Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 117 of 175
Found at i:36802545 original size:21 final size:21
Alignment explanation
Indices: 36802406--36802545 Score: 70
Period size: 21 Copynumber: 6.5 Consensus size: 21
36802396 GTACAACTTA
* * *
36802406 AAGCAGATGCGGCAACGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
36802427 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
* * * *
36802448 AAGCTGAGG-TTCAACGAAAG
1 AAGCAGAGGCTGCAGCGAGAG
* * * *
36802468 TATGAAGA-ACTTCAGC-AGCAG
1 -AAGCAGAGGCTGCAGCGAG-AG
* *
36802489 CTTAAAGCAGATGCAGCAGCGAGAG
1 ----AAGCAGAGGCTGCAGCGAGAG
*
36802514 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGAG
*
36802535 AATCAGAGGCT
1 AAGCAGAGGCT
36802546 AAAATGAGGG
Statistics
Matches: 88, Mismatches: 23, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
20 9 0.10
21 65 0.74
24 5 0.06
25 7 0.08
26 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.35, T:0.11
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:36802951 original size:43 final size:43
Alignment explanation
Indices: 36802869--36803322 Score: 386
Period size: 42 Copynumber: 10.7 Consensus size: 43
36802859 AAAATTAGCA
* * * *** *
36802869 GCGTTTATTGGATAAGCGCCACTAAAGA-ACCCGCCTCTAGTG
1 GCGTTTTTTGTATAAGCGCCGCTAAAGACACCAATCTATAGTG
* * * *
36802911 GCGTTTTATGCATAAGCGCCGCTAAAGCCACCAATCTCTAGTG
1 GCGTTTTTTGTATAAGCGCCGCTAAAGACACCAATCTATAGTG
* * * *
36802954 GCGTTTTGTGTATAAGCGCCGCAAAAAACTCCAATCTATAGTG
1 GCGTTTTTTGTATAAGCGCCGCTAAAGACACCAATCTATAGTG
* * * *
36802997 GCGTTTTTTGCATAAGCGCCGGTACAGA-GCCATATCTATAGTG
1 GCGTTTTTTGTATAAGCGCCGCTAAAGACACCA-ATCTATAGTG
* * *
36803040 GCGTTTCTT-TATAAGCGCCGGTAAAGA-AACATATCTATAGTG
1 GCGTTTTTTGTATAAGCGCCGCTAAAGACACCA-ATCTATAGTG
* * * *
36803082 GCGTTTTTTGTATAAGCGCCGTTATAGA-ACCGAGCTATAGTG
1 GCGTTTTTTGTATAAGCGCCGCTAAAGACACCAATCTATAGTG
* * *
36803124 GCGTTTTTTGTATAAGCGCCGCTATAGAC-CCGAGCTATAGTG
1 GCGTTTTTTGTATAAGCGCCGCTAAAGACACCAATCTATAGTG
* * * *
36803166 GCGTTTTTTGTATAAGCGCCGGTAGAG-CA-GATATCTATTGTG
1 GCGTTTTTTGTATAAGCGCCGCTAAAGACACCA-ATCTATAGTG
* * * * * * *
36803208 GCGTTTTCTGTACAAACGCCGGTAAAGAAACCCGATCTGTAGTG
1 GCGTTTTTTGTATAAGCGCCGCTAAAGACA-CCAATCTATAGTG
* * * * *
36803252 GCGTTTTTTGCATAAGCGCCGCGAAAGACTCCCACCTATAGTG
1 GCGTTTTTTGTATAAGCGCCGCTAAAGACACCAATCTATAGTG
* *
36803295 GCG-TTTCTGTGTAAGCGCCGCTAAAGAC
1 GCGTTTTTTGTATAAGCGCCGCTAAAGAC
36803323 GGTATTCTAT
Statistics
Matches: 339, Mismatches: 64, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.00
42 189 0.56
43 119 0.35
44 30 0.09
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (43 bp):
GCGTTTTTTGTATAAGCGCCGCTAAAGACACCAATCTATAGTG
Found at i:36803065 original size:128 final size:125
Alignment explanation
Indices: 36802869--36803339 Score: 430
Period size: 128 Copynumber: 3.7 Consensus size: 125
36802859 AAAATTAGCA
* * ** * * * *
36802869 GCGTTTATTGGATAAGCGCCACTAAAGAACCCGCCTCTAGTGGCGTTT-TATGCATAAGCGCCGC
1 GCGTTTTTTGCATAAGCGCCGGTAAAGACCCCACCTATAGTGGCGTTTCT-T-TATAAGCGCCGC
* * * *
36802933 TAAAGCCACCA-ATCTCTAGTGGCGTTTTGTGTATAAGCGCCGCAAAAAACTCCAATCTATAGTG
64 TAAAG-CA-CATATCTATAGTGGCGTTTTCTGTATAAGCGCCGTAAAAAAC-CCGATCTATAGTG
* ** * *
36802997 GCGTTTTTTGCATAAGCGCCGGTACAGAGCCATATCTATAGTGGCGTTTCTTTATAAGCGCCGGT
1 GCGTTTTTTGCATAAGCGCCGGTAAAGA-CCCCACCTATAGTGGCGTTTCTTTATAAGCGCCGCT
* * * * *
36803062 AAAGAAACATATCTATAGTGGCGTTTTTTGTATAAGCGCCGTTATAGAA-CCGAGCTATAGTG
65 AAAG-CACATATCTATAGTGGCGTTTTCTGTATAAGCGCCG-TAAAAAACCCGATCTATAGTG
* * * * * * *
36803124 GCGTTTTTTGTATAAGCGCCGCTATAGACCCGAGCTATAGTGGCGTTTTTTGTATAAGCGCCGGT
1 GCGTTTTTTGCATAAGCGCCGGTAAAGACCCCACCTATAGTGGCGTTTCTT-TATAAGCGCCGCT
* * * * * *
36803189 AGAGCAGATATCTATTGTGGCGTTTTCTGTACAAACGCCGGTAAAGAAACCCGATCTGTAGTG
65 AAAGCACATATCTATAGTGGCGTTTTCTGTATAAGCGCC-GTAAA-AAACCCGATCTATAGTG
* *
36803252 GCGTTTTTTGCATAAGCGCCGCG-AAAGACTCCCACCTATAGTGGCGTTTCTGTGTAAGCGCCGC
1 GCGTTTTTTGCATAAGCGCCG-GTAAAGAC-CCCACCTATAGTGGCGTTTCTTTATAAGCGCCGC
*
36803316 TAAAG-ACGGTATTCTATAGTGGCG
64 TAAAGCAC-ATA-TCTATAGTGGCG
36803340 CGATAAAAGA
Statistics
Matches: 278, Mismatches: 53, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
126 51 0.18
127 58 0.21
128 120 0.43
129 48 0.17
130 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (125 bp):
GCGTTTTTTGCATAAGCGCCGGTAAAGACCCCACCTATAGTGGCGTTTCTTTATAAGCGCCGCTA
AAGCACATATCTATAGTGGCGTTTTCTGTATAAGCGCCGTAAAAAACCCGATCTATAGTG
Found at i:36803334 original size:255 final size:254
Alignment explanation
Indices: 36802869--36803339 Score: 569
Period size: 255 Copynumber: 1.8 Consensus size: 254
36802859 AAAATTAGCA
*
36802869 GCGTTTATTGGATAAGCGCCACTAAAGAACCCGCCTCTAGTGGCGTTTTATGCATAAGCGCCGCT
1 GCGTTTATTGGATAAGCGCCACTAAAGAACCCGCCTATAGTGGCGTTTTATGCATAAGCGCCGCT
* * * *
36802934 AAAGCCACCAATCTCTAGTGGCGTTTTGTGTATAAGCGCCGCAAAAAACTCCAATCTATAGTGGC
66 AAAGCCACCAATCTATAGTGGCGTTTTCTGTACAAACGCCGCAAAAAACTCCAATCTATAGTGGC
* * * * *
36802999 GTTTTTTGCATAAGCGCCGGTACAGAGCCATATCTATAGTGGCGTTTCTTTATAAGCGCCGGTAA
131 GTTTTTTGCATAAGCGCCGGTAAAGAGCCACACCTATAGTGGCGTTTCTGTATAAGCGCCGCTAA
36803064 AGAAACATATCTATAGTGGCGTTTTTTGTATAAGCGCCGTTATAGAACCGAGCTATAGTG
196 AG-AACATATCTATAGTGGCGTTTTTTGTATAAGCGCCGTTATAGAACCGAGCTATAGTG
* * * * * * * *
36803124 GCGTTTTTTGTATAAGCGCCGCTATAG-ACCCGAGCTATAGTGGCGTTTTTTGTATAAGCGCCGG
1 GCGTTTATTGGATAAGCGCCACTAAAGAACCCG-CCTATAGTGGCGTTTTATGCATAAGCGCCGC
* * * * * *
36803188 TAGAG-CA-GATATCTATTGTGGCGTTTTCTGTACAAACGCCGGTAAAGAAAC-CCGATCTGTAG
65 TAAAGCCACCA-ATCTATAGTGGCGTTTTCTGTACAAACGCC-GCAAA-AAACTCCAATCTATAG
* *
36803250 TGGCGTTTTTTGCATAAGCGCCGCG-AAAGA-CTCCCACCTATAGTGGCGTTTCTGTGTAAGCGC
127 TGGCGTTTTTTGCATAAGCGCCG-GTAAAGAGC-CACACCTATAGTGGCGTTTCTGTATAAGCGC
*
36803313 CGCTAAAG-ACGGTATTCTATAGTGGCG
190 CGCTAAAGAAC-ATA-TCTATAGTGGCG
36803340 CGATAAAAGA
Statistics
Matches: 181, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
253 3 0.02
254 35 0.19
255 138 0.76
256 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (254 bp):
GCGTTTATTGGATAAGCGCCACTAAAGAACCCGCCTATAGTGGCGTTTTATGCATAAGCGCCGCT
AAAGCCACCAATCTATAGTGGCGTTTTCTGTACAAACGCCGCAAAAAACTCCAATCTATAGTGGC
GTTTTTTGCATAAGCGCCGGTAAAGAGCCACACCTATAGTGGCGTTTCTGTATAAGCGCCGCTAA
AGAACATATCTATAGTGGCGTTTTTTGTATAAGCGCCGTTATAGAACCGAGCTATAGTG
Found at i:36803594 original size:21 final size:20
Alignment explanation
Indices: 36803570--36803608 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
36803560 ATAAAAAAAC
36803570 TATAATATTTTTATGAATAAA
1 TATAATATTTTTAT-AATAAA
*
36803591 TATATTATTTTTATAATA
1 TATAATATTTTTATAATA
36803609 TATAGCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TATAATATTTTTATAATAAA
Found at i:36805104 original size:31 final size:30
Alignment explanation
Indices: 36805060--36805126 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
36805050 ACACATTAAC
* *
36805060 TTTGGTTTAATGTATAATTTTATATAAG-AAT
1 TTTGATTTAATG--TAATTTTATACAAGAAAT
* *
36805091 TTTGATTTTATGTAATTTTATACATGAAAT
1 TTTGATTTAATGTAATTTTATACAAGAAAT
36805121 TTTGAT
1 TTTGAT
36805127 CTGAGCCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 12 0.39
30 9 0.29
31 10 0.32
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (30 bp):
TTTGATTTAATGTAATTTTATACAAGAAAT
Found at i:36807893 original size:21 final size:21
Alignment explanation
Indices: 36807851--36807900 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
36807841 AAAAAAAATC
*
36807851 TTTAAAATATTATTAAATTTA
1 TTTAAAATATTATTAAAATTA
36807872 TTTAAAATA-TATTAAAAATTA
1 TTTAAAATATTATT-AAAATTA
36807893 TGTTAAAA
1 T-TTAAAA
36807901 ATTTTCAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 16 0.62
22 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTAAAATATTATTAAAATTA
Found at i:36809329 original size:20 final size:20
Alignment explanation
Indices: 36809304--36809341 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
36809294 GTCAATTTTG
36809304 TTTTTTGCTTCAATCAAGTT
1 TTTTTTGCTTCAATCAAGTT
*
36809324 TTTTTTTCTTCAATCAAG
1 TTTTTTGCTTCAATCAAG
36809342 CATGAGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.16, G:0.08, T:0.55
Consensus pattern (20 bp):
TTTTTTGCTTCAATCAAGTT
Found at i:36809510 original size:19 final size:19
Alignment explanation
Indices: 36809486--36809542 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 19
36809476 ACATGTTAAT
36809486 ATAATTTTTAATATTTTTA
1 ATAATTTTTAATATTTTTA
** *
36809505 ATAATTTATTTTTATTTTAA
1 ATAATTT-TTAATATTTTTA
* *
36809525 AGATTTTTTAAT-TTTTTA
1 ATAATTTTTAATATTTTTA
36809543 GAATTATGGT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
18 5 0.17
19 10 0.34
20 14 0.48
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
ATAATTTTTAATATTTTTA
Found at i:36816435 original size:20 final size:19
Alignment explanation
Indices: 36816410--36816448 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
36816400 CCGGCCCGGT
*
36816410 TTTTAATAAACACAAAAATA
1 TTTTAA-AAACAAAAAAATA
*
36816430 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
36816449 AAAATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:36819822 original size:6 final size:6
Alignment explanation
Indices: 36819811--36819881 Score: 51
Period size: 6 Copynumber: 11.8 Consensus size: 6
36819801 CTAAAACGTT
* * *
36819811 TTTTTC TTTTTC TTTTTC -CTCTC -TTTTC -TTTTC TTTTAC ATTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC
36819857 TTCTTTC TTTTGAT- TTTTTC TTTTT
1 TT-TTTC TTTT--TC TTTTTC TTTTT
36819882 GACTGTGTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
5 12 0.23
6 25 0.47
7 15 0.28
8 1 0.02
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:36819880 original size:26 final size:27
Alignment explanation
Indices: 36819812--36819881 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
36819802 TAAAACGTTT
36819812 TTTTCTTTTTCTTTTTCCTCTCTTTTC
1 TTTTCTTTTTCTTTTTCCTCTCTTTTC
*
36819839 TTTTCTTTTACATTTTT-CT-TC-TTTC
1 TTTTCTTTTTC-TTTTTCCTCTCTTTTC
*
36819864 TTTTGATTTTTTCTTTTT
1 TTTT--CTTTTTCTTTTT
36819882 GACTGTGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
25 8 0.22
26 7 0.19
27 17 0.46
28 5 0.14
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (27 bp):
TTTTCTTTTTCTTTTTCCTCTCTTTTC
Found at i:36821812 original size:50 final size:50
Alignment explanation
Indices: 36821701--36821891 Score: 231
Period size: 50 Copynumber: 3.8 Consensus size: 50
36821691 CATAACATGC
* ** *
36821701 CAAA-GCCATGTCCCAGACATGGTCTGACATGGGATGTTCTCATATCGGTG
1 CAAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTG
** * * **
36821751 CCCATGCCATGTTCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CAAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* *
36821801 CAAACGCCATGTCCCAAACATGGTCTTACATAGGACCTCTCATCTCGGTG
1 CAAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * *
36821851 CCAACGCCATGTCTCAGACATGGTCTTACATGGGATCTCTC
