Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 83 of 125
Found at i:16582916 original size:6 final size:6
Alignment explanation
Indices: 16582878--16582915 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
16582868 CAGCGCTCTC
16582878 TTTTTG TTTTTG TTTTTG -TTTTG -TTTTG TTTTT- TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
16582916 TATTAGTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 15 0.48
6 16 0.52
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTTG
Found at i:16584321 original size:2 final size:2
Alignment explanation
Indices: 16584316--16584346 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
16584306 CACACATGAA
*
16584316 AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16584347 CACACACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16588148 original size:14 final size:14
Alignment explanation
Indices: 16588129--16588156 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16588119 CAACTTTAGC
16588129 CTTTTGCTTTTGGA
1 CTTTTGCTTTTGGA
16588143 CTTTTGCTTTTGGA
1 CTTTTGCTTTTGGA
16588157 AGCAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.21, T:0.57
Consensus pattern (14 bp):
CTTTTGCTTTTGGA
Found at i:16594154 original size:30 final size:30
Alignment explanation
Indices: 16594118--16594184 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
16594108 CTAGAGGCTT
* *
16594118 TTCAAGAATGCTTGTTGTAGTTCATAGATC
1 TTCAAGAATACATGTTGTAGTTCATAGATC
* ** *
16594148 TTCAAGATTACATGTTGTTTTTGATAGATC
1 TTCAAGAATACATGTTGTAGTTCATAGATC
16594178 TTCAAGA
1 TTCAAGA
16594185 TTGCAGCCTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (30 bp):
TTCAAGAATACATGTTGTAGTTCATAGATC
Found at i:16596063 original size:19 final size:19
Alignment explanation
Indices: 16596041--16596077 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16596031 ATTTTTCGTT
16596041 ATTTGGTTGTTTTTCAAAA
1 ATTTGGTTGTTTTTCAAAA
* *
16596060 ATTTTGTTTTTTTTCAAA
1 ATTTGGTTGTTTTTCAAA
16596078 TAATATTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.59
Consensus pattern (19 bp):
ATTTGGTTGTTTTTCAAAA
Found at i:16596164 original size:15 final size:16
Alignment explanation
Indices: 16596134--16596166 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16596124 AGTATATTGG
16596134 AATTATTTATTATTAA
1 AATTATTTATTATTAA
16596150 AATTATTTA-TATTAA
1 AATTATTTATTATTAA
16596165 AA
1 AA
16596167 AATAATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTATTTATTATTAA
Found at i:16596167 original size:16 final size:16
Alignment explanation
Indices: 16596134--16596224 Score: 58
Period size: 19 Copynumber: 5.2 Consensus size: 16
16596124 AGTATATTGG
16596134 AATTATTTATTATT-AA
1 AATTATTTA-TATTAAA
16596150 AATTATTTATATTAAAA
1 AATTATTTATATT-AAA
* *
16596167 AATAATTATATTTTAATA
1 AATTATT-TATATTAA-A
*
16596185 ATAATATTTAATATTAAA
1 A-ATTATTT-ATATTAAA
*
16596203 ATATTATGTTAGTATAAAA
1 A-ATTAT-TTA-TATTAAA
16596222 AAT
1 AAT
16596225 AATTAAAACA
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
15 4 0.07
16 9 0.15
17 10 0.17
18 18 0.30
19 19 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
AATTATTTATATTAAA
Found at i:16596173 original size:20 final size:20
Alignment explanation
Indices: 16596150--16596229 Score: 59
Period size: 18 Copynumber: 4.2 Consensus size: 20
16596140 TTATTATTAA
16596150 AATTATTTATATTAAAAAAT
1 AATTATTTATATTAAAAAAT
* *
16596170 AATTA--TAT-TTTAATAAT
1 AATTATTTATATTAAAAAAT
16596187 AA-TATTTAATATT--AAAAT
1 AATTATTT-ATATTAAAAAAT
16596205 -ATTATGTTAGTA-TAAAAAAT
1 AATTAT-TTA-TATTAAAAAAT
16596225 AATTA
1 AATTA
16596230 AAACAAAACC
Statistics
Matches: 47, Mismatches: 3, Indels: 19
0.68 0.04 0.28
Matches are distributed among these distances:
16 2 0.04
17 10 0.21
18 13 0.28
19 6 0.13
20 12 0.26
21 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AATTATTTATATTAAAAAAT
Found at i:16596296 original size:18 final size:17
Alignment explanation
Indices: 16596253--16596313 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 17
16596243 TGTTATTCTG
16596253 TATATTATTTATT-A-A
1 TATATTATTTATTAATA
16596268 TATATTA--TATTAATA
1 TATATTATTTATTAATA
16596283 GTATATTATTTATTAATA
1 -TATATTATTTATTAATA
*
16596301 TAATATTGTTTAT
1 T-ATATTATTTAT
16596314 AAGTAAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
13 4 0.10
14 1 0.03
15 8 0.21
16 7 0.18
17 1 0.03
18 18 0.46
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TATATTATTTATTAATA
Found at i:16601203 original size:3 final size:3
Alignment explanation
Indices: 16601195--16601253 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
16601185 TAAAATACCA
16601195 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16601243 ATT ATT ATT AT
1 ATT ATT ATT AT
16601254 ATTGTTTACA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:16601435 original size:21 final size:22
Alignment explanation
Indices: 16601411--16601455 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
16601401 TTTAAAAAAA
*
16601411 TTATCATTTTTTTTA-TTTTAT
1 TTATCATTTATTTTATTTTTAT
16601432 TTATCATTTATTTTATTTTTAT
1 TTATCATTTATTTTATTTTTAT
16601454 TT
1 TT
16601456 TTTAGCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (22 bp):
TTATCATTTATTTTATTTTTAT
Found at i:16601621 original size:12 final size:12
Alignment explanation
Indices: 16601594--16601634 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
16601584 TTTAGGTCCA
16601594 TATTTTA-TTTT
1 TATTTTATTTTT
*
16601605 AATTTTATTTTT
1 TATTTTATTTTT
16601617 TATTTTATTTATT
1 TATTTTATTT-TT
16601630 TATTT
1 TATTT
16601635 CTAAAAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 6 0.23
12 13 0.50
13 7 0.27
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TATTTTATTTTT
Found at i:16601734 original size:20 final size:18
Alignment explanation
Indices: 16601689--16601758 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 18
16601679 TAATAATAAC
*
16601689 AATAATATCATAAAAATA
1 AATAAAATCATAAAAATA
*
16601707 TAAAAAAATCATTAAAAATA
1 -AATAAAATCA-TAAAAATA
*
16601727 ACATAAAAATCAACACAAAATA
1 A-AT-AAAATC-ATA-AAAATA
16601749 AATAAAATCA
1 AATAAAATCA
16601759 AAATAGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 10 0.24
20 15 0.36
21 9 0.21
22 8 0.19
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (18 bp):
AATAAAATCATAAAAATA
Found at i:16601734 original size:21 final size:19
Alignment explanation
Indices: 16601695--16601755 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 19
16601685 TAACAATAAT
16601695 ATCATAAAAATATAA-AAAA
1 ATCATAAAAATA-AATAAAA
16601714 ATCATTAAAAATAACATAAAA
1 ATCA-TAAAAATAA-ATAAAA
*
16601735 ATCAACACAAAATAAATAAAA
1 ATC-ATA-AAAATAAATAAAA
16601756 TCAAAATAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 5 0.14
20 9 0.25
21 14 0.39
22 8 0.22
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (19 bp):
ATCATAAAAATAAATAAAA
Found at i:16602292 original size:17 final size:17
Alignment explanation
Indices: 16602270--16602307 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
16602260 ATATTGAAAA
16602270 TTTTTG-TTTTGAAATTT
1 TTTTTGTTTTTG-AATTT
16602287 TTTTTGTTTTTGAATTT
1 TTTTTGTTTTTGAATTT
16602304 TTTT
1 TTTT
16602308 AACTTTACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.76
Consensus pattern (17 bp):
TTTTTGTTTTTGAATTT
Found at i:16602723 original size:3 final size:3
Alignment explanation
Indices: 16602712--16602771 Score: 111
Period size: 3 Copynumber: 19.7 Consensus size: 3
16602702 TGGCTTTTTT
16602712 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16602758 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
16602772 TAGAATTATA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 53 0.95
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16603061 original size:40 final size:39
Alignment explanation
Indices: 16603017--16603272 Score: 230
Period size: 40 Copynumber: 6.4 Consensus size: 39
16603007 AAAGGCAACA
16603017 AAACTTTAAATTCAAAAGACTCCTTTAACTAGAGGTAATG
1 AAACTTTAAATTCAAAAG-CTCCTTTAACTAGAGGTAATG
* *
16603057 AAACTTTAATTGTTAAAAGGCT-CTTCTAACTAGAGGTAATG
1 AAACTTTAAAT-TCAAAA-GCTCCTT-TAACTAGAGGTAATG
* * *
16603098 AAACTTTAAATTCAAAAGACTCCTTTGACCAAAGGTAAT-
1 AAACTTTAAATTCAAAAG-CTCCTTTAACTAGAGGTAATG
* * * * * * * * *
16603137 AACATTTTAATTTTAAAAGGCTCATTTGACCATAAGCAATG
1 AA-ACTTTAAATTCAAAA-GCTCCTTTAACTAGAGGTAATG
* * * *
16603178 AAACTTTAAATTCAAAAGCTTCTCTAACTAGTGGTAGTG
1 AAACTTTAAATTCAAAAGCTCCTTTAACTAGAGGTAATG
* * *
16603217 AAACTTTAAATTCAAAATGCTCC-CTAACTAGAGGCAATA
1 AAACTTTAAATTCAAAA-GCTCCTTTAACTAGAGGTAATG
16603256 AAACTTTAAATTCAAAA
1 AAACTTTAAATTCAAAA
16603273 TATGAGAGGA
Statistics
Matches: 175, Mismatches: 32, Indels: 19
0.77 0.14 0.08
Matches are distributed among these distances:
39 61 0.35
40 75 0.43
41 38 0.22
42 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (39 bp):
AAACTTTAAATTCAAAAGCTCCTTTAACTAGAGGTAATG
Found at i:16603112 original size:81 final size:80
Alignment explanation
Indices: 16603017--16603272 Score: 295
Period size: 81 Copynumber: 3.2 Consensus size: 80
16603007 AAAGGCAACA
16603017 AAACTTTAAATTCAAAAGACTCCTTTAACTAGAGGTAATGAAACTTTAATTGTTAAAAGGCTCTT
1 AAACTTTAAATTCAAAAGACTCCTTTAACTAGAGGTAATGAAACTTTAATT-TTAAAAGGCTCTT
*
16603082 CTAACTAGAGGTAATG
65 CTAACTAGAGGCAATG
* * * *
16603098 AAACTTTAAATTCAAAAGACTCCTTTGACCAAAGGTAAT-AACATTTTAATTTTAAAAGGCTCAT
1 AAACTTTAAATTCAAAAGACTCCTTTAACTAGAGGTAATGAA-ACTTTAATTTTAAAAGGCTC-T
* * * *
16603162 T-TGACCATAAGCAATG
64 TCTAACTAGAGGCAATG
* * * * * * * *
16603178 AAACTTTAAATTCAAAAG-CTTCTCTAACTAGTGGTAGTGAAACTTTAAATTCAAAATGCTC-CC
1 AAACTTTAAATTCAAAAGACTCCTTTAACTAGAGGTAATGAAACTTTAATTTTAAAAGGCTCTTC
*
16603241 TAACTAGAGGCAATA
66 TAACTAGAGGCAATG
16603256 AAACTTTAAATTCAAAA
1 AAACTTTAAATTCAAAA
16603273 TATGAGAGGA
Statistics
Matches: 145, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
78 27 0.19
79 29 0.20
80 43 0.30
81 46 0.32
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (80 bp):
AAACTTTAAATTCAAAAGACTCCTTTAACTAGAGGTAATGAAACTTTAATTTTAAAAGGCTCTTC
TAACTAGAGGCAATG
Found at i:16603224 original size:39 final size:39
Alignment explanation
Indices: 16603172--16603273 Score: 143
Period size: 39 Copynumber: 2.6 Consensus size: 39
16603162 TTGACCATAA
* *
16603172 GCAATGAAACTTTAAATTCAAAA-GCTTCTCTAACTAGTG
1 GCAATGAAACTTTAAATTCAAAATGC-TCCCTAACTAGAG
* *
16603211 GTAGTGAAACTTTAAATTCAAAATGCTCCCTAACTAGAG
1 GCAATGAAACTTTAAATTCAAAATGCTCCCTAACTAGAG
*
16603250 GCAATAAAACTTTAAATTCAAAAT
1 GCAATGAAACTTTAAATTCAAAAT
16603274 ATGAGAGGAC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 53 0.96
40 2 0.04
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (39 bp):
GCAATGAAACTTTAAATTCAAAATGCTCCCTAACTAGAG
Found at i:16603422 original size:34 final size:34
Alignment explanation
Indices: 16603379--16603505 Score: 101
Period size: 34 Copynumber: 3.6 Consensus size: 34
16603369 TTCTGACTAG
*
16603379 AGGCTATGAAACTTTAAATGGCTTCTTTGACCAA
1 AGGCAATGAAACTTTAAATGGCTTCTTTGACCAA
* * * *
16603413 AGGCAATGAAATTTTAAATTTAAAAGGCTTCTCTAACTAA
1 AGGCAATGAAACTTTAAA--T----GGCTTCTTTGACCAA
* * * *
