Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 97 of 100
Found at i:17091123 original size:21 final size:21
Alignment explanation
Indices: 17091097--17091138 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17091087 TATTTATGGA
17091097 ATGCAAAAATAATGTGTTAAG
1 ATGCAAAAATAATGTGTTAAG
17091118 ATGCAAAAATAATGTGTTAAG
1 ATGCAAAAATAATGTGTTAAG
17091139 TTAATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (21 bp):
ATGCAAAAATAATGTGTTAAG
Found at i:17097397 original size:23 final size:23
Alignment explanation
Indices: 17097367--17097411 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
17097357 CTAGAATTTT
17097367 TTAAGAGTTTTCGAAAATACATA
1 TTAAGAGTTTTCGAAAATACATA
17097390 TTAAGAGTTTTCGAAAATACAT
1 TTAAGAGTTTTCGAAAATACAT
17097412 GATAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (23 bp):
TTAAGAGTTTTCGAAAATACATA
Found at i:17098777 original size:17 final size:17
Alignment explanation
Indices: 17098736--17098780 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
17098726 AATGGGAAAC
17098736 TTACTAAAAATATAAAG
1 TTACTAAAAATATAAAG
17098753 -TACTAAAAATA-ACAAG
1 TTACTAAAAATATA-AAG
*
17098769 TTACCAAAAATA
1 TTACTAAAAATA
17098781 GTAAGTTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 14 0.56
17 10 0.40
ACGTcount: A:0.60, C:0.11, G:0.04, T:0.24
Consensus pattern (17 bp):
TTACTAAAAATATAAAG
Found at i:17098786 original size:17 final size:16
Alignment explanation
Indices: 17098736--17098787 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
17098726 AATGGGAAAC
17098736 TTACTAAAAATATAAAG
1 TTACTAAAAATAT-AAG
*
17098753 -TACTAAAAATAACAAG
1 TTACTAAAAAT-ATAAG
*
17098769 TTACCAAAAATAGTAAG
1 TTACTAAAAATA-TAAG
17098786 TT
1 TT
17098788 GTACACCCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 14 0.48
17 15 0.52
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.27
Consensus pattern (16 bp):
TTACTAAAAATATAAG
Found at i:17104427 original size:14 final size:14
Alignment explanation
Indices: 17104396--17104439 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
17104386 CTACTTATTA
17104396 AAATTTTCT-AAAAT
1 AAATTTT-TAAAAAT
17104410 -AATTTTTAAAAAT
1 AAATTTTTAAAAAT
*
17104423 AAATTTTGAAAAAT
1 AAATTTTTAAAAAT
17104437 AAA
1 AAA
17104440 AAAGAAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 1 0.04
13 11 0.41
14 15 0.56
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (14 bp):
AAATTTTTAAAAAT
Found at i:17107926 original size:7 final size:7
Alignment explanation
Indices: 17107916--17107958 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
17107906 ATATTATATA
17107916 AAATAGT
1 AAATAGT
17107923 AAATAGT
1 AAATAGT
17107930 AAATAGT
1 AAATAGT
17107937 AAATA-T
1 AAATAGT
*
17107943 -AATAAT
1 AAATAGT
17107949 AAAATAGT
1 -AAATAGT
17107957 AA
1 AA
17107959 TAGAAACAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
5 4 0.12
6 2 0.06
7 21 0.66
8 5 0.16
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (7 bp):
AAATAGT
Found at i:17110021 original size:13 final size:13
Alignment explanation
Indices: 17109998--17110087 Score: 87
Period size: 13 Copynumber: 6.8 Consensus size: 13
17109988 AATGATACTC
17109998 AAAACCCTAAAATT
1 AAAA-CCTAAAATT
17110012 AAAACCTAAAATT
1 AAAACCTAAAATT
*
17110025 AAAA--TGAAACTT
1 AAAACCT-AAAATT
17110037 AAAACCCTAAAATT
1 AAAA-CCTAAAATT
*
17110051 AAAACC-ATAAATG
1 AAAACCTA-AAATT
*
17110064 AAACCCTAAAATT
1 AAAACCTAAAATT
17110077 AAAATCCTAAA
1 AAAA-CCTAAA
17110088 CAAAACCTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
11 1 0.02
12 10 0.16
13 31 0.49
14 20 0.32
15 1 0.02
ACGTcount: A:0.59, C:0.18, G:0.02, T:0.21
Consensus pattern (13 bp):
AAAACCTAAAATT
Found at i:17110041 original size:39 final size:40
Alignment explanation
Indices: 17109985--17110061 Score: 129
Period size: 39 Copynumber: 1.9 Consensus size: 40
17109975 CGTAAATTCC
*
17109985 TAAAATGATACTCAAAACCCTAAAATTAAAACC-TAAAAT
1 TAAAATGAAACTCAAAACCCTAAAATTAAAACCATAAAAT
*
17110024 TAAAATGAAACTTAAAACCCTAAAATTAAAACCATAAA
1 TAAAATGAAACTCAAAACCCTAAAATTAAAACCATAAA
17110062 TGAAACCCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 31 0.89
40 4 0.11
ACGTcount: A:0.58, C:0.17, G:0.03, T:0.22
Consensus pattern (40 bp):
TAAAATGAAACTCAAAACCCTAAAATTAAAACCATAAAAT
Found at i:17110049 original size:20 final size:20
Alignment explanation
Indices: 17109983--17110049 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
17109973 TTCGTAAATT
* *
17109983 CCTAAAATGATACTCAAAAC
1 CCTAAAATGAAACTTAAAAC
* *
17110003 CCTAAAATTAAAACCTAAAA-
1 CCTAAAA-TGAAACTTAAAAC
*
17110023 -TTAAAATGAAACTTAAAAC
1 CCTAAAATGAAACTTAAAAC
17110042 CCTAAAAT
1 CCTAAAAT
17110050 TAAAACCATA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
18 10 0.28
19 5 0.14
20 13 0.36
21 8 0.22
ACGTcount: A:0.55, C:0.19, G:0.03, T:0.22
Consensus pattern (20 bp):
CCTAAAATGAAACTTAAAAC
Found at i:17110049 original size:26 final size:26
Alignment explanation
Indices: 17110008--17110101 Score: 93
Period size: 26 Copynumber: 3.7 Consensus size: 26
17109998 AAAACCCTAA
*
17110008 AATTAAAA-CCTAAAATTAAAATGA-
1 AATTAAAACCCTAAAATTAAAATCAT
*
17110032 AACTTAAAACCCTAAAATTAAAACCAT
1 AA-TTAAAACCCTAAAATTAAAATCAT
* * *
17110059 AAATGAAACCCTAAAATTAAAATCCT
1 AATTAAAACCCTAAAATTAAAATCAT
** *
17110085 AAACAAAACCTTAAAAT
1 AATTAAAACCCTAAAAT
17110102 CCTAGGTGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
24 2 0.03
25 6 0.10
26 48 0.83
27 2 0.03
ACGTcount: A:0.59, C:0.17, G:0.02, T:0.22
Consensus pattern (26 bp):
AATTAAAACCCTAAAATTAAAATCAT
Found at i:17110152 original size:13 final size:14
Alignment explanation
Indices: 17110116--17110154 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
17110106 GGTGAAACCC
17110116 AAAACCATAAAACT
1 AAAACCATAAAACT
17110130 AAAA-CATAAAA-T
1 AAAACCATAAAACT
*
17110142 AAAACCCTAAAAC
1 AAAACCATAAAAC
17110155 CCTAGTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 5 0.23
13 13 0.59
14 4 0.18
ACGTcount: A:0.67, C:0.21, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAACCATAAAACT
Found at i:17110296 original size:20 final size:20
Alignment explanation
Indices: 17110233--17110296 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
17110223 AAAAATTCCA
17110233 AAAATGAAA-TCTAAAA-CCTT
1 AAAATGAAACTC-AAAATCC-T
* *
17110253 AAAATAAAACCCCAAAAT--T
1 AAAATGAAA-CTCAAAATCCT
17110272 AAAATGAAACTCAAAATCCT
1 AAAATGAAACTCAAAATCCT
17110292 AAAAT
1 AAAAT
17110297 TACAACCCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 7 0.20
19 9 0.26
20 14 0.40
21 4 0.11
22 1 0.03
ACGTcount: A:0.59, C:0.17, G:0.03, T:0.20
Consensus pattern (20 bp):
AAAATGAAACTCAAAATCCT
Found at i:17110397 original size:12 final size:13
Alignment explanation
Indices: 17110374--17110406 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
17110364 GAACCTTAAC
17110374 CCTAAAATTAAAA
1 CCTAAAATTAAAA
17110387 CCTAAAA-TAAAA
1 CCTAAAATTAAAA
17110399 CCTTAAAA
1 CC-TAAAA
17110407 CTCTAGGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (13 bp):
CCTAAAATTAAAA
Found at i:17116408 original size:10 final size:10
Alignment explanation
Indices: 17116393--17116429 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
17116383 CTTCCACTTG
17116393 AACAAAAATA
1 AACAAAAATA
17116403 AACAAAAA-A
1 AACAAAAATA
*
17116412 AA-AAAGATA
1 AACAAAAATA
17116421 AACAAAAAT
1 AACAAAAAT
17116430 TAAAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
8 4 0.17
9 6 0.26
10 13 0.57
ACGTcount: A:0.81, C:0.08, G:0.03, T:0.08
Consensus pattern (10 bp):
AACAAAAATA
Found at i:17118346 original size:29 final size:30
Alignment explanation
Indices: 17118304--17118371 Score: 120
Period size: 29 Copynumber: 2.3 Consensus size: 30
17118294 TAGAATCTTC
*
17118304 CTCAAATTTAAAATTTTCATCTTCA-AAGA
1 CTCAAATTCAAAATTTTCATCTTCAGAAGA
17118333 CTCAAATTCAAAATTTTCATCTTCAGAAGA
1 CTCAAATTCAAAATTTTCATCTTCAGAAGA
17118363 CTCAAATTC
1 CTCAAATTC
17118372 TAAAGAAGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 24 0.65
30 13 0.35
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35
Consensus pattern (30 bp):
CTCAAATTCAAAATTTTCATCTTCAGAAGA
Found at i:17125374 original size:20 final size:20
Alignment explanation
Indices: 17125349--17125388 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17125339 TTCATAAAGG
17125349 TATGATATAAATCTACCATT
1 TATGATATAAATCTACCATT
17125369 TATGATATAAATCTACCATT
1 TATGATATAAATCTACCATT
17125389 AAACACCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (20 bp):
TATGATATAAATCTACCATT
Found at i:17126375 original size:5 final size:5
Alignment explanation
Indices: 17126353--17126417 Score: 53
Period size: 5 Copynumber: 13.0 Consensus size: 5
17126343 GAAAAAGAAT
* * *
17126353 GAAAA CAAAA GAAGAA GAAAA GAAAA GAAAA -ACAAA GAAAA CAAAA CAAAA
1 GAAAA GAAAA GAA-AA GAAAA GAAAA GAAAA GA-AAA GAAAA GAAAA GAAAA
**
17126404 GTGAA GAAAA -AAAA
1 GAAAA GAAAA GAAAA
17126418 ATAAAGTAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
4 5 0.10
5 38 0.78
6 6 0.12
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.02
Consensus pattern (5 bp):
