Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 60 of 284
Found at i:21136534 original size:38 final size:40
Alignment explanation
Indices: 21136483--21136571 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 40
21136473 AAAAATTATA
*
21136483 TTTAATACAATAAAAAATTTATTATATTTAT-T-GTGTTT
1 TTTAATATAATAAAAAATTTATTATATTTATGTAGTGTTT
*
21136521 TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTTT
1 TTTAATATAATAAAAAATTTATTATATTTAT-GTAGTGTTT
21136562 TTTAATATAA
1 TTTAATATAA
21136572 ATACTTTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
38 29 0.63
40 1 0.02
41 16 0.35
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (40 bp):
TTTAATATAATAAAAAATTTATTATATTTATGTAGTGTTT
Found at i:21136654 original size:15 final size:15
Alignment explanation
Indices: 21136632--21136674 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
21136622 CAGTTTACTA
21136632 TATTTTAAAAAAAA-
1 TATTTTAAAAAAAAC
21136646 TACTTTTAAATAAAAAC
1 TA-TTTTAAA-AAAAAC
*
21136663 TAATTTAAAAAA
1 TATTTTAAAAAA
21136675 GTCAAATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.08
15 10 0.40
16 11 0.44
17 2 0.08
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (15 bp):
TATTTTAAAAAAAAC
Found at i:21141278 original size:21 final size:21
Alignment explanation
Indices: 21141252--21141292 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
21141242 CTTAAGTATT
21141252 AACTCAATTGAGATATTACTC
1 AACTCAATTGAGATATTACTC
21141273 AACTCAATTGAGATATTACT
1 AACTCAATTGAGATATTACT
21141293 AAAATACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (21 bp):
AACTCAATTGAGATATTACTC
Found at i:21143518 original size:13 final size:14
Alignment explanation
Indices: 21143494--21143522 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21143484 CACAACAACG
21143494 AAATCAATGAATTA
1 AAATCAATGAATTA
21143508 AAATC-ATGAATTA
1 AAATCAATGAATTA
21143521 AA
1 AA
21143523 CATAAGCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (14 bp):
AAATCAATGAATTA
Found at i:21145562 original size:51 final size:50
Alignment explanation
Indices: 21145481--21145581 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 50
21145471 AAAATCATCA
21145481 CTCTTTCCCAAATTTCATTTAACCCAGTACTATTTAAGTTGATAGTAGAG
1 CTCTTTCCCAAATTTCATTTAACCCAGTACTATTTAAGTTGATAGTAGAG
* * * *
21145531 NCTCTTTCCCAATTTTTATTTCACCCTGTACTATTTAAGTTGATAGTAGAG
1 -CTCTTTCCCAAATTTCATTTAACCCAGTACTATTTAAGTTGATAGTAGAG
21145582 AATGCATTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (50 bp):
CTCTTTCCCAAATTTCATTTAACCCAGTACTATTTAAGTTGATAGTAGAG
Found at i:21145914 original size:55 final size:55
Alignment explanation
Indices: 21145830--21145940 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
21145820 AGTAAATCTC
21145830 ACAAGCACATTAAGTTTAAGCTAAAAGCAATATATATACATATATATATAGGGAA
1 ACAAGCACATTAAGTTTAAGCTAAAAGCAATATATATACATATATATATAGGGAA
*
21145885 ACAAGCACATTAAGTTTAAGCTAAAAGCAATATATATTCATATATATATAGGGAA
1 ACAAGCACATTAAGTTTAAGCTAAAAGCAATATATATACATATATATATAGGGAA
21145940 A
1 A
21145941 GATGACAGCT
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:0.49, C:0.11, G:0.13, T:0.28
Consensus pattern (55 bp):
ACAAGCACATTAAGTTTAAGCTAAAAGCAATATATATACATATATATATAGGGAA
Found at i:21149836 original size:4 final size:4
Alignment explanation
Indices: 21149829--21149858 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
21149819 TGTCTGTGTT
21149829 TTTC TTTC TTTC TTTC TTTC TTTC -TTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
21149859 TTGATATCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:21151443 original size:93 final size:93
Alignment explanation
Indices: 21151281--21151467 Score: 304
Period size: 93 Copynumber: 2.0 Consensus size: 93
21151271 TTACAATCCC
*
21151281 TATAACCTTTACAATTCTTATCCTTTCCACAATGATGAGATTAAAGGTGAGTATTCGATCGAGTC
1 TATAACCTTTACAATTCCTATCCTTTCCACAATGATGAGATTAAAGGTGAGTATTCGATCGAGTC
* *
21151346 GAGTCAAATTAAGTAAAACAATTTCGAG
66 GAGTCAAATCAAGTAAAAAAATTTCGAG
*
21151374 TATAACCTTTACAATTCCTATCTTTTCCACAATGATGAGATT-AAGAGTGAGTATTCGATCGAGT
1 TATAACCTTTACAATTCCTATCCTTTCCACAATGATGAGATTAAAG-GTGAGTATTCGATCGAGT
* *
21151438 TGAGTCAAATCGAGTAAAAAAATTTCGAG
65 CGAGTCAAATCAAGTAAAAAAATTTCGAG
21151467 T
1 T
21151468 TAGTCGAGTT
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 3 0.03
93 84 0.97
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (93 bp):
TATAACCTTTACAATTCCTATCCTTTCCACAATGATGAGATTAAAGGTGAGTATTCGATCGAGTC
GAGTCAAATCAAGTAAAAAAATTTCGAG
Found at i:21153279 original size:12 final size:13
Alignment explanation
Indices: 21153257--21153286 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
21153247 ATAGTATAAA
21153257 AAATACATAAATT
1 AAATACATAAATT
21153270 AAATAC-TAAATT
1 AAATACATAAATT
21153282 AAATA
1 AAATA
21153287 TTTTTAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATACATAAATT
Found at i:21154363 original size:33 final size:33
Alignment explanation
Indices: 21154326--21154389 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
21154316 CACGGCTTAG
*
21154326 GCCATTTTGGGCCGTGTAGGC-CACACGGGCAAA
1 GCCATTTT-GGCCATGTAGGCGCACACGGGCAAA
*
21154359 GCCATTTTGGCCATGTGGGCGCACACGGGCA
1 GCCATTTTGGCCATGTAGGCGCACACGGGCA
21154390 TGTGGCCCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.19, C:0.28, G:0.34, T:0.19
Consensus pattern (33 bp):
GCCATTTTGGCCATGTAGGCGCACACGGGCAAA
Found at i:21155420 original size:15 final size:16
Alignment explanation
Indices: 21155393--21155422 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21155383 ATTTGATTTT
21155393 AATAATAAATTTTAAC
1 AATAATAAATTTTAAC
21155409 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
21155423 ATCTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAC
Found at i:21155794 original size:17 final size:17
Alignment explanation
Indices: 21155772--21155824 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
21155762 AAAATAGGCT
21155772 TGTTTTTTAGTT-TGTAA
1 TGTTTTTTA-TTATGTAA
*
21155789 TGTTTTATATTATGTAA
1 TGTTTTTTATTATGTAA
*
21155806 TTTTTATTTATTATGTAA
1 TGTTT-TTTATTATGTAA
21155824 T
1 T
21155825 TTTATAACAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 2 0.06
17 17 0.55
18 12 0.39
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (17 bp):
TGTTTTTTATTATGTAA
Found at i:21155819 original size:18 final size:16
Alignment explanation
Indices: 21155784--21155827 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
21155774 TTTTTTAGTT
21155784 TGTAATGTTTTATATTA
1 TGTAAT-TTTTATATTA
21155801 TGTAATTTTTATTTATTA
1 TGTAATTTTTA--TATTA
21155819 TGTAATTTT
1 TGTAATTTT
21155828 ATAACACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.20
17 6 0.24
18 14 0.56
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (16 bp):
TGTAATTTTTATATTA
Found at i:21156507 original size:15 final size:15
Alignment explanation
Indices: 21156487--21156522 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
21156477 ATCATAATAC
21156487 ATTTTTAA-TTAATT
1 ATTTTTAATTTAATT
21156501 ATATTTTAATTTAATT
1 AT-TTTTAATTTAATT
21156517 ATTTTT
1 ATTTTT
21156523 TTCAGTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 10 0.50
16 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTTAATTTAATT
Found at i:21156523 original size:16 final size:15
Alignment explanation
Indices: 21156488--21156523 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
21156478 TCATAATACA
21156488 TTTTTAATTAATTAT
1 TTTTTAATTAATTAT
*
21156503 ATTTTAATTTAATTAT
1 TTTTTAA-TTAATTAT
21156519 TTTTT
1 TTTTT
21156524 TCAGTTCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTAATTAATTAT
Found at i:21156866 original size:2 final size:2
Alignment explanation
Indices: 21156859--21156991 Score: 266
Period size: 2 Copynumber: 66.5 Consensus size: 2
21156849 GAAAATATGG
21156859 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
21156901 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
21156943 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
21156985 CT CT CT C
1 CT CT CT C
21156992 NNNNNNNNNN
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 131 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:21159676 original size:9 final size:9
Alignment explanation
Indices: 21159662--21159707 Score: 51
Period size: 8 Copynumber: 5.1 Consensus size: 9
21159652 TTACATATTT
21159662 ATATTTTAA
1 ATATTTTAA
21159671 ATATTTTTTAA
1 ATA--TTTTAA
*
21159682 ATTTTTTAA
1 ATATTTTAA
21159691 A-ATTTTAA
1 ATATTTTAA
21159699 A-ATTTTAA
1 ATATTTTAA
21159707 A
1 A
21159708 GGTTTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
8 15 0.45
9 10 0.30
11 8 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
ATATTTTAA
Found at i:21160393 original size:15 final size:15
Alignment explanation
Indices: 21160373--21160409 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
21160363 TTTCCAGATT
21160373 AACGCTTAATTTAGG
1 AACGCTTAATTTAGG
21160388 AACGCTTAATTTAGG
1 AACGCTTAATTTAGG
*
21160403 AATGCTT
1 AACGCTT
21160410 TTGAGAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (15 bp):
AACGCTTAATTTAGG
Found at i:21169051 original size:6 final size:6
Alignment explanation
Indices: 21169042--21169067 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
21169032 CAGACATTCC
21169042 GAATTG GAATTG GAATTG GAATTG GA
1 GAATTG GAATTG GAATTG GAATTG GA
21169068 CAAGAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (6 bp):
GAATTG
Found at i:21171389 original size:26 final size:27
Alignment explanation
Indices: 21171360--21171445 Score: 90
Period size: 26 Copynumber: 3.2 Consensus size: 27
21171350 TTTTGTTTCC
* *
21171360 TTAA-GTTATATTTTAGTCACTTATGT
1 TTAATGTTATGTTTTAATCACTTATGT
*
21171386 TTAAAATATTATGTTTTAATCACTTATG-
1 TT--AATGTTATGTTTTAATCACTTATGT
21171414 TTAATGGTT-TGTTTTAATCACTTATG-
1 TTAAT-GTTATGTTTTAATCACTTATGT
