Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 39 of 190
Found at i:6738939 original size:65 final size:65
Alignment explanation
Indices: 6738835--6738969 Score: 216
Period size: 65 Copynumber: 2.1 Consensus size: 65
6738825 ATAGGACATG
* * *
6738835 ATCAAAGGACTAAATCAAGCAATTAATGGGATTGAATCTGTTCGTGATAGATTCAATCTCTGATA
1 ATCAAAGGAATAAATCAAGCAATTAATGGGATTGAATCTGTTCGTGACAGATTCAATCTCTGACA
* * *
6738900 ATCAAAGGAATAAATCGAGCAATTAATGGGATTGAATCTGTTTGTGACAGATTCAATTTCTGACA
1 ATCAAAGGAATAAATCAAGCAATTAATGGGATTGAATCTGTTCGTGACAGATTCAATCTCTGACA
6738965 ATCAA
1 ATCAA
6738970 TCCCTGAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (65 bp):
ATCAAAGGAATAAATCAAGCAATTAATGGGATTGAATCTGTTCGTGACAGATTCAATCTCTGACA
Found at i:6739078 original size:18 final size:18
Alignment explanation
Indices: 6739047--6739130 Score: 59
Period size: 18 Copynumber: 4.7 Consensus size: 18
6739037 GTTGGTCCAT
*
6739047 TTTAT-TTTTTTATTATT-
1 TTTATATTTTATATT-TTA
*
6739064 TTTGTATTTTATATTTTA
1 TTTATATTTTATATTTTA
6739082 TTTATATTTTAT-TTTTCA
1 TTTATATTTTATATTTT-A
* *
6739100 TATATATATATATTATTTT-
1 TTTATAT-TTTA-TATTTTA
*
6739119 TTTATCTTTTAT
1 TTTATATTTTAT
6739131 GTATTTATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
17 11 0.21
18 29 0.55
19 8 0.15
20 1 0.02
21 4 0.08
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.73
Consensus pattern (18 bp):
TTTATATTTTATATTTTA
Found at i:6739085 original size:11 final size:11
Alignment explanation
Indices: 6739071--6739095 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6739061 ATTTTTGTAT
6739071 TTTATATTTTA
1 TTTATATTTTA
6739082 TTTATATTTTA
1 TTTATATTTTA
6739093 TTT
1 TTT
6739096 TTCATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATATTTTA
Found at i:6739094 original size:16 final size:15
Alignment explanation
Indices: 6739045--6739167 Score: 54
Period size: 15 Copynumber: 7.8 Consensus size: 15
6739035 GAGTTGGTCC
*
6739045 ATTTTATTTTTTTATT
1 ATTTTATTTATTT-TT
*
6739061 ATTTT-TGTATTTTAT
1 ATTTTATTTATTTT-T
6739076 ATTTTATTTATATTTT
1 ATTTTATTTAT-TTTT
* * *
6739092 ATTTTTCATATATATAT
1 A-TTTT-ATTTATTTTT
*
6739109 ATATTATTT-TTTTAT
1 ATTTTATTTATTTT-T
* *
6739124 CTTTTATGTATTTATT
1 ATTTTATTTATTT-TT
*
6739140 A-TTTACTTATTTATT
1 ATTTTATTTATTT-TT
*
6739155 ATTACTATTTATT
1 ATT-TTATTTATT
6739168 AATATATATA
Statistics
Matches: 79, Mismatches: 18, Indels: 19
0.68 0.16 0.16
Matches are distributed among these distances:
14 3 0.04
15 34 0.43
16 19 0.24
17 18 0.23
18 5 0.06
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (15 bp):
ATTTTATTTATTTTT
Found at i:6739142 original size:7 final size:7
Alignment explanation
Indices: 6739126--6739168 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
6739116 TTTTTTATCT
6739126 TTTATGTA
1 TTTAT-TA
6739134 TTTATTA
1 TTTATTA
6739141 TTTACTTA
1 TTTA-TTA
6739149 TTTATTA
1 TTTATTA
*
6739156 -TTACTA
1 TTTATTA
6739162 TTTATTA
1 TTTATTA
6739169 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 5 0.16
7 14 0.45
8 12 0.39
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (7 bp):
TTTATTA
Found at i:6739144 original size:15 final size:15
Alignment explanation
Indices: 6739132--6739168 Score: 60
Period size: 13 Copynumber: 2.6 Consensus size: 15
6739122 ATCTTTTATG
6739132 TATTTATTATTTACT
1 TATTTATTATTTACT
6739147 TATTTATTA-TTAC-
1 TATTTATTATTTACT
6739160 TATTTATTA
1 TATTTATTA
6739169 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 4 0.18
15 9 0.41
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTATTATTTACT
Found at i:6739193 original size:8 final size:8
Alignment explanation
Indices: 6739045--6739197 Score: 61
Period size: 8 Copynumber: 18.6 Consensus size: 8
6739035 GAGTTGGTCC
6739045 ATTTTATT
1 ATTTTATT
*
6739053 TTTTTATT
1 ATTTTATT
6739061 ATTTT-TGT
1 ATTTTAT-T
6739069 ATTTTA-T
1 ATTTTATT
6739076 ATTTTATTT
1 ATTTTA-TT
*
6739085 ATATT-TT
1 ATTTTATT
*
6739092 ATTTT-TC
1 ATTTTATT
*
6739099 ATATATATAT
1 AT-TTTAT-T
*
6739109 ATATTATT
1 ATTTTATT
*
6739117 TTTTTA-T
1 ATTTTATT
*
6739124 CTTTTATGT
1 ATTTTAT-T
6739133 A-TTTATT
1 ATTTTATT
6739140 A-TTTACTT
1 ATTTTA-TT
6739148 ATTTATTATT
1 A-TT-TTATT
6739158 ACTATTTATT
1 A-T-TTTATT
* *
6739168 AATATATAT
1 ATTTTAT-T
6739177 ATCTTTATT
1 AT-TTTATT
6739186 ATTTTATT
1 ATTTTATT
6739194 -TTTT
1 ATTTT
6739198 CTTTTCTTTT
Statistics
Matches: 111, Mismatches: 18, Indels: 33
0.69 0.11 0.20
Matches are distributed among these distances:
7 33 0.30
8 42 0.38
9 15 0.14
10 17 0.15
11 4 0.04
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.69
Consensus pattern (8 bp):
ATTTTATT
Found at i:6739207 original size:12 final size:12
Alignment explanation
Indices: 6739187--6739228 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
6739177 ATCTTTATTA
*
6739187 TTTTATTTTTTC
1 TTTTCTTTTTTC
6739199 TTTTCTTTTTTC
1 TTTTCTTTTTTC
6739211 TTTT-TTTTCTTC
1 TTTTCTTTT-TTC
6739223 TTTTCT
1 TTTTCT
6739229 GTTAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 4 0.15
12 22 0.81
13 1 0.04
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:6739209 original size:19 final size:19
Alignment explanation
Indices: 6739187--6739226 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
6739177 ATCTTTATTA
6739187 TTTTATTTTTTCTT-TTCTT
1 TTTTATTTTTT-TTCTTCTT
*
6739206 TTTTCTTTTTTTTCTTCTT
1 TTTTATTTTTTTTCTTCTT
6739225 TT
1 TT
6739227 CTGTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTATTTTTTTTCTTCTT
Found at i:6739214 original size:24 final size:24
Alignment explanation
Indices: 6739178--6739238 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
6739168 AATATATATA
6739178 TCTTTATTATTTTATTTT-TTCTTT
1 TCTTTATTATTTT-TTTTCTTCTTT
* *
6739202 TCTTTTTTCTTTTTTTTCTTCTTT
1 TCTTTATTATTTTTTTTCTTCTTT
*
6739226 TCTGTTAATATTT
1 TCT-TTATTATTT
6739239 ATATATATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 4 0.13
24 20 0.67
25 6 0.20
ACGTcount: A:0.10, C:0.11, G:0.02, T:0.77
Consensus pattern (24 bp):
TCTTTATTATTTTTTTTCTTCTTT
Found at i:6739277 original size:26 final size:26
Alignment explanation
Indices: 6739240--6739296 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
6739230 TTAATATTTA
*
6739240 TATATATATATTTTTATTTACCTAGT
1 TATATATATATTATTATTTACCTAGT
* * *
6739266 TATATATTTATTATTATTTATCTATT
1 TATATATATATTATTATTTACCTAGT
6739292 TATAT
1 TATAT
6739297 GTTATAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (26 bp):
TATATATATATTATTATTTACCTAGT
Found at i:6739308 original size:26 final size:25
Alignment explanation
Indices: 6739234--6739308 Score: 62
Period size: 26 Copynumber: 2.8 Consensus size: 25
6739224 TTTCTGTTAA
*
6739234 TATTTATATATATATATTTTTATTTACC
1 TATTTATAT-T-TATA-ATTTATTTACC
* *
6739262 TAGTTATATATTTATTA-TTATTTATC
1 TA-TT-TATATTTATAATTTATTTACC
6739288 TATTTATATGTTATAATTTAT
1 TATTTATAT-TTATAATTTAT
6739309 CTGTTATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
24 5 0.13
25 7 0.18
26 14 0.36
28 5 0.13
29 3 0.08
30 5 0.13
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (25 bp):
TATTTATATTTATAATTTATTTACC
Found at i:6739548 original size:18 final size:18
Alignment explanation
Indices: 6739525--6739560 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6739515 TCAGAAACTC
6739525 TTCTGATCAATCCCTATA
1 TTCTGATCAATCCCTATA
6739543 TTCTGATCAATCCCTATA
1 TTCTGATCAATCCCTATA
6739561 AAAGGACCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (18 bp):
TTCTGATCAATCCCTATA
Found at i:6739594 original size:23 final size:23
Alignment explanation
Indices: 6739566--6739611 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
6739556 CTATAAAAGG
6739566 ACCCACGGATCAAAGGAAAAGTA
1 ACCCACGGATCAAAGGAAAAGTA
6739589 ACCCACGGATCAAAGGAAAAGTA
1 ACCCACGGATCAAAGGAAAAGTA
6739612 CAAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.22, G:0.22, T:0.09
Consensus pattern (23 bp):
ACCCACGGATCAAAGGAAAAGTA
Found at i:6740317 original size:17 final size:17
Alignment explanation
Indices: 6740295--6740347 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 17
6740285 GATTGTTTAA
6740295 TATTTTTTTCTATTTTT
1 TATTTTTTTCTATTTTT
6740312 TATTTTTTTTCATTATTTATT
1 TA-TTTTTTTC--TATTT-TT
*
6740333 TATTTATTT-TATTTT
1 TATTTTTTTCTATTTT
6740348 CTTTAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
16 1 0.03
17 7 0.23
18 8 0.26
20 11 0.35
21 4 0.13
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (17 bp):
TATTTTTTTCTATTTTT
Found at i:6740444 original size:59 final size:59
Alignment explanation
Indices: 6740381--6740731 Score: 369
Period size: 59 Copynumber: 5.9 Consensus size: 59
6740371 AAAAGAAACA
* *
6740381 TTTTTGAGAAAAAATTGAAAGTATCAAATTTCCTTAAGAATAAATTTTCAAAAAAAAGTT
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAATTTTCAAAAAAAAGTT
* * * * * * *
6740441 TTTTTGAGGAAAATTTGAAAGTATTAATTTTTCTCGAAATTAAAAATTTT--AAAAAAA-TA
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCT-TAAA--ATAAATTTTCAAAAAAAAGTT
*
6740500 TTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC-AAAAAAGGTT
1 TTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAATTTTCAAAAAAAAGTT
* * *
6740559 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTTCAAAAAATA--T
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAA-TAAA-TTTTCAAAAAAAAGTT
* *
6740618 TTTTGGA-AAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT-AAAAAAAAGTT
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAATTTTCAAAAAAAAGTT
* * * * *
6740676 TTTTTGAGGAAAAGTTGACAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAAA
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAATTTTCAAAAAAA
6740732 TATTTTGGAG
Statistics
Matches: 242, Mismatches: 33, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
56 7 0.03
57 12 0.05
58 46 0.19
59 113 0.47
60 49 0.20
61 7 0.03
