Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 64 of 127
Found at i:12529989 original size:16 final size:16
Alignment explanation
Indices: 12529968--12530006 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
12529958 CCTTATTTTA
*
12529968 TTCATTTATTTTGATT
1 TTCATTTATTTTAATT
*
12529984 TTCATTTCTTTTAATT
1 TTCATTTATTTTAATT
*
12530000 TTTATTT
1 TTCATTT
12530007 TCAATATGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.72
Consensus pattern (16 bp):
TTCATTTATTTTAATT
Found at i:12530965 original size:9 final size:9
Alignment explanation
Indices: 12530951--12530975 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
12530941 CAAAACGCCG
12530951 TCGTTGCCT
1 TCGTTGCCT
12530960 TCGTTGCCT
1 TCGTTGCCT
12530969 TCGTTGC
1 TCGTTGC
12530976 AATGGGGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.32, G:0.24, T:0.44
Consensus pattern (9 bp):
TCGTTGCCT
Found at i:12537965 original size:23 final size:23
Alignment explanation
Indices: 12537935--12537981 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
12537925 CTACGGATGG
*
12537935 TTATATTGTTTGCTTTTTGGCAA
1 TTATATTGTTTGCTGTTTGGCAA
12537958 TTATATTGTTTGCTGTTTGGCAA
1 TTATATTGTTTGCTGTTTGGCAA
12537981 T
1 T
12537982 CATTGCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.09, G:0.19, T:0.55
Consensus pattern (23 bp):
TTATATTGTTTGCTGTTTGGCAA
Found at i:12546362 original size:7 final size:7
Alignment explanation
Indices: 12546350--12546395 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
12546340 ATATTAAATC
12546350 ATCAATA
1 ATCAATA
12546357 ATCAATA
1 ATCAATA
*
12546364 ATC-ATC
1 ATCAATA
12546370 ATCAATA
1 ATCAATA
*
12546377 ATTAATA
1 ATCAATA
*
12546384 ATTAATA
1 ATCAATA
12546391 A-CAAT
1 ATCAAT
12546396 CTATACATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
6 8 0.24
7 26 0.76
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (7 bp):
ATCAATA
Found at i:12546372 original size:20 final size:20
Alignment explanation
Indices: 12546347--12546385 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
12546337 GGAATATTAA
12546347 ATCATCAATAATCAATAATC
1 ATCATCAATAATCAATAATC
*
12546367 ATCATCAATAATTAATAAT
1 ATCATCAATAATCAATAAT
12546386 TAATAACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (20 bp):
ATCATCAATAATCAATAATC
Found at i:12548071 original size:22 final size:21
Alignment explanation
Indices: 12548046--12548086 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12548036 TGTTTCTATA
*
12548046 TTGTTATTGTCTTTCTTTTTAT
1 TTGTTATTG-CTTTATTTTTAT
*
12548068 TTGTTTTTGCTTTATTTTT
1 TTGTTATTGCTTTATTTTT
12548087 TAGATTCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.07, C:0.07, G:0.10, T:0.76
Consensus pattern (21 bp):
TTGTTATTGCTTTATTTTTAT
Found at i:12555053 original size:50 final size:50
Alignment explanation
Indices: 12554974--12555074 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
12554964 AATTAGACTA
* *
12554974 ATCTAACCTATCCTCAGTAGAATTGACCTATTAATTGAAGATAGGTTTTG
1 ATCTAACCTATCCTCAGTAGAACTAACCTATTAATTGAAGATAGGTTTTG
** *
12555024 ATCTAACCTATCCTC-GATAGAACTAACCTATTAATTGGGGGTAGGTTTTG
1 ATCTAACCTATCCTCAG-TAGAACTAACCTATTAATTGAAGATAGGTTTTG
12555074 A
1 A
12555075 AAATTTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
49 1 0.02
50 44 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (50 bp):
ATCTAACCTATCCTCAGTAGAACTAACCTATTAATTGAAGATAGGTTTTG
Found at i:12559463 original size:23 final size:22
Alignment explanation
Indices: 12559422--12559464 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12559412 TTTGGCATTT
*
12559422 ATCATATTTTTTCACTAGTTCA
1 ATCATATTTTTTCAATAGTTCA
*
12559444 ATCATGTTTTTTCTAATAGTT
1 ATCATATTTTTTC-AATAGTT
12559465 AGCCAATAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.26, C:0.14, G:0.07, T:0.53
Consensus pattern (22 bp):
ATCATATTTTTTCAATAGTTCA
Found at i:12572481 original size:3 final size:3
Alignment explanation
Indices: 12572475--12572500 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12572465 GACGACGATG
12572475 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
12572501 CCGTACCAAA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:12572986 original size:23 final size:24
Alignment explanation
Indices: 12572951--12572995 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
12572941 TTTTTCTTTT
12572951 TTTCATTTCTTTTCCTT-TTTTAA
1 TTTCATTTCTTTTCCTTATTTTAA
*
12572974 TTTCTATTT-TTTTTCTTATTTT
1 TTTC-ATTTCTTTTCCTTATTTT
12572996 TTCTCTACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTCATTTCTTTTCCTTATTTTAA
Found at i:12572987 original size:18 final size:18
Alignment explanation
Indices: 12572942--12572987 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
12572932 TTGCCCTTTT
*
12572942 TTTTCTTTTTTTCATTTC
1 TTTTCTTTTTTTAATTTC
*
12572960 TTTTCCTTTTTTAATTTC
1 TTTTCTTTTTTTAATTTC
*
12572978 TATT-TTTTTT
1 TTTTCTTTTTT
12572988 CTTATTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTCTTTTTTTAATTTC
Found at i:12574965 original size:15 final size:15
Alignment explanation
Indices: 12574948--12574976 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12574938 TTTTCCTTTT
12574948 TTTTTG-TTTTTTAA
1 TTTTTGCTTTTTTAA
12574962 TTTTTGCTTTTTTAA
1 TTTTTGCTTTTTTAA
12574977 AATCTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.14, C:0.03, G:0.07, T:0.76
Consensus pattern (15 bp):
TTTTTGCTTTTTTAA
Found at i:12575283 original size:21 final size:21
Alignment explanation
Indices: 12575242--12575294 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
12575232 CTTTTTTACT
*
12575242 TTTTTTTAATATTTAATAAATA
1 TTTTTTTAA-ATATAATAAATA
12575264 TTTTTTTAAATCATAA-AAATA
1 TTTTTTTAAAT-ATAATAAATA
*
12575285 TATTTTTAAA
1 TTTTTTTAAA
12575295 AAGATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTTTTAAATATAATAAATA
Found at i:12576800 original size:19 final size:20
Alignment explanation
Indices: 12576776--12576819 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
12576766 TACTTTTCCT
12576776 TTTTTAAAAATA-T-TTAATA
1 TTTTTAAAAATAGTATTAA-A
12576795 TTTTTAAAAATAGTATTAAA
1 TTTTTAAAAATAGTATTAAA
12576815 TTTTT
1 TTTTT
12576820 TTTACTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.52
20 7 0.30
21 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTTTAAAAATAGTATTAAA
Found at i:12578048 original size:2 final size:2
Alignment explanation
Indices: 12578041--12578065 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12578031 TAGAAAGTTA
12578041 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
12578066 TTCTATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:12578074 original size:2 final size:2
Alignment explanation
Indices: 12578069--12578103 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
12578059 TCTCTCTTTC
12578069 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12578104 ACATACATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12579694 original size:26 final size:22
Alignment explanation
Indices: 12579660--12579709 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 22
12579650 TATTAAAATG
12579660 TTAAAATTTTATAACATTAAATATAT
1 TTAAAA-TTTA-AA-ATTAAATA-AT
12579686 TTAAAATTTAAAATTAAATAAT
1 TTAAAATTTAAAATTAAATAAT
12579708 TT
1 TT
12579710 TTAATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.17
23 8 0.33
24 2 0.08
25 4 0.17
26 6 0.25
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TTAAAATTTAAAATTAAATAAT
Found at i:12585406 original size:21 final size:21
Alignment explanation
Indices: 12585382--12585431 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
12585372 ATTAATTAAA
12585382 TTAATTTTATATTCTTT-CTTT
1 TTAATTTTATATT-TTTCCTTT
* *
12585403 TTAAATTTGTATTTTTCCTTT
1 TTAATTTTATATTTTTCCTTT
12585424 TTAATTTT
1 TTAATTTT
12585432 TTTTACTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (21 bp):
TTAATTTTATATTTTTCCTTT
Found at i:12585424 original size:20 final size:21
Alignment explanation
Indices: 12585382--12585430 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
12585372 ATTAATTAAA
* * *
12585382 TTAATTTTATATTCTTTCTTT
1 TTAAATTTGTATTCTTTCCTT
12585403 TTAAATTTGTATT-TTTCCTT
1 TTAAATTTGTATTCTTTCCTT
*
12585423 TTTAATTT
1 TTAAATTT
12585431 TTTTTACTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.69
Consensus pattern (21 bp):
TTAAATTTGTATTCTTTCCTT
Found at i:12586172 original size:18 final size:18
Alignment explanation
Indices: 12586149--12586195 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
12586139 CATTTTATTT
12586149 AATGGAGTTGGATTGTTA
1 AATGGAGTTGGATTGTTA
12586167 AATGGAGTTGGATTGTTA
1 AATGGAGTTGGATTGTTA
*
12586185 AATGGGGTTGG
1 AATGGAGTTGG
12586196 GTTTTGTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.36
Consensus pattern (18 bp):
AATGGAGTTGGATTGTTA
Found at i:12587220 original size:15 final size:16
Alignment explanation
Indices: 12587202--12587237 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
12587192 TACAAAGATT
12587202 TTTAAC-TCAATCAAA
1 TTTAACGTCAATCAAA
12587217 TTTAACTGTCAATCAAA
1 TTTAAC-GTCAATCAAA
12587234 TTTA
1 TTTA
12587238 CATTATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
17 13 0.68
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.39
Consensus pattern (16 bp):
TTTAACGTCAATCAAA
Found at i:12589901 original size:17 final size:16
Alignment explanation
Indices: 12589856--12589911 Score: 68
Period size: 17 Copynumber: 3.8 Consensus size: 16
12589846 ATACTTAAAA
12589856 TTTTTAAAAT--ATAT
1 TTTTTAAAATCAATAT
12589870 TTTTT-AAA-CAA-AT
1 TTTTTAAAATCAATAT
12589883 TTTTTAAAATCAACTAT
1 TTTTTAAAATCAA-TAT
12589900 TTTTTAAAATCA
1 TTTTTAAAATCA
12589912 TAACAACAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 10 0.28
14 9 0.25
15 3 0.08
17 14 0.39
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTTTAAAATCAATAT
Found at i:12589909 original size:27 final size:24
Alignment explanation
Indices: 12589850--12589909 Score: 59
Period size: 27 Copynumber: 2.3 Consensus size: 24
12589840 TCTTAAATAC
12589850 TTAAAA-TTTTTAAAATATATTTT
1 TTAAAATTTTTTAAAATATATTTT
12589873 TTAAACAAATTTTTTAAAATCAACTATTTT
1 TT--A-AAATTTTTTAAAAT--A-TATTTT
12589903 TTAAAAT
1 TTAAAAT
12589910 CATAACAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
23 2 0.07
25 1 0.03
26 3 0.10
27 14 0.47
28 1 0.03
29 1 0.03
30 8 0.27
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (24 bp):
TTAAAATTTTTTAAAATATATTTT
Found at i:12589945 original size:15 final size:16
Alignment explanation
Indices: 12589925--12589959 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
12589915 CAACAATATT
*
12589925 AAATTAGATTT-TAAA
1 AAATTAAATTTCTAAA
12589940 AAATTAAATTTCTAAA
1 AAATTAAATTTCTAAA
12589956 AAAT
1 AAAT
12589960 AAAAAGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (16 bp):
AAATTAAATTTCTAAA
Found at i:12591653 original size:17 final size:17
Alignment explanation
Indices: 12591631--12591665 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12591621 TTTTGTCTTC
*
12591631 ATAATATAAAAAGAATA
1 ATAATAAAAAAAGAATA
*
12591648 ATAATAAAAAAATAATA
1 ATAATAAAAAAAGAATA
12591665 A
1 A
12591666 ATTAGGCACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
ATAATAAAAAAAGAATA
Found at i:12591665 original size:14 final size:15
Alignment explanation
Indices: 12591631--12591665 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
12591621 TTTTGTCTTC
12591631 ATAAT-ATAAAAAGA