1 CAAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
36821892 TACCCAAATG
Statistics
Matches: 118, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
50 92 0.78
51 26 0.22
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
CAAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:36822263 original size:30 final size:29
Alignment explanation
Indices: 36822228--36822284 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
36822218 CCTCGACTCT
*
36822228 AACTTTTTCAAAATTACGATTTTGCCCCTA
1 AACTTTTACAAAATTAC-ATTTTGCCCCTA
* *
36822258 AACTTTTACATAATTACATTTTTCCCC
1 AACTTTTACAAAATTACATTTTGCCCC
36822285 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.30, C:0.25, G:0.04, T:0.42
Consensus pattern (29 bp):
AACTTTTACAAAATTACATTTTGCCCCTA
Found at i:36823222 original size:63 final size:64
Alignment explanation
Indices: 36823089--36823224 Score: 166
Period size: 63 Copynumber: 2.1 Consensus size: 64
36823079 CATTACAGTA
* ** * * *
36823089 TAACTCACTGATTCACAATTTAGAGACACACAGGCCAAGGACACGGGCGTGTGCCTAGGTCATG
1 TAACTCACTGATTCACAACTTAGAGACACACAGGCCAAGGACACAAGCGTGTGCCCAAGCCATG
* * * *
36823153 TAACTCACTGATTCACAACTTAGAGACATAC-GGCCAGGGACACAAGCTTGTTCCCAAGCCATG
1 TAACTCACTGATTCACAACTTAGAGACACACAGGCCAAGGACACAAGCGTGTGCCCAAGCCATG
*
36823216 TGACTCACT
1 TAACTCACT
36823225 AAGTGCGCAA
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
63 32 0.52
64 29 0.48
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (64 bp):
TAACTCACTGATTCACAACTTAGAGACACACAGGCCAAGGACACAAGCGTGTGCCCAAGCCATG
Found at i:36824646 original size:15 final size:15
Alignment explanation
Indices: 36824622--36824651 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36824612 CAACATTTAA
36824622 TTTCCATTAAATATT
1 TTTCCATTAAATATT
*
36824637 TTTCCTTTAAATATT
1 TTTCCATTAAATATT
36824652 CTTTTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTCCATTAAATATT
Found at i:36841274 original size:15 final size:15
Alignment explanation
Indices: 36841254--36841284 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36841244 TAACTCGCAT
*
36841254 TACACATAGTTCGTA
1 TACACATAGCTCGTA
36841269 TACACATAGCTCGTA
1 TACACATAGCTCGTA
36841284 T
1 T
36841285 GCAACATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (15 bp):
TACACATAGCTCGTA
Found at i:36844698 original size:11 final size:11
Alignment explanation
Indices: 36844684--36844729 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
36844674 TTTGATGTTG
* *
36844684 TTTTGTTGTCA
1 TTTTGTTATTA
36844695 TTTTGTTATTA
1 TTTTGTTATTA
*
36844706 TATTGTTATTA
1 TTTTGTTATTA
*
36844717 TTTTGTTGTTA
1 TTTTGTTATTA
36844728 TT
1 TT
36844730 GTTTGGATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.15, C:0.02, G:0.13, T:0.70
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:36852459 original size:43 final size:44
Alignment explanation
Indices: 36852407--36852505 Score: 146
Period size: 44 Copynumber: 2.2 Consensus size: 44
36852397 TTATTTGTAC
* *
36852407 AAATATTTTGA-ATATTTTGATATTATTTTATGTAAAAAAATAG
1 AAATTTTTTGAGATATTTTGATATTATTTGATGTAAAAAAATAG
*
36852450 AAATTTTTTGAGTTATTTTGATATTATTTGATGTAAAAAAATAG
1 AAATTTTTTGAGATATTTTGATATTATTTGATGTAAAAAAATAG
*
36852494 AAGTTTATTTGA
1 AAATTT-TTTGA
36852506 TGTAATAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 10 0.20
44 35 0.70
45 5 0.10
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (44 bp):
AAATTTTTTGAGATATTTTGATATTATTTGATGTAAAAAAATAG
Found at i:36852468 original size:44 final size:45
Alignment explanation
Indices: 36852419--36852505 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 45
36852409 ATATTTTGAA
*
36852419 TATTTTGATATTATTTTATGTAAAAAAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
*
36852463 TATTTTGATATTATTTGATGTAAAAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGA
36852506 TGTAATAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 35 0.88
45 5 0.12
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
Found at i:36852507 original size:25 final size:25
Alignment explanation
Indices: 36852473--36852635 Score: 160
Period size: 25 Copynumber: 6.7 Consensus size: 25
36852463 TATTTTGATA
*
36852473 TTATTTGATGTAAAAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
36852498 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* * *
36852523 TGATTTGATGCAATAAAATATAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* **
36852548 TTATTTGATGTAATAAAATAAAAAAA
1 TTATTTGATGTAATAAAAT-AGAAGT
* ** *
36852574 TT-TTCGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
36852592 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
36852618 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
36852636 ACCCTAACCT
Statistics
Matches: 110, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
19 3 0.03
20 4 0.04
21 4 0.04
22 1 0.01
23 1 0.01
24 5 0.05
25 86 0.78
26 6 0.05
ACGTcount: A:0.44, C:0.01, G:0.14, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:36852691 original size:29 final size:29
Alignment explanation
Indices: 36852658--36853340 Score: 547
Period size: 29 Copynumber: 25.2 Consensus size: 29
36852648 TTTAACCTTA
*
36852658 AACCCTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
36852687 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
36852716 AA-CCTAACCTAATTTACTT-AAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
36852743 AAACCT----TAA-CT--TTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
36852765 -A----AA-CTAATTTAA-TACAAAA-CC-
1 AACCCTAACCTAATTTAATTA-AAAACCCT
*
36852786 --C--TAACCTAGTTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
36852811 AAACCT----TAA-CT--TTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
36852833 -A-----ACCTAATTTAA-TACAAAACCCT
1 AACCCTAACCTAATTTAATTA-AAAACCCT
*
36852856 AA-CCTAAACC----CTAATTAAAAACCCT
1 AACCCT-AACCTAATTTAATTAAAAACCCT
36852881 AA-CCT-A---AA-TTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
36852904 AACCCTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
36852933 ACCCCTAACCTAATTTAATTACAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
36852962 AACCCTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
36852991 ACCCCTAACCTAATTTAATTACAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
36853020 AACCCTAACCTAATTTAATTAAAAATCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
36853049 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* * * **
36853078 AAACCTTAACTTAA--AAATCCTAAACCTTAACTTT
1 -AACCCTAACCTAATTTAAT--TAAA----AACCCT
*
36853112 AAAAACCCTAACCTAATTTAATTAAAGACCCT
1 ---AACCCTAACCTAATTTAATTAAAAACCCT
*
36853144 AACCCTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
36853173 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
36853202 AAACCCT----T-A---ACTTAAAAACCCT
1 -AACCCTAACCTAATTTAATTAAAAACCCT
*
36853224 AACCTTAACCTAATTTAATTAAAAA-CC-
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
36853251 -A---TAACCTAATTTAATTAAACACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
36853276 AACCCTAACCTAAATTAATTAAAAATCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
36853305 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
36853334 AAACCCT
1 -AACCCT
36853341 TAACTTAAAA
Statistics
Matches: 539, Mismatches: 47, Indels: 135
0.75 0.07 0.19
Matches are distributed among these distances:
20 6 0.01
21 11 0.02
22 39 0.07
23 61 0.11
24 14 0.03
25 21 0.04
26 6 0.01
27 10 0.02
28 26 0.05
29 292 0.54
30 27 0.05
32 3 0.01
34 4 0.01
36 16 0.03
38 3 0.01
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (29 bp):
AACCCTAACCTAATTTAATTAAAAACCCT
Found at i:36852760 original size:22 final size:22
Alignment explanation
Indices: 36852735--36852834 Score: 93
Period size: 22 Copynumber: 4.5 Consensus size: 22
36852725 TAATTTACTT
36852735 AAAACCCTAAACCTTAACTTTA
1 AAAACCCTAAACCTTAACTTTA
*
36852757 AAAACCCTAAA-C-TAATTTAATA
1 AAAACCCTAAACCTTAACTT--TA
36852779 CAAAACCCT-AACCTAGTTTAA--TTA
1 -AAAACCCTAAACC----TTAACTTTA
36852803 AAAACCCTAAACCTTAACTTTA
1 AAAACCCTAAACCTTAACTTTA
36852825 AAAACCCTAA
1 AAAACCCTAA
36852835 CCTAATTTAA
Statistics
Matches: 65, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
20 9 0.14
21 1 0.02
22 28 0.43
23 17 0.26
24 6 0.09
26 1 0.02
28 3 0.05
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (22 bp):
AAAACCCTAAACCTTAACTTTA
Found at i:36852840 original size:68 final size:68
Alignment explanation
Indices: 36852687--36852907 Score: 293
Period size: 68 Copynumber: 3.1 Consensus size: 68
36852677 TAAAAACCCT
36852687 AACCCTAACCTAATTTAATTA-AAAACCCTAACCTAACCTAATTTACTTAAAACCCTAAACCTTA
1 AACCCTAACCTAATTTAA-TACAAAACCCTAACCTAACCTAA-TTA---AAAACCCTAAACCTTA
36852751 ACTTTAAA
61 ACTTTAAA
* ***
36852759 AACCCTAAACTAATTTAATACAAAACCCTAACCTAGTTTAATTAAAAACCCTAAACCTTAACTTT
1 AACCCTAACCTAATTTAATACAAAACCCTAACCTAACCTAATTAAAAACCCTAAACCTTAACTTT
36852824 AAA
66 AAA
* *
36852827 AACCCTAACCTAATTTAATACAAAACCCTAACCTAAACCCTAATTAAAAACCCT-AACCTAAATT
1 AACCCTAACCTAATTTAATACAAAACCCTAACCT-AA-CCTAATTAAAAACCCTAAACCTTAACT
36852891 AATTAAA
64 --TTAAA
36852898 AACCCTAACC
1 AACCCTAACC
36852908 CTAACCTAAA
Statistics
Matches: 134, Mismatches: 10, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
68 57 0.43
69 9 0.07
70 14 0.10
71 20 0.15
72 34 0.25
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (68 bp):
AACCCTAACCTAATTTAATACAAAACCCTAACCTAACCTAATTAAAAACCCTAAACCTTAACTTT
AAA
Found at i:36853125 original size:21 final size:22
Alignment explanation
Indices: 36853067--36853122 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
36853057 CCTAATTTAA
36853067 TTAAAAACCCTAAACCTTAAC-
1 TTAAAAACCCTAAACCTTAACT
*
36853088 TTAAAAATCCTAAACCTTAACT
1 TTAAAAACCCTAAACCTTAACT
36853110 TTAAAAACCCTAA
1 TTAAAAACCCTAA
36853123 CCTAATTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (22 bp):
TTAAAAACCCTAAACCTTAACT
Found at i:36853219 original size:22 final size:20
Alignment explanation
Indices: 36853187--36853232 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
36853177 CTAACCTAAT
36853187 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
36853208 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
36853228 TTAAC
1 TTAAC
36853233 CTAATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:36853565 original size:116 final size:116
Alignment explanation
Indices: 36853415--36853652 Score: 440
Period size: 116 Copynumber: 2.1 Consensus size: 116
36853405 CTAAACTAAG
* *
36853415 TTAACAATGTTACATTCACGTAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
1 TTAATAATGTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
36853480 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
66 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
*
36853531 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
1 TTAATAATGTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
*