62 8 0.03
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (59 bp):
TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTTCAAAAAAAAGTT
Found at i:6740554 original size:58 final size:57
Alignment explanation
Indices: 6740370--6740767 Score: 348
Period size: 59 Copynumber: 6.8 Consensus size: 57
6740360 TTCAAAAAAA
* * *
6740370 CAAAAGAAACATTTTT-GAGAAAAAATTGAAAGTATCAAATTTCCTTAAGAATAAATTTT
1 CAAAA-AAATATTTTTAG-GAAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAATTTT
* * * * * *
6740429 CAAAAAAAAGTTTTTTTGAGG-AAAATTTGAAAGTATTAATTTTTCTCGAAATTAAAAATTTT
1 C-AAAAAAA-TATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCT-TAAA--ATAAATTTT
6740491 -AAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
1 CAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAATTTT
* * *
6740548 CAAAAAAGGTTTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTT
1 CAAAAAA-ATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAA-TAAA-TTTT
*
6740608 C-AAAAAATATTTTT-GGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
1 CAAAAAAATATTTTTAGG-AAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAATTTT
* * * * *
6740665 AAAAAAAAGTTTTTTTGAGG-AAAAGTTGACAGTATCAATTTTCCTTGAAATTAAAGTTT
1 CAAAAAAA-TATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAATTTT
* * *
6740724 CCAAAAAATA-TTTT-GGAGAAAAG-TAAAAGCATCAATTTTTCCTT
1 CAAAAAAATATTTTTAGGA-AAAAGTTGAAAGTATCAA-TTTTCCTT
6740768 GTACAAAAGC
Statistics
Matches: 281, Mismatches: 34, Indels: 50
0.77 0.09 0.14
Matches are distributed among these distances:
55 2 0.01
56 11 0.04
57 29 0.10
58 54 0.19
59 125 0.44
60 46 0.16
61 5 0.02
62 9 0.03
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.36
Consensus pattern (57 bp):
CAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTT
Found at i:6740640 original size:117 final size:117
Alignment explanation
Indices: 6740380--6740767 Score: 550
Period size: 117 Copynumber: 3.3 Consensus size: 117
6740370 CAAAAGAAAC
*
6740380 ATTTTTGAGAAAAAA-TTGAAAGTATCAAATTTCCTTAAGAATAAATTTTCAAAAAAAAGTTTTT
1 ATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC-AAAAAAAGTTTTT
* * * * *
6740444 TTGAGGAAAATTTGAAAGTATTAATTTTTCTCGAAATTAAAAATTTTAAAAAAAT
64 TTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAAGTTTTCAAAAAAT
*
6740499 ATTTTTAGG-AAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAGGTTTTTT
1 ATTTTT-GGAAAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAGTTTTTT
*
6740563 TGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTTCAAAAAAT
65 TGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAAT
* * *
6740616 ATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTAAAAAAAAGTTTTTTT
1 ATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAGTTTTTTT
* * *
6740681 GAGGAAAAGTTGACAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAAAT
66 GAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAAT
* * *
6740733 A-TTTTGGAGAAAAG-TAAAAGCATCAATTTTTCCTT
1 ATTTTTGGAAAAAAGTTGAAAGTATCAA-TTTTCCTT
6740768 GTACAAAAGC
Statistics
Matches: 245, Mismatches: 20, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
115 10 0.04
116 21 0.09
117 121 0.49
118 51 0.21
119 41 0.17
120 1 0.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (117 bp):
ATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAGTTTTTTT
GAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAAT
Found at i:6748465 original size:65 final size:65
Alignment explanation
Indices: 6748361--6748495 Score: 216
Period size: 65 Copynumber: 2.1 Consensus size: 65
6748351 ATAGGACATG
* * *
6748361 ATCAAAGGACTAAATCAAGCAATTAATGGGATTGAATCTGTTCGTGATAGATTCAATCTCTGATA
1 ATCAAAGGAATAAATCAAGCAATTAATGGGATTGAATCTGTTCGTGACAGATTCAATCTCTGACA
* * *
6748426 ATCAAAGGAATAAATCGAGCAATTAATGGGATTGAATCTGTTTGTGACAGATTCAATTTCTGACA
1 ATCAAAGGAATAAATCAAGCAATTAATGGGATTGAATCTGTTCGTGACAGATTCAATCTCTGACA
6748491 ATCAA
1 ATCAA
6748496 TCCCTGAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (65 bp):
ATCAAAGGAATAAATCAAGCAATTAATGGGATTGAATCTGTTCGTGACAGATTCAATCTCTGACA
Found at i:6748622 original size:24 final size:25
Alignment explanation
Indices: 6748582--6748717 Score: 78
Period size: 24 Copynumber: 5.7 Consensus size: 25
6748572 TTTTATTTTT
*
6748582 TTTATTATTT-TTGTATTTTATATA
1 TTTATTATTTATTTTATTTTATATA
6748606 TTTA-TATTTATTTTATTTT-TCATA
1 TTTATTATTTATTTTATTTTAT-ATA
* * *
6748630 TATA-TATTT-TTTATCTTTTATGTA
1 TTTATTATTTATTT-TATTTTATATA
*
6748654 TTTATTATTTA-CTTA-TTTAT-TA
1 TTTATTATTTATTTTATTTTATATA
* * * *
6748676 -TTACTATTTA-TTAATATATATATC
1 TTTATTATTTATTTTAT-TTTATATA
6748700 TTTATTA-TTATTATTATT
1 TTTATTATTTATT-TTATT
6748718 ATTTTTTCTT
Statistics
Matches: 86, Mismatches: 14, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
21 11 0.13
22 2 0.02
23 18 0.21
24 38 0.44
25 14 0.16
26 3 0.03
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (25 bp):
TTTATTATTTATTTTATTTTATATA
Found at i:6748659 original size:22 final size:22
Alignment explanation
Indices: 6748572--6748648 Score: 63
Period size: 24 Copynumber: 3.5 Consensus size: 22
6748562 AGTTGGTCCA
*
6748572 TTTTATTTTT--TTTAT-TATT
1 TTTTATTTTTCATATATATATT
*
6748591 TTTGTATTTTAT-ATATTTATATTT
1 TTT-TATTTT-TCATATATATA-TT
6748615 ATTTTATTTTTCATATATATATT
1 -TTTTATTTTTCATATATATATT
6748638 TTTTATCTTTT
1 TTTTAT-TTTT
6748649 ATGTATTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
19 3 0.06
20 6 0.13
21 1 0.02
22 9 0.19
23 9 0.19
24 16 0.34
25 3 0.06
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (22 bp):
TTTTATTTTTCATATATATATT
Found at i:6748664 original size:15 final size:15
Alignment explanation
Indices: 6748652--6748688 Score: 60
Period size: 13 Copynumber: 2.6 Consensus size: 15
6748642 ATCTTTTATG
6748652 TATTTATTATTTACT
1 TATTTATTATTTACT
6748667 TATTTATTA-TTAC-
1 TATTTATTATTTACT
6748680 TATTTATTA
1 TATTTATTA
6748689 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 4 0.18
15 9 0.41
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTATTATTTACT
Found at i:6748664 original size:22 final size:21
Alignment explanation
Indices: 6748608--6748664 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
6748598 TTTATATATT
6748608 TATATTTA-TTTTATTTTTCA
1 TATATTTATTTTTATTTTTCA
*
6748628 TATATATATTTTTTATCTTTT-A
1 TATATTTA-TTTTTAT-TTTTCA
*
6748650 TGTATTTATTATTTA
1 TATATTTATT-TTTA
6748665 CTTATTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 7 0.23
21 2 0.07
22 17 0.57
23 4 0.13
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (21 bp):
TATATTTATTTTTATTTTTCA
Found at i:6748734 original size:12 final size:11
Alignment explanation
Indices: 6748719--6748754 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
6748709 ATTATTATTA
6748719 TTTTTTCTTTT
1 TTTTTTCTTTT
6748730 CTTTTTTCTTTT
1 -TTTTTTCTTTT
6748742 TTTTCTTCTTTT
1 TTTT-TTCTTTT
6748754 T
1 T
6748755 CTGTTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:6748819 original size:26 final size:25
Alignment explanation
Indices: 6748762--6748821 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 25
6748752 TTTCTGTTAA
6748762 TATTTATATATATATTTTATTTACC
1 TATTTATATATATATTTTATTTACC
* * *
6748787 TAGTTATATATTTATTATTATTTATC
1 TATTTATATATATATT-TTATTTACC
6748813 TATTTATAT
1 TATTTATAT
6748822 GTTATAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (25 bp):
TATTTATATATATATTTTATTTACC
Found at i:6748833 original size:26 final size:25
Alignment explanation
Indices: 6748762--6748833 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 25
6748752 TTTCTGTTAA
* *
6748762 TATTTATATATATATTTTATTTACC
1 TATTTATATTTATAATTTATTTACC
* *
6748787 TAGTTATATATTTATTA-TTATTTATC
1 TA-TT-TATATTTATAATTTATTTACC
6748813 TATTTATATGTTATAATTTAT
1 TATTTATAT-TTATAATTTAT
6748834 CTGTTATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
24 5 0.13
25 9 0.24
26 16 0.42
27 8 0.21
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (25 bp):
TATTTATATTTATAATTTATTTACC
Found at i:6749071 original size:18 final size:18
Alignment explanation
Indices: 6749048--6749083 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6749038 TCAGAAACTC
6749048 TTCTGATCAATCCCTATA
1 TTCTGATCAATCCCTATA
6749066 TTCTGATCAATCCCTATA
1 TTCTGATCAATCCCTATA
6749084 AAAGGACCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (18 bp):
TTCTGATCAATCCCTATA
Found at i:6749117 original size:23 final size:23
Alignment explanation
Indices: 6749089--6749134 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
6749079 CTATAAAAGG
6749089 ACCCACGGATCAAAGGAAAAGTA
1 ACCCACGGATCAAAGGAAAAGTA
6749112 ACCCACGGATCAAAGGAAAAGTA
1 ACCCACGGATCAAAGGAAAAGTA
6749135 CAAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.22, G:0.22, T:0.09
Consensus pattern (23 bp):
ACCCACGGATCAAAGGAAAAGTA
Found at i:6749840 original size:17 final size:17
Alignment explanation
Indices: 6749818--6749867 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
6749808 TTGTTTAATA
6749818 TTTTTTTCTATTTTTAT
1 TTTTTTTCTATTTTTAT
6749835 TTTTTTTC-ATTATTTAT
1 TTTTTTTCTATT-TTTAT
*
6749852 TTATTTATTTTATTTT
1 TT-TTT-TTCTATTTT
6749868 CTTTAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 3 0.11
17 15 0.54
18 3 0.11
19 4 0.14
20 3 0.11
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTTCTATTTTTAT
Found at i:6750024 original size:112 final size:111
Alignment explanation
Indices: 6749890--6750262 Score: 558
Period size: 112 Copynumber: 3.3 Consensus size: 111
6749880 TTCAAAAAAC
* *
6749890 AAAAAAACATTTTTGAGAAAAGTTGAAAGTATCAATTTCCTTAGAATAAATTTTCAAAAAAATTT
1 AAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTCCTTAAAATAAATTTTCAAAAAAATTT
6749955 TTTGAGGAAAAGTTGAAAGTATCAATTTTCTCGAAATTAAAAATTTT
66 TTTGAGGAAAAGTTGAAAGTATCAATTTTCTCGAAATT-AAAATTTT
