Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 93 of 131
Found at i:16758673 original size:7 final size:7
Alignment explanation
Indices: 16758663--16758728 Score: 50
Period size: 7 Copynumber: 9.6 Consensus size: 7
16758653 TTTTTTCGTT
16758663 TTTCTTC
1 TTTCTTC
16758670 TTTCTTTC
1 TTTC-TTC
*
16758678 TTTTTTC
1 TTTCTTC
*
16758685 TTTTTTC
1 TTTCTTC
16758692 -TTCTTTC
1 TTTC-TTC
16758699 TTTCTT-
1 TTTCTTC
16758705 TTT-TTCC
1 TTTCTT-C
16758712 TTT-TTC
1 TTTCTTC
*
16758718 TTTCTTT
1 TTTCTTC
16758725 TTTC
1 TTTC
16758729 AAGGCATTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
5 2 0.04
6 9 0.18
7 30 0.60
8 9 0.18
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTCTTC
Found at i:16758676 original size:4 final size:4
Alignment explanation
Indices: 16758663--16758728 Score: 72
Period size: 4 Copynumber: 18.0 Consensus size: 4
16758653 TTTTTTCGTT
*
16758663 TTTC -TTC TTTC TTTC TTT- TTTC TTT- TTTC -TTC TTTC TTTC TTTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
*
16758707 TTTC CTT- TTTC TTTC TTT- TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC
16758729 AAGGCATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
3 17 0.33
4 35 0.67
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:16758682 original size:18 final size:18
Alignment explanation
Indices: 16758663--16758728 Score: 82
Period size: 18 Copynumber: 3.6 Consensus size: 18
16758653 TTTTTTCGTT
*
16758663 TTTCTTCTTTCTTTCTTT-
1 TTTCTTTTTTC-TTCTTTC
16758681 TTTCTTTTTTCTTCTTTC
1 TTTCTTTTTTCTTCTTTC
16758699 TTTCTTTTTTTCCTT-TTTC
1 TTTC-TTTTTT-CTTCTTTC
16758718 TTTCTTTTTTC
1 TTTCTTTTTTC
16758729 AAGGCATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
17 7 0.16
18 20 0.45
19 14 0.32
20 3 0.07
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCTTTTTTCTTCTTTC
Found at i:16758682 original size:25 final size:26
Alignment explanation
Indices: 16758653--16758728 Score: 111
Period size: 25 Copynumber: 3.0 Consensus size: 26
16758643 TAATCTTTTA
*
16758653 TTTTTTCGTTTTTCTTCTTTCTTTC-
1 TTTTTTCCTTTTTCTTCTTTCTTTCT
*
16758678 TTTTTTCTTTTTTCTTCTTTCTTTCT
1 TTTTTTCCTTTTTCTTCTTTCTTTCT
16758704 TTTTTTCCTTTTTCTTTCTTT-TTTC
1 TTTTTTCCTTTTTC-TTCTTTCTTTC
16758729 AAGGCATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
25 24 0.51
26 17 0.36
27 6 0.13
ACGTcount: A:0.00, C:0.20, G:0.01, T:0.79
Consensus pattern (26 bp):
TTTTTTCCTTTTTCTTCTTTCTTTCT
Found at i:16758718 original size:33 final size:32
Alignment explanation
Indices: 16758648--16758720 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
16758638 TCTATTAATC
* *
16758648 TTTTATTTTTTCGTTTTTCTTCTTTCTTTCTT
1 TTTTCTTTTTTCGTTTTTCTTCTTTCTTTCCT
*
16758680 TTTTCTTTTTTC-TTCTTTCTTTCTTTTTTTCCT
1 TTTTCTTTTTTCGTT-TTTC-TTCTTTCTTTCCT
16758713 TTTTCTTT
1 TTTTCTTT
16758721 CTTTTTTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 2 0.06
32 15 0.42
33 19 0.53
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.79
Consensus pattern (32 bp):
TTTTCTTTTTTCGTTTTTCTTCTTTCTTTCCT
Found at i:16762493 original size:20 final size:21
Alignment explanation
Indices: 16762452--16762494 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
16762442 ATTGTATGGG
*
16762452 TTGACTCAAGTTCTATCCATT
1 TTGACTCAAGTTCTATCAATT
16762473 TTGACT-AAGTT-TGATCAATT
1 TTGACTCAAGTTCT-ATCAATT
16762493 TT
1 TT
16762495 AATTTTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 13 0.65
21 6 0.30
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.47
Consensus pattern (21 bp):
TTGACTCAAGTTCTATCAATT
Found at i:16769956 original size:21 final size:20
Alignment explanation
Indices: 16769930--16769976 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
16769920 AATTAAAAAA
*
16769930 AAATTATTGATGATATTTTAT
1 AAATTATTGATAATATTTT-T
**
16769951 AAATTATTTTTAATATTTTT
1 AAATTATTGATAATATTTTT
16769971 AAATTA
1 AAATTA
16769977 AAATTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
AAATTATTGATAATATTTTT
Found at i:16769983 original size:21 final size:21
Alignment explanation
Indices: 16769942--16769983 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16769932 ATTATTGATG
**
16769942 ATATTTTATAAATTATTTTTA
1 ATATTTTATAAATTAAATTTA
16769963 ATATTTT-TAAATTAAAATTTA
1 ATATTTTATAAATT-AAATTTA
16769984 TTAAAGGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTTTATAAATTAAATTTA
Found at i:16770207 original size:23 final size:23
Alignment explanation
Indices: 16770153--16770209 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
16770143 TTTTAAATAA
* *
16770153 TTTAATTTCACATAAAATTTACT
1 TTTAATTTTAAATAAAATTTACT
16770176 TTTAATTTTAAATAAAATTTACT
1 TTTAATTTTAAATAAAATTTACT
16770199 TTTAATTTTAA
1 TTTAATTTTAA
16770210 TTGATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTAATTTTAAATAAAATTTACT
Found at i:16775619 original size:260 final size:260
Alignment explanation
Indices: 16775230--16775752 Score: 1019
Period size: 260 Copynumber: 2.0 Consensus size: 260
16775220 TATCTTTACT
*
16775230 AAACCAGAGTGGAAAATATATCTAACAGCAACTAATATCACTAGCAGCCTGGTGACGGGGCATCA
1 AAACCAGAGTGGAAAATATATCTAACAGCAACTAATATCACTAGCAGCCTGGAGACGGGGCATCA
16775295 AATGCCAATCCAAGAAACTCCCCCAATAACCACTATAACAACCACCTCAATACACATTCCTAATA
66 AATGCCAATCCAAGAAACTCCCCCAATAACCACTATAACAACCACCTCAATACACATTCCTAATA
*
16775360 CTTTGTTAGATCCAATATGAGATACAACCAGTTTCATAATAAAAAGATGTCATCAGAAAATCAAG
131 CTTTGTTAGATCCAATACGAGATACAACCAGTTTCATAATAAAAAGATGTCATCAGAAAATCAAG
16775425 CTTTCAATATAGAACTTCATGCCATACAAGTGATTAAGCTACAAACATTTAAACCTACAAGTTCA
196 CTTTCAATATAGAACTTCATGCCATACAAGTGATTAAGCTACAAACATTTAAACCTACAAGTTCA
*
16775490 AAACCAGAGTGGAAAATATATCTAACAGCAACTAATATCACTAGCAGCCTGGAGAGGGGGCATCA
1 AAACCAGAGTGGAAAATATATCTAACAGCAACTAATATCACTAGCAGCCTGGAGACGGGGCATCA
16775555 AATGCCAATCCAAGAAACTCCCCCAATAACCACTATAACAACCACCTCAATACACATTCCTAATA
66 AATGCCAATCCAAGAAACTCCCCCAATAACCACTATAACAACCACCTCAATACACATTCCTAATA
16775620 CTTTGTTAGATCCAATACGAGATACAACCAGTTTCATAATAAAAAGATGTCATCAGAAAATCAAG
131 CTTTGTTAGATCCAATACGAGATACAACCAGTTTCATAATAAAAAGATGTCATCAGAAAATCAAG
16775685 CTTTCAATATAGAACTTCATGCCATACAAGTGATTAAGCTACAAACATTTAAACCTACAAGTTCA
196 CTTTCAATATAGAACTTCATGCCATACAAGTGATTAAGCTACAAACATTTAAACCTACAAGTTCA
16775750 AAA
1 AAA
16775753 TTTGACGCAG
Statistics
Matches: 260, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
260 260 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (260 bp):
AAACCAGAGTGGAAAATATATCTAACAGCAACTAATATCACTAGCAGCCTGGAGACGGGGCATCA
AATGCCAATCCAAGAAACTCCCCCAATAACCACTATAACAACCACCTCAATACACATTCCTAATA
CTTTGTTAGATCCAATACGAGATACAACCAGTTTCATAATAAAAAGATGTCATCAGAAAATCAAG
CTTTCAATATAGAACTTCATGCCATACAAGTGATTAAGCTACAAACATTTAAACCTACAAGTTCA
Found at i:16779159 original size:26 final size:26
Alignment explanation
Indices: 16779130--16779182 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
16779120 CTAGTAAAGG
*
16779130 TAATTTTATCACTTATCTCTAATTCT
1 TAATCTTATCACTTATCTCTAATTCT
16779156 TAATCTTATCACTTATCTCTAATTCT
1 TAATCTTATCACTTATCTCTAATTCT
16779182 T
1 T
16779183 CACTCAGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (26 bp):
TAATCTTATCACTTATCTCTAATTCT
Found at i:16783878 original size:12 final size:12
Alignment explanation
Indices: 16783861--16783889 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16783851 TAGGTTGTTA
16783861 GATCTCTTATTG
1 GATCTCTTATTG
16783873 GATCTCTTATTG
1 GATCTCTTATTG
16783885 GATCT
1 GATCT
16783890 TAATCCAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (12 bp):
GATCTCTTATTG
Found at i:16785701 original size:32 final size:32
Alignment explanation
Indices: 16785665--16785730 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
16785655 AATACAAAAT
*
16785665 AATAAAAATAATAGAACATAATTTTAAATATA
1 AATAAAAATAATAGAACAAAATTTTAAATATA
16785697 AATAAAAATAATAGAACAAAATTTTAAATATA
1 AATAAAAATAATAGAACAAAATTTTAAATATA
16785729 AA
1 AA
16785731 AATTTACACC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (32 bp):
AATAAAAATAATAGAACAAAATTTTAAATATA
Found at i:16787536 original size:23 final size:20
Alignment explanation
Indices: 16787488--16787536 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 20
16787478 AATTCAACAT
*
16787488 TAAAATTAGTAAAAAAATTT
1 TAAAATTAGTAAAAAAATTA
16787508 TAAAAATTAAGCTAAAAAAATTCA
1 T-AAAATT-AG-TAAAAAAATT-A
16787532 TAAAA
1 TAAAA
16787537 GCAACGATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 6 0.25
22 2 0.08
23 14 0.58
24 1 0.04
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (20 bp):
TAAAATTAGTAAAAAAATTA
Found at i:16790417 original size:23 final size:21
Alignment explanation
Indices: 16790373--16790412 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16790363 TGATTTAATT
*
16790373 TTTTTGTACATAATATATTTA
1 TTTTTATACATAATATATTTA
*
16790394 TTTTTATACTTAATATATT
1 TTTTTATACATAATATATT
16790413 ATTATCGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTTTATACATAATATATTTA
Found at i:16792405 original size:17 final size:16
Alignment explanation
Indices: 16792383--16792414 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
16792373 GTTCGAAAAG
16792383 AGAGAAAATATAAGTGT
1 AGAGAAAATA-AAGTGT
16792400 AGAGAAAATAAAGTG
1 AGAGAAAATAAAGTG
16792415 CAAAAACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (16 bp):
AGAGAAAATAAAGTGT
Found at i:16792558 original size:83 final size:83
Alignment explanation
Indices: 16792419--16792581 Score: 308