1 ATAATAATAAAAAGA
12591645 ATAATAATAAAAA-A
1 ATAATAATAAAAAGA
12591659 ATAATAA
1 ATAATAA
12591666 ATTAGGCACG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
ATAATAATAAAAAGA
Found at i:12593990 original size:16 final size:15
Alignment explanation
Indices: 12593969--12594025 Score: 62
Period size: 15 Copynumber: 3.5 Consensus size: 15
12593959 TTTATTTTAT
12593969 TTTTTATGTTTTTGTA
1 TTTTTAT-TTTTTGTA
12593985 TTTTTATTTTTTGTA
1 TTTTTATTTTTTGTA
12594000 TCTTATTTATTTTTT-TA
1 --TT-TTTATTTTTTGTA
12594017 TTTATTATT
1 TTT-TTATT
12594026 ATTATTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.03
15 15 0.41
16 7 0.19
17 4 0.11
18 10 0.27
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (15 bp):
TTTTTATTTTTTGTA
Found at i:12594012 original size:23 final size:21
Alignment explanation
Indices: 12593959--12594021 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 21
12593949 GTAAACTCAT
* *
12593959 TTTATTTTATTTTTTATGTTT
1 TTTATTTTATTTTTTATCTTA
12593980 TTGTATTTTTATTTTTTGTATCTTA
1 TT-TA-TTTTA-TTTTT-TATCTTA
12594005 TTTATTTT-TTTATTTAT
1 TTTATTTTATTT-TTTAT
12594022 TATTATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
21 8 0.23
22 4 0.11
23 9 0.26
24 7 0.20
25 7 0.20
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTATTTTATTTTTTATCTTA
Found at i:12594024 original size:3 final size:3
Alignment explanation
Indices: 12594018--12594106 Score: 81
Period size: 3 Copynumber: 27.7 Consensus size: 3
12594008 ATTTTTTTAT
*
12594018 TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTTA TCTA TTA ATA TATA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA T-TA
* *
12594067 TATA CT- TTA TTA ATA TTTA TCTA TTA TTA TTA TTA TTA TT
1 T-TA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TT
12594107 TATCTAGTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 14
0.78 0.06 0.15
Matches are distributed among these distances:
2 1 0.01
3 52 0.71
4 20 0.27
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:12594109 original size:33 final size:33
Alignment explanation
Indices: 12594015--12594109 Score: 117
Period size: 33 Copynumber: 2.9 Consensus size: 33
12594005 TTTATTTTTT
*
12594015 TATTTAT-TATTATTATTTATTATTA-TTATTAT
1 TATTTATCTATTATTA-TTATTATTATTTATTAA
*
12594047 TATTTATCTATTAATA-TA-TATATACTTTATTAA
1 TATTTATCTATTATTATTATTAT-TA-TTTATTAA
12594080 TATTTATCTATTATTATTATTATTATTTAT
1 TATTTATCTATTATTATTATTATTATTTAT
12594110 CTAGTAATAT
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
30 3 0.06
31 4 0.07
32 7 0.13
33 33 0.61
34 4 0.07
35 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (33 bp):
TATTTATCTATTATTATTATTATTATTTATTAA
Found at i:12594110 original size:56 final size:53
Alignment explanation
Indices: 12594017--12594131 Score: 176
Period size: 56 Copynumber: 2.1 Consensus size: 53
12594007 TATTTTTTTA
* * *
12594017 TTTATTATTATTATTTATTATTATTATTATTATTTATCTATTAATATATATATAC
1 TTTATTAATATTATCTATTATTATTATTATTATTTATCTAGTAATATAT-TAT-C
12594072 TTTATTAATATTTATCTATTATTATTATTATTATTTATCTAGTAATATATTATC
1 TTTATTAATA-TTATCTATTATTATTATTATTATTTATCTAGTAATATATTATC
12594126 TTTATT
1 TTTATT
12594132 TTATTTTTTC
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
54 7 0.12
55 12 0.21
56 37 0.66
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (53 bp):
TTTATTAATATTATCTATTATTATTATTATTATTTATCTAGTAATATATTATC
Found at i:12594958 original size:10 final size:10
Alignment explanation
Indices: 12594935--12595054 Score: 71
Period size: 10 Copynumber: 12.6 Consensus size: 10
12594925 TTTTTTCGTT
12594935 TTATTTA-T-
1 TTATTTATTA
12594943 TTATTTATTA
1 TTATTTATTA
12594953 TTATTTATTGA
1 TTATTTATT-A
* **
12594964 TTAGATTAGAA
1 TTA-TTTATTA
*
12594975 TTATTTAGTA
1 TTATTTATTA
*
12594985 TTTTTTATT-
1 TTATTTATTA
12594994 TTATTTTATT-
1 TTA-TTTATTA
12595004 TTATTT-TTA
1 TTATTTATTA
* *
12595013 -TCTTTATTT
1 TTATTTATTA
12595022 TTATTT-TTA
1 TTATTTATTA
12595031 TT-TTTATT-
1 TTATTTATTA
12595039 TTATTTTATT-
1 TTA-TTTATTA
12595049 TTATTT
1 TTATTT
12595055 TCTTTAAATA
Statistics
Matches: 89, Mismatches: 12, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
8 18 0.20
9 17 0.19
10 43 0.48
11 8 0.09
12 3 0.03
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.72
Consensus pattern (10 bp):
TTATTTATTA
Found at i:12594996 original size:15 final size:15
Alignment explanation
Indices: 12594978--12595055 Score: 65
Period size: 15 Copynumber: 5.2 Consensus size: 15
12594968 ATTAGAATTA
12594978 TTTAGTATT-TTTTAT
1 TTTA-TATTATTTTAT
*
12594993 TTTATTTTATTTTATT
1 TTTATATTATTTTA-T
*
12595009 TTTATCTTTATTTTTAT
1 TTTAT-ATTA-TTTTAT
12595026 TTT-TA-T-TTTTAT
1 TTTATATTATTTTAT
*
12595038 TTTATTTTATTTTAT
1 TTTATATTATTTTAT
12595053 TTT
1 TTT
12595056 CTTTAAATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
12 9 0.17
13 1 0.02
14 5 0.09
15 18 0.34
16 7 0.13
17 8 0.15
18 5 0.09
ACGTcount: A:0.18, C:0.01, G:0.01, T:0.79
Consensus pattern (15 bp):
TTTATATTATTTTAT
Found at i:12594997 original size:5 final size:5
Alignment explanation
Indices: 12594987--12595055 Score: 93
Period size: 5 Copynumber: 12.8 Consensus size: 5
12594977 ATTTAGTATT
12594987 TTTTA TTTTA TTTTA TTTTA TTTTTA TCTTTA TTTTTA TTTTTA TTTTTA
1 TTTTA TTTTA TTTTA TTTTA -TTTTA T-TTTA -TTTTA -TTTTA -TTTTA
12595037 TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
12595056 CTTTAAATAA
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
5 35 0.57
6 25 0.41
7 1 0.02
ACGTcount: A:0.17, C:0.01, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:12595156 original size:60 final size:58
Alignment explanation
Indices: 12595051--12595350 Score: 344
Period size: 58 Copynumber: 5.1 Consensus size: 58
12595041 ATTTTATTTT
** *
12595051 ATTTTCTTT-AAATAA-AATTCTAAAACAATATATTTTAAAGG-AAAAGTTGAAAGTATCA
1 ATTTTCTTTAAAATAAGTTTTCTAAAA-AATAT-TTTT-GAGGAAAAAGTTGAAAGTATCA
* *
12595109 ATTTTCTTTAAAATTAAGTTTTTTTTCAAAAATATTTTTGA-GAAAAAGTTGAAAGTATCA
1 ATTTTCTTTAAAA-TAAG--TTTTCTAAAAAATATTTTTGAGGAAAAAGTTGAAAGTATCA
* *
12595169 ATTTTTCTTAAAAATAAGTTTTCTAAAAAATATTTTTGA-GAAAAAGTTGAAAGTGTCA
1 A-TTTTCTTTAAAATAAGTTTTCTAAAAAATATTTTTGAGGAAAAAGTTGAAAGTATCA
*
12595227 ATTTTTCTTGAAAATAAGTTTTCTAAAAAATATTTTTGAGGAAAAA-TTGAAAGTATCA
1 A-TTTTCTTTAAAATAAGTTTTCTAAAAAATATTTTTGAGGAAAAAGTTGAAAGTATCA
* * * *
12595285 ATTTTCTTTGAAAATAATTTTTTTTAAAAAA-ATTTTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTCTTT-AAAATAA-GTTTTCTAAAAAATA-TTTTTGAGGAAAAAGTTGAAAGTATCA
12595345 ATTTTC
1 ATTTTC
12595351 CTTGTACGAA
Statistics
Matches: 214, Mismatches: 16, Indels: 22
0.85 0.06 0.09
Matches are distributed among these distances:
57 7 0.03
58 104 0.49
59 33 0.15
60 44 0.21
61 15 0.07
62 5 0.02
63 6 0.03
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (58 bp):
ATTTTCTTTAAAATAAGTTTTCTAAAAAATATTTTTGAGGAAAAAGTTGAAAGTATCA
Found at i:12595173 original size:118 final size:113
Alignment explanation
Indices: 12595051--12595350 Score: 343
Period size: 118 Copynumber: 2.5 Consensus size: 113
12595041 ATTTTATTTT
**
12595051 ATTTTCTTTAAATAA-AATTCTAAAACAATATATTTTAAAGGAAAAGTTGAAAGTATCAATTTTC
1 ATTTTCTTTAAATAATTTTTCTAAAA-AATAT-TTTT-AAGGAAAAGTTGAAAGTATCAATTTTC
* * *
12595115 TTTAAAATTAAGTTTTTTTTCAAAAATATTTTTGA-GAAAAAGTTGAAAGTATCA
63 TTGAAAA-TAAG--TTTTCTAAAAAATATTTTTGAGGAAAAA-TTGAAAGTATCA
* * * * *
12595169 ATTTTTCTTAAAAATAAGTTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTGTCAATTTTTC
1 A-TTTTCTT-TAAATAATTTTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAA-TTTTC
12595234 TTGAAAATAAGTTTTCTAAAAAATATTTTTGAGGAAAAATTGAAAGTATCA
63 TTGAAAATAAGTTTTCTAAAAAATATTTTTGAGGAAAAATTGAAAGTATCA
* * *
12595285 ATTTTCTTTGAAAATAATTTTTTTTAAAAAAATTTTTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 ATTTTCTTT--AAATAA-TTTTTCT-AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
12595350 C
62 C
12595351 CTTGTACGAA
Statistics
Matches: 156, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
115 7 0.04
116 38 0.24
117 16 0.10
118 54 0.35
119 22 0.14
120 11 0.07
121 8 0.05
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (113 bp):
ATTTTCTTTAAATAATTTTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTG
AAAATAAGTTTTCTAAAAAATATTTTTGAGGAAAAATTGAAAGTATCA
Found at i:12595205 original size:15 final size:16
Alignment explanation
Indices: 12595168--12595205 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
12595158 TGAAAGTATC
*
12595168 AATTTTTCTTAAAAAT
1 AATTTTTCTAAAAAAT
*
12595184 AAGTTTTCTAAAAAAT
1 AATTTTTCTAAAAAAT
12595200 -ATTTTT
1 AATTTTT
12595206 GAGAAAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTTTTCTAAAAAAT
Found at i:12595318 original size:15 final size:15
Alignment explanation
Indices: 12595284--12595323 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
12595274 TGAAAGTATC
*
12595284 AATTTTCTTTGAAAAT
1 AATTTT-TTTGAAAAA
*
12595300 AATTTTTTTTAAAAA
1 AATTTTTTTGAAAAA
12595315 AATTTTTTT
1 AATTTTTTT
12595324 AGGGAAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (15 bp):
AATTTTTTTGAAAAA
Found at i:12601119 original size:13 final size:13
Alignment explanation
Indices: 12601070--12601119 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
12601060 ATGCTTAAAC
*
12601070 AAAAAAA-GAAGAG
1 AAAAAAATGAA-AT
12601083 AAAAAAATGAAAT
1 AAAAAAATGAAAT
*
12601096 GAAAAAATGAAA-
1 AAAAAAATGAAAT
12601108 AAAAAAAGTGAA
1 AAAAAAA-TGAA
12601120 TGAAAAAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 6 0.19
13 23 0.72
14 3 0.09
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (13 bp):
AAAAAAATGAAAT
Found at i:12601125 original size:13 final size:12
Alignment explanation
Indices: 12601084--12601126 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
12601074 AAAGAAGAGA
12601084 AAAAAATGAAATG
1 AAAAAATG-AATG
**
12601097 AAAAAATGAAAA
1 AAAAAATGAATG
12601109 AAAAAAGTGAATG
1 AAAAAA-TGAATG
12601122 AAAAA
1 AAAAA
12601127 GGAGGACTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (12 bp):
AAAAAATGAATG
Found at i:12602485 original size:130 final size:128
Alignment explanation
Indices: 12602215--12602523 Score: 383
Period size: 130 Copynumber: 2.4 Consensus size: 128
12602205 CTGTTCAGAG
* *
12602215 GAGCAATTTACTTTT-CAAAAGTCGTTGAGCCT-TTTATTAGAGGAGCCTTTTATTTTTAAAAGT
1 GAGCAATTTATTTTTCCAAAA-TCGTTGAGCCTCTGT-TTAGAGGAGCCTTTTATTTTTAAAAGT
** * *
12602278 TGTTAAGCCTCTGTTTAGAGGAGCTTTGTTTATCTTTTTAAAAGTCGTTGAGCCTTTTTTTAGAT
64 CATTAAGCCTCTATTTAGAGGAGCTTTGTTTATCTTTTTAAAAGTCGTTGAGCCTTTATTTAGAT
* * *
12602343 GAGCTTTATTTATTTTTCCAAAATCGTTGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTTCCAA
1 GAGC--AATTTATTTTTCCAAAATCGTTGAGCCTCTGTTTAGAGGAGC-CT-TTTATTTTT-AAA
* * *
12602408 AGTCATTGAGCCTCTATTTAGAGGAGCTTTGTTTAT-TTTTCTGAAA-TTGTTGAGCCTTTATTT
61 AGTCATTAAGCCTCTATTTAGAGGAGCTTTGTTTATCTTTT-TAAAAGTCGTTGAGCCTTTATTT
12602471 AGAT
125 AGAT
* * *
12602475 GAGCAATTTATTTTTCTAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTT
1 GAGCAATTTATTTTTCCAAAATCGTTGAGCCTCTGTTTAGAGGAGCCTT
12602524 CGTTTATTCT
Statistics
Matches: 156, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
128 5 0.03
129 1 0.01
130 68 0.44
131 8 0.05
132 36 0.23
133 38 0.24
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (128 bp):
GAGCAATTTATTTTTCCAAAATCGTTGAGCCTCTGTTTAGAGGAGCCTTTTATTTTTAAAAGTCA
TTAAGCCTCTATTTAGAGGAGCTTTGTTTATCTTTTTAAAAGTCGTTGAGCCTTTATTTAGAT
Found at i:12602555 original size:45 final size:43