6750002 AAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTTC-AAAAAAT
1 AAAAAAATATTTTTGA-GAAAAGTTGAAAGTATCAA-TTTCCTTAAAATAAATTTTCAAAAAAAT
* *
6750065 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTT
64 TTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTCGAAATTAAAATTTT
* * *
6750114 CAAAAAATATTTTTG-GAAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAATTTTAAAAAAAAT
1 AAAAAAATATTTTTGAG-AAAAGTTGAAAGTATCAATTTCCTT-AAAATAAATTTTCAAAAAAAT
*
6750178 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTC-CTGAAATT-AAAGTTT
64 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTC-GAAATTAAAATTTT
* *
6750225 CAAAAAATATTTTGGAGAAAAGTTGAAAGTATCAATTT
1 AAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTT
6750263 TTCCTGTACA
Statistics
Matches: 241, Mismatches: 11, Indels: 19
0.89 0.04 0.07
Matches are distributed among these distances:
111 49 0.20
112 127 0.53
113 65 0.27
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (111 bp):
AAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTCCTTAAAATAAATTTTCAAAAAAATTT
TTTGAGGAAAAGTTGAAAGTATCAATTTTCTCGAAATTAAAATTTT
Found at i:6750263 original size:55 final size:56
Alignment explanation
Indices: 6749891--6750268 Score: 488
Period size: 55 Copynumber: 6.8 Consensus size: 56
6749881 TCAAAAAACA
* *
6749891 AAAAAACATTTTTGA-GAAAAGTTGAAAGTATCAA-TTTCCTTAGAA-TAAATTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTGA-AATTAAATTTTC
*
6749945 AAAAAA-ATTTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTCGAAATTAAAAATTTTA
1 AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-GAAATT--AAATTTTC
* *
6750003 AAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTGAAATTAAATTTTC
*
6750058 AAAAAAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAGTTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-GAAATTAAA-TTTTC
* * * *
6750115 AAAAAATATTTTTG-GAAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAATTTT-
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTGAAATTAAATTTTC
* *
6750169 AAAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTGAAATTAAAGTTTC
1 AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTGAAATTAAATTTTC
*
6750226 AAAAAATATTTTGGA-GAAAAGTTGAAAGTATCAATTTTTCCTG
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTG
6750269 TACAAAAGCA
Statistics
Matches: 289, Mismatches: 18, Indels: 32
0.85 0.05 0.09
Matches are distributed among these distances:
53 1 0.00
54 25 0.09
55 94 0.33
56 69 0.24
57 73 0.25
58 26 0.09
59 1 0.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.37
Consensus pattern (56 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTGAAATTAAATTTTC
Found at i:6754161 original size:20 final size:19
Alignment explanation
Indices: 6754136--6754194 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
6754126 AACAATGGAT
*
6754136 AAAAAAAAAGATGAAGAAA
1 AAAAAAAAAAATGAAGAAA
6754155 AAAAAAAAAAA-GAAAGAAAA
1 AAAAAAAAAAATG-AAG-AAA
6754175 AAAAGAAAAAAATG-AGAAA
1 AAAA-AAAAAAATGAAGAAA
6754194 A
1 A
6754195 TGAAAAAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 1 0.03
19 17 0.49
20 9 0.26
21 7 0.20
22 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAATGAAGAAA
Found at i:6754174 original size:13 final size:12
Alignment explanation
Indices: 6754155--6754186 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
6754145 GATGAAGAAA
6754155 AAAAAAAAAAAG
1 AAAAAAAAAAAG
6754167 AAAGAAAAAAAAG
1 AAA-AAAAAAAAG
6754180 AAAAAAA
1 AAAAAAA
6754187 TGAGAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:6754183 original size:18 final size:16
Alignment explanation
Indices: 6754136--6754183 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
6754126 AACAATGGAT
*
6754136 AAAAAAAAAGATGAAGA
1 AAAAAAAAAGA-AAAGA
6754153 AAAAAAAAA-AAAAGAA
1 AAAAAAAAAGAAAAG-A
6754169 AGAAAAAAAAGAAAA
1 A-AAAAAAAAGAAAA
6754184 AAATGAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 3 0.11
16 3 0.11
17 17 0.63
18 4 0.15
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAGAAAAGA
Found at i:6754194 original size:11 final size:9
Alignment explanation
Indices: 6754149--6754186 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
6754139 AAAAAAGATG
6754149 AAGAAAAAA
1 AAGAAAAAA
*
6754158 AAAAAAAAGA
1 AAGAAAAA-A
6754168 AAGAAAAAA
1 AAGAAAAAA
6754177 AAGAAAAAA
1 AAGAAAAAA
6754186 A
1 A
6754187 TGAGAAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:6755440 original size:22 final size:22
Alignment explanation
Indices: 6755415--6755473 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
6755405 GAATATTTTG
*
6755415 ATGAGAATTTTTGAGAACTC-AA
1 ATGAGAATCTTTGAG-ACTCAAA
**
6755437 ATGAGAATCTTTGAGTTTCAAA
1 ATGAGAATCTTTGAGACTCAAA
6755459 ATGAGAATCTTTGAG
1 ATGAGAATCTTTGAG
6755474 GAGTGAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.34
Consensus pattern (22 bp):
ATGAGAATCTTTGAGACTCAAA
Found at i:6755704 original size:43 final size:42
Alignment explanation
Indices: 6755656--6755764 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 42
6755646 TGAGCCTTTG
*
6755656 AATTCAAATGAGAAGCTTTGAATTTTTAGATGTGAATTTCCAA
1 AATTCAAATGAGAAGCTTTGAATTTTTAGATATGAA-TTCCAA
* *
6755699 AATTCAAATGAAAAGCTTT-AGATTTTTGGATATGAATTCCAA
1 AATTCAAATGAGAAGCTTTGA-ATTTTTAGATATGAATTCCAA
** *
6755741 GTTTGCCAAATGAGAACCTTTGAA
1 AATT--CAAATGAGAAGCTTTGAA
6755765 AAGCCTTGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
42 9 0.16
43 31 0.56
44 14 0.25
45 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.35
Consensus pattern (42 bp):
AATTCAAATGAGAAGCTTTGAATTTTTAGATATGAATTCCAA
Found at i:6756099 original size:42 final size:42
Alignment explanation
Indices: 6756046--6756415 Score: 498
Period size: 42 Copynumber: 8.8 Consensus size: 42
6756036 GCAATTTATT
*
6756046 TTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTAC
1 TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAC
* *
6756088 TTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTAT
1 TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAC
* * *
6756130 TTTTTCAAAGTAGTTGAGCCTCTAATTAGAAGAGCCATTTAC
1 TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAC
* * *
6756172 -TTTTCAAAGTTGTTGAACCTTTGATTAGAGGAGCCATTTAC
1 TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAC
* *
6756213 -CTTTCAAAAGTCGTTGAGCCTTTGATTAGAGGAGCCATTTA-
1 TTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAC
* *
6756254 TTTTTCTAAAGTCGTTGAGCCTCTAATTAGAAGAGCCATTTA-
1 TTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAC
*
6756296 TTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCCATTTAC
1 TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAC
* * *
6756338 TTTTCCAAAGTCGTTGAGCCTCTGATTAGATGAGCTTTATTTA-
1 TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC--CATTTAC
* *
6756381 TTTTTTAAAGTCGTTGAGCCTCTGCTTAGAGGAGC
1 TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
6756416 TTTGATCAAA
Statistics
Matches: 294, Mismatches: 29, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
41 72 0.24
42 186 0.63
43 31 0.11
44 5 0.02
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (42 bp):
TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAC
Found at i:6756201 original size:83 final size:83
Alignment explanation
Indices: 6756034--6756415 Score: 493
Period size: 83 Copynumber: 4.6 Consensus size: 83
6756024 GACTGTCAAT
* *
6756034 GAGCAATTTATTTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTACTTTTTCAAAGT
1 GAGCCATTTA-TTTTTTCAAAGTAGTTGAGCCTCTGATTAGAGGAGCCATTTAC-TTTTCAAAGT
*
6756099 TGTTGAGCCTCTGATTAGAG
64 CGTTGAGCCTCTGATTAGAG
* * *
6756119 GAGCCATTTATTTTTTCAAAGTAGTTGAGCCTCTAATTAGAAGAGCCATTTACTTTTCAAAGTTG
1 GAGCCATTTATTTTTTCAAAGTAGTTGAGCCTCTGATTAGAGGAGCCATTTACTTTTCAAAGTCG
* *
6756184 TTGAACCTTTGATTAGAG
66 TTGAGCCTCTGATTAGAG
** * * *
6756202 GAGCCATTTA-CCTTTCAAAAGTCGTTGAGCCTTTGATTAGAGGAGCCATTTATTTTTCTAAAGT
1 GAGCCATTTATTTTTTC-AAAGTAGTTGAGCCTCTGATTAGAGGAGCCATTTACTTTTC-AAAGT
* *
6756266 CGTTGAGCCTCTAATTAGAA
64 CGTTGAGCCTCTGATTAGAG
6756286 GAGCCATTTA-TTTTTCAAAGTCA-TTGAGCCTCTGATTAGAGGAGCCATTTACTTTTCCAAAGT
1 GAGCCATTTATTTTTTCAAAGT-AGTTGAGCCTCTGATTAGAGGAGCCATTTACTTTT-CAAAGT
*
6756349 CGTTGAGCCTCTGATTAGAT
64 CGTTGAGCCTCTGATTAGAG
* * *
6756369 GAGCTTTATTTATTTTTT-AAAGTCGTTGAGCCTCTGCTTAGAGGAGC
1 GAGC--CATTTATTTTTTCAAAGTAGTTGAGCCTCTGATTAGAGGAGC
6756416 TTTGATCAAA
Statistics
Matches: 261, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
82 4 0.02
83 137 0.52
84 75 0.29
85 40 0.15
86 5 0.02
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (83 bp):
GAGCCATTTATTTTTTCAAAGTAGTTGAGCCTCTGATTAGAGGAGCCATTTACTTTTCAAAGTCG
TTGAGCCTCTGATTAGAG
Found at i:6756271 original size:125 final size:123
Alignment explanation
Indices: 6756047--6756403 Score: 552
Period size: 125 Copynumber: 2.8 Consensus size: 123
6756037 CAATTTATTT
*
6756047 TTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTACTTTTTCAAAGTTGTTGAGCCTCTG
1 TTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTAC-TTTTCAAAGTCGTTGAGCCTCTG
*
6756112 ATTAGAGGAGCCATTTATTTTTTCAAAGTAGTTGAGCCTCTAATTAGAAGAGCCATTTAC
65 ATTAGAGGAGCCATTTATTTTTT-AAAGTCGTTGAGCCTCTAATTAGAAGAGCCATTTAC
* * * *
6756172 TTTTCAAAGTTGTTGAACCTTTGATTAGAGGAGCCATTTACCTTTCAAAAGTCGTTGAGCCTTTG
1 TTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTACTTTTC-AAAGTCGTTGAGCCTCTG
*
6756237 ATTAGAGGAGCCATTTATTTTTCTAAAGTCGTTGAGCCTCTAATTAGAAGAGCCATTTAT
65 ATTAGAGGAGCCATTTATTTTT-TAAAGTCGTTGAGCCTCTAATTAGAAGAGCCATTTAC
**
6756297 TTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCCATTTACTTTTCCAAAGTCGTTGAGCCTCTG
1 TTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTACTTTT-CAAAGTCGTTGAGCCTCTG
* *
6756362 ATTAGATGAGCTTTATTTATTTTTTAAAGTCGTTGAGCCTCT
65 ATTAGAGGAGC--CATTTATTTTTTAAAGTCGTTGAGCCTCT
6756404 GCTTAGAGGA