Period size: 83 Copynumber: 2.0 Consensus size: 83
16792409 AAAGTGCAAA
*
16792419 AACTTAAAACTAAAAATCTAAGAATCTAGCTAAAACTCTCTTATGGCTGGCCAATCTCTCCTATT
1 AACTTAAAACTAAAAATCTAAGAATCTAGCTAAAACTCTCTTATGACTGGCCAATCTCTCCTATT
16792484 TATAGATAGGCAAATGAG
66 TATAGATAGGCAAATGAG
*
16792502 AACTTAAAACTAAAAATCTAAGAATCTAGCTAAAACTCTCTTATGATTGGCCAATCTCTCCTATT
1 AACTTAAAACTAAAAATCTAAGAATCTAGCTAAAACTCTCTTATGACTGGCCAATCTCTCCTATT
16792567 TATAGATAGGCAAAT
66 TATAGATAGGCAAAT
16792582 AAGAGGTGCT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (83 bp):
AACTTAAAACTAAAAATCTAAGAATCTAGCTAAAACTCTCTTATGACTGGCCAATCTCTCCTATT
TATAGATAGGCAAATGAG
Found at i:16794082 original size:21 final size:21
Alignment explanation
Indices: 16794057--16794097 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16794047 ACTAGGTTGA
16794057 CTTTTT-TTTTTCATTTTTTT
1 CTTTTTGTTTTTCATTTTTTT
*
16794077 CTTTTTGTTTTTCCTTTTTTT
1 CTTTTTGTTTTTCATTTTTTT
16794098 TTTCAAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (21 bp):
CTTTTTGTTTTTCATTTTTTT
Found at i:16799180 original size:13 final size:13
Alignment explanation
Indices: 16799162--16799187 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16799152 ACGTGAGAAA
16799162 TTTGAACTTTTTG
1 TTTGAACTTTTTG
16799175 TTTGAACTTTTTG
1 TTTGAACTTTTTG
16799188 AACTACAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (13 bp):
TTTGAACTTTTTG
Found at i:16799787 original size:16 final size:17
Alignment explanation
Indices: 16799758--16799789 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16799748 TTGGAAAGAA
16799758 AGAAAATGAAAGTACAG
1 AGAAAATGAAAGTACAG
16799775 AGAAAAT-AAAGTACA
1 AGAAAATGAAAGTACA
16799790 AAAACTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.19, T:0.12
Consensus pattern (17 bp):
AGAAAATGAAAGTACAG
Found at i:16803533 original size:18 final size:18
Alignment explanation
Indices: 16803510--16803555 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
16803500 ACAAATTCAA
*
16803510 GTTATTGCTTTTCTTTAT
1 GTTATTGCATTTCTTTAT
16803528 GTTATTGCATTTCTTTAT
1 GTTATTGCATTTCTTTAT
16803546 GTTATTGCAT
1 GTTATTGCAT
16803556 ATGCATCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.15, C:0.11, G:0.13, T:0.61
Consensus pattern (18 bp):
GTTATTGCATTTCTTTAT
Found at i:16807835 original size:19 final size:19
Alignment explanation
Indices: 16807813--16807850 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16807803 TCAAAAAGGT
* *
16807813 TTTCCTACTTTAAGTTGGA
1 TTTCCCACTTTAACTTGGA
16807832 TTTCCCACTTTAACTTGGA
1 TTTCCCACTTTAACTTGGA
16807851 ATTCTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (19 bp):
TTTCCCACTTTAACTTGGA
Found at i:16814241 original size:12 final size:12
Alignment explanation
Indices: 16814224--16814248 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16814214 CATTTTTATC
16814224 TTGTCACATGCA
1 TTGTCACATGCA
16814236 TTGTCACATGCA
1 TTGTCACATGCA
16814248 T
1 T
16814249 CCAAAACCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (12 bp):
TTGTCACATGCA
Found at i:16814264 original size:7 final size:7
Alignment explanation
Indices: 16814252--16814340 Score: 60
Period size: 7 Copynumber: 13.1 Consensus size: 7
16814242 CATGCATCCA
16814252 AAACCCT
1 AAACCCT
*
16814259 AAACCCC
1 AAACCCT
*
16814266 AAA-CCA
1 AAACCCT
**
16814272 AAAATCT
1 AAACCCT
16814279 AAACCCT
1 AAACCCT
*
16814286 AAACCTT
1 AAACCCT
*
16814293 AAACCCC
1 AAACCCT
*
16814300 AAA-CTT
1 AAACCCT
*
16814306 AAAACACT
1 -AAACCCT
16814314 AAACCCT
1 AAACCCT
16814321 AAACCC-
1 AAACCCT
*
16814327 -AACACT
1 AAACCCT
16814333 AAACCCT
1 AAACCCT
16814340 A
1 A
16814341 GCCAAACCTT
Statistics
Matches: 61, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
5 4 0.07
6 6 0.10
7 50 0.82
8 1 0.02
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:16814274 original size:20 final size:20
Alignment explanation
Indices: 16814249--16814290 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
16814239 TCACATGCAT
*
16814249 CCAAAACCCTAAACCCCAAA
1 CCAAAAACCTAAACCCCAAA
* *
16814269 CCAAAAATCTAAACCCTAAA
1 CCAAAAACCTAAACCCCAAA
16814289 CC
1 CC
16814291 TTAAACCCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.40, G:0.00, T:0.10
Consensus pattern (20 bp):
CCAAAAACCTAAACCCCAAA
Found at i:16814296 original size:27 final size:26
Alignment explanation
Indices: 16814252--16814340 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
16814242 CATGCATCCA
*
16814252 AAACCCTAAACCCCAAACCAAAAATCT
1 AAACCCTAAACCCTAAACCAAAAA-CT
* **
16814279 AAACCCTAAACCTTAAACCCCAAACTT
1 AAACCCTAAACCCTAAACCAAAAAC-T
* * *
16814306 AAAACACTAAACCCTAAACCCAACACT
1 -AAACCCTAAACCCTAAACCAAAAACT
16814333 AAACCCTA
1 AAACCCTA
16814341 GCCAAACCTT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
26 8 0.16
27 22 0.43
28 21 0.41
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.13
Consensus pattern (26 bp):
AAACCCTAAACCCTAAACCAAAAACT
Found at i:16814919 original size:24 final size:25
Alignment explanation
Indices: 16814892--16814938 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
16814882 AACAAATTGT
16814892 TTTTGCTTTTAA-AAAATAAAATGA
1 TTTTGCTTTTAACAAAATAAAATGA
** *
16814916 TTTTTTTTTTAACAAAATTAAAT
1 TTTTGCTTTTAACAAAATAAAAT
16814939 TTTTTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (25 bp):
TTTTGCTTTTAACAAAATAAAATGA
Found at i:16814919 original size:25 final size:25
Alignment explanation
Indices: 16814891--16814938 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
16814881 AAACAAATTG
16814891 TTTTTGCTTTTAA-AAAATAAAATGA
1 TTTTT-CTTTTAACAAAATAAAATGA
* *
16814916 TTTTTTTTTTAACAAAATTAAAT
1 TTTTTCTTTTAACAAAATAAAAT
16814939 TTTTTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (25 bp):
TTTTTCTTTTAACAAAATAAAATGA
Found at i:16814943 original size:24 final size:24
Alignment explanation
Indices: 16814898--16814946 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
16814888 TTGTTTTTGC
16814898 TTTTAAAAAATAAAATGATTTTTT
1 TTTTAAAAAATAAAATGATTTTTT
*
16814922 TTTTAACAAAATTAAAT--TTTTTT
1 TTTTAA-AAAATAAAATGATTTTTT
16814945 TT
1 TT
16814947 ATTTTTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 8 0.35
24 6 0.26
25 9 0.39
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTTAAAAAATAAAATGATTTTTT
Found at i:16816150 original size:8 final size:8
Alignment explanation
Indices: 16816139--16816208 Score: 61
Period size: 8 Copynumber: 8.0 Consensus size: 8
16816129 ATAAAGAAAT
16816139 AAGAAAAA
1 AAGAAAAA
16816147 AAGACAAAAA
1 AAG--AAAAA
16816157 AAGAAAAA
1 AAGAAAAA
16816165 AAGAAAAAA
1 AAG-AAAAA
16816174 AAGGAAAAAAA
1 AA-G--AAAAA
16816185 AAGAAAAA
1 AAGAAAAA
*
16816193 AA-AGGAAA
1 AAGA-AAAA
16816201 AAGAAAAA
1 AAGAAAAA
16816209 TGAACAAGGG
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
7 1 0.02
8 26 0.49
9 8 0.15
10 10 0.19
11 8 0.15
ACGTcount: A:0.84, C:0.01, G:0.14, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:16816157 original size:10 final size:9
Alignment explanation
Indices: 16816142--16816202 Score: 79
Period size: 10 Copynumber: 6.4 Consensus size: 9
16816132 AAGAAATAAG
16816142 AAAAAAAGA
1 AAAAAAAGA
16816151 CAAAAAAAG-
1 -AAAAAAAGA
16816160 AAAAAAAGA
1 AAAAAAAGA
16816169 AAAAAAAGGAA
1 AAAAAAA-G-A
16816180 AAAAAAAGA
1 AAAAAAAGA
16816189 AAAAAAAGGA
1 AAAAAAA-GA
16816199 AAAA
1 AAAA
16816203 GAAAAATGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.17
9 15 0.32
10 16 0.34
11 8 0.17
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:16816196 original size:20 final size:20
Alignment explanation
Indices: 16816142--16816207 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
16816132 AAGAAATAAG
16816142 AAAAAAAGACAAAAAAA-G--
1 AAAAAAAGA-AAAAAAAGGAA
16816160 AAAAAAAGAAAAAAAAGGAA
1 AAAAAAAGAAAAAAAAGGAA
16816180 AAAAAAAGAAAAAAAAGGAA
1 AAAAAAAGAAAAAAAAGGAA
16816200 AAAGAAAA
1 AAA-AAAA
16816208 ATGAACAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.16
18 10 0.23
20 23 0.52
21 4 0.09
ACGTcount: A:0.85, C:0.02, G:0.14, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAAAAAAAGGAA
Found at i:16816201 original size:9 final size:9
Alignment explanation
Indices: 16816141--16816202 Score: 63
Period size: 9 Copynumber: 6.7 Consensus size: 9
16816131 AAAGAAATAA
16816141 GAAAAAAA-
1 GAAAAAAAG
*
16816149 GACAAAAAAA
1 GA-AAAAAAG
16816159 GAAAAAAAG
1 GAAAAAAAG
*
16816168 AAAAAAAAG
1 GAAAAAAAG
16816177 GAAAAAAAAAG
1 G--AAAAAAAG
*
16816188 AAAAAAAAG
1 GAAAAAAAG
16816197 GAAAAA
1 GAAAAA
16816203 GAAAAATGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
8 2 0.04
9 33 0.73
10 2 0.04
11 8 0.18
ACGTcount: A:0.84, C:0.02, G:0.15, T:0.00
Consensus pattern (9 bp):
GAAAAAAAG
Found at i:16818016 original size:85 final size:88
Alignment explanation
Indices: 16817861--16818035 Score: 259
Period size: 85 Copynumber: 2.0 Consensus size: 88
16817851 AACCAAAGGT
16817861 TAAGGGCTCAATTAAAAGAGAAAAAAAAAGAAAGTAAGTACAATGAAGAGATAAAACAACTTAAG
1 TAAGGGCTCAATTAAAAGAGAAAAAAAAAGAAAGTAAGTACAATGAAGAGATAAAACAACTTAAG
16817926 ATGAAAATACAACTTTGAAAAAG
66 ATGAAAATACAACTTTGAAAAAG
* * * * *
16817949 TAAGTGCTTAATTAAAAGAGAAAAAAAAAAGAAAGT-A-T-GAA-GAAGAGATAGAATAACTTAA
1 TAAGGGCTCAATTAAAAGAG-AAAAAAAAAGAAAGTAAGTACAATGAAGAGATAAAACAACTTAA
*
16818010 GATGAAAATACAATTTTGAAAAAG
65 GATGAAAATACAACTTTGAAAAAG
16818034 TA
1 TA