36853596 TAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
66 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
36853647 TTAATA
1 TTAATA
36853653 CAATTTATCA
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (116 bp):
TTAATAATGTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
Found at i:36853669 original size:17 final size:18
Alignment explanation
Indices: 36853628--36853669 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
36853618 TTTACTAACC
* *
36853628 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
36853646 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
36853663 ATTAATA
1 ATTAATA
36853670 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:36856926 original size:126 final size:125
Alignment explanation
Indices: 36856622--36856973 Score: 589
Period size: 126 Copynumber: 2.8 Consensus size: 125
36856612 CCCAAACATG
*
36856622 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
**
36856687 TAGAAGTAATTTTATACTATTTGCTCAGAAACGTC-AAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* *
36856746 CTACTGTAGCAAAAGCGCGTCTACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * *
36856811 TAGAAACGATTTTATACTATTTGCTCAGAAATGTCAAAAAAATAATTATTTCTTTCGTGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-AATTATTTCTTACATGAC
36856872 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
**
36856937 TAGAAGCGATTTTATACTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
36856974 CTCGAAATTA
Statistics
Matches: 211, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
124 93 0.44
125 6 0.03
126 112 0.53
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:36858199 original size:41 final size:42
Alignment explanation
Indices: 36858141--36858332 Score: 204
Period size: 41 Copynumber: 4.6 Consensus size: 42
36858131 CTTAATTTAA
*
36858141 CATATTCACCGGCACTTAGCCTGCTAGGCTTATAG-CCTG-ATT
1 CATA-TCACCGGCACTTAGCCTGCTAGGCTTAAAGTCC-GAATT
*
36858183 CATATCACCGGCACTTAGCCTGCTAGGTTTATAA--CCTG-ATT
1 CATATCACCGGCACTTAGCCTGCTAGGCTTA-AAGTCC-GAATT
* *
36858224 CAGATCACCGGCACTTAGCCTGCTAGACTTAAAGTCCGAATT
1 CATATCACCGGCACTTAGCCTGCTAGGCTTAAAGTCCGAATT
* *
36858266 -ATTTCACCGGC-CTTAAGCCTGCTAGACTTAAAGTCCGAATT
1 CATATCACCGGCACTT-AGCCTGCTAGGCTTAAAGTCCGAATT
*
36858307 -ATTTCACCGGC-CTTAAGCCTGCTAGG
1 CATATCACCGGCACTT-AGCCTGCTAGG
36858333 TTTTAAACCT
Statistics
Matches: 137, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
40 5 0.04
41 122 0.89
42 10 0.07
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (42 bp):
CATATCACCGGCACTTAGCCTGCTAGGCTTAAAGTCCGAATT
Found at i:36871271 original size:69 final size:69
Alignment explanation
Indices: 36871195--36871682 Score: 417
Period size: 69 Copynumber: 7.1 Consensus size: 69
36871185 CGAATCTTAG
* * * * **
36871195 TTTTACAGCTAGGAGCTTTGCTCTTGCTATCTCTGTT-GAAGGGCGCGGTTCTTCGCCTGCGAAC
1 TTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTAG-AGGTCGCGACTCTTCGCCTGCGAAC
*
36871259 TTTGA
65 CTTGA
* * * * * *
36871264 TTTTACAGCTAAGAGCTTTACTCTCGCTAACTGTATTAGAGGTCACGGCTCTTCACCTGCGAACC
1 TTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGCGACTCTTCGCCTGCGAACC
36871329 TTGA
66 TTGA
* * * *
36871333 TTTTACAACTAGGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGTGACTCTTTGCCTGCAAACC
1 TTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGCGACTCTTCGCCTGCGAACC
36871398 TTGA
66 TTGA
* * * * * * * *
36871402 TTTTACAACTGGGAGCTATGTTCTCGCTAACTGTGTTGGAGGTCGCGATTCTTTGCCTGCGAATC
1 TTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGCGACTCTTCGCCTGCGAACC
36871467 TTGA
66 TTGA
* * * * ** * * ** * * *
36871471 TTTTACAGTTGGGAGCTGTGCTTTTACTAATTGTGTTGGAGGTCATGGCTCTTCGTCTGCGAATC
1 TTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGCGACTCTTCGCCTGCGAACC
*
36871536 TTAA
66 TTGA
* * * * * * * **
36871540 TTTTACA-ATTGAGAGCTTT-CGTCTCGCTAATTATGTTGGAGGTCGCGGCTCTTCACCTATGAA
1 TTTTACAGCTAG-GAGCTTTGC-TCTCGCTAACTGTGTTAGAGGTCGCGACTCTTCGCCTGCGAA
36871603 CCTTGA
64 CCTTGA
* * ** * *
36871609 TTTTACAACTAGGAGCTTTACTCTTACTAACTGTGTTAGAGGTTGTGACTCTTC-CCTTGCGAAC
1 TTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGCGACTCTTCGCC-TGCGAAC
*
36871673 CTTCA
65 CTTGA
36871678 TTTTA
1 TTTTA
36871683 TAAACGACAA
Statistics
Matches: 341, Mismatches: 72, Indels: 12
0.80 0.17 0.03
Matches are distributed among these distances:
68 5 0.01
69 332 0.97
70 4 0.01
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (69 bp):
TTTTACAGCTAGGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGCGACTCTTCGCCTGCGAACC
TTGA
Found at i:36871431 original size:138 final size:137
Alignment explanation
Indices: 36871195--36871682 Score: 503
Period size: 138 Copynumber: 3.5 Consensus size: 137
36871185 CGAATCTTAG
* * * * * * **
36871195 TTTTACAGCTAGGAGCTTTGCTCTTGCTATCTCTGTT-GAAGGGCGCGGTTCTTCGCCTGCGAAC
1 TTTTACAACTAGGAGCTTTGCTCTTACTAACTGTGTTAG-AGGTCGTGACTCTTCGCCTGCGAAC
* * * * * * *
36871259 TTTGATTTTACAGCTAAGAGCTTTACTCTCGCTAACTGTATTAGAGGTCACGGCTCTTCACCTGC
65 CTTGATTTTACAACTGAGAGCTTT-GTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTCACCTGC
36871324 GAACCTTGA
129 GAACCTTGA
** * *
36871333 TTTTACAACTAGGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGTGACTCTTTGCCTGCAAACC
1 TTTTACAACTAGGAGCTTTGCTCTTACTAACTGTGTTAGAGGTCGTGACTCTTCGCCTGCGAACC
* * ** **
36871398 TTGATTTTACAACTGGGAGCTATGTTCTCGCTAACTGTGTTGGAGGTCGCGATTCTTTGCCTGCG
66 TTGATTTTACAACTGAGAGCTTTG-TCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTCACCTGCG
*
36871463 AATCTTGA
130 AACCTTGA
** * * * * * * * * *
36871471 TTTTACAGTTGGGAGCTGTGCTTTTACTAATTGTGTTGGAGGTCATGGCTCTTCGTCTGCGAATC
1 TTTTACAACTAGGAGCTTTGCTCTTACTAACTGTGTTAGAGGTCGTGACTCTTCGCCTGCGAACC
* * * * **
36871536 TTAATTTTACAATTGAGAGCTTTCGTCTCGCTAATTATGTTGGAGGTCGCGGCTCTTCACCTATG
66 TTGATTTTACAACTGAGAGCTTT-GTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTCACCTGCG
36871601 AACCTTGA
130 AACCTTGA
* *
36871609 TTTTACAACTAGGAGCTTTACTCTTACTAACTGTGTTAGAGGTTGTGACTCTTC-CCTTGCGAAC
1 TTTTACAACTAGGAGCTTTGCTCTTACTAACTGTGTTAGAGGTCGTGACTCTTCGCC-TGCGAAC
*
36871673 CTTCATTTTA
65 CTTGATTTTA
36871683 TAAACGACAA
Statistics
Matches: 280, Mismatches: 66, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
137 1 0.00
138 277 0.99
139 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (137 bp):
TTTTACAACTAGGAGCTTTGCTCTTACTAACTGTGTTAGAGGTCGTGACTCTTCGCCTGCGAACC
TTGATTTTACAACTGAGAGCTTTGTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTCACCTGCGA
ACCTTGA
Found at i:36871641 original size:207 final size:207
Alignment explanation
Indices: 36871195--36871682 Score: 498
Period size: 207 Copynumber: 2.4 Consensus size: 207
36871185 CGAATCTTAG
* * * * * *
36871195 TTTTACAGCTAGGAGCTTTGCTCTTGCTATCTCTGTTGAAGGGCGCGGTTCTTCGCCTGCGAACT
1 TTTTACAACTAGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGTCGCGATTCTTCGCCTGCGAACT
* *
36871260 TTGATTTTACAGCTAAGAGCTTTACTCTCGCTAACTGTATTAGAGGTCACGGCTCTTCACCTGCG
66 TTGATTTTACAGCTAAGAGCTGTACTCTCACTAACTGTATTAGAGGTCACGGCTCTTCACCTGCG
* * * **
36871325 AACCTTGATTTTACAACTAGGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGTGACTCTTTGCC
131 AACCTTAATTTTACAACTAGGAGCTTTGCTCTCGCTAACTATGTTAGAGGTCGCGACTCTTCACC
*
36871390 TGCAAACCTTGA
196 TACAAACCTTGA
* * * * *
36871402 TTTTACAACTGGGAGCTATGTTCTCGCTAACTGTGTTGGAGGTCGCGATTCTTTGCCTGCGAA-T
1 TTTTACAACTAGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGTCGCGATTCTTCGCCTGCGAACT
* ** * * * * * * * **
36871466 CTTGATTTTACAGTTGGGAGCTGTGCTTTTACTAATTGTGTTGGAGGTCATGGCTCTTCGTCTGC
66 -TTGATTTTACAGCTAAGAGCTGTACTCTCACTAACTGTATTAGAGGTCACGGCTCTTCACCTGC
* * * * *
36871531 GAATCTTAATTTTACAA-TTGAGAGCTTT-CGTCTCGCTAATTATGTTGGAGGTCGCGGCTCTTC
130 GAACCTTAATTTTACAACTAG-GAGCTTTGC-TCTCGCTAACTATGTTAGAGGTCGCGACTCTTC
**
36871594 ACCTATGAACCTTGA
193 ACCTACAAACCTTGA
* * * * * *
36871609 TTTTACAACTAGGAGCTTTACTCTTACTAACTGTGTTAGAGGTTGTGACTCTTC-CCTTGCGAAC
1 TTTTACAACTAGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGTCGCGATTCTTCGCC-TGCGAAC
* *
36871673 CTTCATTTTA
65 TTTGATTTTA
36871683 TAAACGACAA
Statistics
Matches: 225, Mismatches: 51, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
206 6 0.03
207 219 0.97
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (207 bp):
TTTTACAACTAGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGTCGCGATTCTTCGCCTGCGAACT
TTGATTTTACAGCTAAGAGCTGTACTCTCACTAACTGTATTAGAGGTCACGGCTCTTCACCTGCG
AACCTTAATTTTACAACTAGGAGCTTTGCTCTCGCTAACTATGTTAGAGGTCGCGACTCTTCACC
TACAAACCTTGA
Found at i:36879920 original size:4 final size:4
Alignment explanation
Indices: 36879911--36879943 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
36879901 GATATTTTAG
*
36879911 ATTA ATTA ATTA ATTA ATT- ATTA ATTT ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
36879944 ATTTTAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (4 bp):
ATTA
Found at i:36884124 original size:19 final size:19
Alignment explanation
Indices: 36884100--36884191 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
36884090 ATAATCTTCA
36884100 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
36884119 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
36884138 ATGATATGCAATCTTAGCT
1 ATGATATGCAATCTTAGAT
*
36884157 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
36884176 ATGATATGCAATCTTA
1 ATGATATGCAATCTTA
36884192 AAAGATATGA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:36884144 original size:38 final size:38
Alignment explanation
Indices: 36884100--36884216 Score: 180
Period size: 38 Copynumber: 3.0 Consensus size: 38
36884090 ATAATCTTCA
36884100 ATGATATGCAATCTTAGATATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGTAATCTTAGAT
*
36884138 ATGATATGCAATCTTAGCTATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGTAATCTTAGAT
*
36884176 ATGATATGCAATCTTAAAAGATATGATTTTGTAATCTTAGA
1 ATGATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
36884217 GATTTAATTT
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 52 0.72
41 7 0.10
42 13 0.18
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (38 bp):
ATGATATGCAATCTTAGATATGATATGTAATCTTAGAT
Found at i:36890587 original size:88 final size:88
Alignment explanation
Indices: 36890424--36890595 Score: 199
Period size: 88 Copynumber: 1.9 Consensus size: 88
36890414 AAGATAACAA
* * * *
36890424 ATCTTGTCTTCCTGTACCAACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTAGGTTGCA
1 ATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTT-CCTCCCTAGGTAGCA
36890489 GCGAAGTAGGTT-AAAAATAGCAG
65 GCGAAGTAGGTTGAAAAATAGCAG
* * *
36890512 ATCTTGCCTTCCTGCACCAATAGCGAAGCAGATCGATGACCCCAGTCCTAT-CTCCCT-GGTCAG
1 ATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAG-CCT-TCCTCCCTAGGT-AG
*
36890575 CAGTGGAA-TAGGTTGAAAAAT
63 CAG-CGAAGTAGGTTGAAAAAT
36890596 TGTAAGTCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