16603453 AGGTAATGAAACATCAAATGGTTTCTTTGACCAA
1 AGGCAATGAAACTTTAAATGGCTTCTTTGACCAA
* *
16603487 AGGTAATGAAATTTTAAAT
1 AGGCAATGAAACTTTAAAT
16603506 TCAAAAGGCT
Statistics
Matches: 71, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
34 43 0.61
36 1 0.01
38 1 0.01
40 26 0.37
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (34 bp):
AGGCAATGAAACTTTAAATGGCTTCTTTGACCAA
Found at i:16603455 original size:40 final size:40
Alignment explanation
Indices: 16603398--16603591 Score: 184
Period size: 40 Copynumber: 5.0 Consensus size: 40
16603388 AACTTTAAAT
* * *
16603398 GGCTTCTTTGACCAAAGGCAATGAAATTTTAAATTTAAAA
1 GGCTTCTCTGACCAAAGGCAATGAAACTTTAAATTCAAAA
* * * *
16603438 GGCTTCTCTAACTAAAGGTAATGAAAC-----A-TCAAAT
1 GGCTTCTCTGACCAAAGGCAATGAAACTTTAAATTCAAAA
* * * *
16603472 GGTTTCTTTGACCAAAGGTAATGAAATTTTAAATTCAAAA
1 GGCTTCTCTGACCAAAGGCAATGAAACTTTAAATTCAAAA
* * *
16603512 GGCTTCTCTGACCAGAGGCAATGCAACTTTAAATTTAAAA
1 GGCTTCTCTGACCAAAGGCAATGAAACTTTAAATTCAAAA
* * * *
16603552 GGCTTCTCTAACTAGAGGCAACGAAACTTTAAATTCAAAA
1 GGCTTCTCTGACCAAAGGCAATGAAACTTTAAATTCAAAA
16603592 TCTAAGAGGC
Statistics
Matches: 123, Mismatches: 25, Indels: 12
0.77 0.16 0.08
Matches are distributed among these distances:
34 26 0.21
35 1 0.01
39 1 0.01
40 95 0.77
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (40 bp):
GGCTTCTCTGACCAAAGGCAATGAAACTTTAAATTCAAAA
Found at i:16616975 original size:20 final size:20
Alignment explanation
Indices: 16616960--16616998 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16616950 TTTTGAAGAC
16616960 ACGGTTGATTTTTTGAGAAA
1 ACGGTTGATTTTTTGAGAAA
*
16616980 ATGGTTGATTTTTTAGAGA
1 ACGGTTGATTTTTT-GAGA
16616999 GTTGGTGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.28, C:0.03, G:0.26, T:0.44
Consensus pattern (20 bp):
ACGGTTGATTTTTTGAGAAA
Found at i:16617593 original size:19 final size:18
Alignment explanation
Indices: 16617566--16617612 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
16617556 AATTACAGGT
*
16617566 TTTTCTTTTTCCATTTCCA
1 TTTTATTTTTCCATTT-CA
**
16617585 TTTTATTTTTTGATTTCA
1 TTTTATTTTTCCATTTCA
16617603 TTTTATTTTT
1 TTTTATTTTT
16617613 TATTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTATTTTTCCATTTCA
Found at i:16617617 original size:17 final size:17
Alignment explanation
Indices: 16617578--16617634 Score: 71
Period size: 17 Copynumber: 3.2 Consensus size: 17
16617568 TTCTTTTTCC
16617578 ATTTCCATTTTATTTTTT
1 ATTT-CATTTTATTTTTT
16617596 GATTTCATTTTATTTTTT
1 -ATTTCATTTTATTTTTT
*
16617614 ATTT-ATTTTGAGTTTTT
1 ATTTCATTTT-ATTTTTT
16617631 ATTT
1 ATTT
16617635 TGTTTGCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
16 5 0.14
17 14 0.39
18 13 0.36
19 4 0.11
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (17 bp):
ATTTCATTTTATTTTTT
Found at i:16617676 original size:18 final size:17
Alignment explanation
Indices: 16617591--16617675 Score: 66
Period size: 18 Copynumber: 4.8 Consensus size: 17
16617581 TCCATTTTAT
*
16617591 TTTTTGATTTCATTTT-AT
1 TTTTT-ATTT-ATTTTCAG
*
16617609 TTTTTATTTATTTTGAG
1 TTTTTATTTATTTTCAG
*
16617626 TTTTTATTT-TGTTTGCAA
1 TTTTTATTTAT-TTT-CAG
*
16617644 TTTTTATTTAATTTATTAG
1 TTTTTATTT-ATTT-TCAG
16617663 TTTTTATTTATTT
1 TTTTTATTTATTT
16617676 AATTGTTTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
16 6 0.11
17 17 0.30
18 19 0.34
19 12 0.21
20 2 0.04
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (17 bp):
TTTTTATTTATTTTCAG
Found at i:16618166 original size:38 final size:37
Alignment explanation
Indices: 16618124--16618197 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 37
16618114 CAAACCTTTT
* *
16618124 TTAAACAAAATCTCACCAAAATTATTGGGAGATTTGCC
1 TTAAACAAAATCTCACC-AAACTATTGGGAGACTTGCC
** * *
16618162 TTAAAGTAAGTCTTACCAAACTATTGGGAGACTTGC
1 TTAAACAAAATCTCACCAAACTATTGGGAGACTTGC
16618198 TAATTTTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
37 17 0.57
38 13 0.43
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (37 bp):
TTAAACAAAATCTCACCAAACTATTGGGAGACTTGCC
Found at i:16621841 original size:12 final size:11
Alignment explanation
Indices: 16621783--16621841 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
16621773 AGGTGTGCCA
16621783 AAAAAAAAGA-
1 AAAAAAAAGAC
16621793 AAAAAACAA-AC
1 AAAAAA-AAGAC
* *
16621804 AAAAAAAGGGC
1 AAAAAAAAGAC
* *
16621815 AAAAAAAATAT
1 AAAAAAAAGAC
16621826 AAAAAAAGAGAC
1 AAAAAAA-AGAC
16621838 AAAA
1 AAAA
16621842 GAGGAAAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
10 8 0.22
11 23 0.62
12 6 0.16
ACGTcount: A:0.80, C:0.07, G:0.10, T:0.03
Consensus pattern (11 bp):
AAAAAAAAGAC
Found at i:16622858 original size:120 final size:120
Alignment explanation
Indices: 16622624--16622901 Score: 299
Period size: 120 Copynumber: 2.3 Consensus size: 120
16622614 TTCATTTTAG
* * * * * *
16622624 TCATTCATCTTCGACCTTAACTCGATCTTGATCACTTTCAGACTCGTGACATTATTTCGGTCATT
1 TCATTCATCTTTGACCTTGACTCAATCTTGATCACTTTCAGACTCGTGACATCATCTCAGTCATT
* * * * * * *
16622689 CATCAATAACTTTGACTTGGTCTTAGTTACTTTTAGACTTGTAAAATTGTCTCAG-
66 CATCAATAACTTCGACTCGATCTTAGTTACATTCAAACTTATAAAATTGTC-CAGA
* * *
16622744 TTATTTATCTTTGACCTTGACTCAATCTTGATCACTTTCAGACTCGTGGCATCATCTCAGTCATT
1 TCATTCATCTTTGACCTTGACTCAATCTTGATCACTTTCAGACTCGTGACATCATCTCAGTCATT
* * *** *
16622809 CATCTATGAAC-TCGACTCGATCTTGGTTACATTCAAACTTATGGCATTGTCCCGA
66 CATCAAT-AACTTCGACTCGATCTTAGTTACATTCAAACTTATAAAATTGTCCAGA
* * *
16622864 TCATTCATCTATGACCTTGACTCAGTCTTGGTCACTTT
1 TCATTCATCTTTGACCTTGACTCAATCTTGATCACTTT
16622902 TAAACTTACG
Statistics
Matches: 129, Mismatches: 27, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
119 2 0.02
120 124 0.96
121 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (120 bp):
TCATTCATCTTTGACCTTGACTCAATCTTGATCACTTTCAGACTCGTGACATCATCTCAGTCATT
CATCAATAACTTCGACTCGATCTTAGTTACATTCAAACTTATAAAATTGTCCAGA
Found at i:16622927 original size:60 final size:60
Alignment explanation
Indices: 16622750--16622927 Score: 178
Period size: 60 Copynumber: 3.0 Consensus size: 60
16622740 TCAGTTATTT
* * * * ** * *
16622750 ATCTTTGACCTTGACTCAATCTTGATCACTTTCAGACTCGTGGCATCATCTCAGTCATTC
1 ATCTATGACCTTGACTCAGTCTTGGTCACTTTCAAACTTATGGCATCATCCCAATCATTC
* * * * ** *
16622810 ATCTATGAACTCGACTC-GATCTTGGTTACATTCAAACTTATGGCATTGTCCCGATCATTC
1 ATCTATGACCTTGACTCAG-TCTTGGTCACTTTCAAACTTATGGCATCATCCCAATCATTC
* * *
16622870 ATCTATGACCTTGACTCAGTCTTGGTCACTTTTAAACTTACGACATCATCCCAATCAT
1 ATCTATGACCTTGACTCAGTCTTGGTCACTTTCAAACTTATGGCATCATCCCAATCAT
16622928 CCGATCTTAA
Statistics
Matches: 91, Mismatches: 25, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
60 90 0.99
61 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (60 bp):
ATCTATGACCTTGACTCAGTCTTGGTCACTTTCAAACTTATGGCATCATCCCAATCATTC
Found at i:16623303 original size:120 final size:120
Alignment explanation
Indices: 16623135--16623397 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
16623125 CATTTCCTTT
* * * *
16623135 ACTCATGGCATCATCCCAGTTATTTATCTATGATCTCAACTTAGTTTTAGTCA-TTTTCAGATTT
1 ACTCATGGCATCATCCCAGTCATTTATCTATGACCTCAACTGAGTTTTAGTCACTTTT-AGACTT
* * * * *
16623199 GTGGCATCGT-TTCAGTCATTTATCTTTAACCTTAACTTGATCTTAGTTACTTTCAA
65 ATGGCATCGTCCT-AGTCATTCATCTTCAACCTCAACTTGATCTTAGTTACTTTCAA
* *
16623255 ACTCATGGCATCATCCTAGTCATTTATCTATGACCTCGACTCGA-TTTTAGTCACTTTTAGACTT
1 ACTCATGGCATCATCCCAGTCATTTATCTATGACCTCAACT-GAGTTTTAGTCACTTTTAGACTT
* * * * *
16623319 ATGGCATCGTCCTAGTCATTCATCTTCGATCTCGACTTGATCTTAGTTACTTTTAG
65 ATGGCATCGTCCTAGTCATTCATCTTCAACCTCAACTTGATCTTAGTTACTTTCAA
*
16623375 ACTCATGGCATCATCCCAATCAT
1 ACTCATGGCATCATCCCAGTCAT
16623398 CCGATTTCAG
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
120 116 0.95
121 6 0.05
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.41
Consensus pattern (120 bp):
ACTCATGGCATCATCCCAGTCATTTATCTATGACCTCAACTGAGTTTTAGTCACTTTTAGACTTA
TGGCATCGTCCTAGTCATTCATCTTCAACCTCAACTTGATCTTAGTTACTTTCAA
Found at i:16624160 original size:60 final size:60
Alignment explanation
Indices: 16623212--16624163 Score: 228
Period size: 60 Copynumber: 16.0 Consensus size: 60
16623202 GCATCGTTTC
* * * * * *
16623212 AGTCATTTATCTTTAACCTTAACTTGATCTTAGTTACTTTCAAACTCATGGCATCATCCT
1 AGTCATTCATCTTTGACCTTGACTTGATCTTAGTCACTTTTAGACTCATGGCATCATCCT
* * * * * * *
16623272 AGTCATTTATCTATGACCTCGACTCGATTTTAGTCACTTTTAGACTTATGGCATCGTCCT
1 AGTCATTCATCTTTGACCTTGACTTGATCTTAGTCACTTTTAGACTCATGGCATCATCCT
* * * * *
16623332 AGTCATTCATCTTCGATCTCGACTTGATCTTAGTTACTTTTAGACTCATGGCATCATCCC
1 AGTCATTCATCTTTGACCTTGACTTGATCTTAGTCACTTTTAGACTCATGGCATCATCCT
* * * * * * * * **
16623392 AATCATCCGA--TTTCAGCTT-A---GTTC-AAATCATTTTTAGACTCATAACATCATTCC-
1 AGTCATTC-ATCTTTGACCTTGACTTGATCTTAGTCACTTTTAGACTCATGGCATCA-TCCT
* * ** * * * * *
16623446 ACTTATTCATCTACGACCTCGA-TTTAGTTTTAGTCATTTTTAGACT--T-GCAAT-ATTGTCT
1 AGTCATTCATCTTTGACCTTGACTTGA-TCTTAGTCACTTTTAGACTCATGGC-ATCA-T-CCT
* *** * * ** * * *** *
16623505 CGATCATTCATCTACAACTTTGACTT-AGTCTTGGTTGCTTTCAGACTTACAACATTAT-CT
1 AG-TCATTCATCTTTGACCTTGACTTGA-TCTTAGTCACTTTTAGACTCATGGCATCATCCT
* * ** * * *
16623565 CGATCATTTAT-TTATGA-CTCCAACTTGGTCATAGTCACTTTTAGAGC-CATGGCATTAT-CT
1 AG-TCATTCATCTT-TGACCT-TGACTTGATCTTAGTCACTTTTAGA-CTCATGGCATCATCCT
* * ** * * * *
16623625 CGATCATACATCTTCAACCTTGACTAGATCTTAGTCACTTTTACACT--TGCAGTATCAT-TT
1 AG-TCATTCATCTTTGACCTTGACTTGATCTTAGTCACTTTTAGACTCATG--GCATCATCCT
* * * * * * *
16623685 CAATCATTCAT-TTATGACCTCGAC-TGATTTTTAGTCACTTTTAGACTCAAGACATTA-GCT
1 -AGTCATTCATCTT-TGACCTTGACTTGA-TCTTAGTCACTTTTAGACTCATGGCATCATCCT
* * * ** * * ** * * * * *
16623745 CGATCATTTATCTATGACCTCAAC-TCAGTTTTAGTTGCTTTCAAACTCGTGACATCAT-TT
1 AG-TCATTCATCTTTGACCTTGACTTGA-TCTTAGTCACTTTTAGACTCATGGCATCATCCT
* * * * * * * *
16623805 CGATCATTCATCTTCGACTTTGACTCGATCTTGGTCACTTTCAAACTCATGGCATCATCCC
1 AG-TCATTCATCTTTGACCTTGACTTGATCTTAGTCACTTTTAGACTCATGGCATCATCCT
* **
16623866 AGTTATTCAT-TTATGA-CTTCGACTT-AGTC-TAGGTTTCTTTTAGACTCATGGCATCATCCT
1 AGTCATTCATCTT-TGACCTT-GACTTGA-TCTTA-GTCACTTTTAGACTCATGGCATCATCCT
* * * * * * * * *
16623926 AGTCATTCATCTATGACC-TGAACTTGGTCTTGGTTACTTTCAAACTTATGGTATCATCTT
1 AGTCATTCATCTTTGACCTTG-ACTTGATCTTAGTCACTTTTAGACTCATGGCATCATCCT
* * * * * *** ** *
16623986 GGTCATTCATCATTGACCTTGACTT-AGTCTTGGTCGCTTTTAGACTCGTAATATTGTCTT
1 AGTCATTCATCTTTGACCTTGACTTGA-TCTTAGTCACTTTTAGACTCATGGCATCATCCT
* *** * * * *
16624046 AGTCATTCCTCTACAACCTTGACTTTATCTTAGTTACCTTTAGA-T-TTGCAGCATCATCCT
1 AGTCATTCATCTTTGACCTTGACTTGATCTTAGTCACTTTTAGACTCATG--GCATCATCCT
* * * *
16624106 AGTCATTTATCTTTGACATCGACTTGATCTTAGTCACTTTTAGACTCGTGGCATCATC
1 AGTCATTCATCTTTGACCTTGACTTGATCTTAGTCACTTTTAGACTCATGGCATCATC
16624164 TCGATCATTC
Statistics
Matches: 637, Mismatches: 201, Indels: 108
0.67 0.21 0.11
Matches are distributed among these distances:
53 1 0.00
54 25 0.04
55 10 0.02
56 1 0.00
57 4 0.01
58 8 0.01
59 21 0.03
60 541 0.85
61 18 0.03
62 6 0.01
63 2 0.00
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (60 bp):
AGTCATTCATCTTTGACCTTGACTTGATCTTAGTCACTTTTAGACTCATGGCATCATCCT
Found at i:16624392 original size:89 final size:90
Alignment explanation