16818036 TGGCCCAAGA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
85 43 0.54
86 2 0.03
87 1 0.01
88 19 0.24
89 15 0.19
ACGTcount: A:0.58, C:0.06, G:0.17, T:0.19
Consensus pattern (88 bp):
TAAGGGCTCAATTAAAAGAGAAAAAAAAAGAAAGTAAGTACAATGAAGAGATAAAACAACTTAAG
ATGAAAATACAACTTTGAAAAAG
Found at i:16824712 original size:128 final size:128
Alignment explanation
Indices: 16824486--16824725 Score: 333
Period size: 128 Copynumber: 1.9 Consensus size: 128
16824476 CCTTTCTTTA
* * *
16824486 TTTTAGTAAAAAAATAAGAATAGTTTTTGACATCAAAGTCCAACATGATGGAACAAATGTTTTGA
1 TTTTAGTAAAAAAATAAGAAGAGTTTTTGACACCAAAGTCCAACATGATAGAACAAATGTTTTGA
* *
16824551 TAAGGAAAATGTAAGGGACGGTGGGACATTTTGGAGTGGTTTCATTTTGTATCCATGTTAGCC
66 TAAGGAAAAAGTAAGGGACGGTGGGACATTTTGGAATGGTTTCATTTTGTATCCATGTTAGCC
* * **
16824614 TTTTAGTAAAAAAGTAATAAGAGTTTTTGGGACCAAAGTCCAACATGATAGAACAAATGTTTT-A
1 TTTTAGTAAAAAAATAAGAAGAGTTTTTGACACCAAAGTCCAACATGATAGAACAAATGTTTTGA
* *
16824678 CTAAGGAAAAAAAGTGA-GGATGGTGGGACA-TTTGGAATGGTTTCATTT
66 -TAAGG--AAAAAGTAAGGGACGGTGGGACATTTTGGAATGGTTTCATTT
16824726 CTTTAATATT
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
127 1 0.01
128 78 0.80
129 12 0.12
130 7 0.07
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (128 bp):
TTTTAGTAAAAAAATAAGAAGAGTTTTTGACACCAAAGTCCAACATGATAGAACAAATGTTTTGA
TAAGGAAAAAGTAAGGGACGGTGGGACATTTTGGAATGGTTTCATTTTGTATCCATGTTAGCC
Found at i:16825046 original size:16 final size:17
Alignment explanation
Indices: 16825025--16825056 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16825015 TATTATAATC
16825025 ATGTTT-ATTTTGATTT
1 ATGTTTAATTTTGATTT
16825041 ATGTTTAATTTTGATT
1 ATGTTTAATTTTGATT
16825057 ATTTAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (17 bp):
ATGTTTAATTTTGATTT
Found at i:16825190 original size:12 final size:13
Alignment explanation
Indices: 16825166--16825195 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
16825156 AATTTTTGCT
16825166 TAAAATATAATAA
1 TAAAATATAATAA
16825179 TAAAAT-TAATAA
1 TAAAATATAATAA
16825191 TAAAA
1 TAAAA
16825196 GATTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAAATATAATAA
Found at i:16827125 original size:33 final size:33
Alignment explanation
Indices: 16827075--16827151 Score: 81
Period size: 33 Copynumber: 2.3 Consensus size: 33
16827065 ATGTTGTTTC
16827075 TATTATTTAT-TTGCTTTAAATTATTGATT-CAT-TT
1 TATT-TTTATATTGCTTT-AATT-TTG-TTGCATATT
16827109 TATTTTTATATT-CTTTAATTTTGTTGCATCATT
1 TATTTTTATATTGCTTTAATTTTGTTGCAT-ATT
16827142 TATTTTTATA
1 TATTTTTATA
16827152 GGCATTATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
30 2 0.05
31 6 0.15
32 4 0.10
33 21 0.54
34 6 0.15
ACGTcount: A:0.25, C:0.06, G:0.05, T:0.64
Consensus pattern (33 bp):
TATTTTTATATTGCTTTAATTTTGTTGCATATT
Found at i:16828875 original size:4 final size:4
Alignment explanation
Indices: 16828859--16828914 Score: 58
Period size: 4 Copynumber: 14.0 Consensus size: 4
16828849 TGTATTTGTG
* * * * *
16828859 CATT CATT TATT CATT CATC CATC CATC CATC CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT
*
16828907 TATT CATT
1 CATT CATT
16828915 TATGTATCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.46
Consensus pattern (4 bp):
CATT
Found at i:16830639 original size:20 final size:21
Alignment explanation
Indices: 16830614--16830661 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
16830604 AGAAAAAGAA
16830614 AGAAAAAGAAAAG-AAATAAG
1 AGAAAAAGAAAAGAAAATAAG
* *
16830634 AG-AAAATAAGAGAAAATAAG
1 AGAAAAAGAAAAGAAAATAAG
16830654 AGAAAAAG
1 AGAAAAAG
16830662 TGAAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 8 0.35
20 11 0.48
21 4 0.17
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (21 bp):
AGAAAAAGAAAAGAAAATAAG
Found at i:16830640 original size:10 final size:10
Alignment explanation
Indices: 16830627--16830659 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
16830617 AAAAGAAAAG
16830627 AAATAAGAGA
1 AAATAAGAGA
16830637 AAATAAGAGA
1 AAATAAGAGA
16830647 AAATAAGAGA
1 AAATAAGAGA
16830657 AAA
1 AAA
16830660 AGTGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (10 bp):
AAATAAGAGA
Found at i:16830669 original size:20 final size:19
Alignment explanation
Indices: 16830614--16830669 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
16830604 AGAAAAAGAA
*
16830614 AGAAAAAGAAAAGAAATAAG
1 AGAAAAAGGAAA-AAATAAG
* *
16830634 AGAAAATAAGAGAAAATAAG
1 AGAAAA-AGGAAAAAATAAG
16830654 AGAAAAAGTGAAAAAA
1 AGAAAAAG-GAAAAAA
16830670 ATGAAAAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.03
20 25 0.86
21 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (19 bp):
AGAAAAAGGAAAAAATAAG
Found at i:16833046 original size:33 final size:33
Alignment explanation
Indices: 16832961--16833259 Score: 163
Period size: 32 Copynumber: 9.2 Consensus size: 33
16832951 TCATGTAAAT
* *
16832961 ATTTAAGCCTAGTTTAGCTAGCACCTAATAAGA
1 ATTTAAGCCTAGTTTAGTTGGCACCTAATAAGA
16832994 A-TTAAGCCTAGTTTAGTTGGCACCCT-ATAAGA
1 ATTTAAGCCTAGTTTAGTTGGCA-CCTAATAAGA
* * * *
16833026 ATTTAAGCCTAATTTTGTTGGTACCTAATGA-A
1 ATTTAAGCCTAGTTTAGTTGGCACCTAATAAGA
* * ** *
16833058 ATTTAAGCCCAGTTCAGTTGGCACAAAATAAAA
1 ATTTAAGCCTAGTTTAGTTGGCACCTAATAAGA
* * * * * *
16833091 ATTTAAGCATAATTTAGCTGGTACCAAATGA-A
1 ATTTAAGCCTAGTTTAGTTGGCACCTAATAAGA
* * * *
16833123 AGTTAAGTCC-ACTTTAGCTGGCACCTAACGAA-A
1 ATTTAAG-CCTAGTTTAGTTGGCACCTAA-TAAGA
* * * * *
16833156 TTTTAAGCCCAGTTTAGCTAGCA-CTCAATGCA-A
1 ATTTAAGCCTAGTTTAGTTGGCACCT-AAT-AAGA
* * *
16833189 ATTGAAGCCCAATTTAGTTGGCACC-AATGAA-A
1 ATTTAAGCCTAGTTTAGTTGGCACCTAAT-AAGA
* *
16833221 ATTTAAG-CTCAGTTTAGCTGGCACCCAATGAA-A
1 ATTTAAGCCT-AGTTTAGTTGGCACCTAAT-AAGA
16833254 ATTTAA
1 ATTTAA
16833260 ATCTAGATTA
Statistics
Matches: 209, Mismatches: 45, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
31 1 0.00
32 104 0.50
33 103 0.49
34 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (33 bp):
ATTTAAGCCTAGTTTAGTTGGCACCTAATAAGA
Found at i:16833052 original size:65 final size:65
Alignment explanation
Indices: 16832956--16833256 Score: 187
Period size: 65 Copynumber: 4.6 Consensus size: 65
16832946 AGCACTCATG
* * * * * * * ***
16832956 TAAATATTTAAGCCTAGTTTAGCTAGCACCTAAT-AAGAATTAAGCCTAGTTTAGTTGGCACCCT
1 TAAAAATTTAAGCATAATTTAGCTGGTACCTAATGAA-AATTAAGCCCAGTTCAGTTGGCACAAA
16833020 A
65 A
* * * * *
16833021 TAAGAATTTAAGCCTAATTTTGTTGGTACCTAATGAAATTTAAGCCCAGTTCAGTTGGCACAAAA
1 TAAAAATTTAAGCATAATTTAGCTGGTACCTAATGAAAATTAAGCCCAGTTCAGTTGGCACAAAA
* * * * * * **
16833086 TAAAAATTTAAGCATAATTTAGCTGGTACCAAATGAAAGTTAAGTCCACTTTAGCTGGCACCTAA
1 TAAAAATTTAAGCATAATTTAGCTGGTACCTAATGAAAATTAAGCCCAGTTCAGTTGGCACAAAA
** * ** * * * * * * *
16833151 CGAAATTTTAAGCCCAGTTTAGCTAGCA-CTCAATGCAAATTGAAGCCCAATTTAGTTGGCAC-C
1 TAAAAATTTAAGCATAATTTAGCTGGTACCT-AATGAAAATT-AAGCCCAGTTCAGTTGGCACAA
16833214 AA
64 AA
* * * *
16833216 TGAAAATTTAAGC-TCAGTTTAGCTGGCACCCAATGAAAATT
1 TAAAAATTTAAGCAT-AATTTAGCTGGTACCTAATGAAAATT
16833257 TAAATCTAGA
Statistics
Matches: 185, Mismatches: 46, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
64 1 0.01
65 164 0.89
66 20 0.11
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (65 bp):
TAAAAATTTAAGCATAATTTAGCTGGTACCTAATGAAAATTAAGCCCAGTTCAGTTGGCACAAAA
Found at i:16833066 original size:32 final size:32
Alignment explanation
Indices: 16832961--16833291 Score: 179
Period size: 33 Copynumber: 10.2 Consensus size: 32
16832951 TCATGTAAAT
* * *
16832961 ATTTAAGCCTAGTTTAGCTAGCACCTAAT-AA
1 ATTTAAGCCTAATTTAGCTGGCACCAAATGAA
* * * ** *
16832992 GAATTAAGCCTAGTTTAGTTGGCACCCTATAAGA
1 -ATTTAAGCCTAATTTAGCTGGCACCAAATGA-A
* * * *
16833026 ATTTAAGCCTAATTTTGTTGGTACCTAATGAA
1 ATTTAAGCCTAATTTAGCTGGCACCAAATGAA
* * * * * *
16833058 ATTTAAGCCCAGTTCAGTTGGCACAAAATAAAA
1 ATTTAAGCCTAATTTAGCTGGCACCAAAT-GAA
* *
16833091 ATTTAAGCATAATTTAGCTGGTACCAAATGAA
1 ATTTAAGCCTAATTTAGCTGGCACCAAATGAA
* * * *
16833123 AGTTAAGTCC-ACTTTAGCTGGCACCTAACGAA
1 ATTTAAG-CCTAATTTAGCTGGCACCAAATGAA
* * *
16833155 ATTTTAAGCCCAGTTTAGCTAGCACTC-AATGCAA
1 A-TTTAAGCCTAATTTAGCTGGCAC-CAAATG-AA
* * *
16833189 ATTGAAGCCCAATTTAGTTGGCACC-AATGAAA
1 ATTTAAGCCTAATTTAGCTGGCACCAAATG-AA
* *
16833221 ATTTAAG-CTCAGTTTAGCTGGCACCCAATGAAA
1 ATTTAAGCCT-AATTTAGCTGGCACCAAATG-AA
** * *
16833254 ATTTAAATCTAGA-TTAGCTAGCACCCAATGAAA
1 ATTTAAGCCTA-ATTTAGCTGGCACCAAATG-AA
16833287 ATTTA
1 ATTTA
16833292 TGCTCAGATT
Statistics
Matches: 237, Mismatches: 50, Indels: 23
0.76 0.16 0.07
Matches are distributed among these distances:
31 1 0.00
32 102 0.43
33 127 0.54
34 7 0.03
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (32 bp):
ATTTAAGCCTAATTTAGCTGGCACCAAATGAA
Found at i:16833191 original size:98 final size:97
Alignment explanation
Indices: 16833048--16833309 Score: 251
Period size: 98 Copynumber: 2.7 Consensus size: 97
16833038 TTTTGTTGGT
* * * * * * *
16833048 ACCTAATGAAATTTAAGCCCAGTTCAGTTGGCACAAAATAAAAATTTAAGCATAATTTAGCTGGT
1 ACCTAATGAAATTTAAGCCCAGTTTAGCTAGCACACAATGAAAATTTAAGCACAATTTAGCTGGC
16833113 ACCAAATG-AAAGTTAAG-TCCACTTTAGCTGGC
66 ACC-AATGAAAAGTTAAGCT-CACTTTAGCTGGC
* * * * * *
16833145 ACCTAACGAAATTTTAAGCCCAGTTTAGCTAGCACTCAATGCAAATTGAAGCCCAATTTAGTTGG
1 ACCTAATGAAA-TTTAAGCCCAGTTTAGCTAGCACACAATGAAAATTTAAGCACAATTTAGCTGG
* *
16833210 CACCAATGAAAATTTAAGCTCAGTTTAGCTGGC
65 CACCAATGAAAAGTTAAGCTCACTTTAGCTGGC
* ** * * * * *
16833243 ACCCAATGAAAATTTAAATCTAGATTAGCTAGCACCCAATGAAAATTTATGCTCAGA-TTAGCTG