GAAAA
Found at i:17126418 original size:20 final size:20
Alignment explanation
Indices: 17126354--17126418 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
17126344 AAAAAGAATG
17126354 AAAACAAAAGAAGAAGAAAAGA
1 AAAACAAAAG-AGAAGAAAA-A
* *
17126376 AAAGA-AAAACA-AAGAAAAC
1 AAA-ACAAAAGAGAAGAAAAA
*
17126395 AAAACAAAAGTGAAGAAAAA
1 AAAACAAAAGAGAAGAAAAA
17126415 AAAA
1 AAAA
17126419 TAAAGTAGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
18 1 0.03
19 7 0.20
20 18 0.51
21 1 0.03
22 7 0.20
23 1 0.03
ACGTcount: A:0.78, C:0.06, G:0.14, T:0.02
Consensus pattern (20 bp):
AAAACAAAAGAGAAGAAAAA
Found at i:17129250 original size:33 final size:31
Alignment explanation
Indices: 17129208--17129278 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 31
17129198 ATAAATGTTT
* * *
17129208 TATTTATTTAACATGTTAAATTATTTATTTATC
1 TATTTATTTAACATG-TAAATGACTTATTTA-A
17129241 TATTTATTTAACATGTAAATGACTTATTTAA
1 TATTTATTTAACATGTAAATGACTTATTTAA
17129272 TATTTAT
1 TATTTAT
17129279 GAAATTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 7 0.20
32 13 0.37
33 15 0.43
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (31 bp):
TATTTATTTAACATGTAAATGACTTATTTAA
Found at i:17132716 original size:23 final size:24
Alignment explanation
Indices: 17132660--17132717 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
17132650 AAATCATTAA
17132660 TAAATT-TTTAACAAAATTAATTT
1 TAAATTATTTAACAAAATTAATTT
* * *
17132683 TATACTA-TTAAC-AAATTATTTT
1 TAAATTATTTAACAAAATTAATTT
17132705 TAAATTATTTAAC
1 TAAATTATTTAAC
17132718 TTTAACATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAATTATTTAACAAAATTAATTT
Found at i:17133001 original size:21 final size:21
Alignment explanation
Indices: 17132951--17132998 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
17132941 ATTCTAATAG
* *
17132951 TAAATTTAAATTAATTCATTT
1 TAAATTCAAAATAATTCATTT
*
17132972 TAAATTCAAAATAATTTATTT
1 TAAATTCAAAATAATTCATTT
17132993 TCAAAT
1 T-AAAT
17132999 CAATTCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (21 bp):
TAAATTCAAAATAATTCATTT
Found at i:17133030 original size:16 final size:16
Alignment explanation
Indices: 17132953--17133030 Score: 54
Period size: 16 Copynumber: 4.9 Consensus size: 16
17132943 TCTAATAGTA
*
17132953 AATTTAAA-TTAATTC
1 AATTTAAATTTAAATC
* *
17132968 ATTTTAAATTCAAAAT-
1 AATTTAAATT-TAAATC
*
17132984 AATTT-ATTTTCAAATC
1 AATTTAAATTT-AAATC
* * *
17133000 AATTCAAAATAAAATC
1 AATTTAAATTTAAATC
17133016 AATTTAAATTTAAAT
1 AATTTAAATTTAAAT
17133031 TGCTGACATT
Statistics
Matches: 45, Mismatches: 13, Indels: 9
0.67 0.19 0.13
Matches are distributed among these distances:
15 14 0.31
16 26 0.58
17 5 0.11
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTTAAATTTAAATC
Found at i:17148764 original size:3 final size:3
Alignment explanation
Indices: 17148750--17148802 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
17148740 TTCATCAAAT
* *
17148750 ACA ACA ATA ACA ACA ATA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
17148798 ACA AC
1 ACA AC
17148803 CCAAGCTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.66, C:0.30, G:0.00, T:0.04
Consensus pattern (3 bp):
ACA
Found at i:17153198 original size:3 final size:3
Alignment explanation
Indices: 17153190--17153224 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
17153180 CATTTAGAAA
17153190 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17153225 CAACAACAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17154595 original size:3 final size:3
Alignment explanation
Indices: 17154587--17154630 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
17154577 ATGTCGTGGA
17154587 AAG AAG AAG AAG AAG AAGG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG A
17154631 TGTTGCCATT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:17156078 original size:13 final size:14
Alignment explanation
Indices: 17156053--17156081 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17156043 AAAATATTTA
17156053 AATATATTAAAAAT
1 AATATATTAAAAAT
17156067 AATATA-TAAAAAT
1 AATATATTAAAAAT
17156080 AA
1 AA
17156082 AAAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AATATATTAAAAAT
Found at i:17157449 original size:25 final size:25
Alignment explanation
Indices: 17157413--17157461 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
17157403 GAATAACATG
17157413 TAATATTTATAAAATATTTATTTAA
1 TAATATTTATAAAATATTTATTTAA
*
17157438 TAAT-TTTCATAATATATTTATTTA
1 TAATATTT-ATAAAATATTTATTTA
17157462 GCACATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATATTTATAAAATATTTATTTAA
Found at i:17159460 original size:62 final size:62
Alignment explanation
Indices: 17159327--17159462 Score: 182
Period size: 62 Copynumber: 2.2 Consensus size: 62
17159317 AAAATTGAAG
* * * **
17159327 GGGATTATTAAAGGCGTTTTTTGCCAGAAACGACTTGAATAACCTTATTCAATTTTTTGTAA
1 GGGATTATTCAAGGCATTTTTTACCAGAAACGACTTGAATAACCCCATTCAATTTTTTGTAA
* * * * *
17159389 AGGATTATTCAAGGCATTTTTTACTAGAAATGCCTTGAGTAACCCCATTCAATTTTTTGTAA
1 GGGATTATTCAAGGCATTTTTTACCAGAAACGACTTGAATAACCCCATTCAATTTTTTGTAA
17159451 GGGATTATTCAA
1 GGGATTATTCAA
17159463 AACGTTTCTG
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (62 bp):
GGGATTATTCAAGGCATTTTTTACCAGAAACGACTTGAATAACCCCATTCAATTTTTTGTAA
Found at i:17166167 original size:160 final size:160
Alignment explanation
Indices: 17165901--17166711 Score: 450
Period size: 160 Copynumber: 5.2 Consensus size: 160
17165891 AGAAAGTTGT
* * *
17165901 TGTTTATATC-CGTTTAGCACTTTTTGTGTCATTAAAATGCAAAAATGTAAATATGCTGTTATTT
1 TGTTTATATCTC-TTTAGCACTTTTTGTGCCATTAAAATACAAAAATGTAAATATGCTGTTATTA
* * * * * *
17165965 TTTTTATTTTAATAGTTTGGATAGCTTCAATACATTATATTAAACTTGCT-TGAATGATTGAACT
65 TTTATATTTTAACAGTTTAGATAGCTTAAATACATGATATTAAAC-TGATATGAATGATTGAACT
* *
17166029 TGGT-TTCATGATTGATATATGTG-AAAAGTTAC
129 TGGTGTCCACGATTG--ATATGTGAAAAAGTTAC
* * *
17166061 TGTTTATATCTCTTTAGGACTTTAATGTGCCATTAAAGA-ACACAAATGTAAATATG-TAGTTA-
1 TGTTTATATCTCTTTAGCACTTT-TTGTGCCATTAAA-ATACAAAAATGTAAATATGCT-GTTAT
*
17166123 TATTTATGTTTTAACAGTTTAGATAGCTTAAATACATGATATTAAACTGATATGAATGATTGAAC
63 TATTTATATTTTAACAGTTTAGATAGCTTAAATACATGATATTAAACTGATATGAATGATTGAAC
* *
17166188 TTGGTGTCCACGATTGATGTGTGAAAAAGTTAT
128 TTGGTGTCCACGATTGATATGTGAAAAAGTTAC
* * * ** * * * * *
17166221 TGTTTATGTCTGTTTAGCACTTTTTTGTGCCGTTAAAAGGCCAAAAGGCAAATTTGCTTTTATTA
1 TGTTTATATCTCTTTAGCAC-TTTTTGTGCCATTAAAATACAAAAATGTAAATATGCTGTTATTA
* * * * * *
17166286 -TTCTATTTTAACAGTCTAGATAGTTTCAATAAATGATATTAAACT--TA-G--T--TTGCAC--
65 TTTATATTTTAACAGTTTAGATAGCTTAAATACATGATATTAAACTGATATGAATGATTGAACTT
*
17166341 AGT-T----GATATG-TA--TGAAAAAGTTAC
130 GGTGTCCACGAT-TGATATGTGAAAAAGTTAC
* * * * *** **** *
17166365 CGATTATATCTATTTAAG-ATTTTTTGTGTTGTTAAAAGGTTAAAATGCAAATTTATG-T-TTAT
1 TGTTTATATCTCTTT-AGCACTTTTTGTGCCATTAAAATACAAAAATGTAAA--TATGCTGTTAT
* * * * ** * * ** * *
17166427 TA-TTATGTTTGAATAGTTTTGATATTTTTAATACATAATATTAAACTTG-TCCGGATAATTGAA
63 TATTTATATTTTAACAGTTTAGATAGCTTAAATACATGATATTAAAC-TGATATGAATGATTGAA
* * *
17166490 CTTGGTTTCTACGATTGATATGTATAAAAAAGTTA-
127 CTTGGTGTCCACGATTGATATG--TGAAAAAGTTAC
* * * * * * * * * *
17166525 TCGTTTATGTCTTTTTAGGACTTTGTTATGCCATTAAAGGT-TAAAAATGTCATTTTGCAGTTA-
1 T-GTTTATATCTCTTTAGCACTTT-TTGTGCCATTAAA-ATACAAAAATGTAAATATGCTGTTAT
* * * * ** * *
17166588 TGTTTATGTTTTAATAGTTTAGATAGCTTAAATACATTATATTAAACTTTTTTGAATTATTGAAC
63 TATTTATATTTTAACAGTTTAGATAGCTTAAATACATGATATTAAACTGATATGAATGATTGAAC
* *
17166653 TTGGTTTCCACGAATGATATGT-ATGAAAAGTTA-
128 TTGGTGTCCACGATTGATATGTGA--AAAAGTTAC
*
17166686 TCGTTTATATCTGTTTAGCACTTTTT
1 T-GTTTATATCTCTTTAGCACTTTTT
17166712 TATGCTGTTA
Statistics
Matches: 509, Mismatches: 98, Indels: 88
0.73 0.14 0.13
Matches are distributed among these distances:
143 66 0.13
144 25 0.05
145 6 0.01
146 5 0.01
147 2 0.00
148 1 0.00
150 6 0.01
151 2 0.00
152 2 0.00
153 6 0.01
155 1 0.00
156 2 0.00
157 6 0.01
158 2 0.00
159 11 0.02
160 176 0.35
161 101 0.20
162 89 0.17
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (160 bp):
TGTTTATATCTCTTTAGCACTTTTTGTGCCATTAAAATACAAAAATGTAAATATGCTGTTATTAT
TTATATTTTAACAGTTTAGATAGCTTAAATACATGATATTAAACTGATATGAATGATTGAACTTG
GTGTCCACGATTGATATGTGAAAAAGTTAC
Found at i:17167503 original size:27 final size:27
Alignment explanation
Indices: 17167465--17167517 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
17167455 TAAACATACA
17167465 TTACATTCATTCATGACCATTAATGTT
1 TTACATTCATTCATGACCATTAATGTT
17167492 TTACATTCATTCATGACCATTAATGT
1 TTACATTCATTCATGACCATTAATGT
17167518 CAAATCATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (27 bp):
TTACATTCATTCATGACCATTAATGTT
Found at i:17168362 original size:13 final size:13
Alignment explanation
Indices: 17168344--17168368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17168334 CAATCAATAC
17168344 AGTTATATTATAT
1 AGTTATATTATAT
17168357 AGTTATATTATA
1 AGTTATATTATA
17168369 GATATGGCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
AGTTATATTATAT
Found at i:17171389 original size:16 final size:17
Alignment explanation
