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGA
*
9884769 TCCTATCTCTCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGA
* * * ***
9884813 TCCTATCGCCCTAAGCACTAGTGGAGCAGATC---GCA-CCAAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAG-ATGTTAGA
* * **
9884853 TCTTATCTCCCTAAGCAGTAGTGGAGCA-GACAAA-A-GAAACCGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTA--GA
* * * * * * **
9884896 TCTTATCTCCCTAAACAGTAGTGAAGTAGATC--ACAT-CAAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGA
* * ****
9884936 TCTTATCTCCCTAAGCAGTAGTGGAGCA-GACGAAAGA-AACCGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTC-AAAGATGTTAGA
* * * * *
9884979 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATC--ACAT-TAAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGA
* * * ****
9885019 TCTTATCTCTCTAAGCAGTAGTGGAGCA-GACGAAAGA-AACCGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTC-AAAGATGTTAGA
* * ****
9885062 TCTTATCTCCCTAAGCAGTAGTGGAGCA-GACGAAAGA-AACCGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTC-AAAGATGTTAGA
* * * * **
9885105 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATC--ACAT-CAAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGA
* * ****
9885145 TCTTATCTCCCTAAGCAGTAGTGGAGCA-GACGAAAGA-AACCGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTC-AAAGATGTTAGA
* * * * * * **
9885188 TCTTATCTCCCTAAGTAGTAGTAGAGTAGATC--ACAT-CAAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGA
* * * ****
9885228 TCTTATCTCTCTAAGCAGTAGTGGAGCA-GACGAAAGA-AACCGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTC-AAAGATGTTAGA
* * * * ** *****
9885271 TCTTATCTCCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGA
* * * * *
9885314 TCTTATCTCCCTAAGGAGTAGTGGAGCAAGTCGAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGA
* *
9885358 CCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGA
* * *
9885402 TCCTATCTCTCTAAGCAATAGTAGAGCAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAG
9885431 ATCGCATCCA
Statistics
Matches: 512, Mismatches: 111, Indels: 78
0.73 0.16 0.11
Matches are distributed among these distances:
39 5 0.01
40 130 0.25
41 13 0.03
42 15 0.03
43 208 0.41
44 141 0.28
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGA
Found at i:9884945 original size:83 final size:83
Alignment explanation
Indices: 9884728--9885453 Score: 489
Period size: 83 Copynumber: 8.6 Consensus size: 83
9884718 CCACCAGTCC
* * * *
9884728 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAT-ATGTTAGATCCTATCTCTCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCA----AG-TCTTATCTCCCTAAGCAGTAGTG
* ** *
9884792 GAGCAGGTCAAAGATGTTA--GATCC
61 GAGCA-GACAAA-A-GAAACCGATCT
* * * *
9884816 TATCGCCCTAAGCACTAGTGGAGCAGATCGCACCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCA
9884881 GACAAAAGAAACCGATCT
66 GACAAAAGAAACCGATCT
* * *
9884899 TATCTCCCTAAACAGTAGTGAAGTAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCA
*
9884964 GACGAAAGAAACCGATCT
66 GACAAAAGAAACCGATCT
* * *
9884982 TATCTCCCTAAGCAGTAGTGGAGTAGATCACATTAAGTCTTATCTCTCTAAGCAGTAGTGGAGCA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCA
*
9885047 GACGAAAGAAACCGATCT
66 GACAAAAGAAACCGATCT
* **
9885065 TATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATCAA--G-TCTTATCTCCCTAAGCAGTAGTGG
* * **
9885129 AGTAGATC-ACATCAA--G-TCT
62 AGCAGA-CAAAAGAAACCGATCT
* ** * *
9885148 TATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCGATCTTATCTCCCTAAGTAGTAGTAG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATCAA--G-TCTTATCTCCCTAAGCAGTAGTGG
* * **
9885212 AGTAGATC-ACATCAA--G-TCT
62 AGCAGA-CAAAAGAAACCGATCT
* * ** *
9885231 TATCTCTCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATCAA--G-TCTTATCTCCCTAAGCAGTAGTGG
* *** **
9885295 AGTAGATTTAAGCCACC-AGTCT
62 AGCAGACAAAAGAAACCGA-TCT
* * ** * *
9885317 TATCTCCCTAAGGAGTAGTGGAGCA-AGTCGAAGATGGTAGACCCTATCTCCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGA-TC--ACAT-CAAG-TCTTATCTCCCTAAGCAGTAGTG
* ** *
9885381 GAGCAGGTCAAAGATGGTA--GATCC
61 GAGCA-GACAAA-A-GAAACCGATCT
* * * * *
9885405 TATCTCTCTAAGCAATAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
9885454 GAAGTTACGA
Statistics
Matches: 544, Mismatches: 72, Indels: 48
0.82 0.11 0.07
Matches are distributed among these distances:
81 2 0.00
82 2 0.00
83 346 0.64
84 37 0.07
85 6 0.01
86 60 0.11
87 28 0.05
88 56 0.10
89 5 0.01
90 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (83 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCA
GACAAAAGAAACCGATCT
Found at i:9885004 original size:126 final size:123
Alignment explanation
Indices: 9884728--9885394 Score: 537
Period size: 126 Copynumber: 5.3 Consensus size: 123
9884718 CCACCAGTCC
* ** * * *
9884728 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAATATGTTAGATCCTATCTCTCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-AA-A-GAAAG-TCTTATCTCCCTAAGCAGTAGTGA
* * * * * * **
9884793 AGCAGGTC-AAAGATGTTA-GATCCTATCGCCCTAAGCACTAGTGGAGCAGATCG-CACCAAG-T
62 AGCA-GACGAAAGA---AACGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAAGAT
9884854 CT
122 CT
*
9884856 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAAGAAACCGATCTTATCTCCCTAAACAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-AAAGAAA--G-TCTTATCTCCCTAAGCAGTAGTGA
* * **
9884920 AGTAGATC-ACATCAA-G-TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCT
62 AGCAGA-CGAAAGAAACGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAA--GATCT
* * ** * *
9884982 TATCTCCCTAAGCAGTAGTGGAGTAGATCACATTAAGTCTTATCTCTCTAAGCAGTAGTGGAGCA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAAAGTCTTATCTCCCTAAGCAGTAGTGAAGCA
9885047 GACGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCT
66 GACGAAAGAAA-CGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAA--GATCT
* * ** *
9885108 TATCTCCCTAAGCAGTAGTGGAGTAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAAAGTCTTATCTCCCTAAGCAGTAGTGAAGCA
* * * * **
9885173 GACGAAAGAAACCGATCTTATCTCCCTAAGTAGTAGTAGAGTAGATC-ACATCAAG-TCT
66 GACGAAAGAAA-CGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAAGATCT
*
9885231 TATCTCTCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-AAAGAAA--G-TCTTATCTCCCTAAGCAGTAGTGA
* *** ** * * * ** *
9885295 AGTAGATTTAAGCCACCAGTCTTATCTCCCTAAGGAGTAGTGGAGCAAGTCGAAGATGGTAGACC
62 AGCAGACGAAAGAAACGA-TCTTATCTCCCTAAGCAGTAGTGGAGC-AGACGAA-A-GAAAGATC
*
9885360 C
123 T
*
9885361 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA
9885395 TGGTAGATCC
Statistics
Matches: 452, Mismatches: 63, Indels: 46
0.81 0.11 0.08
Matches are distributed among these distances:
122 4 0.01
123 92 0.20
124 4 0.01
125 7 0.02
126 247 0.55
127 37 0.08
128 27 0.06
129 2 0.00
130 31 0.07
131 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (123 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAAAGTCTTATCTCCCTAAGCAGTAGTGAAGCA
GACGAAAGAAACGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAGATCT
Found at i:9885320 original size:209 final size:209
Alignment explanation
Indices: 9884853--9885339 Score: 832
Period size: 209 Copynumber: 2.3 Consensus size: 209
9884843 TCGCACCAAG
*
9884853 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAACAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGT
*
9884918 GAAGTAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTT
66 GGAGTAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTT
* *
9884983 ATCTCCCTAAGCAGTAGTGGAGTAGATCACATTAAGTCTTATCTCTCTAAGCAGTAGTGGAGCAG
131 ATCTCCCTAAGCAGTAGTAGAGTAGATCACATCAAGTCTTATCTCTCTAAGCAGTAGTGGAGCAG
9885048 ACGAAAGAAACCGA
196 ACGAAAGAAACCGA
*
9885062 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATCTCCCTAAGCAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGT
9885127 GGAGTAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTT
66 GGAGTAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTT
*
9885192 ATCTCCCTAAGTAGTAGTAGAGTAGATCACATCAAGTCTTATCTCTCTAAGCAGTAGTGGAGCAG
131 ATCTCCCTAAGCAGTAGTAGAGTAGATCACATCAAGTCTTATCTCTCTAAGCAGTAGTGGAGCAG
9885257 ACGAAAGAAACCGA
196 ACGAAAGAAACCGA
* * *** ** *
9885271 TCTTATCTCCCTAAGCAGTAGTGAAGTAGATTTAAGCCACC-AGTCTTATCTCCCTAAGGAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCGA-TCTTATCTCCCTAAGCAGTAG
9885335 TGGAG
65 TGGAG
9885340 CAAGTCGAAG
Statistics
Matches: 263, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
208 1 0.00
209 262 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (209 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCGATCTTATCTCCCTAAGCAGTAGT
GGAGTAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTT
ATCTCCCTAAGCAGTAGTAGAGTAGATCACATCAAGTCTTATCTCTCTAAGCAGTAGTGGAGCAG
ACGAAAGAAACCGA
Found at i:9887100 original size:15 final size:15
Alignment explanation
Indices: 9887037--9887100 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
9887027 ATCATTTTCT
9887037 TTATTATTT-TAATGTA
1 TTATTATTTAT-AT-TA
*
9887053 TTATCATTTATTATTA
1 TTATTATTTA-TATTA
* *
9887069 CTATTATTTATAATA
1 TTATTATTTATATTA
*
9887084 TTATTATTTATCTTA
1 TTATTATTTATATTA
9887099 TT
1 TT