Statistics
Matches: 212, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
124 4 0.02
125 178 0.84
126 20 0.09
127 10 0.05
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (123 bp):
TTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTACTTTTCAAAGTCGTTGAGCCTCTGA
TTAGAGGAGCCATTTATTTTTTAAAGTCGTTGAGCCTCTAATTAGAAGAGCCATTTAC
Found at i:6756453 original size:11 final size:11
Alignment explanation
Indices: 6756430--6756466 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6756420 ATCAAATTAA
6756430 AAAAATAAC-AC
1 AAAAA-AACAAC
6756441 AAAAAAACAAC
1 AAAAAAACAAC
6756452 AAAAAAACAA-
1 AAAAAAACAAC
6756462 AAAAA
1 AAAAA
6756467 GTATAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAAAAACAAC
Found at i:6756463 original size:19 final size:19
Alignment explanation
Indices: 6756439--6756485 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
6756429 AAAAAATAAC
6756439 ACAAAAAAACAACAAAAAA
1 ACAAAAAAACAACAAAAAA
** *
6756458 ACAAAAAAAGTATAAAAAA
1 ACAAAAAAACAACAAAAAA
*
6756477 ATAAAAAAA
1 ACAAAAAAA
6756486 AATTACCTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.83, C:0.09, G:0.02, T:0.06
Consensus pattern (19 bp):
ACAAAAAAACAACAAAAAA
Found at i:6756553 original size:43 final size:44
Alignment explanation
Indices: 6756491--6756600 Score: 159
Period size: 46 Copynumber: 2.5 Consensus size: 44
6756481 AAAAAAATTA
*
6756491 CCTCTGTTTAGAGGAGCTTTGTTTA-TTTTCAAAAGTCGTTGAG
1 CCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAG
*
6756534 TCTCTGATTAGAGGAGCTTTGTTTATGTTTTTCAAAAGTCGTTGAG
1 CCTCTGATTAGAGGAGCTTTGTTTA--TTTTTCAAAAGTCGTTGAG
* *
6756580 CCTCTGCTTAGAGGAGTTTTG
1 CCTCTGATTAGAGGAGCTTTG
6756601 ATCGAATCTT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
43 23 0.39
46 36 0.61
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.42
Consensus pattern (44 bp):
CCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAG
Found at i:6756804 original size:7 final size:7
Alignment explanation
Indices: 6756785--6756838 Score: 53
Period size: 7 Copynumber: 8.3 Consensus size: 7
6756775 TTGTTTTTTA
6756785 TTAT-TT
1 TTATATT
*
6756791 TTGTATT
1 TTATATT
6756798 TTATATT
1 TTATATT
6756805 TTATA-T
1 TTATATT
6756811 TT-TATT
1 TTATATT
6756817 TTATATT
1 TTATATT
*
6756824 TCATA-T
1 TTATATT
*
6756830 ATATATT
1 TTATATT
6756837 TT
1 TT
6756839 TCTTTATCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
5 2 0.05
6 13 0.34
7 23 0.61
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (7 bp):
TTATATT
Found at i:6756818 original size:12 final size:13
Alignment explanation
Indices: 6756794--6756852 Score: 59
Period size: 12 Copynumber: 4.6 Consensus size: 13
6756784 ATTATTTTTG
6756794 TATTTTATATTTTA
1 TATTTTATA-TTTA
6756808 TATTTTAT-TTTA
1 TATTTTATATTTA
* *
6756820 TATTTCATATATA
1 TATTTTATATTTA
*
6756833 TATTTT-TCTTTA
1 TATTTTATATTTA
*
6756845 TCTTTTAT
1 TATTTTAT
6756853 GTATTTATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
12 20 0.54
13 9 0.24
14 8 0.22
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTTTATATTTA
Found at i:6756864 original size:7 final size:7
Alignment explanation
Indices: 6756848--6756890 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
6756838 TTCTTTATCT
6756848 TTTATGTA
1 TTTAT-TA
6756856 TTTATTA
1 TTTATTA
6756863 TTTACTTA
1 TTTA-TTA
6756871 TTTATTA
1 TTTATTA
*
6756878 -TTACTA
1 TTTATTA
6756884 TTTATTA
1 TTTATTA
6756891 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 5 0.16
7 14 0.45
8 12 0.39
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (7 bp):
TTTATTA
Found at i:6756866 original size:15 final size:15
Alignment explanation
Indices: 6756854--6756890 Score: 60
Period size: 13 Copynumber: 2.6 Consensus size: 15
6756844 ATCTTTTATG
6756854 TATTTATTATTTACT
1 TATTTATTATTTACT
6756869 TATTTATTA-TTAC-
1 TATTTATTATTTACT
6756882 TATTTATTA
1 TATTTATTA
6756891 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 4 0.18
15 9 0.41
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTATTATTTACT
Found at i:6756997 original size:26 final size:26
Alignment explanation
Indices: 6756968--6757022 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
6756958 TGTTAATATT
*
6756968 TATATATATTTTTATTTACCTAGTTA
1 TATATATATTATTATTTACCTAGTTA
* * *
6756994 TATATTTATTATTATTTATCTATTTA
1 TATATATATTATTATTTACCTAGTTA
6757020 TAT
1 TAT
6757023 GTTATAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
TATATATATTATTATTTACCTAGTTA
Found at i:6757034 original size:26 final size:27
Alignment explanation
Indices: 6756978--6757036 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
6756968 TATATATATT
*
6756978 TTTATTTACCTAGTTATATATTTATTA
1 TTTATTTACCTAGTTATATATTTATAA
*
6757005 -TTATTTATCTA-TT-TATATGTTATAA
1 TTTATTTACCTAGTTATATAT-TTATAA
6757030 TTTATTT
1 TTTATTT
6757037 GTTATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 5 0.18
25 7 0.25
26 16 0.57
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (27 bp):
TTTATTTACCTAGTTATATATTTATAA
Found at i:6757057 original size:11 final size:12
Alignment explanation
Indices: 6757027--6757063 Score: 53
Period size: 10 Copynumber: 3.3 Consensus size: 12
6757017 TTATATGTTA
6757027 TAATTTATTTGT
1 TAATTTATTTGT
6757039 T-A-TTATTT-T
1 TAATTTATTTGT
6757048 TAATTTATTTGT
1 TAATTTATTTGT
6757060 TAAT
1 TAAT
6757064 CTCCTGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 2 0.09
10 7 0.32
11 7 0.32
12 6 0.27
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (12 bp):
TAATTTATTTGT
Found at i:6757120 original size:18 final size:20
Alignment explanation
Indices: 6757094--6757131 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
6757084 TTTCATTTAA
6757094 TTATCTA-TTAATATTTTTT
1 TTATCTATTTAATATTTTTT
*
6757113 TTAT-TATTTGATATTTTTT
1 TTATCTATTTAATATTTTTT
6757132 ATTTTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
TTATCTATTTAATATTTTTT
Found at i:6757153 original size:17 final size:18
Alignment explanation
Indices: 6757104--6757153 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
6757094 TTATCTATTA
6757104 ATATTTTTTTTATTATTTG
1 ATATTTTTTTT-TTATTTG
6757123 ATATTTTTTATTTT-TTTG
1 ATATTTTTT-TTTTATTTG
6757141 AT-TTCTTTTTTTT
1 ATATT-TTTTTTTT
6757154 CGGCTGAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 6 0.21
18 10 0.34
19 11 0.38
20 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (18 bp):
ATATTTTTTTTTTATTTG
Found at i:6757975 original size:12 final size:13
Alignment explanation
Indices: 6757958--6757996 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
6757948 TGTTCTTAGG
6757958 TTTTTATTT-TTA
1 TTTTTATTTATTA
6757970 TTTTTATTTATT-
1 TTTTTATTTATTA
*
6757982 TATTTATTTATTA
1 TTTTTATTTATTA
6757995 TT
1 TT
6757997 ATATTAGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 20 0.87
13 3 0.13
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTATTTATTA
Found at i:6758037 original size:18 final size:19
Alignment explanation
Indices: 6758014--6758064 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
6758004 GATTGTTTAA
6758014 TATTTTTTTTC-TATT-TTT
1 TATTTTTTTTCAT-TTATTT
6758032 TATTTTTTTTCATTTATTT
1 TATTTTTTTTCATTTATTT
*
6758051 TATTTATTTT-ATTT
1 TATTTTTTTTCATTT
6758065 TCTTTAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (19 bp):
TATTTTTTTTCATTTATTT
Found at i:6758070 original size:14 final size:14
Alignment explanation
Indices: 6758014--6758070 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
6758004 GATTGTTTAA
6758014 TATTTT-TTTTCTAT
1 TATTTTATTTTCT-T
*
6758028 T-TTTTATTTTTTT
1 TATTTTATTTTCTT
*
6758041 TCA-TTTATTTTATT
1 T-ATTTTATTTTCTT
6758055 TATTTTATTTTCTT
1 TATTTTATTTTCTT
6758069 TA
1 TA
6758071 AATAAAATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 7 0.19
14 29 0.81
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTATTTTCTT
Found at i:6758230 original size:116 final size:115
Alignment explanation
Indices: 6758082--6758367 Score: 430
Period size: 116 Copynumber: 2.4 Consensus size: 115
6758072 ATAAAATTCA
* *
6758082 AAAAACCAAAAGAAACATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
1 AAAATCCAAAA-AAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
* *
6758147 CAAAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTCGAAATT
64 CAAAAAAAATTTTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATT
6758199 AAAATCCAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC
1 AAAATCCAAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC
*
6758264 AAAAAAGATTTTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATT
65 AAAAAAAATTTTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATT
* * *
6758315 AAAGTTTTC-AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCCTT
1 AAA--ATCCAAAAAAATATTTTTAGG-AAAAGTTGAAAGTATCAA-TTTTCCTT
6758368 GTACAAAAGC
Statistics
Matches: 156, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
116 105 0.67
117 41 0.26
118 10 0.06
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.35
Consensus pattern (115 bp):
AAAATCCAAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCA
AAAAAAATTTTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATT
Found at i:6758267 original size:58 final size:57
Alignment explanation
Indices: 6758088--6758367 Score: 341
Period size: 59 Copynumber: 4.8 Consensus size: 57
6758078 TTCAAAAAAC
*
6758088 CAAAAGAAACATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
1 CAAAA-AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAATTTT
* * * * * *
6758147 CAAAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTCGAAATTAAA-ATC
1 C-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAATAAATTTT
*
6758205 CAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAATTTT
* * * *
6758263 CAAAAAAGATTTTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTT
1 CAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAATAAA-TTTT
6758323 C-AAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCCTT
1 CAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAA-TTTTCCTT
6758368 GTACAAAAGC
Statistics
Matches: 190, Mismatches: 22, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
56 2 0.01
57 47 0.25
58 35 0.18
59 93 0.49
60 13 0.07
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (57 bp):
CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTT
Found at i:6763877 original size:16 final size:16
Alignment explanation
Indices: 6763856--6763890 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
6763846 AAACAAGCTC
*
6763856 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAAG
6763872 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
6763888 ATA
1 ATA
6763891 TGTTATCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:6779105 original size:43 final size:43
Alignment explanation
Indices: 6778975--6779109 Score: 146
Period size: 43 Copynumber: 3.1 Consensus size: 43
6778965 CAGAAGATTC
* * *
6778975 TAATTTAAAGTTATTTAGCCTGC-ATATAAAAGAGCTAATTTTT
1 TAATTTAAAGTTGTTTAGCCT-CTATATAAAAGAGCTCATTTCT
* * * * *
6779018 TAATTTAAAGTTGTTTGGCCTCTGTATAGAGGAGCTCATATCT
1 TAATTTAAAGTTGTTTAGCCTCTATATAAAAGAGCTCATTTCT
* * * *
6779061 TAATTTAAAGTTGTTCAGCCTCTTTGTAAAAGAGCCCATTTCT
1 TAATTTAAAGTTGTTTAGCCTCTATATAAAAGAGCTCATTTCT
6779104 TAATTT
1 TAATTT
6779110 GAGGTTGCTT
Statistics
Matches: 75, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 1 0.01
43 74 0.99
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (43 bp):
TAATTTAAAGTTGTTTAGCCTCTATATAAAAGAGCTCATTTCT
Found at i:6779130 original size:86 final size:85
Alignment explanation
Indices: 6778975--6779136 Score: 193
Period size: 86 Copynumber: 1.9 Consensus size: 85
6778965 CAGAAGATTC
* * *
6778975 TAATTTAAAGTTATTTAGCCTGCATATAAAAGAGCTAATTTTTTAATTTAAAGTTGTTTGGCCTC
1 TAATTTAAAGTTATTCAGCCTGCATATAAAAGAGCCAATTTCTTAATTTAAAGTTGTTTGGCCTC
6779040 TGTATAGAGGAGCTCATATCT
66 TGTAT-GAGGAGCTCATATCT
* * * * * *
6779061 TAATTTAAAGTTGTTCAGCCT-CTTTGTAAAAGAGCCCATTTCTTAATTTGAGGTTGCTTT-GCC
1 TAATTTAAAGTTATTCAGCCTGC-ATATAAAAGAGCCAATTTCTTAATTTAAAGTTG-TTTGGCC
*
6779124 TTTGTATGAGGAG
64 TCTGTATGAGGAG
6779137 TCCATTTTGT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 7 0.11
86 54 0.84
87 3 0.05
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.41
Consensus pattern (85 bp):
TAATTTAAAGTTATTCAGCCTGCATATAAAAGAGCCAATTTCTTAATTTAAAGTTGTTTGGCCTC
TGTATGAGGAGCTCATATCT
Found at i:6780508 original size:4 final size:4
Alignment explanation
Indices: 6780499--6780533 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
6780489 TCTGTTTGAC
* *
6780499 TTAT TTAT TTAT TTAT TTAT CTAT TTAT TTTT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
6780534 AATATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:6782359 original size:11 final size:10
Alignment explanation
Indices: 6782331--6782364 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
6782321 ACTTGAAAAA
6782331 AATTAATAAAT
1 AATT-ATAAAT
6782342 AATTATAAAT
1 AATTATAAAT
6782352 AATATATAAAT
1 AAT-TATAAAT
6782363 AA
1 AA
6782365 AAATAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AATTATAAAT
Found at i:6782368 original size:17 final size:17
Alignment explanation
Indices: 6782328--6782382 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
6782318 ATAACTTGAA
*
6782328 AAAAATTAATAAATAATT
1 AAAAA-TAATAAATAAAT
* *
6782346 ATAAATAATATATAAAT
1 AAAAATAATAAATAAAT
*
6782363 AAAAATAGATAAAAAAAT
1 AAAAATA-ATAAATAAAT
6782381 AA
1 AA
6782383 CAAAAAGACC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAAATAATAAATAAAT
Found at i:6784087 original size:46 final size:47
Alignment explanation
Indices: 6783992--6784098 Score: 135
Period size: 46 Copynumber: 2.3 Consensus size: 47
6783982 ATTAAAGGTT
* * *
6783992 AACTTTAAAAATCTAAACAAAATGTCTCTTCTCATTAGATGCACGAC
1 AACTTTAAAAATCTAAACAAAATGGCTCCTCTCATTAGAGGCACGAC
* ** **
6784039 AACTTTAATAATCTAAATGAAA-GGCTCCTCTCATTAGAGGCTTGAC
1 AACTTTAAAAATCTAAACAAAATGGCTCCTCTCATTAGAGGCACGAC
6784085 AACTTTAAAAATCT
1 AACTTTAAAAATCT
6784099 CATTTTGTGC
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
46 32 0.63
47 19 0.37
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (47 bp):
AACTTTAAAAATCTAAACAAAATGGCTCCTCTCATTAGAGGCACGAC
Found at i:6784358 original size:59 final size:60
Alignment explanation
Indices: 6784190--6784358 Score: 182
Period size: 59 Copynumber: 2.9 Consensus size: 60
6784180 GGCATGTCAT
* * * * * * *
6784190 TCATCTCATACCAATTTCAGTGGGCTTAGCCTTTGTGCCAGCTAGATT--GTACTTAACAT
1 TCATCTCATGCCAATTTAACTGGGTTTAACCTTTATGCCAGCTAGATTAGGTA-TTAACAC
* * * * *
6784249 TCATATCATGCCAATTTAATTAGATTTAACCTTTATGCCAACTAGATTAGGT-TTAACAC
1 TCATCTCATGCCAATTTAACTGGGTTTAACCTTTATGCCAGCTAGATTAGGTATTAACAC
* *
6784308 TCATCTCGTGCCAATTTAACTGGGTTTAACCTTTTTGCCAGCTAGATTAGG
1 TCATCTCATGCCAATTTAACTGGGTTTAACCTTTATGCCAGCTAGATTAGG
6784359 CTTATCATTC
Statistics
Matches: 90, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
59 88 0.98
61 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (60 bp):
TCATCTCATGCCAATTTAACTGGGTTTAACCTTTATGCCAGCTAGATTAGGTATTAACAC
Found at i:6786465 original size:33 final size:32
Alignment explanation
Indices: 6786428--6786496 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
6786418 TCTTTTTTCA
*
6786428 TTTTTTAGAC-CTTTATATTTTTTTTAATTTTT
1 TTTTTTAGACACTTTAGATTTTTTTT-ATTTTT
* * *
6786460 GTTTTTAGTCACTTTGGATTTTTTTTATTTTT
1 TTTTTTAGACACTTTAGATTTTTTTTATTTTT
6786492 TTTTT
1 TTTTT
6786497 AGGATCATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 18 0.58
33 13 0.42
ACGTcount: A:0.14, C:0.06, G:0.07, T:0.72
Consensus pattern (32 bp):
TTTTTTAGACACTTTAGATTTTTTTTATTTTT
Found at i:6790351 original size:27 final size:27
Alignment explanation
Indices: 6790321--6790377 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
6790311 TTTTAATTTA
* * *
6790321 CTTTTAGTTGGTTGATTGTTCAATAGC
1 CTTTTAGTTAGTTGATTATTCAATAAC
6790348 CTTTTAGTTAGTTGATTATTCAATAAC
1 CTTTTAGTTAGTTGATTATTCAATAAC
6790375 CTT
1 CTT
6790378 ATATTATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.49
Consensus pattern (27 bp):
CTTTTAGTTAGTTGATTATTCAATAAC
Found at i:6797277 original size:2 final size:2
Alignment explanation
Indices: 6797270--6797295 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6797260 TGTGTACACT
6797270 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6797296 AACTTTTGAG
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):
TA
Found at i:6803347 original size:6 final size:6
Alignment explanation
Indices: 6803289--6803381 Score: 73
Period size: 6 Copynumber: 14.5 Consensus size: 6
6803279 AAAAAATAGC
*
6803289 AAAATA AATAATA AAAAT- GAAATA AAAACTTA AAATATA AAAATGA TAAAATA
1 AAAATA AA-AATA AAAATA AAAATA AAAA--TA AAA-ATA AAAAT-A -AAAATA
* *
6803342 AAAATA AAAACA AAAA-C AAAATCAA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAAT--A AAAATA AAAATA AAA
6803382 TGAAAAAAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
5 8 0.11
6 35 0.49
7 13 0.18
8 15 0.21
9 1 0.01
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:6803369 original size:19 final size:19
Alignment explanation
Indices: 6803347--6803389 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
6803337 AAATAAAAAT
6803347 AAAAACAAAAACAAAATCA
1 AAAAACAAAAACAAAATCA
* * *
6803366 AAAAATAAAAATAAAATGA
1 AAAAACAAAAACAAAATCA
6803385 AAAAA
1 AAAAA
6803390 ATAGAAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.81, C:0.07, G:0.02, T:0.09
Consensus pattern (19 bp):
AAAAACAAAAACAAAATCA
Found at i:6806330 original size:26 final size:26
Alignment explanation
Indices: 6806292--6806343 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
6806282 AAACTAGAGG
6806292 TATACAACAATAATATCTCATGATTA
1 TATACAACAATAATATCTCATGATTA
*
6806318 TATACAACCATAATATCTCATGATTA
1 TATACAACAATAATATCTCATGATTA
6806344 AACAATCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (26 bp):
TATACAACAATAATATCTCATGATTA
Found at i:6810405 original size:17 final size:18
Alignment explanation
Indices: 6810333--6810405 Score: 62
Period size: 17 Copynumber: 4.1 Consensus size: 18
6810323 AGCTAAATTT
*
6810333 AATATTTCTTATATTTATA
1 AATATTTATTATA-TTATA
*
6810352 TGATATTTATTATA-TATTA
1 -AATATTTATTATATTA-TA
* *
6810371 AATATTTA-TAAATAATA
1 AATATTTATTATATTATA
6810388 AA-ATTTATTATATTATA
1 AATATTTATTATATTATA
6810405 A
1 A
6810406 TTTGTATTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
16 5 0.12
17 15 0.35
18 10 0.23
19 2 0.05
20 11 0.26
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (18 bp):
AATATTTATTATATTATA
Found at i:6810853 original size:12 final size:12
Alignment explanation
Indices: 6810836--6810861 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6810826 TCCTTCAAAC
6810836 AAAAAAGGGAAA
1 AAAAAAGGGAAA
6810848 AAAAAAGGGAAA
1 AAAAAAGGGAAA
6810860 AA
1 AA
6810862 TTTCAGTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAAAAGGGAAA
Found at i:6813236 original size:23 final size:22
Alignment explanation
Indices: 6813210--6813254 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6813200 GATAATACGA
*
6813210 TTAAAGATATATTTAATTTTTAG
1 TTAAACATA-ATTTAATTTTTAG
* *
6813233 TTAAACTTAATTTTATTTTTAG
1 TTAAACATAATTTAATTTTTAG
6813255 ACTATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (22 bp):
TTAAACATAATTTAATTTTTAG
Found at i:6817983 original size:17 final size:16
Alignment explanation
Indices: 6817941--6817983 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
6817931 AATTGAATAG
6817941 AAAAAAATAGTAAACA
1 AAAAAAATAGTAAACA
* *
6817957 AAAACTAATAGTAATCA
1 AAAA-AAATAGTAAACA