1 ACCTAATG-AAATTTAAGCCCAGTTTAGCTAGCACACAATGAAAATTTAAGCACA-ATTTAGCTG
16833307 GCA
64 GCA
16833310 TTCAATGCAA
Statistics
Matches: 133, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
97 14 0.11
98 114 0.86
99 5 0.04
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (97 bp):
ACCTAATGAAATTTAAGCCCAGTTTAGCTAGCACACAATGAAAATTTAAGCACAATTTAGCTGGC
ACCAATGAAAAGTTAAGCTCACTTTAGCTGGC
Found at i:16833271 original size:33 final size:33
Alignment explanation
Indices: 16833136--16833324 Score: 152
Period size: 33 Copynumber: 5.8 Consensus size: 33
16833126 TAAGTCCACT
* * * * * *
16833136 TTAGCTGGCACCTAACGAAATTTTAAGCCCAGT
1 TTAGCTGGCACCCAATGAAAATTTAATCTCAGA
* * * * * *
16833169 TTAGCTAGCACTCAATGCAAATTGAAGCCCA-A
1 TTAGCTGGCACCCAATGAAAATTTAATCTCAGA
* * *
16833201 TTTAGTTGGCA-CCAATGAAAATTTAAGCTCAGT
1 -TTAGCTGGCACCCAATGAAAATTTAATCTCAGA
16833234 TTAGCTGGCACCCAATGAAAATTTAAATCT-AGA
1 TTAGCTGGCACCCAATGAAAATTT-AATCTCAGA
*
16833267 TTAGCTAGCACCCAATGAAAATTT-ATGCTCAGA
1 TTAGCTGGCACCCAATGAAAATTTAAT-CTCAGA
** *
16833300 TTAGCTGGCATTCAATGCAAATTTA
1 TTAGCTGGCACCCAATGAAAATTTA
16833325 GGCCTAGTTT
Statistics
Matches: 126, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
31 2 0.02
32 27 0.21
33 93 0.74
34 4 0.03
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (33 bp):
TTAGCTGGCACCCAATGAAAATTTAATCTCAGA
Found at i:16833341 original size:66 final size:66
Alignment explanation
Indices: 16833212--16833343 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 66
16833202 TTAGTTGGCA
* * *
16833212 CCAATGAAAATTTAAGCTCAGTTTAGCTGGCACCCAATGAAAATTTAAATCTAGATTAGCTAGCA
1 CCAATGAAAATTTAAGCTCAGATTAGCTGGCACCCAATGAAAATTTAAACCTAGATTAACTAGCA
16833277 C
66 C
* ** * ** *
16833278 CCAATGAAAATTTATGCTCAGATTAGCTGGCATTCAATGCAAATTTAGGCCTAGTTTAACTAGCA
1 CCAATGAAAATTTAAGCTCAGATTAGCTGGCACCCAATGAAAATTTAAACCTAGATTAACTAGCA
16833343 C
66 C
16833344 ACAAGCGTAG
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (66 bp):
CCAATGAAAATTTAAGCTCAGATTAGCTGGCACCCAATGAAAATTTAAACCTAGATTAACTAGCA
C
Found at i:16833413 original size:21 final size:21
Alignment explanation
Indices: 16833377--16833432 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
16833367 TATAAAAATT
* *
16833377 TAAGCCTAATTTAGTTGGCACA
1 TAAGCCTGA-TTAGTTGACACA
*
16833399 TAAGCCTGATTAGTTGACATA
1 TAAGCCTGATTAGTTGACACA
16833420 TAAGCCTGATTAG
1 TAAGCCTGATTAG
16833433 CTAGCATGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 23 0.74
22 8 0.26
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (21 bp):
TAAGCCTGATTAGTTGACACA
Found at i:16833628 original size:20 final size:21
Alignment explanation
Indices: 16833603--16833644 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
16833593 AGGAAAAGGC
16833603 AAACAA-AAAA-AAAGAAAAAA
1 AAACAACAAAACAAA-AAAAAA
16833623 AAACAACAAAACAAAAAAAAA
1 AAACAACAAAACAAAAAAAAA
16833644 A
1 A
16833645 TTAAGAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 11 0.55
22 3 0.15
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (21 bp):
AAACAACAAAACAAAAAAAAA
Found at i:16835899 original size:3 final size:3
Alignment explanation
Indices: 16835893--16835924 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
16835883 CATCATCATC
16835893 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
16835925 CATGTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:16835947 original size:16 final size:17
Alignment explanation
Indices: 16835926--16835957 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16835916 TATTATTATC
16835926 ATGTTT-ATTTTGATTT
1 ATGTTTAATTTTGATTT
16835942 ATGTTTAATTTTGATT
1 ATGTTTAATTTTGATT
16835958 ATTTAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (17 bp):
ATGTTTAATTTTGATTT
Found at i:16836242 original size:26 final size:26
Alignment explanation
Indices: 16836187--16836253 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
16836177 GGAAATTATT
*
16836187 AAATAATAAAAAATTAATAAGTAAAT
1 AAATAATAAAAAATTAATAAGTAAAA
* **
16836213 AAATAATAATAAATTTTTAA-TGAAAA
1 AAATAATAAAAAATTAATAAGT-AAAA
16836239 AAATACATAAAAAAT
1 AAATA-ATAAAAAAT
16836254 ATAAAATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.03
26 25 0.74
27 8 0.24
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (26 bp):
AAATAATAAAAAATTAATAAGTAAAA
Found at i:16836550 original size:19 final size:19
Alignment explanation
Indices: 16836518--16836557 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
16836508 TTATTAAATC
*
16836518 TAAAAATAATAAAACTAAA
1 TAAAAATAATAAAACAAAA
16836537 TAAAGAATAA-AAAACAAAA
1 TAAA-AATAATAAAACAAAA
16836556 TA
1 TA
16836558 GGATCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (19 bp):
TAAAAATAATAAAACAAAA
Found at i:16839416 original size:155 final size:155
Alignment explanation
Indices: 16839129--16839419 Score: 467
Period size: 155 Copynumber: 1.9 Consensus size: 155
16839119 CCAAAAAAAG
* *
16839129 CAATCTGGGTCATAAAGGGAAATACATAAGTTGCAAACTCGAAAGAATAGCTTAGGTATAAGAAG
1 CAATCTGGGTCATAAAGGGAAATACATAAGTTGCAAACTCAAAAGAATAGCTTAGGTATAAGAAA
*
16839194 AAAATCAAGGAAATGATCAAGTCATAAATTTGAAATATAGAGATACAAAGAAACAACTTGTTCAA
66 AAAATCAAGGAAATGATCAAGCCATAAATTTGAAATATAGAGATACAAAGAAACAACTTGTTCAA
16839259 TTTGAATGAGGAAAAGACAGGTCAT
131 TTTGAATGAGGAAAAGACAGGTCAT
* *
16839284 CAATTTGGGTCATAAAGGGAAATACGTAAGTTGCAAACTCAAAAGAATAGCTTAGGTATAAGAAA
1 CAATCTGGGTCATAAAGGGAAATACATAAGTTGCAAACTCAAAAGAATAGCTTAGGTATAAGAAA
* * * * **
16839349 AAAATTAGGGAAATGATCAAGCCATAAATTTGAAATGTGGAGATACGGAGAAACAACATT-TTCA
66 AAAATCAAGGAAATGATCAAGCCATAAATTTGAAATATAGAGATACAAAGAAACAAC-TTGTTCA
16839413 ATTTGAA
130 ATTTGAA
16839420 GAAAGGAAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
155 122 0.98
156 2 0.02
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (155 bp):
CAATCTGGGTCATAAAGGGAAATACATAAGTTGCAAACTCAAAAGAATAGCTTAGGTATAAGAAA
AAAATCAAGGAAATGATCAAGCCATAAATTTGAAATATAGAGATACAAAGAAACAACTTGTTCAA
TTTGAATGAGGAAAAGACAGGTCAT
Found at i:16841143 original size:16 final size:16
Alignment explanation
Indices: 16841103--16841145 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
16841093 ATAAAATAGG
16841103 TGGAAAAATGAATGAA
1 TGGAAAAATGAATGAA
* *
16841119 TGAAAAAATGAATGCA
1 TGGAAAAATGAATGAA
*
16841135 TGGAGAAATGA
1 TGGAAAAATGA
16841146 TGATGAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.26, T:0.19
Consensus pattern (16 bp):
TGGAAAAATGAATGAA
Found at i:16841624 original size:49 final size:49
Alignment explanation
Indices: 16841566--16841891 Score: 268
Period size: 49 Copynumber: 6.6 Consensus size: 49
16841556 CACAACTAAA
* *
16841566 TTTTCAAAAATAAGATTTTTAAAGTTTCCAAGCCTCTTTTTAGATAAGC
1 TTTTAAAAAATAAGATTTTTAAAGTTTCCAAGCCTCTTTTTAGAGAAGC
* * * * * * *
16841615 TTATAAAAAATGAGATTTCTAAAGTTTTCAAGCCTTTTTTTACAGAAAC
1 TTTTAAAAAATAAGATTTTTAAAGTTTCCAAGCCTCTTTTTAGAGAAGC
* * *
16841664 TTTTTTAAAAAATGAGATTTTTAAAGTTTCCAAGTCT-TTTTTAGA-ATAGG
1 --TTTTAAAAAATAAGATTTTTAAAGTTTCCAAGCCTCTTTTTAGAGA-AGC
* * * * *
16841714 TTTTTAAAAATGAGATTTTTAAAATTTCCAAGCCTCTTTTTGGAGGAGC
1 TTTTAAAAAATAAGATTTTTAAAGTTTCCAAGCCTCTTTTTAGAGAAGC
* * * ***
16841763 TCTTTGAAAAATGAA-ATTTTTTAAGTTACCAAGCCTCTTTTTAGATTTGC
1 T-TTTAAAAAAT-AAGATTTTTAAAGTTTCCAAGCCTCTTTTTAGAGAAGC
* * * * *
16841813 TTTTCAAAAATAATATTTTTAAAGTTT-CATAGCCTCTATTTATAGGAG-
1 TTTTAAAAAATAAGATTTTTAAAGTTTCCA-AGCCTCTTTTTAGAGAAGC
** *
16841861 TTTTTCAAAATCAAGA-TCTTAAAGTTTCCAA
1 TTTTAAAAAAT-AAGATTTTTAAAGTTTCCAA
16841892 AATCTCTAAA
Statistics
Matches: 223, Mismatches: 43, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
48 56 0.25
49 89 0.40
50 46 0.21
51 32 0.14
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (49 bp):
TTTTAAAAAATAAGATTTTTAAAGTTTCCAAGCCTCTTTTTAGAGAAGC
Found at i:16841860 original size:99 final size:99
Alignment explanation
Indices: 16841571--16841860 Score: 307
Period size: 99 Copynumber: 2.9 Consensus size: 99
16841561 CTAAATTTTC
* * *
16841571 AAAAAT-AAGATTTTTAAAGTTTCCAAGCCTCTTTTTAGATAAGCTTATAAAAAATGAGATTTCT
1 AAAAATGAA-ATTTTTAAAGTTTCCAAGCCTCTTTTTAGATTAGCTTTTAAAAAATGAGATTTTT
* * * *
16841635 AAAGTTTTCAAGCCTTTTTTTACAGAAACTTTTTTA
65 AAAG-TTTCAAGCCTCTTTTTACAGGAGCTTCTTTA
* * * * *
16841671 AAAAATGAGATTTTTAAAGTTTCCAAGTCT-TTTTTAGAATAGGTTTTTAAAAATGAGATTTTTA
1 AAAAATGAAATTTTTAAAGTTTCCAAGCCTCTTTTTAGATTAGCTTTTAAAAAATGAGATTTTTA
* ** *
16841735 AAATTTCCAAGCCTCTTTTTGGAGGAGC-TCTTTG
66 AAGTTT-CAAGCCTCTTTTTACAGGAGCTTCTTTA
* * * * * *
16841769 AAAAATGAAATTTTTTAAGTTACCAAGCCTCTTTTTAGATTTGCTTTTCAAAAATAATATTTTTA
1 AAAAATGAAATTTTTAAAGTTTCCAAGCCTCTTTTTAGATTAGCTTTTAAAAAATGAGATTTTTA
* *
16841834 AAGTTTCATAGCCTCTATTTATAGGAG
66 AAGTTTCA-AGCCTCTTTTTACAGGAG
16841861 TTTTTCAAAA
Statistics
Matches: 156, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
98 35 0.22
99 94 0.60
100 26 0.17
101 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (99 bp):
AAAAATGAAATTTTTAAAGTTTCCAAGCCTCTTTTTAGATTAGCTTTTAAAAAATGAGATTTTTA
AAGTTTCAAGCCTCTTTTTACAGGAGCTTCTTTA
Found at i:16843639 original size:50 final size:50
Alignment explanation
Indices: 16843564--16843662 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
16843554 TATGGTATTT
*
16843564 GCATGCTTGTTGATTGCTTTTATGGATTACATGATGTGTTTGGTTGTTAG
1 GCATGCTTGTTGATTGCTTTTATGGATTACATGATGTATTTGGTTGTTAG
*
16843614 GCATGTTTGTTGATTGCTTTTATGGATTACATGATGTATTTGGTTGTTA
1 GCATGCTTGTTGATTGCTTTTATGGATTACATGATGTATTTGGTTGTTA