9887101 TTTACTTATC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 18 0.46
16 18 0.46
17 2 0.05
18 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (15 bp):
TTATTATTTATATTA
Found at i:9889816 original size:16 final size:16
Alignment explanation
Indices: 9889789--9889842 Score: 81
Period size: 16 Copynumber: 3.3 Consensus size: 16
9889779 ATGTAACTTA
9889789 TTATGTTATTATGTAAG
1 TTATG-TATTATGTAAG
9889806 TTATGTATTATGTAAG
1 TTATGTATTATGTAAG
* *
9889822 TTAAGTATTATATAAG
1 TTATGTATTATGTAAG
9889838 TTATG
1 TTATG
9889843 CAACTCCGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 29 0.85
17 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (16 bp):
TTATGTATTATGTAAG
Found at i:9889958 original size:19 final size:18
Alignment explanation
Indices: 9889934--9890010 Score: 62
Period size: 19 Copynumber: 4.5 Consensus size: 18
9889924 TTACGTAACT
9889934 TATTATGTAATAAGTTATG
1 TATTATGT-ATAAGTTATG
9889953 TATTATG--TAAG-T-T-
1 TATTATGTATAAGTTATG
9889966 TA-TA--TATAAGTTATGTG
1 TATTATGTATAAGTTA--TG
9889983 TATTATGTCATAAGTTATG
1 TATTATGT-ATAAGTTATG
9890002 TATTATGTA
1 TATTATGTA
9890011 AGTTTATATA
Statistics
Matches: 47, Mismatches: 0, Indels: 23
0.67 0.00 0.33
Matches are distributed among these distances:
12 6 0.13
13 3 0.06
14 1 0.02
15 1 0.02
16 5 0.11
17 2 0.04
18 3 0.06
19 17 0.36
20 1 0.02
21 8 0.17
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (18 bp):
TATTATGTATAAGTTATG
Found at i:9889972 original size:52 final size:49
Alignment explanation
Indices: 9889903--9890026 Score: 176
Period size: 49 Copynumber: 2.5 Consensus size: 49
9889893 ATGCAAGTTG
* * *
9889903 TTATATAAGTTTCTATATAAGTTACGTAACTTATTATGTAATAAGTTATGTA
1 TTATGTAAGTTTATATATAAGTTACGT---GTATTATGTAATAAGTTATGTA
* *
9889955 TTATGTAAGTTTATATATAAGTTATGTGTATTATGTCATAAGTTATGTA
1 TTATGTAAGTTTATATATAAGTTACGTGTATTATGTAATAAGTTATGTA
9890004 TTATGTAAGTTTATATATAAGTT
1 TTATGTAAGTTTATATATAAGTT
9890027 GTTATATAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
49 43 0.64
52 24 0.36
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.48
Consensus pattern (49 bp):
TTATGTAAGTTTATATATAAGTTACGTGTATTATGTAATAAGTTATGTA
Found at i:9889981 original size:21 final size:22
Alignment explanation
Indices: 9889955--9890003 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
9889945 AAGTTATGTA
9889955 TTATGTAAGT-TTATAT-ATAAG
1 TTATGT-AGTATTATATCATAAG
*
9889976 TTATGT-GTATTATGTCATAAG
1 TTATGTAGTATTATATCATAAG
9889997 TTATGTA
1 TTATGTA
9890004 TTATGTAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 2 0.08
20 5 0.21
21 17 0.71
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TTATGTAGTATTATATCATAAG
Found at i:9891891 original size:12 final size:12
Alignment explanation
Indices: 9891854--9891893 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
9891844 CAAACAGTTT
*
9891854 CAAACTTATGAA
1 CAAAATTATGAA
9891866 CAAAATTA-GTAA
1 CAAAATTATG-AA
9891878 CAAAATTATGAA
1 CAAAATTATGAA
9891890 CAAA
1 CAAA
9891894 TAGCATTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.23
Consensus pattern (12 bp):
CAAAATTATGAA
Found at i:9892390 original size:11 final size:11
Alignment explanation
Indices: 9892358--9892414 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
9892348 TTCTAGAATT
*
9892358 GGGGGATTTTG
1 GGGGGAATTTG
*
9892369 GGGGGAAAATTCG
1 GGGGG--AATTTG
9892382 GGGGGAATTTTG
1 GGGGGAA-TTTG
**
9892394 GGGATAATTTG
1 GGGGGAATTTG
9892405 GGGGGAATTT
1 GGGGGAATTT
9892415 CGGCTAAGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
11 19 0.53
12 8 0.22
13 9 0.25
ACGTcount: A:0.21, C:0.02, G:0.47, T:0.30
Consensus pattern (11 bp):
GGGGGAATTTG
Found at i:9892396 original size:23 final size:23
Alignment explanation
Indices: 9892370--9892414 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9892360 GGGATTTTGG
9892370 GGGGAAAATTCGGGGGGAATTTT
1 GGGGAAAATTCGGGGGGAATTTT
* *
9892393 GGGGATAATTTGGGGGGAATTT
1 GGGGAAAATTCGGGGGGAATTT
9892415 CGGCTAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.44, T:0.29
Consensus pattern (23 bp):
GGGGAAAATTCGGGGGGAATTTT
Found at i:9893383 original size:7 final size:7
Alignment explanation
Indices: 9893311--9893380 Score: 70
Period size: 7 Copynumber: 9.9 Consensus size: 7
9893301 AAACCTTAAT
9893311 CCCAAAC
1 CCCAAAC
*
9893318 CCCAAAAA
1 CCC-AAAC
9893326 CCCAAAC
1 CCCAAAC
* *
9893333 CCTAAAT
1 CCCAAAC
*
9893340 CACAAAC
1 CCCAAAC
9893347 CCCAAAC
1 CCCAAAC
9893354 CCCAAAC
1 CCCAAAC
9893361 CACC-AAC
1 C-CCAAAC
*
9893368 CCCAAAT
1 CCCAAAC