6817974 TAAAAAAATA
1 -AAAAAAATA
6817984 CAATTTAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 14 0.64
18 4 0.18
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.19
Consensus pattern (16 bp):
AAAAAAATAGTAAACA
Found at i:6818164 original size:20 final size:20
Alignment explanation
Indices: 6818139--6818177 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6818129 TAACACGTGC
6818139 AAAATAATAAGCATGATATA
1 AAAATAATAAGCATGATATA
*
6818159 AAAATAATAGGCATGATAT
1 AAAATAATAAGCATGATAT
6818178 TAGATGTCAT
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:0.56, C:0.05, G:0.13, T:0.26
Consensus pattern (20 bp):
AAAATAATAAGCATGATATA
Found at i:6820380 original size:12 final size:13
Alignment explanation
Indices: 6820336--6820381 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
6820326 ATATCCACTA
6820336 CAATAA-ATAAAC
1 CAATAATATAAAC
*
6820348 CAATATATATAAAA
1 CAATA-ATATAAAC
6820362 C-ATAATA-AAAC
1 CAATAATATAAAC
6820373 CAATAATAT
1 CAATAATAT
6820382 TATATGGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
11 4 0.14
12 14 0.50
13 4 0.14
14 6 0.21
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.24
Consensus pattern (13 bp):
CAATAATATAAAC
Found at i:6821043 original size:64 final size:64
Alignment explanation
Indices: 6820927--6821102 Score: 203
Period size: 64 Copynumber: 2.7 Consensus size: 64
6820917 TATTTTTAGG
* * * *
6820927 TCAATTAAGACATTTGTGTACAAAAATACCTTAATTAATCCAATTTAGAATTTTTAATTGATAA
1 TCAATTAAGGCATTTTTGTACAAAAATGCCTTAATTAATCCAATTTAGAATTTTAAATTGATAA
* * * * *
6820991 TCAATTAAGGCATTTTTGTACACAAATGCCTTAATTGATCTACA-TTATAATTTTAAATTGATGA
1 TCAATTAAGGCATTTTTGTACAAAAATGCCTTAATTAATCCA-ATTTAGAATTTTAAATTGATAA
* * *
6821055 TCAATTAAAGCA-TTTGGTAAACATAAATGCCTTAATTAATCCAATTTA
1 TCAATTAAGGCATTTTTGT--ACAAAAATGCCTTAATTAATCCAATTTA
6821103 TAAATTATAT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
63 5 0.05
64 65 0.69
65 24 0.26
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (64 bp):
TCAATTAAGGCATTTTTGTACAAAAATGCCTTAATTAATCCAATTTAGAATTTTAAATTGATAA
Found at i:6821198 original size:124 final size:126
Alignment explanation
Indices: 6821053--6821331 Score: 429
Period size: 124 Copynumber: 2.2 Consensus size: 126
6821043 TTAAATTGAT
* * *
6821053 GATCAATTAAAGCATTTGGTAAACATAAATGCCTTAATTAATCCAATTTATAAATTATATATGAA
1 GATCAATTAAGGCATTTGGTAAACACAAATGCCTTAATTAATCAAATTTATAAATTATATATGAA
*
6821118 GGATCAATTAAAGA-GTTTATGTAACCAAA-A-GATTGATCTTGTTTATAAATTTATAAAGA
66 GGATCAA-TAAAGACGTTTATGTAACCAAACACAATTGATCTTGTTTATAAATTTATAAAGA
* *
6821177 GATCAATTTAGGCATTTGGTAAACACAAATGCCTTAATTGATCAAATTTATAAATTATATATGAA
1 GATCAATTAAGGCATTTGGTAAACACAAATGCCTTAATTAATCAAATTTATAAATTATATATGAA
*
6821242 GGATCAATAAAGACGTTTGTGTAACCAAACACCTTAATTGATCTTGTTTATAAATTTATAAAGA
66 GGATCAATAAAGACGTTTATGTAACCAAACA-C--AATTGATCTTGTTTATAAATTTATAAAGA
6821306 GATCAATTAAGGCATTTGTGTAAACA
1 GATCAATTAAGGCATTTG-GTAAACA
6821332 AGATCAATTA
Statistics
Matches: 140, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
123 6 0.04
124 81 0.58
125 1 0.01
129 45 0.32
130 7 0.05
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (126 bp):
GATCAATTAAGGCATTTGGTAAACACAAATGCCTTAATTAATCAAATTTATAAATTATATATGAA
GGATCAATAAAGACGTTTATGTAACCAAACACAATTGATCTTGTTTATAAATTTATAAAGA
Found at i:6821283 original size:65 final size:62
Alignment explanation
Indices: 6820927--6821328 Score: 197
Period size: 64 Copynumber: 6.3 Consensus size: 62
6820917 TATTTTTAGG
* * * * * * * *
6820927 TCAATTAAGACATTTGTGT-ACAAAAATACCTTAATTAATCCAATTTA-GAATTTTTAATTGATA
1 TCAATAAAGACATTTGTGTAAC-CAAA-ACCTTAATTGATCTAATTTATAAATTTATAA-AGA-G
6820990 A
62 A
* * * *
6820991 TCAATTAAGGCATTTTTGT-ACACAAATGCCTTAATTGATCTACA-TTAT-AATTT-TAAATTGA
1 TCAATAAAGACATTTGTGTAAC-CAAA-ACCTTAATTGATCTA-ATTTATAAATTTATAAA--GA
6821052 TGA
61 -GA
* * *
6821055 TCAATTAAAG-CATTTG-GTAAACATAAATGCCTTAATTAATCCAATTTATAAATTATATATGAA
1 TCAA-TAAAGACATTTGTGTAACCA-AAA--CCTTAATTGATCTAATTTATAAATT-TATA--AA
6821118 G-GA
59 GAGA
* * * **
6821121 TCAATTAAAGA-GTTTATGTAACCAAAA----GATTGATCTTGTTTATAAATTTATAAAGAGA
1 TCAA-TAAAGACATTTGTGTAACCAAAACCTTAATTGATCTAATTTATAAATTTATAAAGAGA
** * * *
6821179 TCAATTTAGGCATTTG-GTAAACACAAATGCCTTAATTGATCAAATTTATAAATTATATATGAAG
1 TCAATAAAGACATTTGTGT-AAC-CAAA-ACCTTAATTGATCTAATTTATAAATT-TATA--AAG
6821243 -GA
60 AGA
* **
6821245 TCAATAAAGACGTTTGTGTAACCAAACACCTTAATTGATCTTGTTTATAAATTTATAAAGAGA
1 TCAATAAAGACATTTGTGTAACCAAA-ACCTTAATTGATCTAATTTATAAATTTATAAAGAGA
* *
6821308 TCAATTAAGGCATTTGTGTAA
1 TCAATAAAGACATTTGTGTAA
6821329 ACAAGATCAA
Statistics
Matches: 263, Mismatches: 44, Indels: 63
0.71 0.12 0.17
Matches are distributed among these distances:
57 8 0.03
58 12 0.05
59 8 0.03
60 16 0.06
62 3 0.01
63 27 0.10
64 82 0.31
65 51 0.19
66 39 0.15
67 12 0.05
68 3 0.01
70 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (62 bp):
TCAATAAAGACATTTGTGTAACCAAAACCTTAATTGATCTAATTTATAAATTTATAAAGAGA
Found at i:6821369 original size:90 final size:89
Alignment explanation
Indices: 6821243--6821405 Score: 249
Period size: 90 Copynumber: 1.8 Consensus size: 89
6821233 ATATATGAAG
* * *
6821243 GATCAATAAAGACGTTTGTGTAACCAAACACCTTAATTGATCTTGTTTATAAATTTATAAAGAG-
1 GATCAATAAAGACCTTTATGTAACCAAACACCTTAATTGATC-TCTTTATAAATTTATAAAG-GC
6821307 ATCAATTAAGGCATTTGTGTAAACAA
64 ATCAATTAAGGCATTTGTGTAAACAA
*
6821333 GATCAATTAAAG-CCTTTATGTAACCAAACCCCTTAATTGATCTCTTTATAAATTTATAAAGGCA
1 GATCAA-TAAAGACCTTTATGTAACCAAACACCTTAATTGATCTCTTTATAAATTTATAAAGGCA
6821397 TCAATTAAG
65 TCAATTAAG
6821406 ACTTTTTTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
88 1 0.01
89 28 0.42
90 33 0.49
91 5 0.07
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (89 bp):
GATCAATAAAGACCTTTATGTAACCAAACACCTTAATTGATCTCTTTATAAATTTATAAAGGCAT
CAATTAAGGCATTTGTGTAAACAA
Found at i:6829737 original size:1 final size:1
Alignment explanation
Indices: 6829731--6829779 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
6829721 CCTTTTCATC
* * * **
6829731 TTTTTTTTCTTTTTCTTTTTTTTTTTTTTTTATTTTTTGCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6829780 CTTGCATGAG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.02, C:0.06, G:0.02, T:0.90
Consensus pattern (1 bp):
T
Found at i:6829748 original size:23 final size:23
Alignment explanation
Indices: 6829722--6829767 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6829712 CCAAACATGC
*
6829722 CTTTTCATCTTTTTTTTCTTTTT
1 CTTTTCATCTTTTTTTTATTTTT
** *
6829745 CTTTTTTTTTTTTTTTTATTTTT
1 CTTTTCATCTTTTTTTTATTTTT
6829768 TGCTTTTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (23 bp):
CTTTTCATCTTTTTTTTATTTTT
Found at i:6829760 original size:17 final size:17
Alignment explanation
Indices: 6829731--6829782 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
6829721 CCTTTTCATC
*
6829731 TTTTTTTTCTTTTTCTT
1 TTTTTTTTTTTTTTCTT
*
6829748 TTTTTTTTTTTTTTATT
1 TTTTTTTTTTTTTTCTT
*
6829765 TTTTGCTTTTTTTTTCTT
1 TTTT-TTTTTTTTTTCTT
6829783 GCATGAGTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 19 0.63
18 11 0.37
ACGTcount: A:0.02, C:0.08, G:0.02, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTTTTTTCTT
Found at i:6829774 original size:23 final size:23
Alignment explanation
Indices: 6829731--6829779 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
6829721 CCTTTTCATC
* *
6829731 TTTTTTTTCTTTTTCTTTTTTTT
1 TTTTTTTTATTTTTCTCTTTTTT
6829754 TTTTTTTTATTTTT-TGCTTTTTT
1 TTTTTTTTATTTTTCT-CTTTTTT
6829777 TTT
1 TTT
6829780 CTTGCATGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.02, C:0.06, G:0.02, T:0.90
Consensus pattern (23 bp):
TTTTTTTTATTTTTCTCTTTTTT
Found at i:6830170 original size:7 final size:7
Alignment explanation
Indices: 6830145--6830192 Score: 53
Period size: 7 Copynumber: 6.6 Consensus size: 7
6830135 TAATCATATC
6830145 TTTTCTT
1 TTTTCTT
6830152 TTTTCCTT
1 TTTT-CTT
6830160 TTTTCTT
1 TTTTCTT
6830167 TTTT-TT
1 TTTTCTT
*
6830173 TCTTTTTT
1 T-TTTCTT
6830181 TTTTCTT
1 TTTTCTT
6830188 ATTTT
1 -TTTT
6830193 TTTCTTTTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
6 3 0.08
7 19 0.53
8 14 0.39
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTCTT
Found at i:6830172 original size:17 final size:16
Alignment explanation
Indices: 6830145--6830184 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
6830135 TAATCATATC
*
6830145 TTTTCTTTTTTCCTTT
1 TTTTTTTTTTTCCTTT
*
6830161 TTTCTTTTTTTTTCTTT
1 TTT-TTTTTTTTCCTTT
6830178 TTTTTTT
1 TTTTTTT
6830185 CTTATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTTTCCTTT
Found at i:6830179 original size:11 final size:11
Alignment explanation
Indices: 6830158--6830200 Score: 70
Period size: 11 Copynumber: 4.0 Consensus size: 11
6830148 TCTTTTTTCC
6830158 TTTTTTC-TTT
1 TTTTTTCTTTT
6830168 TTTTTTCTTTT
1 TTTTTTCTTTT
*
6830179 TTTTTTCTTAT
1 TTTTTTCTTTT
6830190 TTTTTTCTTTT
1 TTTTTTCTTTT
6830201 GCTACTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
10 7 0.23
11 23 0.77
ACGTcount: A:0.02, C:0.09, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:6830182 original size:21 final size:22
Alignment explanation
Indices: 6830158--6830200 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6830148 TCTTTTTTCC
6830158 TTTTTTCTT-TTTTTTTCTTTT
1 TTTTTTCTTATTTTTTTCTTTT
6830179 TTTTTTCTTATTTTTTTCTTTT
1 TTTTTTCTTATTTTTTTCTTTT
6830201 GCTACTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.02, C:0.09, G:0.00, T:0.88
Consensus pattern (22 bp):
TTTTTTCTTATTTTTTTCTTTT
Found at i:6830945 original size:3 final size:3
Alignment explanation
Indices: 6830937--6830976 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
6830927 TTTATTGGGT
6830937 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T
6830977 CTCTAAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:6834207 original size:21 final size:20