Alignment explanation
Indices: 12602138--12602548 Score: 326
Period size: 44 Copynumber: 9.5 Consensus size: 43
12602128 TCAAGGAGCA
* *
12602138 ATTTATTTTTCGAAGT--TATGATGCCTCTGTTTAGAGGAGC--A
1 ATTTATTTTTCAAAGTCGT-TGA-GCCTCTGTTTAGAGGAGCTTT
* * * * *
12602179 ATCTATTTTTCAAAGTTG-TGATGCCCCTGTTCAGAGGAGC--A
1 ATTTATTTTTCAAAGTCGTTGA-GCCTCTGTTTAGAGGAGCTTT
* * *
12602220 ATTTACTTTTCAAAAGTCGTTGAGCCT-TTTATTAGAGGAGC-CT
1 ATTTATTTTTC-AAAGTCGTTGAGCCTCTGT-TTAGAGGAGCTTT
* * *
12602263 -TTTATTTTTAAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTT
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
* * * * *
12602305 GTTTATCTTTTTAAAAGTCGTTGAGCCTTTTTTTAGATGAGCTTT
1 ATTTA--TTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
*
12602350 ATTTATTTTTCCAAAATCGTTGAGCCTCTGTTTAGAGGAGCTTT
1 ATTTATTTTT-CAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
* *
12602394 ATTTATTTTTCCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTT
1 ATTTATTTTT-CAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
* * * * * *
12602438 GTTTATTTTTCTGAAA-TTGTTGAGCCTTTATTTAGATGAGC--A
1 ATTTATTTTTC--AAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
* *
12602480 ATTTATTTTTCTAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTC
1 ATTTATTTTTC-AAAGTCGTTGAGCCTCTGTTTAGAGGAG-CTTT
* *
12602525 GTTTATTCTTTCAAAGTTGTTGAG
1 ATTTATT-TTTCAAAGTCGTTGAG
12602549 TATCTGTCAT
Statistics
Matches: 303, Mismatches: 48, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
41 72 0.24
42 58 0.19
43 14 0.05
44 99 0.33
45 56 0.18
46 4 0.01
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (43 bp):
ATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT
Found at i:12602812 original size:14 final size:15
Alignment explanation
Indices: 12602781--12602814 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12602771 TTTTATTTTC
*
12602781 TATTTTTTGTATTTT
1 TATTTTTTGTATTCT
12602796 TATTTTTTGTA-TCT
1 TATTTTTTGTATTCT
12602810 TATTT
1 TATTT
12602815 ATTTTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (15 bp):
TATTTTTTGTATTCT
Found at i:12602818 original size:4 final size:4
Alignment explanation
Indices: 12602794--12602976 Score: 55
Period size: 4 Copynumber: 45.8 Consensus size: 4
12602784 TTTTTGTATT
* *
12602794 TTTA TTTT TTGTA TCTTA TTTA TTT- TTTG TTTA TTTA TTTA -TTA TTACTA
1 TTTA TTTA TT-TA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA
* * * * *
12602844 TTTA TTAA TATA TATTA -TTA -TTA -TTA -TTA TTTA TTTG TTAA TATA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
12602889 TATA CTTTA TTAATA TTTA TCTA -TTA -TTA -TTA -TTA TTTA TCTA TTAA
1 TTTA -TTTA TT--TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
12602936 TATT- TTTA TCTA TTAA TATA TTATC TTTA TTTTA TTTA TTT
1 T-TTA TTTA TTTA TTTA TTTA TT-TA TTTA -TTTA TTTA TTT
12602977 TTCTTTCTTT
Statistics
Matches: 136, Mismatches: 27, Indels: 32
0.70 0.14 0.16
Matches are distributed among these distances:
3 31 0.23
4 78 0.57
5 18 0.13
6 9 0.07
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:12602840 original size:3 final size:3
Alignment explanation
Indices: 12602832--12602971 Score: 65
Period size: 3 Copynumber: 44.7 Consensus size: 3
12602822 GTTTATTTAT
* * *
12602832 TTA TTA TTA CTA TTTA TTA ATA TATA TTA TTA TTA TTA TTA TTTA TTTG
1 TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA -TTA -TTA
* * *
12602881 TTA ATA -TA TATA CT- TTA TTA ATA TTTA TCTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA -TTA
* * *
12602928 TCTA TTA ATA TTT TTA TCTA TTA ATA -TA TTA TCT- TTA TT- TTA TT
1 T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TT
12602972 TATTTTTCTT
Statistics
Matches: 106, Mismatches: 16, Indels: 30
0.70 0.11 0.20
Matches are distributed among these distances:
2 8 0.08
3 70 0.66
4 28 0.26
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:12602847 original size:13 final size:12
Alignment explanation
Indices: 12602824--12602959 Score: 72
Period size: 12 Copynumber: 11.3 Consensus size: 12
12602814 TATTTTTTGT
12602824 TTATT-TATTTA
1 TTATTATATTTA
12602835 TTATTACTATTTA
1 TTATTA-TATTTA
*
12602848 TTA--ATATATA
1 TTATTATATTTA
12602858 TTATTAT-TATTA
1 TTATTATAT-TTA
*
12602870 TTATT-TATTTG
1 TTATTATATTTA
* *
12602881 TTAATATATATA
1 TTATTATATTTA
12602893 CTTTATTAATATTTA
1 --TTATT-ATATTTA
12602908 TCTATTAT-TATTA
1 T-TATTATAT-TTA
*
12602921 TTATT-TATCTA
1 TTATTATATTTA
* *
12602932 TTAATATTTTTA
1 TTATTATATTTA
*
12602944 TCTATTA-ATATA
1 T-TATTATATTTA
12602956 TTAT
1 TTAT
12602960 CTTTATTTTA
Statistics
Matches: 95, Mismatches: 15, Indels: 30
0.68 0.11 0.21
Matches are distributed among these distances:
10 8 0.08
11 24 0.25
12 29 0.31
13 20 0.21
14 8 0.08
15 6 0.06
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (12 bp):
TTATTATATTTA
Found at i:12602847 original size:17 final size:16
Alignment explanation
Indices: 12602810--12602976 Score: 95
Period size: 16 Copynumber: 10.6 Consensus size: 16
12602800 TTTTGTATCT
* *
12602810 TATTTATTTTTTGTT-
1 TATTTATTTATTATTA
12602825 TATTTATTTATTATTA
1 TATTTATTTATTATTA
*
12602841 CTATTTA-TTAATA-TA
1 -TATTTATTTATTATTA
12602856 TA-TTA-TTATTATTA
1 TATTTATTTATTATTA
* *
12602870 TTATTTATTTGTTAATA
1 -TATTTATTTATTATTA
*
12602887 TATATACTTTATTA--A
1 TATTTA-TTTATTATTA
*
12602902 TATTTATCTATTATTA
1 TATTTATTTATTATTA
12602918 T-TATTATTTATCTATTA
1 TAT-TTATTTAT-TATTA
12602935 -ATATT-TTTATCTATTAA
1 TAT-TTATTTAT-TATT-A
* *
12602952 TATATTATCT-TTATTT
1 TAT-TTATTTATTATTA
12602968 TATTTATTT
1 TATTTATTT
12602977 TTCTTTCTTT
Statistics
Matches: 123, Mismatches: 14, Indels: 30
0.74 0.08 0.18
Matches are distributed among these distances:
13 8 0.07
14 10 0.08
15 29 0.24
16 35 0.28
17 33 0.27
18 6 0.05
19 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (16 bp):
TATTTATTTATTATTA
Found at i:12602850 original size:10 final size:10
Alignment explanation
Indices: 12602824--12602975 Score: 77
Period size: 10 Copynumber: 14.9 Consensus size: 10
12602814 TATTTTTTGT
12602824 TTATTTA-T-
1 TTATTTATTA
12602832 TTA-TTATTA
1 TTATTTATTA
*
12602841 CTATTTATTA
1 TTATTTATTA
* *
12602851 ATATATATTA
1 TTATTTATTA
12602861 TTA-TTATTA
1 TTATTTATTA
12602870 TTATTTA-T-
1 TTATTTATTA
* *
12602878 TTGTTAATATA
1 TTATTTAT-TA
12602889 TATACTTTATTA
1 T-TA-TTTATTA
*
12602901 ATATTTATCTA
1 TTATTTAT-TA
12602912 TTA-TTATTA
1 TTATTTATTA
12602921 TTATTTATCTA
1 TTATTTAT-TA
*
12602932 TTAATATTTTTA
1 TT-AT-TTATTA
*
12602944 TCTATTAATATA
1 T-TATTTAT-TA
12602956 TTATCTTTATT-
1 TTA--TTTATTA
12602967 TTATTTATT
1 TTATTTATT
12602976 TTTCTTTCTT
Statistics
Matches: 111, Mismatches: 15, Indels: 35
0.69 0.09 0.22
Matches are distributed among these distances:
7 3 0.03
8 9 0.08
9 22 0.20
10 33 0.30
11 18 0.16
12 14 0.13
13 12 0.11
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (10 bp):
TTATTTATTA
Found at i:12602917 original size:67 final size:66
Alignment explanation
Indices: 12602845--12602974 Score: 158
Period size: 67 Copynumber: 2.0 Consensus size: 66
12602835 TTATTACTAT
* * *
12602845 TTATTAATA-TATATTAT-TATTATTATTATTTATTTGTTAATATA-TATACTTTATTAATATTT
1 TTATTAATATTAT-TTATCTATTAATATT-TTTATCTATTAATATATTAT-CTTTATT-ATATTT
12602907 ATCTA
62 ATCTA
* *
12602912 TTATTATTATTATTTATCTATTAATATTTTTATCTATTAATATATTATCTTTATTTTATTTAT
1 TTATTAATATTATTTATCTATTAATATTTTTATCTATTAATATATTATCTTTATTATATTTAT
12602975 TTTTCTTTCT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
66 7 0.13
67 33 0.60
68 15 0.27
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (66 bp):
TTATTAATATTATTTATCTATTAATATTTTTATCTATTAATATATTATCTTTATTATATTTATCT
A
Found at i:12602927 original size:51 final size:50
Alignment explanation
Indices: 12602842--12602976 Score: 168
Period size: 51 Copynumber: 2.7 Consensus size: 50
12602832 TTATTATTAC
* * *
12602842 TATTTATTAATATATAT-TATTATTATTATTATTTATTTGTTAATATATA
1 TATTTATTAATATTTATCTATTATTATTATTATTTATCTATTAATATATA
* *
12602891 TACTTTATTAATATTTATCTATTATTATTATTATTTATCTATTAATATTTT
1 TA-TTTATTAATATTTATCTATTATTATTATTATTTATCTATTAATATATA
*
12602942 TATCTATTAATATATTATCT-TTATT-TTATTTATTT
1 TATTTATTAATAT-TTATCTATTATTATTA-TTATTT
12602977 TTCTTTCTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
49 5 0.07
50 35 0.46
51 36 0.47
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.63
Consensus pattern (50 bp):
TATTTATTAATATTTATCTATTATTATTATTATTTATCTATTAATATATA
Found at i:12602975 original size:26 final size:26
Alignment explanation
Indices: 12602894--12602975 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
12602884 ATATATATAC
12602894 TTTATTAATAT-TTATCTATTATTATTA
1 TTTATTAATATATTATCT-TTATT-TTA
* * * *
12602921 -TTATTTATCTATTA-ATAT-TTTTA
1 TTTATTAATATATTATCTTTATTTTA
*
12602944 TCTATTAATATATTATCTTTATTTTA
1 TTTATTAATATATTATCTTTATTTTA
12602970 TTTATT
1 TTTATT
12602976 TTTCTTTCTT
Statistics
Matches: 41, Mismatches: 10, Indels: 9
0.68 0.17 0.15
Matches are distributed among these distances:
23 3 0.07
24 13 0.32
25 3 0.07
26 19 0.46
27 3 0.07
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTATTAATATATTATCTTTATTTTA
Found at i:12603001 original size:58 final size:56
Alignment explanation
Indices: 12602939--12603052 Score: 176
Period size: 58 Copynumber: 2.0 Consensus size: 56
12602929 CTATTAATAT
* *
12602939 TTTTATCT-ATTAATATATTATCTTTATTTTATTTATTTTTCTTTCTTTTTTTGCTTAC
1 TTTTAT-TAATTAATATATTATCTTTATTTT-TTT-TCTTTCTTTCTTTTTCTGCTTAC
12602997 TTTTATTAATTAATATATTATCTTTATTTTTTTTCTTTCTTTCTTTTTCTGCTTAC
1 TTTTATTAATTAATATATTATCTTTATTTTTTTTCTTTCTTTCTTTTTCTGCTTAC
12603053 CCAATTGAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
56 21 0.40
57 4 0.08
58 28 0.53
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.68
Consensus pattern (56 bp):
TTTTATTAATTAATATATTATCTTTATTTTTTTTCTTTCTTTCTTTTTCTGCTTAC
Found at i:12603855 original size:12 final size:10
Alignment explanation
Indices: 12603838--12603967 Score: 63
Period size: 9 Copynumber: 14.0 Consensus size: 10
12603828 TTTTTTTTTC
12603838 ATTTATTTATTT
1 ATTTA-TTA-TT
12603850 ATTTATTATT
1 ATTTATTATT
12603860 A-TTATTATT
1 ATTTATTATT
*
12603869 ATTTATTA-G
1 ATTTATTATT
**
12603878 A-TTAAAATT
1 ATTTATTATT
12603887 ATTTA--A-T
1 ATTTATTATT
*
12603894 ATTTCTTA-T
1 ATTTATTATT
12603903 -TTTATT-TT
1 ATTTATTATT
*
12603911 ATTCTATTTTT
1 ATT-TATTATT
*
12603922 ATCT-TTATT
1 ATTTATTATT
*
12603931 -TTTATTTTT
1 ATTTATTATT
12603940 ATTT-TTATT
1 ATTTATTATT
12603949 -TTTATT-TT
1 ATTTATTATT
12603957 ATTTTATTATT
1 A-TTTATTATT
12603968 TTCTTTAAAT
Statistics
Matches: 92, Mismatches: 11, Indels: 31
0.69 0.08 0.23
Matches are distributed among these distances:
7 5 0.05
8 18 0.20
9 29 0.32
10 26 0.28
11 9 0.10
12 5 0.05
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (10 bp):
ATTTATTATT
Found at i:12603909 original size:5 final size:5
Alignment explanation
Indices: 12603899--12603964 Score: 69
Period size: 6 Copynumber: 12.0 Consensus size: 5
12603889 TTAATATTTC
*
12603899 TTATT TTATT TTATT CTATTT TTATCT TTATTT TTATTT TTATTT TTATTT
1 TTATT TTATT TTATT TTA-TT TTAT-T TTA-TT TTA-TT TTA-TT TTA-TT
12603950 TTATT TTATT TTATT
1 TTATT TTATT TTATT
12603965 ATTTTCTTTA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
5 25 0.45
6 30 0.54
7 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:12603969 original size:24 final size:25
Alignment explanation