16843663 TACATAATGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.17, C:0.07, G:0.26, T:0.49
Consensus pattern (50 bp):
GCATGCTTGTTGATTGCTTTTATGGATTACATGATGTATTTGGTTGTTAG
Found at i:16852744 original size:40 final size:40
Alignment explanation
Indices: 16852692--16852779 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
16852682 ATTTTTATCA
*
16852692 TTAGTGGCGTTTTATTTTATAAACACCTTTAAATATAGAT
1 TTAGTGGCGTTTTATTTTATAAACACCATTAAATATAGAT
*
16852732 TTAGTGGTGTTTTATTTTATAAACACCATTAAATATAGAT
1 TTAGTGGCGTTTTATTTTATAAACACCATTAAATATAGAT
16852772 TTAGTGGC
1 TTAGTGGC
16852780 CTTTGCAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (40 bp):
TTAGTGGCGTTTTATTTTATAAACACCATTAAATATAGAT
Found at i:16866072 original size:22 final size:23
Alignment explanation
Indices: 16866019--16866067 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
16866009 AATTTTTATG
* *
16866019 TTAAAAAATAAAAAATAATAATT
1 TTAAAATATAAAAAATAAGAATT
*
16866042 TTAAAATATAAAAAGTAAGAATT
1 TTAAAATATAAAAAATAAGAATT
16866065 TTA
1 TTA
16866068 GATATTCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
TTAAAATATAAAAAATAAGAATT
Found at i:16866174 original size:19 final size:19
Alignment explanation
Indices: 16866152--16866203 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
16866142 TTTGGTATTA
16866152 AAAATTAAAATTTTTTTAT
1 AAAATTAAAATTTTTTTAT
16866171 AAAATTAAAATTTTTTTAT
1 AAAATTAAAATTTTTTTAT
16866190 AAAATTAAAATTTT
1 AAAATTAAAATTTT
16866204 ATGATTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAATTAAAATTTTTTTAT
Found at i:16866268 original size:23 final size:22
Alignment explanation
Indices: 16866231--16866283 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
16866221 AAAAATCATT
16866231 AAAA-ATAAATTTTAAATATAA
1 AAAATATAAATTTTAAATATAA
16866252 AAAATATATAATTTTAAATATAA
1 AAAATATA-AATTTTAAATATAA
*
16866275 GAAAT-TAAA
1 AAAATATAAA
16866284 AAAAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 6 0.21
22 5 0.17
23 18 0.62
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAATATAAATTTTAAATATAA
Found at i:16866883 original size:24 final size:24
Alignment explanation
Indices: 16866845--16866905 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
16866835 TTATTAAAAT
*
16866845 TTTTTTCAATCATAATTATAATAAA
1 TTTTTT-AATTATAATTATAATAAA
16866870 TTTTTTAATTATAATTATAATAAA
1 TTTTTTAATTATAATTATAATAAA
16866894 TTTTATT-ATTAT
1 TTTT-TTAATTAT
16866906 TTTTAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 26 0.76
25 8 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTTTAATTATAATTATAATAAA
Found at i:16868035 original size:2 final size:2
Alignment explanation
Indices: 16868028--16868055 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16868018 TCCTCTTTCC
16868028 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
16868056 GTGATGCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:16871660 original size:48 final size:48
Alignment explanation
Indices: 16871605--16871767 Score: 182
Period size: 52 Copynumber: 3.2 Consensus size: 48
16871595 ATAATATCAT
16871605 TTATTAATGAACAAATATTAATTTTTAAAATAAATAAACAAAAATTTA
1 TTATTAATGAACAAATATTAATTTTTAAAATAAATAAACAAAAATTTA
* ** * ** * *
16871653 TTATTAATGAAGTAAGATAATTTAATTAATAAAATAATATCATATGATAATGTCA
1 TTATTAATGAA-CAA-AT-A-TTAATTTTTAAAATAA-AT-AAACAAAAAT-TTA
16871708 TTTATTAATGAACAAATATTAATTTTTAAAATAAATAAACAAAAATTTA
1 -TTATTAATGAACAAATATTAATTTTTAAAATAAATAAACAAAAATTTA
16871757 TTATTAATGAA
1 TTATTAATGAA
16871768 GTAACATAAT
Statistics
Matches: 91, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
48 22 0.24
49 4 0.04
50 8 0.09
51 3 0.03
52 28 0.31
53 3 0.03
54 8 0.09
55 4 0.04
56 11 0.12
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.39
Consensus pattern (48 bp):
TTATTAATGAACAAATATTAATTTTTAAAATAAATAAACAAAAATTTA
Found at i:16871687 original size:52 final size:51
Alignment explanation
Indices: 16871605--16871786 Score: 169
Period size: 52 Copynumber: 3.6 Consensus size: 51
16871595 ATAATATCAT
* **
16871605 TTATTAATGAA-CAAAT-A-TTAATTTTTAAAATAAATAAACAAAAATTTA
1 TTATTAATGAAGTAAATAATTTAATTAATAAAATAAATAAACAAAAATTTA
* ** * *
16871653 TTATTAATGAAGTAAGATAATTTAATTAATAAAATAATATCATATGATAATGTCA
1 TTATTAATGAAGTAA-ATAATTTAATTAATAAAATAA-AT-AAACAAAAAT-TTA
* **
16871708 TTTATTAATGAA-CAAAT-A-TTAATTTTTAAAATAAATAAACAAAAATTTA
1 -TTATTAATGAAGTAAATAATTTAATTAATAAAATAAATAAACAAAAATTTA
16871757 TTATTAATGAAGTAACATAATTTAATTAAT
1 TTATTAATGAAGTAA-ATAATTTAATTAAT
16871787 TTTATTAATA
Statistics
Matches: 103, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
48 22 0.21
49 6 0.06
50 10 0.10
51 4 0.04
52 35 0.34
53 3 0.03
54 8 0.08
55 4 0.04
56 11 0.11
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (51 bp):
TTATTAATGAAGTAAATAATTTAATTAATAAAATAAATAAACAAAAATTTA
Found at i:16871724 original size:104 final size:104
Alignment explanation
Indices: 16871595--16871786 Score: 366
Period size: 104 Copynumber: 1.8 Consensus size: 104
16871585 GGTGAATCTA
16871595 ATAATATCATTTATTAATGAACAAATATTAATTTTTAAAATAAATAAACAAAAATTTATTATTAA
1 ATAATATCATTTATTAATGAACAAATATTAATTTTTAAAATAAATAAACAAAAATTTATTATTAA
*
16871660 TGAAGTAAGATAATTTAATTAATAAAATAATATCATATG
66 TGAAGTAACATAATTTAATTAATAAAATAATATCATATG
*
16871699 ATAATGTCATTTATTAATGAACAAATATTAATTTTTAAAATAAATAAACAAAAATTTATTATTAA
1 ATAATATCATTTATTAATGAACAAATATTAATTTTTAAAATAAATAAACAAAAATTTATTATTAA
16871764 TGAAGTAACATAATTTAATTAAT
66 TGAAGTAACATAATTTAATTAAT
16871787 TTTATTAATA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 86 1.00
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (104 bp):
ATAATATCATTTATTAATGAACAAATATTAATTTTTAAAATAAATAAACAAAAATTTATTATTAA
TGAAGTAACATAATTTAATTAATAAAATAATATCATATG
Found at i:16875843 original size:18 final size:17
Alignment explanation
Indices: 16875822--16875872 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
16875812 TTTTTTTTAA
*
16875822 AAATTATATTTTAAATAT
1 AAATTAAATTTTAAA-AT
16875840 AAATTTAAATTTTATAAAT
1 AAA-TTAAATTTTA-AAAT
*
16875859 AAATCAAATTTTAA
1 AAATTAAATTTTAA
16875873 TTAGAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 1 0.03
18 12 0.41
19 14 0.48
20 2 0.07
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTAAATTTTAAAAT
Found at i:16875944 original size:14 final size:16
Alignment explanation
Indices: 16875919--16875951 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
16875909 ACTCTTTAAT
16875919 AAATCTTATAAAA-TC
1 AAATCTTATAAAATTC
16875934 AAATC-TATAAAATTC
1 AAATCTTATAAAATTC
16875949 AAA
1 AAA
16875952 ACTCAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATCTTATAAAATTC
Found at i:16876703 original size:18 final size:18
Alignment explanation
Indices: 16876680--16876716 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
16876670 AGTGTTTTTC
16876680 CTTTTTTAAAACCAAGAT
1 CTTTTTTAAAACCAAGAT
16876698 CTTTTTTAAAACCAAGAT
1 CTTTTTTAAAACCAAGAT
16876716 C
1 C
16876717 GGGTTGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (18 bp):
CTTTTTTAAAACCAAGAT
Found at i:16877509 original size:18 final size:18
Alignment explanation
Indices: 16877468--16877514 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
16877458 CCGTTGGTAA
*
16877468 CCTTTTGTTTTTATTTTT
1 CCTTTTGTTTTTACTTTT
** *
16877486 AGTTTTGTTTTTCCTTTT
1 CCTTTTGTTTTTACTTTT
16877504 CCTTTT-TTTTT
1 CCTTTTGTTTTT
16877515 TTATTTTTGC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.04, C:0.13, G:0.06, T:0.77
Consensus pattern (18 bp):
CCTTTTGTTTTTACTTTT
Found at i:16877516 original size:25 final size:27
Alignment explanation
Indices: 16877488--16877537 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
16877478 TTATTTTTAG
*
16877488 TTTTGTTTTTCCTTT-T-CCTTTTTTT
1 TTTTATTTTTCCTTTATGCCTTTTTTT
*
16877513 TTTTATTTTTGCTTTATGCCTTTTT
1 TTTTATTTTTCCTTTATGCCTTTTT
16877538 ATTAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.62
26 1 0.05
27 7 0.33
ACGTcount: A:0.04, C:0.14, G:0.06, T:0.76
Consensus pattern (27 bp):
TTTTATTTTTCCTTTATGCCTTTTTTT
Found at i:16877890 original size:14 final size:13
Alignment explanation
Indices: 16877842--16877891 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
16877832 TATAAAAGTA
16877842 TATATTT-TATTAT
1 TATATTTATATT-T
16877855 TA-ATTTA-ATTT
1 TATATTTATATTT
16877866 TATATTTATATTT
1 TATATTTATATTT
*
16877879 TATGTATTATATT
1 TATAT-TTATATT
16877892 AATAAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
11 3 0.09
12 12 0.38
13 10 0.31
14 7 0.22
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (13 bp):
TATATTTATATTT
Found at i:16878745 original size:27 final size:27
Alignment explanation
Indices: 16878715--16878767 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
16878705 TCAACACTCA
*
16878715 TTTCTATTTAT-ATTTTTTCTTTTTCTG
1 TTTCTATTTATCA-TTATTCTTTTTCTG
*
16878742 TTTCTATTTTTCATTATTCTTTTTCT
1 TTTCTATTTATCATTATTCTTTTTCT
16878768 ACTCCCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.11, C:0.13, G:0.02, T:0.74
Consensus pattern (27 bp):
TTTCTATTTATCATTATTCTTTTTCTG
Found at i:16878761 original size:21 final size:20
Alignment explanation
Indices: 16878728--16878768 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
16878718 CTATTTATAT
*
16878728 TTTTTCTTTTTCTGTTTCTA
1 TTTTTCTTATTCTGTTTCTA
*
16878748 TTTTTCATTATTCTTTTTCTA
1 TTTTTC-TTATTCTGTTTCTA