87 3 0.04
88 55 0.77
89 12 0.17
90 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (88 bp):
ATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTTCCTCCCTAGGTAGCAG
CGAAGTAGGTTGAAAAATAGCAG
Found at i:36890619 original size:45 final size:45
Alignment explanation
Indices: 36890555--36890724 Score: 227
Period size: 44 Copynumber: 3.8 Consensus size: 45
36890545 CGATGACCCC
*
36890555 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAAATTGTA
1 AGTCATATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAAATTGTA
* * * *
36890600 AGTCCTATCTCCCTAGTCAGTAGTGGAATAGTTTG-AAAATTGTA
1 AGTCATATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAAATTGTA
* * *
36890644 AATCATATCTCCCTGGTCAGCAGTGGAATAGGTT-AAAGATTGTG
1 AGTCATATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAAATTGTA
* * *
36890688 AGTCATATCTCCTTGGTTAGCAGTGGAATAAGTTGAA
1 AGTCATATCTCCCTGGTCAGCAGTGGAATAGGTTGAA
36890725 GATTGTGAAT
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 75 0.69
45 34 0.31
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (45 bp):
AGTCATATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAAATTGTA
Found at i:36891019 original size:167 final size:168
Alignment explanation
Indices: 36890729--36891040 Score: 410
Period size: 167 Copynumber: 1.9 Consensus size: 168
36890719 GTTGAAGATT
* * * * *
36890729 GTGAATCTTACTTCTCTGACGTTATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTC
1 GTGAATCTTACTTCCCTGACATTATAGCGGAGAAGATTAAAGCTCAGGACAGCGAATCTTATCTC
* * *
36890794 CCTGGCGTTAAGACTTGAAATAGCTGAAGCAGAGTAGATTAAAGCTGTAGGCAGCGAATCCTATC
66 CCTGGCATTAAGACTTGAAATAGCTGAAGCAGAGCAGATTAAAGCTATAGGCAGCGAATCCTATC
36890859 TCTTTGGCATTACAGTGAAATAGATTGAAGCCAAAACG
131 TCTTTGGCATTACAGTGAAATAGATTGAAGCCAAAACG
* * * * * *
36890897 GTGAATCTTACTTCCCTGACATTGTAGCGGAGAAGATTGAAGC-CATGACGGTGAATTTTATCTC
1 GTGAATCTTACTTCCCTGACATTATAGCGGAGAAGATTAAAGCTCAGGACAGCGAATCTTATCTC
* * * * ** * * *
36890961 CCTGGCATTAAGGCTTGGATTAGCTTAAGTGGAGCGGATTGAAGCTATGGGCAGCGAATCCTATC
66 CCTGGCATTAAGACTTGAAATAGCTGAAGCAGAGCAGATTAAAGCTATAGGCAGCGAATCCTATC
36891026 TCTTTGGCATTACAG
131 TCTTTGGCATTACAG
36891041 GGGAGCAGAT
Statistics
Matches: 121, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
167 83 0.69
168 38 0.31
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (168 bp):
GTGAATCTTACTTCCCTGACATTATAGCGGAGAAGATTAAAGCTCAGGACAGCGAATCTTATCTC
CCTGGCATTAAGACTTGAAATAGCTGAAGCAGAGCAGATTAAAGCTATAGGCAGCGAATCCTATC
TCTTTGGCATTACAGTGAAATAGATTGAAGCCAAAACG
Found at i:36891072 original size:167 final size:168
Alignment explanation
Indices: 36890731--36891075 Score: 395
Period size: 167 Copynumber: 2.1 Consensus size: 168
36890721 TGAAGATTGT
* * * * *
36890731 GAATCTTACTTCTCTGACGTTATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCC
1 GAATCTTACTTCCCTGACATTATAGCGGAGAAGATTAAAGCTCAGGACAGCGAATCTTATCTCCC
* * *
36890796 TGGCGTTAAGACTTGAAATAGCTGAAGCAGAGTAGATTAAAGCTGTAGGCAGCGAATCCTATCTC
66 TGGCATTAAGACTTGAAATAGCTGAAGCAGAGCAGATTAAAGCTATAGGCAGCGAATCCTATCTC
* * * *
36890861 TTTGGCATTACAGTGAAATAGATTGAAGCCAAAACGGT
131 TTTGGCATTACAGGGAAACAGATTAAAGCCAAAACGGC
* * * * * *
36890899 GAATCTTACTTCCCTGACATTGTAGCGGAGAAGATTGAAGC-CATGACGGTGAATTTTATCTCCC
1 GAATCTTACTTCCCTGACATTATAGCGGAGAAGATTAAAGCTCAGGACAGCGAATCTTATCTCCC
* * * * ** * * *
36890963 TGGCATTAAGGCTTGGATTAGCTTAAGTGGAGCGGATTGAAGCTATGGGCAGCGAATCCTATCTC
66 TGGCATTAAGACTTGAAATAGCTGAAGCAGAGCAGATTAAAGCTATAGGCAGCGAATCCTATCTC
* * * **
36891028 TTTGGCATTACAGGGGAGCAGATTAAAGTCGCAACGGC
131 TTTGGCATTACAGGGAAACAGATTAAAGCCAAAACGGC
36891066 GAATCTTACT
1 GAATCTTACT
36891076 CCTCTGGCTG
Statistics
Matches: 145, Mismatches: 32, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
167 109 0.75
168 36 0.25
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (168 bp):
GAATCTTACTTCCCTGACATTATAGCGGAGAAGATTAAAGCTCAGGACAGCGAATCTTATCTCCC
TGGCATTAAGACTTGAAATAGCTGAAGCAGAGCAGATTAAAGCTATAGGCAGCGAATCCTATCTC
TTTGGCATTACAGGGAAACAGATTAAAGCCAAAACGGC
Found at i:36891251 original size:50 final size:50
Alignment explanation
Indices: 36891197--36891356 Score: 133
Period size: 50 Copynumber: 3.2 Consensus size: 50
36891187 GTAGTAGAAC
*
36891197 AGATTGAAGCTACGACGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTAGTTTCCCCAACATTGTAATTAAAA
* ** * * ** *** ** * ** *
36891247 AGATTGAAACCGCAACGACGAAT-TTTTCTTCCCTGGCGGTGTAGTGGAAT
1 AGATTGAAGCTACGACGGCGAATCTAGT-TTCCCCAACATTGTAATTAAAA
* *
36891297 AGATTGAAGCTATGACGGCGAATCTCGTTTCCCCAACATTGTAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTAGTTTCCCCAACATTGTAATTAAAA
36891347 AGATTGAAGC
1 AGATTGAAGC
36891357 CGCAAACGAT
Statistics
Matches: 74, Mismatches: 34, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
49 2 0.03
50 70 0.95
51 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACGACGGCGAATCTAGTTTCCCCAACATTGTAATTAAAA
Found at i:36891415 original size:101 final size:100
Alignment explanation
Indices: 36891047--36891456 Score: 500
Period size: 100 Copynumber: 4.1 Consensus size: 100
36891037 ACAGGGGAGC
* * * * * *
36891047 AGATTAAAGTCGCAACGGCGAATCTTAC-TCCTCTGGCTGTGTAGTAGAACAGATTGAAACTACG
1 AGATTGAAGCCGCAACGACGAATTTTACTTCC-CTGGCGGTGTAGTAGAACAGATTGAAGCTACG
* * * * *
36891111 ACGGCAAATTTGGTTTCCCCAATATTACAATTAAAA
65 ACGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
* * * * **
36891147 ATATTAAAGCCGCAACGGCGAATCTTAC-TCCCTTGGCAATGTAGTAGAACAGATTGAAGCTACG
1 AGATTGAAGCCGCAACGACGAATTTTACTTCCC-TGGCGGTGTAGTAGAACAGATTGAAGCTACG
36891211 ACGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
65 ACGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
* * * * *
36891247 AGATTGAAACCGCAACGACGAATTTTTCTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTATGA
1 AGATTGAAGCCGCAACGACGAATTTTACTTCCCTGGCGGTGTAGTAGAACAGATTGAAGCTACGA
* *
36891312 CGGCGAATCTCGTTTCCCCAACATTGTAATTAAAA
66 CGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
** * *
36891347 AGATTGAAGCCGCAAACGATAAATTTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACG
1 AGATTGAAGCCGC-AACGACGAATTTTACTTCCCTGGCGGTGTAGTAGAACAGATTGAAGCTACG
* *
36891412 ACGGCGAATCTTGTTTCCCCAACATTGCAATTTAAA
65 ACGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
*
36891448 AGACTGAAG
1 AGATTGAAG
36891457 ATGGCAAGTT
Statistics
Matches: 273, Mismatches: 34, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
99 1 0.00
100 182 0.67
101 90 0.33
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (100 bp):
AGATTGAAGCCGCAACGACGAATTTTACTTCCCTGGCGGTGTAGTAGAACAGATTGAAGCTACGA
CGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
Found at i:36913955 original size:44 final size:45
Alignment explanation
Indices: 36913906--36914000 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
36913896 TTATACCTCT
* *
36913906 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** **
36913950 ATTACATTCAACCAAACAGTTGATTTGTTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
36913995 ATTACA
1 ATTACA
36914001 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:36914000 original size:16 final size:16
Alignment explanation
Indices: 36913981--36914048 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
36913971 GATTTGTTAT
* *
36913981 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
36913997 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
36914013 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
36914029 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
36914045 TACA
1 TACA
36914049 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:36914189 original size:11 final size:11
Alignment explanation
Indices: 36914173--36914197 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36914163 TAGTATCAGT
36914173 ATAATAGCAAA
1 ATAATAGCAAA
36914184 ATAATAGCAAA
1 ATAATAGCAAA
36914195 ATA
1 ATA
36914198 GTGAAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (11 bp):
ATAATAGCAAA
Found at i:36916567 original size:15 final size:16
Alignment explanation
Indices: 36916547--36916581 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36916537 GCCGCCAGTA
36916547 TAATGTG-TATTTTTT
1 TAATGTGTTATTTTTT
*
36916562 TAATGTGTTGTTTTTT
1 TAATGTGTTATTTTTT
36916578 TAAT
1 TAAT
36916582 TTAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (16 bp):
TAATGTGTTATTTTTT
Found at i:36919674 original size:19 final size:21
Alignment explanation
Indices: 36919646--36919738 Score: 140
Period size: 19 Copynumber: 4.6 Consensus size: 21
36919636 ATCTTCAAGG
*
36919646 ATATGTAATCTTAGATATG-T
1 ATATGCAATCTTAGATATGAT
36919666 -TATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
36919684 ATATGCAATCTTAGATGTGAT
1 ATATGCAATCTTAGATATGAT
36919705 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
36919726 ATATGCAATCTTA
1 ATATGCAATCTTA
36919739 AAAGATATGA
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
19 34 0.51
21 33 0.49
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:36919746 original size:40 final size:40
Alignment explanation
Indices: 36919645--36919746 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
36919635 AATCTTCAAG
* *
36919645 GATATGTAATCTTAGATATG-T-TATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAAGATATATGCAATCTTAGATAT
**
36919683 GATATGCAATCTTAGATGTGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAAGATATATGCAATCTTAGATAT
36919723 GATATATGCAATCTTA-A-AAGATAT
1 G--ATATGCAATCTTAGATAAGATAT
36919747 GATTTTGTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
38 18 0.32
39 1 0.02
40 23 0.41
41 1 0.02
42 13 0.23
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (40 bp):
GATATGCAATCTTAGATAAGATATATGCAATCTTAGATAT
Found at i:36920230 original size:6 final size:6
Alignment explanation
Indices: 36920223--36920263 Score: 73
Period size: 6 Copynumber: 6.7 Consensus size: 6
36920213 TGTATCATTA
36920223 TTATTAT TTATTT TTATTT TTATTT TTATTT TTATTT TTAT
1 TTATT-T TTATTT TTATTT TTATTT TTATTT TTATTT TTAT
36920264 ATTCATGCGC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:36920321 original size:23 final size:23
Alignment explanation
Indices: 36920292--36920353 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
36920282 TTTTTATGTA
*
36920292 ATATA-TATATAT-TGTTT-TAT
1 ATATAGTATACATATGTTTATAT
*
36920312 ATATAGTATACGTATGTTTATAT
1 ATATAGTATACATATGTTTATAT
** *
36920335 ATATTTTATACACATGTTT
1 ATATAGTATACATATGTTT
36920354 TTATTTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 5 0.15
21 5 0.15
22 5 0.15
23 18 0.55
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (23 bp):
ATATAGTATACATATGTTTATAT
Found at i:36925912 original size:92 final size:90
Alignment explanation
Indices: 36925800--36925976 Score: 205
Period size: 92 Copynumber: 1.9 Consensus size: 90
36925790 ATTAAAAAGC
* * *
36925800 AACATACTAAAATACACTGGTGGCG-TCATTTTATATGGCACCACCAAATAAAATATTATTTAAA