Indices: 12603884--12603969 Score: 95
Period size: 24 Copynumber: 3.3 Consensus size: 25
12603874 TTAGATTAAA
*
12603884 ATTATTTAATATTTCTTATTTTATTTT
1 ATTATTT-TTATTT-TTATTTTATTTT
*
12603911 ATTCTATTTTTATCTTTATTTT-TATTT
1 A-T-TATTTTTATTTTTATTTTAT-TTT
12603938 -TTATTTTTATTTTTATTTTATTTT
1 ATTATTTTTATTTTTATTTTATTTT
12603962 ATTATTTT
1 ATTATTTT
12603970 CTTTAAATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
24 20 0.39
25 9 0.18
26 1 0.02
27 11 0.22
28 5 0.10
29 5 0.10
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (25 bp):
ATTATTTTTATTTTTATTTTATTTT
Found at i:12603974 original size:12 final size:12
Alignment explanation
Indices: 12603833--12603974 Score: 61
Period size: 12 Copynumber: 11.8 Consensus size: 12
12603823 CAAGTTTTTT
12603833 TTTTCATTTATT-
1 TTTT-ATTTATTA
12603845 TATTTATTTATTA
1 T-TTTATTTATTA
12603858 TTATTA-TTATTA
1 TT-TTATTTATTA
*
12603870 -TTTATTAGATTAA
1 TTTTATT-TATT-A
** *
12603883 AATTATTTAATA
1 TTTTATTTATTA
12603895 TTTCT-TATT-TTA
1 TTT-TAT-TTATTA
12603907 TTTTATTCTA-T-
1 TTTTATT-TATTA
*
12603918 TTTTATCT-TTA
1 TTTTATTTATTA
12603929 TTTTTATTT-TTA
1 -TTTTATTTATTA
12603941 TTTTTATTT-TTA
1 -TTTTATTTATTA
12603953 TTTTATTTTATTA
1 TTTTA-TTTATTA
*
12603966 TTTTCTTTA
1 TTTTATTTA
12603975 AATAAAATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 34
0.70 0.07 0.23
Matches are distributed among these distances:
10 5 0.05
11 15 0.15
12 58 0.56
13 20 0.19
14 5 0.05
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.71
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:12604222 original size:118 final size:117
Alignment explanation
Indices: 12603995--12604324 Score: 408
Period size: 120 Copynumber: 2.8 Consensus size: 117
12603985 CAAAAAATAT
* * *
12603995 ATATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAGTCTTCAAAAAAATATATT
1 ATATTTTTAA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTCTTCAAAAAAATATATT
*
12604060 TTTAAGAAAAAGTTGAAAGTATCGATTTTCCTTGAAAATAAGTTTTTTCTAAAAA
65 TTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG--TTTTCTAAAAA
* * *
12604115 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTC-TAAAAA-ATATT
1 ATATTTTTAAG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTCTTCAAAAAAATATATT
* *
12604178 TTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCTAAAAA
65 TTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAA
** *
12604231 ATATTTTTAAGAAAAGTTGAAAGTATCAATTTT--TTTTAAAT-A-T-TT-AAAAAAAAAGGCT-
1 ATATTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTCTTCAAAAAAATA---TA
* *
12604289 TTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTTG
63 TTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTG
12604325 TACGAAAGTA
Statistics
Matches: 189, Mismatches: 15, Indels: 19
0.85 0.07 0.09
Matches are distributed among these distances:
110 7 0.04
111 2 0.01
112 1 0.01
113 40 0.21
114 1 0.01
115 22 0.12
116 21 0.11
118 44 0.23
119 6 0.03
120 45 0.24
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (117 bp):
ATATTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTCTTCAAAAAAATATATTT
TTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAA
Found at i:12604265 original size:58 final size:58
Alignment explanation
Indices: 12603995--12604264 Score: 407
Period size: 60 Copynumber: 4.6 Consensus size: 58
12603985 CAAAAAATAT
* * * *
12603995 ATATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAGTCTTCAAAAAAA
1 ATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTC-TAAAAA
* *
12604054 TATATTTTTAAGAAAAAGTTGAAAGTATCGATTTTCCTTGAAAATAAGTTTTTTCTAAAAA
1 -ATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAG--TTTTCTAAAAA
* * *
12604115 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCTAAAAA
1 ATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCTAAAAA
*
12604173 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCTAAAAA
1 ATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCTAAAAA
12604231 ATATTTTTAAG-AAAAGTTGAAAGTATCAATTTTT
1 ATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTT
12604265 TTTAAATATT
Statistics
Matches: 196, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
57 23 0.12
58 77 0.39
60 87 0.44
61 5 0.03
62 4 0.02
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (58 bp):
ATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCTAAAAA
Found at i:12604411 original size:17 final size:17
Alignment explanation
Indices: 12604386--12604426 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
12604376 AGCTGAATCA
12604386 TTTTTT-TTTTT-TTTT
1 TTTTTTCTTTTTCTTTT
12604401 TTTTTTCTTTTTCTTTT
1 TTTTTTCTTTTTCTTTT
*
12604418 TGTTTTCTT
1 TTTTTTCTT
12604427 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.26
16 5 0.22
17 12 0.52
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.90
Consensus pattern (17 bp):
TTTTTTCTTTTTCTTTT
Found at i:12609204 original size:89 final size:89
Alignment explanation
Indices: 12609053--12609234 Score: 355
Period size: 89 Copynumber: 2.0 Consensus size: 89
12609043 CCAAATATTT
12609053 AAAAGCTAATATGAAAAGAGGCAATTAACTAAAAGGACAAAACTTAGTAAACATAGCCAATACTA
1 AAAAGCTAATATGAAAAGAGGCAATTAACTAAAAGGACAAAACTTAGTAAACATAGCCAATACTA
*
12609118 AATATAAAAAGTTTCTAAAAATAG
66 AAAATAAAAAGTTTCTAAAAATAG
12609142 AAAAGCTAATATGAAAAGAGGCAATTAACTAAAAGGACAAAACTTAGTAAACATAGCCAATACTA
1 AAAAGCTAATATGAAAAGAGGCAATTAACTAAAAGGACAAAACTTAGTAAACATAGCCAATACTA
12609207 AAAATAAAAAGTTTCTAAAAATAG
66 AAAATAAAAAGTTTCTAAAAATAG
12609231 AAAA
1 AAAA
12609235 TTGTGCAAAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 92 1.00
ACGTcount: A:0.57, C:0.11, G:0.12, T:0.20
Consensus pattern (89 bp):
AAAAGCTAATATGAAAAGAGGCAATTAACTAAAAGGACAAAACTTAGTAAACATAGCCAATACTA
AAAATAAAAAGTTTCTAAAAATAG
Found at i:12609319 original size:93 final size:93
Alignment explanation
Indices: 12609205--12609396 Score: 348
Period size: 93 Copynumber: 2.1 Consensus size: 93
12609195 TAGCCAATAC
*
12609205 TAAAAATAAAAAGTTTCTAAAAATAGAAAATTGTGCAAAAATTAACGAAGGCATGAAGTAAAAAT
1 TAAAAATAAAAAGTTGCTAAAAATAGAAAATTGTGCAAAAATTAACGAAGGCATGAAGTAAAAAT
12609270 GAAACACAATTAAATTGGAAATTAAACT
66 GAAACACAATTAAATTGGAAATTAAACT
* *
12609298 TAAAAGTAAAAAGTTGCTAAAAATAGAAAATTGTGCAAAAATTAACTAAGGCATGAAGTAAAAAT
1 TAAAAATAAAAAGTTGCTAAAAATAGAAAATTGTGCAAAAATTAACGAAGGCATGAAGTAAAAAT
*
12609363 GACACACAATTAAATTGGAAATTAAACT
66 GAAACACAATTAAATTGGAAATTAAACT
12609391 TAAAAA
1 TAAAAA
12609397 AAGAAAATTT
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.56, C:0.08, G:0.13, T:0.23
Consensus pattern (93 bp):
TAAAAATAAAAAGTTGCTAAAAATAGAAAATTGTGCAAAAATTAACGAAGGCATGAAGTAAAAAT
GAAACACAATTAAATTGGAAATTAAACT
Found at i:12610144 original size:2 final size:2
Alignment explanation
Indices: 12610137--12610167 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12610127 AAATAACAGA
12610137 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12610168 AAGATTGGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12611901 original size:22 final size:22
Alignment explanation
Indices: 12611876--12611919 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
12611866 CTTGTTTACG
12611876 TTAATAAATTTTTTAT-TATTTA
1 TTAAT-AATTTTTTATGTATTTA
12611898 TTAATAATTTTTTATGTATTTA
1 TTAATAATTTTTTATGTATTTA
12611920 CAAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTAATAATTTTTTATGTATTTA
Found at i:12612877 original size:236 final size:236
Alignment explanation
Indices: 12612244--12612951 Score: 636
Period size: 236 Copynumber: 3.0 Consensus size: 236
12612234 TTGTTTTAAC
* * * ** * * * *
12612244 TCTTTTTTA--ATGTATTATGACACTTCTTACCCATTTTATATCAAATAATACTAATTTTATACT
1 TCTTTTTTAGTATGTGTTACGACACTTTTTACCCATTTTACGTCAAATAATACGAAATTTACAAT
* *
12612307 TCTTCTCA--TGTATTACATGTTACCAATTTATTTTTTAAAATTTTA-TCTATTTTT-TTATATA
66 TCTTCTCACTTGT-TT--AGGTTACC-ATTTATTTTTT-AATTTTTAGT-TATTTTTCTTATATA
* * * * * *
12612368 TTTACAAAAATAATAATTAATTAAAAGTTTATGTTGCTTACTTAATTATTTACGTT-TCAATTAT
125 TTTA-AAAAACAATAATTAATTAAAAGTTTACGTTACCTACTTAATTATTTATGTTAT-AATAAT
* * * ** *
12612432 ATCTT-TTATGATTGTTCTTACATTCAATTATTTTTAAAATTATTATAGC
188 ATCTTCTTATGGTTGTTCTTACTTTTAATTACATTTAAAATTATTATA-A
* * * **
12612481 TCTTTTTTAGTATGTGTTATGACACTTTTTACTCATTTTACGTCAAATGATACGAGTTTTACAAT
1 TCTTTTTTAGTATGTGTTACGACACTTTTTACCCATTTTACGTCAAATAATACGAAATTTACAAT
* * * * *
12612546 TCTTCTCACTTGTTTATGTTACC-----TTTTTT--TTTTTAGCTAGTTTGCTTACATA-TTAAC
66 TCTTCTCACTTGTTTAGGTTACCATTTATTTTTTAATTTTTAGTTATTTTTCTTATATATTTAA-
* *
12612603 AAATCAATAATTAATTAAAATTTTACGTTACCTACTTAATTATTTATGTTATAATAATATCTTCT
130 AAAACAATAATTAATTAAAAGTTTACGTTACCTACTTAATTATTTATGTTATAATAATATCTTCT
*
12612668 TATGGTTGTTCTTACTTTTAATTACATTTAAAATTGTTATAA
195 TATGGTTGTTCTTACTTTTAATTACATTTAAAATTATTATAA
*
12612710 T-TTTTTTA-TA-GTACGTTACGACATTTTTTTACCCATTTTACAG-CAAATAATAC-AAATTTA
1 TCTTTTTTAGTATGT--GTTACGACA-CTTTTTACCCATTTTAC-GTCAAATAATACGAAATTTA
** * *
12612770 -TGTT-TTCTTCACTTGTTTGGGTTGCCTATTTATTTTTTAATTTTTAGTTATTTTTCTTATATA
62 CAATTCTTC-TCACTTGTTTAGGTTACC-ATTTATTTTTTAATTTTTAGTTATTTTTCTTATATA
* **
12612833 TTTATAAAAACAATAATCAATTAAAAGTTTACACTACCTACTTAATTATTTATGTTATAATAATA
125 TTTA-AAAAACAATAATTAATTAAAAGTTTACGTTACCTACTTAATTATTTATGTTATAATAATA
* ** * *
12612898 TTTTCTTACAGTTGTTCTTA-TCTTTCATTACATTTAGAATTATTATAA
189 TCTTCTTATGGTTGTTCTTACT-TTTAATTACATTTAAAATTATTATAA
12612946 CTCTTT
1 -TCTTT
12612952 CTTATTTTAT
Statistics
Matches: 388, Mismatches: 56, Indels: 53
0.78 0.11 0.11
Matches are distributed among these distances:
226 5 0.01
227 19 0.05
228 21 0.05
229 91 0.23
230 44 0.11
232 6 0.02
233 6 0.02
235 20 0.05
236 97 0.25
237 11 0.03
238 11 0.03
239 52 0.13
240 2 0.01
241 3 0.01
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (236 bp):
TCTTTTTTAGTATGTGTTACGACACTTTTTACCCATTTTACGTCAAATAATACGAAATTTACAAT
TCTTCTCACTTGTTTAGGTTACCATTTATTTTTTAATTTTTAGTTATTTTTCTTATATATTTAAA
AAACAATAATTAATTAAAAGTTTACGTTACCTACTTAATTATTTATGTTATAATAATATCTTCTT
ATGGTTGTTCTTACTTTTAATTACATTTAAAATTATTATAA
Found at i:12613252 original size:16 final size:16
Alignment explanation
Indices: 12613217--12613276 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
12613207 TTTATGTTTC
*
12613217 TTCTAAATTATTTACA-
1 TTCTAAATTTTTTA-AT
12613233 TTCTAAATTTTTTAAT
1 TTCTAAATTTTTTAAT
* *
12613249 TTCTAACTATTTT-AT
1 TTCTAAATTTTTTAAT
* *
12613264 TTATATATTTTTT
1 TTCTAAATTTTTT
12613277 CTTTGTAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.33
16 24 0.67
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (16 bp):
TTCTAAATTTTTTAAT
Found at i:12613427 original size:231 final size:231
Alignment explanation
Indices: 12613052--12613503 Score: 701
Period size: 231 Copynumber: 2.0 Consensus size: 231
12613042 ATAAAAACAA
* * **
12613052 TAATTAATTAAAATTTTATGTTGTCTATTTATATATTTATGTTACAATAATACCTTCTTTGATTG
1 TAATTAATTAAAATTTTACGTTGTCTATTTAAATATTTACATTACAATAATACCTTCTTTGATTG
* * * *
12613117 TTCTTATCATCCATTACGTTTAAAATTATGAAAACTTTTTTATAGTGTGTTACAACACTTTTTAG
66 TTCTTATCATCCATTACATTTAAAATTATCAAAACTTTTTTATAGTGTATTACAACACTTCTTAG
*
12613182 CCATTTTGTGCAAAATGGTACTAATTTTATGTTTCTTCTAAATTATTTACATT-CTAAATTTTTT
131 CCATTTTATGCAAAATGGTACTAATTTTATGTTTCTTCTAAATTATTTACATTACTAAATTTTTT
* *
12613246 AATTTCTAACTATTTTATTTATATATTTTTTCTTTG
196 AATTTCTAACTATTATATATATATATTTTTTCTTTG
*
12613282 TAATTAATTAAAATTTTACGTTGTCTATTTAAATATTTACATTACAATAATACCTTCTTATGGTT
1 TAATTAATTAAAATTTTACGTTGTCTATTTAAATATTTACATTACAATAATACCTTCTT-TGATT