Indices: 16624294--16624471 Score: 304
Period size: 90 Copynumber: 2.0 Consensus size: 90
16624284 TAGTCATCCA
16624294 ATCTTGACTCAATCCAAATTATTTTTTTGACTCACGACATCA-CTTGATCATTCATCTACGATCT
1 ATCTTGACTCAATCCAAATTATTTTTTTGACTCACGACATCATCTTGATCATTCATCTACGATCT
*
16624358 CAACTCGATTTTAGTCACTTTCAGG
66 CAACTCGATCTTAGTCACTTTCAGG
* *
16624383 ATCTTGACTCAATCTAAATTATTTTTTTGACTTACGACATCATCTTGATCATTCATCTACGATCT
1 ATCTTGACTCAATCCAAATTATTTTTTTGACTCACGACATCATCTTGATCATTCATCTACGATCT
* *
16624448 CGACTCGATCTTGGTCACTTTCAG
66 CAACTCGATCTTAGTCACTTTCAG
16624472 ACTCACGAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 40 0.48
90 43 0.52
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (90 bp):
ATCTTGACTCAATCCAAATTATTTTTTTGACTCACGACATCATCTTGATCATTCATCTACGATCT
CAACTCGATCTTAGTCACTTTCAGG
Found at i:16624493 original size:60 final size:60
Alignment explanation
Indices: 16624411--16624561 Score: 221
Period size: 60 Copynumber: 2.5 Consensus size: 60
16624401 TTATTTTTTT
* *
16624411 GACTTACGACATCATCTTGATCATTCATCTACGATCTCGACTCGATCTTGGTCACTTTCA
1 GACTTACGACATCATCTCGATCATTCATCTACGATCTCGACTCAATCTTGGTCACTTTCA
* * **
16624471 GACTCACGAAATCATCTCGATCATTCATCTGTGATCTCGACTCAATCTTGGTCACTTTCA
1 GACTTACGACATCATCTCGATCATTCATCTACGATCTCGACTCAATCTTGGTCACTTTCA
* *
16624531 GACTTACGACATCATCCCAATCATTCGATCT
1 GACTTACGACATCATCTCGATCATTC-ATCT
16624562 TAGCTCAATC
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
60 76 0.95
61 4 0.05
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (60 bp):
GACTTACGACATCATCTCGATCATTCATCTACGATCTCGACTCAATCTTGGTCACTTTCA
Found at i:16624719 original size:60 final size:60
Alignment explanation
Indices: 16624596--16624721 Score: 137
Period size: 60 Copynumber: 2.1 Consensus size: 60
16624586 AACTCATGGT
* * * * **
16624596 ATCATTTTGATTATTCATTTACGACTTTGACTTAGTCTTAGTCACTTTCAGACTGGCATC
1 ATCATCTTGATTATTCATTTACGACCTTGACTCAGTCTTAGTCACTTTCAAACTCACATC
* * * * *
16624656 ATCATCTTGGTTATTTATTTATGACCTTGACTCGGTCTTAGTCACTTTTAAACTCACGA-C
1 ATCATCTTGATTATTCATTTACGACCTTGACTCAGTCTTAGTCACTTTCAAACTCAC-ATC
16624716 ATCATC
1 ATCATC
16624722 CTAGTCATCC
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 53 0.98
61 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (60 bp):
ATCATCTTGATTATTCATTTACGACCTTGACTCAGTCTTAGTCACTTTCAAACTCACATC
Found at i:16625013 original size:120 final size:120
Alignment explanation
Indices: 16624885--16625117 Score: 312
Period size: 120 Copynumber: 1.9 Consensus size: 120
16624875 TAACTCATGA
* **
16624885 TTTCATCTTGATCAATCATCTTTGACCTTGACTC-AACCTTGGTCACTTTATCTTTAGACTCATG
1 TTTCATCTTGATCAATCATCTTTGACCTTGACTCGAACC-TGGTCACTTCATCTTTAGACTCACC
16624949 ATTTTGTCCTAGC-CATTCGATCTC-GACTTAGTCCAGATCA-CTTTCTTGACTTATTG
65 ATTTTGT-CTAGCTCATTCGATCTCAG-CTTAGTCCAGATCATCTTT-TTGACTTATTG
* ** *
16625005 TTTCATCTTGATCATTCATCTTTGACCTTGACTCGGTCCTGGTCGCTTCATCTTTAGACTCACCA
1 TTTCATCTTGATCAATCATCTTTGACCTTGACTCGAACCTGGTCACTTCATCTTTAGACTCACCA
* * *
16625070 TTTTGTCTTGCTTATTCGATCTCAGCTTAGTCTAGATCATCTTTTTGA
66 TTTTGTCTAGCTCATTCGATCTCAGCTTAGTCCAGATCATCTTTTTGA
16625118 ATTTTGACTT
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
119 4 0.04
120 88 0.89
121 7 0.07
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.43
Consensus pattern (120 bp):
TTTCATCTTGATCAATCATCTTTGACCTTGACTCGAACCTGGTCACTTCATCTTTAGACTCACCA
TTTTGTCTAGCTCATTCGATCTCAGCTTAGTCCAGATCATCTTTTTGACTTATTG
Found at i:16625296 original size:3 final size:3
Alignment explanation
Indices: 16625288--16625312 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16625278 GTCAATTTTC
16625288 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
16625313 CTACTACTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:16625435 original size:17 final size:17
Alignment explanation
Indices: 16625406--16625475 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
16625396 TATAGTGTTA
16625406 TATTATT-TT-TATTTT
1 TATTATTATTATATTTT
* *
16625421 TATTTTTATTATATTAT
1 TATTATTATTATATTTT
*
16625438 TATTATTATTATCA-TTA
1 TATTATTATTAT-ATTTT
16625455 TATTATTATTAT-TTTAT
1 TATTATTATTATATTT-T
16625472 TATT
1 TATT
16625476 TTACTTTCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
15 6 0.14
16 4 0.09
17 33 0.75
18 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTATTATTATATTTT
Found at i:16625435 original size:23 final size:23
Alignment explanation
Indices: 16625428--16625471 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
16625418 TTTTATTTTT
16625428 ATTATATTATTATTATTATTATC
1 ATTATATTATTATTATTATTATC
16625451 ATTATATTATTATTATT-TTAT
1 ATTATATTATTATTATTATTAT
16625472 TATTTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTATATTATTATTATTATTATC
Found at i:16625438 original size:3 final size:3
Alignment explanation
Indices: 16625406--16625475 Score: 83
Period size: 3 Copynumber: 24.3 Consensus size: 3
16625396 TATAGTGTTA
* * * *
16625406 TAT TAT TTT TAT TTT TAT TTT TAT TA- TAT TAT TAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16625453 TA- TAT TAT TAT TAT T-T TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
16625476 TTACTTTCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
2 6 0.11
3 50 0.89
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:16625938 original size:20 final size:20
Alignment explanation
Indices: 16625915--16625969 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
16625905 GATTTTAGAA
16625915 TTCTGGGTTCA-ATTTGAAGT
1 TTCTGGGTTCAGATTT-AAGT
* *
16625935 TTCTAGGTT-AGATTTAGGT
1 TTCTGGGTTCAGATTTAAGT
16625954 TTCTGGGATTCAGATT
1 TTCTGGG-TTCAGATT
16625970 AGAATTTTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 10 0.34
20 14 0.48
21 5 0.17
ACGTcount: A:0.20, C:0.09, G:0.25, T:0.45
Consensus pattern (20 bp):
TTCTGGGTTCAGATTTAAGT
Found at i:16626470 original size:18 final size:18
Alignment explanation
Indices: 16626426--16626475 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
16626416 CCTTTTTTCA
**
16626426 TTTTCATTTTATTTTTCG
1 TTTTCATTTTATTTTGAG
*
16626444 ATTTCATTTTATTTTGAG
1 TTTTCATTTTATTTTGAG
*
16626462 TTTTTATTTTATTT
1 TTTTCATTTTATTT
16626476 AATTTTACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.72
Consensus pattern (18 bp):
TTTTCATTTTATTTTGAG
Found at i:16626512 original size:25 final size:25
Alignment explanation
Indices: 16626460--16626506 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
16626450 TTTTATTTTG
*
16626460 AGTTTTTATTTTATTTAATTTTACT
1 AGTTTTTATTTTATTTAATTGTACT
16626485 AGTTTTTA-TTTATTTAATTGTA
1 AGTTTTTATTTTATTTAATTGTA
16626507 TTTAGTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (25 bp):
AGTTTTTATTTTATTTAATTGTACT
Found at i:16626832 original size:12 final size:12
Alignment explanation
Indices: 16626796--16626835 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
16626786 AATAAATTTC
*
16626796 AAAAAGCAAAAAC
1 AAAAA-CAAAAAT
16626809 AAAAACAAAAAT
1 AAAAACAAAAAT
*
16626821 AAAAATAAAAAT
1 AAAAACAAAAAT
16626833 AAA
1 AAA
16626836 TAATTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 20 0.80
13 5 0.20
ACGTcount: A:0.82, C:0.07, G:0.03, T:0.07
Consensus pattern (12 bp):
AAAAACAAAAAT
Found at i:16626882 original size:3 final size:3
Alignment explanation
Indices: 16626876--16626929 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
16626866 TTATTACTAG
* *
16626876 TAA TAA T-A TAA -AA TAA CAA GAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16626922 TAA TAA TA
1 TAA TAA TA
16626930 TCATAAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:16627855 original size:3 final size:3
Alignment explanation
Indices: 16627849--16627887 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
16627839 TCTTTTTTAC
16627849 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16627888 GAAAATTGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16630909 original size:21 final size:22
Alignment explanation
Indices: 16630869--16630910 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
16630859 CAATTATATA
*
16630869 AAGTAAGAAAGTGTAACCTAAG
1 AAGTAAGAAAGTGCAACCTAAG
*
16630891 AAGTATGAAA-TGCAACCTAA
1 AAGTAAGAAAGTGCAACCTAA
16630911 TATAAATGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (22 bp):
AAGTAAGAAAGTGCAACCTAAG
Found at i:16631566 original size:39 final size:39
Alignment explanation
Indices: 16631515--16631592 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
16631505 AAATGTAATG
16631515 TGCTTGAATTAATTTAAGAATTGAAATTTAATTAACTAA
1 TGCTTGAATTAATTTAAGAATTGAAATTTAATTAACTAA
16631554 TGCTTGAATTAATTTAAGAATTGAAATTTAATTAACTAA
1 TGCTTGAATTAATTTAAGAATTGAAATTTAATTAACTAA
16631593 CTAGTGTAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (39 bp):
TGCTTGAATTAATTTAAGAATTGAAATTTAATTAACTAA
Found at i:16632177 original size:17 final size:18
Alignment explanation
Indices: 16632145--16632181 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
16632135 AAGTAAAATT
*
16632145 AACTTGAAATTGAATTGA
1 AACTTGAAATTAAATTGA
16632163 AACTTG-AATTAAATTGA
1 AACTTGAAATTAAATTGA
16632180 AA
1 AA
16632182 ATAAAGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (18 bp):
AACTTGAAATTAAATTGA
Found at i:16634797 original size:160 final size:160
Alignment explanation
Indices: 16634445--16634755 Score: 394
Period size: 160 Copynumber: 1.9 Consensus size: 160
16634435 TTTCTTCAAC
* * * * * * * * * *
16634445 GTGTGAAAATGTTACATTTTATGTAATTTTAGCACTTTTTGTGTTGAT-AAAAGGCAAAAATGTA
1 GTGTAAAAATGTTATAGTTTATATATTTTTAGCA-TTTTTATGCT-ATCAAAGGGTAAAAATATA
16634509 AATTTGCTACTATATTTTTGTTTTAAAAGCTTAGATAGCTCTAATACATGATATTAAACTTATCC
64 AATTTGCTACTATATTTTTGTTTTAAAAGCTTAGATAGCTCTAATACATGATATTAAACTTATCC
* *
16634574 GAATGGTTGAACTTAGCTGCCACACTCGATAT
129 AAATGATTGAACTTAGCTGCCACACTCGATAT
*
16634606 GTGTAAAAATGTTATAGTTTATATGTTTTTAGCATTTTTATGCTATCAAAGGGTAAAAATATAAA
1 GTGTAAAAATGTTATAGTTTATATATTTTTAGCATTTTTATGCTATCAAAGGGTAAAAATATAAA
** * * * *
16634671 TTTTTTGCTATATTTTTGTTTTCAAAGTTTAGATAGCT-TGAATACATGATATTAAACTTATTCA
66 TTTGCTACTATATTTTTGTTTTAAAAGCTTAGATAGCTCT-AATACATGATATTAAACTTATCCA
16634735 AATGATT-AACCTTAGCTGCCA
130 AATGATTGAA-CTTAGCTGCCA
16634756 AGTTTGATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
159 5 0.04
160 95 0.74
161 28 0.22
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.41
Consensus pattern (160 bp):
GTGTAAAAATGTTATAGTTTATATATTTTTAGCATTTTTATGCTATCAAAGGGTAAAAATATAAA
TTTGCTACTATATTTTTGTTTTAAAAGCTTAGATAGCTCTAATACATGATATTAAACTTATCCAA
ATGATTGAACTTAGCTGCCACACTCGATAT
Found at i:16635333 original size:23 final size:23
Alignment explanation
Indices: 16635310--16635369 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
16635300 AATAAAAAAG
16635310 AGAAACAAAGTGTGCTAGACAAGA
1 AGAAA-AAAGTGTGCTAGACAAGA
* * *
16635334 AGAGAGAAGTGTGCTAGA-ATGA
1 AGAAAAAAGTGTGCTAGACAAGA
*
16635356 ATAAAAAATGTGTG
1 AGAAAAAA-GTGTG
16635370 AGAATGTTCC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 8 0.28
23 17 0.59
24 4 0.14
ACGTcount: A:0.47, C:0.07, G:0.28, T:0.18
Consensus pattern (23 bp):
AGAAAAAAGTGTGCTAGACAAGA
Found at i:16635334 original size:21 final size:23
Alignment explanation