21171440 TTAATG
1 TTAATG
21171446 GGTTTTAACA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.02
26 27 0.52
27 2 0.04
28 4 0.08
29 18 0.35
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (27 bp):
TTAATGTTATGTTTTAATCACTTATGT
Found at i:21171446 original size:26 final size:26
Alignment explanation
Indices: 21171397--21171446 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
21171387 TAAAATATTA
21171397 TGTTTTAATCACTTATGTTAATGGTT
1 TGTTTTAATCACTTATGTTAATGGTT
21171423 TGTTTTAATCACTTATGTTAATGG
1 TGTTTTAATCACTTATGTTAATGG
21171447 GTTTTAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (26 bp):
TGTTTTAATCACTTATGTTAATGGTT
Found at i:21178882 original size:47 final size:44
Alignment explanation
Indices: 21178821--21179072 Score: 170
Period size: 46 Copynumber: 5.5 Consensus size: 44
21178811 CTATGCCATA
* *
21178821 TCCCACACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATG
1 TCCCAGACAT-GTCTTACACTGGCTCAT-CATCAAGCCGATG-CATG
* * * *
21178868 TCCCAGACATGGTCTTACACTGACACAT-TTTATAGCCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTCATCATCA-AGCCGATGCATG
* ** * **
21178913 TCCCAGACATGTCTTACATTAGATTACATC-TCGAGGCTAATGCATG
1 TCCCAGACATGTCTTACACT-GGCT-CATCATC-AAGCCGATGCATG
* * * *
21178959 TCTCAGACATGTCTTACACTAGCTC-TCATTTCAATACCGATACCATG
1 TCCCAGACATGTCTTACACTGGCTCATCA--TCAA-GCCGAT-GCATG
* *
21179006 TCCCAGACATGGTCTTACATTGGCTC-TCATAATATGGCCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTCATCATCA-A--GCCGATGCATG
21179053 TCCCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
21179073 AGCACACAAA
Statistics
Matches: 161, Mismatches: 31, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
43 2 0.01
44 10 0.06
45 20 0.12
46 54 0.34
47 54 0.34
48 21 0.13
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (44 bp):
TCCCAGACATGTCTTACACTGGCTCATCATCAAGCCGATGCATG
Found at i:21188340 original size:6 final size:6
Alignment explanation
Indices: 21188331--21188361 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
21188321 AGTCTAAGAG
*
21188331 AATAAA AATAAA CATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA A
21188362 TGAAACTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:21191705 original size:24 final size:25
Alignment explanation
Indices: 21191668--21191731 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
21191658 CTAAAAACAA
21191668 AAATTTAATAAAAATAAAAATGGCT
1 AAATTTAATAAAAATAAAAATGGCT
21191693 AAATTTAATAAAAATAAAAATGGCT
1 AAATTTAATAAAAATAAAAATGGCT
*
21191718 -AACTTAATAAAAAT
1 AAATTTAATAAAAAT
21191732 TGAGTGCTCC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 13 0.34
25 25 0.66
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.28
Consensus pattern (25 bp):
AAATTTAATAAAAATAAAAATGGCT
Found at i:21192034 original size:48 final size:48
Alignment explanation
Indices: 21191971--21192330 Score: 397
Period size: 48 Copynumber: 7.6 Consensus size: 48
21191961 AGCGCAACAA
* *
21191971 TGTAAGACCATGTTTGGAACATGGTATCGGTATTGATATGAGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAG
* * * * * *
21192019 CGTAAGACCATGTTTGGGACATGGCATCGGCATCGACATGTGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAG
* ** * * *
21192067 TGTAAAATTATGTTTAGAACATGGCGTCGGCATTAATATGAGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAG
* * * * * * *
21192115 TGT---A-CATGTTTGGGACATGGTATCGGCCTCGACATGTGAACTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAG
**
21192159 TG-AAGACCATGTTTGGAACATGGCATCGATATTGATATGAGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAG
* * * * * *
21192206 TGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCGAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAG
* * *
21192254 TGTAAGACCATGTTTGGAACATGGTATCGGGATTGATATAAGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAG
21192302 TGTAAGACCATGTTTGGAACATGGCATCG
1 TGTAAGACCATGTTTGGAACATGGCATCG
21192331 ACATCTCACC
Statistics
Matches: 249, Mismatches: 58, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
44 31 0.12
45 1 0.00
46 1 0.00
47 33 0.13
48 183 0.73
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (48 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAG
Found at i:21192298 original size:96 final size:96
Alignment explanation
Indices: 21191971--21192330 Score: 514
Period size: 96 Copynumber: 3.8 Consensus size: 96
21191961 AGCGCAACAA
* *
21191971 TGTAAGACCATGTTTGGAACATGGTATCGGTATTGATATGAGAGCTAGCGTAAGACCATGTTTGG
1 TGTAAGACCATGTTTGGAACATGGCATCGGTATTGATATGAGAGCTAGTGTAAGACCATGTTTGG
*
21192036 GACATGGCATCGGCATCGACATGTGAGCCAG
66 GACATGGCATCGGCCTCGACATGTGAGCCAG
* ** * * * *
21192067 TGTAAAATTATGTTTAGAACATGGCGTCGGCATTAATATGAGAGCTAGTGT---A-CATGTTTGG
1 TGTAAGACCATGTTTGGAACATGGCATCGGTATTGATATGAGAGCTAGTGTAAGACCATGTTTGG
* * *
21192128 GACATGGTATCGGCCTCGACATGTGAACTAG
66 GACATGGCATCGGCCTCGACATGTGAGCCAG
*
21192159 TG-AAGACCATGTTTGGAACATGGCATCGATATTGATATGAGAGCTAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTTTGGAACATGGCATCGGTATTGATATGAGAGCTAGTGTAAGACCATGTTTGG
*
21192223 GACATGGCATCGGCCTCGACATGTGAGCGAG
66 GACATGGCATCGGCCTCGACATGTGAGCCAG
* * *
21192254 TGTAAGACCATGTTTGGAACATGGTATCGGGATTGATATAAGAGCTAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTTTGGAACATGGCATCGGTATTGATATGAGAGCTAGTGTAAGACCATGTTTGG
*
21192319 AACATGGCATCG
66 GACATGGCATCG
21192331 ACATCTCACC
Statistics
Matches: 230, Mismatches: 29, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
91 40 0.17
92 38 0.17
93 1 0.00
94 1 0.00
95 39 0.17
96 111 0.48
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (96 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGTATTGATATGAGAGCTAGTGTAAGACCATGTTTGG
GACATGGCATCGGCCTCGACATGTGAGCCAG
Found at i:21198745 original size:44 final size:44
Alignment explanation
Indices: 21198695--21198787 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 44
21198685 TCATTTTGTA
21198695 AGAATAGAATA-AAGAAATAATAGAGATTAC-ATTGTTTGGTTGATT
1 AGAATAGAATATAAG-AATAATAG-GATT-CTATTGTTTGGTTGATT
* * *
21198740 -GAATAGAATATATGAGTAATAGTATTCTATTGTTTGGTTGATT
1 AGAATAGAATATAAGAATAATAGGATTCTATTGTTTGGTTGATT
21198783 AGAAT
1 AGAAT
21198788 GCTATTAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
42 1 0.02
43 18 0.43
44 21 0.50
45 2 0.05
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.38
Consensus pattern (44 bp):
AGAATAGAATATAAGAATAATAGGATTCTATTGTTTGGTTGATT
Found at i:21203472 original size:104 final size:98
Alignment explanation
Indices: 21203325--21203565 Score: 313
Period size: 97 Copynumber: 2.4 Consensus size: 98
21203315 TAAAAAAAAA
* *
21203325 TTTGGTGCTAGCCTGTCACTGGCCGGCATCAGGTACGAGTATTTAATTTATTTTTTTTGTTTTGG
1 TTTGGTGCTGGCCTGTCA-TGGCCGGCACCAGGTACGAGTATTTAA---A---TTTTT-TTTTGG
*
21203390 CCTTCTAATGGTCGGCACCAATACGAAAAAAAT-AACATTT
58 CCTTCTAATGGTCGGCACCAATACGAAAAAAATCAAAATTT
* * *
21203430 TTTGGTGCTGGTCTGTCATGGCCGACACCAGGTATGAGTATTTAAATTTTTTTTTGGCCTTCTAA
1 TTTGGTGCTGGCCTGTCATGGCCGGCACCAGGTACGAGTATTTAAATTTTTTTTTGGCCTTCTAA
* *
21203495 TGGTCGGCACCAGTATGAAAAAAATCAAAATTT
66 TGGTCGGCACCAATACGAAAAAAATCAAAATTT
*
21203528 TTTGGTGCTGGCCTGTCAATGGCCGGCACCAGATACGA
1 TTTGGTGCTGGCCTGTC-ATGGCCGGCACCAGGTACGA
21203566 AAAAAATCAT
Statistics
Matches: 122, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
97 37 0.30
98 27 0.22
99 17 0.14
101 1 0.01
104 24 0.20
105 16 0.13
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (98 bp):
TTTGGTGCTGGCCTGTCATGGCCGGCACCAGGTACGAGTATTTAAATTTTTTTTTGGCCTTCTAA
TGGTCGGCACCAATACGAAAAAAATCAAAATTT
Found at i:21203555 original size:52 final size:52
Alignment explanation
Indices: 21203387--21203574 Score: 153
Period size: 52 Copynumber: 3.7 Consensus size: 52
21203377 TTTTTTGTTT
* * *
21203387 TGGCCTTCTAATGGTCGGCACCAATACGAAAAAAAT-AACATTTTTTGGTGC
1 TGGCCTTCTAATGGCCGGCACCAGTACGAAAAAAATCAAAATTTTTTGGTGC
* * * ** ** *
21203438 TGGTCTGTC--ATGGCCGACACCAGGTATG---AGTATTTAAATTTTTT--T-T
1 TGGCCT-TCTAATGGCCGGCACCA-GTACGAAAAAAATCAAAATTTTTTGGTGC
* *
21203484 TGGCCTTCTAATGGTCGGCACCAGTATGAAAAAAATCAAAATTTTTTGGTGC
1 TGGCCTTCTAATGGCCGGCACCAGTACGAAAAAAATCAAAATTTTTTGGTGC
21203536 TGGCCTGTC-AATGGCCGGCACCAGATACGAAAAAAATCA
1 TGGCCT-TCTAATGGCCGGCACCAG-TACGAAAAAAATCA
21203575 TTTTTTTAAA
Statistics
Matches: 104, Mismatches: 20, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
45 2 0.02
46 10 0.10
47 12 0.12
48 3 0.03
49 20 0.19
50 11 0.11
51 9 0.09
52 22 0.21
53 15 0.14
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (52 bp):
TGGCCTTCTAATGGCCGGCACCAGTACGAAAAAAATCAAAATTTTTTGGTGC
Found at i:21203581 original size:52 final size:51
Alignment explanation
Indices: 21203376--21203581 Score: 153
Period size: 50 Copynumber: 4.1 Consensus size: 51
21203366 TTTAATTTAT
** *
21203376 TTTTTTTGTTTTGGCCTTCTAATGGTCGGCACCA-ATACGAAAAAAATAACA
1 TTTTTTTGTGCTGGCCTTCTAATGGCCGGCACCAGATACGAAAAAAATAA-A
* * * * * ** **
21203427 TTTTTTGGTGCTGGTCTGTC--ATGGCCGACACCAGGTATG-AGTATTTAAA
1 TTTTTTTGTGCTGGCCT-TCTAATGGCCGGCACCAGATACGAAAAAAATAAA
* *
21203476 TTTTTTT-T--TGGCCTTCTAATGGTCGGCACCAG-TATGAAAAAAATCAAAA
1 TTTTTTTGTGCTGGCCTTCTAATGGCCGGCACCAGATACGAAAAAAAT--AAA
* *
21203525 TTTTTTGGTGCTGGCCTGTC-AATGGCCGGCACCAGATACGAAAAAAAT-CA
1 TTTTTTTGTGCTGGCCT-TCTAATGGCCGGCACCAGATACGAAAAAAATAAA
21203575 TTTTTTT
1 TTTTTTT
21203582 AAATAGTCGT
Statistics
Matches: 118, Mismatches: 25, Indels: 25
0.70 0.15 0.15
Matches are distributed among these distances:
45 2 0.02
46 9 0.08
47 15 0.13
48 1 0.01
49 16 0.14
50 24 0.20
51 16 0.14
52 22 0.19
53 13 0.11
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (51 bp):
TTTTTTTGTGCTGGCCTTCTAATGGCCGGCACCAGATACGAAAAAAATAAA
Found at i:21204118 original size:16 final size:17
Alignment explanation
Indices: 21204098--21204144 Score: 71
Period size: 16 Copynumber: 2.9 Consensus size: 17
21204088 CACTATAATG
*
21204098 GAATAGGGCTGTAATTA