* * * *
12613347 GTTTTTATCATTCATTACATTTAAAATTATCATAACTTTTTTATAGTGTATTACAATACTTCTTA
65 GTTCTTATCATCCATTACATTTAAAATTATCAAAACTTTTTTATAGTGTATTACAACACTTCTTA
* * *
12613412 -CCTATTTTATGCAAAATGGTACTAATTTTATGTTTCTTCTCACTTGTTTACATTACTAAATTTT
130 GCC-ATTTTATGCAAAATGGTACTAATTTTATGTTTCTTCTAAATTATTTACATTACTAAATTTT
12613476 TTAATTTCTAACTATTATATATATATAT
194 TTAATTTCTAACTATTATATATATATAT
12613504 ATATATATAC
Statistics
Matches: 200, Mismatches: 19, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
230 57 0.28
231 108 0.54
232 35 0.17
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (231 bp):
TAATTAATTAAAATTTTACGTTGTCTATTTAAATATTTACATTACAATAATACCTTCTTTGATTG
TTCTTATCATCCATTACATTTAAAATTATCAAAACTTTTTTATAGTGTATTACAACACTTCTTAG
CCATTTTATGCAAAATGGTACTAATTTTATGTTTCTTCTAAATTATTTACATTACTAAATTTTTT
AATTTCTAACTATTATATATATATATTTTTTCTTTG
Found at i:12614685 original size:233 final size:230
Alignment explanation
Indices: 12613761--12615015 Score: 896
Period size: 233 Copynumber: 5.4 Consensus size: 230
12613751 GGAATAATAA
* * * * * **
12613761 ATAATTA-TTACCTTTACAATAATATTTTTTTACAATTGTTTTTATTTTTCATTATGTTTATAAA
1 ATAATTATTTA-CGTTATAATAATATATTTTTATAATTGTTCTTACATTTCATTATGTTTA-AAA
* * * ** * * * *
12613825 -TGTCATAACTCTTTCTTAATGTGTTACAATACTTTTTATCCATTTTATGTTAAATGGTACTAAT
64 TTGTCATAATTATTTCTTAATATGTTATGATACTTTTTACCCATTTTA-CTCAAATGATACTAAT
* * * ** *
12613889 TTATA-TTTGTTCTCACTTGTTTACATTATCAATTTATTTTTTAATTTCTAACTATTTTCTTAAA
128 TT-TACTTT-TTCTTACTTGTTTACATTATCATTTTA-TTTTTAATTTTTAGTTATTTTCTTATA
* ** *
12613953 TATTTATAAAATAATAATTAATTAAAATTCTATGTTACCAAT
190 TATTTA-AAAATAATAATTAATTAAAATTTTAAATTACCAAC
* * *
12613995 ATAATTATTTACGTTACAATAATATATTATTATAGTTGTTCTTA-ATTTTCATTATGTTTAAAAT
1 ATAATTATTTACGTTATAATAATATATTTTTATAATTGTTCTTACA-TTTCATTATGTTTAAAAT
* * * * * * * * *
12614059 TGTCGTAAATT-TTT-TTAACATATTGTGAGAATTTATACCCATTTTACACTAAATGATATTAAT
65 TGTCAT-AATTATTTCTTAATATGTTATGATACTTTTTACCCATTTTACTC-AAATGATACTAAT
* * ** * * * *
12614122 CTTACATTTGTTCTCACTTGTTTATGTTACCAATTGT-TTTTTAATTTTTAGCTATTTTTCTTAC
128 TTTAC-TTT-TTCTTACTTGTTTACATTATC-ATTTTATTTTTAATTTTTAGTTA-TTTTCTTAT
* * *
12614186 AT-TTTTAAAA-AATAAATAATTAAAATTTTAGATTGA-CAAC
189 ATATTTAAAAATAATAATTAATTAAAATTTTAAATT-ACCAAC
* * * * *
12614226 TTAATTATTTACGTTATAATAATTTATTTTTTATGATTGTTCTTACCTTTAATTATGTTTAAAAT
1 ATAATTATTTACGTTATAATAATATA-TTTTTATAATTGTTCTTACATTTCATTATGTTTAAAAT
* ** * ** *
12614291 TGTCAT-TTTA-TTCTTTGTATGTTATGATATTTTTTACTTATTTTACATCAAATTATACTAATT
65 TGTCATAATTATTTCTTAATATGTTATGATACTTTTTACCCATTTTAC-TCAAATGATACTAATT
* * * * *
12614354 TTACGGTTCTTTTTTTCACTT-TCTTACATTACCTATTTGT-TTTTCAAATTTTAGTTATATTCC
129 TTAC---T-TTTTCTT-ACTTGT-TTACATTATC-ATTT-TATTTTTAATTTTTAGTTAT-TTTC
* * *
12614417 TTATGTATTAAAAAATAATAATTAGTTAAAATTTTAAATTACCAAC
185 TTATATATTTAAAAATAATAATTAATTAAAATTTTAAATTACCAAC
* * * * * *
12614463 ATAATTATTTATGTTACT-TTAATATATTCTTACAATTGTTCTTATCATTT-ATTATATTTAGAA
1 ATAATTATTTACGTTA-TAATAATATATTTTTATAATTGTTCTTA-CATTTCATTATGTTTAAAA
* * *
12614526 TTGTCATAATTATTTCTTAGTATGTTATGATACTTTTTACCCATTTTACGTCAAATAATATTAAT
64 TTGTCATAATTATTTCTTAATATGTTATGATACTTTTTACCCATTTTAC-TCAAATGATACTAAT
* *
12614591 TTTACTTTTTTTTACTTGTTTACATTATTATTTTATTTTTAATTTTTAGTTAGTTTTCTTATATA
128 TTTACTTTTTCTTACTTGTTTACATTATCATTTTATTTTTAATTTTTAGTTA-TTTTCTTATATA
* * *
12614656 TATAAAAACTAATAATTAATTAAAATTTTACATTACCATC
192 TTTAAAAA-TAATAATTAATTAAAATTTTAAATTACCAAC
** * * * *
12614696 ATAATTATTTATATTATAATAATATATTTTTATAATTGTTTTTAC-TTTACATTATATTTAGAGT
1 ATAATTATTTACGTTATAATAATATATTTTTATAATTGTTCTTACATTT-CATTATGTTTAAAAT
** * * * * * * * * * *
12614760 TGAT-ATAGCTCTTTTTTAATCTTTTACGACACTTGTTACCTATTTCACACTAAATGATACTAAT
65 TG-TCATAATTATTTCTTAATATGTTATGATACTTTTTACCCATTTTACTC-AAATGATACTAAT
* * *
12614824 TTTAC-GTTTCTTACTTGTTTATATTATCAATTTATTTTTTAATTTTTAGTTATTTT-TTATATA
128 TTTACTTTTTCTTACTTGTTTACATTATCATTTTA-TTTTTAATTTTTAGTTATTTTCTTATATA
* * * ** * *
12614887 TTTACAGGAACAATAATTAATTAAAATTTAAAATTGTCGAT
192 TTTA-A-AAATAATAATTAATTAAAATTTTAAATTACCAAC
* * * * * ** *** *
12614928 ATAATTATTTACTTTACAATAATATCTTCTTATAGTCATT-TTTTTTTTCATTACGTTTAAAATT
1 ATAATTATTTACGTTATAATAATATATTTTTATAATTGTTCTTACATTTCATTATGTTTAAAATT
* * * *
12614992 ATCATAACTCTTTCTTAATGTGTT
66 GTCATAATTATTTCTTAATATGTT
12615016 CAAACACTTC
Statistics
Matches: 813, Mismatches: 165, Indels: 89
0.76 0.15 0.08
Matches are distributed among these distances:
230 5 0.01
231 129 0.16
232 169 0.21
233 220 0.27
234 115 0.14
235 32 0.04
236 40 0.05
237 52 0.06
238 51 0.06
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (230 bp):
ATAATTATTTACGTTATAATAATATATTTTTATAATTGTTCTTACATTTCATTATGTTTAAAATT
GTCATAATTATTTCTTAATATGTTATGATACTTTTTACCCATTTTACTCAAATGATACTAATTTT
ACTTTTTCTTACTTGTTTACATTATCATTTTATTTTTAATTTTTAGTTATTTTCTTATATATTTA
AAAATAATAATTAATTAAAATTTTAAATTACCAAC
Found at i:12616499 original size:18 final size:19
Alignment explanation
Indices: 12616478--12616517 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
12616468 AATTTAGTAG
12616478 AATTCATAAAAAATTTT-A
1 AATTCATAAAAAATTTTCA
*
12616496 AATTCATGAAAAATTTTCA
1 AATTCATAAAAAATTTTCA
12616515 AAT
1 AAT
12616518 AGTTTGATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (19 bp):
AATTCATAAAAAATTTTCA
Found at i:12617624 original size:18 final size:19
Alignment explanation
Indices: 12617582--12617625 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
12617572 GTTTTCTGAT
**
12617582 CTTTTTTTTTTACTTTTGA
1 CTTTTTTTTTTACTTTCAA
12617601 CTTTTTTTTTTACTTTCAA
1 CTTTTTTTTTTACTTTCAA
12617620 CTTTTT
1 CTTTTT
12617626 GACTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.11, C:0.14, G:0.02, T:0.73
Consensus pattern (19 bp):
CTTTTTTTTTTACTTTCAA
Found at i:12618017 original size:20 final size:20
Alignment explanation
Indices: 12617989--12618034 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
12617979 GCTATTCATG
* * *
12617989 TTATCTATTTTTTTTATTTA
1 TTATATATTTTCTTTATATA
12618009 TTATATATTTTCTTTATATA
1 TTATATATTTTCTTTATATA
12618029 TT-TATA
1 TTATATA
12618035 GAAATAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATATATTTTCTTTATATA
Found at i:12619874 original size:21 final size:20
Alignment explanation
Indices: 12619829--12619877 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
12619819 TTAAATTTCT
* *
12619829 TAAAAT-TTAAAATTTTAAT
1 TAAAATATTAAAATGTTAAC
12619848 TAAAAATATTAAAAATGTTAAC
1 T-AAAATATT-AAAATGTTAAC
12619870 TAAAATAT
1 TAAAATAT
12619878 CTTTAGTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 1 0.04
20 5 0.20
21 9 0.36
22 10 0.40
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TAAAATATTAAAATGTTAAC
Found at i:12621181 original size:15 final size:18
Alignment explanation
Indices: 12621158--12621194 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
12621148 ATAGCTTATG
12621158 TTATCATTTA-A-AAAAT
1 TTATCATTTATATAAAAT
12621174 TTAT-ATTTATATAAAAT
1 TTATCATTTATATAAAAT
12621191 TTAT
1 TTAT
12621195 TGATATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 5 0.26
17 9 0.47
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATCATTTATATAAAAT
Found at i:12621871 original size:19 final size:20
Alignment explanation
Indices: 12621818--12621873 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
12621808 TTATAAATTT
*
12621818 TAATTTAAATGATTTTTTCA
1 TAATTAAAATGATTTTTTCA
* * * *
12621838 TTATTAGACTCATTTTTT-A
1 TAATTAAAATGATTTTTTCA
12621857 TAATTAAAATGATTTTT
1 TAATTAAAATGATTTTT
12621874 CACATCAAAT
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TAATTAAAATGATTTTTTCA
Found at i:12624279 original size:19 final size:20
Alignment explanation
Indices: 12624237--12624282 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
12624227 AAAATAAGTT
*
12624237 AAAAATTCAAATCTATTTTT
1 AAAAATTCAAATCTATTTTA
12624257 AAAAATTCAATATC-A-TTTA
1 AAAAATTCAA-ATCTATTTTA
12624276 AAAAATT
1 AAAAATT
12624283 TATTTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 10 0.42
20 11 0.46
21 3 0.12
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATTCAAATCTATTTTA
Found at i:12624335 original size:30 final size:31
Alignment explanation
Indices: 12624293--12624352 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
12624283 TATTTTCTAT
*
12624293 TAAAAAATTATTTTA-AT-CATAAATTATAA
1 TAAAAAATTATTTTATATCCATAAAATATAA
12624322 TAAAAATATTATTTTATATCCATAAAATATA
1 TAAAAA-ATTATTTTATATCCATAAAATATA
12624353 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 6 0.22
30 9 0.33
31 2 0.07
32 10 0.37
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (31 bp):
TAAAAAATTATTTTATATCCATAAAATATAA
Found at i:12626112 original size:26 final size:24
Alignment explanation
Indices: 12626082--12626129 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
12626072 ACTATTGTAA
*
12626082 ATTTAATATTTTTTAAATTGTTATCT
1 ATTTAAT-TTTTATAAATT-TTATCT
12626108 ATTTAATTTTTATAAATTTTAT
1 ATTTAATTTTTATAAATTTTAT
12626130 TTAGTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 10 0.48
26 7 0.33
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTAATTTTTATAAATTTTATCT
Found at i:12626139 original size:24 final size:25
Alignment explanation
Indices: 12626089--12626145 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
12626079 TAAATTTAAT
* *
12626089 ATTTTT-TAAATTGTTATCTATTTA
1 ATTTTTATAAATTGTTATCTAGTAA
*
12626113 ATTTTTATAAATT-TTATTTAGTAA
1 ATTTTTATAAATTGTTATCTAGTAA
12626137 ATTTGTTAT
1 ATTT-TTAT
12626146 CATTACTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (25 bp):
ATTTTTATAAATTGTTATCTAGTAA
Found at i:12626762 original size:22 final size:22
Alignment explanation
Indices: 12626737--12626811 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
12626727 TATTACTAAA
12626737 TAGTAAATGAA-TGATAATTTAG
1 TAGTAAAT-AATTGATAATTTAG
* **
12626759 TAGTTAATAATTGATAATTTTT
1 TAGTAAATAATTGATAATTTAG
* * * * *
12626781 TAGTAAATCAGTAATAATATAA
1 TAGTAAATAATTGATAATTTAG
12626803 TAGTAAATA
1 TAGTAAATA
12626812 CATAATACCT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 2 0.05
22 39 0.95
ACGTcount: A:0.47, C:0.01, G:0.12, T:0.40
Consensus pattern (22 bp):
TAGTAAATAATTGATAATTTAG
Found at i:12626817 original size:22 final size:22
Alignment explanation
Indices: 12626781--12626854 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
12626771 GATAATTTTT
12626781 TAGTAAAT-CAGTAATAATATAA
1 TAGTAAATACA-TAATAATATAA
*
12626803 TAGTAAATACATAATACCT-TAA
1 TAGTAAATACATAATA-ATATAA
* *
12626825 TAGTAAA-ACAATTATAATATAG
1 TAGTAAATAC-ATAATAATATAA
*
12626847 TTGTAAAT
1 TAGTAAAT
12626855 GTATAACAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 3 0.07
22 36 0.86
23 3 0.07
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (22 bp):
TAGTAAATACATAATAATATAA
Found at i:12627078 original size:22 final size:22
Alignment explanation
Indices: 12627031--12627199 Score: 69
Period size: 22 Copynumber: 7.8 Consensus size: 22
12627021 TAAATCATAA
* *
12627031 ATAACTTAGTAGTAAATTAATG
1 ATAATTTACTAGTAAATTAATG
*
12627053 ATAATTTACTAGTAAA-TAATTT
1 ATAATTTACTAGTAAATTAA-TG
* * * * *
12627075 ATAATTCAATAGTTAATCATTG
1 ATAATTTACTAGTAAATTAATG
* * ** * *
12627097 AAAATTAAAAAATAAATCAAT-
1 ATAATTTACTAGTAAATTAATG
* * *
12627118 ATAATTTAGTAGTAAATCATTG
1 ATAATTTACTAGTAAATTAATG
* *
12627140 ATAATTTAAC-AGTTAATTAGTG
1 ATAATTT-ACTAGTAAATTAATG
* * *
12627162 ATAACTTAATAGTAAA-TCATG
1 ATAATTTACTAGTAAATTAATG
*
12627183 CATAATTTAATA-TAAAT