9893375 CCCAAA
1 CCCAAA
9893381 TCCTTAACCC
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
6 2 0.04
7 41 0.80
8 8 0.16
ACGTcount: A:0.47, C:0.49, G:0.00, T:0.04
Consensus pattern (7 bp):
CCCAAAC
Found at i:9894350 original size:84 final size:84
Alignment explanation
Indices: 9894260--9894419 Score: 311
Period size: 84 Copynumber: 1.9 Consensus size: 84
9894250 CTTTAAAACC
*
9894260 AAACGCCGCTAAATACCTTAACATTAGTGGCGATTGACCAAAACACGCCACTATCACCCCCAACC
1 AAACGCCACTAAATACCTTAACATTAGTGGCGATTGACCAAAACACGCCACTATCACCCCCAACC
9894325 AATAGCGGCGCTAAGATAG
66 AATAGCGGCGCTAAGATAG
9894344 AAACGCCACTAAATACCTTAACATTAGTGGCGATTGACCAAAACACGCCACTATCACCCCCAACC
1 AAACGCCACTAAATACCTTAACATTAGTGGCGATTGACCAAAACACGCCACTATCACCCCCAACC
9894409 AATAGCGGCGC
66 AATAGCGGCGC
9894420 ATACATAAAA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.36, C:0.33, G:0.16, T:0.16
Consensus pattern (84 bp):
AAACGCCACTAAATACCTTAACATTAGTGGCGATTGACCAAAACACGCCACTATCACCCCCAACC
AATAGCGGCGCTAAGATAG
Found at i:9894392 original size:42 final size:42
Alignment explanation
Indices: 9894262--9894396 Score: 125
Period size: 42 Copynumber: 3.2 Consensus size: 42
9894252 TTAAAACCAA
*
9894262 ACGCCGCTAAATACCTTAACATTAGTGGCGATTGACCAAAAC
1 ACGCCACTAAATACCTTAACATTAGTGGCGATTGACCAAAAC
** * * * * * *
9894304 ACGCCACT--ATCACCCCCAACCAATAGCGGCGCTAAGA-TAGAA-
1 ACGCCACTAAAT-A-CCTTAA-CATTAGTGGCGAT-TGACCAAAAC
9894346 ACGCCACTAAATACCTTAACATTAGTGGCGATTGACCAAAAC
1 ACGCCACTAAATACCTTAACATTAGTGGCGATTGACCAAAAC
9894388 ACGCCACTA
1 ACGCCACTA
9894397 TCACCCCCAA
Statistics
Matches: 68, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
40 4 0.06
41 14 0.21
42 32 0.47
43 14 0.21
44 4 0.06
ACGTcount: A:0.36, C:0.30, G:0.16, T:0.18
Consensus pattern (42 bp):
ACGCCACTAAATACCTTAACATTAGTGGCGATTGACCAAAAC
Found at i:9894434 original size:42 final size:43
Alignment explanation
Indices: 9894299--9894435 Score: 108
Period size: 42 Copynumber: 3.2 Consensus size: 43
9894289 GCGATTGACC
*
9894299 AAAACACGCCACTATCACCCCCAACCAATAGCGGCGC-TAAGAT
1 AAAA-ACGCCACTATCACCCCCAACCAATAGCGGCGCATAACAT
* ** * * *
9894342 AGAAACGCCACTAAAT-A-CCTTAA-CATTAGTGGCG-ATTGACCA-
1 AAAAACGCCACT--ATCACCCCCAACCAATAGCGGCGCA-T-AACAT
*
9894384 AAACACGCCACTATCACCCCCAACCAATAGCGGCGCAT-ACAT
1 AAAAACGCCACTATCACCCCCAACCAATAGCGGCGCATAACAT
9894426 AAAAACGCCA
1 AAAAACGCCA
9894436 GGAAAATTCC
Statistics
Matches: 69, Mismatches: 15, Indels: 21
0.66 0.14 0.20
Matches are distributed among these distances:
40 2 0.03
41 12 0.17
42 36 0.52
43 16 0.23
44 3 0.04
ACGTcount: A:0.39, C:0.34, G:0.14, T:0.14
Consensus pattern (43 bp):
AAAAACGCCACTATCACCCCCAACCAATAGCGGCGCATAACAT
Found at i:9894451 original size:84 final size:84
Alignment explanation
Indices: 9894260--9894459 Score: 278
Period size: 84 Copynumber: 2.4 Consensus size: 84
9894250 CTTTAAAACC
* * *
9894260 AAACGCCGCTAAATACCTTAACATTAGTGGCGATTGACCAAAACACGCCACTATCACCCCCAACC
1 AAACGCCACAAAATACCTCAACATTAGTGGCGATTGACCAAAACACGCCACTATCACCCCCAACC
* *
9894325 AATAGCGGCGCTAAGATAG
66 AATAGCGGCGCTAACATAA
* *
9894344 AAACGCCACTAAATACCTTAACATTAGTGGCGATTGACCAAAACACGCCACTATCACCCCCAACC
1 AAACGCCACAAAATACCTCAACATTAGTGGCGATTGACCAAAACACGCCACTATCACCCCCAACC
9894409 AATAGCGGCGC-ATACATAA
66 AATAGCGGCGCTA-ACATAA
* * *
9894428 AAACGCCAGGAAAATTCC-CAACATTAGCGGCG
1 AAACGCCA-CAAAATACCTCAACATTAGTGGCG
9894460 CTAGGATAGA
Statistics
Matches: 106, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
83 1 0.01
84 99 0.93
85 6 0.06
ACGTcount: A:0.37, C:0.31, G:0.16, T:0.16
Consensus pattern (84 bp):
AAACGCCACAAAATACCTCAACATTAGTGGCGATTGACCAAAACACGCCACTATCACCCCCAACC
AATAGCGGCGCTAACATAA
Found at i:9894469 original size:125 final size:126
Alignment explanation
Indices: 9894318--9894544 Score: 350
Period size: 125 Copynumber: 1.8 Consensus size: 126
9894308 CACTATCACC
9894318 CCCAACCAATAGCGGCGCTAAGATAGAAACGCCACTAAATACCTTAACATTAGTGGCGATTGACC
1 CCCAACCAATAGCGGCGCTAAGATAGAAACGCCACTAAATACCTTAACATTAGTGGCGATTGACC
*
9894383 A-AAACACGCCACTATCACCCCCAACCAATAGCGGCGCATACATAAAAACGCCAGGAAAATT
66 AGAAA-ACGCCACTATCACCACCAACCAATAGCGGCGCATACATAAAAACGCCAGGAAAATT
* * * * * *
9894444 CCCAA-CATTAGCGGCGCTAGGATAGAAACGCCGCTAAATACCTTAATATTAGTGGCGATTTACT
1 CCCAACCAATAGCGGCGCTAAGATAGAAACGCCACTAAATACCTTAACATTAGTGGCGATTGACC
* *
9894508 AGAAAACGCCACTATCACCACCAACCGATAGTGGCGC
66 AGAAAACGCCACTATCACCACCAACCAATAGCGGCGC
9894545 TAAGAGAAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
125 83 0.91
126 8 0.09
ACGTcount: A:0.36, C:0.29, G:0.18, T:0.17