1 GAATAGAGCTGTAATTA
21204115 -AATAGAGCTGTAA-TA
1 GAATAGAGCTGTAATTA
21204130 GAATAGAGCTGTAAT
1 GAATAGAGCTGTAAT
21204145 CAGTAATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 2 0.07
16 25 0.93
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.28
Consensus pattern (17 bp):
GAATAGAGCTGTAATTA
Found at i:21204409 original size:32 final size:32
Alignment explanation
Indices: 21204372--21204452 Score: 78
Period size: 32 Copynumber: 2.5 Consensus size: 32
21204362 TAAATATAAT
21204372 TTAATA-AAATAATATAT-AATTTAATAAAATTC
1 TTAATATAAATAATATATGAA-TTAA-AAAATTC
* *
21204404 TTAATATAATTATTATATGAATTAAAAAATT-
1 TTAATATAAATAATATATGAATTAAAAAATTC
* *
21204435 ATAATATATAATACTATA
1 TTAATATA-AATAATATA
21204453 AAAATAAGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
31 7 0.17
32 19 0.46
33 13 0.32
34 2 0.05
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (32 bp):
TTAATATAAATAATATATGAATTAAAAAATTC
Found at i:21204416 original size:55 final size:55
Alignment explanation
Indices: 21204297--21204418 Score: 167
Period size: 55 Copynumber: 2.2 Consensus size: 55
21204287 ATGATTATTG
*
21204297 ATATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACTATATTTTA
1 ATATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACTAAATTTTA
* * *
21204352 ACATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAA-TAAAATTCTTA
1 ATATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACT-AAATT-TTA
*
21204407 ATATAATTATTA
1 ATATTATTATTA
21204419 TATGAATTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
53 1 0.02
54 22 0.37
55 36 0.61
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (55 bp):
ATATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACTAAATTTTA
Found at i:21207334 original size:3 final size:3
Alignment explanation
Indices: 21207326--21207351 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21207316 AGTTGGGAAA
21207326 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
21207352 GAGGTTATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:21208534 original size:47 final size:47
Alignment explanation
Indices: 21208461--21208780 Score: 271
Period size: 47 Copynumber: 6.8 Consensus size: 47
21208451 GATTACTTAT
* *
21208461 GTGCTAGTGTAATACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATTATGA
* * * *
21208507 GTGCCAGTGTAAGACAATGTTTGGGACATGGCATCGGCGTA-GA-GATAA
1 GTGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC-CACGATTATGA
* * * *
21208555 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGACCTCGACTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATTATGA
* * * ** *
21208602 -TAACCAGTGTAAGACGTGTCTGGGACATACATCGGGTAAGATT-T--
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATTATGA
* * *
21208646 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-AACGTATATATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACG-AT-TATGA
* * * *
21208694 GAGCTAGTGTAAGACCATGTCTGGGACATGTCATCGGCCTCGATGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCACGATTATGA
21208743 -TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
21208781 AACTTTTCAC
Statistics
Matches: 221, Mismatches: 35, Indels: 33
0.76 0.12 0.11
Matches are distributed among these distances:
43 2 0.01
44 30 0.14
45 2 0.01
46 25 0.11
47 59 0.27
48 39 0.18
49 54 0.24
50 8 0.04
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATTATGA
Found at i:21208627 original size:94 final size:92
Alignment explanation
Indices: 21208461--21208778 Score: 304
Period size: 94 Copynumber: 3.4 Consensus size: 92
21208451 GATTACTTAT
* * * *
21208461 GTGCTAGTGTAATACATGTCTGGGACATGCATCGGCCACATTATGAGT-GCCAGTGTAAGACAAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCA-TATGA-TAGCCAGTGTAAGAC-AT
* *
21208525 GTTTGGGACATGGCATCGGCGTAGAGATAA
63 GTCTGGGACATGACATCGGCGTAGAGATAA
* * *
21208555 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGACCTCGACTATGATAACCAGTGTAAGACGTG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTC-A-TATGATAGCCAGTGTAAGACATG
**
21208620 TCTGGGACAT-ACATCGG-GTA-AGATTT
64 TCTGGGACATGACATCGGCGTAGAGATAA
* * * * *
21208646 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGAACGTATATATGAGAGCTAGTGTAAGACCA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-G-ACCT-CATATGATAGCCAGTGTAAGA-CA
* * * *
21208711 TGTCTGGGACATGTCATCGGCCTCGATGATGA
62 TGTCTGGGACATGACATCGGCGTAGA-GATAA
21208743 -TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
21208779 GCAACTTTTC
Statistics
Matches: 185, Mismatches: 26, Indels: 22
0.79 0.11 0.09
Matches are distributed among these distances:
91 35 0.19
92 20 0.11
93 23 0.12
94 52 0.28
95 19 0.10
96 2 0.01
97 14 0.08
98 15 0.08
99 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (92 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCATATGATAGCCAGTGTAAGACATGTC
TGGGACATGACATCGGCGTAGAGATAA
Found at i:21209842 original size:19 final size:19
Alignment explanation
Indices: 21209818--21209862 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
21209808 TGCAGGACAT
21209818 GGGCGTGGCCCAAGCACAC
1 GGGCGTGGCCCAAGCACAC
21209837 GGGCGTGGCCCAAGCACAC
1 GGGCGTGGCCCAAGCACAC
21209856 GGGCGTG
1 GGGCGTG
21209863 TGTTATATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.18, C:0.33, G:0.42, T:0.07
Consensus pattern (19 bp):
GGGCGTGGCCCAAGCACAC
Found at i:21216194 original size:47 final size:46
Alignment explanation
Indices: 21216080--21216347 Score: 163
Period size: 47 Copynumber: 5.7 Consensus size: 46
21216070 GATTACTTAT
* * * * * *
21216080 GTGCCAGTCTAAGACATGTTTGGGACATGCATCGGC-CACATTATGTA
1 GTGCCAGTGTAAGACATGTCTGAGACATGCATCGGCTTAGA-GATG-A
*
21216127 -TGCCAGTGTAAGACCATGTCTGAGACATGGCATTGGCTTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCTTAGAGATGA
* * *
21216174 GTGCCAGTGTAAGACATGTCTTG-GACATACATCGGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTC-TGAGACATGCATCGGCTTAGA-GATGA
* * * * *
21216221 -TAGCCAGTGTAAGACGTGTCT-AGGACATACATCGGCTAAAAG-T-T
1 GT-GCCAGTGTAAGACATGTCTGA-GACATGCATCGGCTTAGAGATGA
* * * * * *
21216265 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATATGA
1 GTGCCAGTGTAAGACATGTCTGAGACATGCATC-G-GCTTAGAGATGA
* * *
21216313 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTGCCAGTGTAAGA-CATGTCTGAGACAT-GCATC
21216348 AACGTCGATG
Statistics
Matches: 176, Mismatches: 28, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
44 26 0.15
45 3 0.02
46 27 0.15
47 61 0.35
48 38 0.22
49 16 0.09
50 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGAGACATGCATCGGCTTAGAGATGA
Found at i:21216241 original size:94 final size:91
Alignment explanation
Indices: 21216080--21216297 Score: 228
Period size: 94 Copynumber: 2.4 Consensus size: 91
21216070 GATTACTTAT
* **
21216080 GTGCCAGTCTAAGACATGT-TTGGGACATGCATCGGCCACATTATGTATGCCAGTGTAAGACCAT
1 GTGCCAGTGTAAGACATGTCTT-GGACATGCATCGGCCACACGATGTATGCCAGTGTAAGACCAT
* * * *
21216144 GTCT-GAGACATGGCATTGGCTTAGAGATGA
65 GTCTAG-GACAT-ACATCGGCTAAAAG-T-A
* * *
21216174 GTGCCAGTGTAAGACATGTCTTGGACATACATCGGCCTCGACGATG-ATAGCCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTTGGACATGCATCGGCCAC-ACGATGTAT-GCCAGTGTAAGACCA
*
21216237 TGTCTAGGACATACATCGGCTAAAAGTT
64 TGTCTAGGACATACATCGGCTAAAAGTA
* *
21216265 GTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTTGGACATGCATC
21216298 AGCACGTATA
Statistics
Matches: 106, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
91 30 0.28
92 1 0.01
93 10 0.09
94 46 0.43
95 19 0.18
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTTGGACATGCATCGGCCACACGATGTATGCCAGTGTAAGACCATG
TCTAGGACATACATCGGCTAAAAGTA
Found at i:21216340 original size:49 final size:49
Alignment explanation
Indices: 21216267--21216396 Score: 158
Period size: 49 Copynumber: 2.7 Consensus size: 49
21216257 TAAAAGTTGT
*
21216267 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACGTATAT-ATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCA--ACGTAGATGATGAGA
* *
21216315 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAACGTCGATGATGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAACGTAGATGATGAGA
* * * *
21216364 GCCAGTATAAGACCATGTTTAGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
21216397 GGTAACTTAT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 18 0.25
49 48 0.67
50 6 0.08
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAACGTAGATGATGAGA
Found at i:21218634 original size:52 final size:51
Alignment explanation
Indices: 21218548--21218648 Score: 143
Period size: 52 Copynumber: 1.9 Consensus size: 51
21218538 GGAATGCCAG
*
21218548 AGTCGAAGGAAGCAAGAAATGACTGCCATATGAGTGTTTTTGAGTTGAGGAT
1 AGTCGAAGGAAGCAAGAAATGACTG-CATATGAGTGTTTTTGAGGTGAGGAT
21218600 AGTCGAAGGAAGCAAGAAATGGTTACTG-AT-TGAGTGTTTTTGAGGTGAG
1 AGTCGAAGGAAGCAAGAAAT-G--ACTGCATATGAGTGTTTTTGAGGTGAG
21218649 ATTTTGGTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
52 38 0.84
53 3 0.07
55 4 0.09
ACGTcount: A:0.32, C:0.08, G:0.33, T:0.28
Consensus pattern (51 bp):
AGTCGAAGGAAGCAAGAAATGACTGCATATGAGTGTTTTTGAGGTGAGGAT
Found at i:21221380 original size:3 final size:3
Alignment explanation
Indices: 21221367--21221397 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
21221357 ACTCTCAAAA
21221367 TTC TCTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC
21221398 ATTGTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:21225068 original size:39 final size:39
Alignment explanation
Indices: 21225014--21225091 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
21225004 ACTTTGTGAA
21225014 GCCCAACTTACCAATTCTCATTTAAAACATAGTTATCAT
1 GCCCAACTTACCAATTCTCATTTAAAACATAGTTATCAT
21225053 GCCCAACTTACCAATTCTCATTTAAAACATAGTTATCAT
1 GCCCAACTTACCAATTCTCATTTAAAACATAGTTATCAT
21225092 CACACATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (39 bp):