Indices: 16635310--16635351 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
16635300 AATAAAAAAG
16635310 AGAA-ACA-AAGTGTGCTAGACA
1 AGAAGACAGAAGTGTGCTAGACA
*
16635331 AGAAGAGAGAAGTGTGCTAGA
1 AGAAGACAGAAGTGTGCTAGA
16635352 ATGAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 2 0.11
23 12 0.67
ACGTcount: A:0.45, C:0.10, G:0.31, T:0.14
Consensus pattern (23 bp):
AGAAGACAGAAGTGTGCTAGACA
Found at i:16635840 original size:182 final size:182
Alignment explanation
Indices: 16635533--16635899 Score: 551
Period size: 182 Copynumber: 2.0 Consensus size: 182
16635523 CTTTATTATT
*
16635533 ATGGTAAATACTTGTTACTTTATTCTGTAGGTTCTTGAGAACACTAGTGATTATGGTGGAAAAAT
1 ATGGTAAATACTTGTTACTTTATTCTGTAGGTTCTTGAGAACACTAGTGACTATGGTGGAAAAAT
16635598 CCTTCATCAAATTGTAGTGCTCCAACTCTTAGCAATCATCAATTTCATACTTTTTGAATTTTTGC
66 CCTTCATCAAATTGTAGTGCTCCAACTCTTAGCAATCATCAATTTCATACTTTTTGAATTTTTGC
* *
16635663 TTAATTTATGCAATTCGAAAACAAGTTGAATTTTATTGTATTTAACTTTTTA
131 TTAATTTATACAATTCGAAAACAAGTTGAATGTTATTGTATTTAACTTTTTA
* *
16635715 ATGGTAAATACTTGTTACTTTATTTTGTAGGTTCTTGAGCACACTTA-TGACTATGGTGGAAAAA
1 ATGGTAAATACTTGTTACTTTATTCTGTAGGTTCTTGAGAACAC-TAGTGACTATGGTGG-AAAA
* * * * * *
16635779 ATCCTTCATTAAATTGTAGTGTTCCAACT-TTCGGCAGTC-TCGATTTCATGCTTTTTGAATTTT
64 ATCCTTCATCAAATTGTAGTGCTCCAACTCTT-AGCAATCATCAATTTCATACTTTTTGAATTTT
* * * *
16635842 TGCTTAATTTATATAATTTGAAAGCGAGTTGAATGTTATTGTATTTAACTTTTTA
128 TGCTTAATTTATACAATTCGAAAACAAGTTGAATGTTATTGTATTTAACTTTTTA
16635897 ATG
1 ATG
16635900 TACTAAAATA
Statistics
Matches: 167, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
182 129 0.77
183 38 0.23
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (182 bp):
ATGGTAAATACTTGTTACTTTATTCTGTAGGTTCTTGAGAACACTAGTGACTATGGTGGAAAAAT
CCTTCATCAAATTGTAGTGCTCCAACTCTTAGCAATCATCAATTTCATACTTTTTGAATTTTTGC
TTAATTTATACAATTCGAAAACAAGTTGAATGTTATTGTATTTAACTTTTTA
Found at i:16636362 original size:33 final size:33
Alignment explanation
Indices: 16636294--16636365 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
16636284 AAACACCATA
*
16636294 AAATTTAATGGTGTCTGTATAAAAAAGATCGTT
1 AAATTTAATGGTGTCTGTATAAAAAAGATCATT
* * * *
16636327 AAATTTTATGGTGTTTGTATCTAAAACG-TCATT
1 AAATTTAATGGTGTCTGTAT-AAAAAAGATCATT
16636360 AAATTT
1 AAATTT
16636366 CTCAATGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 28 0.85
34 5 0.15
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (33 bp):
AAATTTAATGGTGTCTGTATAAAAAAGATCATT
Found at i:16636857 original size:17 final size:19
Alignment explanation
Indices: 16636826--16636868 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
16636816 TATTTTATTC
16636826 TATATCACATGAT-AATAAA
1 TATAT-ACATGATAAATAAA
*
16636845 T-TATACATTATAAATAAA
1 TATATACATGATAAATAAA
16636863 TATATA
1 TATATA
16636869 AGAGGTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 5 0.24
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (19 bp):
TATATACATGATAAATAAA
Found at i:16637189 original size:88 final size:87
Alignment explanation
Indices: 16637069--16637241 Score: 265
Period size: 88 Copynumber: 2.0 Consensus size: 87
16637059 TATATTTTAC
* * * *
16637069 AAAAGCAAAACAAAAAATTATTCTAAATAACATTTATAATAATAAAATATTATATAATTTTATGT
1 AAAAGCAAAACAAAAAAATATTCTAAATAACATTTATAACAATAAAATATTATACAATTTTATCT
16637134 AAATAACATGATAAGATTTTGT
66 AAATAACATGATAAGATTTTGT
* **
16637156 AAAAGTAAAACAAAAAAAATATTCTAAATAACATTTATGGCAATAAAATATTATACAATTTTATC
1 AAAAGCAAAAC-AAAAAAATATTCTAAATAACATTTATAACAATAAAATATTATACAATTTTATC
*
16637221 TAAATAACATTATAAGATTTT
65 TAAATAACATGATAAGATTTT
16637242 AATCCTAAAC
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
87 10 0.13
88 67 0.87
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (87 bp):
AAAAGCAAAACAAAAAAATATTCTAAATAACATTTATAACAATAAAATATTATACAATTTTATCT
AAATAACATGATAAGATTTTGT
Found at i:16638183 original size:22 final size:22
Alignment explanation
Indices: 16638155--16638196 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16638145 TTGGAAATTT
*
16638155 CACATTTTAGCAAGATGTTTTG
1 CACATTTTAGCAACATGTTTTG
*
16638177 CACATTTTAGTAACATGTTT
1 CACATTTTAGCAACATGTTT
16638197 CAAGACATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (22 bp):
CACATTTTAGCAACATGTTTTG
Found at i:16639136 original size:30 final size:28
Alignment explanation
Indices: 16639097--16639194 Score: 101
Period size: 28 Copynumber: 3.4 Consensus size: 28
16639087 GAGTATCTGC
16639097 TCCACCAAAAGTCTCATAAAGAGTCCTTA-T
1 TCCACCAAAA-TCTC-TAAAGAGT-CTTAGT
* *
16639127 TCCATCAAAAATCTTCTAAAAAGTCTTAGT
1 TCCA-CCAAAATC-TCTAAAGAGTCTTAGT
*
16639157 TCTACCAAAA-CTCCTAAAGAGTCTTAGT
1 TCCACCAAAATCT-CTAAAGAGTCTTAGT
16639185 TCCACCAAAA
1 TCCACCAAAA
16639195 CCTTGTTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
27 1 0.02
28 24 0.41
29 9 0.16
30 17 0.29
31 7 0.12
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.28
Consensus pattern (28 bp):
TCCACCAAAATCTCTAAAGAGTCTTAGT
Found at i:16639966 original size:19 final size:20
Alignment explanation
Indices: 16639916--16639967 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
16639906 TCTTACCTTG
* *
16639916 ATTTGGTTTTCCTATTTTGA
1 ATTTGGTATTCCTACTTTGA
* *
16639936 A-TTGGAAATCCTACTTT-A
1 ATTTGGTATTCCTACTTTGA
16639954 ATTTGGTATTCCTA
1 ATTTGGTATTCCTA
16639968 TCTAAGGTAG
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 2 0.08
19 22 0.88
20 1 0.04
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.50
Consensus pattern (20 bp):
ATTTGGTATTCCTACTTTGA
Found at i:16640546 original size:52 final size:52
Alignment explanation
Indices: 16640488--16640593 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
16640478 AAGGTTATTT
* *
16640488 AGCTTTTGTTTTGCTTAATTTGAGATTCTAAAGTTTAATTTAGTTAATTTTA
1 AGCTTTTATTTTGCTTAATTTGACATTCTAAAGTTTAATTTAGTTAATTTTA
*
16640540 AGCTTTTATTTTGCTTAATTTGACATTTTAAAGTTTAATTTAGTTAATTTTA
1 AGCTTTTATTTTGCTTAATTTGACATTCTAAAGTTTAATTTAGTTAATTTTA
16640592 AG
1 AG
16640594 TTTGATTCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (52 bp):
AGCTTTTATTTTGCTTAATTTGACATTCTAAAGTTTAATTTAGTTAATTTTA
Found at i:16642981 original size:145 final size:147
Alignment explanation
Indices: 16642608--16642993 Score: 383
Period size: 145 Copynumber: 2.7 Consensus size: 147
16642598 ACCTTAATCC
* * * * *
16642608 TATAATATTTCATGA-TTTTGATGCATTTAAAATCACAACGGTACCTCAAGGAGTCTGAAATTAT
1 TATAATATTTCATGATTTTTGATGCATTTGAAATCATAACAGTACCTCAAGAAGTGTGAAATTAT
* * ** * *
16642672 CAAAATACCTTTATAAGGGTATTTTTGTAA-TTTGACATTCTTGAGCTCAAAATTTTATGAAACT
66 CAAAATACCCTTATAGGGGTATTTTCATAATTTTGACATTCTTAAGCTCAAAATTTCATGAAACT
* *
16642736 TTCTAGATCTCACATTT
131 CTCCAGATCTCACATTT
* * * * ** *
16642753 TGTAACATTTCATGATTTTTGGTG-AGTTTGGAATCATAGTAGTATCCT-AAAAAGTGTGAAATT
1 TATAATATTTCATGATTTTTGATGCA-TTTGAAATCATAACAGTA-CCTCAAGAAGTGTGAAATT
* * * * **
16642816 ACCAAAATA-CCTTTTGAGGGGTATTTTCATAATTTTGCCTTTC-TAAGCTTGAAATTTCATGAA
64 ATCAAAATACCCTTAT-AGGGGTATTTTCATAATTTTGACATTCTTAAGCTCAAAATTTCATGAA
*
16642879 ACTCTCCAGATC-CTA-GTTT
128 ACTCTCCAGATCTC-ACATTT
* * * *
16642898 TATAGTATTTCATGATTTTTGATGCATTTGAAATTATAACAGTACCTCGAGAAGTGTAAAATTAT
1 TATAATATTTCATGATTTTTGATGCATTTGAAATCATAACAGTACCTCAAGAAGTGTGAAATTAT
* *
16642963 GAAAATACCCTCATAGGGGTATTTTCATAAT
66 CAAAATACCCTTATAGGGGTATTTTCATAAT
16642994 CTAGCATTTT
Statistics
Matches: 190, Mismatches: 42, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
144 3 0.02
145 92 0.48
146 84 0.44
147 11 0.06
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.39
Consensus pattern (147 bp):
TATAATATTTCATGATTTTTGATGCATTTGAAATCATAACAGTACCTCAAGAAGTGTGAAATTAT
CAAAATACCCTTATAGGGGTATTTTCATAATTTTGACATTCTTAAGCTCAAAATTTCATGAAACT
CTCCAGATCTCACATTT
Found at i:16643479 original size:24 final size:24
Alignment explanation
Indices: 16643425--16643479 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
16643415 GGGGAAAGTT
* *
16643425 TATAAAAGAAAAGGGGAACAAAAA
1 TATAAATGAAAAAGGGAACAAAAA
* *
16643449 CACAAATGAAAAAGGGAAGC-AAAA
1 TATAAATGAAAAAGGGAA-CAAAAA
16643473 TATAAAT
1 TATAAAT
16643480 TATTTGAAAG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.64, C:0.07, G:0.18, T:0.11
Consensus pattern (24 bp):
TATAAATGAAAAAGGGAACAAAAA
Found at i:16648905 original size:20 final size:20
Alignment explanation
Indices: 16648882--16648937 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
16648872 TTTGATCGAT
16648882 TTTGATCAATTTTGACAAAG
1 TTTGATCAATTTTGACAAAG
** *
16648902 TTTGAT-TTTGTTTGACTAAG
1 TTTGATCAAT-TTTGACAAAG
*
16648922 TTTGATCAAGTTTGAC
1 TTTGATCAATTTTGAC
16648938 CTTAAGGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.46
Consensus pattern (20 bp):
TTTGATCAATTTTGACAAAG
Found at i:16649386 original size:89 final size:89
Alignment explanation
Indices: 16649235--16649409 Score: 235
Period size: 89 Copynumber: 2.0 Consensus size: 89
16649225 GCTCCACTAA
* * *
16649235 TCATAGGAAAATGATTTTAAAAATCTATTTTTGAAAAATGCTCCTATAAATATAGGCAAGTGACT
1 TCATAGGAAAATGACTTTAAAAATCTATTTTTGAAAAATGCTCCTATAAACACAGGCAAGTGACT
*
16649300 TTGAAAATCTCTGTTT-GAAAATTG
66 TTAAAAATCTCT-TTTAGAAAATTG
* * * * * **
16649324 TCATAGGTAAGTGACTTTAAAATTTTCTTTTTGAAAAATGCTTTTATAAACACAGGCAAGTGACT
1 TCATAGGAAAATGACTTTAAAAATCTATTTTTGAAAAATGCTCCTATAAACACAGGCAAGTGACT
16649389 TTAAAAATCTCTTTTAGAAAA
66 TTAAAAATCTCTTTTAGAAAA
16649410 GTGCTCTTAT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 3 0.04
89 71 0.96
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.37
Consensus pattern (89 bp):
TCATAGGAAAATGACTTTAAAAATCTATTTTTGAAAAATGCTCCTATAAACACAGGCAAGTGACT
TTAAAAATCTCTTTTAGAAAATTG
Found at i:16649388 original size:49 final size:49
Alignment explanation
Indices: 16649332--16649520 Score: 209
Period size: 49 Copynumber: 3.8 Consensus size: 49
16649322 TGTCATAGGT
* * * * *
16649332 AAGTGACTTTAAAATTTTCTTTTTGAAAAATGCTTTTATAAACACAGGC
1 AAGTGACTTTAAAAATCTCATTTTGAAAAGTGCTCTTATAAACACAGGC
*
16649381 AAGTGACTTTAAAAATCTC-TTTTAGAAAAGTGCTCTTATAAACACAAGC
1 AAGTGACTTTAAAAATCTCATTTT-GAAAAGTGCTCTTATAAACACAGGC
* * * * * * * *
16649430 AAATAATTTTAAAATTCTCATTTTGAAAAGGTGCTCCTAAAAACATAGAC
1 AAGTGACTTTAAAAATCTCATTTTGAAAA-GTGCTCTTATAAACACAGGC
*
16649480 AATTGACTTTAAAAATCTCATTTTGAAAAGGTGCTCTTATA
1 AAGTGACTTTAAAAATCTCATTTTGAAAA-GTGCTCTTATA
16649521 GATATAAGTG
Statistics
Matches: 117, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
48 4 0.03
49 59 0.50
50 54 0.46
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (49 bp):
AAGTGACTTTAAAAATCTCATTTTGAAAAGTGCTCTTATAAACACAGGC
Found at i:16649509 original size:99 final size:99
Alignment explanation
Indices: 16649339--16649520 Score: 251
Period size: 99 Copynumber: 1.8 Consensus size: 99
16649329 GGTAAGTGAC
* * ** * *
16649339 TTTAAAATTTTCTTTTTGAAAAATGCTTTTATAAACACAGGCAAGTGACTTTAAAAATCTCTTTT
1 TTTAAAATTCTCATTTTGAAAAATGCTCCTAAAAACACAGACAAGTGACTTTAAAAATCTCTTTT
16649404 AGAAAA-GTGCTCTTATAAACACAAGCAAATAAT
66 AGAAAAGGTGCTCTTATAAACACAAGCAAATAAT
* * *
16649437 TTTAAAATTCTCATTTTGAAAAGGTGCTCCTAAAAACATAGACAATTGACTTTAAAAATCTCATT
1 TTTAAAATTCTCATTTTGAAAA-ATGCTCCTAAAAACACAGACAAGTGACTTTAAAAATCTC-TT