16878769 CTCCCTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.15, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTCTTATTCTGTTTCTA
Found at i:16882493 original size:20 final size:19
Alignment explanation
Indices: 16882448--16882494 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
16882438 AAAAACATCA
*
16882448 GAGAAAAAAAATAAGAAAT
1 GAGAAAAAAAATAACAAAT
*
16882467 GAAAAAAAAAACTAACAAACT
1 GAGAAAAAAAA-TAACAAA-T
16882488 -AGAAAAA
1 GAGAAAAA
16882495 GGCTCTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 10 0.43
20 12 0.52
21 1 0.04
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (19 bp):
GAGAAAAAAAATAACAAAT
Found at i:16892284 original size:58 final size:56
Alignment explanation
Indices: 16892096--16892632 Score: 567
Period size: 58 Copynumber: 9.2 Consensus size: 56
16892086 AACATTAAAA
* * * *
16892096 ATTTTCTAAGAAAAATTGATACTTTCAACTCTTCCTTAAACAAACATTTCTTGAAAGTTTT
1 ATTTTC-AAGAAAAATTGATACTTTCAACTTTTCC-T-CA-AAATATTTTTTGAAA-TTTT
* * *
16892157 ATTTTTAAGAAAAATTGATACTCTT-AACTTTTTCTCAAAATATTTTCTTTGGAATTTTT
1 ATTTTCAAGAAAAATTGATACT-TTCAACTTTTCCTCAAAATA-TTT-TTT-GAAATTTT
* *
16892216 ATTTTCAAGAAAAATTGATACTTTGAACTTTTCCTCAAAAGTACTTTTTGAAATTTAT
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAA-TATTTTTTGAAATTT-T
* * * ** *
16892274 ATTTTTAAGAAAAAATGAAACTTTCAACTTTTTGTCAAAATATTTTTTTAAAGGTTTT
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTGAAA--TTTT
* *
16892332 ATTTTCAAGAAAAATTGATACTCTCAACTTTTTCTCAAAATATTTTATTGAAATATTT
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTT-TTGAAAT-TTT
* * *
16892390 ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATTACTTTTTGAAATCTTT
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAA-TATTTTTTGAAAT-TTT
*
16892448 ATTTTCAAGTAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTGAAATTTTT
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATA-TTTTTTGAAA-TTTT
* *
16892506 ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCACAGAAATACCTTTTTTGAAATATTT
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCA-AAATA--TTTTTTGAAAT-TTT
* * * * *
16892566 ATTTTTAA-AGAAAATTTATACTTGCAACTCTTCCTCAAAAATATTTTTTAAAAATTTT
1 ATTTTCAAGA-AAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTT-GAAATTTT
16892624 ATTTT-AAGA
1 ATTTTCAAGA
16892633 GAACCGTTGA
Statistics
Matches: 411, Mismatches: 44, Indels: 45
0.82 0.09 0.09
Matches are distributed among these distances:
57 25 0.06
58 235 0.57
59 68 0.17
60 75 0.18
61 8 0.02
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (56 bp):
ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTGAAATTTT
Found at i:16892443 original size:174 final size:172
Alignment explanation
Indices: 16892096--16892632 Score: 637
Period size: 174 Copynumber: 3.1 Consensus size: 172
16892086 AACATTAAAA
* * * * * * *
16892096 ATTTTCTAAGAAAAATTGATACTTTCAACTCTTCCTTAAACAAACATTTCTTGAAAGTTTTATTT
1 ATTTT-TAAGAAAAAATGAAACTTTCAACTTTTCCTCAAA-ATA-TTTTTTTGAAAGTTTTATTT
* * * * *
16892161 TTAAGAAAAATTGATACTCTTAACTTTTTCTCAAAATATTTTCTTTGGAATTTTTATTTTCAAGA
63 TCAAGAAAAATTGATACTCTCAACTTTTTCTCAAAATA-TTT-TTTGAAATATTTATTTTCAAGG
* *
16892226 AAAATTGATACTTTGAACTTTTCCTCAAAAGTACTTTTTGAAATTTAT
126 AAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTGAAATTT-T
**
16892274 ATTTTTAAGAAAAAATGAAACTTTCAACTTTTTGTCAAAATATTTTTTT-AAAGGTTTTATTTTC
1 ATTTTTAAGAAAAAATGAAACTTTCAACTTTTCCTCAAAATATTTTTTTGAAA-GTTTTATTTTC
16892338 AAGAAAAATTGATACTCTCAACTTTTTCTCAAAATATTTTATTGAAATATTTATTTTCAAGGAAA
65 AAGAAAAATTGATACTCTCAACTTTTTCTCAAAATATTTT-TTGAAATATTTATTTTCAAGGAAA
* *
16892403 ATTGATACTTTCAACTTTTCCTTAAAATTACTTTTTGAAATCTTT
129 ATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTGAAAT-TTT
* * * * *
16892448 ATTTTCAAGTAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTGAAATTTTTATTTTCA
1 ATTTTTAAGAAAAAATGAAACTTTCAACTTTTCCTCAAAATATTTTTTTGAAAGTTTTATTTTCA
* * * * * *
16892513 AGGAAAATTGATACTTTCAACTTTTCCACAGAAATACCTTTTTTGAAATATTTATTTTTAAAGAA
66 AGAAAAATTGATACTCTCAACTTTTTCTCA-AAATA--TTTTTTGAAATATTTATTTTCAAGGAA
* * * * *
16892578 AATTTATACTTGCAACTCTTCCTCAAAAATATTTTTTAAAAATTTT
128 AATTGATACTTTCAACTTTTCCTCAAAAATACTTTTT-GAAATTTT
16892624 A-TTTTAAGA
1 ATTTTTAAGA
16892633 GAACCGTTGA
Statistics
Matches: 312, Mismatches: 39, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
173 1 0.00
174 146 0.47
175 66 0.21
176 58 0.19
177 36 0.12
178 5 0.02
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (172 bp):
ATTTTTAAGAAAAAATGAAACTTTCAACTTTTCCTCAAAATATTTTTTTGAAAGTTTTATTTTCA
AGAAAAATTGATACTCTCAACTTTTTCTCAAAATATTTTTTGAAATATTTATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATACTTTTTGAAATTTT
Found at i:16892702 original size:4 final size:4
Alignment explanation
Indices: 16892693--16892734 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
16892683 TAATTTAATC
16892693 AATA AATA AATA AGCATA AA-A AAT- AATA AATA AATA AATA AA
1 AATA AATA AATA A--ATA AATA AATA AATA AATA AATA AATA AA
16892735 AAAAACCTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 6 0.18
4 24 0.71
6 4 0.12
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:16892725 original size:24 final size:22
Alignment explanation
Indices: 16892693--16892737 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 22
16892683 TAATTTAATC
16892693 AATAAATAAATAAGCATAAAAAAT
1 AATAAATAAATAA--ATAAAAAAT
16892717 AATAAATAAATAAATAAAAAA
1 AATAAATAAATAAATAAAAAA
16892738 AACCTTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
24 13 0.62
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (22 bp):
AATAAATAAATAAATAAAAAAT
Found at i:16897482 original size:28 final size:27
Alignment explanation
Indices: 16897420--16897483 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
16897410 GATTTGAATT
* * * *
16897420 GTTTTATTTTTGGTGATATTTGTGTTT
1 GTTTTGTTTTTGGTGAGATTTATGTTA
* *
16897447 GTTATGTTTTTGGTGGGATTGTATGTTA
1 GTTTTGTTTTTGGTGAGATT-TATGTTA
16897475 GTTTTGTTT
1 GTTTTGTTT
16897484 ATTTTGATGA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.11, C:0.00, G:0.27, T:0.62
Consensus pattern (27 bp):
GTTTTGTTTTTGGTGAGATTTATGTTA
Found at i:16902652 original size:16 final size:16
Alignment explanation
Indices: 16902633--16902722 Score: 85
Period size: 16 Copynumber: 5.6 Consensus size: 16
16902623 AGTAACTTGA
16902633 AAAATTAAATAGCATG
1 AAAATTAAATAGCATG
*
16902649 AAAATTAAAGAAAGCATG
1 AAAATT-AA-ATAGCATG
* *
16902667 AAAATTAAAT-GCTTT
1 AAAATTAAATAGCATG
*
16902682 AAAATTAAATTGC-TAG
1 AAAATTAAATAGCAT-G
* *
16902698 AAATTTAAATAACATG
1 AAAATTAAATAGCATG
16902714 AAAATTAAA
1 AAAATTAAA
16902723 ATACTTGGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
15 14 0.23
16 28 0.47
17 5 0.08
18 13 0.22
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.28
Consensus pattern (16 bp):
AAAATTAAATAGCATG
Found at i:16904527 original size:16 final size:16
Alignment explanation
Indices: 16904508--16904555 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
16904498 AAAAAGTGCA
16904508 AGAATTTAAAGAGCAT
1 AGAATTTAAAGAGCAT
* **
16904524 AGAAATTAAATTTGCAT
1 AGAATTTAAA-GAGCAT
16904541 A-AATTTAAAGAGCAT
1 AGAATTTAAAGAGCAT
16904556 CGAAAATAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
15 4 0.16
16 16 0.64
17 5 0.20
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (16 bp):
AGAATTTAAAGAGCAT
Found at i:16904528 original size:32 final size:32
Alignment explanation
Indices: 16904492--16904566 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
16904482 TTAAATTACA
16904492 AGAAATAAAAAGTGCA-AGAATTTAAAGAGCAT
1 AGAAATAAAAAGTGCATA-AATTTAAAGAGCAT
* **
16904524 AGAAATTAAATTTGCATAAATTTAAAGAGCAT
1 AGAAATAAAAAGTGCATAAATTTAAAGAGCAT
*
16904556 CGAAAATAAAA
1 AG-AAATAAAA
16904567 TGTTAGAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 28 0.78
33 8 0.22
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.23
Consensus pattern (32 bp):
AGAAATAAAAAGTGCATAAATTTAAAGAGCAT
Found at i:16904757 original size:40 final size:40
Alignment explanation
Indices: 16904702--16904785 Score: 141
Period size: 40 Copynumber: 2.1 Consensus size: 40
16904692 AAACATCATG
* *
16904702 AACATAAAGGCATATGAACTTGGATTTTAAAGGAAGCTTA
1 AACATAAAGCCATATGAACTTGGATTTTAAAGGAAACTTA
*
16904742 AACATAAAGCCATATGAACTTGGATTTTAGAGGAAACTTA
1 AACATAAAGCCATATGAACTTGGATTTTAAAGGAAACTTA
16904782 AACA
1 AACA
16904786 AACATCAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (40 bp):
AACATAAAGCCATATGAACTTGGATTTTAAAGGAAACTTA
Found at i:16906811 original size:17 final size:17
Alignment explanation
Indices: 16906777--16906811 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16906767 TATATAAATC
**
16906777 AAATAAAATATATGCAA
1 AAATAAAATATAAACAA
16906794 AAATAAAATATAAACAA
1 AAATAAAATATAAACAA
16906811 A
1 A
16906812 GCAAACTATA
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:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (17 bp):
AAATAAAATATAAACAA
Found at i:16908945 original size:71 final size:71
Alignment explanation
Indices: 16908829--16908965 Score: 222
Period size: 71 Copynumber: 1.9 Consensus size: 71
16908819 AGTTAAGCAA
* *
16908829 ACATTTATAAACAAATTACGTCAAAGTATGCACAAATTTCATAAGTTTGCTTTTGACATACTCTC
1 ACATTTATAAACAAATTACGTCAAAGTATGCACAAATTTCATAAGTTTACTTTTCACATACTCTC
16908894 TTTACT
66 TTTACT
* *
16908900 ACATTTATAAACAAATTATC-TTAAAGTATGCATAAATTTCATAAGTTTACTTTTCACATACTCT