GCCCAACTTACCAATTCTCATTTAAAACATAGTTATCAT
Found at i:21227246 original size:42 final size:43
Alignment explanation
Indices: 21227124--21227327 Score: 175
Period size: 42 Copynumber: 4.7 Consensus size: 43
21227114 CAATGTCATA
* * *
21227124 TCCCAGATATGGTCTTACATGAGATCACATATTGATGCCAATAG
1 TCCCAGATATGGTCTTACACGAAATCACATATCGATGCCAAT-G
* * * * *
21227168 -CCTAGCTATGGTCCTACA-GAATGTCTCATATCGATGCC-ATG
1 TCCCAGATATGGTCTTACACGAA-ATCACATATCGATGCCAATG
* * *
21227209 TCCCAGACATAGTCTTACACGAAATCACATATTGATGCCAATG
1 TCCCAGATATGGTCTTACACGAAATCACATATCGATGCCAATG
* *
21227252 CCATATCCCAGATATGGTCTTACATGGAATCACATATCGATGCCATAT-
1 -----TCCCAGATATGGTCTTACACGAAATCACATATCGATGCCA-ATG
*
21227300 T-CCAGATATGGTCTTACACGAAACCACA
1 TCCCAGATATGGTCTTACACGAAATCACA
21227328 CATAACCCTA
Statistics
Matches: 127, Mismatches: 23, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
41 1 0.01
42 54 0.43
43 35 0.28
48 35 0.28
49 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
TCCCAGATATGGTCTTACACGAAATCACATATCGATGCCAATG
Found at i:21227314 original size:90 final size:84
Alignment explanation
Indices: 21227120--21227327 Score: 231
Period size: 90 Copynumber: 2.4 Consensus size: 84
21227110 ATGCCAATGT
* * *
21227120 CATATCCCAGATATGGTCTTACATGAGATCACATATTGATGCCAATAGCCTAGCTATGGTCCTAC
1 CATATCCCAGATATGGTCTTACACGAAATCACATATTGATGCCAATAGCCTAGATATGGTCCTAC
*
21227185 AGAATGTCTCATATCGATGC
66 AGAA-GTCACATATCGATGC
* * *
21227205 CATGTCCCAGACATAGTCTTACACGAAATCACATATTGATGCCAAT-GCCATATCCCAGATATGG
1 CATATCCCAGATATGGTCTTACACGAAATCACATATTGATGCCAATAGCC---T---AGATATGG
*
21227269 TCTTACATGGAA-TCACATATCGATGC
60 TCCTACA--GAAGTCACATATCGATGC
* *
21227295 CATATTCCAGATATGGTCTTACACGAAACCACA
1 CATATCCCAGATATGGTCTTACACGAAATCACA
21227328 CATAACCCTA
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
84 3 0.03
85 41 0.40
87 1 0.01
90 54 0.53
92 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (84 bp):
CATATCCCAGATATGGTCTTACACGAAATCACATATTGATGCCAATAGCCTAGATATGGTCCTAC
AGAAGTCACATATCGATGC
Found at i:21233255 original size:14 final size:14
Alignment explanation
Indices: 21233232--21233266 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
21233222 GTTTTATATG
*
21233232 CATTTTGAATGGTT
1 CATTTGGAATGGTT
21233246 CATTTGGAATGGTT
1 CATTTGGAATGGTT
*
21233260 GATTTGG
1 CATTTGG
21233267 TACAAATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.06, G:0.29, T:0.46
Consensus pattern (14 bp):
CATTTGGAATGGTT
Found at i:21234878 original size:86 final size:86
Alignment explanation
Indices: 21234730--21234897 Score: 300
Period size: 86 Copynumber: 2.0 Consensus size: 86
21234720 TACATTATGC
*
21234730 TCAATTGCTATGATGCTCTAAATTAAATGCTTTACTGTTTGAACAATTATATATAATGGTTTAAA
1 TCAATTGCTATGATGCTCTAAATTAAATGCTTTACTGTTTGAACAATTATATATAATAGTTTAAA
21234795 ATTAGACTCATATTGGGCTAT
66 ATTAGACTCATATTGGGCTAT
* * *
21234816 TCAATTGCTATGATGCTCTAAATTAAATGCTTTTCTGTTTGAACAATTCTATATAATAGTTTAAG
1 TCAATTGCTATGATGCTCTAAATTAAATGCTTTACTGTTTGAACAATTATATATAATAGTTTAAA
21234881 ATTAGACTCATATTGGG
66 ATTAGACTCATATTGGG
21234898 TTGTTAAAAG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (86 bp):
TCAATTGCTATGATGCTCTAAATTAAATGCTTTACTGTTTGAACAATTATATATAATAGTTTAAA
ATTAGACTCATATTGGGCTAT
Found at i:21236679 original size:21 final size:21
Alignment explanation
Indices: 21236654--21236719 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
21236644 GTATAACCAT
21236654 CACCCTTTCTATAAGATTATA
1 CACCCTTTCTATAAGATTATA
* * **
21236675 CACCCATAATGTAT-A-ACCAT-
1 CACCC-T-TTCTATAAGATTATA
21236695 CACCCTTTCTATAAGATTATA
1 CACCCTTTCTATAAGATTATA
21236716 CACC
1 CACC
21236720 TTTATTTTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
18 4 0.12
19 2 0.06
20 8 0.25
21 12 0.38
22 2 0.06
23 4 0.12
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.32
Consensus pattern (21 bp):
CACCCTTTCTATAAGATTATA
Found at i:21236683 original size:41 final size:41
Alignment explanation
Indices: 21236638--21236719 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
21236628 TTTTATGGGA
21236638 CATAATGTATAACCATCACCCTTTCTATAAGATTATACACC
1 CATAATGTATAACCATCACCCTTTCTATAAGATTATACACC
21236679 CATAATGTATAACCATCACCCTTTCTATAAGATTATACACC
1 CATAATGTATAACCATCACCCTTTCTATAAGATTATACACC
21236720 TTTATTTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.32
Consensus pattern (41 bp):
CATAATGTATAACCATCACCCTTTCTATAAGATTATACACC
Found at i:21241310 original size:100 final size:100
Alignment explanation
Indices: 21241137--21241339 Score: 397
Period size: 100 Copynumber: 2.0 Consensus size: 100
21241127 ACCAATGCTT
21241137 AACCTTAAACCCACATATAAGATACAATGATACATTTTCATATACCATTTCTTTTTACATTGATC
1 AACCTTAAACCCACATATAAGATACAATGATACATTTTCATATACCATTTCTTTTTACATTGATC
21241202 GAATACTTACATAAACTAATTAATAATTATCTTTC
66 GAATACTTACATAAACTAATTAATAATTATCTTTC
21241237 AACCTTAAACCCACATATAAGATACAATGATACATTTTCATATACCATTTCTTTTTACATTGATC
1 AACCTTAAACCCACATATAAGATACAATGATACATTTTCATATACCATTTCTTTTTACATTGATC
*
21241302 GAATACTTACATAAACTAATTAATCATTATCTTTC
66 GAATACTTACATAAACTAATTAATAATTATCTTTC
21241337 AAC
1 AAC
21241340 TTTCGGGTCC
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (100 bp):
AACCTTAAACCCACATATAAGATACAATGATACATTTTCATATACCATTTCTTTTTACATTGATC
GAATACTTACATAAACTAATTAATAATTATCTTTC
Found at i:21249983 original size:27 final size:27
Alignment explanation
Indices: 21249945--21249999 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
21249935 CATAACTTAC
21249945 CTCAAGTAAGTAACATATTAGTTCATA
1 CTCAAGTAAGTAACATATTAGTTCATA
21249972 CTCAAGTAAGTAACATATTAGTTCATA
1 CTCAAGTAAGTAACATATTAGTTCATA
21249999 C
1 C
21250000 CCGGCACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (27 bp):
CTCAAGTAAGTAACATATTAGTTCATA
Found at i:21252476 original size:74 final size:73
Alignment explanation
Indices: 21252391--21252544 Score: 263
Period size: 74 Copynumber: 2.1 Consensus size: 73
21252381 CAAAACGTCA
*
21252391 AAAATAATGGCAGAATTTTAGGGAAATTGGAGAAGGGGAGAAGAGAAAGAAAAAAAAATGTTAAA
1 AAAATAATGGCAAAATTTTAGGGAAATTGGAGAAGGGGAGAAGAGAAAG-AAAAAAAATGTTAAA
* *
21252456 AGTCTAAAT
65 AATCCAAAT
*
21252465 AAAATAATGGCAAAATTTTGGGGAAATTGGAGAAGGGGAGAAGAGAAAGAAAAAAAATGTTAAAA
1 AAAATAATGGCAAAATTTTAGGGAAATTGGAGAAGGGGAGAAGAGAAAGAAAAAAAATGTTAAAA
21252530 ATCCAAAT
66 ATCCAAAT
21252538 AAAATAA
1 AAAATAA
21252545 AATAAATTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
73 29 0.38
74 47 0.62
ACGTcount: A:0.55, C:0.03, G:0.24, T:0.18
Consensus pattern (73 bp):
AAAATAATGGCAAAATTTTAGGGAAATTGGAGAAGGGGAGAAGAGAAAGAAAAAAAATGTTAAAA
ATCCAAAT
Found at i:21255021 original size:46 final size:46
Alignment explanation
Indices: 21254950--21255124 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
21254940 TGTAACCCGC
* * **
21254950 CCATAAGCAAACTCAGACTCAACTCAATTAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
* * **
21254996 CCATAAGTGAACTCGGACTCCACTCAACGAGCTCGGGTGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTG--T--TCGCAT
* * **
21255046 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
* *
21255089 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
21255125 ATGCCCAATA
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 3 0.03
46 61 0.59
47 27 0.26
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
Found at i:21255068 original size:93 final size:93
Alignment explanation
Indices: 21254959--21255129 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
21254949 CCCATAAGCA
** ** *
21254959 AACTCAGACTCAACTCAATTAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCCACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
21255024 GAGCTCGGGTGCCTAGTTACATCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACG
* *
21255052 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
21255117 GAGTTCGGATGCC
66 GAGCTCGGATGCC
21255130 CAATATCCGA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACG
Found at i:21262260 original size:17 final size:18
Alignment explanation
Indices: 21262231--21262264 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
21262221 TGTGGGGTGC
21262231 CTGTGTGGGCCCACACAG
1 CTGTGTGGGCCCACACAG
21262249 CTGTGT-GGCCCACACA
1 CTGTGTGGGCCCACACA
21262265 TCCAATTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.18, C:0.35, G:0.29, T:0.18
Consensus pattern (18 bp):
CTGTGTGGGCCCACACAG
Found at i:21262391 original size:12 final size:12
Alignment explanation
Indices: 21262371--21262401 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
21262361 CGTGTCATTG
21262371 CACACGGCCTAC
1 CACACGGCCTAC
*
21262383 CACAGGGCCTAC
1 CACACGGCCTAC
21262395 CACACGG
1 CACACGG
21262402 TCGCATAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.26, C:0.45, G:0.23, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:21266539 original size:13 final size:13
Alignment explanation
Indices: 21266521--21266545 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21266511 ACAAACGATA
21266521 AAATTTTCACACG
1 AAATTTTCACACG
21266534 AAATTTTCACAC
1 AAATTTTCACAC
21266546 ATATTAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:21282078 original size:33 final size:34
Alignment explanation
Indices: 21282013--21282080 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 34
21282003 GTTAGGGGTG
*
21282013 TTACAAATATGGCTAAGTTGATGCATGATTTCAA
1 TTACAAATATGGCTAAGTTGATGAATGATTTCAA
* *
21282047 TTACCAATATGG-TAAG-TGATGAATTAGTTTCAA
1 TTACAAATATGGCTAAGTTGATGAATGA-TTTCAA
21282080 T
1 T
21282081 GTGGTTAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 8 0.27
33 11 0.37
34 11 0.37
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (34 bp):
TTACAAATATGGCTAAGTTGATGAATGATTTCAA
Found at i:21284009 original size:28 final size:28
Alignment explanation
Indices: 21283978--21284066 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 28