Indices: 17171365--17171408 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
17171355 ATCTGAAAGT
17171365 CTTTACAAACCTA-AAC
1 CTTTACAAACCTAGAAC
* *
17171381 CTTTGCAAATCTAGAAC
1 CTTTACAAACCTAGAAC
17171398 CTTTACGAAAC
1 CTTTAC-AAAC
17171409 TTGAAATCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 11 0.50
17 8 0.36
18 3 0.14
ACGTcount: A:0.39, C:0.27, G:0.07, T:0.27
Consensus pattern (17 bp):
CTTTACAAACCTAGAAC
Found at i:17171408 original size:85 final size:86
Alignment explanation
Indices: 17171250--17171418 Score: 241
Period size: 85 Copynumber: 2.0 Consensus size: 86
17171240 AGAATTATGC
* * ** *
17171250 GAATCTTCCATTCCTGCAAATCTGATAGCCTTTATGAACCTGAAACCTTTGCCAATCTAGAACCT
1 GAATCTTCCATTCCTACAAATCTGAAAGCCTTTACAAACCTGAAACCTTTGCAAATCTAGAACCT
*
17171315 TTGCGAAACTTGAAATCTTGT
66 TTACGAAACTTGAAATCTTGT
* ** *
17171336 GAATCTTCCATTCTTATGAATCTGAAAGTCTTTACAAACCT-AAACCTTTGCAAATCTAGAACCT
1 GAATCTTCCATTCCTACAAATCTGAAAGCCTTTACAAACCTGAAACCTTTGCAAATCTAGAACCT
17171400 TTACGAAACTTGAAATCTT
66 TTACGAAACTTGAAATCTT
17171419 ACAAATTTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
85 40 0.55
86 33 0.45
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (86 bp):
GAATCTTCCATTCCTACAAATCTGAAAGCCTTTACAAACCTGAAACCTTTGCAAATCTAGAACCT
TTACGAAACTTGAAATCTTGT
Found at i:17172761 original size:14 final size:15
Alignment explanation
Indices: 17172744--17172776 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17172734 TATTCTTCTC
17172744 ATTTTATTTA-TTTT
1 ATTTTATTTATTTTT
*
17172758 ATTTTGTTTATTTTT
1 ATTTTATTTATTTTT
17172773 ATTT
1 ATTT
17172777 ACTCTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (15 bp):
ATTTTATTTATTTTT
Found at i:17175045 original size:16 final size:16
Alignment explanation
Indices: 17175009--17175045 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
17174999 AAAAAAAGCT
17175009 TATATTATATATAAAC
1 TATATTATATATAAAC
17175025 T-TATTGATATATAAA-
1 TATATT-ATATATAAAC
17175040 TATATT
1 TATATT
17175046 CGCAAGCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (16 bp):
TATATTATATATAAAC
Found at i:17175444 original size:22 final size:22
Alignment explanation
Indices: 17175419--17175462 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
17175409 TCCTTAAAAG
17175419 AATGAGTTGCACTAGTCAAGTT
1 AATGAGTTGCACTAGTCAAGTT
17175441 AATGAGTTGCACTAGTCAAGTT
1 AATGAGTTGCACTAGTCAAGTT
17175463 TCTAAAGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (22 bp):
AATGAGTTGCACTAGTCAAGTT
Found at i:17175617 original size:102 final size:102
Alignment explanation
Indices: 17175441--17175626 Score: 327
Period size: 102 Copynumber: 1.8 Consensus size: 102
17175431 TAGTCAAGTT
*
17175441 AATGAGTTGCACTAGTCAAGTTTCTAAAGCTATTGACAAGCACTATAGTTTGGATCATGCTATTT
1 AATGAGTTGCACTAGTCAAGTTTCTAAAGCTATTGACAAGCACTATAGTTTGGATCATACTATTT
17175506 TATTACAAGGTCTTTTAACGATTGAGTTCTCTAAAAG
66 TATTACAAGGTCTTTTAACGATTGAGTTCTCTAAAAG
** **
17175543 AATGAGTTGCACTAGTCAAGTTTCTATGGCTATTGACAAGCACTATAGTTTTTATCATACTATTT
1 AATGAGTTGCACTAGTCAAGTTTCTAAAGCTATTGACAAGCACTATAGTTTGGATCATACTATTT
17175608 TATTACAAGGTCTTTTAAC
66 TATTACAAGGTCTTTTAAC
17175627 TTTTTTTCTC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 79 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (102 bp):
AATGAGTTGCACTAGTCAAGTTTCTAAAGCTATTGACAAGCACTATAGTTTGGATCATACTATTT
TATTACAAGGTCTTTTAACGATTGAGTTCTCTAAAAG
Found at i:17178475 original size:162 final size:162
Alignment explanation
Indices: 17178299--17178632 Score: 383
Period size: 162 Copynumber: 2.1 Consensus size: 162
17178289 TAATAAGAGC
* * * * * *
17178299 TATCTAAACTGTTAAAATAGAACA-ATAACTA-TAAATTTGCATTTTTTCCTTTTAAC-GTTATA
1 TATCTAAACTGTTAAAACAGAA-ATATAA-TAGTAAAATTACATTTTTGCCCTTTAACAG-CATA
* * * * * * **
17178361 A-AAAGTCCTAAACAGACATAAACCGTAA-CTTATTCATACATATCAAATCGTGAAAATTAAATT
63 ACAAAATCCTAAAAAGACAT-AACAGTAATATTATTCACACATATC-AACCGTGAAAACCAAATT
17178424 CAATCATTCAAACAAGTTTAATAT-TATGTATTAAAGT
126 CAATCATTCAAACAAGTTTAATATCT-TGTATTAAAGT
* *
17178461 TATCTAAACTGTTAAAACATAAATATAATAGTAAAATTATATTTTTGCCCTTTAACAGCATAACA
1 TATCTAAACTGTTAAAACAGAAATATAATAGTAAAATTACATTTTTGCCCTTTAACAGCATAACA
* * * *
17178526 AAATCCTAAAAAGACATAACAGTAATATTTTTCACATATATCAGCCGTGAAAACCAAGTTCAATC
66 AAATCCTAAAAAGACATAACAGTAATATTATTCACACATATCAACCGTGAAAACCAAATTCAATC
*
17178591 ATTCAAACAAGTTTAATATCTTGTATTGAAGT
131 ATTCAAACAAGTTTAATATCTTGTATTAAAGT
17178623 TATCTAAACT
1 TATCTAAACT
17178633 ATGGTTGCGA
Statistics
Matches: 145, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
161 3 0.02
162 112 0.77
163 30 0.21
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (162 bp):
TATCTAAACTGTTAAAACAGAAATATAATAGTAAAATTACATTTTTGCCCTTTAACAGCATAACA
AAATCCTAAAAAGACATAACAGTAATATTATTCACACATATCAACCGTGAAAACCAAATTCAATC
ATTCAAACAAGTTTAATATCTTGTATTAAAGT
Found at i:17183720 original size:43 final size:44
Alignment explanation
Indices: 17183662--17183755 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 44
17183652 TATTTTACTT
**
17183662 AAAAAAAGTTCAAGTTG-AAACCTAAAACG-GTAGCTTGAGCAAA
1 AAAAAAAGTTCAAGTTGAAAACCTAAAA-GAAAAGCTTGAGCAAA
*
17183705 AAAAAAAGTTTAAGTTGAAAACCTAAAAGAAAAGCTTGAGCAAA
1 AAAAAAAGTTCAAGTTGAAAACCTAAAAGAAAAGCTTGAGCAAA
17183749 AAAAAAA
1 AAAAAAA
17183756 AAAAAGAGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 17 0.37
44 29 0.63
ACGTcount: A:0.56, C:0.11, G:0.16, T:0.17
Consensus pattern (44 bp):
AAAAAAAGTTCAAGTTGAAAACCTAAAAGAAAAGCTTGAGCAAA
Found at i:17184590 original size:60 final size:60
Alignment explanation
Indices: 17184479--17184595 Score: 141
Period size: 60 Copynumber: 1.9 Consensus size: 60
17184469 TTGCATAATC
**
17184479 ACTTGTTTTTATCTTGGCTTAGTCAAGATCATCTTTCTAACTCATGGTTTGATCTCGATT
1 ACTTGTTTTTATCTTGGCTTAGTCAAGATCATCTTTCTAACTCATAATTTGATCTCGATT
* * *
17184539 ACTT-TTTTTCATCTTGG-TTCAGTTC-AGATCATCTTTTTGACTCGTAATTTGATCTCG
1 ACTTGTTTTT-ATCTTGGCTT-AG-TCAAGATCATCTTTCTAACTCATAATTTGATCTCG
17184596 GTCACTGGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
59 7 0.14
60 40 0.82
61 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (60 bp):
ACTTGTTTTTATCTTGGCTTAGTCAAGATCATCTTTCTAACTCATAATTTGATCTCGATT
Found at i:17184652 original size:59 final size:59
Alignment explanation
Indices: 17184545--17184658 Score: 140
Period size: 59 Copynumber: 1.9 Consensus size: 59
17184535 GATTACTTTT
* * * * *
17184545 TTTCATCTTGGTTCAGTTCAGATCATCTTTTTGACTCGTAATTTGATCTCGGTCACTGG
1 TTTCATCTTAGTTCAATTCAGATCATCTGTTTGACTCGCAATTCGATCTCGGTCACTGG
* * *
17184604 TTTCATCTTAGTTCAA-TCTAGGTCATCTGTTTGACTCGCAGTTCGATCTTGGTCA
1 TTTCATCTTAGTTCAATTC-AGATCATCTGTTTGACTCGCAATTCGATCTCGGTCA
17184659 TTTAGTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
58 2 0.04
59 44 0.96
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (59 bp):
TTTCATCTTAGTTCAATTCAGATCATCTGTTTGACTCGCAATTCGATCTCGGTCACTGG
Found at i:17185162 original size:3 final size:3
Alignment explanation
Indices: 17185154--17185223 Score: 95
Period size: 3 Copynumber: 22.7 Consensus size: 3
17185144 CAATCAATGT
*
17185154 TTA TTA TTA TTA TTTA TTA TTTA TTA TTA TTA TTA TTA TTA TTG TTA
1 TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
17185201 TTG TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
17185224 TTTTTTTACT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
3 53 0.90
4 6 0.10
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17186014 original size:24 final size:24
Alignment explanation
Indices: 17185968--17186014 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17185958 TTTTTTCTTC
* *
17185968 ATTTTATTTTCATTTTTTGATTTG
1 ATTTTATTTTCATTTTCTAATTTG
17185992 ATTTTATTTT-ATTTTACTAATTT
1 ATTTTATTTTCATTTT-CTAATTT
17186015 TTTTAATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (24 bp):
ATTTTATTTTCATTTTCTAATTTG
Found at i:17186277 original size:5 final size:5
Alignment explanation
Indices: 17186269--17186340 Score: 55
Period size: 5 Copynumber: 14.8 Consensus size: 5
17186259 CCTTTTTTTC
* *
17186269 TTTAT TTTAT TTTCA- TTT-T TTGAT TTTA- TTT-T TTGAT TTTAT TTTGAT
1 TTTAT TTTAT TTT-AT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT-AT
*
17186317 TTT-T AGTTAT TTTAT TTTAT TTTA
1 TTTAT -TTTAT TTTAT TTTAT TTTA
17186341 CTAATTTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
4 8 0.15
5 38 0.72
6 7 0.13
ACGTcount: A:0.18, C:0.01, G:0.06, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:17186299 original size:13 final size:13
Alignment explanation
Indices: 17186273--17186339 Score: 70
Period size: 13 Copynumber: 5.2 Consensus size: 13
17186263 TTTTTCTTTA
17186273 TTTT-ATTTTCATT
1 TTTTGATTTT-ATT
17186286 TTTTGATTTTATT
1 TTTTGATTTTATT
17186299 TTTTGATTTTA--
1 TTTTGATTTTATT
17186310 TTTTGATTTTTAGTT
1 TTTTGA-TTTTA-TT
17186325 ATTTT-ATTTTATT
1 -TTTTGATTTTATT
17186338 TT
1 TT
17186340 ACTAATTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
11 6 0.12
12 7 0.15
13 20 0.42
14 10 0.21
15 1 0.02
16 4 0.08
ACGTcount: A:0.16, C:0.01, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTTGATTTTATT
Found at i:17186309 original size:32 final size:33