1 -ATAATTTACTAGTAAAT
12627200 CAGTAATAAT
Statistics
Matches: 109, Mismatches: 31, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
21 26 0.24
22 81 0.74
23 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (22 bp):
ATAATTTACTAGTAAATTAATG
Found at i:12627173 original size:87 final size:88
Alignment explanation
Indices: 12627021--12627181 Score: 202
Period size: 87 Copynumber: 1.8 Consensus size: 88
12627011 TTGATAGTAT
* * *
12627021 TAAATCATAAATAACTTAGTAGTAAATTAATGATAATTTACTAGTAAATAATTTATAATTCAATA
1 TAAATCATAAATAACTTAGTAGTAAATCAATGATAATTTACTAGTAAATAAGTGATAATTCAATA
*
12627086 GTTAATCATTGAAAATTAAAAAA
66 GTAAATCATTGAAAATTAAAAAA
* * * * *
12627109 TAAATCA-ATATAATTTAGTAGTAAATCATTGATAATTTAAC-AGTTAATTAGTGATAACTT-AA
1 TAAATCATAAATAACTTAGTAGTAAATCAATGATAATTT-ACTAGTAAATAAGTGATAA-TTCAA
12627171 TAGTAAATCAT
64 TAGTAAATCAT
12627182 GCATAATTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
87 51 0.82
88 11 0.18
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.37
Consensus pattern (88 bp):
TAAATCATAAATAACTTAGTAGTAAATCAATGATAATTTACTAGTAAATAAGTGATAATTCAATA
GTAAATCATTGAAAATTAAAAAA
Found at i:12627178 original size:65 final size:66
Alignment explanation
Indices: 12627031--12627371 Score: 189
Period size: 65 Copynumber: 5.2 Consensus size: 66
12627021 TAAATCATAA
* * * * * * * *
12627031 ATAACTTAGTAGTAAATTAATGATAATTTACTAGTAAATAATTTATAATTCAATAGTTAATCATT
1 ATAACTTAATAGTAAATCAATGATAATTTAATAGTAAATCATTAATAATTTAACAGTTAATCAGT
12627096 G
66 G
* * * * * *
12627097 A-AAATTAAAAAATAAATCAAT-ATAATTTAGTAGTAAATCATTGATAATTTAACAGTTAATTAG
1 ATAACTT-AATAGTAAATCAATGATAATTTAATAGTAAATCATTAATAATTTAACAGTTAATCAG
12627160 TG
65 TG
* ** * * *
12627162 ATAACTTAATAGTAAATC-ATGCATAATTTAATA-TAAATCAGTAATAATTTGGCAATGAATTA-
1 ATAACTTAATAGTAAATCAATG-ATAATTTAATAGTAAATCATTAATAATTTAACAGTTAATCAG
*
12627224 TAA
65 T-G
* * * * * * * * * ** * *
12627227 ATGATTTAGTAATAAATCAGTGATAATTTTATATTAAATAATTAA-AAATTAGGTAGTAAATCAA
1 ATAACTTAATAGTAAATCAATGATAATTTAATAGTAAATCATTAATAATTTA-ACAGTTAATCAG
12627291 TG
65 TG
* * * * * * * *
12627293 ATAACATAGTAGTAAAT-ATATAATAATATAACAGTAAATTATTAATAATTTAATAG-TAA--AT
1 ATAACTTAATAGTAAATCA-ATGATAATTTAATAGTAAATCATTAATAATTTAACAGTTAATCAG
12627354 TG
65 TG
12627356 ATAACTTAATAGTAAA
1 ATAACTTAATAGTAAA
12627372 ACACTAGTAA
Statistics
Matches: 209, Mismatches: 55, Indels: 25
0.72 0.19 0.09
Matches are distributed among these distances:
63 17 0.08
64 3 0.01
65 105 0.50
66 78 0.37
67 6 0.03
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (66 bp):
ATAACTTAATAGTAAATCAATGATAATTTAATAGTAAATCATTAATAATTTAACAGTTAATCAGT
G
Found at i:12627179 original size:44 final size:43
Alignment explanation
Indices: 12627031--12627192 Score: 123
Period size: 44 Copynumber: 3.7 Consensus size: 43
12627021 TAAATCATAA
* * * *
12627031 ATAACTTAGTAGTAAATTAATGATAATTT-ACTAGTAAATAATTT
1 ATAACTTAATAGTAAATCATTGATAATTTAAC-AGTAAATAA-AT
* * * * * *
12627075 ATAA-TTCAATAGTTAATCATTGAAAATTAAAAAATAAATCAAT
1 ATAACTT-AATAGTAAATCATTGATAATTTAACAGTAAATAAAT
* * * * *
12627118 ATAATTTAGTAGTAAATCATTGATAATTTAACAGTTAATTAGT
1 ATAACTTAATAGTAAATCATTGATAATTTAACAGTAAATAAAT
12627161 GATAACTTAATAGTAAATCA-TGCATAATTTAA
1 -ATAACTTAATAGTAAATCATTG-ATAATTTAA
12627193 TATAAATCAG
Statistics
Matches: 92, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
43 36 0.39
44 55 0.60
45 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.38
Consensus pattern (43 bp):
ATAACTTAATAGTAAATCATTGATAATTTAACAGTAAATAAAT
Found at i:12627209 original size:87 final size:87
Alignment explanation
Indices: 12627021--12627211 Score: 194
Period size: 87 Copynumber: 2.2 Consensus size: 87
12627011 TTGATAGTAT
* * * *
12627021 TAAATCATAAATAACTTAGTAGTAAATTAATGATAATTTACTAGTAAATAATTTATAATTCAATA
1 TAAATCAT-AATAATTTAGTAGTAAATCAATGATAATTTACTAGTAAATAAGTGATAATTCAATA
*
12627086 GTTAATCATTGAAAATTAAAAAA
65 GTAAATCATTGAAAATTAAAAAA
* * *
12627109 TAAATCA-ATATAATTTAGTAGTAAATCATTGATAATTTAAC-AGTTAATTAGTGATAACTT-AA
1 TAAATCATA-ATAATTTAGTAGTAAATCAATGATAATTT-ACTAGTAAATAAGTGATAA-TTCAA
* * *
12627171 TAGTAAATCA-TGCATAATT-TAATA
63 TAGTAAATCATTG-AAAATTAAAAAA
12627195 TAAATCAGTAATAATTT
1 TAAATCA-TAATAATTT
12627212 GGCAATGAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
86 13 0.15
87 61 0.71
88 12 0.14
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (87 bp):
TAAATCATAATAATTTAGTAGTAAATCAATGATAATTTACTAGTAAATAAGTGATAATTCAATAG
TAAATCATTGAAAATTAAAAAA
Found at i:12627318 original size:22 final size:22
Alignment explanation
Indices: 12627279--12627340 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
12627269 TAAAAATTAG
*
12627279 GTAGTAAATCA-ATGATAACATA
1 GTAGTAAAT-ATATAATAACATA
*
12627301 GTAGTAAATATATAATAATATA
1 GTAGTAAATATATAATAACATA
**
12627323 ACAGTAAAT-TATTAATAA
1 GTAGTAAATATA-TAATAA
12627341 TTTAATAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 3 0.09
22 31 0.91
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.32
Consensus pattern (22 bp):
GTAGTAAATATATAATAACATA
Found at i:12627369 original size:63 final size:63
Alignment explanation
Indices: 12627291--12627416 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
12627281 AGTAAATCAA
* * * * *
12627291 TGATAACATAGTAGTAAATATA-TAATAATATAACAGTAAATTATTAATAATTTAATAGTAAAT
1 TGATAACATAATAGTAAA-ACACTAATAACATAACAGTAAATTACTAATAACTTAATAGTAAAT
* * * *
12627354 TGATAACTTAATAGTAAAACACTAGTAACATAATAGTAAATTACTAATAACTTAATTGTAAAT
1 TGATAACATAATAGTAAAACACTAATAACATAACAGTAAATTACTAATAACTTAATAGTAAAT
12627417 CCATAATAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 2 0.04
63 51 0.96
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (63 bp):
TGATAACATAATAGTAAAACACTAATAACATAACAGTAAATTACTAATAACTTAATAGTAAAT
Found at i:12627399 original size:22 final size:21
Alignment explanation
Indices: 12627293--12627425 Score: 90
Period size: 22 Copynumber: 6.2 Consensus size: 21
12627283 TAAATCAATG
*
12627293 ATAACATAGTAGTAAATATATA
1 ATAACATAATAGTAAAT-TATA
* *
12627315 ATAATATAACAGTAAATTATTA
1 ATAACATAATAGTAAATTA-TA
** *
12627337 ATAATTTAATAGTAAA-T-TG
1 ATAACATAATAGTAAATTATA
* **
12627356 ATAACTTAATAGTAAAACACTA
1 ATAACATAATAGTAAATTA-TA
*
12627378 GTAACATAATAGTAAATTACTA
1 ATAACATAATAGTAAATTA-TA
* * *
12627400 ATAACTTAATTGTAAATCCATA
1 ATAACATAATAGTAAAT-TATA
12627422 ATAA
1 ATAA
12627426 TTTGGTAATA
Statistics
Matches: 89, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
19 16 0.18
21 3 0.03
22 69 0.78
23 1 0.01
ACGTcount: A:0.52, C:0.08, G:0.07, T:0.34
Consensus pattern (21 bp):
ATAACATAATAGTAAATTATA
Found at i:12627502 original size:33 final size:33
Alignment explanation
Indices: 12627464--12627534 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
12627454 AACTTTTTAG
* * *
12627464 TAAA-TTATAAATAAATTATTAGTAAATTAGTGA
1 TAAATTTAT-AATAAATTATCAATAAATTAATGA
*
12627497 TAAATTTATAATAAATTATCAATAACTTAATGA
1 TAAATTTATAATAAATTATCAATAAATTAATGA
12627530 TAAAT
1 TAAAT
12627535 CACCAACAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (33 bp):
TAAATTTATAATAAATTATCAATAAATTAATGA
Found at i:12627592 original size:43 final size:44
Alignment explanation
Indices: 12627499--12627602 Score: 117
Period size: 43 Copynumber: 2.4 Consensus size: 44
12627489 ATTAGTGATA
* *
12627499 AATTT-ATAATAAATTATCAATAACTTAATGATAAATCACCAAC
1 AATTTAATAGTAAATTATCAATAACTTAATGACAAATCACCAAC
** *
12627542 AATTTAATAG-AAATTATCCGTAACTTAATGACAAATCATTCATA-
1 AATTTAATAGTAAATTATCAATAACTTAATGACAAATCA-CCA-AC
12627586 AA-TTAATAGTAAATTAT
1 AATTTAATAGTAAATTAT
12627603 TGATAATTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
43 37 0.71
44 14 0.27
45 1 0.02
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.35
Consensus pattern (44 bp):
AATTTAATAGTAAATTATCAATAACTTAATGACAAATCACCAAC
Found at i:12627608 original size:22 final size:22
Alignment explanation
Indices: 12627452--12627674 Score: 87
Period size: 22 Copynumber: 10.2 Consensus size: 22
12627442 TTAATCATTA
** **
12627452 ATAACTTTTTAGTAAATTATAA
1 ATAACTTAATAGTAAATTATTG
* * *
12627474 ATAAATTATTAGTAAATTAGTG
1 ATAACTTAATAGTAAATTATTG
* * * **
12627496 ATAAATTTATAATAAATTATCA
1 ATAACTTAATAGTAAATTATTG
* ***
12627518 ATAACTTAAT-GATAAATCACCA
1 ATAACTTAATAG-TAAATTATTG
* * *
12627540 ACAATTTAATAG-AAATTATCCG
1 ATAACTTAATAGTAAATTAT-TG
* * *
12627562 -TAACTTAAT-GACAAATCATTC
1 ATAACTTAATAG-TAAATTATTG
*
12627583 ATAAATTAATAGTAAATTATTG
1 ATAACTTAATAGTAAATTATTG
* * * *
12627605 ATAATTTAAGAGTAAATCATTA
1 ATAACTTAATAGTAAATTATTG
* * * *
12627627 ATAGCTTAGTAGTAAATCACTG
1 ATAACTTAATAGTAAATTATTG
*
12627649 ATAACTTAATTA-TCAATTATTG
1 ATAACTTAA-TAGTAAATTATTG
12627671 ATAA
1 ATAA
12627675 TTTTTTTTAT
Statistics
Matches: 148, Mismatches: 45, Indels: 16
0.71 0.22 0.08
Matches are distributed among these distances:
20 1 0.01
21 12 0.08
22 131 0.89
23 4 0.03
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTATTG
Found at i:12627622 original size:44 final size:44
Alignment explanation
Indices: 12627574--12627657 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
12627564 ACTTAATGAC
* * * *
12627574 AAATCATTCATAAATTAATAGTAAATTATTGATAATTTAAGAGT
1 AAATCATTAATAAATTAATAGTAAATCACTGATAACTTAAGAGT
** *
12627618 AAATCATTAATAGCTTAGTAGTAAATCACTGATAACTTAA
1 AAATCATTAATAAATTAATAGTAAATCACTGATAACTTAA
12627658 TTATCAATTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (44 bp):
AAATCATTAATAAATTAATAGTAAATCACTGATAACTTAAGAGT
Found at i:12627957 original size:22 final size:22
Alignment explanation
Indices: 12627932--12628026 Score: 59
Period size: 22 Copynumber: 4.3 Consensus size: 22
12627922 CAATGATGCG
12627932 TTAATAAGAAACAAGTGATAAT
1 TTAATAAGAAACAAGTGATAAT
* ** * * * *
12627954 TTAAT-AGTTAATTATTAACAAC
1 TTAATAAG-AAACAAGTGATAAT
*
12627976 TTAATAATAAATCAA-TGATAAT
1 TTAATAAGAAA-CAAGTGATAAT
* **
12627998 TTAATAATAAATTAGTGATAAT
1 TTAATAAGAAACAAGTGATAAT
12628020 TTAATAA
1 TTAATAA
12628027 TAAATCTATT
Statistics
Matches: 53, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
21 3 0.06
22 48 0.91
23 2 0.04
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (22 bp):
TTAATAAGAAACAAGTGATAAT
Found at i:12628007 original size:11 final size:11
Alignment explanation
Indices: 12627949--12628029 Score: 56
Period size: 11 Copynumber: 7.4 Consensus size: 11
12627939 GAAACAAGTG
12627949 ATAATTTAATA
1 ATAATTTAATA
* *
12627960 GTTAA-TTATTA
1 -ATAATTTAATA
* *
12627971 ACAACTTAATA
1 ATAATTTAATA
* * *
12627982 ATAAATCAATG
1 ATAATTTAATA
12627993 ATAATTTAATA
1 ATAATTTAATA
* * *
12628004 ATAAATTAGTG
1 ATAATTTAATA
12628015 ATAATTTAATA
1 ATAATTTAATA
12628026 ATAA
1 ATAA
12628030 ATCTATTTTA
Statistics
Matches: 50, Mismatches: 18, Indels: 3
0.70 0.25 0.04
Matches are distributed among these distances:
10 2 0.04
11 45 0.90
12 3 0.06
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.40
Consensus pattern (11 bp):
ATAATTTAATA
Found at i:12628027 original size:22 final size:22
Alignment explanation
Indices: 12627945--12628296 Score: 141
Period size: 22 Copynumber: 15.9 Consensus size: 22
12627935 ATAAGAAACA
* *
12627945 AGTGATAATTTAATAGTTAATT
1 AGTGATAATTTAATAATAAATT
* * * * *
12627967 ATTAACAACTTAATAATAAATC
1 AGTGATAATTTAATAATAAATT
*
12627989 AATGATAATTTAATAATAAATT
1 AGTGATAATTTAATAATAAATT
12628011 AGTGATAATTTAATAATAAATCT
1 AGTGATAATTTAATAATAAAT-T
** * *
12628034 A-TTTTAGTTTAATAGT-AATT
1 AGTGATAATTTAATAATAAATT
* * * **