1 AACATACTAAAATACACTGGTGACGCT-ATTCTATATGACACCACCAAAT-AAATATTATTTAAA
*
36925864 AAAATTTAAAAAATAACACATTTAAACAA
64 AAAA--TAAAAAAAAACACATTTAAACAA
* * ** ***
36925893 AACATA-TAGAATATACTGGTGACGCTATTCTATATGATTCCACCAAATAAATATTATTTTTTAA
1 AACATACTAAAATACACTGGTGACGCTATTCTATATGACACCACCAAATAAATATTATTTAAAAA
36925957 AATAAAAAAAAACACATTTA
66 AATAAAAAAAAACACATTTA
36925977 TTAAAAAAGA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
89 17 0.24
91 15 0.21
92 33 0.46
93 7 0.10
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (90 bp):
AACATACTAAAATACACTGGTGACGCTATTCTATATGACACCACCAAATAAATATTATTTAAAAA
AATAAAAAAAAACACATTTAAACAA
Found at i:36927078 original size:14 final size:14
Alignment explanation
Indices: 36927061--36927088 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36927051 AATATCTAAC
36927061 TGTATAAGTTTGGA
1 TGTATAAGTTTGGA
36927075 TGTATAAGTTTGGA
1 TGTATAAGTTTGGA
36927089 CGGGCGGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
TGTATAAGTTTGGA
Found at i:36931780 original size:20 final size:20
Alignment explanation
Indices: 36931755--36931802 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
36931745 TACATATTAT
36931755 CACTGTTCTTGATCTAACTC
1 CACTGTTCTTGATCTAACTC
36931775 CACTGTTCTTGATCTAACTC
1 CACTGTTCTTGATCTAACTC
36931795 CACTGTTC
1 CACTGTTC
36931803 ATAGGATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.19, C:0.31, G:0.10, T:0.40
Consensus pattern (20 bp):
CACTGTTCTTGATCTAACTC
Found at i:36931973 original size:33 final size:33
Alignment explanation
Indices: 36931922--36931999 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 33
36931912 AGCTGATACC
* *
36931922 GTGAGCTCCCTTCAACTCCTGCGGGCCGATATA
1 GTGAGCTCCCTTCAACTCCCGCGAGCCGATATA
* * **
36931955 GTGAGCTCTCTTCCACTCCCGCGAGCCGATACC
1 GTGAGCTCCCTTCAACTCCCGCGAGCCGATATA
*
36931988 GCGAGCTCCCTT
1 GTGAGCTCCCTT
36932000 TTCTTCTACC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.15, C:0.38, G:0.23, T:0.23
Consensus pattern (33 bp):
GTGAGCTCCCTTCAACTCCCGCGAGCCGATATA
Found at i:36933428 original size:29 final size:29
Alignment explanation
Indices: 36933384--36933450 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
36933374 GTCTTTGTTA
* * *
36933384 GACAATAGTTCGAGGTTGAATCTATGCTT
1 GACAATAGTTCGAGGTTAAATATATGCTC
** *
36933413 GACAATAGTTTTAGGTTAAATATGTGCTC
1 GACAATAGTTCGAGGTTAAATATATGCTC
36933442 GACAATAGT
1 GACAATAGT
36933451 GCATCTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (29 bp):
GACAATAGTTCGAGGTTAAATATATGCTC
Found at i:36938228 original size:20 final size:20
Alignment explanation
Indices: 36938203--36938240 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
36938193 AATCTTTTCG
36938203 ATTCATTTCTACTTTGGACA
1 ATTCATTTCTACTTTGGACA
*
36938223 ATTCATTTCTGCTTTGGA
1 ATTCATTTCTACTTTGGA
36938241 TCGTTATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.47
Consensus pattern (20 bp):
ATTCATTTCTACTTTGGACA
Found at i:36946933 original size:21 final size:21
Alignment explanation
Indices: 36946901--36946941 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
36946891 GAACATTTGG
36946901 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
36946922 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
36946942 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:36950777 original size:39 final size:39
Alignment explanation
Indices: 36950734--36950913 Score: 229
Period size: 39 Copynumber: 4.6 Consensus size: 39
36950724 CACATTCACT
* *
36950734 TTTAAGCATATATCACATTA-TACATATAATTACATAATA
1 TTTAAGCATATATCACAATACT-CATATAATCACATAATA
* * * *
36950773 TTTAAACATATAACACAATACACATATAATTACATAATA
1 TTTAAGCATATATCACAATACTCATATAATCACATAATA
*
36950812 TTCAAGCATATATCACAATACTCATATAATCACATAA-A
1 TTTAAGCATATATCACAATACTCATATAATCACATAATA
* *
36950850 GTTCAAGCATATATCACAATACTCATATAATCACATAACA
1 -TTTAAGCATATATCACAATACTCATATAATCACATAATA
* *
36950890 TTTAAGCATATTTCATAATACTCA
1 TTTAAGCATATATCACAATACTCA
36950914 AAAACATGTT
Statistics
Matches: 126, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 124 0.98
40 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.33
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAATA
Found at i:36954450 original size:49 final size:49
Alignment explanation
Indices: 36954378--36954471 Score: 179
Period size: 49 Copynumber: 1.9 Consensus size: 49
36954368 CGGGCCACAA
36954378 GGCCCGGAGCTTCGAACATCACGTTTTGCATATAGCAACACCGTACTGT
1 GGCCCGGAGCTTCGAACATCACGTTTTGCATATAGCAACACCGTACTGT
*
36954427 GGCCCGGAGCTTCGAACATCACGTTTTGCATATAGCAACATCGTA
1 GGCCCGGAGCTTCGAACATCACGTTTTGCATATAGCAACACCGTA
36954472 TGGTGGTATC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (49 bp):
GGCCCGGAGCTTCGAACATCACGTTTTGCATATAGCAACACCGTACTGT
Found at i:36955917 original size:19 final size:20
Alignment explanation
Indices: 36955895--36955936 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
36955885 ATGGTATTGA
*
36955895 TACC-AAAGGAAAGTATAGG
1 TACCTAAAGAAAAGTATAGG
*
36955914 TACCTAAAGAAAAGTATTGG
1 TACCTAAAGAAAAGTATAGG
36955934 TAC
1 TAC
36955937 TTCAAACCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (20 bp):
TACCTAAAGAAAAGTATAGG
Found at i:36959969 original size:23 final size:23
Alignment explanation
Indices: 36959939--36959995 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
36959929 AATGTCAAGT
36959939 GAATTAATTCACAAATTGATTCA
1 GAATTAATTCACAAATTGATTCA
36959962 GAATTAATTCACAAATTGATTCA
1 GAATTAATTCACAAATTGATTCA
*
36959985 AAATTAATTCA
1 GAATTAATTCA
36959996 TCTTGGGTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (23 bp):
GAATTAATTCACAAATTGATTCA
Found at i:36959971 original size:11 final size:12
Alignment explanation
Indices: 36959940--36959995 Score: 71
Period size: 11 Copynumber: 4.8 Consensus size: 12
36959930 ATGTCAAGTG
36959940 AATTAATTCACA
1 AATTAATTCACA
* *
36959952 AATTGATTCA-G
1 AATTAATTCACA
36959963 AATTAATTCACA
1 AATTAATTCACA
*
36959975 AATTGATTCA-A
1 AATTAATTCACA
36959986 AATTAATTCA
1 AATTAATTCA
36959996 TCTTGGGTCC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
11 19 0.51
12 18 0.49
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.36
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:36961107 original size:14 final size:14
Alignment explanation
Indices: 36961088--36961119 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
36961078 AATAAACACC
*
36961088 AAAAAATTATTTTA
1 AAAAAAGTATTTTA
36961102 AAAAAAGTATTTTA
1 AAAAAAGTATTTTA
36961116 AAAA
1 AAAA
36961120 TATTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AAAAAAGTATTTTA
Found at i:36965344 original size:36 final size:36
Alignment explanation
Indices: 36965289--36965357 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
36965279 ATATCTGTTG
* *
36965289 ATGTCCTGGGTCTACGAGAGCTGTATTATGATGGCA
1 ATGTCCTAGGTCTAAGAGAGCTGTATTATGATGGCA
*
36965325 ATGTCCTAGGTGTAAGAGAGCTGTATTATGATG
1 ATGTCCTAGGTCTAAGAGAGCTGTATTATGATG
36965358 ACAAGAATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (36 bp):
ATGTCCTAGGTCTAAGAGAGCTGTATTATGATGGCA
Found at i:36975616 original size:13 final size:13
Alignment explanation
Indices: 36975582--36975619 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
36975572 TTACAAGACT
36975582 TGTTATAATTG-A
1 TGTTATAATTGAA
36975594 TAGTTA-AATTGAA
1 T-GTTATAATTGAA
36975607 TGTTATAATTGAA
1 TGTTATAATTGAA
36975620 AAATGTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (13 bp):
TGTTATAATTGAA
Found at i:36976384 original size:9 final size:10
Alignment explanation
Indices: 36976355--36976399 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
36976345 TTTACATACA
36976355 TAATAAATA-
1 TAATAAATAT
*
36976364 TAA-ATATAT
1 TAATAAATAT
36976373 TAATAAAT-T
1 TAATAAATAT
36976382 TAATAAATAT
1 TAATAAATAT
36976392 ATAATAAA
1 -TAATAAA
36976400 GCTTGCATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 4 0.13
9 15 0.50
10 4 0.13
11 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATAAATAT
Found at i:36994567 original size:84 final size:84
Alignment explanation
Indices: 36994454--36994617 Score: 217
Period size: 84 Copynumber: 2.0 Consensus size: 84
36994444 CAACTAAATC
* * *
36994454 AAGCGAAAGACCCAAAAATAAAAGAAAAACTGTGA-AGGGAAGAGAATAATAAAAGGAATAAAGA
1 AAGCGAAAGACCCAAAAATAAAAGAAAAACTATGAGA-GGAAAAGAAGAATAAAAGGAATAAAGA
* *
36994518 ACAATGAAATACCATAAACG
65 AAAAAGAAATACCATAAACG
* *
36994538 AAGCGGAAGACCCAGAATAA-AAAAG-AAAACTATGAGAGTAAAAGAAGAATAAAAGGAATAAAG
1 AAGCGAAAGACCCA-AA-AATAAAAGAAAAACTATGAGAGGAAAAGAAGAATAAAAGGAATAAAG
36994601 AAAAAAGAAATACCATA
64 AAAAAAGAAATACCATA
36994618 TTGTGAGCCC
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
84 60 0.86
85 8 0.11
86 2 0.03
ACGTcount: A:0.61, C:0.10, G:0.19, T:0.10
Consensus pattern (84 bp):
AAGCGAAAGACCCAAAAATAAAAGAAAAACTATGAGAGGAAAAGAAGAATAAAAGGAATAAAGAA
AAAAGAAATACCATAAACG
Found at i:37004585 original size:41 final size:41
Alignment explanation
Indices: 37004490--37004587 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 41
37004480 TCCACCAGGC
* * **
37004490 TTCGTGCCGATGAATTATATCAGGCTTTGAGCCTAGAAGGT
1 TTCGTGCCGGTGTATTATATCAGGCCCTGAGCCTAGAAGGT
* * * *
37004531 TTCATGTCAGTGTATTGA-ATCAGGCCCTGAGCCTAGTAGGT
1 TTCGTGCCGGTGTATT-ATATCAGGCCCTGAGCCTAGAAGGT
37004572 TTCGTGCCGGTGTATT
1 TTCGTGCCGGTGTATT
37004588 TGTTTCAGGC
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (41 bp):
TTCGTGCCGGTGTATTATATCAGGCCCTGAGCCTAGAAGGT
Found at i:37009451 original size:19 final size:19
Alignment explanation
Indices: 37009427--37009463 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37009417 TATTTTAAAG
37009427 TTATTTAGATAAATAAATC
1 TTATTTAGATAAATAAATC
* *
37009446 TTATTTAGGTAGATAAAT
1 TTATTTAGATAAATAAAT
37009464 TTTAGAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (19 bp):
TTATTTAGATAAATAAATC
Found at i:37013302 original size:19 final size:19
Alignment explanation
Indices: 37013264--37013304 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
37013254 TATTTTAAAG
* **
37013264 TTATTTAGGTAGATTTATC
1 TTATTTAGGTAAATAAATC
37013283 TTATTTAGGTAAATAAATC
1 TTATTTAGGTAAATAAATC
37013302 TTA
1 TTA
37013305 GAATAAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (19 bp):
TTATTTAGGTAAATAAATC
Found at i:37013390 original size:41 final size:41
Alignment explanation
Indices: 37013342--37013423 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
37013332 ATATTTTATT
*
37013342 TTATGTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATGTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
37013383 TTATGTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
1 TTATGTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
37013424 CAATTAGGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (41 bp):
TTATGTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