16649502 TT-GAAAAGGTGCTCTTATA
64 TTAGAAAAGGTGCTCTTATA
16649521 GATATAAGTG
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
98 20 0.28
99 37 0.51
100 15 0.21
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.36
Consensus pattern (99 bp):
TTTAAAATTCTCATTTTGAAAAATGCTCCTAAAAACACAGACAAGTGACTTTAAAAATCTCTTTT
AGAAAAGGTGCTCTTATAAACACAAGCAAATAAT
Found at i:16649573 original size:38 final size:36
Alignment explanation
Indices: 16649499--16649582 Score: 105
Period size: 38 Copynumber: 2.3 Consensus size: 36
16649489 TAAAAATCTC
* * **
16649499 ATTTTGAAAAGGTGCTCTTATAGATATAAGTGAGTA
1 ATTTTGAAAAGGTGCTCCTATAAATATAAGCAAGTA
16649535 ACTTTTCGAAAAGGTGCTCCTATAAATATAAGCAAGTA
1 A-TTTT-GAAAAGGTGCTCCTATAAATATAAGCAAGTA
*
16649573 ATTTTAAAAA
1 ATTTTGAAAA
16649583 TCTCTTTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
36 5 0.12
37 8 0.20
38 28 0.68
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (36 bp):
ATTTTGAAAAGGTGCTCCTATAAATATAAGCAAGTA
Found at i:16649609 original size:49 final size:49
Alignment explanation
Indices: 16649536--16649795 Score: 283
Period size: 49 Copynumber: 5.2 Consensus size: 49
16649526 AAGTGAGTAA
* * *
16649536 CTTTTCGAAAAGGTGCTCCTATAAATATAAGCAAGTAATTTTAAAAATCT
1 CTTTTCGAAAA-GTGCTTCTATAAATATAGGCAAGTAACTTTAAAAATCT
* * * *
16649586 CTTTTTGAAAAGTGCTTCTATAAAAATAGGCAAGTGATTTTAAAAATCT
1 CTTTTCGAAAAGTGCTTCTATAAATATAGGCAAGTAACTTTAAAAATCT
* * *
16649635 CTTTTGGAAAAAGCTG-TTCCTATAAATATAGGAAATTAACTTTAAAAATCT
1 CTTTTCG-AAAAG-TGCTT-CTATAAATATAGGCAAGTAACTTTAAAAATCT
*
16649686 CTTTTCGAAAAGTGCTTCTATAAATATAGGCAAGTTACTTTAAAAATCT
1 CTTTTCGAAAAGTGCTTCTATAAATATAGGCAAGTAACTTTAAAAATCT
* * * * * * *
16649735 CTTTTTGAAAAGTACTCCTATGAAGATAGGCAACG-AGCTTAAAAAATCT
1 CTTTTCGAAAAGTGCTTCTATAAATATAGGCAA-GTAACTTTAAAAATCT
16649784 CATTTT-GAAAAG
1 C-TTTTCGAAAAG
16649796 GGCTCTTATG
Statistics
Matches: 181, Mismatches: 23, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
49 117 0.65
50 29 0.16
51 35 0.19
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (49 bp):
CTTTTCGAAAAGTGCTTCTATAAATATAGGCAAGTAACTTTAAAAATCT
Found at i:16649647 original size:138 final size:137
Alignment explanation
Indices: 16649399--16649645 Score: 347
Period size: 138 Copynumber: 1.8 Consensus size: 137
16649389 TTAAAAATCT
* *
16649399 CTTTTAGAAAAGTGCTCTTATAAACACAAGCAAATAATTTTAAAATTCTCATTTTGAAAAGGTGC
1 CTTTTAGAAAAGTGCTCCTATAAACACAAGCAAATAATTTTAAAAATCTCATTTTGAAAAGGTGC
*
16649464 TCCTAAAAACATAGACAATTGACTTTAAAAATCTCATTTTGAAAAGGTGCTCTTATAGATATAAG
66 TCCTAAAAACATAGACAAGTGACTTTAAAAATCTCATTTTGAAAAGGTGCTCTTATAGATATAAG
16649529 TGAGTAA
131 TGAGTAA
* * * * *
16649536 CTTTTCGAAAAGGTGCTCCTATAAATATAAGCAAGTAATTTTAAAAATCTCTTTTTGAAAA-GTG
1 CTTTTAGAAAA-GTGCTCCTATAAACACAAGCAAATAATTTTAAAAATCTCATTTTGAAAAGGTG
* * *
16649600 CTTCTATAAAA-ATAGGCAAGTGATTTTAAAAATCTC-TTTTGGAAAA
65 CTCCTA-AAAACATAGACAAGTGACTTTAAAAATCTCATTTT-GAAAA
16649646 AGCTGTTCCT
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
136 4 0.04
137 45 0.47
138 47 0.49
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (137 bp):
CTTTTAGAAAAGTGCTCCTATAAACACAAGCAAATAATTTTAAAAATCTCATTTTGAAAAGGTGC
TCCTAAAAACATAGACAAGTGACTTTAAAAATCTCATTTTGAAAAGGTGCTCTTATAGATATAAG
TGAGTAA
Found at i:16649675 original size:138 final size:137
Alignment explanation
Indices: 16649399--16649677 Score: 330
Period size: 138 Copynumber: 2.0 Consensus size: 137
16649389 TTAAAAATCT
* *
16649399 CTTTTAGAAAAGTGCTCTTATAAACACAAGCAAATAATTTTAAAATTCTCATTTTGAAAAGGTGC
1 CTTTTAGAAAAGTGCTCCTATAAACACAAGCAAATAATTTTAAAAATCTCATTTTGAAAAGGTGC
* * * *
16649464 TCCTAAAAACATAGACAATTGACTTTAAAAATCTCATTTTGAAAAGGTGCTCTTATAGATATAAG
66 TCCTAAAAACATAGACAAGTGACTTTAAAAATCTCATTTTGAAAAGCTGCTCCTATAAATATAAG
**
16649529 TGAGTAA
131 AAAGTAA
* * * * *
16649536 CTTTTCGAAAAGGTGCTCCTATAAATATAAGCAAGTAATTTTAAAAATCTCTTTTTGAAAA-GTG
1 CTTTTAGAAAA-GTGCTCCTATAAACACAAGCAAATAATTTTAAAAATCTCATTTTGAAAAGGTG
* * * *
16649600 CTTCTATAAAA-ATAGGCAAGTGATTTTAAAAATCTC-TTTTGGAAAAAGCTGTTCCTATAAATA
65 CTCCTA-AAAACATAGACAAGTGACTTTAAAAATCTCATTTT-G-AAAAGCTGCTCCTATAAATA
* *
16649663 TAGGAAATTAA
127 TAAGAAAGTAA
16649674 CTTT
1 CTTT
16649678 AAAAATCTCT
Statistics
Matches: 119, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
136 4 0.03
137 41 0.34
138 74 0.62
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (137 bp):
CTTTTAGAAAAGTGCTCCTATAAACACAAGCAAATAATTTTAAAAATCTCATTTTGAAAAGGTGC
TCCTAAAAACATAGACAAGTGACTTTAAAAATCTCATTTTGAAAAGCTGCTCCTATAAATATAAG
AAAGTAA
Found at i:16649716 original size:100 final size:100
Alignment explanation
Indices: 16649543--16649745 Score: 307
Period size: 100 Copynumber: 2.0 Consensus size: 100
16649533 TAACTTTTCG
* * * *
16649543 AAAAGGTGCTCCTATAAATATAAGCAAGTAATTTTAAAAATCTCTTTTTGAAAAGTGCTTCTATA
1 AAAAGCTGCTCCTATAAATATAAGAAAGTAACTTTAAAAATCTCTTTTCGAAAAGTGCTTCTATA
*
16649608 AAAATAGGCAAGTGATTTTAAAAATCTCTTTTGGA
66 AAAATAGGCAAGTGACTTTAAAAATCTCTTTTGGA
* * *
16649643 AAAAGCTGTTCCTATAAATATAGGAAATTAACTTTAAAAATCTCTTTTCGAAAAGTGCTTCTATA
1 AAAAGCTGCTCCTATAAATATAAGAAAGTAACTTTAAAAATCTCTTTTCGAAAAGTGCTTCTATA
* * *
16649708 AATATAGGCAAGTTACTTTAAAAATCTCTTTTTGA
66 AAAATAGGCAAGTGACTTTAAAAATCTCTTTTGGA
16649743 AAA
1 AAA
16649746 GTACTCCTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (100 bp):
AAAAGCTGCTCCTATAAATATAAGAAAGTAACTTTAAAAATCTCTTTTCGAAAAGTGCTTCTATA
AAAATAGGCAAGTGACTTTAAAAATCTCTTTTGGA
Found at i:16649816 original size:98 final size:99
Alignment explanation
Indices: 16649578--16649795 Score: 278
Period size: 100 Copynumber: 2.2 Consensus size: 99
16649568 AAGTAATTTT
* *
16649578 AAAAATCTCTTTTTGAAAAGTGCTTCTATAAAAATAGGCAAGTGATTTTAAAAATCTCTTTTGGA
1 AAAAATCTC-TTTTGAAAAGTGCTTCTATAAATATAGGCAAGTGACTTTAAAAATCTCTTTTGGA
** * ** *
16649643 AAAAGCTGTTCCTATAAATATAGGAAATTAACTTT
65 AAAAGCTACTCCTATAAAGATAGGAAACGAACTTA
* *
16649678 AAAAATCTCTTTTCGAAAAGTGCTTCTATAAATATAGGCAAGTTACTTTAAAAATCTCTTTTTG-
1 AAAAATCTCTTTT-GAAAAGTGCTTCTATAAATATAGGCAAGTGACTTTAAAAATCTCTTTTGGA
* * *
16649742 AAAAG-TACTCCTATGAAGATAGGCAACGAGCTTA
65 AAAAGCTACTCCTATAAAGATAGGAAACGAACTTA
16649776 AAAAATCTCATTTTGAAAAG
1 AAAAATCTC-TTTTGAAAAG
16649796 GGCTCTTATG
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
98 35 0.34
99 13 0.13
100 55 0.53
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (99 bp):
AAAAATCTCTTTTGAAAAGTGCTTCTATAAATATAGGCAAGTGACTTTAAAAATCTCTTTTGGAA
AAAGCTACTCCTATAAAGATAGGAAACGAACTTA
Found at i:16649824 original size:98 final size:100
Alignment explanation
Indices: 16649578--16649824 Score: 241
Period size: 100 Copynumber: 2.5 Consensus size: 100
16649568 AAGTAATTTT
* * * *** *
16649578 AAAAATCTCTTTTTGAAAAGTGCTTCTATAAAAATAGGCAAGTGATTTTAAAAATCTCTTTTGGA
1 AAAAATCTCTTTTCGAAAAGGGCTTCTATAAATATAGGCAACAAACTTTAAAAATCTCTTTTGGA
** * ** *
16649643 AAAAGCTGTTCCTATAAATATAGGAAATTAACTTT
66 AAAAGCTACTCCTATAAAGATAGGAAACGAACTTA
* *** *
16649678 AAAAATCTCTTTTCGAAAAGTGCTTCTATAAATATAGGCAAGTTACTTTAAAAATCTCTTTTTG-
1 AAAAATCTCTTTTCGAAAAGGGCTTCTATAAATATAGGCAACAAACTTTAAAAATCTCTTTTGGA
* * *
16649742 AAAAG-TACTCCTATGAAGATAGGCAACGAGCTTA
66 AAAAGCTACTCCTATAAAGATAGGAAACGAACTTA
* *
16649776 AAAAATCTCATTTT-GAAAAGGGC-TCTTATGAATATGGGCAACAAACTTT
1 AAAAATCTC-TTTTCGAAAAGGGCTTC-TATAAATATAGGCAACAAACTTT
16649825 TTGAAAAGGT
Statistics
Matches: 125, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
97 2 0.02
98 55 0.44
99 9 0.07
100 59 0.47
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (100 bp):
AAAAATCTCTTTTCGAAAAGGGCTTCTATAAATATAGGCAACAAACTTTAAAAATCTCTTTTGGA
AAAAGCTACTCCTATAAAGATAGGAAACGAACTTA
Found at i:16651197 original size:15 final size:15
Alignment explanation
Indices: 16651177--16651211 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16651167 TAGATCTTCC
*
16651177 TTTTTTCTCTTATTT
1 TTTTTTATCTTATTT
*
16651192 TTTTTTATTTTATTT
1 TTTTTTATCTTATTT
16651207 TTTTT
1 TTTTT
16651212 GTTTTTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTTATCTTATTT
Found at i:16651216 original size:14 final size:16
Alignment explanation
Indices: 16651190--16651226 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
16651180 TTTCTCTTAT
16651190 TTTTTTTTA-TTTT-A
1 TTTTTTTTATTTTTCA
*
16651204 TTTTTTTTGTTTTTCA
1 TTTTTTTTATTTTTCA
16651220 TTTTTTT
1 TTTTTTT
16651227 CAAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 4 0.20
16 8 0.40
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.86
Consensus pattern (16 bp):
TTTTTTTTATTTTTCA
Found at i:16651217 original size:15 final size:15
Alignment explanation
Indices: 16651186--16651226 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
16651176 CTTTTTTCTC
16651186 TTATTTTTTTTTATT
1 TTATTTTTTTTTATT
16651201 TTATTTTTTTTGT-TT
1 TTATTTTTTTT-TATT
16651216 TTCATTTTTTT
1 TT-ATTTTTTT
16651227 CAAATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.10, C:0.02, G:0.02, T:0.85
Consensus pattern (15 bp):
TTATTTTTTTTTATT
Found at i:16658241 original size:22 final size:22
Alignment explanation
Indices: 16658215--16658259 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
16658205 AATTCTATCC
16658215 TAGTAATCTCTAATTCAGATGG
1 TAGTAATCTCTAATTCAGATGG
16658237 TAGTAATCTCTAATTCAGATGG
1 TAGTAATCTCTAATTCAGATGG
16658259 T
1 T
16658260 GGAGGTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (22 bp):
TAGTAATCTCTAATTCAGATGG
Found at i:16660280 original size:21 final size:20
Alignment explanation
Indices: 16660239--16660282 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
16660229 AATTCTAAAC
* **
16660239 TAAAAATTAAAAATAGCAAG
1 TAAAAATTAAAAAAAAAAAG
16660259 TAAAAATTGAAAAAAAAAAAG
1 TAAAAATT-AAAAAAAAAAAG
16660280 TAA
1 TAA
16660283 GCAATGTAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.18
Consensus pattern (20 bp):
TAAAAATTAAAAAAAAAAAG
Found at i:16660508 original size:18 final size:18
Alignment explanation
Indices: 16660467--16660509 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
16660457 AAATTTCAAT
* *
16660467 GAACAAGTAAAACAAAGC
1 GAACATGTAAAACAAAGA
*
16660485 TAACATGTAAAACAAAGA
1 GAACATGTAAAACAAAGA
*
16660503 GGACATG
1 GAACATG
16660510 CAAAGTTAGG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.14, G:0.19, T:0.12
Consensus pattern (18 bp):
GAACATGTAAAACAAAGA
Found at i:16668583 original size:22 final size:22
Alignment explanation
Indices: 16668558--16668599 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16668548 ACAGCTTTTT
*
16668558 TTCTT-TTTTTTTTTTAGTTCTA
1 TTCTTCTTGTTTTTTT-GTTCTA
16668580 TTCTTCTTGTTTTTTTGTTC
1 TTCTTCTTGTTTTTTTGTTC
16668600 AACCTTCCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.76
Consensus pattern (22 bp):
TTCTTCTTGTTTTTTTGTTCTA
Found at i:16669180 original size:155 final size:150
Alignment explanation
Indices: 16668946--16669478 Score: 456
Period size: 144 Copynumber: 3.6 Consensus size: 150
16668936 CTTAAAAGAC
* ** * * *
16668946 CAAAAATCATGAAATATTATAAAATTATGATTTGAAAATTTTCATGAAAATTCGAGCTCAGG-AA
1 CAAAAATCATGAAATATTATGAAATTAAAATCTAAAAATTTT-ATGAAAATTCGAGCT-TGGAAA
***
16669010 GGCCAAATTACGAAAATATCCTTATAGGGGTATATAAAGGTATTTTAGTAATTTCACACTTTATA