Alignment explanation
Indices: 6834183--6834271 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 20
6834173 TATAATTTTG
*
6834183 ATTTTAATAACATTTGATAAA
1 ATTTTAATAAC-TTTGATATA
* *
6834204 ATTTTGATAACTTTTGACATA
1 ATTTTAATAAC-TTTGATATA
* *
6834225 ATTTTAGTAACTTATAATATA
1 ATTTTAATAACTT-TGATATA
* *
6834246 ATTTTGATAACTATTGATACA
1 ATTTTAATAACT-TTGATATA
6834267 ATTTT
1 ATTTT
6834272 GGTAATTTTT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
20 2 0.04
21 51 0.94
22 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (20 bp):
ATTTTAATAACTTTGATATA
Found at i:6834230 original size:42 final size:42
Alignment explanation
Indices: 6834183--6834271 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
6834173 TATAATTTTG
* * *
6834183 ATTTTAATAACATT-TGATAAAATTTTGATAACTTTTGACATA
1 ATTTTAATAAC-TTATAATAAAATTTTGATAACTATTGACACA
* * *
6834225 ATTTTAGTAACTTATAATATAATTTTGATAACTATTGATACA
1 ATTTTAATAACTTATAATAAAATTTTGATAACTATTGACACA
6834267 ATTTT
1 ATTTT
6834272 GGTAATTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
41 2 0.05
42 38 0.95
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (42 bp):
ATTTTAATAACTTATAATAAAATTTTGATAACTATTGACACA
Found at i:6834647 original size:22 final size:22
Alignment explanation
Indices: 6834606--6835324 Score: 114
Period size: 22 Copynumber: 32.4 Consensus size: 22
6834596 AAAAAAATTT
*
6834606 TTATCAATGATTGA-TAATTAAA
1 TTATCAATGATTTACT-ATTAAA
* *
6834628 TTATCATTGATTTACTATTATA
1 TTATCAATGATTTACTATTAAA
* *
6834650 TTAT-AAGCGATTTACTACTAAA
1 TTATCAA-TGATTTACTATTAAA
* *
6834672 TTATCAATGATATACTGTTAAA
1 TTATCAATGATTTACTATTAAA
* *
6834694 TTATCAATAATTTACTACTAAA
1 TTATCAATGATTTACTATTAAA
* * * *
6834716 TTAAT-ATTTATTTACTACTAAG
1 TT-ATCAATGATTTACTATTAAA
** * * * *
6834738 TTAAGACTAATTTATTTACTAAA
1 TTATCAATGATTTA-CTATTAAA
* ** * * *
6834761 TTGTTGATAATTTACTACTAAG
1 TTATCAATGATTTACTATTAAA
* **
6834783 TTAGT-AATAATTTGTTA-TAAA
1 TTA-TCAATGATTTACTATTAAA
*
6834804 GTTAT-AACTGATTTACTATTAAT
1 -TTATCAA-TGATTTACTATTAAA
* *
6834827 TTATAAATGATTTACTA-CAAA
1 TTATCAATGATTTACTATTAAA
* *
6834848 GTTATCTA-GAATTAACTAATTTGCTACTAA
1 -TTATCAATG-ATTTACT-A--T--TA--AA
* * * * *
6834878 TTAACACTTATTTACAATAAAA
1 TTATCAATGATTTACTATTAAA
* * **
6834900 TTATTC--TAATTAACTGCTAAA
1 TTA-TCAATGATTTACTATTAAA
6834921 TTATCAAT-ATTTAC-ATCTAAA
1 TTATCAATGATTTACTAT-TAAA
* * **
6834942 TTATTAATAATTTACTATTATG
1 TTATCAATGATTTACTATTAAA
* * **
6834964 TTAT-TATGCATTTACTACTATG
1 TTATCAATG-ATTTACTATTAAA
* * *
6834986 TTATCATTGATTTACTATTTAG
1 TTATCAATGATTTACTATTAAA
* * **
6835008 TTTTCAATTATTTACTACAAAA
1 TTATCAATGATTTACTATTAAA
* * * **
6835030 TCATCACA-AATTTATTACAAAA
1 TTATCA-ATGATTTACTATTAAA
* * * * *
6835052 TTAACCATGATTCATTATCAAA
1 TTATCAATGATTTACTATTAAA
*
6835074 TTATCATTGATTTA-TATTAAA
1 TTATCAATGATTTACTATTAAA
* * * *
6835095 TTATCCATGATGTACTATCAAG
1 TTATCAATGATTTACTATTAAA
* * * *
6835117 CTATCATTGATTAACTATTAAG
1 TTATCAATGATTTACTATTAAA
** * * * *
6835139 TTATTGATAATTAACAACTACTAAG
1 TTATCAATGATT---TACTATTAAA
* * * *
6835164 TTAT-ATTAATTTACTTTTAAGG
1 TTATCAATGATTTACTATTAA-A
* *
6835186 TT-TCAATGATTAACTACTAAA
1 TTATCAATGATTTACTATTAAA
* * *
6835207 TTATCATTAATTTACTATTAAG
1 TTATCAATGATTTACTATTAAA
* * *
6835229 TTATTAA-GATTCACTACTAAA
1 TTATCAATGATTTACTATTAAA
* * *
6835250 TTTATCAATTAATTATTATTAAA
1 -TTATCAATGATTTACTATTAAA
* *
6835273 TTGA--AACTAATTTACTATTAAG
1 TT-ATCAA-TGATTTACTATTAAA
* *
6835295 TTAT-TATCGATTT-CTTATTAAG
1 TTATCAAT-GATTTAC-TATTAAA
6835317 TTATCAAT
1 TTATCAAT
6835325 TATTAACAAC
Statistics
Matches: 502, Mismatches: 148, Indels: 93
0.68 0.20 0.13
Matches are distributed among these distances:
20 2 0.00
21 83 0.17
22 339 0.68
23 45 0.09
24 6 0.01
25 13 0.03
26 1 0.00
28 2 0.00
29 9 0.02
30 2 0.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (22 bp):
TTATCAATGATTTACTATTAAA
Found at i:6834762 original size:45 final size:44
Alignment explanation
Indices: 6834701--6834785 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 44
6834691 AAATTATCAA
*
6834701 TAATTTACTACTAAATTAAT-ATTTATTTACTACTAAGTTAAGAC
1 TAATTTACTACTAAATTAATGA-TAATTTACTACTAAGTTAAGAC
* **
6834745 TAATTTATTTACTAAATTGTTGATAATTTACTACTAAGTTA
1 TAATTTA-CTACTAAATTAATGATAATTTACTACTAAGTTA
6834786 GTAATAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
44 7 0.20
45 27 0.77
46 1 0.03
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (44 bp):
TAATTTACTACTAAATTAATGATAATTTACTACTAAGTTAAGAC
Found at i:6834940 original size:21 final size:22
Alignment explanation
Indices: 6834916--6834956 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6834906 TAATTAACTG
6834916 CTAAATTATCAAT-ATTTACAT
1 CTAAATTATCAATAATTTACAT
*
6834937 CTAAATTATTAATAATTTAC
1 CTAAATTATCAATAATTTAC
6834957 TATTATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (22 bp):
CTAAATTATCAATAATTTACAT
Found at i:6835097 original size:43 final size:44
Alignment explanation
Indices: 6835049--6835137 Score: 110
Period size: 43 Copynumber: 2.0 Consensus size: 44
6835039 ATTTATTACA
* * *
6835049 AAATTAACCATGAT-TCATTATCAAATTATCATTGATTTA-TATT
1 AAATTAACCATGATGT-ACTATCAAACTATCATTGATTAACTATT
* *
6835092 AAATTATCCATGATGTACTATCAAGCTATCATTGATTAACTATT
1 AAATTAACCATGATGTACTATCAAACTATCATTGATTAACTATT
6835136 AA
1 AA
6835138 GTTATTGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 32 0.82
44 7 0.18
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.40
Consensus pattern (44 bp):
AAATTAACCATGATGTACTATCAAACTATCATTGATTAACTATT
Found at i:6835105 original size:21 final size:22
Alignment explanation
Indices: 6835049--6835105 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
6835039 ATTTATTACA
*
6835049 AAATTAACCATGATTCATTATC
1 AAATTATCCATGATTCATTATC
* *
6835071 AAATTAT-CATTGATTTA-TATT
1 AAATTATCCA-TGATTCATTATC
6835092 AAATTATCCATGAT
1 AAATTATCCATGAT
6835106 GTACTATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (22 bp):
AAATTATCCATGATTCATTATC
Found at i:6835245 original size:43 final size:43
Alignment explanation
Indices: 6835118--6835271 Score: 136
Period size: 44 Copynumber: 3.5 Consensus size: 43
6835108 ACTATCAAGC
* * *
6835118 TATCATTGATTAACTATTAAGTTATTGATA-ATTAACAACTACTAAGT
1 TATCATTAATTTACTATTAAGTTATT-A-AGATT--C-ACTACTAAAT
* * *
6835165 TAT-ATTAATTTACTTTTAAGGTT-TCAATGATTAACTACTAAAT
1 TATCATTAATTTACTATTAA-GTTATTAA-GATTCACTACTAAAT
6835208 TATCATTAATTTACTATTAAGTTATTAAGATTCACTACTAAATT
1 TATCATTAATTTACTATTAAGTTATTAAGATTCACTACTAAA-T
*
6835252 TATCAATTAA-TTATTATTAA
1 TATC-ATTAATTTACTATTAA
6835272 ATTGAAACTA
Statistics
Matches: 90, Mismatches: 10, Indels: 17
0.77 0.09 0.15
Matches are distributed among these distances:
43 28 0.31
44 33 0.37
45 6 0.07
46 17 0.19
47 6 0.07
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.45
Consensus pattern (43 bp):
TATCATTAATTTACTATTAAGTTATTAAGATTCACTACTAAAT
Found at i:6835252 original size:33 final size:32
Alignment explanation
Indices: 6835214--6835301 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 32
6835204 AAATTATCAT
* *
6835214 TAATTTACTATTAAGTTATTA-AGATTCACTAC
1 TAATTTACTATTAAGTTATTATAAATTCA-AAC
* *
6835246 TAAATTTATCAATTAA-TTATTATTAAATTGAAAC
1 T-AATTTA-CTATTAAGTTATTA-TAAATTCAAAC
6835280 TAATTTACTATTAAGTTATTAT
1 TAATTTACTATTAAGTTATTAT
6835302 CGATTTCTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
32 8 0.17
33 24 0.52
34 9 0.20
35 5 0.11
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.47
Consensus pattern (32 bp):
TAATTTACTATTAAGTTATTATAAATTCAAAC
Found at i:6835641 original size:22 final size:22
Alignment explanation
Indices: 6835614--6835659 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
6835604 AGTATAATAA
*
6835614 AAATTATTAGTGATTTACAATT
1 AAATTATCAGTGATTTACAATT
* *
6835636 AAATTATCAGTTATTTACTATT
1 AAATTATCAGTGATTTACAATT
6835658 AA
1 AA
6835660 GCTAGCACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (22 bp):
AAATTATCAGTGATTTACAATT
Found at i:6835703 original size:22 final size:22
Alignment explanation
Indices: 6835676--6835739 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
6835666 ACTTATATAT
6835676 TACTAATTTATGAATGATTTGC
1 TACTAATTTATGAATGATTTGC
*
6835698 TACTAATTTATGAAGGATTTGC
1 TACTAATTTATGAATGATTTGC
* * *
6835720 TATTAAATTATAAATGATTT
1 TACTAATTTATGAATGATTT
6835740 AACAATTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (22 bp):
TACTAATTTATGAATGATTTGC
Found at i:6835935 original size:22 final size:22
Alignment explanation
Indices: 6835851--6835935 Score: 75
Period size: 22 Copynumber: 3.9 Consensus size: 22
6835841 AATGATTAAC
* * * *
6835851 TAATTTATTACTAAATTATCAC
1 TAATTTACTACTAAGTTATTAG
*
6835873 TAATTTACAACTAAGTTATTAG
1 TAATTTACTACTAAGTTATTAG
*
6835895 TAATTTACTATTACA-TTATTAG
1 TAATTTACTACTA-AGTTATTAG
*
6835917 TGATTTA-TGACTAAGTTAT
1 TAATTTACT-ACTAAGTTAT
6835936 CAATTTATCA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.04
22 48 0.94
23 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (22 bp):
TAATTTACTACTAAGTTATTAG
Found at i:6835943 original size:19 final size:19
Alignment explanation
Indices: 6835919--6835958 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6835909 ATTATTAGTG
* *
6835919 ATTTATGACTAAGTTATCA
1 ATTTATCACTAAATTATCA
*
6835938 ATTTATCATTAAATTATCA
1 ATTTATCACTAAATTATCA
6835957 AT
1 AT
6835959 GATTTACTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (19 bp):
ATTTATCACTAAATTATCA
Found at i:6835970 original size:22 final size:22
Alignment explanation
Indices: 6835945--6836200 Score: 92
Period size: 22 Copynumber: 11.7 Consensus size: 22
6835935 TCAATTTATC
6835945 ATTAAATTATCAATGATTTACT
1 ATTAAATTATCAATGATTTACT
* * * *
6835967 ATTATATTTTTATAT-ATTTATT
1 ATTAAATTATCA-ATGATTTACT