Found at i:37014416 original size:13 final size:13
Alignment explanation
Indices: 37014398--37014422 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37014388 AAAAAGAAAA
37014398 ACAAATTTTCTTC
1 ACAAATTTTCTTC
37014411 ACAAATTTTCTT
1 ACAAATTTTCTT
37014423 ACTAACTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (13 bp):
ACAAATTTTCTTC
Found at i:37026041 original size:30 final size:30
Alignment explanation
Indices: 37026005--37026162 Score: 237
Period size: 30 Copynumber: 5.3 Consensus size: 30
37025995 GACGCAAATA
37026005 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
1 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
* *
37026035 GGGAGACCTACTCCTGCTTCTTCGGTTTCT
1 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
37026065 GGGAGACCTGCTCCTGCTTCTAT-GATTTCT
1 GGGAGACCTGCTCCTGCTTCT-TCGATTTCT
* *
37026095 AGGAGACCTGCTCCTGCTTCTACGATTTCT
1 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
* * *
37026125 GGGAGACCTGCTTCTGCTTCTCCGGTTTCT
1 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
37026155 GGGAGACC
1 GGGAGACC
37026163 AACTAAAACA
Statistics
Matches: 116, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 115 0.99
31 1 0.01
ACGTcount: A:0.12, C:0.29, G:0.25, T:0.34
Consensus pattern (30 bp):
GGGAGACCTGCTCCTGCTTCTTCGATTTCT
Found at i:37027097 original size:20 final size:22
Alignment explanation
Indices: 37027058--37027099 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
37027048 AATTCTAAAC
37027058 TTGCTAAACATACAACAGATAA
1 TTGCTAAACATACAACAGATAA
*
37027080 TTGC-AAAC-TACAAGAGATAA
1 TTGCTAAACATACAACAGATAA
37027100 AGAGTCGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (22 bp):
TTGCTAAACATACAACAGATAA
Found at i:37053318 original size:9 final size:9
Alignment explanation
Indices: 37053304--37053384 Score: 63
Period size: 9 Copynumber: 8.6 Consensus size: 9
37053294 TTTGGTTAAA
37053304 AATTACCCG
1 AATTACCCG
*
37053313 AATTACTCG
1 AATTACCCG
* *
37053322 GATTACCCA
1 AATTACCCG
37053331 AATTACCCG
1 AATTACCCG
*
37053340 AAAATTACCCA
1 --AATTACCCG
37053351 AATTACCCG
1 AATTACCCG
* *
37053360 AAAATTATCCA
1 --AATTACCCG
*
37053371 AATTACCGG
1 AATTACCCG
37053380 AATTA
1 AATTA
37053385 AATCACTACA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
9 40 0.73
11 15 0.27
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:37053346 original size:11 final size:11
Alignment explanation
Indices: 37053330--37053366 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
37053320 CGGATTACCC
37053330 AAATTACCCGA
1 AAATTACCCGA
37053341 AAATTACCC--
1 AAATTACCCGA
37053350 AAATTACCCGA
1 AAATTACCCGA
37053361 AAATTA
1 AAATTA
37053367 TCCAAATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.38
11 15 0.62
ACGTcount: A:0.49, C:0.24, G:0.05, T:0.22
Consensus pattern (11 bp):
AAATTACCCGA
Found at i:37053348 original size:20 final size:20
Alignment explanation
Indices: 37053302--37053377 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
37053292 TTTTTGGTTA
* *
37053302 AAAATTACCCGAATTACTCG
1 AAAATTACCCAAATTACCCG
*
37053322 --GATTACCCAAATTACCCG
1 AAAATTACCCAAATTACCCG
37053340 AAAATTACCCAAATTACCCG
1 AAAATTACCCAAATTACCCG
*
37053360 AAAATTATCCAAATTACC
1 AAAATTACCCAAATTACC
37053378 GGAATTAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 15 0.31
20 34 0.69
ACGTcount: A:0.42, C:0.28, G:0.07, T:0.24
Consensus pattern (20 bp):
AAAATTACCCAAATTACCCG
Found at i:37053413 original size:17 final size:17
Alignment explanation
Indices: 37053380--37053488 Score: 69
Period size: 17 Copynumber: 6.1 Consensus size: 17
37053370 AAATTACCGG
*
37053380 AATT-AAATCACTACAT
1 AATTAAAATCATTACAT
*
37053396 AATTAAAAGCATTACAT
1 AATTAAAATCATTACAT
* *
37053413 AAATCTTTAAATCACTACAT
1 -AA--TTAAAATCATTACAT
37053433 AATTAAAA-CTATTACAT
1 AATTAAAATC-ATTACAT
** *
37053450 AAGTCTTTGAATCACTACAT
1 AA---TTAAAATCATTACAT
*
37053470 AATTAAAAACATTACAT
1 AATTAAAATCATTACAT
37053487 AA
1 AA
37053489 GTCTTGAATT
Statistics
Matches: 70, Mismatches: 14, Indels: 17
0.69 0.14 0.17
Matches are distributed among these distances:
16 5 0.07
17 36 0.51
18 2 0.03
19 2 0.03
20 24 0.34
21 1 0.01
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.32
Consensus pattern (17 bp):
AATTAAAATCATTACAT
Found at i:37053428 original size:37 final size:37
Alignment explanation
Indices: 37053382--37053532 Score: 223
Period size: 37 Copynumber: 4.0 Consensus size: 37
37053372 ATTACCGGAA
* *
37053382 TTAAATCACTACATAATTAAAAGCATTACATAAATCT
1 TTAAATCACTACATAATTAAAAACATTACATAAGTCT
37053419 TTAAATCACTACATAATT-AAAACTATTACATAAGTCT
1 TTAAATCACTACATAATTAAAAAC-ATTACATAAGTCT
*
37053456 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTAAATCACTACATAATTAAAAACATTACATAAGTCT
* *
37053493 TGAATTAACACTACATAATTAAAAACATTACATAAGTCT
1 TTAA--ATCACTACATAATTAAAAACATTACATAAGTCT
37053532 T
1 T
37053533 GAATTAACAC
Statistics
Matches: 104, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
36 4 0.04
37 62 0.60
38 5 0.05
39 33 0.32
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (37 bp):
TTAAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:37053433 original size:20 final size:18
Alignment explanation
Indices: 37053382--37053434 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 18
37053372 ATTACCGGAA
37053382 TTAAATCACTACAT-AAT
1 TTAAATCACTACATAAAT
* * *
37053399 TAAAAGCATTACATAAATCT
1 TTAAATCACTACATAAA--T
37053419 TTAAATCACTACATAA
1 TTAAATCACTACATAA
37053435 TTAAAACTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 11 0.41
18 2 0.07
20 14 0.52
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (18 bp):
TTAAATCACTACATAAAT
Found at i:37053507 original size:22 final size:22
Alignment explanation
Indices: 37053477--37053542 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
37053467 CATAATTAAA
*
37053477 AACATTACATAAGTCTTGAATT
1 AACACTACATAAGTCTTGAATT
*
37053499 AACACTACATAA---TT-AA-A
1 AACACTACATAAGTCTTGAATT
*
37053516 AACATTACATAAGTCTTGAATT
1 AACACTACATAAGTCTTGAATT
37053538 AACAC
1 AACAC
37053543 ATAATTGACA
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
17 11 0.32
18 2 0.06
19 2 0.06
20 2 0.06
21 2 0.06
22 15 0.44
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (22 bp):
AACACTACATAAGTCTTGAATT
Found at i:37053524 original size:17 final size:17
Alignment explanation
Indices: 37053391--37053527 Score: 69
Period size: 17 Copynumber: 7.4 Consensus size: 17
37053381 ATTAAATCAC
*
37053391 TACATAATTAAAAGCAT
1 TACATAATTAAAAACAT
* * *
37053408 TACATAAATCTTTAAATCAC
1 TACAT-AA--TTAAAAACAT
37053428 TACATAATT-AAAACTAT
1 TACATAATTAAAAAC-AT
** * *
37053445 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
37053465 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
* *
37053482 TACATAAGTCTTGAATTAACAC
1 TACATAA---TT-AA-AAACAT
37053504 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
37053521 TACATAA
1 TACATAA
37053528 GTCTTGAATT
Statistics
Matches: 91, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
16 4 0.04
17 39 0.43
18 4 0.04
19 4 0.04
20 24 0.26
21 5 0.05
22 11 0.12
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:37056277 original size:11 final size:11
Alignment explanation
Indices: 37056263--37056291 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
37056253 TTCGTATTTA
37056263 TTATTTATTAT
1 TTATTTATTAT
37056274 TTATTTATTAT
1 TTATTTATTAT
37056285 TTATTTA
1 TTATTTA
37056292 ACAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTTATTAT
Found at i:37056377 original size:16 final size:16
Alignment explanation
Indices: 37056356--37056411 Score: 96
Period size: 17 Copynumber: 3.5 Consensus size: 16
37056346 GGGCCTTGAT
37056356 ATTATAATGATGAAAA
1 ATTATAATGATGAAAA
37056372 ATTATAATGATGAAAAA
1 ATTATAATGATG-AAAA
37056389 ATTATAATGATG-AAA
1 ATTATAATGATGAAAA
37056404 ATTATAAT
1 ATTATAAT
37056412 ATTAGTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
15 11 0.28
16 12 0.31
17 16 0.41
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (16 bp):
ATTATAATGATGAAAA
Found at i:37056620 original size:15 final size:15
Alignment explanation
Indices: 37056600--37056635 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
37056590 ATGTGTAAAG
37056600 AAATTTGTAAGTAAT
1 AAATTTGTAAGTAAT
*
37056615 AAATTTGTATGTAAT
1 AAATTTGTAAGTAAT
37056630 AAATTT
1 AAATTT
37056636 TTACTTACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (15 bp):
AAATTTGTAAGTAAT
Found at i:37056704 original size:42 final size:43
Alignment explanation
Indices: 37056615--37056709 Score: 129
Period size: 42 Copynumber: 2.2 Consensus size: 43
37056605 TGTAAGTAAT
* *
37056615 AAATTTGTATGTAATAAATTTTTACTTACACTGGATATGTAAAG
1 AAATTTGTAAGTAATAAATTTATAC-TACACTGGATATGTAAAG
** *
37056659 AAATTTGTAAGTAATAAATTTATA-TATGCTGGATGTGTAAAG
1 AAATTTGTAAGTAATAAATTTATACTACACTGGATATGTAAAG
37056701 AAATTTGTA
1 AAATTTGTA
37056710 CACTGGATGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 24 0.52
44 22 0.48
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (43 bp):
AAATTTGTAAGTAATAAATTTATACTACACTGGATATGTAAAG
Found at i:37056717 original size:25 final size:25
Alignment explanation
Indices: 37056687--37056734 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
37056677 TTTATATATG
37056687 CTGGATGTGTAAAGAAATTTGTACA
1 CTGGATGTGTAAAGAAATTTGTACA
37056712 CTGGATGTGTAAAGAAATTTGTA
1 CTGGATGTGTAAAGAAATTTGTA
37056735 AGTAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.33
Consensus pattern (25 bp):
CTGGATGTGTAAAGAAATTTGTACA
Found at i:37057187 original size:11 final size:11
Alignment explanation
Indices: 37057167--37057199 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
37057157 CTGATTCTAC
37057167 TGTTGAGTGTT
1 TGTTGAGTGTT
*
37057178 TGTTGGGTGTT
1 TGTTGAGTGTT
37057189 TGTTGAGTGTT
1 TGTTGAGTGTT
37057200 GGGTGTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.06, C:0.00, G:0.39, T:0.55
Consensus pattern (11 bp):
TGTTGAGTGTT
Found at i:37070956 original size:9 final size:9
Alignment explanation
Indices: 37070942--37070978 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
37070932 GAACATAATG
37070942 GAAAAAAAA
1 GAAAAAAAA
37070951 GAAAAAAAA
1 GAAAAAAAA
*
37070960 GAACATAAAA
1 GAA-AAAAAA
37070970 GAAAAAAAA
1 GAAAAAAAA
37070979 TTAAATTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.84, C:0.03, G:0.11, T:0.03
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:37078624 original size:26 final size:26
Alignment explanation
Indices: 37078576--37078628 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
37078566 CTAGTAAAGT
** *
37078576 AAGGTAGGCTTCTCTCTTAGAGTTCC
1 AAGGTAGGCAACTCCCTTAGAGTTCC
*
37078602 AAGGTAGGCAACTCCCTTGGAGTTCC
1 AAGGTAGGCAACTCCCTTAGAGTTCC
37078628 A
1 A
37078629 TCGCCATAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (26 bp):