64 GATTAAATTACGAAAATATCCTTATA-GGGTATAT-AA-GTATTTTAGTAATTTCACA-TTTATA
*
16669075 AGGTACTGCTATGATTTCAAATGCAT
125 AGGTACAGCTATGATTTCAAATGCAT
* * *
16669101 TAAAAATCATTAAATATTATGAAATTAAAATCTAAAAAGTTTTGTGAAAATTCGAGCTTGGAAAG
1 CAAAAATCATGAAATATTATGAAATTAAAATCTAAAAA-TTTTATGAAAATTCGAGCTTGGAAAG
* * * * * *
16669166 ATTAAATTACGAAAATA-CC--CT----TATATGAGTATTTTGGTAATTTTACATTTTTTAGGTA
65 ATTAAATTACGAAAATATCCTTATAGGGTATATAAGTATTTTAGTAATTTCACATTTATAAGGTA
16669224 CAGCTATGATTTCAAATGCAT
130 CAGCTATGATTTCAAATGCAT
* * * *
16669245 CAAAAATCATGAAATAATATGAAATTAATACCTGAAAAATTTTATGAAAATTCGAGCTTAGAAAG
1 CAAAAATCATGAAATATTATGAAATTAAAATCT-AAAAATTTTATGAAAATTCGAGCTTGGAAAG
* * ** * *
16669310 ATTAAATTAC-AAAATATCCTTATAGGG---A-CA-T-TTTGA-TAATTTTGCATTTCTCGAGGT
65 ATTAAATTACGAAAATATCCTTATAGGGTATATAAGTATTTTAGTAATTTCACATTTAT-AAGGT
** * *
16669367 ATGGTTGTGATTTCAAAT--AT
129 ACAGCTATGATTTCAAATGCAT
* * * **
16669387 ACTAAAAATCATGAAATATTATGAAATTAAAATTTGAAAATTTTCATGAAAATTTGAGC-TAAAA
1 -C-AAAAATCATGAAATATTATGAAATTAAAATCTAAAAATTTT-ATGAAAATTCGAGCTTGGAA
* *
16669451 AAAGTTAAATTACAAAAATATCCTTATA
63 AGA-TTAAATTACGAAAATATCCTTATA
16669479 AGTGTATTTT
Statistics
Matches: 317, Mismatches: 45, Indels: 42
0.78 0.11 0.10
Matches are distributed among these distances:
142 2 0.01
143 34 0.11
144 164 0.52
145 37 0.12
146 3 0.01
147 6 0.02
152 1 0.00
154 4 0.01
155 62 0.20
156 4 0.01
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (150 bp):
CAAAAATCATGAAATATTATGAAATTAAAATCTAAAAATTTTATGAAAATTCGAGCTTGGAAAGA
TTAAATTACGAAAATATCCTTATAGGGTATATAAGTATTTTAGTAATTTCACATTTATAAGGTAC
AGCTATGATTTCAAATGCAT
Found at i:16669239 original size:144 final size:141
Alignment explanation
Indices: 16669049--16669503 Score: 500
Period size: 144 Copynumber: 3.2 Consensus size: 141
16669039 GTATATAAAG
* * * * *
16669049 GTATTTTAGTAATTTCACACTTTATAAGGTACTGCTATGATTTCAAATGCATTAAAAATCATTAA
1 GTATTTTGGTAATTTTACA-TTTTTAAGGTACAGCTATGATTTCAAATGCATTAAAAATCATGAA
* *
16669114 ATATTATGAAATTAAAATCTAAAAAGTTTTGTGAAAATTCGAGCTTGGAAAGATTAAATTACGAA
65 ATATTATGAAATTAAAATCTAAAAA-TTTTATGAAAATTCGAGCTTAGAAAGATTAAATTAC-AA
*
16669179 AATACCCTTATATGA
128 AATATCCTTATA-GA
* *
16669194 GTATTTTGGTAATTTTACATTTTTTAGGTACAGCTATGATTTCAAATGCATCAAAAATCATGAAA
1 GTATTTTGGTAATTTTACATTTTTAAGGTACAGCTATGATTTCAAATGCATTAAAAATCATGAAA
* * *
16669259 TAATATGAAATTAATACCTGAAAAATTTTATGAAAATTCGAGCTTAGAAAGATTAAATTACAAAA
66 TATTATGAAATTAAAATCT-AAAAATTTTATGAAAATTCGAGCTTAGAAAGATTAAATTACAAAA
*
16669324 TATCCTTATAGG
130 TATCCTTATAGA
* * * ** ** * * ** *
16669336 GACATTTTGATAATTTTGCATTTCTCGAGGTATGGTTGTGATTTCAAATATACTAAAAATCATGA
1 G-TATTTTGGTAATTTTACATTT-TTAAGGTACAGCTATGATTTCAAATGCATTAAAAATCATGA
* * * * *
16669401 AATATTATGAAATTAAAATTTGAAAATTTTCATGAAAATTTGAGC-TAAAAAAAGTTAAATTACA
64 AATATTATGAAATTAAAATCTAAAAATTTT-ATGAAAATTCGAGCTTAGAAAGA-TTAAATTAC-
*
16669465 AAAATATCCTTATAAGT
126 AAAATATCCTTAT-AGA
*
16669482 GTATTTTGGTAATTGTAC-TTTT
1 GTATTTTGGTAATTTTACATTTT
16669504 CTCGATGCAA
Statistics
Matches: 263, Mismatches: 40, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
142 2 0.01
143 46 0.17
144 164 0.62
145 48 0.18
146 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (141 bp):
GTATTTTGGTAATTTTACATTTTTAAGGTACAGCTATGATTTCAAATGCATTAAAAATCATGAAA
TATTATGAAATTAAAATCTAAAAATTTTATGAAAATTCGAGCTTAGAAAGATTAAATTACAAAAT
ATCCTTATAGA
Found at i:16669639 original size:21 final size:19
Alignment explanation
Indices: 16669601--16669639 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
16669591 AGGATTGATG
*
16669601 CCAATTTTATTCATTTTGT
1 CCAATTTTATGCATTTTGT
16669620 CCAAGTTTTATGCAATTTTG
1 CCAA-TTTTATGC-ATTTTG
16669640 ACTAGCGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.51
Consensus pattern (19 bp):
CCAATTTTATGCATTTTGT
Found at i:16670201 original size:68 final size:68
Alignment explanation
Indices: 16669983--16670388 Score: 511
Period size: 68 Copynumber: 6.0 Consensus size: 68
16669973 GAGGTCTTAT
* *
16669983 AAATCTCAAAATCTTTGAATGCTCC-TCTAATCAAAGGCCATGAAACTTTAAAAATTAAAATGTT
1 AAATCTCAAAACCTTTGAATGCTCCTTC-AATCAGAGGCCATGAAACTTTAAAAATTAAAATGTT
*
16670047 TTAC
65 TTGC
** * * * * *
16670051 -AA--TCAAAATATTTGAATGCT-TTTCCAATTAGAAGCTATGAAACTTTAAAAATAAAAAATGT
1 AAATCTCAAAACCTTTGAATGCTCCTT-CAATCAGAGGCCATGAAACTTTAAAAAT-TAAAATGT
16670112 TTTGC
64 TTTGC
* *
16670117 AAATCTCAAAATCTTTGAATGCTCCTTCAATCAGAGGCCATAAAACTTTAAAAATTAAAATGTTT
1 AAATCTCAAAACCTTTGAATGCTCCTTCAATCAGAGGCCATGAAACTTTAAAAATTAAAATGTTT
16670182 TGC
66 TGC
* *
16670185 AAATATCAAAACCTTTGAATGCTCC-TCAAATCAGAGGCTATGAATA-TTTAAAAATTAAAAATG
1 AAATCTCAAAACCTTTGAATGCTCCTTC-AATCAGAGGCCATGAA-ACTTTAAAAATT-AAAATG
*
16670248 TTTTAC
63 TTTTGC
* * *
16670254 GAATCTCAAAACCTTTGAATGCTCCTTCAATGAGAGGCCATGAAACTTTAAAAATTAAAATGTTC
1 AAATCTCAAAACCTTTGAATGCTCCTTCAATCAGAGGCCATGAAACTTTAAAAATTAAAATGTTT
16670319 TGC
66 TGC
* * *
16670322 AAATCTCAAAACCTTTGAATTCTCCTCCAATCAAAGGCCATGAAACTTTAAAAATTAAAATAGTT
1 AAATCTCAAAACCTTTGAATGCTCCTTCAATCAGAGGCCATGAAACTTTAAAAATTAAAAT-GTT
16670387 TT
65 TT
16670389 CCCTAAATAA
Statistics
Matches: 293, Mismatches: 32, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
65 41 0.14
66 12 0.04
67 6 0.02
68 126 0.43
69 104 0.35
70 4 0.01
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (68 bp):
AAATCTCAAAACCTTTGAATGCTCCTTCAATCAGAGGCCATGAAACTTTAAAAATTAAAATGTTT
TGC
Found at i:16670272 original size:137 final size:137
Alignment explanation
Indices: 16669983--16670381 Score: 565
Period size: 137 Copynumber: 2.9 Consensus size: 137
16669973 GAGGTCTTAT
*
16669983 AAATCTCAAAATCTTTGAATGCTCC-TCTAATCAAAGGCCATGAAACTTTAAAAATTAAAATGTT
1 AAATCTCAAAATCTTTGAATGCTCCTTC-AATCAGAGGCCATGAAACTTTAAAAATTAAAATGTT
* ** ** * * *
16670047 TT--ACA-ATCAAAATATTTGAATGCTTTTCCAATTAGAAGCTATGAAACTTTAAAAATAAAAAA
65 TTGCAAATATCAAAACCTTTGAATGCTCCTCCAATCAGAGGCTATGAAACTTTAAAAATTAAAAA
*
16670109 TGTTTTGC
130 TGTTTTAC
*
16670117 AAATCTCAAAATCTTTGAATGCTCCTTCAATCAGAGGCCATAAAACTTTAAAAATTAAAATGTTT
1 AAATCTCAAAATCTTTGAATGCTCCTTCAATCAGAGGCCATGAAACTTTAAAAATTAAAATGTTT
*
16670182 TGCAAATATCAAAACCTTTGAATGCTCCTCAAATCAGAGGCTATGAATA-TTTAAAAATTAAAAA
66 TGCAAATATCAAAACCTTTGAATGCTCCTCCAATCAGAGGCTATGAA-ACTTTAAAAATTAAAAA
16670246 TGTTTTAC
130 TGTTTTAC
* * * *
16670254 GAATCTCAAAACCTTTGAATGCTCCTTCAATGAGAGGCCATGAAACTTTAAAAATTAAAATGTTC
1 AAATCTCAAAATCTTTGAATGCTCCTTCAATCAGAGGCCATGAAACTTTAAAAATTAAAATGTTT
* * * *
16670319 TGCAAATCTCAAAACCTTTGAATTCTCCTCCAATCAAAGGCCATGAAACTTTAAAAATTAAAA
66 TGCAAATATCAAAACCTTTGAATGCTCCTCCAATCAGAGGCTATGAAACTTTAAAAATTAAAA
16670382 TAGTTTTCCC
Statistics
Matches: 237, Mismatches: 22, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
134 61 0.26
135 2 0.01
136 3 0.01
137 170 0.72
138 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (137 bp):
AAATCTCAAAATCTTTGAATGCTCCTTCAATCAGAGGCCATGAAACTTTAAAAATTAAAATGTTT
TGCAAATATCAAAACCTTTGAATGCTCCTCCAATCAGAGGCTATGAAACTTTAAAAATTAAAAAT
GTTTTAC
Found at i:16672221 original size:17 final size:18
Alignment explanation
Indices: 16672199--16672235 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
16672189 TTTTTTTTCC
16672199 TTCTTTT-ATTCTTT-ATT
1 TTCTTTTCATT-TTTAATT
16672216 TTCTTTTCATTTTTAATT
1 TTCTTTTCATTTTTAATT
16672234 TT
1 TT
16672236 TTTCTTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.76
Consensus pattern (18 bp):
TTCTTTTCATTTTTAATT
Found at i:16672238 original size:21 final size:20
Alignment explanation
Indices: 16672190--16672258 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
16672180 TCATATCTTT
* *
16672190 TTTTTTTCCTTCTTTTATT-C
1 TTTTTTT-CTTCTTTTTTTAA
16672210 TTTATTTTCTT-TTCATTTTTAA
1 TTT-TTTTCTTCTT--TTTTTAA
16672232 TTTTTTTCTTCCTTTTTTTAA
1 TTTTTTTCTT-CTTTTTTTAA
16672253 TTTTTT
1 TTTTTT
16672259 AATTTGTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
19 2 0.05
20 6 0.15
21 28 0.68
22 3 0.07
23 2 0.05
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTTCTTCTTTTTTTAA
Found at i:16672651 original size:25 final size:24
Alignment explanation
Indices: 16672623--16672685 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
16672613 TTTTTTTGTT
16672623 TTTTTACTTTTTTTTTGTCTTGGTA
1 TTTTTA-TTTTTTTTTGTCTTGGTA
** *
16672648 TTTTGGTTATTTTTTTGTTTTGGTA
1 TTTTTATT-TTTTTTTGTCTTGGTA
16672673 TTTTCTATTTTTT
1 TTTT-TATTTTTT
16672686 CCCCTTTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 2 0.06
25 27 0.87
26 2 0.06
ACGTcount: A:0.08, C:0.05, G:0.13, T:0.75
Consensus pattern (24 bp):
TTTTTATTTTTTTTTGTCTTGGTA
Found at i:16672800 original size:9 final size:9
Alignment explanation
Indices: 16672782--16672822 Score: 50
Period size: 8 Copynumber: 4.7 Consensus size: 9
16672772 TTGCTTTTCA
16672782 TTTTTATCTC
1 TTTTT-TCTC
16672792 TTTTTTCTC
1 TTTTTTCTC
16672801 -TTTTTCT-
1 TTTTTTCTC
*
16672808 TTTTTTGTC
1 TTTTTTCTC
16672817 TTTTTT
1 TTTTTT
16672823 TGTTATAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
8 13 0.46
9 10 0.36
10 5 0.18
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:16673573 original size:14 final size:14
Alignment explanation
Indices: 16673554--16673580 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16673544 GACTCAAAAT
16673554 TTTCTTTTTTTTTC
1 TTTCTTTTTTTTTC
16673568 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
16673581 TTCAGAGTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTCTTTTTTTTTC
Found at i:16677957 original size:16 final size:16
Alignment explanation
Indices: 16677936--16677974 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
16677926 AGGGTAGATA
16677936 TGGCTCTACCTCGGTT
1 TGGCTCTACCTCGGTT
16677952 TGGCTCTACCTCGGTT
1 TGGCTCTACCTCGGTT
16677968 TGGCTCT
1 TGGCTCT
16677975 TATGGTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.05, C:0.31, G:0.26, T:0.38
Consensus pattern (16 bp):
TGGCTCTACCTCGGTT
Found at i:16680918 original size:20 final size:20
Alignment explanation
Indices: 16680893--16680931 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16680883 CTCTCTTCTT
* *
16680893 CTTTTGGTAGCTTCTTTTTA
1 CTTTTGGCAACTTCTTTTTA
16680913 CTTTTGGCAACTTCTTTTT
1 CTTTTGGCAACTTCTTTTT
16680932 CTTCACGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (20 bp):
CTTTTGGCAACTTCTTTTTA
Found at i:16681874 original size:146 final size:144
Alignment explanation
Indices: 16681574--16681988 Score: 469
Period size: 146 Copynumber: 2.9 Consensus size: 144
16681564 GGTACTGCTA
* * * * * *
16681574 TGATTTCAAATACATAAAAAATTATTAAATAATATGAAATTAAGATCTAAAAGATTTTGT-GAAA
1 TGATTTCAAATGCATCAAAAATCATGAAATAATATGAAATTAAGATCTGAAA-ATTTT-TATAAA
** * * *
16681638 ATCCAAGCTCAAAAAGATTAAATTATGAAAATACTCTTAT-AGGGATATTTTAATAATTTTACAC
64 ATCTGAGCTCGAAAAGATTAAATTATGAAAATACCCTTATAAGGG-TATTTTGATAATTTTACAC
* * **
16681702 TTGTCAGGGTATGGCTG
128 TTATCAGGGTACGAATG
*
16681719 TGATTTCAAATGCATCAAAAATCATGAAGTAATATGAAATTAAGATCTGAAAATTTTTATAAAAC
1 TGATTTCAAATGCATCAAAAATCATGAAATAATATGAAATTAAGATCTGAAAATTTTTATAAAA-
* * *
16681784 TCTGAGCTTGAAAAGATTAAATTACGAAAAATACCCTTATAAGGGTCTTTTGATAATTTTACACT
65 TCTGAGCTCGAAAAGATTAAATTATG-AAAATACCCTTATAAGGGTATTTTGATAATTTTACACT
*