21283968 TTATGTATAC
21283978 ATATATATATATACAACCCCACTCATAT
1 ATATATATATATACAACCCCACTCATAT
* * *
21284006 ATATATAT-TA-CCGAA-TCC-CTCATTT
1 ATATATATATATAC-AACCCCACTCATAT
* *
21284031 ATATATTATATATATAACACCCACTAATAT
1 ATATA-TATATATACAAC-CCCACTCATAT
21284061 ATATAT
1 ATATAT
21284067 TGTATATAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 13
0.69 0.12 0.19
Matches are distributed among these distances:
25 11 0.24
26 6 0.13
27 8 0.17
28 8 0.17
29 3 0.07
30 10 0.22
ACGTcount: A:0.42, C:0.20, G:0.01, T:0.37
Consensus pattern (28 bp):
ATATATATATATACAACCCCACTCATAT
Found at i:21288355 original size:23 final size:22
Alignment explanation
Indices: 21288324--21288368 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
21288314 AGCCTTGTGT
* *
21288324 GAGAAGCGTTGTTGTATACCAC
1 GAGAAGCGTCGCTGTATACCAC
*
21288346 NGAGAGGCGTCGCTGTATACCAC
1 -GAGAAGCGTCGCTGTATACCAC
21288369 AAACTCTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.22
Consensus pattern (22 bp):
GAGAAGCGTCGCTGTATACCAC
Found at i:21290045 original size:23 final size:23
Alignment explanation
Indices: 21290019--21290088 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
21290009 TTTATTTAAC
* *
21290019 TTAATCGAATATGTTCACGAACA
1 TTAATCGAACATGTTCATGAACA
* *
21290042 TTAAACAAACATGTTCATGAACA
1 TTAATCGAACATGTTCATGAACA
* *
21290065 TATAATTGAACATATTCATGAACA
1 T-TAATCGAACATGTTCATGAACA
21290089 ATGTTAATGA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (23 bp):
TTAATCGAACATGTTCATGAACA
Found at i:21300384 original size:22 final size:21
Alignment explanation
Indices: 21300356--21300409 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
21300346 AAGATATAAA
21300356 TTAAAAAATATATATAATT-AT
1 TTAAAAAATATATA-AATTAAT
*
21300377 TTTAAAAA-ATATAAATTAAT
1 TTAAAAAATATATAAATTAAT
21300397 TTAAAAAAGTATA
1 TTAAAAAA-TATA
21300410 ATTTTTTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 4 0.14
20 14 0.50
21 7 0.25
22 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TTAAAAAATATATAAATTAAT
Found at i:21300388 original size:20 final size:20
Alignment explanation
Indices: 21300359--21300417 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
21300349 ATATAAATTA
21300359 AAAAATATATATAATTATTTT
1 AAAAA-ATATATAATTATTTT
*
21300380 AAAAAATATA-AATTAATTT
1 AAAAAATATATAATTATTTT
*
21300399 AAAAAA-GTATAATT-TTTT
1 AAAAAATATATAATTATTTT
21300417 A
1 A
21300418 GAGAAGTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 6 0.18
19 18 0.53
20 5 0.15
21 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
AAAAAATATATAATTATTTT
Found at i:21306515 original size:40 final size:40
Alignment explanation
Indices: 21306333--21306555 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
21306323 TCCTCGTTCA
* * * * *
21306333 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
21306372 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
21306412 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
21306452 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
21306492 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
21306532 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21306556 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:21306564 original size:41 final size:41
Alignment explanation
Indices: 21306487--21306564 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
21306477 TTAGTATCTC
* * *
21306487 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
21306528 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
21306565 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:21308915 original size:2 final size:2
Alignment explanation
Indices: 21308902--21308945 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
21308892 GGAATAGGGA
*
21308902 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
21308944 TC
1 TC
21308946 ACTCAAGGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:21312763 original size:44 final size:44
Alignment explanation
Indices: 21312623--21312777 Score: 167
Period size: 42 Copynumber: 3.6 Consensus size: 44
21312613 TCGTACAATA
* * *
21312623 CCAACGTCCCAGATGTGGTCTTACATGT--ATCAAATATCGATG
1 CCAACATCCCAGATATGGTCTTACACGTAAATCAAATATCGATG
* *
21312665 CC-ACTATCCTAGATAGGGTCTTACACG-AAATCAAATA-CGATG
1 CCAAC-ATCCCAGATATGGTCTTACACGTAAATCAAATATCGATG
* ** *
21312707 ACAATGTCCCAGATATGGTCTTACACGTAAATCATATATCGATG
1 CCAACATCCCAGATATGGTCTTACACGTAAATCAAATATCGATG
**
21312751 CCAACATCCCAGACGTGGTCTTACACG
1 CCAACATCCCAGATATGGTCTTACACG
21312778 AAAGCACATA
Statistics
Matches: 91, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
41 2 0.02
42 44 0.48
43 18 0.20
44 27 0.30
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (44 bp):
CCAACATCCCAGATATGGTCTTACACGTAAATCAAATATCGATG
Found at i:21316706 original size:53 final size:53
Alignment explanation
Indices: 21316649--21316785 Score: 179
Period size: 54 Copynumber: 2.6 Consensus size: 53
21316639 AGGGCCATTC
* *
21316649 TTTCAGAGAATT-CCACGAATGCTTCCATTT-TAGATATGCCACAAAAGCTTCCA
1 TTTCAGAG-ATTGCCACAAAGGCTTCCATTTATAGAT-TGCCACAAAAGCTTCCA
*
21316702 TTTCATAGATTGCCACAAAGGCTTCCATTTCATAGATTGCCACAAAAGCTTCCA
1 TTTCAGAGATTGCCACAAAGGCTTCCATTT-ATAGATTGCCACAAAAGCTTCCA
* **
21316756 TTTCATAGATTGCCACAAAGTTTTCCATTT
1 TTTCAGAGATTGCCACAAAGGCTTCCATTT
21316786 TCTAACATGT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
52 3 0.04
53 23 0.30
54 45 0.59
55 5 0.07
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (53 bp):
TTTCAGAGATTGCCACAAAGGCTTCCATTTATAGATTGCCACAAAAGCTTCCA
Found at i:21316753 original size:54 final size:53
Alignment explanation
Indices: 21316669--21316786 Score: 193
Period size: 54 Copynumber: 2.2 Consensus size: 53
21316659 TTCCACGAAT
21316669 GCTTCCATTTTAGATATGCCACAAAAGCTTCCATTTCATAGATTGCCACAAAG
1 GCTTCCATTTTAGATATGCCACAAAAGCTTCCATTTCATAGATTGCCACAAAG
21316722 GCTTCCATTTCATAGAT-TGCCACAAAAGCTTCCATTTCATAGATTGCCACAAAG
1 GCTTCCATTT--TAGATATGCCACAAAAGCTTCCATTTCATAGATTGCCACAAAG
**
21316776 TTTTCCATTTT
1 GCTTCCATTTT
21316787 CTAACATGTT
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
52 1 0.02
53 10 0.16
54 45 0.74
55 5 0.08
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (53 bp):
GCTTCCATTTTAGATATGCCACAAAAGCTTCCATTTCATAGATTGCCACAAAG
Found at i:21316785 original size:27 final size:27
Alignment explanation
Indices: 21316669--21316774 Score: 180
Period size: 27 Copynumber: 4.0 Consensus size: 27
21316659 TTCCACGAAT
21316669 GCTTCCATTT--TAGATATGCCACAAAA
1 GCTTCCATTTCATAGAT-TGCCACAAAA
*
21316695 GCTTCCATTTCATAGATTGCCACAAAG
1 GCTTCCATTTCATAGATTGCCACAAAA
21316722 GCTTCCATTTCATAGATTGCCACAAAA
1 GCTTCCATTTCATAGATTGCCACAAAA
21316749 GCTTCCATTTCATAGATTGCCACAAA
1 GCTTCCATTTCATAGATTGCCACAAA
21316775 GTTTTCCATT
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
26 10 0.13
27 61 0.80
28 5 0.07
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.30
Consensus pattern (27 bp):
GCTTCCATTTCATAGATTGCCACAAAA
Found at i:21323393 original size:15 final size:15
Alignment explanation
Indices: 21323370--21323411 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
21323360 GAAGCCTAGA
21323370 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
21323385 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
21323400 ATAAGGAAATCC
1 ATAAGGAAATCC
21323412 CATTTATAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:21326708 original size:38 final size:38
Alignment explanation
Indices: 21326665--21326965 Score: 242
Period size: 38 Copynumber: 7.2 Consensus size: 38
21326655 TTTCAAATTA
21326665 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
21326703 ACATGTTTAACTGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
21326744 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* *
21326788 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGCTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
21326829 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACATT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* *
21326873 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
21326914 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACTACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
*
21326958 ACTTGTAT
1 ACATGTAT
21326966 CAATATGTGT
Statistics
Matches: 212, Mismatches: 24, Indels: 54
0.73 0.08 0.19
Matches are distributed among these distances:
38 89 0.42
39 3 0.01
40 9 0.04
41 6 0.03
42 3 0.01
43 3 0.01
44 6 0.03
45 9 0.04
46 3 0.01
47 81 0.38
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:21326766 original size:85 final size:85
Alignment explanation
Indices: 21326672--21327053 Score: 548
Period size: 85 Copynumber: 4.4 Consensus size: 85
21326662 TTAACATGTA
*
21326672 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
21326737 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
21326757 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
21326822 CGCTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
*
21326842 TAACCGTGGCATATCCACTTAGCACCACATTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
21326907 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* * * *
21326927 TAACCGTGGCATATCCACTTAGCACTACGTTACTTGTATCAATATGTGTAATCGTGGTATATGCA
1 TAACCGTGGCATATCCACTTAGCAC--C---AC--GT-T--ACATGTTTAACCGTGGTATATCCA
* * *
21326992 CTTAGCACCATGTTACATGTATCAATATGTG
56 CTTAGCACCACGTTA-ATGAATCAATATATG
* * *
21327023 TAATCGTGGTATATCTACTTAGCACCACGTT
1 TAACCGTGGCATATCCACTTAGCACCACGTT
21327054 TTTTCATTTT
Statistics
Matches: 271, Mismatches: 15, Indels: 19
0.89 0.05 0.06
Matches are distributed among these distances:
85 191 0.70
87 1 0.00
88 1 0.00
89 2 0.01
90 2 0.01
91 2 0.01
92 1 0.00
93 1 0.00
94 1 0.00
95 34 0.13
96 35 0.13
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CGTTAATGAATCAATATATG