AAGGTAGGCAACTCCCTTAGAGTTCC
Found at i:37079396 original size:7 final size:8
Alignment explanation
Indices: 37079379--37079412 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
37079369 GGACCAGTCC
37079379 AATTAAAA
1 AATTAAAA
37079387 AATT-AAA
1 AATTAAAA
37079394 AATTCAAAA
1 AATT-AAAA
37079403 AATTAAAA
1 AATTAAAA
37079411 AA
1 AA
37079413 CCTGGTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.29
8 10 0.42
9 7 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (8 bp):
AATTAAAA
Found at i:37081549 original size:74 final size:72
Alignment explanation
Indices: 37081458--37081621 Score: 197
Period size: 74 Copynumber: 2.2 Consensus size: 72
37081448 AAATCAGAAG
* * *
37081458 GTCTGCTTTTATTTTCTAAAGC-TTATGTTTGGTGCTAAGTACAA-AGTAAAACATAAGTAACAA
1 GTCTGTTTTTATTTTCTAAA-CTTTATGTTTGGTGCAAAGTA-AAGA-AAAAACATAAGTAACAA
*
37081521 GTAACCCAAAA
63 GTAACAC-AAA
* * * *
37081532 GTCTGTTTTTATCTTCTAAACTTTATTTTTTGTGCAAAGTAAAGAAAAAACCTAAGTAACAAGTA
1 GTCTGTTTTTATTTTCTAAACTTTATGTTTGGTGCAAAGTAAAGAAAAAACATAAGTAACAAGTA
37081597 ACACAAA
66 ACACAAA
*
37081604 GTCCGTTTTTATTTTCTA
1 GTCTGTTTTTATTTTCTA
37081622 TTATTACAGA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
72 19 0.24
73 24 0.31
74 35 0.45
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (72 bp):
GTCTGTTTTTATTTTCTAAACTTTATGTTTGGTGCAAAGTAAAGAAAAAACATAAGTAACAAGTA
ACACAAA
Found at i:37081844 original size:161 final size:161
Alignment explanation
Indices: 37081579--37081900 Score: 626
Period size: 161 Copynumber: 2.0 Consensus size: 161
37081569 AGTAAAGAAA
*
37081579 AAACCTAAGTAACAAGTAACACAAAGTCCGTTTTTATTTTCTATTATTACAGATGAAAAGACGAG
1 AAACCTAAGTAACAAGTAACACAAAGTCCGTTTTTATTTTCTATTATTACAGATGAAAAGACAAG
37081644 CAAGATACAATAGCCAACCACACAAAGGCACGTCCATAGTTCAAAGACTAATTTCTTTGAGTGTG
66 CAAGATACAATAGCCAACCACACAAAGGCACGTCCATAGTTCAAAGACTAATTTCTTTGAGTGTG
37081709 CCTGGATGTTTGGAGGAACAGGGGGTGAGGT
131 CCTGGATGTTTGGAGGAACAGGGGGTGAGGT
37081740 AAACCTAAGTAACAAGTAACACAAAGTCCGTTTTTATTTTCTATTATTACAGATGAAAAGACAAG
1 AAACCTAAGTAACAAGTAACACAAAGTCCGTTTTTATTTTCTATTATTACAGATGAAAAGACAAG
37081805 CAAGATACAATAGCCAACCACACAAAGGCACGTCCATAGTTCAAAGACTAATTTCTTTGAGTGTG
66 CAAGATACAATAGCCAACCACACAAAGGCACGTCCATAGTTCAAAGACTAATTTCTTTGAGTGTG
*
37081870 CCTGGGTGTTTGGAGGAACAGGGGGTGAGGT
131 CCTGGATGTTTGGAGGAACAGGGGGTGAGGT
37081901 GAGGGCTTAG
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 159 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (161 bp):
AAACCTAAGTAACAAGTAACACAAAGTCCGTTTTTATTTTCTATTATTACAGATGAAAAGACAAG
CAAGATACAATAGCCAACCACACAAAGGCACGTCCATAGTTCAAAGACTAATTTCTTTGAGTGTG
CCTGGATGTTTGGAGGAACAGGGGGTGAGGT
Found at i:37082107 original size:148 final size:148
Alignment explanation
Indices: 37081839--37082140 Score: 586
Period size: 148 Copynumber: 2.0 Consensus size: 148
37081829 AAGGCACGTC
*
37081839 CATAGTTCAAAGACTAATTTCTTTGAGTGTGCCTGGGTGTTTGGAGGAACAGGGGGTGAGGTGAG
1 CATAGTTCAAAGACTAATTTCTTTGAGTGTGCCTGGGTATTTGGAGGAACAGGGGGTGAGGTGAG
37081904 GGCTTAGTGATATATGGATAAGACTAAGAACTCGAGGGAAAAAAAACTTAAAGAATGTATTAATA
66 GGCTTAGTGATATATGGATAAGACTAAGAACTCGAGGGAAAAAAAACTTAAAGAATGTATTAATA
37081969 TAACTCTGAGAAGAGCAA
131 TAACTCTGAGAAGAGCAA
*
37081987 CATAGTTCAAAGACTAATTTCTTTGTGTGTGCCTGGGTATTTGGAGGAACAGGGGGTGAGGTGAG
1 CATAGTTCAAAGACTAATTTCTTTGAGTGTGCCTGGGTATTTGGAGGAACAGGGGGTGAGGTGAG
37082052 GGCTTAGTGATATATGGATAAGACTAAGAACTCGAGGGAAAAAAAACTTAAAGAATGTATTAATA
66 GGCTTAGTGATATATGGATAAGACTAAGAACTCGAGGGAAAAAAAACTTAAAGAATGTATTAATA
37082117 TAACTCTGAGAAGAGCAA
131 TAACTCTGAGAAGAGCAA
37082135 CATAGT
1 CATAGT
37082141 GGTTATAAAA
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 152 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (148 bp):
CATAGTTCAAAGACTAATTTCTTTGAGTGTGCCTGGGTATTTGGAGGAACAGGGGGTGAGGTGAG
GGCTTAGTGATATATGGATAAGACTAAGAACTCGAGGGAAAAAAAACTTAAAGAATGTATTAATA
TAACTCTGAGAAGAGCAA
Found at i:37084367 original size:66 final size:66
Alignment explanation
Indices: 37084260--37084394 Score: 216
Period size: 66 Copynumber: 2.0 Consensus size: 66
37084250 TGAGTGTCCA
* * * * *
37084260 AAAATTACATGAAGACCATCTCAACAAGTTTTGTGATTATCTCCAAAGAACATTACTTCCTATAA
1 AAAATTACATGAAAACAATCTCAACAAGTTTTGTGACTATCTCCAAAGAACATTAATTCCTACAA
37084325 C
66 C
*
37084326 AAAATTACATGAAAACAATCTCAACGAGTTTTGTGACTATCTCCAAAGAACATTAATTCCTACAA
1 AAAATTACATGAAAACAATCTCAACAAGTTTTGTGACTATCTCCAAAGAACATTAATTCCTACAA
37084391 C
66 C
37084392 AAA
1 AAA
37084395 CTTAAAAGGG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (66 bp):
AAAATTACATGAAAACAATCTCAACAAGTTTTGTGACTATCTCCAAAGAACATTAATTCCTACAA
C
Found at i:37089824 original size:38 final size:38
Alignment explanation
Indices: 37089779--37089851 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
37089769 GAGCTTGTTT
*
37089779 GAATGGTTGAATGAATGCATGTTTGGTTGTTGTTTGAG
1 GAATGGTTGAATGAATGCATGTTTGATTGTTGTTTGAG
37089817 GAATGGTTGAATGAATGCATGTTTGATTGTTGTTT
1 GAATGGTTGAATGAATGCATGTTTGATTGTTGTTT
37089852 AAGGTGTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.22, C:0.03, G:0.32, T:0.44
Consensus pattern (38 bp):
GAATGGTTGAATGAATGCATGTTTGATTGTTGTTTGAG
Found at i:37093206 original size:13 final size:13
Alignment explanation
Indices: 37093188--37093223 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
37093178 TTATAAGGTA
37093188 TGAAATGAATGTT
1 TGAAATGAATGTT
37093201 TGAAATGAATGTT
1 TGAAATGAATGTT
*
37093214 TGTAATGAAT
1 TGAAATGAAT
37093224 ATATTGACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (13 bp):
TGAAATGAATGTT
Found at i:37100203 original size:28 final size:29
Alignment explanation
Indices: 37100164--37100227 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
37100154 TAATAAACAT
*
37100164 TAAAAAATTATTTTAAAA-ATTAAAAAAA
1 TAAAAAAATATTTTAAAAGATTAAAAAAA
* *
37100192 TAAAAAAATATTTTAAAAGTATTTAAAAAT
1 TAAAAAAATATTTTAAAAG-ATTAAAAAAA
37100222 TAAAAA
1 TAAAAA
37100228 TAAAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 17 0.55
30 14 0.45
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (29 bp):
TAAAAAAATATTTTAAAAGATTAAAAAAA
Found at i:37102987 original size:42 final size:42
Alignment explanation
Indices: 37102928--37103009 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
37102918 ATGAGTTTCT
* * *
37102928 GTTTAACCCTAATGGGTTTCAGTTTAGCTCTTTTGAGCTTTA
1 GTTTAACCCTAACGGGTTTCAGTTCAGCTCTTATGAGCTTTA
*
37102970 GTTTAACTCCT-ACGGGTTTCCGTTCAGCTCTTATGAGCTT
1 GTTTAAC-CCTAACGGGTTTCAGTTCAGCTCTTATGAGCTT
37103010 CCGTTCAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.43
Consensus pattern (42 bp):
GTTTAACCCTAACGGGTTTCAGTTCAGCTCTTATGAGCTTTA
Found at i:37103032 original size:21 final size:21
Alignment explanation
Indices: 37102983--37103035 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
37102973 TAACTCCTAC
* *
37102983 GGGTTTCCGTTCAGCTCTTAT
1 GGGTTTCCGTTCAACCCTTAT
* * *
37103004 GAGCTTCCGTTCAACCCTTGT
1 GGGTTTCCGTTCAACCCTTAT
37103025 GGGTTTCCGTT
1 GGGTTTCCGTT
37103036 TAGCATTTCT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.09, C:0.26, G:0.25, T:0.40
Consensus pattern (21 bp):
GGGTTTCCGTTCAACCCTTAT
Found at i:37104393 original size:55 final size:55
Alignment explanation
Indices: 37104309--37104419 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
37104299 AATTTACAAG
*
37104309 AAACAACAAACACGCACAAGTAAGCTTACAGAAAGCTTAGTAAGTTCATAGGCTC
1 AAACAACAAACACACACAAGTAAGCTTACAGAAAGCTTAGTAAGTTCATAGGCTC
37104364 AAACAACAAACACACACAAGTAAGCTTACAGAAAGCTTAGTAAGTTCATAGGCTC
1 AAACAACAAACACACACAAGTAAGCTTACAGAAAGCTTAGTAAGTTCATAGGCTC
37104419 A
1 A
37104420 TAATAAAATC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (55 bp):
AAACAACAAACACACACAAGTAAGCTTACAGAAAGCTTAGTAAGTTCATAGGCTC
Found at i:37104738 original size:46 final size:45
Alignment explanation
Indices: 37104671--37104802 Score: 165
Period size: 46 Copynumber: 2.9 Consensus size: 45
37104661 TATAACTCAA
* * *
37104671 TATGGTTTTCTTCACTGAAATATCATACCTACTTTTCACAAATCAG
1 TATGGTTTTCTT-ACTGAAATACCATACCTACGTTCCACAAATCAG
* *
37104717 TATGGTTTTCGTTACTGAAATACCATAGCTACGTTCCACAACTCAG
1 TATGGTTTTC-TTACTGAAATACCATACCTACGTTCCACAAATCAG
* * *
37104763 AATGGTTTTCTTTACTGAATTACCATACCTACATTCCACA
1 TATGGTTTTC-TTACTGAAATACCATACCTACGTTCCACA
37104803 CTTTGCCATG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
46 73 0.97
47 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (45 bp):
TATGGTTTTCTTACTGAAATACCATACCTACGTTCCACAAATCAG
Found at i:37111046 original size:46 final size:45
Alignment explanation
Indices: 37110979--37111110 Score: 165
Period size: 46 Copynumber: 2.9 Consensus size: 45
37110969 TATAACTCAA
* * * *
37110979 TATGGTTTTCTTCACTGAAATATCATACCTACTTTTCACAAATCAG
1 TATGGTTTTCTT-ACTAAAATACCATACCTACGTTCCACAAATCAG
*
37111025 TATGGTTTTCGTTACTAAAATACCATACCTACGTTCCACAACTCAG
1 TATGGTTTTC-TTACTAAAATACCATACCTACGTTCCACAAATCAG
* * *
37111071 TATGGTTTTCTTTACTGAATTGCCATACCTACGTTCCACA
1 TATGGTTTTC-TTACTAAAATACCATACCTACGTTCCACA
37111111 CTTTGCCATG
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
46 74 0.97
47 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (45 bp):
TATGGTTTTCTTACTAAAATACCATACCTACGTTCCACAAATCAG
Found at i:37117156 original size:42 final size:42
Alignment explanation
Indices: 37117066--37117166 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
37117056 TTTAACCCTA
* * * *
37117066 ATGGGTTTCAGTTCAGCTCTTTTGAGCTTCAGTTTATCCTCT
1 ATGGGTTTCCGTTTAGCTCTTATGAGCTTCAGTTAATCCTCT
* *
37117108 ACGGGTTTCCGTTTAGCTCTTATGAGCTTCCGTTCAATCCT-T
1 ATGGGTTTCCGTTTAGCTCTTATGAGCTTCAGTT-AATCCTCT
*
37117150 GTGGGTTTCCGTTTAGC
1 ATGGGTTTCCGTTTAGC
37117167 ACTTCTGTGC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
42 45 0.90
43 5 0.10
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.43
Consensus pattern (42 bp):
ATGGGTTTCCGTTTAGCTCTTATGAGCTTCAGTTAATCCTCT
Found at i:37121855 original size:66 final size:66
Alignment explanation
Indices: 37121772--37121907 Score: 254
Period size: 66 Copynumber: 2.1 Consensus size: 66
37121762 CATATCTTTG
* *
37121772 ATTCCGGAGATAGTTTTGGGGCATAAGAAAGCTTAGGTAAATATTTTTTTCATTTTATTGTAATT
1 ATTCCAGAGATAGTTTTGGGGAATAAGAAAGCTTAGGTAAATATTTTTTTCATTTTATTGTAATT
37121837 T
66 T
37121838 ATTCCAGAGATAGTTTTGGGGAATAAGAAAGCTTAGGTAAATATTTTTTTCATTTTATTGTAATT
1 ATTCCAGAGATAGTTTTGGGGAATAAGAAAGCTTAGGTAAATATTTTTTTCATTTTATTGTAATT
37121903 T
66 T
37121904 ATTC
1 ATTC
37121908 TAATCCTTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.44
Consensus pattern (66 bp):
ATTCCAGAGATAGTTTTGGGGAATAAGAAAGCTTAGGTAAATATTTTTTTCATTTTATTGTAATT
T
Found at i:37122509 original size:14 final size:14
Alignment explanation
Indices: 37122490--37122516 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37122480 TTTTCAGATC
37122490 TTATTATTTTATTA
1 TTATTATTTTATTA
37122504 TTATTATTTTATT
1 TTATTATTTTATT