16681849 TATCGGGGTACGAATG
129 TATCAGGGTACGAATG
* * * * *
16681865 TGATTTCAAATGCA-CTAAAAATCATGAAATATTATAAAATTAAAATCTGAAAAATTTCATGAAA
1 TGATTTCAAATGCATC-AAAAATCATGAAATAATATGAAATTAAGATCTGAAAATTTTTAT-AAA
* * * *
16681929 ATCTGAGCTCGGGAAAG-TCAAATTATGAAAATATCCTTATATGGGTATTTTGATAATTTT
64 ATCTGAGCTC-GAAAAGATTAAATTATGAAAATACCCTTATAAGGGTATTTTGATAATTTT
16681989 GTACTTTCTC
Statistics
Matches: 230, Mismatches: 33, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
143 1 0.00
144 9 0.04
145 98 0.43
146 109 0.47
147 13 0.06
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (144 bp):
TGATTTCAAATGCATCAAAAATCATGAAATAATATGAAATTAAGATCTGAAAATTTTTATAAAAT
CTGAGCTCGAAAAGATTAAATTATGAAAATACCCTTATAAGGGTATTTTGATAATTTTACACTTA
TCAGGGTACGAATG
Found at i:16683231 original size:15 final size:16
Alignment explanation
Indices: 16683213--16683250 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
16683203 AACAAGTAAA
16683213 TAAAAAACATG-AATT
1 TAAAAAACATGAAATT
**
16683228 TAAAGCACATGAAATT
1 TAAAAAACATGAAATT
16683244 TAAAAAA
1 TAAAAAA
16683251 TGTAAAATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 1
0.78 0.17 0.04
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.24
Consensus pattern (16 bp):
TAAAAAACATGAAATT
Found at i:16693704 original size:4 final size:4
Alignment explanation
Indices: 16693697--16693727 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
16693687 TATATATATA
16693697 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
16693728 TCTGATGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:16695554 original size:2 final size:2
Alignment explanation
Indices: 16695539--16695593 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
16695529 CTTCCCACAT
* *
16695539 AG AG AG AA AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
16695581 AA AG AG AG AG AG A
1 AG AG AG AG AG AG A
16695594 CCTTGAGTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16696606 original size:21 final size:21
Alignment explanation
Indices: 16696565--16696608 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
16696555 AAAAAATATT
*
16696565 ATAAAAAATAATTCTAAAAAA
1 ATAAAAAATAATTATAAAAAA
*
16696586 ATAAAAAAT-ATTAATATAAAA
1 ATAAAAAATAATT-ATAAAAAA
16696607 AT
1 AT
16696609 TTTTTCAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAAAAAATAATTATAAAAAA
Found at i:16697348 original size:2 final size:2
Alignment explanation
Indices: 16697343--16697372 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16697333 TGTGTGTGTG
16697343 TA TA 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 TA TA
16697373 GAAAATAGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16698191 original size:235 final size:233
Alignment explanation
Indices: 16697923--16699276 Score: 910
Period size: 235 Copynumber: 5.8 Consensus size: 233
16697913 CATAATATAT
** * * * * * * * * *
16697923 TAAAAAGTGTTATGATAATTCTAAATATAATGAAAAGTAAGAATAGCCATAATAATCTACTATTG
1 TAAAAAGAATTATGACAATTCTAAACATAATG-AAAGTAAAAACAACCATAAGAATATATTATTA
* * * *
16697988 TAACATAAATAATTATATTGGCAACGTAAGATTTTAATTAATTATTG-TTTTGTAAATATTTAAA
65 TAATATAAATAATTATATTGGCAATGTAAAATTTTAATTAATTATTGTTTTTGTAAATATATAAA
* * * * * *
16698052 GAAAATAGCTAAAAATTTAAAAATAAATT-ATAAAATACACAAGTGAGAACAAATGTAAAATTAG
130 GAAAATAACTAAAAATTAAAAAATAAATTAATAATATAAATAAGTGAGAA-AAACGTAAAATTAG
*
16698116 TATCATTTTG-CGTAAAATAAATAAGAAGTATCGTAACACA
194 TAT-ATTTTGACGTAAAATAAGTAAGAAGTATCGTAACACA
* ** * * * *
16698156 TTAAGAAAGAATTATGACCATTCTAAATGTAATG--A--AAAAATAACCGTAAGCAGATATTATT
1 -TAA-AAAGAATTATGACAATTCTAAACATAATGAAAGTAAAAACAACCATAAGAATATATTATT
* * * *
16698217 ATAAAATAAATAATTATGTTGACATTGTAAAATTTTAATTAATTATTGTTTTTGTAAATATA-AA
64 ATAATATAAATAATTATATTGGCAATGTAAAATTTTAATTAATTATTGTTTTTGTAAATATATAA
** * * ** *
16698281 AGAAAACTAGTTAAAAATTAAAAACCAAAAACAAATTGATTTTGTAAATAAGTGAG-AAAACGTA
129 AGAAAA-TAACTAAAAATT----A--AAAAATAAATTAATAATATAAATAAGTGAGAAAAACGTA
* ** *
16698345 AAATTAGTATCA-TTTGATGTAAAATGGGTAAGAAGTGTCGTAA-AGCA
187 AAATTAGTAT-ATTTTGACGTAAAATAAGTAAGAAGTATCGTAACA-CA
** * * *
16698392 CTAAACAAGAGCTATGATAATTCTAAACATAATGAAAAGTAAAAACAATCATAA-ACATATATTG
1 -TAAA-AAGAATTATGACAATTCTAAACATAATG-AAAGTAAAAACAACCATAAGA-ATATATTA
* * *
16698456 TTATAATATAAATAATTATCA-TAGTAATGTAAAATTTTAATTAATTATTGTTTTTGTATATATA
62 TTATAATATAAATAATTAT-ATTGGCAATGTAAAATTTTAATTAATTATTGTTTTTGTAAATATA
* *
16698520 TAAAGAAAATAACTAAAAATTAAAAAATAAATTAATAATGTAAATAAGTGAGAAAAAACATAAAA
126 TAAAGAAAATAACTAAAAATTAAAAAATAAATTAATAATATAAATAAGTGAG-AAAAACGTAAAA
* ** ** * * *
16698585 TTAGTATTTTTTGGTGTAAAATGGGTAAGAATTGTCATAACACA
190 TTAGTATATTTTGACGTAAAATAAGTAAGAAGTATCGTAACACA
* * *
16698629 CAAAAAGAATTATGACAATTTTAAACATAATGAAAGATAAAAACAACCATAAGAATATATTATTG
1 TAAAAAGAATTATGACAATTCTAAACATAATGAAAG-TAAAAACAACCATAAGAATATATTATTA
* * * *
16698694 TAATATAAATAATTATGTTGGCAATTTAAAATTTTAACTAATTATTACTTTTT-T-AATATATAA
65 TAATATAAATAATTATATTGGCAATGTAAAATTTTAATTAATTATT-GTTTTTGTAAATATATAA
* * * *
16698757 GGAAAATAACTAAAAATTAAAAAATAAA-TAGATAACATAAAAAAGTGA-AAAAATGTAAAATTA
129 AGAAAATAACTAAAAATTAAAAAATAAATTA-ATAATATAAATAAGTGAGAAAAACGTAAAATTA
* * * * * *
16698820 ATATAATTTGACATAACATAAGTAAAAAGTATCGTAACATA
193 GTATATTTTGACGTAAAATAAGTAAGAAGTATCGTAACACA
* * * * * ** *
16698861 CTAAGACAAAGCA--ATGACAATTCTAAACAAAATTAATGGTAAGAACAATTATAA-AA-AAATT
1 -T-A-A-AAAGAATTATGACAATTCTAAACATAATGAA-AGTAAAAACAACCATAAGAATATATT
* * * ** * *
16698922 ATTATAATGTAAATAATTA-AGTT-ACCATAAAAAAATTTTAATCATTTA-T-TTTTTGTAAATA
61 ATTATAATATAAATAATTATA-TTGGCAAT-GTAAAATTTTAATTAATTATTGTTTTTGTAAATA
* * * * * * * *
16698983 TATAAA-AAAA-AGCTAAAAATTAAGAAACAAATTAGTAACATAAACAAGTGAGAGGAAACAT-A
124 TATAAAGAAAATAACTAAAAATTAAAAAATAAATTAATAATATAAATAAGTGAGA-AAAACGTAA
* * * ** * * * ** *
16699045 AA--AGTATAATTTGGCATAAAATTGGTATGAATTGTTATAATACA
188 AATTAGTATATTTTGACGTAAAATAAGTAAGAAGTATCGTAACACA
* * * * * *
16699089 TTAAAAA-AAGTTATGATAATTTTAAACATTATGAAAATTAAGAACAATCATAA-AATATATTAT
1 -TAAAAAGAA-TTATGACAATTCTAAACATAATG-AAAGTAAAAACAACCATAAGAATATATTAT
* * ** * * * *
16699152 TGA-AACATAAATAATTATATTGGTAACATAAAAACTTTAATTAATTATTG--TTTATAAACATC
63 T-ATAATATAAATAATTATATTGGCAATGT-AAAATTTTAATTAATTATTGTTTTTGTAAATATA
* * * * * *
16699214 TAAA-ACAAATAACTAGAAATTAAAAAAT-AATTGATAATGTAAACAAATGAAAACAAACGTAAA
126 TAAAGA-AAATAACTAAAAATTAAAAAATAAATTAATAATATAAATAAGTGAGAA-AAACGTAAA
16699277 TTAATATCAT
Statistics
Matches: 883, Mismatches: 180, Indels: 117
0.75 0.15 0.10
Matches are distributed among these distances:
224 1 0.00
225 3 0.00
226 1 0.00
227 33 0.04
228 54 0.06
229 69 0.08
230 105 0.12
231 56 0.06
232 78 0.09
233 4 0.00
234 89 0.10
235 146 0.17
236 80 0.09
237 59 0.07
238 13 0.01
239 1 0.00
241 83 0.09
242 8 0.01
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (233 bp):
TAAAAAGAATTATGACAATTCTAAACATAATGAAAGTAAAAACAACCATAAGAATATATTATTAT
AATATAAATAATTATATTGGCAATGTAAAATTTTAATTAATTATTGTTTTTGTAAATATATAAAG
AAAATAACTAAAAATTAAAAAATAAATTAATAATATAAATAAGTGAGAAAAACGTAAAATTAGTA
TATTTTGACGTAAAATAAGTAAGAAGTATCGTAACACA
Found at i:16700187 original size:17 final size:17
Alignment explanation
Indices: 16700165--16700212 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
16700155 AGAATAATAT
16700165 GCCGCATGGCATCAAAA
1 GCCGCATGGCATCAAAA
16700182 GCCGCATGGCATCAAAA
1 GCCGCATGGCATCAAAA
*
16700199 GCCACATTGGCATC
1 GCCGCA-TGGCATC
16700213 GTTTTAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 22 0.76
18 7 0.24
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (17 bp):
GCCGCATGGCATCAAAA
Found at i:16700613 original size:31 final size:31
Alignment explanation
Indices: 16700575--16700636 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
16700565 AAAAAAATAA
* * *
16700575 AATGTACAATTTACACTTTGAACTTTTAAAT
1 AATGTACAATTTACACTCTGAAATTTCAAAT
*
16700606 AATGTACAATTTATACTCTGAAATTTCAAAT
1 AATGTACAATTTACACTCTGAAATTTCAAAT
16700637 TATATACCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (31 bp):
AATGTACAATTTACACTCTGAAATTTCAAAT
Found at i:16701248 original size:17 final size:18
Alignment explanation
Indices: 16701228--16701266 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
16701218 AATTTTTCAA
16701228 AAAATAAAAAAAT-AAAG
1 AAAATAAAAAAATAAAAG
* *
16701245 AAAATATAAATATAAAAG
1 AAAATAAAAAAATAAAAG
16701263 AAAA
1 AAAA
16701267 ATCTAGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (18 bp):
AAAATAAAAAAATAAAAG
Found at i:16703211 original size:9 final size:9
Alignment explanation
Indices: 16703197--16703236 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
16703187 ATATCTCATG
16703197 AAAAATTAA
1 AAAAATTAA
*
16703206 AAAAATTAT
1 AAAAATTAA
*
16703215 AATAATTAA
1 AAAAATTAA
*
16703224 AAAAAATAA
1 AAAAATTAA
16703233 AAAA
1 AAAA
16703237 TGGCATAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAAATTAA
Found at i:16704442 original size:22 final size:22
Alignment explanation
Indices: 16704417--16704461 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
16704407 CTTGTTCATG
*
16704417 TTATCTATTTGTT-TTTTAAATT
1 TTATATATTT-TTCTTTTAAATT
*
16704439 TTATATATTTTTCTTTTATATT
1 TTATATATTTTTCTTTTAAATT
16704461 T
1 T
16704462 ATAAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (22 bp):
TTATATATTTTTCTTTTAAATT
Found at i:16705025 original size:233 final size:231
Alignment explanation
Indices: 16704318--16705348 Score: 689
Period size: 234 Copynumber: 4.5 Consensus size: 231
16704308 ATTAAAATAA
* * * *
16704318 GTTTAGAATTGTTATAAATCTTTTT--TA-ATGTGCTATGAGAGTTCTTACTCATTTTAT-ATCA
1 GTTTAGAATTGTTAT-AA-CTTTTTCGTAGATGTGTTATGAAACTTCTTACCCATTTTATGA-CA
* * * ** * * *
16704379 AATGATATC-AATTTTA-CACTTATTCTCACTTGTTCATGTTATCTATTTGTTTTTTAAATTTTA
63 AATGATA-CAAATTTTATGA-TTTTTCTCACTTGTTTACATTACCTATTTATTTTTTAATTTTTA
* * *
16704442 -TATATTTTTCTTTTATATTTATAAAAACAATAATCAATTAAAATTT--TAATTACTTAATTATT
126 GT-TATTTTTCTTATATATTTATTAAAACAATAATCAATTAAAATTTACT-ATTACATAATTATT
* * * * * *
16704504 TACATTGCAATAATATCTTCCTATGGTTGTTTTTGCCTTCAATTAC
189 TACATTACAATAATATC-T--TATAGTTGTTCTTACCTTCTATTAT
* * * * * *
16704550 GTTTAGAATTGTTATAGCTTTTTCTTAGTGTGTGTTATGAAGCTTCTTACTCATTTTATGTCAAA
1 GTTTAGAATTGTTATAACTTTTTCGTAG-ATGTGTTATGAAACTTCTTACCCATTTTATGACAAA
* * * * *
16704615 TGATTCGAATTTTATGATTTTTCTCACTTGTTTACGTTACCTTTTTATTTTTTAATTTTTAGCTA
65 TGATACAAATTTTATGATTTTTCTCACTTGTTTACATTACCTATTTATTTTTTAATTTTTAGTTA
* * * * *
16704680 TTTTGCTTATAGATTTA-TAAAATAATAATTAATTAAAATTTTAC-ATTACGTAATTA-TTACAT
130 TTTTTCTTATATATTTATTAAAACAATAATCAATTAAAA-TTTACTATTACATAATTATTTACAT
* * * *
16704742 TACAATAATATGTTCTTACAATCGTTCTTA-CTTTTCATTAT
194 TACAATAATA---TCTTATAGTTGTTCTTACCTTCT-ATTAT
*
16704783 GTTTAGAATTGTTATAACTTTTTCGTA-ATGTGTTA-GAACACTTCTTACCCATTTTATGACCAA
1 GTTTAGAATTGTTATAACTTTTTCGTAGATGTGTTATGAA-ACTTCTTACCCATTTTATGACAAA
16704846 TGATACAAATTTTATG--TTTTCTTCACTTGTTTACATTACCTATTTATTTTTTAATTTTTAGTT
65 TGATACAAATTTTATGATTTTTC-TCACTTGTTTACATTACCTATTTATTTTTTAATTTTTAGTT
* * *
16704909 TTTTTTCTCATATATTTATTAAAACAATAACCAATTAAAAGTTTACGTTATCTACATAATTATTT
129 ATTTTTCTTATATATTTATTAAAACAATAATCAATTAAAA-TTTAC--TAT-TACATAATTATTT
* *