Consensus pattern (126 bp):
CCCAACCAATAGCGGCGCTAAGATAGAAACGCCACTAAATACCTTAACATTAGTGGCGATTGACC
AGAAAACGCCACTATCACCACCAACCAATAGCGGCGCATACATAAAAACGCCAGGAAAATT
Found at i:9894933 original size:40 final size:39
Alignment explanation
Indices: 9894848--9894946 Score: 92
Period size: 40 Copynumber: 2.5 Consensus size: 39
9894838 CCGTACCATT
* ** *
9894848 TTTTTTGCGGCGTTTTATGTGAAAACGCCGCTACTGCATAT
1 TTTTTTGCGGCG-TTTCT-TGAAAACGCCGCTAAAGCATAG
*
9894889 TTTTTTGCGGCGTTCTCTTGAAAACGCTGCTAAAG-ATCAG
1 TTTTTTGCGGCGTT-TCTTGAAAACGCCGCTAAAGCAT-AG
**
9894929 TTTTTACCGGCGTTTCTT
1 TTTTTTGCGGCGTTTCTT
9894947 ATTAAGCGCC
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
39 6 0.12
40 29 0.59
41 14 0.29
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.40
Consensus pattern (39 bp):
TTTTTTGCGGCGTTTCTTGAAAACGCCGCTAAAGCATAG
Found at i:9894933 original size:41 final size:41
Alignment explanation
Indices: 9894847--9894923 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
9894837 GCCGTACCAT
* **
9894847 TTTTTTTGCGGCGTTTTATGTGAAAACGCCGCTACTGCATA
1 TTTTTTTGCGGCGTTCTATGTGAAAACGCCGCTAAAGCATA
* *
9894888 TTTTTTTGCGGCGTTCTCT-TGAAAACGCTGCTAAAG
1 TTTTTTTGCGGCGTTCTATGTGAAAACGCCGCTAAAG
9894924 ATCAGTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 14 0.45
41 17 0.55
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (41 bp):
TTTTTTTGCGGCGTTCTATGTGAAAACGCCGCTAAAGCATA
Found at i:9901504 original size:23 final size:23
Alignment explanation
Indices: 9901476--9901530 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 23
9901466 ATGTATTATT
*
9901476 ATATATACATACGTATAGTAAAAAA
1 ATATAT-CATACATATA-TAAAAAA
*
9901501 ATATTATTCATACATATATAAAAAT
1 ATA-TA-TCATACATATATAAAAAA
9901526 ATATA
1 ATATA
9901531 AATTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.08
25 12 0.46
26 11 0.42
27 1 0.04
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATATCATACATATATAAAAAA
Found at i:9903333 original size:44 final size:44
Alignment explanation
Indices: 9903237--9903401 Score: 133
Period size: 44 Copynumber: 3.7 Consensus size: 44
9903227 CATCAGTTTG
* * * *
9903237 ATCTGCTCCACTGCAACTTCAGGGACATAGGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGACTTCA
* * *
9903281 AT-TCGCTCCACTACAACTTCAGGGAGATAATAT-TATCGGCTTCA
1 ATCT-GCTCCACTGCAACTTCAGGGAGATAAGATCTAT-GACTTCA
* * * *
9903325 ATCTGCTCCATTGCAACCTCAAGGAGATAAGAT-T-TGCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATG--A-CTTCA
*
9903370 ATCTG-TCCCACTGCAACTTCAGGGGGATAAGA
1 ATCTGCT-CCACTGCAACTTCAGGGAGATAAGA
9903402 CCTGCTTACT
Statistics
Matches: 96, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 59 0.61
45 31 0.32
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGACTTCA
Found at i:9906466 original size:25 final size:25
Alignment explanation
Indices: 9906338--9906478 Score: 94
Period size: 26 Copynumber: 5.6 Consensus size: 25
9906328 GTCCCGATAT
*
9906338 ATGGCTCTTCGTGAGCTTCCTGATTA
1 ATGGCTCTTTG-GAGCTTCCTGATTA
* *
9906364 AAGGCTCTTTGTTAGCTTCCTGATTA
1 ATGGCTCTTTG-GAGCTTCCTGATTA
* ** *
9906390 ATGACTCTCCGAAGCTTCCTGA-T-
1 ATGGCTCTTTGGAGCTTCCTGATTA
* * * *
9906413 ATGGCTCGCTT-GA-ATTTCTGAATA
1 ATGGCTC-TTTGGAGCTTCCTGATTA
*
9906437 TATGGCTATTTGGAGCTTCCTGATTA
1 -ATGGCTCTTTGGAGCTTCCTGATTA
9906463 ATGGCT-TTTCGGAGCT
1 ATGGCTCTTT-GGAGCT
9906479 ACCCGTTATT
Statistics
Matches: 88, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
22 6 0.07
23 8 0.09
24 6 0.07
25 30 0.34
26 38 0.43
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (25 bp):
ATGGCTCTTTGGAGCTTCCTGATTA
Found at i:9914000 original size:9 final size:9
Alignment explanation
Indices: 9913986--9914022 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9913976 NNNNNNNNGA
9913986 TATTCGAAT
1 TATTCGAAT
9913995 TATTCGAAT
1 TATTCGAAT
*
9914004 TATTCGAGT
1 TATTCGAAT
9914013 TATTCGAAT
1 TATTCGAAT
9914022 T
1 T
9914023 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9924529 original size:21 final size:20
Alignment explanation
Indices: 9924489--9924529 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9924479 GTAGTGAAAA
* *
9924489 TTTATTTTCTAAGGATAAAT
1 TTTATTTTCCAAGAATAAAT
9924509 TTTATTTTCCAAGTAATAAAT
1 TTTATTTTCCAAG-AATAAAT
9924530 CGTTTTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (20 bp):
TTTATTTTCCAAGAATAAAT
Found at i:9939861 original size:6 final size:6
Alignment explanation
Indices: 9939850--9939911 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
9939840 TAATTTAGCC
* * *
9939850 ATTTTT ATTTTT ATTTAAT ATTTTT ATTTTT AATTTA ATTTTT ATATTTT