1 ACATTTATAAACAAATTA-CGTCAAAGTATGCACAAATTTCATAAGTTTACTTTTCACATACTCT
16908964 CT
65 CT
16908966 CCACTAATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 60 0.98
72 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (71 bp):
ACATTTATAAACAAATTACGTCAAAGTATGCACAAATTTCATAAGTTTACTTTTCACATACTCTC
TTTACT
Found at i:16909507 original size:17 final size:17
Alignment explanation
Indices: 16909481--16909518 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
16909471 AAGAAAGGGA
16909481 ATAT-ATATATAAACAT
1 ATATAATATATAAACAT
*
16909497 ATATAATATATAAATAT
1 ATATAATATATAAACAT
16909514 ATATA
1 ATATA
16909519 TTAGGGTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATAATATATAAACAT
Found at i:16909969 original size:11 final size:11
Alignment explanation
Indices: 16909950--16910001 Score: 70
Period size: 11 Copynumber: 4.8 Consensus size: 11
16909940 AGCTCAAAAC
16909950 AAAAAATTTTG
1 AAAAAATTTTG
*
16909961 AAAACATTTTG
1 AAAAAATTTTG
16909972 -AAAAATTTTG
1 AAAAAATTTTG
* *
16909982 AAAAGATTTAG
1 AAAAAATTTTG
16909993 AAAAAATTT
1 AAAAAATTT
16910002 GCATAAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
10 9 0.26
11 26 0.74
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.35
Consensus pattern (11 bp):
AAAAAATTTTG
Found at i:16909977 original size:21 final size:21
Alignment explanation
Indices: 16909951--16910002 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
16909941 GCTCAAAACA
*
16909951 AAAAATTTTGAAAACATTTTG
1 AAAAATTTTGAAAACATTTAG
*
16909972 AAAAATTTTGAAAAGATTTAG
1 AAAAATTTTGAAAACATTTAG
*
16909993 AAAAAATTTG
1 AAAAATTTTG
16910003 CATAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.35
Consensus pattern (21 bp):
AAAAATTTTGAAAACATTTAG
Found at i:16911245 original size:138 final size:139
Alignment explanation
Indices: 16911032--16911310 Score: 454
Period size: 138 Copynumber: 2.0 Consensus size: 139
16911022 ATAAATTATG
* *
16911032 CAAGAAAGCTTTAAAAGCTGAAAGTTTAAGGCTAAGAAAGCTTAAAAGAAAACAAGAACAATAAA
1 CAAGAAAGCTTTAAAAGCTGAAAGTTTAAGGCCAAGAAAACTTAAAAGAAAACAAGAACAATAAA
* *
16911097 CCTTAAGATTAGTCTATCACCCTAACCTTTTC-CTTTTTTTAAGACCTAAAAGAAGTATTTATAG
66 CCCTAAGATTAGTCTATCACCCTAACCTTTTCTCTTTTTTTAAAACCTAAAAGAAGTATTTATAG
16911161 GTACAAGAA
131 GTACAAGAA
*
16911170 CAAGAAAGCTTTAAAAG-TCGAAAGTTTAAGGCCAAGAAAACTTAAAAGAAAACAAGAATAATAA
1 CAAGAAAGCTTTAAAAGCT-GAAAGTTTAAGGCCAAGAAAACTTAAAAGAAAACAAGAACAATAA
*
16911234 ACCCTAAGATTAGTCTATCACCCTAACCTTTTCTTTTTTTTTTTAAAACCTAAAAGAAGTATTTA
65 ACCCTAAGATTAGTCTATCACCCTAACCTTTTC--TCTTTTTTTAAAACCTAAAAGAAGTATTTA
*
16911299 TAGGTATAAGAA
128 TAGGTACAAGAA
16911311 AACCTAGAAG
Statistics
Matches: 130, Mismatches: 7, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
137 1 0.01
138 91 0.70
141 38 0.29
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (139 bp):
CAAGAAAGCTTTAAAAGCTGAAAGTTTAAGGCCAAGAAAACTTAAAAGAAAACAAGAACAATAAA
CCCTAAGATTAGTCTATCACCCTAACCTTTTCTCTTTTTTTAAAACCTAAAAGAAGTATTTATAG
GTACAAGAA
Found at i:16912181 original size:21 final size:20
Alignment explanation
Indices: 16912156--16912215 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
16912146 AATCCAGTGC
*
16912156 ATCAATAATCATCCAAGATTG
1 ATCAAGAATCAT-CAAGATTG
* *
16912177 ATCAAGAATTATCAAGATTC
1 ATCAAGAATCATCAAGATTG
* * *
16912197 TTCAAGATTCAACAAGATT
1 ATCAAGAATCATCAAGATT
16912216 CATTTTTTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 22 0.69
21 10 0.31
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (20 bp):
ATCAAGAATCATCAAGATTG
Found at i:16912182 original size:10 final size:10
Alignment explanation
Indices: 16912164--16912218 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
16912154 GCATCAATAA
16912164 TCATCCAAGAT
1 TCAT-CAAGAT
*
16912175 TGATCAAGAAT
1 TCATCAAG-AT
16912186 T-ATCAAGAT
1 TCATCAAGAT
*
16912195 TCTTCAAGAT
1 TCATCAAGAT
*
16912205 TCAACAAGAT
1 TCATCAAGAT
16912215 TCAT
1 TCAT
16912219 TTTTTTCTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
9 3 0.08
10 28 0.76
11 6 0.16
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (10 bp):
TCATCAAGAT
Found at i:16915362 original size:10 final size:10
Alignment explanation
Indices: 16915347--16915372 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
16915337 AGTTAGAAGG
16915347 TAGTTAGACT
1 TAGTTAGACT
16915357 TAGTTAGACT
1 TAGTTAGACT
16915367 TAGTTA
1 TAGTTA
16915373 ATTCGATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (10 bp):
TAGTTAGACT
Found at i:16918853 original size:25 final size:24
Alignment explanation
Indices: 16918812--16918883 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
16918802 AAAAAAATCG
*
16918812 AAAGGAAAAGAAAAAAGAAAAGAA
1 AAAGCAAAAGAAAAAAGAAAAGAA
* * **
16918836 AAAGCAAAAGTAATAAAGGAGTGAA
1 AAAGCAAAAG-AAAAAAGAAAAGAA
16918861 AAAGC-AAAGCAAAAAAAGAAAAG
1 AAAGCAAAAG--AAAAAAGAAAAG
16918884 TGGGCAAAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
24 13 0.36
25 23 0.64
ACGTcount: A:0.71, C:0.04, G:0.21, T:0.04
Consensus pattern (24 bp):
AAAGCAAAAGAAAAAAGAAAAGAA
Found at i:16922068 original size:15 final size:15
Alignment explanation
Indices: 16922041--16922081 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
16922031 GATCCAAGAG
16922041 AAGAGAG-GAAAGGA
1 AAGAGAGAGAAAGGA
*
16922055 AA-AGGAGAGAAAGGG
1 AAGA-GAGAGAAAGGA
16922070 AAGAGAGAGAAA
1 AAGAGAGAGAAA
16922082 AAAGTTAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 1 0.04
14 5 0.22
15 16 0.70
16 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (15 bp):
AAGAGAGAGAAAGGA
Found at i:16925149 original size:33 final size:33
Alignment explanation
Indices: 16925112--16925178 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
16925102 TATACTTACA
*
16925112 TACTTAACTGAAGATCATTAGGTTTTTATAGGC
1 TACTTAACTGAAGATCAGTAGGTTTTTATAGGC
* *
16925145 TACTTAACTTAAGATTAGTAGGTTTTTATAGGC
1 TACTTAACTGAAGATCAGTAGGTTTTTATAGGC
16925178 T
1 T
16925179 TGTAATGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (33 bp):
TACTTAACTGAAGATCAGTAGGTTTTTATAGGC
Found at i:16930977 original size:2 final size:2
Alignment explanation
Indices: 16930941--16930966 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16930931 TTGACGCTGA
16930941 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16930967 GAAAATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16934543 original size:16 final size:17
Alignment explanation
Indices: 16934524--16934557 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16934514 AAATTTTAAA
16934524 TTAAA-ATGAAAACACT
1 TTAAATATGAAAACACT
*
16934540 TTAAATATTAAAACACT
1 TTAAATATGAAAACACT
16934557 T
1 T
16934558 CTTTCACTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (17 bp):
TTAAATATGAAAACACT
Found at i:16937299 original size:48 final size:48
Alignment explanation
Indices: 16937154--16937334 Score: 205
Period size: 48 Copynumber: 3.9 Consensus size: 48
16937144 GAAGAACTTG
* * * *
16937154 TATAAACATA-AACAGGTGACTTTAAAAATCAATTTTGAAAATGGCTCC
1 TATAAACATAGAA-AAGTAACTTTAAAAATCATTTTTGAAAATGGCTTC
16937202 TATAAACATAGAAAA-TAACTTT-AAAATCA-TTTTGAAAATGGC-TC
1 TATAAACATAGAAAAGTAACTTTAAAAATCATTTTTGAAAATGGCTTC
** * * *
16937246 TTATAAACATAGGCAAGTAACTTGAAAAATCATTTTTGAACAGGGCTTC
1 -TATAAACATAGAAAAGTAACTTTAAAAATCATTTTTGAAAATGGCTTC
16937295 TATAAACAT-GAAAAGGTAACTTTAAAAATC-TTTTTGAAAA
1 TATAAACATAGAAAA-GTAACTTTAAAAATCATTTTTGAAAA
16937335 AGAAGGCAAG
Statistics
Matches: 114, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
44 1 0.01
45 26 0.23
46 13 0.11
47 25 0.22
48 45 0.39
49 4 0.04
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (48 bp):
TATAAACATAGAAAAGTAACTTTAAAAATCATTTTTGAAAATGGCTTC
Found at i:16937392 original size:81 final size:82
Alignment explanation
Indices: 16937256--16937415 Score: 211
Period size: 81 Copynumber: 2.0 Consensus size: 82
16937246 TTATAAACAT
* * *
16937256 AGGCAAGTAACTTGAAAAATCATTTTTGAACAGGGCTTCTATAAACATGAAAAGGTAACTTTAAA
1 AGGCAAGTAACTTGAAAAATCACTTTTAAAAAGGGCTTCTATAAACATGAAAAGGTAACTTTAAA
*
16937321 AATCTTTTTGAAAAAGA
66 AATCTTTATGAAAAAGA
* *
16937338 AGGCAAG-AGACTTTAAAAATC-CTTTTAAAAAGGGC-TCTTATAAATAT-AAGAAGGTAACTTT
1 AGGCAAGTA-ACTTGAAAAATCACTTTTAAAAAGGGCTTC-TATAAACATGAA-AAGGTAACTTT
16937399 AAAAATCTTTATGAAAA
63 AAAAATCTTTATGAAAA
16937416 TGGCTCTTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 4 0.06
81 47 0.68
82 18 0.26
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (82 bp):
AGGCAAGTAACTTGAAAAATCACTTTTAAAAAGGGCTTCTATAAACATGAAAAGGTAACTTTAAA
AATCTTTATGAAAAAGA
Found at i:16937421 original size:47 final size:46
Alignment explanation
Indices: 16937347--16937467 Score: 154
Period size: 47 Copynumber: 2.6 Consensus size: 46
16937337 AAGGCAAGAG
*
16937347 ACTTTAAAAATCCTTTT-AAAAAGGGCTCTTATAAATATAAGAAGGTA
1 ACTTTAAAAAT-CTTTTGAAAAA-GGCTCTTATAAACATAAGAAGGTA
* * * *
16937394 ACTTTAAAAATCTTTATGAAAATGGCTCTTATAAACATAGGCAGGTG
1 ACTTTAAAAATCTTT-TGAAAAAGGCTCTTATAAACATAAGAAGGTA
16937441 ACTTTAAAAATCATTTTGAAAAAGGCT
1 ACTTTAAAAATC-TTTTGAAAAAGGCT
16937468 AATCTTGTCT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 4 0.06
47 54 0.83
48 7 0.11
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (46 bp):
ACTTTAAAAATCTTTTGAAAAAGGCTCTTATAAACATAAGAAGGTA
Found at i:16937449 original size:128 final size:128
Alignment explanation
Indices: 16937219--16937464 Score: 311
Period size: 128 Copynumber: 1.9 Consensus size: 128