37122517 CCGAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTATTTTATTA
Found at i:37123017 original size:18 final size:18
Alignment explanation
Indices: 37122967--37123017 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
37122957 ATTCACTTCC
37122967 TTTATCTTTGATTTA-TTAT
1 TTTAT-TTT-ATTTATTTAT
*
37122986 TTTATTTTAGTTATTTAT
1 TTTATTTTATTTATTTAT
37123004 TTTAATTTT-TTTAT
1 TTT-ATTTTATTTAT
37123018 CTGACTTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.14
18 14 0.50
19 10 0.36
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (18 bp):
TTTATTTTATTTATTTAT
Found at i:37127429 original size:69 final size:69
Alignment explanation
Indices: 37127307--37127734 Score: 405
Period size: 69 Copynumber: 6.2 Consensus size: 69
37127297 TTTGTCTGTA
* * * * * * *
37127307 AACCTTGATTGTATAGTTGAGAGCTTTGCTCT-TGCTAAC-AGTTGTGGAAGTTGCGGCTCTTCA
1 AACCTTGATTTTACAGCTGGGAGCTTTGCTCTCT-CTAACTA-TTTTGGAGGTTGCGGCTCTTCG
* *
37127370 CTTGTG
64 CCTGCG
* * * *
37127376 AACCTTAATTTTTCAGTTGGGAGCTTTGCTCTCTCTAACTATTTTGGAGGTTGCGGCTCTTCGCA
1 AACCTTGATTTTACAGCTGGGAGCTTTGCTCTCTCTAACTATTTTGGAGGTTGCGGCTCTTCGCC
37127441 TGCG
66 TGCG
* * * * *
37127445 AACCTTGATTTTACAGCTGAGAGCTTTGCTTTCACTAACTGTTTTGGAGGTCGCGGCTCTTCGCC
1 AACCTTGATTTTACAGCTGGGAGCTTTGCTCTCTCTAACTATTTTGGAGGTTGCGGCTCTTCGCC
* *
37127510 TACA
66 TGCG
* * *
37127514 AACCTTGATTTTACAGCTGGGAGCTTTTCTCT-TGCTAACTATTTTGGAGGTTGTGGCTCTTTGC
1 AACCTTGATTTTACAGCTGGGAGCTTTGCTCTCT-CTAACTATTTTGGAGGTTGCGGCTCTTCGC
*
37127578 CTACG
65 CTGCG
* * * * * ** *
37127583 AACCTTGATTTTACAGCTGGGAGTTTTACTCTCACTAATTGTTTTGGAGGTCACGACTCTTCGCC
1 AACCTTGATTTTACAGCTGGGAGCTTTGCTCTCTCTAACTATTTTGGAGGTTGCGGCTCTTCGCC
*
37127648 TGTG
66 TGCG
* * ** * * * * * *
37127652 AACCTTGATTTTACAGTTGGGAGCTTTACTCTAGCTAACTGTTTTGAAGGTTGTGGATTTTTGCC
1 AACCTTGATTTTACAGCTGGGAGCTTTGCTCTCTCTAACTATTTTGGAGGTTGCGGCTCTTCGCC
37127717 TGCG
66 TGCG
37127721 AAGCC-TGATTTTAC
1 AA-CCTTGATTTTAC
37127735 CGGCTATAGT
Statistics
Matches: 298, Mismatches: 56, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
69 294 0.99
70 4 0.01
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.38
Consensus pattern (69 bp):
AACCTTGATTTTACAGCTGGGAGCTTTGCTCTCTCTAACTATTTTGGAGGTTGCGGCTCTTCGCC
TGCG
Found at i:37127661 original size:207 final size:207
Alignment explanation
Indices: 37127306--37127702 Score: 483
Period size: 207 Copynumber: 1.9 Consensus size: 207
37127296 TTTTGTCTGT
* *
37127306 AAACCTTGATTGTATAGTTGAGAGCTTTGCTCTTGCTAACAGTTGTGGAAGTTGCGGCTCTTCAC
1 AAACCTTGATTGTACAGCTGAGAGCTTTGCTCTTGCTAACAGTTGTGGAAGTTGCGGCTCTTCAC
* ** * * * * ** *
37127371 TTGTGAACCTTAATTTTTCAGTTGGGAGCTTTGCTCTCTCTAACTATTTTGGAGGTTGCGGCTCT
66 CTACGAACCTTAATTTTACAGCTGGGAGCTTTACTCTCACTAACTATTTTGGAGGTCACGACTCT
* * *
37127436 TCGCATGCGAACCTTGATTTTACAGCTGAGAGCTTTGCTTTCA-CTAACTGTTTTGGAGGTCGCG
131 TCGCATGCGAACCTTGATTTTACAGCTGAGAGCTTTACTCT-AGCTAACTGTTTTGAAGGTCGCG
37127500 GCTCTTCGCCTAC
195 GCTCTTCGCCTAC
* * * * * * **
37127513 AAACCTTGATTTTACAGCTGGGAGCTTTTCTCTTGCTAACTA-TTTTGGAGGTTGTGGCTCTTTG
1 AAACCTTGATTGTACAGCTGAGAGCTTTGCTCTTGCTAAC-AGTTGTGGAAGTTGCGGCTCTTCA
* * * *
37127577 CCTACGAACCTTGATTTTACAGCTGGGAGTTTTACTCTCACTAATTGTTTTGGAGGTCACGACTC
65 CCTACGAACCTTAATTTTACAGCTGGGAGCTTTACTCTCACTAACTATTTTGGAGGTCACGACTC
* * * *
37127642 TTCGCCTGTGAACCTTGATTTTACAGTTGGGAGCTTTACTCTAGCTAACTGTTTTGAAGGT
130 TTCGCATGCGAACCTTGATTTTACAGCTGAGAGCTTTACTCTAGCTAACTGTTTTGAAGGT
37127703 TGTGGATTTT
Statistics
Matches: 157, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
206 1 0.01
207 155 0.99
208 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (207 bp):
AAACCTTGATTGTACAGCTGAGAGCTTTGCTCTTGCTAACAGTTGTGGAAGTTGCGGCTCTTCAC
CTACGAACCTTAATTTTACAGCTGGGAGCTTTACTCTCACTAACTATTTTGGAGGTCACGACTCT
TCGCATGCGAACCTTGATTTTACAGCTGAGAGCTTTACTCTAGCTAACTGTTTTGAAGGTCGCGG
CTCTTCGCCTAC
Found at i:37127705 original size:138 final size:138
Alignment explanation
Indices: 37127307--37127734 Score: 480
Period size: 138 Copynumber: 3.1 Consensus size: 138
37127297 TTTGTCTGTA
* * * * ** * * * ** * * *
37127307 AACCTTGATTGTATAGTTGAGAGCTTTGCTCTTGCTAACAGTTGTGGAAGTTGCGGCTCTTCACT
1 AACCTTGATTTTACAGCTGAGAGCTTTACTCTCACTAACTGTTTTGGAGGTCACGACTCTTCGCC
* * * ** *
37127372 TGTGAACCTTAATTTTTCAGTTGGGAGCTTTGCTCTCTCTAACTATTTTGGAGGTTGCGGCTCTT
66 TGTGAACCTTGATTTTACAGTTGGGAGCTTTACTCTAGCTAACTATTTTGGAGGTTGTGGCTCTT
* *
37127437 CGCATGCG
131 TGCCTGCG
* * * *
37127445 AACCTTGATTTTACAGCTGAGAGCTTTGCTTTCACTAACTGTTTTGGAGGTCGCGGCTCTTCGCC
1 AACCTTGATTTTACAGCTGAGAGCTTTACTCTCACTAACTGTTTTGGAGGTCACGACTCTTCGCC
*** * * *
37127510 TACAAACCTTGATTTTACAGCTGGGAGCTTTTCTCTTGCTAACTATTTTGGAGGTTGTGGCTCTT
66 TGTGAACCTTGATTTTACAGTTGGGAGCTTTACTCTAGCTAACTATTTTGGAGGTTGTGGCTCTT
*
37127575 TGCCTACG
131 TGCCTGCG
* * *
37127583 AACCTTGATTTTACAGCTGGGAGTTTTACTCTCACTAATTGTTTTGGAGGTCACGACTCTTCGCC
1 AACCTTGATTTTACAGCTGAGAGCTTTACTCTCACTAACTGTTTTGGAGGTCACGACTCTTCGCC
* * * *
37127648 TGTGAACCTTGATTTTACAGTTGGGAGCTTTACTCTAGCTAACTGTTTTGAAGGTTGTGGATTTT
66 TGTGAACCTTGATTTTACAGTTGGGAGCTTTACTCTAGCTAACTATTTTGGAGGTTGTGGCTCTT
37127713 TGCCTGCG
131 TGCCTGCG
37127721 AAGCC-TGATTTTAC
1 AA-CCTTGATTTTAC
37127735 CGGCTATAGT
Statistics
Matches: 246, Mismatches: 43, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
138 244 0.99
139 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.38
Consensus pattern (138 bp):
AACCTTGATTTTACAGCTGAGAGCTTTACTCTCACTAACTGTTTTGGAGGTCACGACTCTTCGCC
TGTGAACCTTGATTTTACAGTTGGGAGCTTTACTCTAGCTAACTATTTTGGAGGTTGTGGCTCTT
TGCCTGCG
Found at i:37132649 original size:39 final size:39
Alignment explanation
Indices: 37132587--37132661 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
37132577 TGGACATAGC
* *
37132587 TTGCGACCTCGTTCCTGTGAGGCTTACGCGAACTCTTCT
1 TTGCGACCTCATTCCTGTAAGGCTTACGCGAACTCTTCT
* *
37132626 TTGCGACCTCATTCCT-TCAAGGCTTACTCGAGCTCT
1 TTGCGACCTCATTCCTGT-AAGGCTTACGCGAACTCT
37132662 CCTTGCGGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.03
39 30 0.97
ACGTcount: A:0.15, C:0.32, G:0.20, T:0.33
Consensus pattern (39 bp):
TTGCGACCTCATTCCTGTAAGGCTTACGCGAACTCTTCT
Found at i:37134787 original size:24 final size:23
Alignment explanation
Indices: 37134760--37134822 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 23
37134750 TTTCTAAAAG
37134760 ATTTAGTTTTTATTAGCATAATAT
1 ATTTAGTTTTTATTAGCATAA-AT
*
37134784 ATTTA-TCATTTATTAGCATAAAT
1 ATTTAGT-TTTTATTAGCATAAAT
*
37134807 ATCTTTGTTATTTATT
1 AT-TTAGTT-TTTATT
37134823 TCCATATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 5 0.16
24 20 0.62
25 7 0.22
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (23 bp):
ATTTAGTTTTTATTAGCATAAAT
Found at i:37139603 original size:11 final size:11
Alignment explanation
Indices: 37139587--37139623 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
37139577 ATTTTTTTAT
37139587 TTTTAAAAATA
1 TTTTAAAAATA
37139598 TTTTAAAAATA
1 TTTTAAAAATA
37139609 TTTTAAAAATA
1 TTTTAAAAATA
37139620 TTTT
1 TTTT
37139624 TTATTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:37139665 original size:18 final size:18
Alignment explanation
Indices: 37139607--37139665 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
37139597 ATTTTAAAAA
* *
37139607 TATTTTAAAAATATTTTT
1 TATTTTTAAAATTTTTTT
37139625 TATTTTTAAAATACATTTTTTT
1 TATTTTT--AA-A-ATTTTTTT
37139647 TATTTTTAAAATTTTTTT
1 TATTTTTAAAATTTTTTT
37139665 T
1 T
37139666 GGTGTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
18 15 0.43
19 1 0.03
20 4 0.11
21 1 0.03
22 14 0.40
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTTTAAAATTTTTTT
Found at i:37141039 original size:15 final size:15
Alignment explanation
Indices: 37141015--37141060 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
37141005 GAAGTTTAAG
*
37141015 AAAATAAAAATAAAA
1 AAAATAAAAACAAAA
* *
37141030 CAACTAAAAACAAAA
1 AAAATAAAAACAAAA
*
37141045 AAAATAAAAAGAAAA
1 AAAATAAAAACAAAA
37141060 A
1 A
37141061 GAAAAGAGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.83, C:0.07, G:0.02, T:0.09
Consensus pattern (15 bp):
AAAATAAAAACAAAA
Found at i:37142651 original size:15 final size:15
Alignment explanation
Indices: 37142617--37142663 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
37142607 ATCAAAACAG
* *
37142617 TAAAACAAATAATAA
1 TAAAACTAATGATAA
37142632 T-AAACTAATGATAA
1 TAAAACTAATGATAA
37142646 TAAAACTAA-GAATAA
1 TAAAACTAATG-ATAA
37142661 TAA
1 TAA
37142664 GAGAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.23
Consensus pattern (15 bp):
TAAAACTAATGATAA
Found at i:37152935 original size:24 final size:24
Alignment explanation
Indices: 37152903--37152980 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 24
37152893 GGGATGAGAA
37152903 GAAGAAGATACGTACATACTCGGT
1 GAAGAAGATACGTACATACTCGGT
** **
37152927 GAAGAAGATAC--AGGTA---GAA
1 GAAGAAGATACGTACATACTCGGT
*
37152946 GAAGAAGATACGTGCATACTCGGT
1 GAAGAAGATACGTACATACTCGGT
37152970 GAAGAAGATAC
1 GAAGAAGATAC
37152981 AGGCAGACTA
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
19 12 0.30
21 2 0.05
22 3 0.08
24 23 0.57
ACGTcount: A:0.42, C:0.13, G:0.28, T:0.17
Consensus pattern (24 bp):
GAAGAAGATACGTACATACTCGGT
Found at i:37152949 original size:43 final size:43
Alignment explanation
Indices: 37152899--37152983 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
37152889 ATATGGGATG
37152899 AGAAGAAGAAGATACGTACATACTCGGTGAAGAAGATACAGGT
1 AGAAGAAGAAGATACGTACATACTCGGTGAAGAAGATACAGGT
*
37152942 AGAAGAAGAAGATACGTGCATACTCGGTGAAGAAGATACAGG
1 AGAAGAAGAAGATACGTACATACTCGGTGAAGAAGATACAGG
37152984 CAGACTAGGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.15
Consensus pattern (43 bp):
AGAAGAAGAAGATACGTACATACTCGGTGAAGAAGATACAGGT
Found at i:37152994 original size:24 final size:24
Alignment explanation
Indices: 37152924--37153001 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
37152914 GTACATACTC
*
37152924 GGTGAAGAAGATACAGGTAGA--A
1 GGTGAAGAAGATACAGGCAGACTA
* *
37152946 ---GAAGAAGATAC-GTGCATACTC
1 GGTGAAGAAGATACAG-GCAGACTA
37152967 GGTGAAGAAGATACAGGCAGACTA
1 GGTGAAGAAGATACAGGCAGACTA
37152991 GGTGAAGAAGA
1 GGTGAAGAAGA
37153002 AGGAATAAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
18 1 0.02
19 14 0.32
24 28 0.64
25 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.33, T:0.14
Consensus pattern (24 bp):
GGTGAAGAAGATACAGGCAGACTA
Found at i:37159448 original size:22 final size:21
Alignment explanation
Indices: 37159422--37159473 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
37159412 TTATAATGAT
37159422 TTAATT-TAAATATATATATAAA
1 TTAATTATAAA-ATATAT-TAAA
*
37159444 TTAATTATAAAGTATATTAAA
1 TTAATTATAAAATATATTAAA
37159465 TTAATTATA
1 TTAATTATA
37159474 TTATAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 13 0.46
22 11 0.39
23 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TTAATTATAAAATATATTAAA
Done.