Alignment explanation
Indices: 17186272--17186334 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
17186262 TTTTTTCTTT
17186272 ATTTTATTTTCATTTTT-TGATTTTATTTTTTG
1 ATTTTATTTTCATTTTTATGATTTTATTTTTTG
* *
17186304 ATTTTATTTTGATTTTTAGTTATTTTATTTT
1 ATTTTATTTTCATTTTTA-TGATTTTATTTT
17186335 ATTTTACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 16 0.59
34 11 0.41
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (33 bp):
ATTTTATTTTCATTTTTATGATTTTATTTTTTG
Found at i:17186312 original size:26 final size:28
Alignment explanation
Indices: 17186270--17186339 Score: 87
Period size: 26 Copynumber: 2.6 Consensus size: 28
17186260 CTTTTTTTCT
17186270 TTATTTTATTTTCATTTTTTGA-TTTTA-
1 TTATTTTATTTT-ATTTTTTGATTTTTAG
17186297 TT-TTTTGATTTTA--TTTTGATTTTTAG
1 TTATTTT-ATTTTATTTTTTGATTTTTAG
17186323 TTATTTTATTTTATTTT
1 TTATTTTATTTTATTTT
17186340 ACTAATTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
24 6 0.16
25 5 0.14
26 13 0.35
27 11 0.30
28 2 0.05
ACGTcount: A:0.17, C:0.01, G:0.06, T:0.76
Consensus pattern (28 bp):
TTATTTTATTTTATTTTTTGATTTTTAG
Found at i:17186347 original size:19 final size:18
Alignment explanation
Indices: 17186269--17186348 Score: 56
Period size: 19 Copynumber: 4.2 Consensus size: 18
17186259 CCTTTTTTTC
*
17186269 TTTATTTTATTTTC-ATTT
1 TTTATTTTATTTTCTA-AT
* *
17186287 TTTGATTTTATTTTTTGAT
1 TTT-ATTTTATTTTCTAAT
17186306 TTTATTTTGATTTT-TAGTTAT
1 TTTATTTT-ATTTTCTA---AT
17186327 TTTATTTTATTTTACTAAT
1 TTTATTTTATTTT-CTAAT
17186346 TTT
1 TTT
17186349 TTTAGTTGAG
Statistics
Matches: 50, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
18 9 0.18
19 24 0.48
20 5 0.10
21 10 0.20
22 2 0.04
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTATTTTATTTTCTAAT
Found at i:17187635 original size:21 final size:20
Alignment explanation
Indices: 17187585--17187637 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
17187575 TATCAATAAG
* * *
17187585 TTTATATATAATATAATTTT
1 TTTATTTATAAGATAAATTT
*
17187605 TTTAAATTATAAGATAAGATTT
1 TTT-ATTTATAAGATAA-ATTT
17187627 TTTATTTATAA
1 TTTATTTATAA
17187638 ACAATTCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 3 0.12
21 17 0.65
22 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTATTTATAAGATAAATTT
Found at i:17189469 original size:20 final size:18
Alignment explanation
Indices: 17189420--17189488 Score: 61
Period size: 20 Copynumber: 3.7 Consensus size: 18
17189410 CATAAAAAGT
*
17189420 ATATGTAAATAAAATAAAA
1 ATAT-TAAATATAATAAAA
* *
17189439 AGATAATAATAGTAATAAAA
1 ATATTA-AATA-TAATAAAA
17189459 ATATTAGAATAT--TAAAA
1 ATATTA-AATATAATAAAA
17189476 ATATTAAATATAA
1 ATATTAAATATAA
17189489 AAATTAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 1 0.03
19 8 0.20
20 15 0.38
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (18 bp):
ATATTAAATATAATAAAA
Found at i:17189476 original size:17 final size:15
Alignment explanation
Indices: 17189453--17189503 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 15
17189443 AATAATAGTA
17189453 ATAAAAATATTAGAAT
1 ATAAAAATATTA-AAT
17189469 ATTAAAAATATTAAAT
1 A-TAAAAATATTAAAT
17189485 AT-AAAA-ATTAAAT
1 ATAAAAATATTAAAT
17189498 -TAAAAA
1 ATAAAAA
17189504 ATAATTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
12 1 0.03
13 11 0.33
14 4 0.12
15 1 0.03
16 5 0.15
17 11 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAAATATTAAAT
Found at i:17192379 original size:13 final size:13
Alignment explanation
Indices: 17192357--17192430 Score: 69
Period size: 13 Copynumber: 5.7 Consensus size: 13
17192347 AAGTCCCAAG
*
17192357 ATTGAGACCTTAA
1 ATTGAAACCTTAA
17192370 ATTGAAACCTTAA
1 ATTGAAACCTTAA
* * *
17192383 CTCGAAACCCTAA
1 ATTGAAACCTTAA
*
17192396 ATTAAAACCTTAA
1 ATTGAAACCTTAA
*
17192409 ATTAAAATCC-TAA
1 ATTGAAA-CCTTAA
*
17192422 ATTGGAACC
1 ATTGAAACC
17192431 GCAAAAGCAA
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
12 2 0.04
13 46 0.92
14 2 0.04
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (13 bp):
ATTGAAACCTTAA
Found at i:17192430 original size:26 final size:26
Alignment explanation
Indices: 17192367--17192449 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
17192357 ATTGAGACCT
* *
17192367 TAAATTGAAACCTTAACTCGAAACCC
1 TAAATTGAAACCTTAAATCAAAACCC
* * *
17192393 TAAATTAAAACCTTAAATTAAAATCC
1 TAAATTGAAACCTTAAATCAAAACCC
* ** *
17192419 TAAATTGGAACCGCAAAAGCAAAACCC
1 TAAATTGAAACC-TTAAATCAAAACCC
17192446 TAAA
1 TAAA
17192450 AGGCTGCACG
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
26 31 0.70
27 13 0.30
ACGTcount: A:0.49, C:0.22, G:0.07, T:0.22
Consensus pattern (26 bp):
TAAATTGAAACCTTAAATCAAAACCC
Found at i:17196466 original size:22 final size:20
Alignment explanation
Indices: 17196446--17196567 Score: 91
Period size: 21 Copynumber: 5.8 Consensus size: 20
17196436 TCCCAAAATT
17196446 TCCAAAAATTCAAACCTAAA
1 TCCAAAAATTCAAACCTAAA
* * * *
17196466 TCTAGAACTTCAAACTCTTAA
1 TCCAAAAATTCAAAC-CTAAA
17196487 TCCTAAAAATTCAAACCTAAAA
1 TCC-AAAAATTCAAACCT-AAA
* * *
17196509 CCCATAAATTCAAACTTTAAA
1 TCCAAAAATTCAAAC-CTAAA
* *
17196530 TCCTAGAACTTCAAACCTAAA
1 TCC-AAAAATTCAAACCTAAA
* *
17196551 GCCCAGAAATTCAAACC
1 -TCCAAAAATTCAAACC
17196568 ACTCTTAATC
Statistics
Matches: 79, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
20 12 0.15
21 40 0.51
22 27 0.34
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.24
Consensus pattern (20 bp):
TCCAAAAATTCAAACCTAAA
Found at i:17196543 original size:43 final size:43
Alignment explanation
Indices: 17196449--17196566 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
17196439 CAAAATTTCC
* * *
17196449 AAAAATTCAAACCT-AAATCTAGAACTTCAAACTCTTAATCCT
1 AAAAATTCAAACCTAAAACCCAGAAATTCAAACTCTTAATCCT
*
17196491 AAAAATTCAAACCTAAAACCCATAAATTCAAACT-TTAAATCCT
1 AAAAATTCAAACCTAAAACCCAGAAATTCAAACTCTT-AATCCT
* * *
17196534 AGAACTTCAAACCTAAAGCCCAGAAATTCAAAC
1 AAAAATTCAAACCTAAAACCCAGAAATTCAAAC
17196567 CACTCTTAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 16 0.24
43 50 0.76
ACGTcount: A:0.48, C:0.25, G:0.03, T:0.24
Consensus pattern (43 bp):
AAAAATTCAAACCTAAAACCCAGAAATTCAAACTCTTAATCCT
Found at i:17197793 original size:26 final size:26
Alignment explanation
Indices: 17197743--17197813 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
17197733 CTATGGATTT
* * * *
17197743 AGGTTCCACTTAGGATTTAGGTTTTC
1 AGGTTTCACTTAGGATTTTGATTTTA
*
17197769 AGGTTTCACTTAGGGTTTTGATTTTA
1 AGGTTTCACTTAGGATTTTGATTTTA
* * *
17197795 AGATTTCATTTAGGTTTTT
1 AGGTTTCACTTAGGATTTT
17197814 AATATTGGAG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.20, C:0.10, G:0.21, T:0.49
Consensus pattern (26 bp):
AGGTTTCACTTAGGATTTTGATTTTA
Found at i:17198230 original size:6 final size:6
Alignment explanation
Indices: 17198219--17198270 Score: 59
Period size: 6 Copynumber: 8.2 Consensus size: 6
17198209 ATTTTTGTTA
* *
17198219 TATTTT TATTTT CTATATTT TATTATT TATTGT TATTTT TAATTT TATTTT
1 TATTTT TATTTT -TAT-TTT TATT-TT TATTTT TATTTT TATTTT TATTTT
17198270 T
1 T
17198271 TTAAAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 24 0.62
7 12 0.31
8 3 0.08
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:17200989 original size:3 final size:3
Alignment explanation
Indices: 17200983--17201017 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
17200973 TTTACTTGGC
17200983 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17201018 TGATGTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:17202082 original size:33 final size:34
Alignment explanation
Indices: 17202040--17202152 Score: 105
Period size: 33 Copynumber: 3.5 Consensus size: 34
17202030 GAATGCTAGC
*
17202040 TAAA-CTAGGCTTAAATTTTACATTGAG-GTCAGA
1 TAAATCTAGGCTTAAA-TTTACATTGAGTGTCAAA
* *
17202073 T-AGTCTAGGCTTGAATTTACATTGAGTGTCAAA
1 TAAATCTAGGCTTAAATTTACATTGAGTGTCAAA
* * *
17202106 TAAAT-TAGGCTTAAACTTGCATT-AGTG-CTAGA
1 TAAATCTAGGCTTAAATTTACATTGAGTGTC-AAA
17202138 T-AATCTAGGCTTAAA
1 TAAATCTAGGCTTAAA
17202153 ACCTAGGTGT
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
31 4 0.06
32 29 0.43
33 32 0.48
34 2 0.03
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (34 bp):
TAAATCTAGGCTTAAATTTACATTGAGTGTCAAA
Found at i:17203064 original size:23 final size:24
Alignment explanation
Indices: 17203015--17203096 Score: 62
Period size: 23 Copynumber: 3.5 Consensus size: 24
17203005 ATTCATTTCT
* ***
17203015 CTTTTTTTTCTTCATT-TTTCTTT
1 CTTTCTTTTCTTCATTCTTTCACA
*
17203038 CTTTCTTTTCTTCTTTCTTTCAC-
1 CTTTCTTTTCTTCATTCTTTCACA
* *
17203061 CTTT-ATCTCTTTCATTCTTTCACA
1 CTTTCTTTTC-TTCATTCTTTCACA
*
17203085 TTTTCTTTTCTT
1 CTTTCTTTTCTT
17203097 TTTTTTTTGA
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
22 3 0.07
23 30 0.67
24 9 0.20
25 3 0.07
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.68
Consensus pattern (24 bp):
CTTTCTTTTCTTCATTCTTTCACA
Found at i:17203600 original size:14 final size:15
Alignment explanation
Indices: 17203577--17203651 Score: 54
Period size: 14 Copynumber: 5.3 Consensus size: 15
17203567 TTAATACAAT
*
17203577 TTTTTTTCTTTTC-C