Found at i:21326864 original size:47 final size:47
Alignment explanation
Indices: 21326795--21327053 Score: 302
Period size: 48 Copynumber: 5.7 Consensus size: 47
21326785 GTTACATGTT
* *
21326795 TAACCGTGGTATATCCACTTAGCACCACGCTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGTATCAATATATG
* *
21326842 TAACCGTGGCATATCCACTTAGCACCAC----AT-TA-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGTATCAATATATG
*
21326880 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGTATCAATATATG
* * * *
21326927 TAACCGTGGCATATCCACTTAGCACTACGTTACTTGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGTATCAATATATG
* * * *
21326975 TAATCGTGGTATATGCACTTAGCACCATGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGTATCAATATATG
* *
21327023 TAATCGTGGTATATCTACTTAGCACCACGTT
1 TAACCGTGGTATATCCACTTAGCACCACGTT
21327054 TTTTCATTTT
Statistics
Matches: 182, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
38 27 0.15
39 1 0.01
40 3 0.02
41 1 0.01
42 3 0.02
43 3 0.02
44 1 0.01
45 3 0.02
46 1 0.01
47 57 0.31
48 82 0.45
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGTATCAATATATG
Found at i:21329955 original size:8 final size:8
Alignment explanation
Indices: 21329942--21329985 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
21329932 ACTTAAGTAT
21329942 ATAATATA
1 ATAATATA
21329950 ATAATATA
1 ATAATATA
*
21329958 TTAATATA
1 ATAATATA
*
21329966 ATAATTTA
1 ATAATATA
21329974 ATAATATA
1 ATAATATA
21329982 ATAA
1 ATAA
21329986 AACATAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATAATATA
Found at i:21330074 original size:13 final size:14
Alignment explanation
Indices: 21330058--21330089 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
21330048 AGGAATTGGA
21330058 AGAAAAAG-AAAAG
1 AGAAAAAGAAAAAG
21330071 AG-AAAAGAAAAAG
1 AGAAAAAGAAAAAG
21330084 AGAAAA
1 AGAAAA
21330090 TTAGGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.29
13 9 0.53
14 3 0.18
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAAAAAG
Found at i:21330076 original size:7 final size:7
Alignment explanation
Indices: 21330058--21330089 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
21330048 AGGAATTGGA
21330058 AGAAAA-
1 AGAAAAG
21330064 AGAAAAG
1 AGAAAAG
21330071 AGAAAAG
1 AGAAAAG
21330078 A-AAAAG
1 AGAAAAG
21330084 AGAAAA
1 AGAAAA
21330090 TTAGGGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (7 bp):
AGAAAAG
Found at i:21330708 original size:14 final size:15
Alignment explanation
Indices: 21330689--21330719 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21330679 TTACATATAT
21330689 ATATAAA-GTAAGTA
1 ATATAAAGGTAAGTA
21330703 ATATAAAGGTAAGTA
1 ATATAAAGGTAAGTA
21330718 AT
1 AT
21330720 GCTATTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (15 bp):
ATATAAAGGTAAGTA
Found at i:21341723 original size:40 final size:40
Alignment explanation
Indices: 21341632--21341805 Score: 223
Period size: 40 Copynumber: 4.4 Consensus size: 40
21341622 TGATAACCGA
*
21341632 GCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCCGG
21341673 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
21341713 GCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
21341753 GCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
* *
21341791 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
21341806 TACTTGGTTT
Statistics
Matches: 122, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
38 15 0.12
39 16 0.13
40 67 0.55
41 20 0.16
42 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:21348570 original size:13 final size:14
Alignment explanation
Indices: 21348548--21348581 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
21348538 AGATTCATGC
21348548 ATTT-TTTTATTTT
1 ATTTATTTTATTTT
21348561 -TTTATTTTATTTT
1 ATTTATTTTATTTT
21348574 ATTTATTT
1 ATTTATTT
21348582 GTTAGCTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 9 0.47
14 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
ATTTATTTTATTTT
Found at i:21349824 original size:40 final size:40
Alignment explanation
Indices: 21349726--21349943 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
21349716 TGGATGATAA
* *
21349726 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTA-GT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTATAT
* * *
21349766 CCTGGGCTAAGTCCCGAAGGCATTTGTACGAGTTATTACAT
1 CC-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
21349807 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21349847 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
21349887 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
21349926 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21349944 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 102 0.64
41 25 0.16
42 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:21356922 original size:11 final size:11
Alignment explanation
Indices: 21356906--21356936 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
21356896 TGCATCTAGT
21356906 TTTGTTCTTAA
1 TTTGTTCTTAA
21356917 TTTGTTCTTAA
1 TTTGTTCTTAA
*
21356928 TTTATTCTT
1 TTTGTTCTT
21356937 GATGATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.68
Consensus pattern (11 bp):
TTTGTTCTTAA
Found at i:21359045 original size:56 final size:56
Alignment explanation
Indices: 21358959--21359078 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
21358949 CTAAATTATC
21358959 ATTTATATTTGTTATAGCATAATTTTTAAAATATAATCTATCTCTTGATGACATAT
1 ATTTATATTTGTTATAGCATAATTTTTAAAATATAATCTATCTCTTGATGACATAT
*
21359015 ATTTATATTTGTTATAGCATAATTTTTAAAATATAATTTATCTCTTGATGACATAT
1 ATTTATATTTGTTATAGCATAATTTTTAAAATATAATCTATCTCTTGATGACATAT
21359071 ATTCTATA
1 ATT-TATA
21359079 GTACTTACAG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 58 0.94
57 4 0.06
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (56 bp):
ATTTATATTTGTTATAGCATAATTTTTAAAATATAATCTATCTCTTGATGACATAT
Found at i:21362355 original size:25 final size:25
Alignment explanation
Indices: 21362327--21362387 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
21362317 CCTTCCAATT
* *
21362327 GAATAGTCAATCAGACATTTTGATC
1 GAATAGTCAATCAGACATATCGATC
* *
21362352 GAATAATCAATCAGACATATCGGTC
1 GAATAGTCAATCAGACATATCGATC
*
21362377 AAATAGTCAAT
1 GAATAGTCAAT
21362388 ATGATGCATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (25 bp):
GAATAGTCAATCAGACATATCGATC
Found at i:21367003 original size:15 final size:15
Alignment explanation
Indices: 21366983--21367012 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21366973 TTGGGAGCCT
*
21366983 TTTTATTTTGTTTTA
1 TTTTATTTAGTTTTA
21366998 TTTTATTTAGTTTTA
1 TTTTATTTAGTTTTA
21367013 AGTTAATATT
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:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTTATTTAGTTTTA
Found at i:21367094 original size:21 final size:22
Alignment explanation
Indices: 21367068--21367108 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21367058 TCTTCTGGAC
21367068 GTTTTC-TTTCTTTGCTTTTTG
1 GTTTTCTTTTCTTTGCTTTTTG
*
21367089 GTTTTCTTTTCTTTTCTTTT
1 GTTTTCTTTTCTTTGCTTTT
21367109 CATTTTGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.00, C:0.15, G:0.10, T:0.76
Consensus pattern (22 bp):
GTTTTCTTTTCTTTGCTTTTTG
Found at i:21367777 original size:21 final size:21
Alignment explanation
Indices: 21367753--21367792 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21367743 TGTCCCCGGT
**
21367753 CCACACGGGTGTGTGCCTCTG
1 CCACACGGCCGTGTGCCTCTG
21367774 CCACACGGCCGTGTGCCTC
1 CCACACGGCCGTGTGCCTC
21367793 CCTTCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.40, G:0.30, T:0.20
Consensus pattern (21 bp):
CCACACGGCCGTGTGCCTCTG
Found at i:21370022 original size:40 final size:40
Alignment explanation
Indices: 21369978--21370121 Score: 154
Period size: 40 Copynumber: 3.6 Consensus size: 40
21369968 GCTCCTCGTT
*
21369978 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
*
21370018 CAAATGCCTTCGGGACTTAACCCGGATT-TAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAAT-TCGCA
* * * * *
21370058 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
21370099 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
21370122 ACATCATTCA
Statistics
Matches: 88, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
39 21 0.24
40 59 0.67
41 7 0.08
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:21370676 original size:88 final size:88
Alignment explanation
Indices: 21370527--21370702 Score: 343
Period size: 88 Copynumber: 2.0 Consensus size: 88
21370517 GAATCAAACT
21370527 CAACATTTTAGCTAATTTTTCCCCCTTGGCCGAATATGAATGTCTATTTTGGGGCCGATTTCAAC
1 CAACATTTTAGCTAATTTTTCCCCCTTGGCCGAATATGAATGTCTATTTTGGGGCCGATTTCAAC
21370592 ACTTAATACATTCTACAAGTATA
66 ACTTAATACATTCTACAAGTATA
*
21370615 CAACATTTTAGCTAATTTTTCCCCCTTGGCCGAATATGCATGTCTATTTTGGGGCCGATTTCAAC
1 CAACATTTTAGCTAATTTTTCCCCCTTGGCCGAATATGAATGTCTATTTTGGGGCCGATTTCAAC
21370680 ACTTAATACATTCTACAAGTATA
66 ACTTAATACATTCTACAAGTATA
21370703 GTCACTTGTA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (88 bp):
CAACATTTTAGCTAATTTTTCCCCCTTGGCCGAATATGAATGTCTATTTTGGGGCCGATTTCAAC
ACTTAATACATTCTACAAGTATA
Found at i:21374467 original size:54 final size:54
Alignment explanation
Indices: 21374385--21374491 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
21374375 CGTCACTTTA
* *
21374385 TTCAGTTGACGATAGTCAATGCACAACCTCATGGTTCCGTCCTTCTTTTTCACG
1 TTCAGCTGACGATAGTCAATGCACAACCTAATGGTTCCGTCCTTCTTTTTCACG
*
21374439 TTCAGCTGACGATAGTCGATGCACAACCTAATGGTTCCGTCCTTCTTTTTCAC
1 TTCAGCTGACGATAGTCAATGCACAACCTAATGGTTCCGTCCTTCTTTTTCAC
21374492 AAACAATACT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (54 bp):
TTCAGCTGACGATAGTCAATGCACAACCTAATGGTTCCGTCCTTCTTTTTCACG
Found at i:21378025 original size:40 final size:40
Alignment explanation