12628054 AATTGATAAACTTAGTGTTAAATT
1 -AGTGAT-AATTTAATAATAAATT
* * *
12628078 A-TGAATAACTTAGTAATAAATC
1 AGTG-ATAATTTAATAATAAATT
* * *
12628100 AATGATAATTTAGTAATTAATT
1 AGTGATAATTTAATAATAAATT
*
12628122 ATTGCA-AATTTAA-AAGTAAATT
1 AGTG-ATAATTTAATAA-TAAATT
* *
12628144 AAT-ATAACTTAATAACAATAAATT
1 AGTGATAA-TT--TAATAATAAATT
* * * * *
12628168 ATTAATAACTTAATAATTAATA
1 AGTGATAATTTAATAATAAATT
* *
12628190 AGTGATAACTTAATAATAAATC
1 AGTGATAATTTAATAATAAATT
12628212 A-TGAATAATTTAAT-ATAAATT
1 AGTG-ATAATTTAATAATAAATT
* * ** *
12628233 AGTAATAACTCGATAATGAATCAT
1 AGTGATAATTTAATAATAAAT--T
*
12628257 AGT--TAATTTAGTAATAAA-T
1 AGTGATAATTTAATAATAAATT
* *
12628276 ATGTGATAATTTTATAGTAAA
1 A-GTGATAATTTAATAATAAA
12628297 CAATAAAAAA
Statistics
Matches: 249, Mismatches: 58, Indels: 46
0.71 0.16 0.13
Matches are distributed among these distances:
19 2 0.01
20 4 0.02
21 24 0.10
22 179 0.72
23 14 0.06
24 20 0.08
25 6 0.02
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (22 bp):
AGTGATAATTTAATAATAAATT
Found at i:12628061 original size:44 final size:43
Alignment explanation
Indices: 12627932--12628394 Score: 134
Period size: 44 Copynumber: 10.5 Consensus size: 43
12627922 CAATGATGCG
* * *
12627932 TTAATAAGAAA-CAAGTGATAATTTAATAGTTAATTATTAACAAC
1 TTAATAATAAATCAA-TGATAATTTAATAG-TAATTATTGATAAC
* * *
12627976 TTAATAATAAATCAATGATAATTTAATAATAAATTAGTGATAAT
1 TTAATAATAAATCAATGATAATTTAATAGT-AATTATTGATAAC
* ** *
12628020 TTAATAATAAATCTATTTTAGTTTAATAGTAATTAATTGATAAAC
1 TTAATAATAAATCAATGATAATTTAATAGTAATT-ATTGAT-AAC
* ** * * * * * * *
12628065 TTAGTGTTAAAT-TATGAATAACTTAGTAATAAATCAATGATAAT
1 TTAATAATAAATCAATG-ATAATTTAATAGT-AATTATTGATAAC
* * * * * *
12628109 TTAGTAATTAATTATTGCA-AATTTAAAAGTAAATTAAT-ATAAC
1 TTAATAATAAATCAATG-ATAATTTAATAGT-AATTATTGATAAC
* * * * * * *
12628152 TTAATAACAATAAATTATTAATAACTTAATAATTAATAAGTGATAAC
1 TTAAT---AATAAATCAATGATAATTTAAT-AGTAATTATTGATAAC
* *
12628199 TTAATAATAAATC-ATGAATAATTTAATA-TAAATTAGTAATAAC
1 TTAATAATAAATCAATG-ATAATTTAATAGT-AATTATTGATAAC
** * * * * * *
12628242 TCGATAATGAATC-ATAGTTAATTTAGTAATAAATATGTGATAAT
1 TTAATAATAAATCAAT-GATAATTTAATAGTAATTAT-TGATAAC
* * * * * *
12628286 TTTATAGTAAA-CAATAAAAAATTAAGTAGTAAATTAATGATAAC
1 TTAATAATAAATCAATGATAATTTAA-TAGT-AATTATTGATAAC
* * * * * ** * *
12628330 ATAGTAGTAAATGAATAATAACATAATAGTAAATAATTGATAAT
1 TTAATAATAAATCAATGATAATTTAATAGT-AATTATTGATAAC
* *
12628374 TTAA-ATATAAATTATTGATAA
1 TTAATA-ATAAATCAATGATAA
12628395 CTTAGCAGTA
Statistics
Matches: 307, Mismatches: 89, Indels: 46
0.69 0.20 0.10
Matches are distributed among these distances:
42 1 0.00
43 58 0.19
44 167 0.54
45 45 0.15
46 24 0.08
47 12 0.04
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.37
Consensus pattern (43 bp):
TTAATAATAAATCAATGATAATTTAATAGTAATTATTGATAAC
Found at i:12628222 original size:90 final size:90
Alignment explanation
Indices: 12628072--12628242 Score: 204
Period size: 90 Copynumber: 1.9 Consensus size: 90
12628062 AACTTAGTGT
* * * * * *
12628072 TAAATTATGAATAACTTAGTAATAAATCAATGATAATTTAGTAATTAATTATTGCAAATTTAAAA
1 TAAATTATGAATAACTTAATAATAAATCAATGATAACTTAATAATAAATCATTGAAAATTTAAAA
12628137 GTAAATTAAT-ATAACTTAATAACAA
66 -TAAATTAATAATAACTTAATAACAA
* *
12628162 TAAATTATTAATAACTTAATAATTAAT-AAGTGATAACTTAATAATAAATCA-TGAATAATTTAA
1 TAAATTATGAATAACTTAATAATAAATCAA-TGATAACTTAATAATAAATCATTGAA-AATTTAA
* *
12628225 TATAAATTAGTAATAACT
64 AATAAATTAATAATAACT
12628243 CGATAATGAA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
89 13 0.19
90 55 0.81
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.37
Consensus pattern (90 bp):
TAAATTATGAATAACTTAATAATAAATCAATGATAACTTAATAATAAATCATTGAAAATTTAAAA
TAAATTAATAATAACTTAATAACAA
Found at i:12628240 original size:11 final size:11
Alignment explanation
Indices: 12627976--12628240 Score: 62
Period size: 11 Copynumber: 23.9 Consensus size: 11
12627966 TATTAACAAC
12627976 TTAATAATAAA
1 TTAATAATAAA
* * *
12627987 TCAATGATAAT
1 TTAATAATAAA
12627998 TTAATAATAAA
1 TTAATAATAAA
* * *
12628009 TTAGTGATAAT
1 TTAATAATAAA
12628020 TTAATAATAAA
1 TTAATAATAAA
** **
12628031 TCT-ATTTTAGT
1 T-TAATAATAAA
*
12628042 TTAATAGT-AA
1 TTAATAATAAA
*
12628052 TTAATTGATAAA
1 TTAA-TAATAAA
* **
12628064 CTTAGTGTTAAA
1 -TTAATAATAAA
*
12628076 TT-ATGAATAAC
1 TTAAT-AATAAA
*
12628087 TTAGTAATAAA
1 TTAATAATAAA
* * *
12628098 TCAATGATAAT
1 TTAATAATAAA
* *
12628109 TTAGTAATTAA
1 TTAATAATAAA
* * *
12628120 TTATTGCA-AAT
1 TTAAT-AATAAA
12628131 TTAA-AAGTAAA
1 TTAATAA-TAAA
*
12628142 TTAAT-ATAAC
1 TTAATAATAAA
12628152 TTAATAACAATAAA
1 TTAAT---AATAAA
* *
12628166 TTATTAATAAC
1 TTAATAATAAA
*
12628177 TTAATAATTAA
1 TTAATAATAAA
* *
12628188 -TAAGTGATAAC
1 TTAA-TAATAAA
12628199 TTAATAATAAA
1 TTAATAATAAA
* *
12628210 -TCATGAATAAT
1 TTAAT-AATAAA
12628221 TTAAT-ATAAA
1 TTAATAATAAA
*
12628231 TTAGTAATAA
1 TTAATAATAA
12628241 CTCGATAATG
Statistics
Matches: 171, Mismatches: 63, Indels: 40
0.62 0.23 0.15
Matches are distributed among these distances:
9 1 0.01
10 28 0.16
11 114 0.67
12 17 0.10
13 3 0.02
14 8 0.05
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (11 bp):
TTAATAATAAA
Found at i:12628335 original size:22 final size:22
Alignment explanation
Indices: 12628310--12628422 Score: 95
Period size: 22 Copynumber: 5.1 Consensus size: 22
12628300 TAAAAAATTA
*
12628310 AGTAGTAAATTAATGATAACAT
1 AGTAGTAAATTAATGATAACTT
* * *
12628332 AGTAGTAAATGAATAATAACAT
1 AGTAGTAAATTAATGATAACTT
* *
12628354 AATAGTAAA-TAATTGATAATTT
1 AGTAGTAAATTAA-TGATAACTT
* *
12628376 AAATA-TAAATTATTGATAACTT
1 -AGTAGTAAATTAATGATAACTT
* * *
12628398 AGCAGTAAATCAATAATAACTT
1 AGTAGTAAATTAATGATAACTT
12628420 AGT
1 AGT
12628423 TGCAAATCAA
Statistics
Matches: 72, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
21 4 0.06
22 62 0.86
23 6 0.08
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (22 bp):
AGTAGTAAATTAATGATAACTT
Found at i:12628359 original size:66 final size:66
Alignment explanation
Indices: 12628289--12628417 Score: 161
Period size: 66 Copynumber: 2.0 Consensus size: 66
12628279 TGATAATTTT
* * *
12628289 ATAGTAAACAA-TAAAAAATTAAGTAGTAAATTAATGATAACATAGTAGTAAATGAATAATAACA
1 ATAGTAAACAATTAAAAAATTAAATA-TAAATTAATGATAACATAGCAGTAAATCAATAATAACA
12628353 TA
65 TA
* * * * * *
12628355 ATAGTAAATAATTGATAATTTAAATATAAATTATTGATAACTTAGCAGTAAATCAATAATAAC
1 ATAGTAAACAATTAAAAAATTAAATATAAATTAATGATAACATAGCAGTAAATCAATAATAAC
12628418 TTAGTTGCAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 43 0.81
67 10 0.19
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.31
Consensus pattern (66 bp):
ATAGTAAACAATTAAAAAATTAAATATAAATTAATGATAACATAGCAGTAAATCAATAATAACAT
A
Found at i:12628429 original size:22 final size:21
Alignment explanation
Indices: 12628404--12628471 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
12628394 ACTTAGCAGT
12628404 AAATCAATAATAACTTAGTTGC
1 AAATCAATAATAA-TTAGTTGC
*
12628426 AAATCAATGAAT--TTAGTTGT
1 AAATCAAT-AATAATTAGTTGC
* *
12628446 AAATCAGTAATAATTATGTAGC
1 AAATCAATAATAATTA-GTTGC
12628468 AAAT
1 AAAT
12628472 TAGTTAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.08
20 14 0.37
21 3 0.08
22 15 0.39
23 3 0.08
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.34
Consensus pattern (21 bp):
AAATCAATAATAATTAGTTGC
Found at i:12628566 original size:22 final size:22
Alignment explanation
Indices: 12628541--12628703 Score: 93
Period size: 22 Copynumber: 7.4 Consensus size: 22
12628531 AGCTTTATGA
12628541 TAAATCATTAGTAACTTAGTAG
1 TAAATCATTAGTAACTTAGTAG
* * *
12628563 TAAATCGTTAATAA-TTTGTTAG
1 TAAATCATTAGTAACTTAG-TAG
*
12628585 TAAATCATTCA-TAACTTAGTTG
1 TAAATCATT-AGTAACTTAGTAG
* *
12628607 TAAATTATTCA-TAAATTAGTAG
1 TAAATCATT-AGTAACTTAGTAG
** * * * *
12628629 TACTTCAATACTAATTTGGTAG
1 TAAATCATTAGTAACTTAGTAG
*
12628651 TAAATCATT-GATAATTTAGTAG
1 TAAATCATTAG-TAACTTAGTAG
* * * *
12628673 TATATCATT-GATAGCCTAGTTG
1 TAAATCATTAG-TAACTTAGTAG
12628695 TAAATCATT
1 TAAATCATT
12628704 GATAAAACAA
Statistics
Matches: 110, Mismatches: 26, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
21 4 0.04
22 102 0.93
23 4 0.04
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.41
Consensus pattern (22 bp):
TAAATCATTAGTAACTTAGTAG
Found at i:12628611 original size:66 final size:66
Alignment explanation
Indices: 12628541--12628681 Score: 158
Period size: 66 Copynumber: 2.1 Consensus size: 66
12628531 AGCTTTATGA
* ** *
12628541 TAAATCATT-AGTAACTTAGTAGTAAATCGTTAATAATTTGTTAGTAAATCATTCATAACTTAGT
1 TAAATCATTCA-TAAATTAGTAGTAAATCAATAATAATTTGGTAGTAAATCATTCATAACTTAGT
*
12628605 TG
65 AG
* ** * * *
12628607 TAAATTATTCATAAATTAGTAGTACTTCAATACTAATTTGGTAGTAAATCATTGATAATTTAGTA
1 TAAATCATTCATAAATTAGTAGTAAATCAATAATAATTTGGTAGTAAATCATTCATAACTTAGTA
12628672 G
66 G
*
12628673 TATATCATT
1 TAAATCATT
12628682 GATAGCCTAG
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
66 60 0.98
67 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (66 bp):
TAAATCATTCATAAATTAGTAGTAAATCAATAATAATTTGGTAGTAAATCATTCATAACTTAGTA
G
Found at i:12628630 original size:44 final size:44
Alignment explanation
Indices: 12628541--12628709 Score: 137
Period size: 44 Copynumber: 3.8 Consensus size: 44
12628531 AGCTTTATGA
* * * *
12628541 TAAATCATTAGTAACTTAGTAGTAAATCGTTAAT-AATTTGTTAG
1 TAAATCATTACTAACTTAGTAGTAAATCATTGATAAATTAG-TAG
* * *
12628585 TAAATCATT-CATAACTTAGTTGTAAATTATTCATAAATTAGTAG
1 TAAATCATTAC-TAACTTAGTAGTAAATCATTGATAAATTAGTAG
** * * * *
12628629 TACTTCAATACTAATTTGGTAGTAAATCATTGATAATTTAGTAG
1 TAAATCATTACTAACTTAGTAGTAAATCATTGATAAATTAGTAG
* * * *
12628673 TATATCATTGA-TAGCCTAGTTGTAAATCATTGATAAA
1 TAAATCATT-ACTAACTTAGTAGTAAATCATTGATAAA
12628710 ACAATACTAT
Statistics
Matches: 97, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
44 90 0.93
45 7 0.07
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.40
Consensus pattern (44 bp):
TAAATCATTACTAACTTAGTAGTAAATCATTGATAAATTAGTAG
Found at i:12628721 original size:44 final size:44
Alignment explanation
Indices: 12628650--12628753 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 44
12628640 TAATTTGGTA
*** * * * * *
12628650 GTAAATCATTGATAATTTAGTAGTATATCATTGATAGCCTAGTT
1 GTAAATCATTGATAAAACAATACTATATCAATGATAACCTAATT
*
12628694 GTAAATCATTGATAAAACAATACTATATCAATGATAACTTAATT
1 GTAAATCATTGATAAAACAATACTATATCAATGATAACCTAATT
*
12628738 GTCAATCATTGATAAA
1 GTAAATCATTGATAAA
12628754 TTTTTTATAC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (44 bp):
GTAAATCATTGATAAAACAATACTATATCAATGATAACCTAATT
Found at i:12629131 original size:21 final size:20
Alignment explanation
Indices: 12629087--12629194 Score: 72
Period size: 21 Copynumber: 5.2 Consensus size: 20
12629077 TAATAAAAAA
* * *
12629087 TTATCAAATTTGTATCAATGG
1 TTATCAAAATTATATCAA-AG
12629108 TTATCAAAATTATATCATAAG
1 TTATCAAAATTATATCA-AAG
* * * *
12629129 TTACCAAAGTAATATTGAAAG
1 TTATCAAAATTATA-TCAAAG
** *
12629150 TTGCCAAAATTACATCAAAGG
1 TTATCAAAATTATATCAAA-G
* *
12629171 TTATCCAAATTTTATCAAAG
1 TTATCAAAATTATATCAAAG
12629191 TTAT
1 TTAT
12629195 TGATATCAAA
Statistics
Matches: 67, Mismatches: 17, Indels: 7
0.74 0.19 0.08
Matches are distributed among these distances:
20 9 0.13
21 55 0.82
22 3 0.04
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (20 bp):
TTATCAAAATTATATCAAAG
Found at i:12629336 original size:70 final size:68
Alignment explanation
Indices: 12629212--12629350 Score: 181