16937209 ATAGAAAATA
* * * *
16937219 ACTTTAAAATCATTTTGAAAATGGCTCTTATAAACATAGGCAAGTAACTTGAAAAATCATTTTTG
1 ACTTTAAAATCATTTTAAAAAGGGCTCTTATAAACATAAGCAAGTAACTTGAAAAATCATTTATG
* *
16937284 AACAGGGCTTCTATAAACATGAAAAGGTAACTTTAAAAATCTTTTTGAAAAAGAAGGCAAGAG
66 AAAAGGGCTTCTATAAACATGAAAAGGTAACTTTAAAAATCATTTTGAAAAAGAAGGCAAGAG
* * *
16937347 ACTTTAAAAATCCTTTTAAAAAGGGCTCTTATAAATATAAG-AAGGTAACTTTAAAAATC-TTTA
1 ACTTT-AAAATCATTTTAAAAAGGGCTCTTATAAACATAAGCAA-GTAACTTGAAAAATCATTTA
* ** *
16937410 TGAAAATGGC-TCTTATAAACAT-AGGCAGGTGACTTTAAAAATCATTTTGAAAAAG
64 TGAAAAGGGCTTC-TATAAACATGA-AAAGGTAACTTTAAAAATCATTTTGAAAAAG
16937465 GCTAATCTTG
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
127 3 0.03
128 54 0.53
129 44 0.44
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (128 bp):
ACTTTAAAATCATTTTAAAAAGGGCTCTTATAAACATAAGCAAGTAACTTGAAAAATCATTTATG
AAAAGGGCTTCTATAAACATGAAAAGGTAACTTTAAAAATCATTTTGAAAAAGAAGGCAAGAG
Found at i:16938069 original size:20 final size:21
Alignment explanation
Indices: 16938046--16938084 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
16938036 TCATTTCCAT
16938046 TTTTC-ATCA-TTTTATTTTTA
1 TTTTCAATCACTTTT-TTTTTA
16938066 TTTTCAATCACTTTTTTTT
1 TTTTCAATCACTTTTTTTT
16938085 CTTTCTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTCAATCACTTTTTTTTTA
Found at i:16938075 original size:21 final size:19
Alignment explanation
Indices: 16938046--16938084 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
16938036 TCATTTCCAT
*
16938046 TTTTCATCATTTTATTTTTA
1 TTTTCATCACTTT-TTTTTA
16938066 TTTTCAATCACTTTTTTTT
1 TTTTC-ATCACTTTTTTTT
16938085 CTTTCTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTCATCACTTTTTTTTA
Found at i:16950601 original size:16 final size:16
Alignment explanation
Indices: 16950580--16950620 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
16950570 CAGGAAATTC
16950580 TTAATTTTAATTTGAT
1 TTAATTTTAATTTGAT
** *
16950596 TTAATTTTTTTTTGGT
1 TTAATTTTAATTTGAT
16950612 TTAATTTTA
1 TTAATTTTA
16950621 CTTGTTTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (16 bp):
TTAATTTTAATTTGAT
Found at i:16954874 original size:10 final size:10
Alignment explanation
Indices: 16954867--16954900 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
16954857 GATGAAAATG
16954867 AAAA-AAAAA
1 AAAAGAAAAA
16954876 AAAAGAAAAA
1 AAAAGAAAAA
16954886 AAAAGAAAGAA
1 AAAAGAAA-AA
16954897 AAAA
1 AAAA
16954901 AAGAAGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 4 0.17
10 13 0.57
11 6 0.26
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:16954883 original size:14 final size:14
Alignment explanation
Indices: 16954861--16954902 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
16954851 AAAAATGATG
*
16954861 AAAATGAAAAAAAA
1 AAAAAGAAAAAAAA
16954875 AAAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
*
16954889 AGAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
16954903 GAAGAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAAAAAA
Found at i:16954886 original size:16 final size:16
Alignment explanation
Indices: 16954867--16954909 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
16954857 GATGAAAATG
*
16954867 AAAAAAAA-AAAAAGA
1 AAAAAAAAGAAAAAAA
*
16954882 AAAAAAAAGAAAGAAA
1 AAAAAAAAGAAAAAAA
*
16954898 AAAAAGAAGAAA
1 AAAAAAAAGAAA
16954910 TTGATAGGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAAA
Found at i:16954887 original size:23 final size:26
Alignment explanation
Indices: 16954861--16954909 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
16954851 AAAAATGATG
*
16954861 AAAATGAAA-AAAAAAAA-AAGAAAA
1 AAAAAGAAAGAAAAAAAAGAAGAAAA
16954885 AAAAAGAAAGAAAAAAAAGAAGAAA
1 AAAAAGAAAGAAAAAAAAGAAGAAA
16954910 TTGATAGGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 8 0.36
26 6 0.27
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (26 bp):
AAAAAGAAAGAAAAAAAAGAAGAAAA
Found at i:16954903 original size:13 final size:13
Alignment explanation
Indices: 16954868--16954909 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
16954858 ATGAAAATGA
*
16954868 AAAAAAAAAAAAG
1 AAAAAAAAGAAAG
16954881 AAAAAAAAAGAAAG
1 -AAAAAAAAGAAAG
16954895 AAAAAAAAG-AAG
1 AAAAAAAAGAAAG
16954907 AAA
1 AAA
16954910 TTGATAGGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 6 0.22
13 9 0.33
14 12 0.44
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:16956286 original size:22 final size:22
Alignment explanation
Indices: 16956261--16956349 Score: 65
Period size: 24 Copynumber: 3.9 Consensus size: 22
16956251 AGAATCTTTG
16956261 AAATTTTGGATGTGAAT-TACCA
1 AAATTTTGGATGTGAATCT-CCA
* **
16956283 AAATTTTTTGAATGTGAATCTTTA
1 AAA--TTTTGGATGTGAATCTCCA
*
16956307 AAATTTTGGATGTGAAAC-CCAA
1 AAATTTTGGATGTGAATCTCC-A
*
16956329 AAACTTTTTGGATGAGAATCT
1 AAA--TTTTGGATGTGAATCT
16956350 TTGAATTTTG
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
22 20 0.39
24 30 0.59
25 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
AAATTTTGGATGTGAATCTCCA
Found at i:16956311 original size:46 final size:45
Alignment explanation
Indices: 16956247--16956367 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 45
16956237 GAGCTTTCCA
*
16956247 AATGAGAATCTTTGAAATTTTGGATGTGAATTA-CC-AAAATTTTTTG
1 AATGAGAATCTTT-AAATTTTGGATGTGAA--ACCCAAAAACTTTTTG
*
16956293 AATGTGAATCTTTAAAATTTTGGATGTGAAACCCAAAAACTTTTTG
1 AATGAGAATCTTT-AAATTTTGGATGTGAAACCCAAAAACTTTTTG
* * *
16956339 GATGAGAATCTTTGAATTTTGGTTGTGAA
1 AATGAGAATCTTTAAATTTTGGATGTGAA
16956368 CCTTAAAATC
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
44 1 0.02
45 16 0.24
46 49 0.74
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (45 bp):
AATGAGAATCTTTAAATTTTGGATGTGAAACCCAAAAACTTTTTG
Found at i:16956360 original size:21 final size:21
Alignment explanation
Indices: 16956334--16956400 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
16956324 CCCAAAAACT
*
16956334 TTTTGGATGAGAATCTTTGAA
1 TTTTGGATGTGAATCTTTGAA
* * **
16956355 TTTTGGTTGTGAACCTTAAAA
1 TTTTGGATGTGAATCTTTGAA
*
16956376 TCTTT-GATGTGAATCCTTGAA
1 T-TTTGGATGTGAATCTTTGAA
16956397 TTTT
1 TTTT
16956401 TCAAATATAA
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
20 3 0.09
21 29 0.83
22 3 0.09
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.46
Consensus pattern (21 bp):
TTTTGGATGTGAATCTTTGAA
Found at i:16956520 original size:17 final size:17
Alignment explanation
Indices: 16956500--16956543 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
16956490 TGTAAAACTC
16956500 TTGTGAATCTAAAGTTT
1 TTGTGAATCTAAAGTTT
* *
16956517 TTGTGAATTTGAAGTTT
1 TTGTGAATCTAAAGTTT
*
16956534 TTATGAATCT
1 TTGTGAATCT
16956544 TTTGTTCTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.50
Consensus pattern (17 bp):
TTGTGAATCTAAAGTTT
Found at i:16956581 original size:68 final size:67
Alignment explanation
Indices: 16956492--16956620 Score: 161
Period size: 68 Copynumber: 1.9 Consensus size: 67
16956482 TTATAGTTTG
* * ** * *
16956492 TAAAACTCTTGTGAATCTAAAGTTTTTGTGAATTTGAAGTTTTTATGAATCTTTTGTTCTTGCAA
1 TAAAACTCTTATGAATCTAAAGTTCTTGCAAATTTGAA-TTTTTATGAATCTTCTATTCTTGCAA
16956557 AAC
65 AAC
* *
16956560 TAAAACTTTTATGAA-CTTAAAGTTCTTGCAAATTTGAATTTTTGTGAATCTTCTATTCTTG
1 TAAAACTCTTATGAATC-TAAAGTTCTTGCAAATTTGAATTTTTATGAATCTTCTATTCTTG
16956621 TGAATCTGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
67 21 0.40
68 31 0.60
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (67 bp):
TAAAACTCTTATGAATCTAAAGTTCTTGCAAATTTGAATTTTTATGAATCTTCTATTCTTGCAAA
AC
Found at i:16956623 original size:17 final size:17
Alignment explanation
Indices: 16956601--16956658 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 17
16956591 ATTTGAATTT
16956601 TTGTGAATCTTCTATTC
1 TTGTGAATCTTCTATTC
**
16956618 TTGTGAATC-TGAATTC
1 TTGTGAATCTTCTATTC
**
16956634 TTACGAATCTTCTATTC
1 TTGTGAATCTTCTATTC
16956651 TTGTGAAT
1 TTGTGAAT
16956659 TTGAATAGTC
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 12 0.38
17 20 0.62
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (17 bp):
TTGTGAATCTTCTATTC
Found at i:16956635 original size:16 final size:17
Alignment explanation
Indices: 16956593--16956664 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 17
16956583 TCTTGCAAAT
*
16956593 TTGAATTTTTGTGAATC
1 TTGAATTCTTGTGAATC
**
16956610 TTCTATTCTTGTGAATC
1 TTGAATTCTTGTGAATC
**
16956627 -TGAATTCTTACGAATC
1 TTGAATTCTTGTGAATC
**
16956643 TTCTATTCTTGTGAAT-
1 TTGAATTCTTGTGAATC
16956659 TTGAAT
1 TTGAAT
16956665 AGTCTTTGCA
Statistics
Matches: 41, Mismatches: 13, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
16 16 0.39
17 25 0.61
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.50
Consensus pattern (17 bp):
TTGAATTCTTGTGAATC
Found at i:16956767 original size:35 final size:35
Alignment explanation
Indices: 16956691--16956767 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
16956681 AAAACCTTGG
* * *
16956691 CGAATCTGAAACCTCTGCGAAACTTGGAATCCTTG
1 CGAATCTAAAACCTCTGCAAAACTTGGAATCCTTA
* *
16956726 CAAATCTAAAACCTCTGCAAAACTT-GAATCTTTTA
1 CGAATCTAAAACCTCTGCAAAACTTGGAATC-CTTA
16956761 CGAATCT
1 CGAATCT
16956768 TGAAACCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 5 0.14
35 30 0.86
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.29
Consensus pattern (35 bp):
CGAATCTAAAACCTCTGCAAAACTTGGAATCCTTA
Done.