Indices: 21377981--21378242 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
21377971 GCTCCTCGTT
* *
21377981 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
21378021 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
21378061 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
21378100 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
21378139 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
21378178 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
21378219 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21378243 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:21382032 original size:29 final size:30
Alignment explanation
Indices: 21381971--21382038 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
21381961 TTCTATTGTG
21381971 TTTTATTTTATTTAGTTTTAAGTTAATAGTA
1 TTTTA-TTTATTTAGTTTTAAGTTAATAGTA
* * * **
21382002 -TTTATTTATTTATTTTTATGTTTATTTTA
1 TTTTATTTATTTAGTTTTAAGTTAATAGTA
21382031 TTTTATTT
1 TTTTATTT
21382039 TCTCTTCTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (30 bp):
TTTTATTTATTTAGTTTTAAGTTAATAGTA
Found at i:21382424 original size:20 final size:20
Alignment explanation
Indices: 21382399--21382436 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21382389 AACTAGGATT
21382399 TCCACACAGG-CGTGTGCCAG
1 TCCACAC-GGCCGTGTGCCAG
21382419 TCCACACGGCCGTGTGCC
1 TCCACACGGCCGTGTGCC
21382437 TTTGGGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.16, C:0.39, G:0.29, T:0.16
Consensus pattern (20 bp):
TCCACACGGCCGTGTGCCAG
Found at i:21385330 original size:48 final size:48
Alignment explanation
Indices: 21384985--21385315 Score: 567
Period size: 48 Copynumber: 6.9 Consensus size: 48
21384975 TGATAAGGCC
21384985 TAATGGCCGATGTGATGAATGTGAAAGTGTATACATGTGAATAGGGCT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATACATGTGAATAGGGCT
** * *
21385033 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTG-ATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATACATGTGAATAGGGCT
* * *
21385080 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTG-ATAAGGCT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATACATGTGAATAGGGCT
21385129 TAATGGCCGATGTGATGAATGTGAAAGTGTATACATGTGAATAGGGCT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATACATGTGAATAGGGCT
21385177 TAATGGCCGATGTGATGAATGTGAAAGTGTATACATGTGAATAGGGCT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATACATGTGAATAGGGCT
21385225 TAATGGCCGATGTGATGAATGTGAAAGTGTATACATGTGAATAGGGCT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATACATGTGAATAGGGCT
21385273 TAATGGCCGATGTGATGAATGTGAAAGTGTATACATGTGAATA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATACATGTGAATA
21385316 ATGTGACAGG
Statistics
Matches: 270, Mismatches: 10, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
47 43 0.16
48 183 0.68
49 44 0.16
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (48 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATACATGTGAATAGGGCT
Found at i:21385549 original size:37 final size:37
Alignment explanation
Indices: 21385493--21385568 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
21385483 GAGTTCTAAG
* * * *
21385493 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACATGTGGAGATTATGTCCGGGTAA
*
21385530 GACCCGATAACTTCATGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACATGTGGAGATTATGTCCGGGTAA
21385567 GA
1 GA
21385569 TTTCGTAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACATGTGGAGATTATGTCCGGGTAA
Found at i:21386975 original size:21 final size:21
Alignment explanation
Indices: 21386951--21387012 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
21386941 TGTCCCTAGT
*
21386951 CCACATGGGCGTGTGCCTCTG
1 CCACACGGGCGTGTGCCTCTG
* * *
21386972 CCACACGGCCGTGTGCTTCCTT
1 CCACACGGGCGTGTGCCT-CTG
*
21386994 TCACACGGGCGTGTGCCTC
1 CCACACGGGCGTGTGCCTC
21387013 ATCACAGGGC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.10, C:0.37, G:0.29, T:0.24
Consensus pattern (21 bp):
CCACACGGGCGTGTGCCTCTG
Found at i:21387037 original size:20 final size:21
Alignment explanation
Indices: 21386991--21387043 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
21386981 CGTGTGCTTC
* *
21386991 CTTTCACACGGGCGTGTGCCT
1 CTTTCACACGGGCATGTGCCA
*
21387012 C-ATCACA-GGGCATGTGCCA
1 CTTTCACACGGGCATGTGCCA
21387031 CTTTCACACGGGC
1 CTTTCACACGGGC
21387044 TTTTAACCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 11 0.42
20 10 0.38
21 5 0.19
ACGTcount: A:0.17, C:0.34, G:0.26, T:0.23
Consensus pattern (21 bp):
CTTTCACACGGGCATGTGCCA
Found at i:21388315 original size:75 final size:75
Alignment explanation
Indices: 21388225--21388375 Score: 293
Period size: 75 Copynumber: 2.0 Consensus size: 75
21388215 TCGGAGAAAA
21388225 TTTAATAAACGTTATATGTTTAGATTTTATTTTATCATTCAGAGCTTTGAAATGTAAGGTTTTAT
1 TTTAATAAACGTTATATGTTTAGATTTTATTTTATCATTCAGAGCTTTGAAATGTAAGGTTTTAT
21388290 AATACCGTGG
66 AATACCGTGG
21388300 TTTAATAAACGTTATATGTTTAGATTTTATTTTATCATTCAGAGCTTTGAAATGTAAGGTTTTAT
1 TTTAATAAACGTTATATGTTTAGATTTTATTTTATCATTCAGAGCTTTGAAATGTAAGGTTTTAT
*
21388365 AATATCGTGG
66 AATACCGTGG
21388375 T
1 T
21388376 ACAAATTTCG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.46
Consensus pattern (75 bp):
TTTAATAAACGTTATATGTTTAGATTTTATTTTATCATTCAGAGCTTTGAAATGTAAGGTTTTAT
AATACCGTGG
Found at i:21389762 original size:15 final size:14
Alignment explanation
Indices: 21389735--21389814 Score: 56
Period size: 15 Copynumber: 5.3 Consensus size: 14
21389725 TTGGGAGCCC
*
21389735 TTTTATTGTGTTTTA
1 TTTTATT-TATTTTA
21389750 TTTTATTTAGTTTTAA
1 TTTTATTTA-TTTT-A
21389766 GTTATTATTTA-TTTA
1 -TT-TTATTTATTTTA
*
21389781 -TTTATTAATTGTTA
1 TTTTATTTATT-TTA
21389795 TTTCTATTTTATTTTA
1 TTT-TA-TTTATTTTA
21389811 TTTT
1 TTTT
21389815 CTCTTTTGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
12 6 0.11
13 2 0.04
14 4 0.08
15 15 0.28
16 12 0.23
17 7 0.13
18 7 0.13
ACGTcount: A:0.21, C:0.01, G:0.06, T:0.71
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:21389778 original size:22 final size:22
Alignment explanation
Indices: 21389751--21389797 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
21389741 TGTGTTTTAT
21389751 TTTATTTAGTT-TTAAGTTATTA
1 TTTATTTAGTTATTAA-TTATTA
* *
21389773 TTTATTTATTTATTAATTGTTA
1 TTTATTTAGTTATTAATTATTA
21389795 TTT
1 TTT
21389798 CTATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (22 bp):
TTTATTTAGTTATTAATTATTA
Found at i:21390564 original size:21 final size:21
Alignment explanation
Indices: 21390528--21390580 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
21390518 ATACGGCCTA
*
21390528 TTCACATGGCCATGTCTCCGG
1 TTCACATGGCCATGTCACCGG
**
21390549 TTCACATGGCTTTGTCACCGG
1 TTCACATGGCCATGTCACCGG
* *
21390570 TCCACACGGCC
1 TTCACATGGCC
21390581 GTGTGCCTCC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.36, G:0.23, T:0.26
Consensus pattern (21 bp):
TTCACATGGCCATGTCACCGG
Found at i:21391145 original size:92 final size:92
Alignment explanation
Indices: 21391017--21391185 Score: 275
Period size: 92 Copynumber: 1.8 Consensus size: 92
21391007 GTAATTTACC
* * *
21391017 GGTATAGCGGTTCACCGCATTGCACTGTACTGCATGTACGTTAGCTATGCTATGTACCCTTATCT
1 GGTATAGCGGTTCACCGCATTGCACTGTAATACATGTACGTTAGCTATGCTATGTACACTTATCT
21391082 GATCTCGCAGTTAAGCCACAATTTTTT
66 GATCTCGCAGTTAAGCCACAATTTTTT
* * *
21391109 GGTATAGTGGTTCACCGCATTGCATTGTAATACATGTATGTTAGCTATGCTATGTACACTTATCT
1 GGTATAGCGGTTCACCGCATTGCACTGTAATACATGTACGTTAGCTATGCTATGTACACTTATCT
*
21391174 GATCTGGCAGTT
66 GATCTCGCAGTT
21391186 TAACTGCAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 70 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (92 bp):
GGTATAGCGGTTCACCGCATTGCACTGTAATACATGTACGTTAGCTATGCTATGTACACTTATCT
GATCTCGCAGTTAAGCCACAATTTTTT
Found at i:21393358 original size:15 final size:14
Alignment explanation
Indices: 21393331--21393410 Score: 56
Period size: 15 Copynumber: 5.3 Consensus size: 14
21393321 TTGGGAGCCC
*
21393331 TTTTATTGTGTTTTA
1 TTTTATT-TATTTTA
21393346 TTTTATTTAGTTTTAA
1 TTTTATTTA-TTTT-A
21393362 GTTATTATTTA-TTTA
1 -TT-TTATTTATTTTA
*
21393377 -TTTATTAATTGTTA
1 TTTTATTTATT-TTA
21393391 TTTCTATTTTATTTTA
1 TTT-TA-TTTATTTTA
21393407 TTTT
1 TTTT
21393411 CTCTTTTGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
12 6 0.11
13 2 0.04
14 4 0.08
15 15 0.28
16 12 0.23
17 7 0.13
18 7 0.13
ACGTcount: A:0.21, C:0.01, G:0.06, T:0.71
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:21393374 original size:22 final size:22
Alignment explanation
Indices: 21393347--21393393 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
21393337 TGTGTTTTAT
21393347 TTTATTTAGTT-TTAAGTTATTA
1 TTTATTTAGTTATTAA-TTATTA
* *
21393369 TTTATTTATTTATTAATTGTTA
1 TTTATTTAGTTATTAATTATTA
21393391 TTT
1 TTT
21393394 CTATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (22 bp):
TTTATTTAGTTATTAATTATTA
Found at i:21394160 original size:21 final size:21
Alignment explanation
Indices: 21394124--21394176 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
21394114 ATACGGCCTA
*
21394124 TTCACATGGCCATGTCTCCGG
1 TTCACATGGCCATGTCACCGG
**
21394145 TTCACATGGCTTTGTCACCGG
1 TTCACATGGCCATGTCACCGG
* *
21394166 TCCACACGGCC
1 TTCACATGGCC
21394177 GTGTGCCTCC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.36, G:0.23, T:0.26
Consensus pattern (21 bp):
TTCACATGGCCATGTCACCGG
Found at i:21394741 original size:92 final size:92
Alignment explanation
Indices: 21394613--21394781 Score: 275
Period size: 92 Copynumber: 1.8 Consensus size: 92
21394603 GTAATTTACC
* * *
21394613 GGTATAGCGGTTCACCGCATTGCACTGTACTGCATGTACGTTAGCTATGCTATGTACCCTTATCT
1 GGTATAGCGGTTCACCGCATTGCACTGTAATACATGTACGTTAGCTATGCTATGTACACTTATCT
21394678 GATCTCGCAGTTAAGCCACAATTTTTT
66 GATCTCGCAGTTAAGCCACAATTTTTT
* * *