1 TTTTTCTCTTTTCTC
17203591 TTTTTCTCTTTTCTC
1 TTTTTCTCTTTTCTC
17203606 -TTTT-T-TTTT-T-
1 TTTTTCTCTTTTCTC
* *
17203616 TTTTTGTCTTTTGTC
1 TTTTTCTCTTTTCTC
* *
17203631 TTTTGTCTTTTTTCCC
1 TTTT-TCTCTTTTCTC
17203647 TTTTT
1 TTTTT
17203652 TTCCTCTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
11 5 0.10
12 5 0.10
13 5 0.10
14 17 0.35
15 6 0.12
16 11 0.22
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (15 bp):
TTTTTCTCTTTTCTC
Found at i:17203612 original size:32 final size:32
Alignment explanation
Indices: 17203576--17203661 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 32
17203566 ATTAATACAA
*
17203576 TTTTTTTTCTTTTCCT-TTTTCTCTTTTCTCT
1 TTTTTTTTTTTTTCCTCTTTTCTCTTTTCTCT
** * *
17203607 TTTTTTTTTTTTTTGTCTTTTGTCTTTTGTCT
1 TTTTTTTTTTTTTCCTCTTTTCTCTTTTCTCT
*
17203639 TTTTTCCCTTTTTTTCCTCTTTT
1 TTTTT--TTTTTTTTCCTCTTTT
17203662 TTTTTTGTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
31 13 0.30
32 18 0.41
34 13 0.30
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (32 bp):
TTTTTTTTTTTTTCCTCTTTTCTCTTTTCTCT
Found at i:17203619 original size:25 final size:25
Alignment explanation
Indices: 17203591--17203667 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
17203581 TTTCTTTTCC
17203591 TTTTTCTCTTTTCTCTTTTTTTTTT
1 TTTTTCTCTTTTCTCTTTTTTTTTT
* * * *
17203616 TTTTTGTCTTTTGTCTTTTGTCTTT
1 TTTTTCTCTTTTCTCTTTTTTTTTT
** *
17203641 TTTCCCTTTTTTTCCTCTTTTTTTTTT
1 TTTTTC-TCTTTT-CTCTTTTTTTTTT
17203668 GTCTTTGACA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
25 24 0.62
26 5 0.13
27 10 0.26
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (25 bp):
TTTTTCTCTTTTCTCTTTTTTTTTT
Found at i:17204370 original size:8 final size:8
Alignment explanation
Indices: 17204357--17204418 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
17204347 AAACTTTTTC
17204357 TTTTCTTT
1 TTTTCTTT
17204365 TTTTCTTT
1 TTTTCTTT
*
17204373 TTTCCTTT
1 TTTTCTTT
17204381 CTTTT-TTT
1 -TTTTCTTT
17204389 TTATT-TTT
1 TT-TTCTTT
17204397 TTCTTACTTT
1 TT-TT-CTTT
*
17204407 TTTCCTTT
1 TTTTCTTT
17204415 TTTT
1 TTTT
17204419 ATGAAATTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
7 2 0.04
8 34 0.76
9 4 0.09
10 5 0.11
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTCTTT
Found at i:17204381 original size:12 final size:12
Alignment explanation
Indices: 17204366--17204418 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
17204356 CTTTTCTTTT
17204366 TTTCTTTTTTCC
1 TTTCTTTTTTCC
17204378 TTTCTTTTTT--
1 TTTCTTTTTTCC
* *
17204388 TTTATTTTTTTC
1 TTTCTTTTTTCC
*
17204400 TTACTTTTTTCC
1 TTTCTTTTTTCC
17204412 TTT-TTTT
1 TTTCTTTT
17204419 ATGAAATTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
10 9 0.26
11 4 0.12
12 21 0.62
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTCTTTTTTCC
Found at i:17204407 original size:21 final size:22
Alignment explanation
Indices: 17204362--17204409 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
17204352 TTTTCTTTTC
* *
17204362 TTTTTTTCTTTTTTCCTTTCTT
1 TTTTTTTATTTTTTCCTTACTT
*
17204384 TTTTTTTATTTTTTTCTTACTT
1 TTTTTTTATTTTTTCCTTACTT
17204406 TTTT
1 TTTT
17204410 CCTTTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTTTATTTTTTCCTTACTT
Found at i:17204415 original size:30 final size:29
Alignment explanation
Indices: 17204350--17204418 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
17204340 AATCATGAAA
* *
17204350 CTTTTTCTTTTCTTTTTTTCTTTTTTCCTTT
1 CTTTTT-TTTTATTTTTTTCTTTTTT-CTTC
17204381 CTTTTTTTTTATTTTTTTCTTACTTTT-TTC
1 CTTTTTTTTTATTTTTTTCTT--TTTTCTTC
17204411 CTTTTTTT
1 CTTTTTTT
17204419 ATGAAATTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 24 0.71
31 6 0.18
32 4 0.12
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (29 bp):
CTTTTTTTTTATTTTTTTCTTTTTTCTTC
Found at i:17204417 original size:22 final size:22
Alignment explanation
Indices: 17204362--17204418 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
17204352 TTTTCTTTTC
* *
17204362 TTTTT-TTCTTTTTTCCTTTCT
1 TTTTTCTTATTTTTTCCTTACT
* *
17204383 TTTTTTTTATTTTTTTCTTACT
1 TTTTTCTTATTTTTTCCTTACT
*
17204405 TTTTTCCT-TTTTTT
1 TTTTTCTTATTTTTT
17204419 ATGAAATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTCTTATTTTTTCCTTACT
Found at i:17204418 original size:20 final size:20
Alignment explanation
Indices: 17204351--17204418 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 20
17204341 ATCATGAAAC
17204351 TTTTTCTTTTCTTTTTTTCTT
1 TTTTTC-TTTCTTTTTTTCTT
* *
17204372 TTTTCCTTTCTTTTTTTTTATT
1 TTTTTCTTTC--TTTTTTTCTT
* *
17204394 TTTTTCTTACTTTTTTCCTT
1 TTTTTCTTTCTTTTTTTCTT
17204414 TTTTT
1 TTTTT
17204419 ATGAAATTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 17 0.44
21 5 0.13
22 17 0.44
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTCTTTCTTTTTTTCTT
Found at i:17208881 original size:15 final size:15
Alignment explanation
Indices: 17208861--17208909 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
17208851 AGTTGTTTTT
17208861 ATAAACATTGCATTC
1 ATAAACATTGCATTC
*
17208876 ATAAACATTGCTTTC
1 ATAAACATTGCATTC
*
17208891 AT--ATATTGCATTC
1 ATAAACATTGCATTC
17208904 ATAAAC
1 ATAAAC
17208910 TTACGCTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 11 0.39
15 17 0.61
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (15 bp):
ATAAACATTGCATTC
Found at i:17211297 original size:18 final size:20
Alignment explanation
Indices: 17211261--17211299 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
17211251 TTGTATTTTA
*
17211261 TTGAATTTTGTATTTGATTG
1 TTGAATTTTGTATTAGATTG
17211281 TTGAA-TTT-TATTAGATTG
1 TTGAATTTTGTATTAGATTG
17211299 T
1 T
17211300 GTGTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.59
Consensus pattern (20 bp):
TTGAATTTTGTATTAGATTG
Found at i:17212715 original size:11 final size:10
Alignment explanation
Indices: 17212682--17212715 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
17212672 TATTCTTTAC
17212682 TTTGTAATAT
1 TTTGTAATAT
17212692 TTTGTAATAT
1 TTTGTAATAT
*
17212702 TTTGATATTAT
1 TTTG-TAATAT
17212713 TTT
1 TTT
17212716 ATTAAAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (10 bp):
TTTGTAATAT
Found at i:17215035 original size:39 final size:39
Alignment explanation
Indices: 17214981--17215061 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
17214971 TTCATATCTT
17214981 TGAGAACCACCTTAGATTCAGTTGCTGGTGAGGCAATTA
1 TGAGAACCACCTTAGATTCAGTTGCTGGTGAGGCAATTA
17215020 TGAGAACCACCTTAGATTCAGTTGCTGGTGAGGCAATTA
1 TGAGAACCACCTTAGATTCAGTTGCTGGTGAGGCAATTA
17215059 TGA
1 TGA
17215062 ATAAGACTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (39 bp):
TGAGAACCACCTTAGATTCAGTTGCTGGTGAGGCAATTA
Found at i:17215092 original size:61 final size:61
Alignment explanation
Indices: 17215017--17215131 Score: 230
Period size: 61 Copynumber: 1.9 Consensus size: 61
17215007 GGTGAGGCAA
17215017 TTATGAGAACCACCTTAGATTCAGTTGCTGGTGAGGCAATTATGAATAAGACTCACACCAC
1 TTATGAGAACCACCTTAGATTCAGTTGCTGGTGAGGCAATTATGAATAAGACTCACACCAC
17215078 TTATGAGAACCACCTTAGATTCAGTTGCTGGTGAGGCAATTATGAATAAGACTC
1 TTATGAGAACCACCTTAGATTCAGTTGCTGGTGAGGCAATTATGAATAAGACTC
17215132 CTAATGAAGC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (61 bp):
TTATGAGAACCACCTTAGATTCAGTTGCTGGTGAGGCAATTATGAATAAGACTCACACCAC
Found at i:17217193 original size:14 final size:13
Alignment explanation
Indices: 17217174--17217283 Score: 80
Period size: 14 Copynumber: 8.2 Consensus size: 13
17217164 TCAGGTTTCC
17217174 TTTAGGGTTTGGAA
1 TTTAGGGTTT-GAA
*
17217188 TTTAGGGTTTTAA
1 TTTAGGGTTTGAA
*
17217201 CTTTAGGGTTTCAA
1 -TTTAGGGTTTGAA
17217215 TTTAGGGTTTTG-A
1 TTTAGGG-TTTGAA
*
17217228 TTTAGGGTTTTAA
1 TTTAGGGTTTGAA
* * *
17217241 TTTTAAGGTTTTAG
1 -TTTAGGGTTTGAA
* *
17217255 TTTAAAGTTTTG-A
1 TTT-AGGGTTTGAA
*
17217268 TTTAGGGTTTTAA
1 TTTAGGGTTTGAA
17217281 TTT
1 TTT
17217284 CATAAATGTA
Statistics
Matches: 78, Mismatches: 12, Indels: 13
0.76 0.12 0.13
Matches are distributed among these distances:
12 8 0.10
13 28 0.36
14 42 0.54
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.53
Consensus pattern (13 bp):
TTTAGGGTTTGAA
Found at i:17217220 original size:13 final size:13
Alignment explanation
Indices: 17217174--17217283 Score: 121
Period size: 13 Copynumber: 8.2 Consensus size: 13
17217164 TCAGGTTTCC
*
17217174 TTTAGGGTTTGGAA
1 TTTAGGGTTT-TAA
17217188 TTTAGGGTTTTAA
1 TTTAGGGTTTTAA
*
17217201 CTTTAGGGTTTCAA
1 -TTTAGGGTTTTAA
*
17217215 TTTAGGGTTTTGA
1 TTTAGGGTTTTAA
17217228 TTTAGGGTTTTAA
1 TTTAGGGTTTTAA
* *
17217241 TTTTAAGGTTTTAG
1 -TTTAGGGTTTTAA
** *
17217255 TTTAAAGTTTTGA
1 TTTAGGGTTTTAA
17217268 TTTAGGGTTTTAA
1 TTTAGGGTTTTAA
17217281 TTT
1 TTT
17217284 CATAAATGTA
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
13 48 0.59
14 33 0.41
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.53
Consensus pattern (13 bp):
TTTAGGGTTTTAA
Found at i:17217278 original size:40 final size:40
Alignment explanation
Indices: 17217187--17217283 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
17217177 AGGGTTTGGA
* * **