1 ATTTTT ATTTTT ATTT-TT ATTTTT ATTTTT ATTTTT ATTTTT AT-TTTT
*
9939900 AATTTTT CTTTT
1 -ATTTTT ATTTT
9939912 GCTTGATGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
6 31 0.67
7 13 0.28
8 2 0.04
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:9939911 original size:19 final size:18
Alignment explanation
Indices: 9939850--9939904 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 18
9939840 TAATTTAGCC
9939850 ATTTTTATTTTT-ATTTAA
1 ATTTTTATTTTTAATTT-A
9939868 TATTTTTATTTTTAATTTA
1 -ATTTTTATTTTTAATTTA
9939887 ATTTTTATATTTTAATTT
1 ATTTTTAT-TTTTAATTT
9939905 TTCTTTTGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.24
19 22 0.65
20 4 0.12
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTTATTTTTAATTTA
Found at i:9941610 original size:27 final size:26
Alignment explanation
Indices: 9941580--9941875 Score: 207
Period size: 27 Copynumber: 11.0 Consensus size: 26
9941570 TCAACTCCTA
*
9941580 GGGGTATAATAGTCATTTTACCCTATG
1 GGGGTAT-TTAGTCATTTTACCCTATG
* ** *
9941607 GGGGTATCTCAGTCATACTACTCTATG
1 GGGGTAT-TTAGTCATTTTACCCTATG
*
9941634 AGGGTATTTAGGTCATTTTACCCTATG
1 GGGGTATTTA-GTCATTTTACCCTATG
* * * *
9941661 GGGGTATTTCGGCCATTCTACCCTATT
1 GGGGTATTT-AGTCATTTTACCCTATG
* * * *
9941688 GGGGTATTTCGACCATTCTACCCTGTG
1 GGGGTATTTAG-TCATTTTACCCTATG
* * **
9941715 GGGGTATTTTGATTATTTTACCCTGCG
1 GGGGTATTTAG-TCATTTTACCCTATG
* *
9941742 GGGGTATTTCGGTTATTTTACCCTATG
1 GGGGTATTT-AGTCATTTTACCCTATG
*
9941769 GGGGTATTTCGATCATTTTACCCTATG
1 GGGGTATTTAG-TCATTTTACCCTATG
* * * * *
9941796 AGGGTATTTCGGTTATTTTACCCTCTC
1 GGGGTATTT-AGTCATTTTACCCTATG
*
9941823 GGGGTATTTCGGTCATTTTACCCTAAT-
1 GGGGTATTT-AGTCATTTTACCCT-ATG
* * *
9941850 AGGGTATTTCGATTATTTTACCCTAT
1 GGGGTATTTAG-TCATTTTACCCTAT
9941876 TTTGGGGTCT
Statistics
Matches: 221, Mismatches: 40, Indels: 17
0.79 0.14 0.06
Matches are distributed among these distances:
26 7 0.03
27 211 0.95
28 3 0.01
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (26 bp):
GGGGTATTTAGTCATTTTACCCTATG
Found at i:9941666 original size:81 final size:81
Alignment explanation
Indices: 9941591--9941875 Score: 340
Period size: 81 Copynumber: 3.5 Consensus size: 81
9941581 GGGTATAATA
* * * *
9941591 GTCATTTTACCCTATGGGGGTATCTC-AGTCATACTACTCTATGAGGGTATTTAGGTCATTTTAC
1 GTCATTTTACCCTATGGGGGTATTTCGA-TCATTCTACCCTATGAGGGTATTTAGGTTATTTTAC
9941655 CCTATGGGGGTATTTCG
65 CCTATGGGGGTATTTCG
* * * * * * * *
9941672 GCCATTCTACCCTATTGGGGTATTTCGACCATTCTACCCTGTGGGGGTATTTTGATTATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGAGGGTATTTAGGTTATTTTACC
**
9941737 CTGCGGGGGTATTTCG
66 CTATGGGGGTATTTCG
* * *
9941753 GTTATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTTATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGAGGGTATTTAGGTTATTTTACC
* *
9941818 CTCTCGGGGTATTTCG
66 CTATGGGGGTATTTCG
* * *
9941834 GTCATTTTACCCTAAT-AGGGTATTTCGATTATTTTACCCTAT
1 GTCATTTTACCCT-ATGGGGGTATTTCGATCATTCTACCCTAT
9941876 TTTGGGGTCT
Statistics
Matches: 172, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
81 169 0.98
82 3 0.02
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.41
Consensus pattern (81 bp):
GTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGAGGGTATTTAGGTTATTTTACC
CTATGGGGGTATTTCG
Found at i:9941693 original size:54 final size:53
Alignment explanation
Indices: 9941591--9941875 Score: 300
Period size: 54 Copynumber: 5.3 Consensus size: 53
9941581 GGGTATAATA
* * ** * *
9941591 GTCATTTTACCCTATGGGGGTATCTCAGTCATACTACTCTATGAGGGTATTTAG
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATG-GGGTATTTCG
* *
9941645 GTCATTTTACCCTATGGGGGTATTTCGGCCATTCTACCCTATTGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTA-TGGGGTATTTCG
** * * * * * **
9941699 ACCATTCTACCCTGTGGGGGTATTTTGATTATTTTACCCTGCGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCT-ATGGGGTATTTCG
* *
9941753 GTTATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATG-GGGTATTTCG
* * * *
9941807 GTTATTTTACCCTCTCGGGGTATTTCGGTCATTTTACCCTAATAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCT-ATGGGGTATTTCG
* *
9941861 ATTATTTTACCCTAT
1 GTCATTTTACCCTAT
9941876 TTTGGGGTCT
Statistics
Matches: 195, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 190 0.97
55 4 0.02
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.41
Consensus pattern (53 bp):
GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCG
Found at i:9945546 original size:54 final size:53
Alignment explanation
Indices: 9945439--9945664 Score: 222