21394705 GGTATAGTGGTTCACCGCATTGCATTGTAATACATGTATGTTAGCTATGCTATGTACACTTATCT
1 GGTATAGCGGTTCACCGCATTGCACTGTAATACATGTACGTTAGCTATGCTATGTACACTTATCT
*
21394770 GATCTGGCAGTT
66 GATCTCGCAGTT
21394782 TAACTGCAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 70 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (92 bp):
GGTATAGCGGTTCACCGCATTGCACTGTAATACATGTACGTTAGCTATGCTATGTACACTTATCT
GATCTCGCAGTTAAGCCACAATTTTTT
Found at i:21397681 original size:33 final size:33
Alignment explanation
Indices: 21397644--21397709 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
21397634 AAAAACACTT
21397644 AGTTTATTTATATTTAATCCTAAAGCCTAAATA
1 AGTTTATTTATATTTAATCCTAAAGCCTAAATA
*
21397677 AGTTTATTTATATTTAATCCTAAGGCCTAAATA
1 AGTTTATTTATATTTAATCCTAAAGCCTAAATA
21397710 CCAAAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (33 bp):
AGTTTATTTATATTTAATCCTAAAGCCTAAATA
Found at i:21399079 original size:16 final size:17
Alignment explanation
Indices: 21399056--21399099 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
21399046 CCACCAAATT
21399056 GATTAATTAAGTTTA-A
1 GATTAATTAAGTTTATA
*
21399072 GTTTAATTAA--TTATA
1 GATTAATTAAGTTTATA
21399087 GATTAATTAAGTT
1 GATTAATTAAGTT
21399100 GATTATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 9 0.39
17 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (17 bp):
GATTAATTAAGTTTATA
Found at i:21399133 original size:23 final size:23
Alignment explanation
Indices: 21399107--21399151 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
21399097 GTTGATTATA
* *
21399107 ATTAATTACTAAACTAATTGTAG
1 ATTAATTACCAAACAAATTGTAG
21399130 ATTAATTACCAAACAAATTGTA
1 ATTAATTACCAAACAAATTGTA
21399152 AAAAAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTAATTACCAAACAAATTGTAG
Found at i:21404059 original size:14 final size:13
Alignment explanation
Indices: 21404032--21404063 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
21404022 AATTAAGCCA
21404032 TAATTAAGTTAAT
1 TAATTAAGTTAAT
21404045 TAATTAAGATTAAT
1 TAATTAAG-TTAAT
21404059 TAATT
1 TAATT
21404064 CCAAATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (13 bp):
TAATTAAGTTAAT
Found at i:21407821 original size:49 final size:48
Alignment explanation
Indices: 21407675--21407942 Score: 204
Period size: 48 Copynumber: 5.6 Consensus size: 48
21407665 ATGCCAACGC
* * * *
21407675 CATGTCCCAGACACGGTCTTACACTGGCTT-TCATATAGCGAGGCTGATTC
1 CATGTCCCAGACA-GGTCTTACACTAGCTTAT-ATATCGCGAGGCCGA-TG
* * * * *
21407725 CATGTCCTAGTCAGGTCTTACACTAGCTCTCATCTATCG-G-TGTCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCT-T-ATATATCGCGAGGCCGATG
* *
21407773 CCATGGCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATG
1 -CATGTCCCAGACAGGTCTTACACTAGCTTATATATCGCGAGGCCGATG
* * * ** * * ** *
21407822 TATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATCCCAATG
1 CATGTCCCAGACAGGTCTTACACTAGCTTATATATCGCGAGGCCGATG
* * * **
21407868 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTTGAGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTTATATATCGCGAGGCCGATG
*
21407916 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACAGGTCTTACACTAGC
21407943 ACACATATCA
Statistics
Matches: 171, Mismatches: 39, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
46 34 0.20
47 9 0.05
48 62 0.36
49 48 0.28
50 13 0.08
51 4 0.02
52 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTATATATCGCGAGGCCGATG
Found at i:21407903 original size:94 final size:96
Alignment explanation
Indices: 21407668--21407942 Score: 295
Period size: 94 Copynumber: 2.9 Consensus size: 96
21407658 GGTTAAGATG
* ** * *
21407668 CCAACGCCATGTCCCAGACACGGTCTTACACTGGCTTTCATATAGCGAGGCTGAT-TCCATGTCC
1 CCAATGCCATGTCCCAGACA-GGTCTTACACTGGCTTAAATATCGCGAGGCCGATGT--ATGTCC
* * * ** *
21407732 TAGTCAGGTCTTACACTAGCTCTCATCTATCGGTG
63 CAGACATGTCTTACACTAGCTCTCATC-ATCAATC
* * * * **
21407767 TCGATGCCATGGCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATGTATGTCCCAG
1 CCAATGCCATGTCCCAGACAGGTCTTACACTGGCTTAAATATCGCGAGGCCGATGTATGTCCCAG
*
21407832 ACATGTCTTACACTAGCTCTCGTC-TCAATC
66 ACATGTCTTACACTAGCTCTCATCATCAATC
* ** *
21407862 CCAATG-CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTTGAGGCCGATGCATGTCCCAG
1 CCAATGCCATGTCCCAGACAGGTCTTACACTGGCTTAAATATCGCGAGGCCGATGTATGTCCCAG
21407926 ACATGTCTTACACTAGC
66 ACATGTCTTACACTAGC
21407943 ACACATATCA
Statistics
Matches: 149, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
94 67 0.45
95 7 0.05
97 29 0.19
98 29 0.19
99 17 0.11
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (96 bp):
CCAATGCCATGTCCCAGACAGGTCTTACACTGGCTTAAATATCGCGAGGCCGATGTATGTCCCAG
ACATGTCTTACACTAGCTCTCATCATCAATC
Found at i:21411626 original size:42 final size:43
Alignment explanation
Indices: 21411555--21411680 Score: 107
Period size: 44 Copynumber: 2.9 Consensus size: 43
21411545 TCTTACATGT
21411555 AATCAAATATCGATGCCACTGTCCTAGACA-AGGTCTTACAAAA
1 AATCAAATATCGATGCCACTGTCCTAGACATA-GTCTTACAAAA
* * **
21411598 AATCAAATA-CGATGTCGA-TGTCTTAGACATAGTCTTACACGTA
1 AATCAAATATCGATG-CCACTGTCCTAGACATAGTCTTACA-AAA
* * * * *
21411641 AATCATAA-GTCGATGCCAATGTCCCAGACGTGGTCTTACA
1 AATCA-AATATCGATGCCACTGTCCTAGACATAGTCTTACA
21411681 CGAAAACACA
Statistics
Matches: 67, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
42 23 0.34
43 20 0.30
44 24 0.36
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (43 bp):
AATCAAATATCGATGCCACTGTCCTAGACATAGTCTTACAAAA
Found at i:21415784 original size:7 final size:8
Alignment explanation
Indices: 21415757--21415783 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
21415747 GGTAGTCCGG
21415757 AAAATAAA
1 AAAATAAA
21415765 AAAATAAA
1 AAAATAAA
21415773 AAAATAAA
1 AAAATAAA
21415781 AAA
1 AAA
21415784 TTCTTGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAATAAA
Found at i:21416314 original size:64 final size:64
Alignment explanation
Indices: 21416243--21416369 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
21416233 AAAGCATTTT
** *
21416243 TGAATTAGTGAATTTGGTGATTTAAAAGAATTAATTAGGTAAATTGGGTCGAGAATGAGGTATC
1 TGAATTAGTGAATTTGCAGATTTAAAAGAATTAATTAGGTAAATTGGGTCGAAAATGAGGTATC
21416307 TGAATTAGTGAATTTGCAGATTTAAAAGAATTAATTAGGTAAATTGGGTCGAAAATGAGGTAT
1 TGAATTAGTGAATTTGCAGATTTAAAAGAATTAATTAGGTAAATTGGGTCGAAAATGAGGTAT
21416370 TGAGACCTCA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (64 bp):
TGAATTAGTGAATTTGCAGATTTAAAAGAATTAATTAGGTAAATTGGGTCGAAAATGAGGTATC
Found at i:21427154 original size:20 final size:19
Alignment explanation
Indices: 21427131--21427179 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
21427121 TTTTTTTCTA
21427131 ATTTTTAATAAAATTTTAAT
1 ATTTTTAAT-AAATTTTAAT
*
21427151 ATTTTTCACTAAATTTTAAT
1 ATTTTT-AATAAATTTTAAT
21427171 ATTTTTAAT
1 ATTTTTAAT
21427180 TATTTTTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTTAATAAATTTTAAT
Found at i:21443070 original size:27 final size:27
Alignment explanation
Indices: 21443040--21443217 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21443030 ATATTGAGTC
* * * *
21443040 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21443067 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21443094 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21443122 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21443149 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21443176 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21443203 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21443218 GTACAATTCA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:21443179 original size:82 final size:81
Alignment explanation
Indices: 21443061--21443216 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21443051 TGCTATATAA
* *
21443061 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21443126 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21443143 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21443207 CACTTAGTGC
65 CACTTAGTGC
21443217 TGTACAATTC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21443229 original size:82 final size:83
Alignment explanation
Indices: 21443040--21443242 Score: 229
Period size: 82 Copynumber: 2.5 Consensus size: 83
21443030 ATATTGAGTC
* * * * *
21443040 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
21443104 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
21443122 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
21443183 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
*
21443203 CGCACACTTAGTGCTGTACAATTCAATCCCGCACACTTAG
1 CGCACACTTAGTGCTGTACAATTCAAT-TCGCACACTTAG
21443243 CGCCAATCTC
Statistics
Matches: 101, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.17
82 69 0.68
83 12 0.12
84 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:21443230 original size:27 final size:25
Alignment explanation
Indices: 21443040--21443242 Score: 124
Period size: 27 Copynumber: 7.4 Consensus size: 25
21443030 ATATTGAGTC
* * *
21443040 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACA-ATTCAA-T
21443067 CGCACACTTAGTGCTACGTAA-TCAAAT
1 CGCACACTTAGTGCTAC--AATTC-AAT
*
21443094 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACA-ATTC-AA-T
**
21443122 CGCACACTTAGTGCCGC-ATGGTCAATT
1 CGCACACTTAGTGCTACAAT--TCAA-T
*
21443149 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CA-ATTCA-AT
* *
21443176 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACA-ATTC-AAT
21443203 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGC--TACAATTCAAT
21443230 CCCGCACACTTAG
1 --CGCACACTTAG
21443243 CGCCAATCTC
Statistics
Matches: 146, Mismatches: 12, Indels: 34
0.76 0.06 0.18
Matches are distributed among these distances:
25 1 0.01
26 2 0.01
27 100 0.68
28 26 0.18
29 17 0.12
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (25 bp):
CGCACACTTAGTGCTACAATTCAAT
Done.