17217187 ATTTAGGGTTTTAACTTTAGGGTTTCAATTTAGGGTTTTG
1 ATTTAGGGTTTTAATTTTAAGGTTTCAATTTAAAGTTTTG
* *
17217227 ATTTAGGGTTTTAATTTTAAGGTTTTAGTTTAAAGTTTTG
1 ATTTAGGGTTTTAATTTTAAGGTTTCAATTTAAAGTTTTG
17217267 ATTTAGGGTTTTAATTT
1 ATTTAGGGTTTTAATTT
17217284 CATAAATGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.23, C:0.02, G:0.22, T:0.54
Consensus pattern (40 bp):
ATTTAGGGTTTTAATTTTAAGGTTTCAATTTAAAGTTTTG
Found at i:17218353 original size:44 final size:43
Alignment explanation
Indices: 17218304--17218440 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 43
17218294 TTTGAACAAC
*
17218304 ATAAAAGGCTCCTCTAAACAAAGGCTCAATAATTTTTAGAAAAT
1 ATAAAAGGCTCATCTAAACAAAGGCTCAATAA-TTTTAGAAAAT
** * * *
17218348 ATAAAAACCTCATCTCATCAGAA-GCTCAATAACTTTA-AAAAT
1 ATAAAAGGCTCATCTAAACA-AAGGCTCAATAATTTTAGAAAAT
* * *
17218390 ATAAAAGGCTCATCTCAAA-AAAGACTTAACAACTTTT-GAAAAAT
1 ATAAAAGGCTCATCT-AAACAAAGGCTCAATAA-TTTTAG-AAAAT
17218434 ATAAAAG
1 ATAAAAG
17218441 CTTCCTCTCA
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
41 2 0.03
42 25 0.34
43 8 0.11
44 36 0.49
45 2 0.03
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.26
Consensus pattern (43 bp):
ATAAAAGGCTCATCTAAACAAAGGCTCAATAATTTTAGAAAAT
Found at i:17218399 original size:86 final size:87
Alignment explanation
Indices: 17218304--17218611 Score: 223
Period size: 86 Copynumber: 3.5 Consensus size: 87
17218294 TTTGAACAAC
* * * *
17218304 ATAAAAGGCTCCTCT-AAACAAAGGCTCAATAA-TTTTTAGAAAATATAAAAACCTCATCTCATC
1 ATAAAAGGCTCATCTCAAA-AAAGACTCAACAACTTTTGA-AAAATATAAAAACCTCATCTCATC
*
17218367 AGAAG-CTCAATAACTTT-AAAAAT
64 AG-AGTCTCAACAACTTTAAAAAAT
* * * * *
17218390 ATAAAAGGCTCATCTCAAAAAAGACTTAACAACTTTTGAAAAATATAAAAGCTTCCTCTCATTAG
1 ATAAAAGGCTCATCTCAAAAAAGACTCAACAACTTTTGAAAAATATAAAAACCTCATCTCATCAG
*
17218455 AGTCTTAACAACTTTCAAAAAAAT
66 AGTCTCAACAACTTT--AAAAAAT
*** * * ** *
17218479 ATAAAAGGCTCATCTCTTCAGAGACTTTAAC-ACTTTAAAAAATATATATAAAAAGCTCATCTCA
1 ATAAAAGGCTCATCTCAAAAAAGAC-TCAACAACTTT-TGAAA-A-ATATAAAAACCTCATCTCA
* * *
17218543 ACAAAGACTCAACAACTTTTTAAAAAAT
62 TCAGAGTCTCAACAAC--TTTAAAAAAT
* * * * *
17218571 ATAAAAGGATCCTTTCAACAAATG-CTTAACAACTTTTGAAA
1 ATAAAAGGCTCATCTCAA-AAAAGACTCAACAACTTTTGAAA
17218612 TGAATTAAAA
Statistics
Matches: 172, Mismatches: 36, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
85 2 0.01
86 56 0.33
87 8 0.05
89 32 0.19
90 8 0.05
91 9 0.05
92 52 0.30
93 2 0.01
94 3 0.02
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (87 bp):
ATAAAAGGCTCATCTCAAAAAAGACTCAACAACTTTTGAAAAATATAAAAACCTCATCTCATCAG
AGTCTCAACAACTTTAAAAAAT
Found at i:17218450 original size:44 final size:43
Alignment explanation
Indices: 17218337--17218577 Score: 166
Period size: 44 Copynumber: 5.4 Consensus size: 43
17218327 GCTCAATAAT
* * * * * *
17218337 TTTTAGAAAATATAAAAACCTCATCTCATCAGAAG-CTCAATAAC
1 TTTTAAAAAATAT-AAAAGCTCATCTCA-AAAAAGACTTAACAAC
17218381 -TTT-AAAAATATAAAAGGCTCATCTCAAAAAAGACTTAACAAC
1 TTTTAAAAAATATAAAA-GCTCATCTCAAAAAAGACTTAACAAC
* * ** * *
17218423 TTTTGAAAAATATAAAAGCTTCCTCTCATTAGAGTCTTAACAAC
1 TTTTAAAAAATATAAAAGC-TCATCTCAAAAAAGACTTAACAAC
* *** *
17218467 TTTCAAAAAAATATAAAAGGCTCATCTCTTCAGAGACTTTAAC-AC
1 TTT-TAAAAAATATAAAA-GCTCATCTCAAAAAAGAC-TTAACAAC
* * *
17218512 TTTAAAAAATATATATAAAAAGCTCATCTCAACAAAGACTCAACAAC
1 TTT-TAAAA-A-ATAT-AAAAGCTCATCTCAAAAAAGACTTAACAAC
17218559 TTTTTAAAAAATATAAAAG
1 -TTTTAAAAAATATAAAAG
17218578 GATCCTTTCA
Statistics
Matches: 161, Mismatches: 23, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
41 8 0.05
42 23 0.14
43 8 0.05
44 39 0.24
45 38 0.24
46 13 0.08
47 25 0.16
48 7 0.04
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.28
Consensus pattern (43 bp):
TTTTAAAAAATATAAAAGCTCATCTCAAAAAAGACTTAACAAC
Found at i:17218514 original size:45 final size:44
Alignment explanation
Indices: 17218304--17218606 Score: 213
Period size: 45 Copynumber: 6.8 Consensus size: 44
17218294 TTTGAACAAC
* * * * * * * *
17218304 ATAAAAGGCTCCTCTAAACAAAGGCTCAATAATTTTTAGAAAAT
1 ATAAAAGGCTCATCTCAACAAAGACTTAACAACTTTAAAAAAAT
** * * *
17218348 ATAAAAACCTCATCTCATCAGAAG-CTCAATAACTTT--AAAAAT
1 ATAAAAGGCTCATCTCAACA-AAGACTTAACAACTTTAAAAAAAT
* **
17218390 ATAAAAGGCTCATCTCAAAAAAGACTTAACAACTTTTGAAAAAT
1 ATAAAAGGCTCATCTCAACAAAGACTTAACAACTTTAAAAAAAT
* ** * *
17218434 ATAAAA-GCTTCCTCTCATTAGAGTCTTAACAACTTTCAAAAAAAT
1 ATAAAAGGC-TCATCTCAACAAAGACTTAACAACTTT-AAAAAAAT
** *
17218479 ATAAAAGGCTCATCTCTTCAGAGACTTTAAC-ACTTTAAAAAATATAT
1 ATAAAAGGCTCATCTCAACAAAGAC-TTAACAACTTT-AAAAA-A-AT
* * *
17218526 ATAAAAAGCTCATCTCAACAAAGACTCAACAACTTTTTAAAAAAT
1 ATAAAAGGCTCATCTCAACAAAGACTTAACAAC-TTTAAAAAAAT
* * *
17218571 ATAAAAGGATCCTTTCAACAAATG-CTTAACAACTTT
1 ATAAAAGGCTCATCTCAACAAA-GACTTAACAACTTT
17218607 TGAAATGAAT
Statistics
Matches: 210, Mismatches: 36, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
41 3 0.01
42 31 0.15
43 2 0.01
44 63 0.30
45 65 0.31
46 14 0.07
47 29 0.14
48 3 0.01
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (44 bp):
ATAAAAGGCTCATCTCAACAAAGACTTAACAACTTTAAAAAAAT
Found at i:17221153 original size:13 final size:13
Alignment explanation
Indices: 17221145--17221169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17221135 AGTTTTCTTT
17221145 TTTCATTTTTTCA
1 TTTCATTTTTTCA
17221158 TTTCATTTTTTC
1 TTTCATTTTTTC
17221170 TCATTTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCATTTTTTCA
Found at i:17221193 original size:17 final size:17
Alignment explanation
Indices: 17221173--17221210 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
17221163 TTTTTTCTCA
*
17221173 TTTTTCC-TTTTTCTTT
1 TTTTTCCATCTTTCTTT
*
17221189 CTTTTCCATCTTTCTTT
1 TTTTTCCATCTTTCTTT
17221206 TTTTT
1 TTTTT
17221211 TTTTTGTTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCCATCTTTCTTT
Found at i:17226065 original size:21 final size:21
Alignment explanation
Indices: 17226016--17226066 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
17226006 TTTTTACTCT
* * *
17226016 TTCTTTCTTGATTTTTTTTTA
1 TTCTTTCTTGATTGTTTCTAA
**
17226037 TTGATTCTTGATTGTTTCTAA
1 TTCTTTCTTGATTGTTTCTAA
17226058 TTCTTTCTT
1 TTCTTTCTT
17226067 CTTGTTAATT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.12, C:0.12, G:0.08, T:0.69
Consensus pattern (21 bp):
TTCTTTCTTGATTGTTTCTAA
Found at i:17235402 original size:57 final size:57
Alignment explanation
Indices: 17235314--17235426 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
17235304 AAAAAACTCC
17235314 CTAAGTATCAATGTTACCAAGTGACACTAACGAAAGCCATTAGCACCATAATCATCA
1 CTAAGTATCAATGTTACCAAGTGACACTAACGAAAGCCATTAGCACCATAATCATCA
*
17235371 CTAAGTATCAATGTTACCAAGTGACACTAACGAAAGCCGTTAGCACCATAATCATC
1 CTAAGTATCAATGTTACCAAGTGACACTAACGAAAGCCATTAGCACCATAATCATC
17235427 CACATAATGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (57 bp):
CTAAGTATCAATGTTACCAAGTGACACTAACGAAAGCCATTAGCACCATAATCATCA
Found at i:17245927 original size:16 final size:16
Alignment explanation
Indices: 17245906--17245936 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17245896 TTAAAAATTT
*
17245906 TGGTTGTCTGATATTA
1 TGGTTGTCAGATATTA
17245922 TGGTTGTCAGATATT
1 TGGTTGTCAGATATT
17245937 TCACTCATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.26, T:0.48
Consensus pattern (16 bp):
TGGTTGTCAGATATTA
Found at i:17248967 original size:19 final size:19
Alignment explanation
Indices: 17248939--17248975 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17248929 CCAATGTATA
*
17248939 AGAAACAAGAAACAAAAAC
1 AGAAAAAAGAAACAAAAAC
*
17248958 AGAAAAAAGAAAGAAAAA
1 AGAAAAAAGAAACAAAAA
17248976 ACATAAAACG
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:0.78, C:0.08, G:0.14, T:0.00
Consensus pattern (19 bp):
AGAAAAAAGAAACAAAAAC
Found at i:17255332 original size:17 final size:17
Alignment explanation
Indices: 17255310--17255345 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
17255300 ATTACCGGTT
17255310 GCTTAAGAAATTATATA
1 GCTTAAGAAATTATATA
17255327 GCTTAAGAAATTATATA
1 GCTTAAGAAATTATATA
17255344 GC
1 GC
17255346 ATAGAGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.33
Consensus pattern (17 bp):
GCTTAAGAAATTATATA
Found at i:17257582 original size:7 final size:7
Alignment explanation
Indices: 17257570--17257623 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
17257560 GACTTGCACA
17257570 TCATTAT
1 TCATTAT
17257577 TCATTAT
1 TCATTAT
17257584 TCATCT-T
1 TCAT-TAT
*
17257591 TCATCAT
1 TCATTAT
*
17257598 TTATTAT
1 TCATTAT
17257605 T-ATTAT
1 TCATTAT
17257611 T-ATTAT
1 TCATTAT
17257617 T-ATTAT
1 TCATTAT
17257623 T
1 T
17257624 AAAAATTACA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
6 18 0.43
7 23 0.55
8 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (7 bp):
TCATTAT
Found at i:17257604 original size:3 final size:3
Alignment explanation
Indices: 17257598--17257624 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
17257588 CTTTCATCAT
17257598 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
17257625 AAAATTACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17260926 original size:20 final size:20
Alignment explanation