Period size: 54 Copynumber: 4.2 Consensus size: 53
9945429 TATAACAATT
* ** *
9945439 ATTTTACCCTATGGGGTATTTCGTTCATACTACTCTATG-GGGTATTTCAGTC
1 ATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCAGTC
** * *
9945491 ATTTTACCCTATGCGAATATTTCGGTCATTTTACCCTGTGAGGGTATTTCGGTC
1 ATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCAGTC
* * * * * *
9945545 ATTTTACCTTATGGGGTTATTTTGGTCATTTTATCCTGTGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGG-TATTTCGGTCATTTTACCCTATGAGGGTATTTCAGTC
* ** * * *
9945599 -TCTTTACCTTATATTGGTATTTAGGTTATTTTACCCTATTAGGGTATTTCAGTC
1 AT-TTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCAGTC
9945653 ATTTTACCCTAT
1 ATTTTACCCTAT
9945665 TTTGGAGTCT
Statistics
Matches: 144, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
52 13 0.09
53 21 0.15
54 107 0.74
55 3 0.02
ACGTcount: A:0.18, C:0.17, G:0.19, T:0.46
Consensus pattern (53 bp):
ATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCAGTC
Found at i:9945665 original size:27 final size:27
Alignment explanation
Indices: 9945439--9945665 Score: 189
Period size: 27 Copynumber: 8.5 Consensus size: 27
9945429 TATAACAATT
*
9945439 ATTTTACCCTA-TGGGGTATTTCGTTC
1 ATTTTACCCTATTGGGGTATTTCGGTC
** * *
9945465 ATACTACTCTA-TGGGGTATTTCAGTC
1 ATTTTACCCTATTGGGGTATTTCGGTC
**
9945491 ATTTTACCCTA-TGCGAATATTTCGGTC
1 ATTTTACCCTATTG-GGGTATTTCGGTC
*
9945518 ATTTTACCCT-GTGAGGGTATTTCGGTC
1 ATTTTACCCTATTG-GGGTATTTCGGTC
* *
9945545 ATTTTACCTTA-TGGGGTTATTTTGGTC
1 ATTTTACCCTATTGGGG-TATTTCGGTC
* * *
9945572 ATTTTATCCTGTGGGGGTATTTCGGTC
1 ATTTTACCCTATTGGGGTATTTCGGTC
* * * *
9945599 -TCTTTACCTTATAT-TGGTATTTAGGTT
1 AT-TTTACCCTAT-TGGGGTATTTCGGTC
* *
9945626 ATTTTACCCTATTAGGGTATTTCAGTC
1 ATTTTACCCTATTGGGGTATTTCGGTC
9945653 ATTTTACCCTATT
1 ATTTTACCCTATT
9945666 TTGGAGTCTC
Statistics
Matches: 159, Mismatches: 33, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
26 36 0.23
27 118 0.74
28 5 0.03
ACGTcount: A:0.18, C:0.17, G:0.19, T:0.46
Consensus pattern (27 bp):
ATTTTACCCTATTGGGGTATTTCGGTC
Found at i:9953954 original size:17 final size:17
Alignment explanation
Indices: 9953922--9953955 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9953912 TATCACTTAC
*
9953922 TATTTCAATAGCATTTT
1 TATTTCAATAACATTTT
*
9953939 TATTTCAATAATATTTT
1 TATTTCAATAACATTTT
9953956 CCATTTCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTTCAATAACATTTT
Found at i:9955488 original size:27 final size:27
Alignment explanation
Indices: 9955373--9955474 Score: 161
Period size: 27 Copynumber: 3.8 Consensus size: 27
9955363 CCGACGAACA
* *
9955373 AGGTGTTCA-CCAAGTTTTAGGTGAAAT
1 AGGTGTTCATCAAAG-TTTAGGCGAAAT
9955400 AGGTGTTCATCAAAGTTTAGGCGAAAT
1 AGGTGTTCATCAAAGTTTAGGCGAAAT
*
9955427 AGGTGTTCATGAAAGTTTAGGCGAAAT
1 AGGTGTTCATCAAAGTTTAGGCGAAAT
9955454 AGGTGTTCATCAAAGTTTAGG
1 AGGTGTTCATCAAAGTTTAGG
9955475 TGAATTGGGA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 66 0.94
28 4 0.06
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.31
Consensus pattern (27 bp):
AGGTGTTCATCAAAGTTTAGGCGAAAT
Found at i:9956366 original size:41 final size:41
Alignment explanation
Indices: 9956300--9956383 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
9956290 TTACAAGCTA
* *
9956300 TGTATCAGCGAAGCTCCCCTCGTGAGCTTTGTGATAAGTTG
1 TGTATCAGCGAAGCTCCCCTAGTGAGCTTAGTGATAAGTTG
* *
9956341 TGTATCAGGGAAGCTCTCCTAGTGAGCTTAGTGATAAGTTG
1 TGTATCAGCGAAGCTCCCCTAGTGAGCTTAGTGATAAGTTG
9956382 TG
1 TG
9956384 CGTCACAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (41 bp):
TGTATCAGCGAAGCTCCCCTAGTGAGCTTAGTGATAAGTTG
Found at i:9966883 original size:17 final size:17
Alignment explanation
Indices: 9966861--9966895 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9966851 TTCCATCCCC
9966861 ATCAAACAGTTATACAA
1 ATCAAACAGTTATACAA
9966878 ATCAAACAGTTATACAA
1 ATCAAACAGTTATACAA
9966895 A
1 A
9966896 GAGAAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (17 bp):
ATCAAACAGTTATACAA
Found at i:9967458 original size:5 final size:5
Alignment explanation
Indices: 9967448--9967472 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9967438 AAATTTTGGA
9967448 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
9967473 GTTTTAATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:9968057 original size:23 final size:23
Alignment explanation
Indices: 9968031--9968079 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
9968021 ACCTTTTGTT
9968031 TTTATTATTTTAATCAATTTAAG
1 TTTATTATTTTAATCAATTTAAG
*
9968054 TTTATTATTTTAATTAATTTAAG