*** *
6835989 ATTATGCTATCATTGATTTACT
1 ATTAAATTATCAATGATTTACT
* * * *
6836011 ATTTAATTTTTAATTATTTA-T
1 ATTAAATTATCAATGATTTACT
** *
6836032 CACAAAATTATCACTGATTTA-T
1 -ATTAAATTATCAATGATTTACT
* ** *
6836054 CACTAAATTATTTATGATTCACT
1 -ATTAAATTATCAATGATTTACT
* * * *
6836077 ATCAAGTTATTACT-ATTTTA-T
1 ATTAAATTATCAATGA-TTTACT
** *
6836098 ATTAAATTATGTATGATTTGCT
1 ATTAAATTATCAATGATTTACT
* ** * *
6836120 ATTAAGTTATCCTTTATTAACT
1 ATTAAATTATCAATGATTTACT
*
6836142 ATTATATTATCAATGATTTACT
1 ATTAAATTATCAATGATTTACT
* * *
6836164 ATTAAGTTAT-ACTAATTTACT
1 ATTAAATTATCAATGATTTACT
* * *
6836185 TTTAAGTTTTCAATGA
1 ATTAAATTATCAATGA
6836201 ATAATTGCTA
Statistics
Matches: 163, Mismatches: 63, Indels: 16
0.67 0.26 0.07
Matches are distributed among these distances:
21 33 0.20
22 127 0.78
23 3 0.02
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.51
Consensus pattern (22 bp):
ATTAAATTATCAATGATTTACT
Found at i:6836044 original size:44 final size:44
Alignment explanation
Indices: 6835938--6836052 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 44
6835928 TAAGTTATCA
6835938 ATTTATCATTAAATTATCAATGATTTACTATTATATTTTTATAT
1 ATTTATCATTAAATTATCAATGATTTACTATTATATTTTTATAT
* *** *
6835982 ATTTATTATTATGCTATCATTGATTTACTATT-TAATTTTTA-ATT
1 ATTTATCATTAAATTATCAATGATTTACTATTAT-ATTTTTATA-T
** *
6836026 ATTTATCACAAAATTATCACTGATTTA
1 ATTTATCATTAAATTATCAATGATTTA
6836053 TCACTAAATT
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
43 2 0.04
44 55 0.96
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (44 bp):
ATTTATCATTAAATTATCAATGATTTACTATTATATTTTTATAT
Found at i:6836269 original size:44 final size:43
Alignment explanation
Indices: 6836216--6836308 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 43
6836206 TGCTATCAAT
* *
6836216 TAATTACTATTAAATTGA-AATTGATTTACTATTAAATTATTAC
1 TAATTACTATT-AATTGATAATTGATTTACTACTAAATTATTAA
* * * *
6836259 TAATTCACTATTAATTTATCATTGATTTATTACTAAGTTATTAA
1 TAATT-ACTATTAATTGATAATTGATTTACTACTAAATTATTAA
6836303 TAATTA
1 TAATTA
6836309 ACAACTAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
43 11 0.26
44 31 0.74
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (43 bp):
TAATTACTATTAATTGATAATTGATTTACTACTAAATTATTAA
Found at i:6836325 original size:44 final size:44
Alignment explanation
Indices: 6836235--6836343 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 44
6836225 TTAAATTGAA
* * * * * * *
6836235 ATTGATTTACTATTAAATTATTACTAATTCACTATTAATTTATC
1 ATTGATTTATTATTAAGTTATTAATAATTAACAACTAAGTTATC
* *
6836279 ATTGATTTATTACTAAGTTATTAATAATTAACAACTAAGTTGTC
1 ATTGATTTATTATTAAGTTATTAATAATTAACAACTAAGTTATC
* *
6836323 ATTTATTTTTTATTAAGTTAT
1 ATTGATTTATTATTAAGTTAT
6836344 CTTTGATTTA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (44 bp):
ATTGATTTATTATTAAGTTATTAATAATTAACAACTAAGTTATC
Found at i:6836462 original size:22 final size:22
Alignment explanation
Indices: 6836437--6836497 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
6836427 ATTATTACTA
6836437 ATTTACTAAAAAGTTATCAATT-
1 ATTTACTAAAAAGTTATC-ATTC
* *
6836459 ATTTATTATTAAA-TTATCATTC
1 ATTTACTA-AAAAGTTATCATTC
**
6836481 ATTTACTACTAAGTTAT
1 ATTTACTAAAAAGTTAT
6836498 ATTGATTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 5 0.16
22 23 0.74
23 3 0.10
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (22 bp):
ATTTACTAAAAAGTTATCATTC
Found at i:6836577 original size:2 final size:2
Alignment explanation
Indices: 6836570--6836606 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
6836560 ATCATTGATT
*
6836570 TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6836607 CTAAAAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6838782 original size:52 final size:52
Alignment explanation
Indices: 6838679--6838782 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
6838669 TATAAGTATA
* * * *
6838679 CAAACTTGCCTATTAAAAATCATTTTTCTCTTAGAATTCTTCTTCTGCAAGT
1 CAAACTTACCTATTAAAAATCATCTTTCTCTTAGAATTCCTCTTCTACAAGT
* * *
6838731 CAAACTTACCTATTAAGAATTATCTTTCTCTTAGAATTCCTCTTTTACAAGT
1 CAAACTTACCTATTAAAAATCATCTTTCTCTTAGAATTCCTCTTCTACAAGT
6838783 GTTCTTGCCC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (52 bp):
CAAACTTACCTATTAAAAATCATCTTTCTCTTAGAATTCCTCTTCTACAAGT
Found at i:6840214 original size:17 final size:17
Alignment explanation
Indices: 6840182--6840227 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
6840172 AGATTTTCTT
* *
6840182 TTATTTAAAAAGTTTTA
1 TTATATAAAAATTTTTA
*
6840199 TTATATATAAATTTTTA
1 TTATATAAAAATTTTTA
6840216 TTATATAAAAAT
1 TTATATAAAAAT
6840228 ATTAAAATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TTATATAAAAATTTTTA
Found at i:6842273 original size:29 final size:29
Alignment explanation
Indices: 6842205--6842288 Score: 68
Period size: 29 Copynumber: 2.9 Consensus size: 29
6842195 AATGATTTTA
* *
6842205 AATTATATTAAAATATTTAATATAA-ATTTTT
1 AATTATA--AAAATTTTTAATATAATA-TTTG
* *
6842236 ATTTTTAAAAATTTTTAATATAATATTTG
1 AATTATAAAAATTTTTAATATAATATTTG
6842265 AATTAT--AAATTTGTTAAT-TAATAT
1 AATTATAAAAATTT-TTAATATAATAT
6842289 GATAATTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
27 12 0.27
28 5 0.11
29 22 0.49
30 1 0.02
31 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
AATTATAAAAATTTTTAATATAATATTTG
Found at i:6842295 original size:27 final size:27
Alignment explanation
Indices: 6842244--6842297 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
6842234 TTATTTTTAA
*
6842244 AAATTTTTAATATAATATTTGAATTAT
1 AAATTTTTAATATAATATATGAATTAT
6842271 AAATTTGTTAAT-TAATATGAT-AATTAT
1 AAATTT-TTAATATAATAT-ATGAATTAT
6842298 TTTTAATGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (27 bp):
AAATTTTTAATATAATATATGAATTAT
Found at i:6854344 original size:33 final size:33
Alignment explanation
Indices: 6854271--6854374 Score: 124
Period size: 33 Copynumber: 3.2 Consensus size: 33
6854261 AAACTTTGAT
** *
6854271 ACAAGTTGATAATGAAATG-ATTGGA-TGAAACC
1 ACAAGTTGATAATGAAATGAACAGGATTG-AATC
*
6854303 ACAAGTTGAAAATGAAATGAACAGGATTGAATC
1 ACAAGTTGATAATGAAATGAACAGGATTGAATC
*
6854336 ACAAGTTGATAAT-AAATTGATCAGGATTGAATC
1 ACAAGTTGATAATGAAA-TGAACAGGATTGAATC
6854369 ACAAGT
1 ACAAGT
6854375 CAAAAAGAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
32 21 0.33
33 40 0.63
34 2 0.03
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (33 bp):
ACAAGTTGATAATGAAATGAACAGGATTGAATC
Found at i:6854396 original size:33 final size:34
Alignment explanation
Indices: 6854361--6854515 Score: 111
Period size: 34 Copynumber: 4.6 Consensus size: 34
6854351 ATTGATCAGG
*
6854361 ATTGAATCACAAGTCAAAAA-GAAAATGACTTGG
1 ATTGAATCACAAGTCAAAAATGAAAATGACTTGA
** * *
6854394 ATTGAAT-TGAAGTCTAAAAATTAAAATGACTAGA
1 ATTGAATCACAAGTC-AAAAATGAAAATGACTTGA
* ** *
6854428 ATTGAACCACAAGT-AAAAATGGTAATGACCTGA
1 ATTGAATCACAAGTCAAAAATGAAAATGACTTGA
* * * * * *
6854461 ATTGAATCAAAATTTAAAAATAAAAATTA-TCGA
1 ATTGAATCACAAGTCAAAAATGAAAATGACTTGA
* *
6854494 GATTGAACCATAAGTCAAAAAT
1 -ATTGAATCACAAGTCAAAAAT
6854516 ACAACGATCA
Statistics
Matches: 91, Mismatches: 26, Indels: 9
0.72 0.21 0.07
Matches are distributed among these distances:
32 5 0.05
33 39 0.43
34 43 0.47
35 4 0.04
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.25
Consensus pattern (34 bp):
ATTGAATCACAAGTCAAAAATGAAAATGACTTGA
Found at i:6856034 original size:14 final size:14
Alignment explanation
Indices: 6856006--6856046 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
6855996 TTAAGTATTC
6856006 TTTTTC-TCTTTTT
1 TTTTTCATCTTTTT
*
6856019 TTTGTTTATCTTTTT
1 TTT-TTCATCTTTTT
6856034 TTTTTCATCTTTT
1 TTTTTCATCTTTT
6856047 CTTTCATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 3 0.12
14 11 0.46
15 10 0.42
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTTCATCTTTTT
Found at i:6859539 original size:11 final size:10
Alignment explanation
Indices: 6859519--6859565 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
6859509 AAATGCAAGG
6859519 TTTTTTT-TT
1 TTTTTTTCTT
*
6859528 TTGTTTTCTT
1 TTTTTTTCTT
6859538 TTTATTTT-TT
1 TTT-TTTTCTT
6859548 TTTTTTTCCTT
1 TTTTTTT-CTT
6859559 TTTTTTT
1 TTTTTTT
6859566 ATAAAGATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 10 0.31
10 9 0.28
11 13 0.41
ACGTcount: A:0.02, C:0.06, G:0.02, T:0.89
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:6859547 original size:20 final size:20
Alignment explanation
Indices: 6859519--6859565 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
6859509 AAATGCAAGG
6859519 TTTTTTTTTTTGTTTT-CTT
1 TTTTTTTTTTTGTTTTCCTT
*
6859538 TTTATTTTTTTTTTTTTCCTT
1 TTT-TTTTTTTTGTTTTCCTT
6859559 TTTTTTT
1 TTTTTTT
6859566 ATAAAGATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 3 0.12
20 16 0.64
21 6 0.24
ACGTcount: A:0.02, C:0.06, G:0.02, T:0.89
Consensus pattern (20 bp):
TTTTTTTTTTTGTTTTCCTT
Found at i:6859553 original size:25 final size:25
Alignment explanation
Indices: 6859519--6859567 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
6859509 AAATGCAAGG
*
6859519 TTTTTTTTTTT-GTTTTCTTTTTATT
1 TTTTTTTTTTTCCTTTT-TTTTTATT
6859544 TTTTTTTTTTTCCTTTTTTTTTAT
1 TTTTTTTTTTTCCTTTTTTTTTAT
6859568 AAAGATCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.04, C:0.06, G:0.02, T:0.88
Consensus pattern (25 bp):
TTTTTTTTTTTCCTTTTTTTTTATT
Found at i:6859811 original size:26 final size:28
Alignment explanation
Indices: 6859782--6859834 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
6859772 TGGTCACCTA
* *
6859782 TTAAAACTT-AAATTT-TTAATAAAATC
1 TTAAAAATTAAAATTTATTAAAAAAATC
6859808 TTAAAAATTAAAATTTATTAAAAAAAT
1 TTAAAAATTAAAATTTATTAAAAAAAT
6859835 AACTTTTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 6 0.26
28 9 0.39
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (28 bp):
TTAAAAATTAAAATTTATTAAAAAAATC
Done.