Period size: 70 Copynumber: 2.0 Consensus size: 68
12629202 AAAATTATAT
** *
12629212 TAAAAATTATCAAATTTTACTTATAATATAAAAAATACTCATTAAACTGTTAGTATTTATCATTA
1 TAAAAATTATCAAATTTTACTTATAATATAAAAAATACAAATTAAACTGTTAGTATTTATCATAA
12629277 TTA
66 TTA
* * * *
12629280 TAAAAATTTATCAAATTTTACTTATATCATATCAAAATTA-AAATTAAATTGTTAGTATTTATTA
1 TAAAAA-TTATCAAATTTTACTTATA--ATATAAAAAATACAAATTAAACTGTTAGTATTTATCA
12629344 TAATTA
63 TAATTA
12629350 T
1 T
12629351 CATAGTATCA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
68 6 0.10
69 19 0.31
70 26 0.43
71 10 0.16
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (68 bp):
TAAAAATTATCAAATTTTACTTATAATATAAAAAATACAAATTAAACTGTTAGTATTTATCATAA
TTA
Found at i:12638466 original size:19 final size:19
Alignment explanation
Indices: 12638444--12638480 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12638434 TATTAAAGGC
*
12638444 GTCTTCTACTGGTAAATGT
1 GTCTTCTACTAGTAAATGT
12638463 GTCTTCTACTAGTAAATG
1 GTCTTCTACTAGTAAATG
12638481 CCTTCAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (19 bp):
GTCTTCTACTAGTAAATGT
Found at i:12644165 original size:304 final size:303
Alignment explanation
Indices: 12643595--12644166 Score: 679
Period size: 304 Copynumber: 1.9 Consensus size: 303
12643585 TTTGAAGCTG
* ** *
12643595 TTTTTAACCAAAACTGCCTTTGATAATCACATCAAAAATTAATTGTATGAAATATTAAAAGCATT
1 TTTTTAACCAAAACCGCCTTCAATAATCACACCAAAAATTAATTGTATGAAATATTAAAAGCATT
* ** * ** *
12643660 TTGGGAAAAAAAATGCTTTCAAGAATCCGTCGTGCCTTTTTGGTATGGATTATTGAAGGTGTTTT
66 TTGAGAAAAAAAACACCTTCAAGAATCCGTCGTGCCTTTTTGGTATAAATTATTGAAGGCGTTTT
* * * *
12643725 AAAAAACGGCTTCAATAAAACTAACTAAAAATTAATCGAATGGATTATGAAGGACGTTTTCCTAC
131 AAAAAACGCCTTCAATAAAACCAACTAAAAATTAATCGAATGAATTATGAAGGACATTTTCCTAC
** * * *
12643790 AGTTAATGCCTTCAATAATCCCTAACAAAATGTTATTGAAGGTGTTTCCAGATATAACCACATTT
196 AGTTAACACCTTCAATAATCCCTAACAAAATGTTATTGAAGGCGTTT-CAGAAATAACCACATTC
12643855 AATAATCCGACTATCAAAATTTATCGTTTGGAATAGTAATGACA
260 AATAATCCGACTATCAAAATTTATCGTTTGGAATAGTAATGACA
* * * * * *
12643899 TTTTTTACCAAAACCGCCTTCAATAATCCCACCAAAAATTTATTGTGTGGAATATTAAAGGCATT
1 TTTTTAACCAAAACCGCCTTCAATAATCACACCAAAAATTAATTGTATGAAATATTAAAAGCATT
* *
12643964 TTGAGCAAAAAAACACCTTCAAGAATCCGTC-T-CATCTTTTTTGTATAAATTATTGAAGGCGTT
66 TTGAGAAAAAAAACACCTTCAAGAATCCGTCGTGC--CTTTTTGGTATAAATTATTGAAGGCGTT
** * *
12644027 TTTTAAAACGCCTTCAATAATACCAATTAAAAATTAATCGAATGAATTATGAAAGG-CATTTGT-
129 TTAAAAAACGCCTTCAATAAAACCAACTAAAAATTAATCGAATGAATTATG-AAGGACATTT-TC
* * * * *
12644090 CTACGAG-TAACACCTTGAATAATCTCTAATAAAATTTTGTTGAAGGCGTTT-ATGAAAATAACC
192 CTAC-AGTTAACACCTTCAATAATCCCTAACAAAATGTTATTGAAGGCGTTTCA-G-AAATAACC
* *
12644153 GCCTTCAATAATCC
254 ACATTCAATAATCC
12644167 AACCATTAAA
Statistics
Matches: 222, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
302 2 0.01
303 2 0.01
304 211 0.95
305 7 0.03
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.33
Consensus pattern (303 bp):
TTTTTAACCAAAACCGCCTTCAATAATCACACCAAAAATTAATTGTATGAAATATTAAAAGCATT
TTGAGAAAAAAAACACCTTCAAGAATCCGTCGTGCCTTTTTGGTATAAATTATTGAAGGCGTTTT
AAAAAACGCCTTCAATAAAACCAACTAAAAATTAATCGAATGAATTATGAAGGACATTTTCCTAC
AGTTAACACCTTCAATAATCCCTAACAAAATGTTATTGAAGGCGTTTCAGAAATAACCACATTCA
ATAATCCGACTATCAAAATTTATCGTTTGGAATAGTAATGACA
Found at i:12646336 original size:2 final size:2
Alignment explanation
Indices: 12646299--12646325 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12646289 ACAGGACATG
12646299 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
12646326 GCATGTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12649055 original size:22 final size:21
Alignment explanation
Indices: 12648965--12649100 Score: 116
Period size: 21 Copynumber: 6.4 Consensus size: 21
12648955 TTTCGATAAT
* *
12648965 TTTTTATAAAATTTTAGTAAT
1 TTTTGATAAAATTTTAGTAAC
* *
12648986 TTTTCATACAATTTTAGTAAC
1 TTTTGATAAAATTTTAGTAAC
* * * *
12649007 TATTAATACAA-TTTGGTAAC
1 TTTTGATAAAATTTTAGTAAC
12649027 TTTTGATAAAATTTTAGTAAC
1 TTTTGATAAAATTTTAGTAAC
*
12649048 ATCTTGATAAAATTTTAGTAAC
1 -TTTTGATAAAATTTTAGTAAC
* *
12649070 ATTATGAT--AATTTATAATATAC
1 -TTTTGATAAAATTT-TAGTA-AC
12649092 TTTTGATAA
1 TTTTGATAA
12649101 TTATTGATAA
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
20 21 0.22
21 45 0.48
22 28 0.30
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (21 bp):
TTTTGATAAAATTTTAGTAAC
Found at i:12649498 original size:22 final size:22
Alignment explanation
Indices: 12649473--12649515 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12649463 TTAAGCTATC
*
12649473 AATGATATATTGCTAAATTATT
1 AATGATATATTACTAAATTATT
* *
12649495 AATGATTTATTATTAAATTAT
1 AATGATATATTACTAAATTAT
12649516 GATTAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (22 bp):
AATGATATATTACTAAATTATT
Found at i:12649515 original size:11 final size:11
Alignment explanation
Indices: 12649486--12649538 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
12649476 GATATATTGC
*
12649486 TAAATTATTAA
1 TAAATTATTAT
* *
12649497 TGATTTATTAT
1 TAAATTATTAT
*
12649508 TAAATTATGAT
1 TAAATTATTAT
* *
12649519 TAATTTACTAT
1 TAAATTATTAT
12649530 TAAATTATT
1 TAAATTATT
12649539 GATAATTTAT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (11 bp):
TAAATTATTAT
Found at i:12649628 original size:22 final size:22
Alignment explanation
Indices: 12649486--12649633 Score: 95
Period size: 22 Copynumber: 6.7 Consensus size: 22
12649476 GATATATTGC
* * *
12649486 TAAATTATTAATGATTTATTAT
1 TAAATTATCAATAATTTACTAT
* *
12649508 TAAATTATGATTAATTTACTAT
1 TAAATTATCAATAATTTACTAT
** * *
12649530 TAAATTATTGATAATTTATTAC
1 TAAATTATCAATAATTTACTAT
* * **
12649552 TAAGTTA-CTGATAATTTGTTA-
1 TAAATTATC-AATAATTTACTAT
12649573 TAAAGTTAT-AATTAATTTACTAT
1 TAAA-TTATCAA-TAATTTACTAT
** *
12649596 TATTTTTTCAATAATTTACTAT
1 TAAATTATCAATAATTTACTAT
*
12649618 AAAATTATCAATAATT
1 TAAATTATCAATAATT
12649634 AATTAATTTA
Statistics
Matches: 97, Mismatches: 23, Indels: 12
0.73 0.17 0.09
Matches are distributed among these distances:
21 4 0.04
22 89 0.92
23 4 0.04
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (22 bp):
TAAATTATCAATAATTTACTAT
Found at i:12649954 original size:20 final size:20
Alignment explanation
Indices: 12649917--12650024 Score: 57
Period size: 18 Copynumber: 5.4 Consensus size: 20
12649907 ACAATTATTA
12649917 TATTAATAAAGTAATATTTT
1 TATTAATAAAGTAATATTTT
*
12649937 TATTATATAAA-T-AT-TATT
1 TATTA-ATAAAGTAATATTTT
* * * *
12649955 AATAAATAAAATTATATTATT
1 TATTAATAAAGTAATATT-TT
12649976 TATTAAT--A-TAATATTATT
1 TATTAATAAAGTAATATT-TT
* *
12649994 TATATAATAAACATAATACTATT
1 TAT-TAATAAA-GTAATA-TTTT
12650017 TATTAATA
1 TATTAATA
12650025 TATTATTAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
17 5 0.07
18 19 0.28
19 9 0.13
20 7 0.10
21 13 0.19
22 5 0.07
23 10 0.14
24 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (20 bp):
TATTAATAAAGTAATATTTT
Found at i:12649963 original size:17 final size:17
Alignment explanation
Indices: 12649917--12649969 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
12649907 ACAATTATTA
12649917 TATTAATAAAGT-AATAT
1 TATTAATAAA-TAAATAT
* * *
12649934 TTTTATTATATAAATAT
1 TATTAATAAATAAATAT
12649951 TATTAATAAATAAA-AT
1 TATTAATAAATAAATAT
12649967 TAT
1 TAT
12649970 ATTATTTATT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 6 0.21
17 23 0.79
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
TATTAATAAATAAATAT
Found at i:12649972 original size:38 final size:38
Alignment explanation
Indices: 12649910--12650040 Score: 144
Period size: 38 Copynumber: 3.4 Consensus size: 38
12649900 TGAAGCTACA
*
12649910 ATTATT-ATATTAATAAAGTAATATTTTTATTATATAAAT
1 ATTATTAATA-TAATAAAATAATATTTTTATTA-ATAAAT
*
12649949 ATTATTAATA-AATAAAATTATATTATTTATTAATATAAT
1 ATTATTAATATAATAAAATAATATT-TTTATTAATA-AAT
* *
12649988 ATTATTTATATAATAAACATAATACTATTTATTAAT--AT
1 ATTATTAATATAATAAA-ATAATA-TTTTTATTAATAAAT
12650026 ATTATTAATATAATA
1 ATTATTAATATAATA
12650041 TATTAATAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
38 31 0.39
39 25 0.31
40 9 0.11
41 14 0.17
42 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (38 bp):
ATTATTAATATAATAAAATAATATTTTTATTAATAAAT
Found at i:12649991 original size:23 final size:23
Alignment explanation
Indices: 12649947--12650110 Score: 80
Period size: 22 Copynumber: 7.3 Consensus size: 23
12649937 TATTATATAA
* *
12649947 ATATTA-TTAATAA-ATAAAATT
1 ATATTATTTATTAATATAATATT
12649968 ATATTATTTATTAATATAATATT
1 ATATTATTTATTAATATAATATT
* *
12649991 AT-TTA--TA-TAATA-AACATA
1 ATATTATTTATTAATATAATATT
* *
12650009 ATACTATTTATTAATATATTATT
1 ATATTATTTATTAATATAATATT
* * *
12650032 AATATAATATATTAATAAATAATTTT
1 -ATATTATTTATTAAT--ATAATATT
* *
12650058 ATAATATATTTA--AAAATACTATT
1 AT-AT-TATTTATTAATATAATATT
* *
12650081 ATA--ATATATTAATAATATTATT
1 ATATTATTTATTAAT-ATAATATT
12650103 ATATTATT
1 ATATTATT
12650111 AATAACAAAT
Statistics
Matches: 104, Mismatches: 22, Indels: 31
0.66 0.14 0.20
Matches are distributed among these distances:
18 6 0.06
19 11 0.11
20 2 0.02
21 10 0.10
22 25 0.24
23 20 0.19
24 14 0.13
25 4 0.04
26 8 0.08
27 4 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
ATATTATTTATTAATATAATATT
Found at i:12650024 original size:41 final size:39
Alignment explanation
Indices: 12649910--12650032 Score: 135
Period size: 41 Copynumber: 3.1 Consensus size: 39
12649900 TGAAGCTACA
* *
12649910 ATTA-TTATATTAATAAAGTAATATTTTTATT-ATATAAAT
1 ATTATTTATA-TAATAAAATAATATATTTATTAATAT-AAT
* *
12649949 ATTATTAATA-AATAAAATTATATTATTTATTAATATAAT
1 ATTATTTATATAATAAAATAATA-TATTTATTAATATAAT
*
12649988 ATTATTTATATAATAAACATAATACTATTTATTAATATATT
1 ATTATTTATATAATAAA-ATAATA-TATTTATTAATATAAT
12650029 ATTA
1 ATTA
12650033 ATATAATATA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
38 10 0.14
39 23 0.32
40 14 0.20
41 24 0.34
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.50
Consensus pattern (39 bp):
ATTATTTATATAATAAAATAATATATTTATTAATATAAT
Found at i:12650032 original size:11 final size:11
Alignment explanation
Indices: 12650016--12650114 Score: 55
Period size: 11 Copynumber: 8.8 Consensus size: 11
12650006 ATAATACTAT
12650016 TTATTAATATA
1 TTATTAATATA
12650027 TTATTAATATAA
1 TTATTAATAT-A
12650039 TATATTAATAAATAA
1 T-TATTAAT--AT-A
*
12650054 TTTTATAATATA
1 TTAT-TAATATA
* *
12650066 TT-TAAAAATA
1 TTATTAATATA
*
12650076 CTATT-ATA-A
1 TTATTAATATA
12650085 TATATTAATA-A
1 T-TATTAATATA
*
12650096 -TATTATTATA
1 TTATTAATATA
12650106 TTATTAATA
1 TTATTAATA
12650115 ACAAATGAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 20
0.70 0.09 0.20
Matches are distributed among these distances:
9 8 0.12
10 13 0.19
11 23 0.33
12 5 0.07
13 9 0.13
14 2 0.03
15 9 0.13
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (11 bp):
TTATTAATATA
Found at i:12650519 original size:43 final size:44
Alignment explanation
Indices: 12650449--12650533 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 44
12650439 AATCATCACA
* *
12650449 AATTTATTACTAAATTAACTATGATTTATTATCAATTTATTACT
1 AATTTATTACTAAATTAACCATGATTTATTATCAAGTTATTACT
* * *
12650493 AATTTA-TATTAAATTATCCATGATTTATTATTAAGTTATTA
1 AATTTATTACTAAATTAACCATGATTTATTATCAAGTTATTA
12650534 TTGATTAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 30 0.83
44 6 0.17
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.51
Consensus pattern (44 bp):
AATTTATTACTAAATTAACCATGATTTATTATCAAGTTATTACT
Done.