1 TTTATTATTTTAATCAATTTAAG
9968077 TTT
1 TTT
9968080 TTTTTCTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTATTATTTTAATCAATTTAAG
Found at i:9976956 original size:40 final size:40
Alignment explanation
Indices: 9976907--9977047 Score: 246
Period size: 40 Copynumber: 3.5 Consensus size: 40
9976897 TTTGAGCAAC
* *
9976907 TTTCAGTAGAATCAGTAGGTATGGCTCGATAGCACATACG
1 TTTCAGTAGATTCAGTAGGTATGGCTCGATAGCGCATACG
* *
9976947 TTTCAGTAGATTCAGTAGGTATGGCTTGATAGCGCATACA
1 TTTCAGTAGATTCAGTAGGTATGGCTCGATAGCGCATACG
9976987 TTTCAGTAGATTCAGTAGGTATGGCTCGATAGCGCATACG
1 TTTCAGTAGATTCAGTAGGTATGGCTCGATAGCGCATACG
9977027 TTTCAGTAGATTCAGTAGGTA
1 TTTCAGTAGATTCAGTAGGTA
9977048 ATGCTCATTT
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (40 bp):
TTTCAGTAGATTCAGTAGGTATGGCTCGATAGCGCATACG
Found at i:9990196 original size:3 final size:3
Alignment explanation
Indices: 9990183--9990216 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
9990173 AAAATAAAAC
9990183 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9990217 AGAAAATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:10000061 original size:50 final size:50
Alignment explanation
Indices: 9999986--10000438 Score: 357
Period size: 50 Copynumber: 9.1 Consensus size: 50
9999976 GTAATTAAAA
* * * * **
9999986 AGATTGAAGCCACAATGACGAATCTTACTTCTCCGGCGA-TGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCAAC-ATTGCAGTGGAAC
* ** *
10000036 AGATTGAAGCTACAACGGCGAATCTT-CTTTCCCCAACATTGCAATCAAAA
1 AGATTGAAGCTACAACGGCGAATCTTAC-TTCCCCAACATTGCAGTGGAAC
* ****
10000086 AGATTGAAGCCACAACGGCGAATCTTACTTCTCCGGTGA-TGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTC-CCCAACATTGCAGTGGAAC
* * * ** *
10000136 AGATTGAAGTTGCAACGGCGAATCTT-CTTTCCCCAACATTGCAATCAAAA
1 AGATTGAAGCTACAACGGCGAATCTTAC-TTCCCCAACATTGCAGTGGAAC
* * ****
10000186 AGATTGAAGCCACAATGGCGAATCTTACTTCTCCGGTGA-TGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTC-CCCAACATTGCAGTGGAAC
* ** *
10000236 AGATTGAAGCTACAACGGCGAATCTT-CTTTCCCCAACATTGCAATAAAAA
1 AGATTGAAGCTACAACGGCGAATCTTAC-TTCCCCAACATTGCAGTGGAAC
* * * * * **
10000286 AGATTGAGGCCACAACGGCGAATCATATTTCCCCAGCAGCGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCAACATTGCAGTGGAAC
* * * ** *
10000336 AGATTTAAACTACAACGGCGAATCTTGCTTCCCTGACATTGC---GGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCAACATTGCAGTGGAAC
* * *
10000383 AGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGTTGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCAACATTGCAGTGGAAC
*
10000433 TGATTG
1 AGATTG
10000439 GAGATGACAG
Statistics
Matches: 305, Mismatches: 84, Indels: 28
0.73 0.20 0.07
Matches are distributed among these distances:
47 41 0.13
49 10 0.03
50 246 0.81
51 8 0.03
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCCAACATTGCAGTGGAAC
Found at i:10000155 original size:100 final size:100
Alignment explanation
Indices: 9999982--10000413 Score: 604
Period size: 100 Copynumber: 4.3 Consensus size: 100
9999972 GTTTGTAATT
* * *
9999982 AAAAAGATTGAAGCCACAATGACGAATCTTACTTCTCCGGCGATGCAGTGGAACAGATTGAAGCT
1 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCCGGTGATGCAGTGGAACAGATTGAAGCT
10000047 ACAACGGCGAATCTTCTTTCCCCAACATTGCAATC
66 ACAACGGCGAATCTTCTTTCCCCAACATTGCAATC
*
10000082 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCCGGTGATGCAGTGGAACAGATTGAAGTT
1 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCCGGTGATGCAGTGGAACAGATTGAAGCT
*
10000147 GCAACGGCGAATCTTCTTTCCCCAACATTGCAATC
66 ACAACGGCGAATCTTCTTTCCCCAACATTGCAATC
*
10000182 AAAAAGATTGAAGCCACAATGGCGAATCTTACTTCTCCGGTGATGCAGTGGAACAGATTGAAGCT
1 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCCGGTGATGCAGTGGAACAGATTGAAGCT
*
10000247 ACAACGGCGAATCTTCTTTCCCCAACATTGCAATA
66 ACAACGGCGAATCTTCTTTCCCCAACATTGCAATC
* * * * * * * * *
10000282 AAAAAGATTGAGGCCACAACGGCGAATCATATTTCCCCAG-CAGCGCAGTGGAACAGATTTAAAC
1 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCCGGTGA-TGCAGTGGAACAGATTGAAGC
** *
10000346 TACAACGGCGAATCTTGC-TTCCCTGACATTGC---G
65 TACAACGGCGAATCTT-CTTTCCCCAACATTGCAATC
* * * *
10000379 GAATAGATTGAAGCTACAACAGCGAATCTTACTTC
1 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTC
10000414 CCCGACATTG
Statistics
Matches: 301, Mismatches: 29, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
97 28 0.09
99 1 0.00
100 271 0.90
101 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (100 bp):
AAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCCGGTGATGCAGTGGAACAGATTGAAGCT
ACAACGGCGAATCTTCTTTCCCCAACATTGCAATC
Done.