Indices: 17260901--17260953 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
17260891 TCTATTTAAA
17260901 ATGTGAGATGCTCGATTCTT
1 ATGTGAGATGCTCGATTCTT
17260921 ATGTGAGATGCTCGATTCTT
1 ATGTGAGATGCTCGATTCTT
17260941 ATGTGAGATGCTC
1 ATGTGAGATGCTC
17260954 TGAACACAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (20 bp):
ATGTGAGATGCTCGATTCTT
Found at i:17264994 original size:18 final size:16
Alignment explanation
Indices: 17264971--17265006 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
17264961 AAAAGGATGT
17264971 AGGAAAAGAAACTAAAAA
1 AGGAAAA-AAAC-AAAAA
17264989 AGGAAAAAAACAAAAA
1 AGGAAAAAAACAAAAA
17265005 AG
1 AG
17265007 AGGGAAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 4 0.22
18 7 0.39
ACGTcount: A:0.75, C:0.06, G:0.17, T:0.03
Consensus pattern (16 bp):
AGGAAAAAAACAAAAA
Found at i:17265967 original size:21 final size:18
Alignment explanation
Indices: 17265941--17265979 Score: 51
Period size: 21 Copynumber: 2.0 Consensus size: 18
17265931 TTGGTTCAAC
17265941 ATAAAATATTATTATATTAAT
1 ATAAAAT-TT-TTAT-TTAAT
17265962 ATAAAATTTTTATTTAAT
1 ATAAAATTTTTATTTAAT
17265980 TTTAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 2 0.11
21 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAAAATTTTTATTTAAT
Found at i:17266269 original size:29 final size:29
Alignment explanation
Indices: 17266224--17266289 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
17266214 TATAACTAAT
17266224 TTTATTATTTCAATAATAAATAGT-ATTA
1 TTTATTATTTCAATAATAAATAGTAATTA
* *
17266252 TATTATTATTTTAGTAATAAATAGTAATTA
1 T-TTATTATTTCAATAATAAATAGTAATTA
17266282 TTTATTAT
1 TTTATTAT
17266290 AAATAATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 1 0.03
29 28 0.82
30 5 0.15
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (29 bp):
TTTATTATTTCAATAATAAATAGTAATTA
Found at i:17266816 original size:24 final size:24
Alignment explanation
Indices: 17266789--17266853 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 24
17266779 AATTATTTTT
17266789 ATTATATTATATTTTAATTTTACG
1 ATTATATTATATTTTAATTTTACG
* * **
17266813 ATTACAGTA-A--TTAATTTTATT
1 ATTATATTATATTTTAATTTTACG
17266834 ATTATTATTAT-TTTTAATTT
1 ATTA-TATTATATTTTAATTT
17266854 CATTACAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
21 13 0.42
22 3 0.10
23 1 0.03
24 14 0.45
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (24 bp):
ATTATATTATATTTTAATTTTACG
Found at i:17272548 original size:22 final size:22
Alignment explanation
Indices: 17272520--17272563 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
17272510 CTAAATCTTC
*
17272520 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
17272542 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
17272564 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:17276255 original size:25 final size:25
Alignment explanation
Indices: 17276203--17276262 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
17276193 AAGGGTTTGA
* ** * *
17276203 CAATGAAGGCCTAAACAGGATTCGG
1 CAATGAAGGCCTAAAAAAAAATCAG
17276228 CAATGAAGGCCTAAAAAAAAATCAG
1 CAATGAAGGCCTAAAAAAAAATCAG
17276253 CAATGAAGGC
1 CAATGAAGGC
17276263 TGAAAATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.13
Consensus pattern (25 bp):
CAATGAAGGCCTAAAAAAAAATCAG
Found at i:17276438 original size:22 final size:22
Alignment explanation
Indices: 17276410--17276453 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
17276400 CTAAATCTTC
*
17276410 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
17276432 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
17276454 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:17279567 original size:24 final size:24
Alignment explanation
Indices: 17279519--17279568 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
17279509 ATACTTTTAT
* * *
17279519 ATGAAAATCTTCAATTTTTTGGTG
1 ATGAAAATCTGCAATTTATTAGTG
*
17279543 ATGAAAATCTGCACTTTATTAGTG
1 ATGAAAATCTGCAATTTATTAGTG
17279567 AT
1 AT
17279569 TAATGCTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (24 bp):
ATGAAAATCTGCAATTTATTAGTG
Found at i:17281750 original size:18 final size:18
Alignment explanation
Indices: 17281727--17281762 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17281717 CAAGGATCTA
17281727 AAAGTGGAAATTGAGATT
1 AAAGTGGAAATTGAGATT
17281745 AAAGTGGAAATTGAGATT
1 AAAGTGGAAATTGAGATT
17281763 TAAGGACTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (18 bp):
AAAGTGGAAATTGAGATT
Found at i:17282206 original size:63 final size:63
Alignment explanation
Indices: 17282107--17282232 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
17282097 GAGAGGCCTG
*
17282107 CTTGTAAGGCTTTAGTTTCAAATATACCATATCCCCACCTAAAACTCCCTTTCAGTCCTGTTT
1 CTTGTAAGGCTTTAGTTTCAAATACACCATATCCCCACCTAAAACTCCCTTTCAGTCCTGTTT
* *
17282170 CTTGTAAGGCTTTAGTTTCAAATACACCATATCCCCACCTGAAACTCCCTTTTAGTCCTGTTT
1 CTTGTAAGGCTTTAGTTTCAAATACACCATATCCCCACCTAAAACTCCCTTTCAGTCCTGTTT
17282233 TTATTAGCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.25, C:0.29, G:0.10, T:0.37
Consensus pattern (63 bp):
CTTGTAAGGCTTTAGTTTCAAATACACCATATCCCCACCTAAAACTCCCTTTCAGTCCTGTTT
Found at i:17284807 original size:22 final size:22
Alignment explanation
Indices: 17284767--17284808 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17284757 TGTATATTTA
*
17284767 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCTCTAAAATTAAG
17284789 TATTTGTATC-CTTAAAATTA
1 TATTTGTATCTC-TAAAATTA
17284809 GGATAGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (22 bp):
TATTTGTATCTCTAAAATTAAG
Found at i:17288740 original size:22 final size:22
Alignment explanation
Indices: 17288714--17288755 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17288704 TGTATATTTA
* *
17288714 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
17288736 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
17288756 GGATAGACAA
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:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:17298062 original size:20 final size:21
Alignment explanation
Indices: 17298037--17298077 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
17298027 ATCATAATGC
*
17298037 AAAA-TTATATGAGATTTATT
1 AAAATTTATATGAAATTTATT
17298057 AAAATTTTATATGAAATTTAT
1 AAAA-TTTATATGAAATTTAT
17298078 GCTTATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
22 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (21 bp):
AAAATTTATATGAAATTTATT
Found at i:17298165 original size:2 final size:2
Alignment explanation
Indices: 17298160--17298185 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17298150 ATTGTATTTA
17298160 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17298186 TCCCAAGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17298957 original size:18 final size:18
Alignment explanation
Indices: 17298936--17298970 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17298926 CAGCACCTCC
17298936 AAAAGAAGAA-AAAAAAAA
1 AAAAGAA-AAGAAAAAAAA
17298954 AAAAGAAAAGAAAAAAA
1 AAAAGAAAAGAAAAAAA
17298971 TCAGGAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAGAAAAAAAA
Found at i:17298959 original size:15 final size:16
Alignment explanation
Indices: 17298936--17298970 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
17298926 CAGCACCTCC
*
17298936 AAAAGAAGAAAA-AAA
1 AAAAAAAGAAAAGAAA
17298951 AAAAAAAGAAAAGAAA
1 AAAAAAAGAAAAGAAA
17298967 AAAA
1 AAAA
17298971 TCAGGAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAGAAA
Found at i:17300450 original size:2 final size:2
Alignment explanation
Indices: 17300443--17300498 Score: 89
Period size: 2 Copynumber: 28.5 Consensus size: 2
17300433 AAATTTAATA
17300443 AT AT AT AT AT AT AT AT AT -T A- AT GAT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
17300484 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
17300499 GATGAAATGG
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.04
2 47 0.92
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17305132 original size:43 final size:43
Alignment explanation
Indices: 17305071--17305157 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
17305061 TGTCTTCTGG
17305071 ATTCCAGGTTACTATGAAGTAAACTTTTAAAACCCTTGCTTTT
1 ATTCCAGGTTACTATGAAGTAAACTTTTAAAACCCTTGCTTTT
*
17305114 ATTCCAGGTTACTATGAAGTATACTTTTAAAACCCTTGCTTTT
1 ATTCCAGGTTACTATGAAGTAAACTTTTAAAACCCTTGCTTTT
17305157 A
1 A
17305158 GGTTAGTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.40
Consensus pattern (43 bp):
ATTCCAGGTTACTATGAAGTAAACTTTTAAAACCCTTGCTTTT
Found at i:17308871 original size:13 final size:12
Alignment explanation
Indices: 17308848--17308872 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17308838 TTAGATCTTA
17308848 AAAGTTATTTTT
1 AAAGTTATTTTT
17308860 AAAGTTATTTTT
1 AAAGTTATTTTT
17308872 A
1 A
17308873 CTTGAGATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (12 bp):
AAAGTTATTTTT
Found at i:17309102 original size:26 final size:26
Alignment explanation
Indices: 17309073--17309123 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