16704974 ATATTACAGTAATATCTTATAGTTGTTCTTACCTTCTATTAT
190 ACATTACAATAATATCTTATAGTTGTTCTTACCTTCTATTAT
* * *
16705016 GTGTAGAATTGTCATAAC----TC------------T-----TTCTTACTCATTTTAT-AGCAAA
1 GTTTAGAATTGTTATAACTTTTTCGTAGATGTGTTATGAAACTTCTTACCCATTTTATGA-CAAA
* * * * * * * *** *
16705059 TTATACAAATTTAATGTTTTTTTTTCTTATTTGTTTA-GTTACTTATTCGCTTTTTAATTATTAG
65 TGATACAAATTTTATG---ATTTTTCTCACTTGTTTACATTACCTATTTATTTTTTAATTTTTAG
* * * *
16705123 CTATTTTTCTTATATATCTATAAAAACAATAAGT-AATTAAAATTTTA-TATTATCTACTTAAAT
127 TTATTTTTCTTATATATTTATTAAAACAATAA-TCAATTAAAA-TTTACTATTA-C-A--TAATT
** * * *
16705186 ATTTATGTTATAATAATATTCTTATAGTTGTTCTTATCTTCTATTAC
186 ATTTACATTACAATAATA-TCTTATAGTTGTTCTTACCTTCTATTAT
* * * * * * *
16705233 GTTTAGAATT-TTCATAGCTCTTTCTTAG-TGTGCTATGACACTTCTTACCCATTTTACGCCAAA
1 GTTTAGAATTGTT-ATAACTTTTTCGTAGATGTGTTATGAAACTTCTTACCCATTTTATGACAAA
** * *
16705296 TGATATTAATTTTACG-TTTCTTCACACTTGTTTACATTACCT-TTT-TTTTTTAA
65 TGATACAAATTTTATGATTT-TTCTCACTTGTTTACATTACCTATTTATTTTTTAA
16705349 ATTTCTATAT
Statistics
Matches: 632, Mismatches: 106, Indels: 121
0.74 0.12 0.14
Matches are distributed among these distances:
212 3 0.00
213 36 0.06
214 1 0.00
216 80 0.13
217 48 0.08
218 5 0.01
221 2 0.00
229 7 0.01
230 61 0.10
231 65 0.10
232 21 0.03
233 116 0.18
234 126 0.20
235 16 0.03
236 16 0.03
237 29 0.05
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (231 bp):
GTTTAGAATTGTTATAACTTTTTCGTAGATGTGTTATGAAACTTCTTACCCATTTTATGACAAAT
GATACAAATTTTATGATTTTTCTCACTTGTTTACATTACCTATTTATTTTTTAATTTTTAGTTAT
TTTTCTTATATATTTATTAAAACAATAATCAATTAAAATTTACTATTACATAATTATTTACATTA
CAATAATATCTTATAGTTGTTCTTACCTTCTATTAT
Found at i:16710153 original size:27 final size:27
Alignment explanation
Indices: 16710123--16710213 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 27
16710113 TAATAATCAA
16710123 ATATAAACTTAAATACAAATTTAATAC
1 ATATAAACTTAAATACAAATTTAATAC
* * * *
16710150 ATATAAGCAT-AGT-CAAATTTTTAATAATAAA
1 ATATAAACTTAAATACAAA---TT--TAAT-AC
16710181 ATATAAACTTAAATACAAATTTAATAC
1 ATATAAACTTAAATACAAATTTAATAC
16710208 ATATAA
1 ATATAA
16710214 GCACAATTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
25 4 0.08
26 2 0.04
27 15 0.31
28 6 0.12
30 6 0.12
31 9 0.19
32 2 0.04
33 4 0.08
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (27 bp):
ATATAAACTTAAATACAAATTTAATAC
Found at i:16710162 original size:58 final size:58
Alignment explanation
Indices: 16710100--16710216 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
16710090 AATAATATAA
*
16710100 ATAGTCAAATTTTTAATAATCAAATATAAACTTAAATACAAATTTAATACATATAAGC
1 ATAGTCAAATTTTTAATAATAAAATATAAACTTAAATACAAATTTAATACATATAAGC
16710158 ATAGTCAAATTTTTAATAATAAAATATAAACTTAAATACAAATTTAATACATATAAGC
1 ATAGTCAAATTTTTAATAATAAAATATAAACTTAAATACAAATTTAATACATATAAGC
16710216 A
1 A
16710217 CAATTTGTCT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.34
Consensus pattern (58 bp):
ATAGTCAAATTTTTAATAATAAAATATAAACTTAAATACAAATTTAATACATATAAGC
Found at i:16710201 original size:33 final size:32
Alignment explanation
Indices: 16710105--16710202 Score: 93
Period size: 33 Copynumber: 3.2 Consensus size: 32
16710095 TATAAATAGT
16710105 CAAATTTTTAATAATCAAATATAAACTTAAATA
1 CAAATTTTTAATAAT-AAATATAAACTTAAATA
* * * *
16710138 CAAA---TT--TAATACATATAAGCAT-AGT-
1 CAAATTTTTAATAATAAATATAAACTTAAATA
16710163 CAAATTTTTAATAATAAAATATAAACTTAAATA
1 CAAATTTTTAATAAT-AAATATAAACTTAAATA
16710196 CAAATTT
1 CAAATTT
16710203 AATACATATA
Statistics
Matches: 49, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
25 4 0.08
26 2 0.04
27 9 0.18
28 6 0.12
30 6 0.12
31 9 0.18
32 2 0.04
33 11 0.22
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (32 bp):
CAAATTTTTAATAATAAATATAAACTTAAATA
Found at i:16710204 original size:31 final size:30
Alignment explanation
Indices: 16710111--16710206 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 30
16710101 TAGTCAAATT
16710111 TTTAATAATCAAATATAAACTTAAATACAAA
1 TTTAATAAT-AAATATAAACTTAAATACAAA
* * * *
16710142 -TT--TAATACATATAAGCAT-AGT-CAAA
1 TTTAATAATAAATATAAACTTAAATACAAA
16710167 TTTTTAATAATAAAATATAAACTTAAATACAAA
1 --TTTAATAAT-AAATATAAACTTAAATACAAA
16710200 TTTAATA
1 TTTAATA
16710207 CATATAAGCA
Statistics
Matches: 49, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
25 4 0.08
26 2 0.04
27 9 0.18
28 6 0.12
30 6 0.12
31 16 0.33
32 2 0.04
33 4 0.08
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.35
Consensus pattern (30 bp):
TTTAATAATAAATATAAACTTAAATACAAA
Found at i:16710960 original size:21 final size:20
Alignment explanation
Indices: 16710936--16710988 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
16710926 AATCAATTGG
16710936 AAAATCCAAAATTTTTGAAAA
1 AAAATCCAAAATTTTT-AAAA
* * *
16710957 AAAAACCCAAATTTTTTAAA
1 AAAATCCAAAATTTTTAAAA
16710977 AAAATCCTAAAA
1 AAAATCC-AAAA
16710989 AACCCAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAATCCAAAATTTTTAAAA
Found at i:16713329 original size:19 final size:19
Alignment explanation
Indices: 16713305--16713348 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
16713295 GCATATATTC
*
16713305 TTGTTGGTAGCACAAGTTT
1 TTGTTGGCAGCACAAGTTT
*
16713324 TTGTTGGCAGCACATGTTT
1 TTGTTGGCAGCACAAGTTT
16713343 TTGTTG
1 TTGTTG
16713349 ATAGTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.11, G:0.27, T:0.45
Consensus pattern (19 bp):
TTGTTGGCAGCACAAGTTT
Found at i:16713964 original size:16 final size:16
Alignment explanation
Indices: 16713945--16713979 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
16713935 TTTAAAGAAT
16713945 CAATTAACACTGAAGG
1 CAATTAACACTGAAGG
16713961 CAA-TAACACTGAAGG
1 CAATTAACACTGAAGG
16713976 CAAT
1 CAAT
16713980 CTTAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (16 bp):
CAATTAACACTGAAGG
Found at i:16721447 original size:22 final size:21
Alignment explanation
Indices: 16721422--16721462 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
16721412 ATAAAAAATT
*
16721422 ATTCAAGTAAGTTAAACTTTTC
1 ATTCAAGTAAGCT-AACTTTTC
*
16721444 ATTCAATTAAGCTAACTTT
1 ATTCAAGTAAGCTAACTTT
16721463 ATTTCAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (21 bp):
ATTCAAGTAAGCTAACTTTTC
Found at i:16726726 original size:17 final size:16
Alignment explanation
Indices: 16726704--16726742 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
16726694 GTTTTAAGTG
16726704 ACACAAACTCACCATTA
1 ACACAAA-TCACCATTA
*
16726721 ACAC-AATCACCCTTA
1 ACACAAATCACCATTA
16726736 ACACAAA
1 ACACAAA
16726743 AATTGAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 12 0.60
16 4 0.20
17 4 0.20
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (16 bp):
ACACAAATCACCATTA
Found at i:16729995 original size:125 final size:127
Alignment explanation
Indices: 16729855--16730119 Score: 435
Period size: 133 Copynumber: 2.1 Consensus size: 127
16729845 ATTTTTTTTA
16729855 AAAAAAATTTTGTACAAAAGTTTCAATGTGAAATCTAA-TTTTTT-TTTTTGTACAAAAGTTTCC
1 AAAAAAATTTTGTACAAAAGTTTCAATGTGAAATCTAATTTTTTTATTTTTGTACAAAAGTTTCC
*
16729918 CCACCCCTACACTTAAATTAGACATTATCCCCAATGTGTATAAAGTAATTAAGAAATAAGGG
66 CCACCCCTACACTTAAATTAGACATTATCCCCAATGTATATAAAGTAATTAAGAAATAAGGG
*
16729980 AAAAAATTTTTGTACAAAAGTTTCAATGTGAAATCTAATTTTTTTTTTTTAATTTTTGTACAAAA
1 AAAAAAATTTTGTACAAAAGTTTCAATGTGAAATCTAA-----TTTTTTT-ATTTTTGTACAAAA
*
16730045 GTTTCCCCACCCCTACACTTAAATTAGACATTATCCCTAATGTATATAAAGTAATTAAGAAATAA
60 GTTTCCCCACCCCTACACTTAAATTAGACATTATCCCCAATGTATATAAAGTAATTAAGAAATAA
16730110 GGG
125 GGG
16730113 AAAAAAA
1 AAAAAAA
16730120 AAAGAGCTCT
Statistics
Matches: 128, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
125 37 0.29
131 6 0.05
133 85 0.66
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.35
Consensus pattern (127 bp):
AAAAAAATTTTGTACAAAAGTTTCAATGTGAAATCTAATTTTTTTATTTTTGTACAAAAGTTTCC
CCACCCCTACACTTAAATTAGACATTATCCCCAATGTATATAAAGTAATTAAGAAATAAGGG
Found at i:16740774 original size:22 final size:22
Alignment explanation
Indices: 16740732--16740775 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
16740722 CGTGAAACCC
*
16740732 TAAAAAAAAAAATACACTAAAA
1 TAAAAAAAAAAATACAATAAAA
*
16740754 TAAAAAAAATAAA-AGAATAAAA
1 TAAAAAAAA-AAATACAATAAAA
16740776 ATGTGATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.14
Consensus pattern (22 bp):
TAAAAAAAAAAATACAATAAAA
Found at i:16742421 original size:13 final size:13
Alignment explanation
Indices: 16742403--16742429 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16742393 TCAGTAATAT
16742403 ATTTATCGATGAA
1 ATTTATCGATGAA
16742416 ATTTATCGATGAA
1 ATTTATCGATGAA
16742429 A
1 A
16742430 AATTCTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTTATCGATGAA
Found at i:16743235 original size:3 final size:3
Alignment explanation
Indices: 16743229--16743258 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
16743219 CAACAACAAC
16743229 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16743259 CTCTTAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16745504 original size:37 final size:37
Alignment explanation
Indices: 16745454--16745528 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
16745444 CCTTCTAAAG
*
16745454 TTAGTTCAATCACAAATTAATGAAGGAAACTAACTAT
1 TTAGTTCAATCACAAATTAACGAAGGAAACTAACTAT
*
16745491 TTAGTTCAATCACAAATTAACGATGGAAACTAACTAT
1 TTAGTTCAATCACAAATTAACGAAGGAAACTAACTAT
16745528 T
1 T
16745529 ATGAAAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.31
Consensus pattern (37 bp):
TTAGTTCAATCACAAATTAACGAAGGAAACTAACTAT
Found at i:16746206 original size:105 final size:107
Alignment explanation
Indices: 16746067--16746278 Score: 311
Period size: 105 Copynumber: 2.0 Consensus size: 107
16746057 AACAGCAAGT
* * * *
16746067 TGAAAGGAATTTCTAAAAACCAAAACTTTAACTTAAAATCTGAATCTAACTTGTG-TAAAATCAA
1 TGAAAGGAATTCCTAAAAACCAAAACTTCAACTTAAAATCTGAATCTAACTTGTGAAAAAATAAA
* * * *
16746131 GTAAAAATGAGCTGGAAATTAAG-AAACATTGAGAGAACTAC
66 GTAAAAATAAGCTAGAAATTAAGAAAACATTAAGAAAACTAC
* *
16746172 TGAAAGGAATTCCTAGAAACCGAAACTTCAACTTAAAATCTGAATCTAACTTGTGAAAAAATAAA
1 TGAAAGGAATTCCTAAAAACCAAAACTTCAACTTAAAATCTGAATCTAACTTGTGAAAAAATAAA
*
16746237 GTAAACATAAGCTAGAAATTAAGAAAACATTAAGAAAACTAC
66 GTAAAAATAAGCTAGAAATTAAGAAAACATTAAGAAAACTAC
16746279 AAGATAATAT
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
105 51 0.54
106 27 0.29
107 16 0.17
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.24
Consensus pattern (107 bp):
TGAAAGGAATTCCTAAAAACCAAAACTTCAACTTAAAATCTGAATCTAACTTGTGAAAAAATAAA
GTAAAAATAAGCTAGAAATTAAGAAAACATTAAGAAAACTAC
Found at i:16746761 original size:48 final size:48
Alignment explanation
Indices: 16746663--16746761 Score: 135
Period size: 48 Copynumber: 2.1 Consensus size: 48
16746653 AAATGGAAGA
* ** *
16746663 AATGCAAACCAAACTTCTAGATGGAGAGTAAATCCTTACTTTGTTGCC
1 AATGCAAACCAAACTCCTAGATGGAGAGTAAATCCTTACTAAGTTACC
* * *
16746711 AATGCAAACCAGACTCCTAGATGGAGAGTAGATCCTTGCTAAGTTACC
1 AATGCAAACCAAACTCCTAGATGGAGAGTAAATCCTTACTAAGTTACC
16746759 AAT
1 AAT
16746762 CACACAAAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (48 bp):
AATGCAAACCAAACTCCTAGATGGAGAGTAAATCCTTACTAAGTTACC
Done.