17309063 ATCGAGGGTT
17309073 GATTTTAGAGATTGAGGGTTGGTTTC
1 GATTTTAGAGATTGAGGGTTGGTTTC
* * *
17309099 GATTTTTGAGGTTTAGGGTTGGTTT
1 GATTTTAGAGATTGAGGGTTGGTTT
17309124 AGAGTCAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.16, C:0.02, G:0.35, T:0.47
Consensus pattern (26 bp):
GATTTTAGAGATTGAGGGTTGGTTTC
Found at i:17309161 original size:7 final size:7
Alignment explanation
Indices: 17309134--17309382 Score: 111
Period size: 7 Copynumber: 36.6 Consensus size: 7
17309124 AGAGTCAAGG
*
17309134 TTAGAGT
1 TTAGGGT
*
17309141 TTGGGGT
1 TTAGGGT
17309148 TTA--GT
1 TTAGGGT
17309153 TTAGGGT
1 TTAGGGT
17309160 TT-GGG-
1 TTAGGGT
17309165 TT--GGT
1 TTAGGGT
17309170 TTAGGGT
1 TTAGGGT
17309177 TTGGATGGTGGT
1 TT--A-GG--GT
17309189 TTAGGGT
1 TTAGGGT
*
17309196 TTAGGATT
1 TTAGG-GT
17309204 TTA--GT
1 TTAGGGT
17309209 TTAGGGT
1 TTAGGGT
**
17309216 TTATGATT
1 TTA-GGGT
17309224 TTA--GT
1 TTAGGGT
17309229 TTAGGGT
1 TTAGGGT
17309236 TTAGGGT
1 TTAGGGT
*
17309243 TTGGGGT
1 TTAGGGT
*
17309250 TTAAGGT
1 TTAGGGT
17309257 TT--GGT
1 TTAGGGT
*
17309262 TTAGGAT
1 TTAGGGT
*
17309269 TTAAGGT
1 TTAGGGT
*
17309276 TTAAGGT
1 TTAGGGT
* *
17309283 TT-TGGC
1 TTAGGGT
17309289 TTAGGGT
1 TTAGGGT
17309296 TTGGATGGGT
1 TT--A-GGGT
17309306 TTAGGGT
1 TTAGGGT
*
17309313 TT-TGGT
1 TTAGGGT
17309319 TTAGGGT
1 TTAGGGT
17309326 TT-GGGAT
1 TTAGGG-T
*
17309333 TT-GGGA
1 TTAGGGT
*
17309339 TTA-AGT
1 TTAGGGT
**
17309345 TTAGAAT
1 TTAGGGT
17309352 TTAGGGT
1 TTAGGGT
*
17309359 TTAAGGT
1 TTAGGGT
17309366 TTA-GGT
1 TTAGGGT
17309372 TTAGGGT
1 TTAGGGT
17309379 TTAG
1 TTAG
17309383 ATTTGGGTTT
Statistics
Matches: 188, Mismatches: 27, Indels: 54
0.70 0.10 0.20
Matches are distributed among these distances:
4 2 0.01
5 22 0.12
6 27 0.14
7 110 0.59
8 10 0.05
9 4 0.02
10 9 0.05
12 4 0.02
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:17309284 original size:33 final size:34
Alignment explanation
Indices: 17309193--17309284 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 34
17309183 GGTGGTTTAG
* * *
17309193 GGTTTAGGATTTTA-GTTTAGGGTTTATGATTTT
1 GGTTTAGGATTTAAGGTTTAGGGTTTAAGAGTTT
* * * *
17309226 AGTTTAGGGTTTAGGGTTTGGGGTTTAAG-GTTT
1 GGTTTAGGATTTAAGGTTTAGGGTTTAAGAGTTT
*
17309259 GGTTTAGGATTTAAGGTTTAAGGTTT
1 GGTTTAGGATTTAAGGTTTAGGGTTT
17309285 TGGCTTAGGG
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
33 34 0.74
34 12 0.26
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (34 bp):
GGTTTAGGATTTAAGGTTTAGGGTTTAAGAGTTT
Found at i:17309314 original size:30 final size:30
Alignment explanation
Indices: 17309273--17309329 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
17309263 TAGGATTTAA
17309273 GGTTTAAGGTTTTGGCTTAGGGTTTGGATG
1 GGTTTAAGGTTTTGGCTTAGGGTTTGGATG
* *
17309303 GGTTTAGGGTTTTGGTTTAGGGTTTGG
1 GGTTTAAGGTTTTGGCTTAGGGTTTGG
17309330 GATTTGGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.11, C:0.02, G:0.42, T:0.46
Consensus pattern (30 bp):
GGTTTAAGGTTTTGGCTTAGGGTTTGGATG
Found at i:17309321 original size:13 final size:14
Alignment explanation
Indices: 17309186--17309406 Score: 101
Period size: 13 Copynumber: 16.4 Consensus size: 14
17309176 TTTGGATGGT
*
17309186 GGTTTAGGGTTTAG
1 GGTTTATGGTTTAG
* *
17309200 GATTT-TAGTTTAG
1 GGTTTATGGTTTAG
*
17309213 GGTTTATGATTTTA-
1 GGTTTATG-GTTTAG
*
17309227 -GTTTAGGGTTTAG
1 GGTTTATGGTTTAG
** *
17309240 GGTTTGGGGTTTAA
1 GGTTTATGGTTTAG
17309254 GG-TT-TGGTTTAG
1 GGTTTATGGTTTAG
* * *
17309266 GATTTAAGGTTTAA
1 GGTTTATGGTTTAG
*
17309280 GGTTT-TGGCTTAG
1 GGTTTATGGTTTAG
17309293 GGTTTGGATGGGTTTAG
1 GGTTT--AT-GGTTTAG
17309310 GGTTT-TGGTTTAG
1 GGTTTATGGTTTAG
*
17309323 GGTTT-GGGATTT-G
1 GGTTTATGG-TTTAG
* *
17309336 GGATTA-AGTTTAG
1 GGTTTATGGTTTAG
** * *
17309349 AATTTAGGGTTTAA
1 GGTTTATGGTTTAG
17309363 GGTTTA-GGTTTAG
1 GGTTTATGGTTTAG
*
17309376 GGTTTA-GATTT-G
1 GGTTTATGGTTTAG
*
17309388 GGTTTGA-GGTTTAA
1 GGTTT-ATGGTTTAG
17309402 GGTTT
1 GGTTT
17309407 GGATACAGAG
Statistics
Matches: 157, Mismatches: 34, Indels: 32
0.70 0.15 0.14
Matches are distributed among these distances:
12 20 0.13
13 75 0.48
14 46 0.29
15 4 0.03
16 1 0.01
17 11 0.07
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (14 bp):
GGTTTATGGTTTAG
Found at i:17309327 original size:20 final size:20
Alignment explanation
Indices: 17309151--17309382 Score: 122
Period size: 20 Copynumber: 11.7 Consensus size: 20
17309141 TTGGGGTTTA
17309151 GTTTAGGGTTT-GGG--TTG
1 GTTTAGGGTTTAGGGTTTTG
* **
17309168 GTTTAGGGTTT-GGATGGTG
1 GTTTAGGGTTTAGGGTTTTG
* *
17309187 GTTTAGGGTTTAGGATTTTA
1 GTTTAGGGTTTAGGGTTTTG
* * *
17309207 GTTTAGGGTTTATGATTTTA
1 GTTTAGGGTTTAGGGTTTTG
*
17309227 GTTTAGGGTTTAGGGTTTGGG
1 GTTTAGGGTTTAGGGTTT-TG
* *
17309248 GTTTAAGGTTT--GGTTTAG
1 GTTTAGGGTTTAGGGTTTTG
* *
17309266 GATTTAAGGTTTAAGGTTTTG
1 G-TTTAGGGTTTAGGGTTTTG
* *
17309287 GCTTAGGGTTTGGATGGGTTTAGG
1 GTTTAGGGTTT--A-GGGTTT-TG
* *
17309311 GTTT-TGGTTTAGGGTTTGG
1 GTTTAGGGTTTAGGGTTTTG
* * *
17309330 GATTT-GGGATTA-AGTTTAG
1 G-TTTAGGGTTTAGGGTTTTG
* * *
17309349 AATTTAGGGTTTAAGGTTTAG
1 -GTTTAGGGTTTAGGGTTTTG
17309370 GTTTAGGGTTTAG
1 GTTTAGGGTTTAG
17309383 ATTTGGGTTT
Statistics
Matches: 172, Mismatches: 28, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
17 13 0.08
18 2 0.01
19 39 0.23
20 79 0.46
21 24 0.14
22 1 0.01
23 10 0.06
24 4 0.02
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.46
Consensus pattern (20 bp):
GTTTAGGGTTTAGGGTTTTG
Found at i:17309398 original size:7 final size:6
Alignment explanation
Indices: 17309186--17309406 Score: 74
Period size: 7 Copynumber: 33.8 Consensus size: 6
17309176 TTTGGATGGT
*
17309186 GGTTTA GGGTTTA GGATTTTA -GTTTA GGGTTTA TGATTTTA -GTTTA
1 GGTTTA -GGTTTA GG--TTTA GGTTTA -GGTTTA -G-GTTTA GGTTTA
*
17309232 GGGTTTA GGGTTTGG GGTTTAA GGTTT- GGTTTA GGATTTAA GGTTTAA
1 -GGTTTA -GGTTT-A GGTTT-A GGTTTA GGTTTA GG-TTT-A GGTTT-A
* * * * * *
17309280 GGTTTT GGCTTA GGGTTT- GG-ATG GGTTTA GGGTTTT GGTTTA GGGTTTG
1 GGTTTA GGTTTA -GGTTTA GGTTTA GGTTTA -GGTTTA GGTTTA -GGTTTA
* * * *
17309329 GGATTTG GGATTA AGTTTA GAATTTA GGGTTTAA GGTTTA GGTTTA GGGTTTA
1 GG-TTTA GGTTTA GGTTTA G-GTTTA -GGTTT-A GGTTTA GGTTTA -GGTTTA
* *
17309382 GATTTG GGTTTGA GGTTTAA GGTTT
1 GGTTTA GGTTT-A GGTTT-A GGTTT
17309407 GGATACAGAG
Statistics
Matches: 164, Mismatches: 28, Indels: 44
0.69 0.12 0.19
Matches are distributed among these distances:
4 1 0.01
5 17 0.10
6 37 0.23
7 96 0.59
8 13 0.08
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (6 bp):
GGTTTA
Found at i:17309813 original size:20 final size:21
Alignment explanation
Indices: 17309767--17309813 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
17309757 TTATTTTTTG
*
17309767 AAAACTTGATCAAACACATAG
1 AAAACTTGATCAAACACATAA
*
17309788 AAAACTTGATGAAACA-ATAA
1 AAAACTTGATCAAACACATAA
17309808 AAAACT
1 AAAACT
17309814 CATGCAAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.57, C:0.15, G:0.09, T:0.19
Consensus pattern (21 bp):
AAAACTTGATCAAACACATAA
Found at i:17310362 original size:20 final size:23
Alignment explanation
Indices: 17310337--17310379 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
17310327 AAATTTTCTC
17310337 AAGAAAA-AAATA-GAAA-AATA
1 AAGAAAACAAATATGAAACAATA
17310357 AAGAAAACAAATATGAAACAATA
1 AAGAAAACAAATATGAAACAATA
17310380 TGAAAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 4 0.20
23 4 0.20
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.12
Consensus pattern (23 bp):
AAGAAAACAAATATGAAACAATA
Found at i:17311146 original size:143 final size:142
Alignment explanation
Indices: 17310832--17311219 Score: 340
Period size: 143 Copynumber: 2.7 Consensus size: 142
17310822 CAATCTTGAG
* * *
17310832 AAGGTCAAATTACAAAATTACCCCTTATA-GGTATTTTAGTAATTTTACACATTTCGAGGTGCGA
1 AAGGTCAAATTA-AAAAATACCCC-TA-AGGGTATTTTACTAATTTTACACATTTCAAGGTGCGA
* *
17310896 TCAAGGTTTTTAATGCACAAAAAATCATGAAATAATATAAAACCATGATAAAAAATGTTTCGCAA
63 TCAAGGTTTTTAATACACAAAAAATCATGAAATAATATAAAACCATGATAAAAAATGTTTCACAA
***
17310961 AAAATCGACATTGGA
128 AAAATCGACATCAAA
* * ** *
17310976 AAGGTTAAATTACAAAAACACTTCTAAGGGTATTTTACTAATTTCGTGC-C-TTTCAAGGTGCGA
1 AAGGTCAAATTA-AAAAATACCCCTAAGGGTATTTTACTAATTT--TACACATTTCAAGGTGCGA
* * * * ** * *
17311039 TTAAGGTTTTTAATATACTAAAAATCATGGAATAATATAAAACCATGATCTAGAGTGTTTCACAA
63 TCAAGGTTTTTAATACACAAAAAATCATGAAATAATATAAAACCATGATAAAAAATGTTTCACAA
* *
17311104 AAAATTGACCTCAAA
128 AAAATCGACATCAAA
* * ** * *
17311119 AAGGTCAAATTATGAAAATACCCCTAAGGGTGTTTTGGTAATTTAACACATCTT--AGAGTGTGA
1 AAGGTCAAATTA-AAAAATACCCCTAAGGGTATTTTACTAATTTTACACAT-TTCAAG-GTGCGA
* * *
17311182 T-AAGGGTTTTTGATGCATC-AAAAATCATAAAATAATAT
63 TCAA-GGTTTTTAATACA-CAAAAAATCATGAAATAATAT
17311220 TTAAATGTGA
Statistics
Matches: 195, Mismatches: 40, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
141 1 0.01
142 6 0.03
143 163 0.84
144 23 0.12
145 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (142 bp):
AAGGTCAAATTAAAAAATACCCCTAAGGGTATTTTACTAATTTTACACATTTCAAGGTGCGATCA
AGGTTTTTAATACACAAAAAATCATGAAATAATATAAAACCATGATAAAAAATGTTTCACAAAAA
ATCGACATCAAA
Done.